Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2224
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 651981
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
File 3 of 3
Found at i:485198 original size:53 final size:53
Alignment explanation
Indices: 485115--485251 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
485105 AGATTGCATA
485115 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
485169 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* *
485222 GTATCGATACACAAAATTTGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
485252 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:485294 original size:10 final size:10
Alignment explanation
Indices: 485275--485305 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
485265 AATCTCATTT
*
485275 TCACTGTTCA
1 TCACTATTCA
485285 TCACTATTCA
1 TCACTATTCA
485295 TCACTATTCA
1 TCACTATTCA
485305 T
1 T
485306 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (10 bp):
TCACTATTCA
Found at i:485323 original size:13 final size:13
Alignment explanation
Indices: 485305--485343 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
485295 TCACTATTCA
485305 TGTATCGATACAT
1 TGTATCGATACAT
*
485318 TGTATCGATACAG
1 TGTATCGATACAT
485331 TGTATCGATACAT
1 TGTATCGATACAT
485344 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:488446 original size:476 final size:474
Alignment explanation
Indices: 487526--499748 Score: 12238
Period size: 475 Copynumber: 25.9 Consensus size: 474
487516 GGCACCATAA
* * ** * * * *
487526 ACATGAAATTGATGCTTTTGTTTCAAAAGAAAGGCTTTCTTCCCCCGAATTTTTGTATAGTCTAT
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC-AATTTTTGTAAAGTCTAA
* * * * * * *
487591 GCTCGTGCCTCAAATAAGCCAAACATTGATTCTAGAAATAATCTTAATTTATTTTGTGATTAGGC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * * * *
487656 ACTATAAACACATTCTCCTCATTAGGATAAAAGCTAATGGA-GATTTTCATTTGCATGGAAATAT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGAT-ATTGATAATTTTCTTTTGCATGGAAATCT
* * *
487720 TTTTTTTGCTCC-ATTTTCCTTATAATCAAAGTTCATCCATTAAATAAGACAAGCATCGATTCTC
194 TTTCTTTGC-CCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC
* * * *
487784 GTAACTGTCTCCATTCTTTTCAAGATT-GAAACCAAAAACACATTCCCTTTATTAGGATGCATGA
258 GTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGA
* *
487848 CATTGATGCTTTGGTGTCACAAGAAAAGCTTTTCTTTCTAACATTTTTGATAGAATCAAAGTTTG
323 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC-AACGTTTTTGATAGAATCAAAGTTTG
* * * * *
487913 TCTTTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTCTTCAGGATTAAGCATCAT
387 TCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCAT
* ** *
487978 AGACCCAGTCTTCCCATTAGGAT
452 AAACATAGTCTTCTCATTAGGAT
* * *
488001 ACATGATATTGACGCTTTGGATTCGCAAGAAAGGTTTTTTTCCAACCAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCC-ACCAATTTTTGTAAAGTCTAA
* * * * *
488066 GTTCGTGCCCCAAATGAGCCAAACATGGATTCGAGTAACGATCTTCATTTATTTTGTGATTAGTC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* ** *
488131 ACTATAAACACATTCTCCTTATTAGGATAAATGATATTGGCAATTTTCTTTTGCATGGAAATCCT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * * * * *
488196 TTCATTACCTTATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGACAAGCATAGATACTCGT
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* * * * * *
488261 AACAGTCTCTATTTTTTTCAACATTAGGAACCAAAACCACATTCCCTTTATTAGGATGCATGACA
260 AACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACA
* *
488326 TTGATGCTTTGGTGTCGCTAGAAAAGCTTTTCTTTCTAACATTTTTGATAGAATCAAAGTTTGTC
325 TTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC-AACGTTTTTGATAGAATCAAAGTTTGTC
* * * * * *
488391 -CTTTAAATAAGACAAACATGAATAGTCATACTAATCTCCATTCTCTTCAGGATTAAGCATCATG
389 TC-TTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATA
* ** *
488455 GACCCAGTCTTCCCATTAGGAT
453 AACATAGTCTTCTCATTAGGAT
* * *
488477 GCATGATATTGATGCTTTGGATTCGCAAGAAAGGC-CTTTTCCTAACCAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCC--ACCAATTTTTGTAAAGTCTA
* * * * *
488541 AGTTCGTGCCTCAAATGAGCCAAGCATGGATTCGAGTAACGATCTTCATTTA-TTTGTGATTAGT
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * * ** *
488605 TACTATAAACACATTCTCCTTATTAGAATAAATGATATTGGCAATTTTCTTTTGCATGAAAATCT
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCT
* * * *
488670 TTTCTTTACCTTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGATAAGCATAGATTCTCG
194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * *
488735 TAACAGTCTCTATTTTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGAC
259 TAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGAC
* * * * *
488800 ATTGATGTTTTAGTATCGCAAGAAAAGCTTTTCTTTCAAACTTTTTTCATAGAATCAAAGTTTGT
324 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC-AACGTTTTTGATAGAATCAAAGTTTGT
* * * * * *
488865 ATTTTAAATAAGACAAACATTAATACTCATACTAATCCCCATTCTTTTCAGGATAAGGCATCGTA
388 CTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATA
*
488930 AACATAGTCTTCTCATTAGAAT
453 AACATAGTCTTCTCATTAGGAT
* * * * * * *
488952 ATATGATACTAATGCTTTGGTTTCACCAGAAAGGCTTTTTCCCA-CAACTTTTTGTAAAGTCTAT
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACCAA-TTTTTGTAAAGTCTAA
* * * * *
489016 GTTCGTGCCACAAATGAGCCAAACATAGATTCTAGTGATGATCTTTATTCATTTTATGATTAGGC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * * * *
489081 ACAACAAACAC-TTCTCCTCATTAGGATAAATGATAATGATAATTTTCGTTGGCATGGAAATCAT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * * * * * *
489145 TTCTTTACCCTATTTTTCTTGAAATCAAAGTTCATCCTTTAAATAAGATAAGCGTCGATTCTCGA
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* ** * * * * *
489210 AACTGTCTTTATTATTTTCAAGATTAGGAACC-AAAATAGATTCCCTTCATTAGCAGT-CAAGAC
260 AACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGA-TACATGAC
* * * * *
489273 ATTGGTGCTTTAGTGTTGCAAGAAATA-CTTTT-TATTCCATA-GTTTTCGATAGAATAAAAGTT
324 ATTGATGCTTTGGTGTCGCAAGAAA-AGCTTTTCT-TT-CA-ACGTTTTTGATAGAATCAAAGTT
* * *
489335 TGTCTCTTAAATAAGGCAAACATTAATAGTCATACTAATCCTCAATCATTTT-AGGATTAGGCAC
385 TGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTC-TTTTCAGGATTAGGCAC
** *
489399 CATAAATGTAGTCTTCTCATAAGGAT
449 CATAAACATAGTCTTCTCATTAGGAT
* * *** * *
489425 ACA-CATTATTTATGCTTTGGTTTAAAAAAAGAAAAGGCTTTCTTTTCC-CTAATTTTTGTGAAG
1 ACATGA-TATTGATGCTTTGGTTT--CGCAAG-AAAGGC-TT-TTTTCCACCAATTTTTGTAAAG
* * * ** * * *
489488 TCTAAGTTCGGGCCTTAAATTAGAAAAACATAGATTCTAGTAATGATCTTTATTCATTTTGGGAT
60 TCTAAGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGAT
* * * ** * * * * *
489553 TAGGCACTATAAACCCATTCTCATCATTAGAATAAATGATATTTTTGATTTTCTATTGTACGAAA
125 TAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAA
* * * *
489618 ATCTTTTCTTTGCCCCATTTTCCTAAAAACCAGAGCTT-ATCCCTTAAATAAGACAAGCATCGAT
190 ATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAG-TTCATCCCTTAAATAAGACAAGCATCGAT
* * ** *
489682 TCTCGTAGCAATCTCCAAGCTTTTCAAAGA-TAGTGAACCTAAAACACATTCCCTTCATTAGGAT
254 TCTCGTAACAGTCTCCATTCTTTTC-AAGATTAG-GAACCAAAAACACATTCCCTTCATTAGGAT
* * * * *
489746 ACATGACATTGATGCTTTGGTTTTGC-A-AAAAGATTTTCTTTACAACGTTTTTTATAAAATCAA
317 ACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAA
* * * *
489809 AGTTTGTCTCTTAAGTAAGACAAAC----AT-G--A-A-TAATCCCCACTATTTTTAGGATTAGG
381 AGTTTGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGG
*
489865 CACCATAAAC--AGTCTTCTCATTAGAAT
446 CACCATAAACATAGTCTTCTCATTAGGAT
* *
489892 ACATGATATTGATGCTTTGGATTCCCAAGAAAGGCTTTTTTCCAACCAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCC-ACCAATTTTTGTAAAGTCTAA
* * ** * * * * *
489957 ATTCATTTCTTAAATGAGCCAAACATGGATTCTAGTAACGATCTTCATTTATTTTGTAATTAAGC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * *
490022 ACTATAAACATATTCTCCTTATTAGGATAAATGATATTGGCA-AATTGT-TTTTGGATGGAAATC
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATT-G-ATAATTTTCTTTTGCATGGAAATC
* *
490085 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCAATTCTC
193 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC
* * * * * * **
490150 ATAACAATCTCTATTTTTTTCAAGATTGGGAACCAAAAACACATTTCCTTTGTTAGGATACATGA
258 GTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGA
* * *
490215 CATTGATGCTTTGGTGTCACAAGAAAAGCTTTTCTTTCCAACCTTTTTGATAGAATCAAAGTTTA
323 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTTTG
* * * * * * *
490280 ACTTTTAAATAAGACAAACATTAATACTCATACTACTCCCCATTCTTTTCATGATAAGGCACCGT
387 TCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCAT
* *
490345 AAACATAGTCTTCTCATTCGAAT
452 AAACATAGTCTTCTCATTAGGAT
*
490368 ACATGATATTGATGCTTTGGTTTCAGC-AGAAAGG-TTTTTTCCCACAAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTC-GCAAGAAAGGCTTTTTT-CCACCAATTTTTGTAAAGTCTA
* * * *
490431 AGCTCGTGCCTCAAATGAGCCAAACATGGATTTTAGTAACT-ATCTTCATTTATTTTGCGATTAG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAA-TGATCTTCATTCATTTTGTGATTAG
** * *
490495 GACACTATAAACACATTCTCCTCATTAGGATAAATGATATTGGCAATTTTCTTTGGCGTGGAAAT
128 G-CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAAT
* * * * * *
490560 CTTGTCCTCGCCTTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGTATCGATTCT
192 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * * *
490625 CCTAACAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACA-AGTTCCCTTCATTAGGATACAC
257 CGTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACA-TTCCCTTCATTAGGATACAT
*** * * **
490689 GACATTGATGCTTCCATGTCACAAGAAAAGTTTTTCTTTCCAATTTTTTTGATAGAATCAAAGTT
321 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTT
* * * * *
490754 TATCT-TATAAATAAGACAAACATTAATACTCATACTAATCCCCTTTCATGTTCAGGATAAGGCA
385 TGTCTCT-TAAATAAGACAAACATTAATAGTCATACTAATCCCCATTC-TTTTCAGGATTAGGCA
* * *
490818 TCGTAAACATAGTCTTCTCA-TAGAAT
448 CCATAAACATAGTCTTCTCATTAGGAT
* * * * *
490844 ACATTATATTGATGCTTTGGTTTCACCAGAAAGGTTTTTTTCC-CTCAAATTTTTGTATAGTCTA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCAC-C-AATTTTTGTAAAGTCTA
* * * *
490908 AGCTCGTGCCTCAAATCAGCCAAACATGGATTCTAATAATGATCTTCATTTATTTTGTGATTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * ** *
490973 TACTATAAACACATTATCCTCATTAGGATAAATGATATTGGCAATTTTCTTTTGCAAGGAAATCT
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCT
* * *
491038 TTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGCATAGATTCTCG
194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* ** * * * * *
491103 TAACAGCCTATATTCTTTTCGAGATTGGGAACCAAAAACATATTCCCTTCATTAGGATACACGAT
259 TAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGAC
* *
491168 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCAAC-TTCTTTGATAGAATCAAAATTTT
324 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTT-TTTGATAGAATCAAAGTTTG
* * * * *
491232 TCTTTTAAATAAGATAAACATTAATACTCATACTAAT-CCCATTCTTTTCAGGATAAGGCACCGT
387 TCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCAT
* *
491296 AAACATAGTCTTCTCTTTAGAAT
452 AAACATAGTCTTCTCATTAGGAT
* * **
491319 ACATGATATTGATGCTTTGGTTTCACTAGAAAGGCTTTTTTCCAATAAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCC-ACCAATTTTTGTAAAGTCTAA
* * * * *
491384 GTTCGTGCCAT-AAATGTGCCAAATATAGATTCTAGTAATGATCTTTATTCATTTTCTGATTAGG
65 GTTCGTGCC-TCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
*
491448 CA-TGATAAACACATTCTCCTCATTAGGATAAATGATAATGATAATTTTCTTTTGCATGGAAATC
129 CACT-ATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATC
* * * *
491512 TTTTTTTTGCCCTATTTTCCTTGAAATCAAAGTTCATCCCTTAAATAAGATAAGCATCGATTCTT
193 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC
* * * * * *
491577 GAAACTA-TCTCCATTCTTTTGAAGATTAGGAACCAAAAACAAATTCCCTTTATTAGGAGACAAG
258 GTAAC-AGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATG
* * * * * ** * * * *
491641 GCTTTGGTGCTTTAGG-GCCACAAGAAATTCTTTT-TATACCATA-GTTTTCGTTAGAATAAAAG
322 ACATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTCT-T-TCA-ACGTTTTTGATAGAATCAAAG
* * *
491703 TTTGTCT-TTCAAATAATG-CAAACATTAATAGTCATATTAATCCTCATTCATTTCAGGATTAGG
383 TTTGTCTCTT-AAATAA-GACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGG
* * * * *
491766 CACCATAAGCGTATTCTTCTTATAAGGAT
446 CACCATAAACATAGTCTTCTCATTAGGAT
* * * **
491795 ACATGATATTGAAGCTTTGGTTTTGAAAGAAAGGCTTCCTTCC-CCTTAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC--AATTTTTGTAAAGTCTA
* * * *
491859 AGTTTGTGCCTCAAAT----------T-GATTCTAGTAATGAGCTTTATTCATTTTGTAATTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* ** * *
491913 CACTATAAACCCATTCTCCTCATTAGGATAAATGATATTTTTAATTTTCTTTTGTACT-AAAATC
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCA-TGGAAATC
** * * *
491977 TTTTCTTTGCCCTATTTTCCAAAAAATCAGAGCTCATCCCTTAAATAAGACGAGCATCGATTCTC
193 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC
** ** * * *
492042 GTCGCAGTCTCCAACCATTTCAAAGA-TAGTGAACCAAAAACAAATTCCCTTTATTAGGATACAT
258 GTAACAGTCTCCATTCTTTTC-AAGATTAG-GAACCAAAAACACATTCCCTTCATTAGGATACAT
* * * * *
492106 GACATTGATGCTTTGGTTTTGC-A-AAAAGCTTTTCTTTGCAACGTTGTTGACAAAATCAAAGTT
321 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTT
* * *
492169 TGTCTCTTAAATAAGACAACCATGAATAGTCATACTAATCCCCATT-TGTTTTAGGATTAGGCAC
385 TGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCT-TTTCAGGATTAGGCAC
**
492233 CATAAACACGGTCTTCTCATTAGGAT
449 CATAAACATAGTCTTCTCATTAGGAT
* * * * *
492259 ACATGATATTGATGCTTTAGATTCGCAAGAAAGGGCTTTTTTCCAACCATTTTTTATAAAGTGTA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAA-GGCTTTTTTCC-ACCAATTTTTGTAAAGTCTA
* * * * * *
492324 AGTTCGTGCCTTAACTGAGCTAAACGTGGATTCTAGTAACGATCTTCATTTATTTTGTGATTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* ** *
492389 -AGTGCTATAAACACATTCTCCTCCTTAGGATAAATGATATTGGCAATTTTCTTTTGCATGAAAA
129 CA---CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAA
* * * * * *
492453 TCGTTTATTTGCCTTATTTTCCTTTAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATCGATTC
191 TCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTC
* * * * *
492518 TCGTAACAGTCGCTATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTCCAATAGGATACAT
256 TCGTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACAT
* * * *
492583 GACATTGATACTTTGGTGTCACAAGAAGAGCTTTTCTTTCCAA-GTTTTTTGACAGAATCAAAGT
321 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACG-TTTTTGATAGAATCAAAGT
* * * * * * * * *
492647 TTATCTTTTAAATAAGATAAACAATAATACTCAGACTAATCCCCATTCTTTTCAAGATAAAGCAC
384 TTGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCAC
** ** * *
492712 TGTAAATGTAGTCTTCTCGTTAGAAT
449 CATAAACATAGTCTTCTCATTAGGAT
* * * * *
492738 ACATGATATTGATTCTTTGGTTTCACCAA-AAAGGCTTTTTCCCCACAAATCTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTC-GCAAGAAAGGCTTTTT-TCCACCAATTTTTGTAAAGTCTA
* ** * * * * *
492802 TGTTCGTGCCAAAAAT-ATGCCAAACATAGATTCTAGGAATGATCTTTATTCCTTTTCTGATTAG
64 AGTTCGTGCCTCAAATGA-GCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
* * * * * * *
492866 GCACGATAAACACATTCTCCTCATTAGGATAAATGATAATGACAATTTCCTTCTACGTGGAAATC
128 GCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATC
* * * *
492931 TTTTCTTTGTCCTATTTTCCTTGAAATCAAAGTTCATCCCTTAAATAAGATAAGCATCAATTCTC
193 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC
* * * * * *
492996 GAAACAGTCTCCATTCTTTTCAAGA-TAGGGAACCAAAACCAGATTCCCTTCATTAGGAGAAAGG
258 GTAACAGTCTCCATTCTTTTCAAGATTA-GGAACCAAAAACACATTCCCTTCATTAGGATACATG
* * ** * * *
493060 ACATTGGTGCTTTAGG-GTCACAAGAAATTCTTTTCATTTC-ACAATTTTCGATAGAATAAAAGT
322 ACATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTC-TTTCAAC-GTTTTTGATAGAATCAAAGT
* * * * * * * *
493123 TTGTCTCTCAAATGAGGCAAACATTAATAGCCATACTAATCCACATTCATTTCAAGATTAGGCCC
384 TTGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCAC
* ** *
493188 CAAAAATGTAGTCTTCTCATAAGGAT
449 CATAAACATAGTCTTCTCATTAGGAT
* * * *
493214 ACA-AATATTGATGCTTTAGTTTCGAAAGAAAGGCTTTTTTCCCCCTAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC-AATTTTTGTAAAGTCTAA
*
493278 ATTCGTGCCTCAAATGAGCC-AA-AT--A---T-G----GAT-TT--TTC------TGATTAGGC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * * * *
493322 ACTATAAACACCTTCTCCTCATTAAGATGAATGATAATGATAATTTCCTTTTGCATGAAAATCTT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * * * * *
493387 TTCTTTGTCCTATTTTCCTTGAAATTAAAGTTCAACCCTTAAATAAGATAAGCATCGATTCTCGA
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* * * * * *
493452 AACAGTCTCTATTCTTTTCAAGATAAGGAACC-AAAACTAGATTCCCTTCATTAGGAGATAAGAC
260 AACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAAC-ACATTCCCTTCATTAGGATACATGAC
* * * * * * *
493516 ATTGGTGCTTTCGAGTCGTAA-AAAATTCTTTTCATTCCATA-GTTTTTGATAGAATAAAAGTTT
324 ATTGATGCTTTGGTGTCGCAAGAAAA-GCTTTTC-TTTCA-ACGTTTTTGATAGAATCAAAGTTT
* * * * * *
493579 GTCTCTTAAATAAGGCAAACATTAATAGCCATACTAATCCACATTCATTTCAAGATTAGGCCCCA
386 GTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCA
* ** * *
493644 AAAATGTAGTCTACTCATAAGGAT
451 TAAACATAGTCTTCTCATTAGGAT
* * * *
493668 ACA-GATATTGATGCTTTAGTCTCGAAAGAAAGGCTTTTTTCCCCCTAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC-AATTTTTGTAAAGTCTAA
* * * *
493732 ATTCGTGCCTCAAATGAGCCAAATATGGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGGA
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * * *
493797 ACTATAAACACCTTCTCCTCATTAGGATGAATGATAATGATAATTTCCTTTTGCATGAAAATCTT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * * * * *
493862 TTCTTTGTCCTATTTTCCTTGAAATTAAAGTTCAACCCTTAAATAAGATAAGCATCGATTCTCGA
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* * * * * * * *
493927 AACAGTCTCTATTCTTTTCAAGATAAGGAACCAAAACCAGATTCCCTTCATTTGGAGATAAGACA
260 AACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACA
** * * *
493992 TTGGGGCTTTCGG-GTCGCAA-AAAATTCTTTTCATTCCATA-GTTTTTGATAGAATAAAAGTTT
325 TTGATGCTTT-GGTGTCGCAAGAAAA-GCTTTTC-TTTCA-ACGTTTTTGATAGAATCAAAGTTT
* * * * * * *
494054 GTCTCTTAAATAAGGCAAACATTAATAGCCATACTAATCCACATTCATTTCAAGATTCGGCCCCA
386 GTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCA
* * *
494119 AAAACGTAGTCTTCTCATAAGGAT
451 TAAACATAGTCTTCTCATTAGGAT
* * * *
494143 ACACGATATTGATGCTTTGGTTTCGAAAGAAAGGCTTTCTTCCCCCTAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC-AATTTTTGTAAAGTCTAA
* * *** * *
494208 GTTCGTACCTCAAATAAAAGAAACATGGATTCTAGTAATGATCTTTATTCATTTTGTGATTAGGT
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * ** * * * *
494273 ACTATAAACCCATTCTCTTCGTTAGGATAAATGATATTTTTTATTTCCTTTTGTA-CGAAA----
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* *
494333 ----AT---C--TTTT-C-------C----TT-A-CCCTTAAATAAGACAAGCATCGATTCTCAT
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* ** * * * * *
494375 AGCAGTCTCCAAGCCTTGCAAGGTTAGTGAACCAAAAACACATTCCCTTC-TTAAGGGTACTTGA
260 AACAGTCTCCATTCTTTTCAAGATTAG-GAACCAAAAACACATTCCCTTCATT-AGGATACATGA
* * *
494439 CATTGATGCTTTGGTGTCGC-A-AAAAGCTTTTCTTTGCAACGTTTTTAATAAAATCAAAGTTTA
323 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTTTG
* * * * *
494502 TCTCTTAAATAAGATAAAC-TTGAATAGTCATACTAATCCCCATTGTTTTTAGGATTAGGTACGA
387 TCTCTTAAATAAGACAAACATT-AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCA
*
494566 TAAACACAGTCTTCTCATTAGGAT
451 TAAACATAGTCTTCTCATTAGGAT
* * * *
494590 ACATGATATTAAAGCTTTGGATTCACAAGAAAGGCTTTTTTCCAACCAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCC-ACCAATTTTTGTAAAGTCTAA
* * * * * * * *
494655 ATTCATGCCTTAAATGAGCCAAACATGGATTCTAGTAACGACCTTCTTTTATTTTGTGACTAGGC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * **
494720 ACTATAAACACATTCTTCTCAATAGGATAAATGATATTGGCAATTTTCTTTTGCATGGAAATCTT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * * **
494785 TTCTTTGCCATGTTTTCC-T-ATATCAAAGTTCATCCCTTAAATAAGACAAGTGTCGATTCTCGT
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* * * * * *
494848 AATAGTCTCTATTCTTTTCAAGATTGGGAACCAAAAACATATTCCGTTCATTAGGATACATAACA
260 AACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACA
* * * * * *
494913 TTGATACTTTAGTGTTGCAAGAAAAGCTTTTCTTTCTAACTTTTTTGGTAGAATCAAAGTTTATC
325 TTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC-AACGTTTTTGATAGAATCAAAGTTTGTC
* ** * * * * **
494978 TTTTAAATAAGGGAAACATTAATACTCAAACTAATCCCCATTCTTTTCAAGA-TAGGGAACCGCA
389 TCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTA-GGCACCATA
*
495042 AACATAGTCTTCTCATTAGAAT
453 AACATAGTCTTCTCATTAGGAT
* * * * *
495064 ATATGATATTGATGCTTTGGTTTCACCAGAAAGGCTTTTTCCCACAAATTTTTGTAAAGTCTAAG
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACCAATTTTTGTAAAGTCTAAG
* * * * *
495129 CTCGTGCCACAAATGAGCC-AACATAGATTCTAGTAATGATCTTTATTCATTTTTTGATTAGGCA
66 TTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* * * * * * *
495193 CGATAAACACATTCTCCTTATTAGGATAAATGATAATGATAA-TGTCCTTTGGATAGAAATCTTT
131 CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTT
* * * * *
495257 TCTTTGCCCTATTTTCCTTGAAATTAAAATTCATCCCTTAAATAAGATAAGCATCGATTCTCGAA
196 TCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTA
* * * * * *
495322 ATAGTCTCCATTCTTTTCAAGATT-GAGAACCAATAATAGATTCCCTTCATTAGGAGACAAGACA
261 ACAGTCTCCATTCTTTTCAAGATTAG-GAACCAAAAACACATTCCCTTCATTAGGATACATGACA
* ** * *
495386 TTGGTGCTTTAGG-GTCGCAAGAAATTCTTTTCATTTC-ACAGTTTTTGATAGAATAAAAGTTTA
325 TTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTC-TTTCAAC-GTTTTTGATAGAATCAAAGTTTG
* * * ** * * * *
495449 TCTCTTAAATAAGGCAAACATTAATAGCCATACTAATGCAGATTCGTTTCAAGATTAGGCCCCAA
387 TCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCAT
* *
495514 AAACGTAGTCTTCTCATAAGGAT
452 AAACATAGTCTTCTCATTAGGAT
* * *
495537 ACATGATATTGATGCTTTGGTTTCGAAAGAAAAGGCTTTCTTCCCCCTAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTCGCAAG-AAAGGCTTTTTTCCACC-AATTTTTGTAAAGTCTA
* * * * * *
495602 AGTTCGTGCCTCAAATGAGACAAACATGGTTTCTAGTAATAATCTTTATTCATGTTATGATTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * * ** * * * *
495667 CATTATGAATC-CATTCT--TCTTGTAGGATAAATGATATTCTTTATTCTCTTTTGCACGAAAAT
129 CACTAT-AAACACATTCTCCTCAT-TAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAAT
* * * * * *
495729 CTTTTTTTTGCCGTATTTTCCTAAAAATCAGAGCTCATCGCTTAAATAAGACAAGCATCGATTCT
192 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * ** * * *
495794 CGTAGCAGCCTCCAAGCTTTTCAAAGATT-GTGAACCAAAAGCACATTCCCTTCATTAGTATTCA
257 CGTAACAGTCTCCATTCTTTTC-AAGATTAG-GAACCAAAAACACATTCCCTTCATTAGGATACA
* * * * * *
495858 TCACATTGATGCTCTAGTGTCGC-A-AAAAGCTTTTCTTTGCAATGTTTTTGATAGAATCAATGC
320 TGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGT
* * * *
495921 TTGTCT-TT---TAA-AC--A-A--GA-AGCCATACTAATCCCCATTGTTTTTAGGATTAGGCAC
384 TTGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCAC
* *
495975 TATAAACACAGTCTTCTCATTAGGAT
449 CATAAACATAGTCTTCTCATTAGGAT
* * *
496001 ACATGATATTGCTGCTTTAGATTT-GTAAGAAAGG-TTTTTTCCAACCAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTT-GGTTTCGCAAGAAAGGCTTTTTTCC-ACCAATTTTTGTAAAGTCTA
* * * ** * * *
496064 AATTCATGCCTCAAATGAGCCAAACATGGATTCCAGTAACAATTTTCATTTATTTTGTGACTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * ** *
496129 CACTATAAACACATTCTCCTCAATAGGAAAAATGATATTGGCAATTTTATTTTGCATGGAAATCT
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCT
* * *
496194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACAAGCGTCAATTCTCG
194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * * * *** *
496259 TAACAGTCTCTATTCTTTTCAAGATTGGGAACCGAAAACATATTCTGATCACTAGGATACATGAC
259 TAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGAC
* * * *
496324 ATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCTTTCCAA-ATTTTTTATTAGAATCAAAGTTTA
324 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGA-TAGAATCAAAGTTTG
* * * * * * * * **
496388 TCTTTTAAAAAAGACAAGCATTAATACTCTTACTAATCTCCATTCTTTTAAGGATAAGGCACTGT
387 TCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCAT
** *
496453 AAACATAGTCTTCTCACAAGAAT
452 AAACATAGTCTTCTCATTAGGAT
* * *
496476 GCATGATATTGATGCTTTGGTTTCACCAGAAAGGC-TTTTTCC-CCTAAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC--AATTTTTGTAAAGTCTA
* * * * * *
496539 AGTTCGTGTCACAAATGAGCCAAACATAGATTCGAGTAAAGATCTTTATTCATTTTCG-GATTAG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTT-GTGATTAG
* * *
496603 GCA-TGATAAACACATTTTCCTCATTAGGATAAATGATAATGATAATTTCCTTTTGCATGGAAAT
128 GCACT-ATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAAT
* * * *
496667 CTTTTCTTTTCCCTATTTTCCTTGAAATCAAAGTTCATCCCTTAAATAAGATAAGTATCGATTCT
192 CTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * * * *
496732 CGAAACAGTCTCCATT-TTTTCAAGATTAAGAACCAAAAACAGATTCCCTTCATTAGGAGACAAG
257 CGTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATG
* * * ** * *
496796 ACATTGGTGATTTAAG-GTCGCAAGAAATTCTTTTCATTTC-ACAGTTTTTGATAGAATAAAAAT
322 ACATTGATGCTTT-GGTGTCGCAAGAAAAGCTTTTC-TTTCAAC-GTTTTTGATAGAATCAAAGT
* * * *
496859 TTGTCTCTTAAATAAGGCAAACATTAATAGTCATACTAATCCTCATTCATTACAGGATTAGGCAC
384 TTGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCAC
* *
496924 CATAAACATAGTCTTCTCATAATGAT
449 CATAAACATAGTCTTCTCATTAGGAT
** * ** * * *
496950 ACACAATATTGATGCTTTGATTTCGGGAGTATGGCTTTCTTCC-CCTTAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACC--AATTTTTGTAAAGTCTA
* * * * * *
497014 AGTTTGTGCCTCAAATGAGACAAACATGGAATCTAGTAATCATCTTTATTCATTTTGTAATTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * ** * * * *
497079 CACTATAAAC-CCTTCTCCTCGTTAGGATAAATGATATTTTTTATTTTCTTTTGTACGAAAATCT
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCT
* * * * * ** * * *
497143 TTTCTTTGCCCTATGTTCCTAAAAATTAGAGCTCATCCCTTAAATAAGATGAGCAAT-GCTTTTT
194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGC-ATCGATTCTC
* * ** * * *
497207 GTAGCAGTGTCCAAGCTTTTCGAAG-GTAGTGAACCAAAAACACATTCCGTTTATTAGGATACAT
258 GTAACAGTCTCCATTCTTTTC-AAGATTAG-GAACCAAAAACACATTCCCTTCATTAGGATACAT
* * * * *
497271 GACATTGATGCATTGGTGTCAC-A-AAAAGCTTTTCTTTGCAATGTTTTTGATAAAATTAAAGTT
321 GACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTT
* * *
497334 TGTCTCTTAAATAAGACAAACATGAATAGTCATAC-ACATCCCCATTCTTTTAAGGATTGGGCAC
385 TGTCTCTTAAATAAGACAAACATTAATAGTCATACTA-ATCCCCATTCTTTTCAGGATTAGGCAC
*
497398 CATAAACATAGTCTTCTCGTTAGGAT
449 CATAAACATAGTCTTCTCATTAGGAT
* * * * * *
497424 ATATGATTTTGATGCTTTGGTTTTGCAAGAAAGTCTTTTCTCCCACCAATTTTTGTAAAGTCCAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTT-TTCCACCAATTTTTGTAAAGTCTAA
** * * * *
497489 GTTTTTGCCTCAAATGAGACAAACACGGGTTCTAGTAATGATCTTCGTTCATTTTGTGATTAGGC
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * ** * * *
497554 ACTCTAAACACATTCTCCTCGTTAGGATAAATGATATTTTTGATTTTCTTTTGCACGAAAATCTT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * *
497619 TTCTTTGCCCTATTTTCCTTAAAATC-AATTCTCATCCCTGAAATAAGACAAACATCGATTCTCG
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGT-TCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * ** * * *
497683 TAGCAATCTCCAAGCTTTTCAAAGATT-GTGAAGCAAAAACACTTTCCCTTCGTTAGGATACATG
259 TAACAGTCTCCATTCTTTTC-AAGATTAG-GAACCAAAAACACATTCCCTTCATTAGGATACATG
* * * *
497747 ACATTGATGCTTTGGTGTCGC--GAAAGGCTTTTTTTTGCAACGTTTTTGATAGAATTAAAGATT
322 ACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTTT
* * * * ** * *
497810 GACTCTTAAATAAGACACACCTGAATAGTCATACTAATCCTTATTCGTTTT-AGGATTAGGAACA
386 GTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTC-TTTTCAGGATTAGGCACC
* * * *
497874 ATAAACATAATCGTCTCATAAGGAC
450 ATAAACATAGTCTTCTCATTAGGAT
* * * * *
497899 ACATAATATTAATGCTTTGGTTTCGCAAGAAAAGCTTTCTTCCCCTCAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCAC-CAATTTTTGTAAAGTCTAA
* * * * *
497964 GTTCGAGCCTAAAATGAGCCAAACATGGATTTTAGTAATGATCTTCATTCAATTTGTGATTAGGG
65 GTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGC
* * * * * * * *
498029 AATATAAACAAATTCTCCTCATTAGGATAAATGATACTGATGATTTTCTTTTTCTTTGAAATATT
130 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTT
* * * * **
498094 TTCTTTGGCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGTCAAGCATCAATTCTCAA
195 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
* * * * ***
498159 AATAGTCTCCATTCTTTTCAAAATTGGGAACCAAAAACACCTTTTTTTCATTAGGATACATGACA
260 AACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACA
* * * *
498224 TTAATGATTTGGTGTCGTAAGAAAAGCTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTATC
325 TTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTTTGTC
* * * ** *
498289 TCTTAAATATGACAAACATGAATTGTCATACTAATCCCCATTCTTTTTGGGATTAAGCACCATAA
389 TCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAA
*
498354 ACACAGTCTTCTCATTAGGAT
454 ACATAGTCTTCTCATTAGGAT
* * * * * *
498375 GCATGATATTGATGATTTAGATTCTCAAGAAAGGCTTTTTTCTAACCAATTTTTGTAAAGTCTAA
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTC-CACCAATTTTTGTAAAGTCTAA
* * *
498440 GTTCGTGCCTCAAAT-ATGGCAAACATGGATTTTAGTAATGTTCTTCATTCATTTTGTGATTAGG
65 GTTCGTGCCTCAAATGA-GCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * * * ** * *
498504 CACTACAAACACGTTCTTCTCATTAGGATAAAAGATATTGACGATTTTCTTTTACATGAAAATCT
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCT
* **
498569 TTTCTTTGCCCTATTTTCCCTAAAATCAAAGTTCA-CCCTTAAATAAGACAAGCATCGATTCTAA
194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * * *
498633 TAACAGTCTCCATTCTCTTT-AAGATTGGGAACCAAAAACATATTGCCTTCAATAGGATACATGA
259 TAACAGTCTCCATTCT-TTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGA
* * * *
498697 CATTGATGCTTTGGTGTAGTAAGAAAAGCTTTTCTTTCTAACTTTTTTTGACAGAATCAAAGTTT
323 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC-AAC-GTTTTTGATAGAATCAAAGTTT
* * *** * * *
498762 GTCT-TTAAAATAAGGCAAACATTAATACTCATACTAATCTTTATTCTTTTTAGGATAAGGCACT
386 GTCTCTT-AAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACC
* * *
498826 GTAAACATAGTCTTCTCATTTGAAT
450 ATAAACATAGTCTTCTCATTAGGAT
* * * * *
498851 ACATGGTATTGATGCTTTGGTTTCGCTAGAAAGGCTTTTTCCCACAAATTTTTGTTAAGTCTAAG
1 ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACCAATTTTTGTAAAGTCTAAG
* * * *
498916 TTCGTGCCTCAAATTAGCCAAACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGACA
66 TTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
* * * *
498981 CTATAAACACATTCTTCTCATTAGGATAAATGATAATGATAATTTCCTTTTGCATAGAAATCTTT
131 CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTT
*** * * * * * * *
499046 TCCCAGCCCTATTTTTCTTGAAATCATAGTTCATCCCGTAAATAAGACAAACACCGATTCTCATA
196 TCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTA
* * * * * * * *
499111 ATAGTCTCAATTTTTTTCATGATTGGGAACCAAAAACACATTCCCTTCATTAAGAGACATGGCAT
261 ACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACAT
* * ** * * * * *
499176 TGGTGCTTTAGG-ATCGCAAGAAATTCTTTTCATTCCACAGTTTTCGATAAAATAAAAGTTTGTC
326 TGATGCTTT-GGTGTCGCAAGAAAAGCTTTTCTTTCAAC-GTTTTTGATAGAATCAAAGTTTGTC
* *** * * ** *
499240 TCTTAAATAAGATATTTATTAATAGTCATACTAATCCCTATTCCTTTCAGGATTAATCACCGTAA
389 TCTTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAA
*
499305 ACATAGTCTTCTCATAAGGAT
454 ACATAGTCTTCTCATTAGGAT
* * ** *
499326 ACAGGATATTGATG-TCTTGGTCTCTTAAGAAAGGCTTTTTTTCTACCAATTTTTGTAAAGTCTA
1 ACATGATATTGATGCT-TTGGTTTCGCAAGAAAGGC-TTTTTTCCACCAATTTTTGTAAAGTCTA
** **
499390 AGTTTATGCCTCAAATGAGCCAAACACAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
64 AGTTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * * * * * * * *
499455 CACTATAAACACCTTTTCCTCATTAGAATAAATGATACTGATGATTTTGTTTTGCTTGAAAATAT
129 CACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCT
* * * *
499520 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTAATCCCCTAAATAAGACAAGCATCAATTCTTG
194 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * ** ** * * *
499585 CT-TCTGTCTCCAAGCTTTTCAAAGA-CGGGAACC-AAAGCATATTCCTTTCATTAGGATACATG
259 -TAACAGTCTCCATTCTTTTC-AAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATG
* * *
499647 ACATTAATGCTTTGGTG-CAGC-AG-AAAGCTTTTCTTTGCAACATTTTTGATAAAATCAAAGTT
322 ACATTGATGCTTTGGTGTC-GCAAGAAAAGCTTTTCTTT-CAACGTTTTTGATAGAATCAAAGTT
* * *
499709 TATCTCTTAAATAA-A-AAAAATGAATAGTCATACTAATCCC
385 TGTCTCTTAAATAAGACAAACATTAATAGTCATACTAATCCC
499749 TAGTATTTAG
Statistics
Matches: 9825, Mismatches: 1629, Indels: 592
0.82 0.14 0.05
Matches are distributed among these distances:
446 5 0.00
447 244 0.02
448 61 0.01
449 41 0.00
450 2 0.00
453 8 0.00
454 394 0.04
455 3 0.00
456 4 0.00
458 1 0.00
460 3 0.00
461 9 0.00
462 151 0.02
463 181 0.02
464 424 0.04
465 267 0.03
466 54 0.01
467 41 0.00
468 9 0.00
469 34 0.00
470 2 0.00
471 61 0.01
472 127 0.01
473 531 0.05
474 1012 0.10
475 2868 0.29
476 2425 0.25
477 317 0.03
478 358 0.04
479 143 0.01
480 45 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (474 bp):
ACATGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCACCAATTTTTGTAAAGTCTAAG
TTCGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA
CTATAAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTT
TCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTA
ACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACAT
TGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCAACGTTTTTGATAGAATCAAAGTTTGTCTC
TTAAATAAGACAAACATTAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAAC
ATAGTCTTCTCATTAGGAT
Found at i:500823 original size:474 final size:473
Alignment explanation
Indices: 499789--503222 Score: 3460
Period size: 474 Copynumber: 7.2 Consensus size: 473
499779 TTCTACCAAC
* * ** * * *
499789 TTTTGTAAAGTCTAAGTTCGTGCCTCAAATTAGAGAAACAAGGACTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * **
499854 ATTCTATGATTAGGCACTATAAACACATTCTCCAT-ATTAGGATAAAAGATATTGATGATTTTC-
66 ATTTTGTGATTAGGCACTATAAACACATTCTCC-TCATTAGGATAAAAGATATTGGCGATTTTCT
* * * *
499917 TTTGCATGGAAATCA-TTTCTTTGCCCTATTTTCATTAAATTCAATG-TCTATGCCTTAAAAAAT
130 TTTGCATGGAAAT-ATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTC-AT-CCTTAAAAAAG
* ** * * * *
499980 ACAAGAATCGATTCTCGTAACAATAACTATTCTTTTCAATATTGAGAACCAAAATCACATTCCCT
192 ACAAGCATCGATTCTCGTAAC-ATCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCT
* * * * * * *
500045 TCATTAGGATAAAGGACATTGATGCTTTGAGGTCGCAGGAAACGCTTTTCTTTCCACCAATTTTG
256 TCATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTG
* ** * * ** * * **
500110 ATAGAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACAGTCAGACTTAT-CGTATTTCTTT
321 ATAGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCA-TTCTTT
* * * * *** *
500174 TTAAGATTAGGCACTATAAACATAGTCTTCTCATAAGGACACATGATATTGGTGCTTTGATTTCG
385 TCAAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTC-
500239 A-AAGAAAGGCTTTCTTGTCCCT--AAT
449 ACAAGAAAGGC-TT-TT-TCCCTCAAAT
* * * * *
500264 TTTTGTAAAGTCTGAGTTCATGCCTCAAATGAGCTAAAGGTTGATTCTAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * * ** * *
500329 ATTTTGTGATTATG-ACTATAAACATAATCTCCTTTTTAGGATAAAAGCTATTGGCAATTTT-TT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
*
500392 TTGCATGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAAAAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC-TTAAAAAAGACA
*
500457 AGCCTCGATTCTCGTAACGATCTCCATTCTTTTCCAA-ATTGGGAACCAAAAACACATTCCCTTC
195 AGCATCGATTCTCGTAAC-ATCTCCATTCTTTT-CAAGATTGGGAACCAAAAACACATTCCCTTC
* *
500521 ATTAGGACACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCACTTTTGAT
258 ATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGAT
* *
500586 AGAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTCTCATACTAATCCCCATTCTTTTCA
323 AGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCA
* * * *
500651 AGATTAGGCACCGTAAACATAGTCTTCTCATTCGAATACATGATATTGACACTTTGGTTTCACTA
388 AGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACAA
* *
500716 GAAAAGCTTTTTCCTTCAAAT
453 GAAAGGCTTTTTCCCTCAAAT
* * *
500737 TTTTATAAAGTCTAAGTTCATGCCTCAAATGGGCCAAAGATAGATTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * *
500802 ATTTTGTGATTAGGCACTATAAATACATTCTCCTCCTTAGGATAAAAGATATTGACGATTTTCTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * * *
500867 TTGCATGGAAATCTTCTTTGCCTTATTTTCCTTTGATTTTCTTTTGCATGGAAATCTTCTTTGCC
131 TTGCATGGAAAT-AT-TTT--C---TTTGCC-CT-ATTTTC-CTT--A---AAA-----------
* * * * *
500932 TTATTTTTCTTACAATCAAAGTTCATCCCTTAAATATGGCAAGCATCGTTTCTCGTAATAGTCTC
170 ---------------TCAAAGTTCAT-CCTTAAAAAAGACAAGCATCGATTCTCGTAACA-TCTC
* * * *
500997 CTTTCTTTTAAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATCCATGACATTAATGCTT
218 CATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTT
** * * * * * * *
501062 TGGGGTTGCAAGAAATGCTTCTCTTTTCACCATTTTTGATAGAATCAAAATTTGTCTCATGAATA
283 TGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTTTCTTAAATA
* * * * * * *
501127 AGAAAAACATTAA-TGTCAGACTAATCCCCATTTTTTTTAGGATTAGGCACCGTCAACATAGTTT
348 AGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAACATAGTCT
* *
501191 TCTCATTTGGATACATGATATTGACACTTTGCTTTCACAAGAAAGGCTTTTTCCCTCAAAT
413 TCTCATTAGGATACATGATATTGACACTTTGGTTTCACAAGAAAGGCTTTTTCCCTCAAAT
* * * *
501252 TTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAGATGGATTATAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
** * * * *
501317 ATTTTGT-ATTAGGCACTATAAACATGTTCTTCTAATTAGGATAAATA-ATATTGGCCATTTTTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAA-AGATATTGGCGATTTTCT
* * * * *
501380 TTTGTATGGAAATATTTTCTTTGCCATATTTTCTTTAAAATTAAAGTTTATCCCTTAAATAAA-A
130 TTTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCTTAAA-AAAGA
* * * * * ** * *
501444 GCAAGCATCGATTCTCATAGCCGTCACCAATCTTTTCAAGATTAAGAACCAAAAACTCATTTCCT
193 -CAAGCATCGATTCTCGTA-ACATCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCT
* * * * * *
501509 TTATTAGGATACATGGCATTGATGCTTTGGTGTCACAAGAAAATCTTTTCTTTCTAACATTTTTG
256 TCATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTG
* * * * ** *
501574 ACAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCACATTCTTTT
321 ATAGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTT
* * * * * * * * ** ** * **
501639 CCAGATTGGGCACCATAAGCATGGTTTTCTCGTTAGGATAAACGATATCAATGCTTTCGTTTTGC
386 CAAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCAC
* * *
501704 AAGAAAGGTTCTTTTCCCACCAAT
451 AAGAAAGGCT-TTTTCCCTCAAAT
* * * * * * * * *
501728 TTTTGTAATGTCTAAGTCCGTACCTCAAATAAGCAAAACATGGATTCTAGTAATAATCTTCAATC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* **
501793 ATTTTATGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGAAGATTTTCTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * ** * * *
501858 TCGCTTGGAAACCTTTTCTTTGCCCTATTTTCCTTGAAATCAAAGTTCGTACCTTAAATAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCTTAAAAAAGACA
* * ** * * *
501923 AGCATCGATTCTTGTAACAGTCTCCATTCTTTCCAAGATTTAGAACTAAAAGCACATTCCTTTCA
195 AGCATCGATTCTCGTAACA-TCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCA
* * ** * * * ** * * *
501988 TTAAGATACATGACATTGATGCTTTGGTGTCGTAAAAAAAGTTTTTCTTTTCGTCGTTTTTTATG
259 TTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATA
* ** * * *
502053 GAATCAACGTTTGTCTCTCTT-AA-AA-AAAAACAAGAATAGTCATACTAATCCCTATTCTTTTT
324 GAATCAAAGTTTGT-T-TCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTC
* * * * * * *** * *
502115 AAGATTAGGCACTATAAACATAATTTTCTCATAAGGGTACACGATATTGATGTTTTGCTTTCTCA
387 AAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACA
* *
502180 AGAAAGGCTTTTCTTCCCCCTAAT
452 AGAAAGGC-TTT-TTCCCTCAAAT
** * *
502204 TTTTGTAAAGTCTAAGTTCATGCCAAAAATGAGCCAAACATGGATTCTAGTAATGATTTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * * ** *
502269 ATTTTGTGGTTTGGCACTATAAATACATTCTCCTCATTAGGATAAAAGATATTAACGATTTTCTC
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * *
502334 TTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC-TTAAAAAAGACA
* * *
502399 AGCATCGATTCTCGTAATAGTC-CCAATTCTTTTAAAGATTGGGAACTAAAAACACATTCCCTTC
195 AGCATCGATTCTCGTAACA-TCTCC-ATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTC
* * * * * *
502463 ATTAGGATACATGAGAGTAATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACCATTTTTGAT
258 ATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGAT
* * * * *
502528 ATAATTAAAATTTGTTTCTTAAATAAGACAAACATTAATTGTCATGCTAATCCCCATTCTTTTCA
323 AGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCA
* * * * * * *
502593 GGATTAGGCATCGTCAACATAGTCTTCTCATTCA-GATACATGATATAGACACTGTAGTTTCACA
388 AGATTAGGCACCATAAACATAGTCTTCTCATT-AGGATACATGATATTGACACTTTGGTTTCACA
502657 AGAAAGGCTTTTTCCCTCAAAT
452 AGAAAGGCTTTTTCCCTCAAAT
* * *
502679 TTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * * * *
502744 ATTTTGTAATTAAGCACTATAAACACGTTCTCCTCATTAGGATAAATGATATTGGTGATTTTCTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * * * * * *
502809 TTGCACGAAAATCTTTTCTTTACCCTATTTTTCTTAAAATCAACGTTCATCCCTTAAATAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCTTAAAAAAGACA
** * * * *
502874 ATTATCGATTCTCATAACAGTCTCCGTTCTTTTCAAGATTGGGAACCAAAAACACTTTCCTTTCA
195 AGCATCGATTCTCGTAACA-TCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCA
* * *
502939 TTAGGATACATGATATTGATGCTTTAGGGTCACAAGAAAAGCTTTTCTTTCCA-CACTTTTGATA
259 TTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATA
* *
503003 GAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTGTCATACTAATCCCCAATCTTTTCAA
324 GAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCAA
* *
503068 GATTAGGCACCATAAACATAGTCTTCTCATTCA-GATAAATGATATTGACACTTTGGTTTCACTA
389 GATTAGGCACCATAAACATAGTCTTCTCATT-AGGATACATGATATTGACACTTTGGTTTCACAA
503132 GAAAGGCTTTTTCCCTCAAAT
453 GAAAGGCTTTTTCCCTCAAAT
* *
503153 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAA--ATGTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
503216 ATTTTGT
66 ATTTTGT
503223 ATTTATAGTG
Statistics
Matches: 2447, Mismatches: 434, Indels: 159
0.80 0.14 0.05
Matches are distributed among these distances:
471 4 0.00
472 18 0.01
473 98 0.04
474 682 0.28
475 532 0.22
476 493 0.20
477 182 0.07
478 5 0.00
479 1 0.00
482 5 0.00
483 1 0.00
484 6 0.00
485 2 0.00
487 1 0.00
490 3 0.00
499 3 0.00
502 1 0.00
504 3 0.00
505 6 0.00
506 1 0.00
507 5 0.00
510 1 0.00
512 3 0.00
513 1 0.00
514 57 0.02
515 168 0.07
516 163 0.07
517 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (473 bp):
TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCTTAAAAAAGACAA
GCATCGATTCTCGTAACATCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATT
AGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGA
ATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCAAGA
TTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACAAGAA
AGGCTTTTTCCCTCAAAT
Found at i:502830 original size:475 final size:475
Alignment explanation
Indices: 500901--503223 Score: 2648
Period size: 476 Copynumber: 4.9 Consensus size: 475
500891 ATTTTCCTTT
* * *
500901 GATTTTCTTTTGCATGGAAATC--TTCTTTGCCTTATTTTTCTTACAATCAAAGTTCATCCCTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
* * * * * *
500964 AATATGGCAAGCATCGTTTCTCGTAATAGTCTCCTTTCTTTTAAAGATTGGGAACCAAAAACACA
66 AATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACA
* * * *
501029 TTCCCTTCATTAGGATCCATGACATTAATGCTTTGGGGTTGCAAGAAATGCTTCTCTTTTCACCA
131 TTCCCTTCATTAGGATACATGACATTGATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACCA
* * * * * *
501094 TTTTTGATAGAATCAAAATTTGTCTCATGAATAAGAAAAACATTAA-TGTCAGACTAATCCCCAT
196 TTTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGACAAACATTAATTGTCATACTAATCCCCAT
* * * * * **
501158 TTTTTTTAGGATTAGGCACCGTCAACATAGTTTTCTCATTTGGATACATGATATTGACAC-TTTG
261 TCTTTTCAAGATTAGGCACCATAAACATAGTTTTCTCATTCAGATACATGATATTGACACTTTTG
*
501222 CTTTCACAAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCC
326 -TTTCACAAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGCC
* ** * *
501287 AAAGATGGATTATAGTAATGATCTTCATTTATTTTGT-ATTAGGCACTATAAACATGTTCTTCTA
390 AAAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAGGCACTATAAACACATTCTCCTC
*
501351 ATTAGGATAAATA-ATATTGGC
455 ATTAGGATAAA-AGATATTGAC
* * * * * * * *
501372 CATTTTTTTTTGTATGGAAATATTTTCTTTGCCATATTTTCTTTAAAATTAAAGTTTATCCCTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
* * * * * * ** *
501437 AATAAAAGCAAGCATCGATTCTCATAGCCGTCACCAATCTTTTCAAGATTAAGAACCAAAAACTC
66 AATAAGA-CAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
* * * * *
501502 ATTTCCTTTATTAGGATACATGGCATTGATGCTTTGGTGTCACAAGAAAAT-CTTTTC-TTTCTA
130 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGGGTCGCAAG-AAATGCTTTTCTTTTC-A
* * * * ** *
501565 ACATTTTTGACAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCA
193 CCATTTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGACAAACATTAATTGTCATACTAATCCC
* * * * * * * ** **
501630 CATTCTTTTCCAGATTGGGCACCATAAGCATGGTTTTCTCGTT-AGGATAAACGATATCAATGCT
258 CATTCTTTTCAAGATTAGGCACCATAAACATAGTTTTCTCATTCA-GATACATGATATTGACACT
* ** * * * * * * *
501694 TTCGTTTTGCAAGAAAGGTTCTTTTCCCACCAATTTTTGTAATGTCTAAGTCCGTACCTCAAATA
322 TTTGTTTCACAAGAAAGGCT-TTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATG
* * * * * * *
501759 AGCAAAACATGGATTCTAGTAATAATCTTCAATCATTTTATGATTAGGCACTATAAACACATTCT
386 AGCCAAAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAGGCACTATAAACACATTCT
*
501824 CCTCATTAGGATAAAAGATATTGAA
451 CCTCATTAGGATAAAAGATATTGAC
* * * * * *
501849 GATTTTCTTTCGCTTGGAAACCTTTTCTTTGCCCTATTTTCCTTGAAATCAAAGTTCGTACCTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
* * ** * *
501914 AATAAGACAAGCATCGATTCTTGTAACAGTCTCCATTCTTTCCAAGATTTAGAACTAAAAGCACA
66 AATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACA
* * * * * * * ** *
501979 TTCCTTTCATTAAGATACATGACATTGATGCTTTGGTGTCGTAAAAAAAGTTTTTCTTTTCGTCG
131 TTCCCTTCATTAGGATACATGACATTGATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACCA
* * * ** * *
502044 TTTTTTATGGAATCAACGTTTGTCTCTCTTAAA-AA-A-AAACAAGAATAGTCATACTAATCCCT
196 TTTTTGATAGAATCAAAGTTTGT-T-TCTTAAATAAGACAAACATTAATTGTCATACTAATCCCC
* * * * * * **
502106 ATTCTTTTTAAGATTAGGCACTATAAACATAATTTTCTCA-TAAGGGTACACGATATTGA-TGTT
259 ATTCTTTTCAAGATTAGGCACCATAAACATAGTTTTCTCATTCA-GATACATGATATTGACACTT
* * * * **
502169 TTGCTTTCTCAAGAAAGGCTTTTCTTCCCCCTAATTTTTGTAAAGTCTAAGTTCATGCCAAAAAT
323 TTG-TTTCACAAGAAAGGC-TTT-TTCCCTCAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * ** * *
502234 GAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGGTTTGGCACTATAAATACATTC
385 GAGCCAAAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAGGCACTATAAACACATTC
*
502299 TCCTCATTAGGATAAAAGATATTAAC
450 TCCTCATTAGGATAAAAGATATTGAC
* * *
502325 GATTTTCTCTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCTTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
* * *
502390 AATAAGACAAGCATCGATTCTCGTAATAGTC-CCAATTCTTTTAAAGATTGGGAACTAAAAACAC
66 AATAAGACAAGCATCGATTCTCGTAACAGTCTCC-ATTCTTTTCAAGATTGGGAACCAAAAACAC
* * *
502454 ATTCCCTTCATTAGGATACATGAGAGTAATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACC
130 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACC
* * * *
502519 ATTTTTGATATAATTAAAATTTGTTTCTTAAATAAGACAAACATTAATTGTCATGCTAATCCCCA
195 ATTTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGACAAACATTAATTGTCATACTAATCCCCA
* * * * * * * *
502584 TTCTTTTCAGGATTAGGCATCGTCAACATAGTCTTCTCATTCAGATACATGATATAGACACTGTA
260 TTCTTTTCAAGATTAGGCACCATAAACATAGTTTTCTCATTCAGATACATGATATTGACACTTTT
*
502649 GTTTCACAAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCC
325 GTTTCACAAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGCC
* *
502714 AAAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAAGCACTATAAACACGTTCTCCTC
390 AAAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAGGCACTATAAACACATTCTCCTC
* **
502779 ATTAGGATAAATGATATTGGT
455 ATTAGGATAAAAGATATTGAC
* * * * *
502800 GATTTTCTTTTGCACGAAAATCTTTTCTTTACCCTATTTTTCTTAAAATCAACGTTCATCCCTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
** * * *
502865 AATAAGACAATTATCGATTCTCATAACAGTCTCCGTTCTTTTCAAGATTGGGAACCAAAAACACT
66 AATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACA
* * * * * *
502930 TTCCTTTCATTAGGATACATGATATTGATGCTTTAGGGTCACAAGAAAAGCTTTTCTTTCCA-CA
131 TTCCCTTCATTAGGATACATGACATTGATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACCA
* * *
502994 CTTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTGTCATACTAATCCCCAA
196 TTTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGACAAACATTAATTGTCATACTAATCCCCAT
* * *
503059 TCTTTTCAAGATTAGGCACCATAAACATAGTCTTCTCATTCAGATAAATGATATTGACACTTTGG
261 TCTTTTCAAGATTAGGCACCATAAACATAGTTTTCTCATTCAGATACATGATATTGACACTTTTG
* *
503124 TTTCACTAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCA
326 TTTCACAAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGCCA
*
503189 AAGATGGATTCTAGTAA--ATGTTCATTTATTTTGTA
391 AAGATGGATTCTAGTAATGATCTTCATTTATTTTGTA
503224 TTTATAGTGC
Statistics
Matches: 1538, Mismatches: 288, Indels: 51
0.82 0.15 0.03
Matches are distributed among these distances:
471 18 0.01
472 17 0.01
473 43 0.03
474 339 0.22
475 442 0.29
476 485 0.32
477 182 0.12
478 12 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (475 bp):
GATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
AATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACA
TTCCCTTCATTAGGATACATGACATTGATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACCA
TTTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGACAAACATTAATTGTCATACTAATCCCCAT
TCTTTTCAAGATTAGGCACCATAAACATAGTTTTCTCATTCAGATACATGATATTGACACTTTTG
TTTCACAAGAAAGGCTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGCCA
AAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAGGCACTATAAACACATTCTCCTCA
TTAGGATAAAAGATATTGAC
Found at i:504138 original size:475 final size:470
Alignment explanation
Indices: 503224--504870 Score: 1753
Period size: 475 Copynumber: 3.5 Consensus size: 470
503214 TTATTTTGTA
* * * * *
503224 TTTATAGTGCCTAATCACAAAATGAATGAAGAACATTACTAAAATCCACGTTTGCCACATTTGGG
1 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGAG
** * * *
503289 GCACGAAGATAGACTTTACAAAAATTGGTTAGAAAAAAGCCTTTCTTGAGAATCCAAAGCATCAA
66 GCACGAACTTAGACTTTACAAAAATTGG--GGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCAA
* * * *
503354 TATCATGCAT-CTTAATGAAAAGACTATGTTTATGGTGTCTAATCCTAAAAAGAATGGGGATTAG
129 TATCATGTATCCTT-ATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
* * ** *
503418 TATGACTATTCATGTTTATCATATTTAAGAGACAAACTTTGATTCTATCAAAAACATTGGAAAGA
193 TATGACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGA
* * *
503483 AAAGCTTTTCTTGCGACACCAAAGCATTAATGTCATGCATCCTAATGAAA-CGAACGTGTTTTTG
258 AAAGCTTTTC--GCGACACCAAAGCATTAATGTCATGTATCCTAAT-AAAGGGAAAGTGTTTTTG
* * ** ** ** *
503547 GTTCCCAAT-TTTGAATAGAATGGAGATTATTTTGAGAATTGATGCTTGACTT-TTTAAAGGATG
320 GTTCACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAA-TGATGCTT-ACTTATTTAAGGGATG
* * ** * *
503610 AACTTTGATTTTAAGAAAAATAGGGCAAAGAAAATATTTCAAAG-AATAAGAAAATCATCAGTGT
383 AGCTTTGATTTTAAGAAAAATAGGGCAAAGAAAAGATTTC-AAGCAA-AAGAAAATCAAAAATAT
*
503674 CATTTATCCTAATGAGGAGAATTTG
446 CATTTATCCTAATGAGGAGAATGTG
* * * *
503699 TTTATATTGCCTAATCACAAATTGAATGAAGATCATTACT-GAAATCCATGTTTGGCTCATTTTA
1 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG-AATCCATGTTTGCCTCATTTGA
* *
503763 GGCATGAACTTAGACTTTACAAAAATTAGGCGGAAGAAAGCCTTTCTTGTGAAACCAAAGCATCA
65 GGCACGAACTTAGACTTTACAAAAATT-GG-GGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCA
* * * *
503828 ATATCGTGTATCCTTATGAGAAGATTATGTTTATTGTTCCTAATCCTAAAAAGAATAGGGATTAG
128 ATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
* * * * * *
503893 TATGACTATTCATGTGTCTCTTATTTAAGAGTCAATCTTTAATTCTATAAAAAATGTTGCAAAAA
193 TATGACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGA
* **
503958 AAAGCTTTTCGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTTCTT
258 AAAGCTTTTCGCGACACCAAAGCATTAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTGGTT
*
504023 CACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAATCGATGCTTATCTTATTTCAGGGATGAGC
323 CACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAAT-GATGCTTA-CTTATTTAAGGGATGAGC
* *
504088 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAGTTTCACGCAAAAGAAAATCAAAAATATCATT
386 TTTGATTTTAAGAAAAATAGGGCAAAGAAAAGA-TTTCAAGCAAAAGAAAATCAAAAATATCATT
*
504153 TATCCTAACGAGGAGAATGTG
450 TATCCTAATGAGGAGAATGTG
* * *
504174 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAACCCGTGTTTGCCTTATTTGAG
1 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGAG
** *
504239 G--C--AC--A-A----AC-----TT--GG-----A--CTTTCTTGCAAAACCAAAACATCAATA
66 GCACGAACTTAGACTTTACAAAAATTGGGGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATA
* * * * * * * *
504279 TCATATATCCTAACGAGAAGACTATGTTTTTGGTGCCCAATACTTAAAAGAATGGGGATTAGTAT
131 TCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAGTAT
* * *
504344 AACTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATCAAAAATGTTGCAAAGAAAA
196 GACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGAAAA
* * * * * *
504409 GCTTTTTGCAACACCAATGCATTAATGTCATGTAACCGAATAAAGGGAATGTGTTTTTGGTTCAC
261 GCTTTTCGCGACACCAAAGCATTAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTGGTTCAC
* * * * * * * ** *
504474 TACCTTTGAAAAGCTTAGACACTGCTACAAGAAGTGTTGCTCGCCTTATTTAAGGGATGAGCTCT
326 AATCTTTGAAAAGCTTGGAGATTGCTACGAGAA-TGATGCT-TACTTATTTAAGGGATGAGCTTT
* * * *
504539 GACTTTT-AGAAAAATAGGGCAAAGAAAAGATTTTCGTA-CAAAATAAACTAAAAAATATCATTT
389 GA-TTTTAAGAAAAATAGGGCAAAGAAAAGA-TTTC-AAGCAAAAGAAAATCAAAAATATCATTT
* *
504602 ATCCTAATAAGGAGAATGGG
451 ATCCTAATGAGGAGAATGTG
* * * *
504622 TTTATAGTGCCTAAAT-ACAAAATGAATAAAGATGATTACTAGATTCCATGTTTGTCTCATTTGA
1 TTTATAGTGCCT-AATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGA
* * * *
504686 GGCACGAACTTAGACGTTACAAAAATTAGGGGGAAAAAAGCCATTCTTTTGAAACCAAAGAATCA
65 GGCACGAACTTAGACTTTACAAAAATT--GGGGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCA
** * * * *
504751 ATATTGTGTATCCTTATGAGAAGACTACGTTTATGGTGCCAAATCCTAAAATGAATAAGGATTAG
128 ATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
* * **
504816 TATGACTATTAATGTTTGC-CTTATTTAAGAGACAAATTTTTTTTTCTATCAAAAA
193 TATGACTATTCATGTTT-CTCTTATTTAAGAGACAAA-CTTTGATTCTATCAAAAA
504871 CTGTGAAATG
Statistics
Matches: 970, Mismatches: 157, Indels: 89
0.80 0.13 0.07
Matches are distributed among these distances:
448 362 0.37
449 8 0.01
450 2 0.00
452 2 0.00
454 1 0.00
455 3 0.00
459 4 0.00
464 4 0.00
468 3 0.00
469 1 0.00
471 2 0.00
472 3 0.00
473 53 0.05
474 32 0.03
475 464 0.48
476 26 0.03
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (470 bp):
TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGAG
GCACGAACTTAGACTTTACAAAAATTGGGGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATA
TCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAGTAT
GACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGAAAA
GCTTTTCGCGACACCAAAGCATTAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTGGTTCAC
AATCTTTGAAAAGCTTGGAGATTGCTACGAGAATGATGCTTACTTATTTAAGGGATGAGCTTTGA
TTTTAAGAAAAATAGGGCAAAGAAAAGATTTCAAGCAAAAGAAAATCAAAAATATCATTTATCCT
AATGAGGAGAATGTG
Found at i:504644 original size:448 final size:448
Alignment explanation
Indices: 503804--504696 Score: 1164
Period size: 448 Copynumber: 2.0 Consensus size: 448
503794 GGAAGAAAGC
** * * * * * * * *
503804 CTTTCTTGTGAAACCAAAGCATCAATATCGTGTATCCTTATGAGAAGATTATGTTTATTGTTCCT
1 CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTTATTGTGCCC
* * * *
503869 AATCCTAAAAAGAATAGGGATTAGTATGACTATTCATGTGTCTCTTATTTAAGAGTCAATCTTTA
66 AATACTAAAAAGAATAGGGATTAGTATAACTATTCATGTGTCTCTTATTTAAGAGACAAACTTTA
* * *
503934 ATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCGACACCAAAGCATCAATGTCATGTATCCT
131 ATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCAACACCAAAGCATCAATGTCATGTAACCG
* * * * * *
503999 AATAAAGGGAAAGTGTTTTTTCTTCACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAATCGAT
196 AATAAAGGGAAAGTGTTTTTGCTTCACAACCTTTGAAAAGCTTAGACACTGCTACAAGAATCGAT
* * * * * *
504064 GCTTATCTTATTTCAGGGATGAGCTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAGTTTCACG
261 GCTCACCTTATTTAAGGGATGAGCTCTGATTTTAAGAAAAATAGGGCAAAGAAAAGAGTTTCACA
* * *
504129 CAAAAGAAAATCAAAAATATCATTTATCCTAACGAGGAGAATGTGTTTATAGTGCCTAATCACAA
326 CAAAAGAAAATAAAAAATATCATTTATCCTAACAAGGAGAATGGGTTTATAGTGCCTAATCACAA
* * *
504194 AATGAATGAAGATCATTACTAGAACCCGTGTTTGCCTTATTTGAGGCACAAACTTGGA
391 AATGAATAAAGATCATTACTAGAACCCATGTTTGCCTCATTTGAGGCACAAACTTGGA
504252 CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTT-TTGGTGCC
1 CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTTATT-GTGCC
* * * *
504316 CAATACTTAAAAGAATGGGGATTAGTATAACTATTCATGTTTGTCTTATTTAAGAGACAAACTTT
65 CAATACTAAAAAGAATAGGGATTAGTATAACTATTCATGTGTCTCTTATTTAAGAGACAAACTTT
* * * * * * *
504381 GATTTTATCAAAAATGTTGCAAAGAAAAGCTTTTTGCAACACCAATGCATTAATGTCATGTAACC
130 AATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCAACACCAAAGCATCAATGTCATGTAACC
* * *
504446 GAATAAAGGGAATGTGTTTTTGGTTCACTACCTTTGAAAAGCTTAGACACTGCTACAAGAAGT-G
195 GAATAAAGGGAAAGTGTTTTTGCTTCACAACCTTTGAAAAGCTTAGACACTGCTACAAGAA-TCG
* * *
504510 TTGCTCGCCTTATTTAAGGGATGAGCTCTGACTTTT-AGAAAAATAGGGCAAAGAAAAGATTTTC
259 ATGCTCACCTTATTTAAGGGATGAGCTCTGA-TTTTAAGAAAAATAGGGCAAAGAAAAGAGTTTC
** * * *
504574 GTACAAAATAAACTAAAAAATATCATTTATCCTAATAAGGAGAATGGGTTTATAGTGCCTAAAT-
323 ACACAAAAGAAAATAAAAAATATCATTTATCCTAACAAGGAGAATGGGTTTATAGTGCCT-AATC
* ** * *
504638 ACAAAATGAATAAAGATGATTACTAGATTCCATGTTTGTCTCATTTGAGGCACGAACTT
387 ACAAAATGAATAAAGATCATTACTAGAACCCATGTTTGCCTCATTTGAGGCACAAACTT
504697 AGACGTTACA
Statistics
Matches: 379, Mismatches: 62, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
447 2 0.01
448 369 0.97
449 8 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (448 bp):
CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTTATTGTGCCC
AATACTAAAAAGAATAGGGATTAGTATAACTATTCATGTGTCTCTTATTTAAGAGACAAACTTTA
ATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCAACACCAAAGCATCAATGTCATGTAACCG
AATAAAGGGAAAGTGTTTTTGCTTCACAACCTTTGAAAAGCTTAGACACTGCTACAAGAATCGAT
GCTCACCTTATTTAAGGGATGAGCTCTGATTTTAAGAAAAATAGGGCAAAGAAAAGAGTTTCACA
CAAAAGAAAATAAAAAATATCATTTATCCTAACAAGGAGAATGGGTTTATAGTGCCTAATCACAA
AATGAATAAAGATCATTACTAGAACCCATGTTTGCCTCATTTGAGGCACAAACTTGGA
Found at i:505805 original size:13 final size:13
Alignment explanation
Indices: 505787--505812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
505777 CAATTTTTTG
505787 TGTATCGATACAT
1 TGTATCGATACAT
505800 TGTATCGATACAT
1 TGTATCGATACAT
505813 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:505877 original size:21 final size:21
Alignment explanation
Indices: 505851--505926 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
505841 CTGCCAAGAA
505851 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
505872 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
505892 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
505913 ATGTATCGATACAT
1 ATGTATCGATACAT
505927 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:505896 original size:20 final size:20
Alignment explanation
Indices: 505871--505944 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
505861 ACATCTTTTT
505871 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
505891 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
505912 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
505932 CATGTATCGATAC
1 CATGTATCGATAC
505945 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:505908 original size:41 final size:41
Alignment explanation
Indices: 505851--505944 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
505841 CTGCCAAGAA
505851 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
505892 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
505933 ATGTATCGATAC
1 ATGTATCGATAC
505945 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:507401 original size:476 final size:472
Alignment explanation
Indices: 506443--511965 Score: 4908
Period size: 476 Copynumber: 11.7 Consensus size: 472
506433 ATGTCATGTA
* * * * * *
506443 TCCTATTGGAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAAGAATAGCA-ACTGTTACGAGAA
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTG-AAAAGAAT-GGAGACTGTTTCGAGAA
** * * * * *
506507 TCGATGCTTGCCTTTTTTAAGGGATGAACTTTAATTTAAAGGAAAATAAGGCAAATAAACGATTT
64 TCGATGCTTATCTTATTTAAGGGATGAACTTTGATTT-AAGGAAAATAGGGCAAAGAAAAGATTT
** * * *
506572 TCATGCAAAAGAAAATTGCCAATATCATTTATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCT
128 TCATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAG---TGCCT
* * * * * * * * * **
506636 AATCACAAAATAAATGAAGATCGTTACTAGAATCCACGTTTAGCTCAGTTAAAGCATGAACTTTC
190 AATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAG
* * * * * * * * * *
506701 ACCTAAGAAAAAGT-GGTTGGAAAAAAGCTTTTCTTGCGAATCTAAAGCATCAATATCATGTAT-
255 ACTTTACAAAAATTAGG-GGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATC
** * ** *
506764 CTTAATGAGAAGACTGTGTTTATGGTGCCTAATCCTAAAAAAAATGGGGATTAGTATGAC-ATTC
319 CTT-ATGAGAAGACTACGTTT-TGGTGCCTAATCCTGAAATGAAT-GGGATTAGTATGACTATTA
* * * * * *
506828 GTGGTTAT-CTTATTTAAGAGACAAACTTTGATTTTGTC-AACAAC-GTTGCAAA-GAAAAG-CT
381 AT-GTT-TGCTTATTTAAGAGACAAACTTTTATTCTATCGAA-AACAG-TG-AAATAAAAAGAAT
* * * * * *
506888 TT-TTGCAAAACC-AAAGCATCAATGTCATGTA
441 TTCTTGC-GACCCTAAAGCACCAATGCCTTGTC
* * * * ** * * * *
506919 TCCTAATAAAGGGAATGTGTTTTTGGTTCACTATCTTTGAAATGCTTGGAGACTGCTACAAGTAT
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATC-TTGAAAAGAATGGAGACTGTTTCGAGAAT
** ** ** *
506984 CGATGCTCGTCTTATTTAAGGGAT-AAGCACTGATGTTTTGGAAAATAGGGCAAAGAAAAAATTT
65 CGATGCTTATCTTATTTAAGGGATGAA-CTTTGAT-TTAAGGAAAATAGGGCAAAGAAAAGATTT
* ** * *
507048 T-AGTACAAAAGAAAATTAAAAATATCATTTATCCTAACGAGGAGAATGGGTTTATAGTGCCTAA
128 TCA-TGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAGTGCCTAA
* * *
507112 TCACAAAATAAACAAAGATCATTACTAGAATCCATGTTTGTCTCA-TTGAGGCACGAACTTAGAC
192 TCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGAC
* *
507176 TTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCAAAACCAAAGCTTCAATATCATGTATCCTT
257 TTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTT
* * *
507241 ATGAGAAGAATACGCTTTTGGTGCCTAATCCTGAAGTGAATGAGGATTAATATGACTATTAATGT
322 ATGAGAAGACTACG-TTTTGGTGCCTAATCCTGAAATGAATG-GGATTAGTATGACTATTAATGT
* * *
507306 TTGCGTTATTTAAAAGACAAACTTTTATTCTATCGAAAACAGTGACATAAAAAGAATTTCTTACG
385 TTGC-TTATTTAAGAGACAAACTTTTATTCTATCGAAAACAGTGAAATAAAAAGAATTTCTTGCG
* *
507371 ACCCTAAGGCACCAAAGCCTTGTC
449 ACCCTAAAGCACCAATGCCTTGTC
* *
507395 TCCTAATGAAGGGAATCTATTTTTGGTT-CCTAATCTTGAAAAGAATGGAGACAGTTTCGAGAAT
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCT-ATCTTGAAAAGAATGGAGACTGTTTCGAGAAT
* *
507459 CGATGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAAATAGGGCAAAAAAAAGATTT
65 CGATGCTTATCTTATTTAAGGGATGAACTTTGA-TTTAAGG-AAAATAGGGCAAAGAAAAGATTT
** * * *
507524 TCATGCAAAAG-AAATTATCATTATTTTTTTATCCTAATGAGGAGTATGTGTTTATCA-AGCCTA
128 TCATGCAAAAGAAAATTATCATTA-TCATTTATCCTAATGAGGAGAATGGGTTTAT-AGTGCCTA
* * * * ** * * *
507587 ATCAGAAAATGAATAAAGATTATTAGTAGAATCTATGTTTGGGACAATTGTGGCACAAACTTAGA
191 ATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGA
* * * *
507652 CTTTACAAAAATTTGTGGGAAAAAAAGCCTTTCTAGT-GAAACCAAAGCATCAATATCATGTATT
256 CTTTACAAAAATTAG-GGGGAAGAAAGCCTTTCT-TTCGAAACCAAAGCATCAATATCATGTA-T
* ** * * * * * *
507716 CC-AACAAGAAGACTATGTTTACGGTGCCTCATCTTGAAAAGAATGGGGATTAGTATGAGTATTA
318 CCTTATGAGAAGACTACGTTT-TGGTGCCTAATCCTGAAATGAAT-GGGATTAGTATGACTATTA
* * * * * **
507780 ATGTTTATCTTATTTAAAAGATAAA-TTTTGATTCTATC-AAAAAAGTTGGAAA-GAAAAGCTTT
381 ATGTTT-GCTTATTTAAGAGACAAACTTTT-ATTCTATCGAAAACAG-T-GAAATAAAAAGAATT
* * ** * *
507842 TCTTGCGGTA-CC-AAGGCATCAATATCGTGTA
442 TCTTGC-G-ACCCTAAAGCACCAATGCCTTGTC
* * * * * * * * *
507873 TCCTAACGAAGGGAATGTGTTTTTGGTTCCCAATCTCGAAAAAAATAGAGACTATTACGAGAATT
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATC
* *
507938 GATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCC
66 GATGCTTATCTTATTTAAGGGATGAACTTTGA-TTTAAGGAAAATAGGGCAAAGAAAAGATTTTC
** * * * *
508003 ATGCAAAAGAAAATTGCCAATATCATTTATCCTATTTAGGAGAATGTGTTTATAGTGCCTAATCA
130 ATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAGTGCCTAATCA
* * * * * * *
508068 CAAAAT-AAAAGAATATCATTACTATAATCCATGTTTGGCTCATTTAAGGTAGGAATTTAGACTT
195 CAAAATGAATA-AAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTT
* * * * * * *
508132 TACAAAAATT-GGTTGGAAAAAAGCCTTTCTTGCGAATCTAAAGCATCAATATCTTGTATCCTAA
259 TACAAAAATTAGG-GGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTA
** * * **
508196 TGAGAAGACTGTGTTTGTGGTACATAATCCT-AAAACAATGGGGATTAGTATGACTATTCAA-GT
323 TGAGAAGACTACGTTT-TGGTGCCTAATCCTGAAATGAAT-GGGATTAGTATGACTATT-AATGT
* * * * * * *
508259 TTGTCTTATTTAAGAGATAAGCTTTGATTTTATCAAAAAC-GTTGCAAA-GAAAAGCA-TT-TTG
385 TTG-CTTATTTAAGAGACAAACTTTTATTCTATCGAAAACAG-TG-AAATAAAAAGAATTTCTTG
* * *
508320 CGACACC-AAAGCATCAATGCCATGTA
447 CGAC-CCTAAAGCACCAATGCCTTGTC
* * * * * * *
508346 TCCTAAAGAAGGGAATGTGTTTTTGGTTCACTAACTTTGTAAAGATTGGAGACTGCTAT-GAGAA
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATC-TTGAAAAGAATGGAGACTG-TTTCGAGAA
508410 TCGATGCTTATCTTATTTAA--G--G------G---T------AA-A---C----AAAAGATTTT
64 TCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTAAGGAAAATAGGGCAAAGAAAAGATTTT
* * ** ** ** *
508448 CATACAAAAGAAAATAAAAAACATCATTTATCCTAACAAGGAGAGTGGGTTTATAGTGCCTAATC
129 CATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAGTGCCTAATC
* * **
508513 AAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTT
194 ACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTT
* * * *
508578 TACAAAAATTAGCGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCAATATCGTGTATCCTTAT
259 TACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTAT
* * * *
508643 GAGAAGACTACG--TT--TGCCTTAT--T----T--AT-GGATTAGTATGGCTATCAATCTTTGC
324 GAGAAGACTACGTTTTGGTGCCTAATCCTGAAATGAATGGGATTAGTATGACTATTAATGTTTG-
* * * * *
508695 CTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTA-TAAAATGAAAAGATTTTTTTACGACC
388 CTTATTTAAGAGACAAACTTTTATTCTATCGAAAAC-AGTGAAATAAAAAGAATTTCTTGCGACC
* *
508759 CTAAAGCACCAATGTCTTATC
452 CTAAAGCACCAATGCCTTGTC
* * * *
508780 TCCTAATGAATGGAATCTGGTTTTGGTTCCCTACCTTGAAAAGAATGGAGACTGTTTTGAGAATC
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATC
* **
508845 GATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAGGAAAATAGGATAAAGAAAAGATTTTC
66 GATGCTTATCTTATTTAAGGGATGAACTTTGATTT-AAGGAAAATAGGGCAAAGAAAAGATTTTC
* *
508910 ATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAA-GGTGTTTACAGTGCCTAATC
130 ATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGG-GTTTATAGTGCCTAATC
* * * * * * *
508974 ACAAAATGAATGAAGATCATTACTAGGATCCATGTTTAGCTTATTTGAGACACGAATTTAGACCT
194 ACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTT
* * *
509039 TACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCAATATCGTGTATCCTTAT
259 TACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTAT
* * *
509104 GAGAAAACTACGTTATT-GTGGCCTAATCTTGAAATGAATGTGGATTAGTATGGCTATTAATGTT
324 GAGAAGACTACGTT-TTGGT-GCCTAATCCTGAAATGAATG-GGATTAGTATGACTATTAATGTT
* * * * * *
509168 TGCCTTCTTTGAGAGACAAACTTCTATTCTATCAAAAACTGTGAAATGAAAAGAATTTCTTGCGA
386 TG-CTTATTTAAGAGACAAACTTTTATTCTATCGAAAACAGTGAAATAAAAAGAATTTCTTGCGA
* * *
509233 CCCTAAAACACCAATGTCTTATC
450 CCCTAAAGCACCAATGCCTTGTC
* *
509256 TCCTAATGAAGGGAATCTGGTTTTGGTTCCCTATCTTGAAAAGAATAGAGACTGTTTCGAGAATC
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATC
* * * * **
509321 GATGTTTATCTTATTTAAGCGATGAACTTTTATTTTAAGGAAAAGAGGATAAAGAAAAGATTTTC
66 GATGCTTATCTTATTTAAGGGATGAACTTTGA-TTTAAGGAAAATAGGGCAAAGAAAAGATTTTC
* ** *
509386 ATGCAAAAGGAAATTATCATTATCATTCGTCCTAATGAAGAGAA-GGTGTTTATAGTGCCTAATC
130 ATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGG-GTTTATAGTGCCTAATC
* ** *
509450 ACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGGCGCGAACTTAGACTT
194 ACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTT
* * *
509515 TACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCAATATCGTGTATCCTTAT
259 TACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTAT
* * * * *
509580 GAGAAGACTAC--ATT--TACCTTAT--T----T--AT-GGATTAATATGGCTATTAATGTTTGC
324 GAGAAGACTACGTTTTGGTGCCTAATCCTGAAATGAATGGGATTAGTATGACTATTAATGTTTG-
* * * * *
509632 CTTATTTAAGAGGCAAACTTTTATTCTATCGAAAACTA-TAAAATGAAAAGAATTTTTTACGACC
388 CTTATTTAAGAGACAAACTTTTATTCTATCGAAAAC-AGTGAAATAAAAAGAATTTCTTGCGACC
* *
509696 CTAAAGCACCAATGTCTTATC
452 CTAAAGCACCAATGCCTTGTC
* * *
509717 TCCTAATGAAGGGAATCTGGTTTTGGTTCCCTATCTTAAAAAGAATGGAGACTGTTTTGAGAATC
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATC
* * * **
509782 AATGCTTATCTTATTTAAGGGATGAACTTTTATTTCATGGAAAATAGGATAAAGAAAAGATTTTC
66 GATGCTTATCTTATTTAAGGGATGAACTTTGATTT-AAGGAAAATAGGGCAAAGAAAAGATTTTC
* * * *
509847 ATGCAAAAGCAAATTATCTTTATCATTCATCCTAATGAAGAGAA-GGTGTTTATAGTGCCTAATC
130 ATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGG-GTTTATAGTGCCTAATC
* * * * *
509911 ACAAAATGAATGAAGATCATTACTAAAATCCATGTTTGGCTCATTTGAGACACGAATTTAGACCT
194 ACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTT
* *
509976 TACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCGTGTATCCTTAT
259 TACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTAT
* * * *
510041 GAGAAAACTACGTTTTTGGGGCCTAATCTTGAAATGAATGTGGATTAGTATGGCTATTAATGTTT
324 GAGAAGACTACG-TTTTGGTGCCTAATCCTGAAATGAATG-GGATTAGTATGACTATTAATGTTT
* ** * *
510106 GCCTTATTTGAGAGACAAACTTTTATTCTATCGAAAATTGTGAAATGAAAACAATTTCTTGCGAC
387 G-CTTATTTAAGAGACAAACTTTTATTCTATCGAAAACAGTGAAATAAAAAGAATTTCTTGCGAC
*
510171 CCTAAAGCACCAATGTCC-TATC
451 CCTAAAGCACCAATG-CCTTGTC
* * * * *
510193 TCCTAATGAAGGGAATCTGGTTTTGCTTCCCTATCTTGAAAAGAATGAAAACAGTTTCGAGAATC
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATC
* *
510258 GATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAGGAAAATAGGACAAAGAAAAGATTTCC
66 GATGCTTATCTTATTTAAGGGATGAACTTTGATTT-AAGGAAAATAGGGCAAAGAAAAGATTTTC
* * *
510323 ATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCA
130 ATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAGTGCCTAATCA
* * * ** *
510388 GAAAATGGATAAAGATCATTACTAGAATCTATGTTTGGCAT-ATTTTTGTCACGAACTTAGACTT
195 CAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGC-TCATTTGAGGCACGAACTTAGACTT
* * * * *** * *
510452 TACAAAGATTTATGTGGAAAAAAGCCTTTCTGGAGAAACCAAAGCATCAATATCATGTATTCTAA
259 TACAAA-AATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTA
** * * * * *
510517 CAAGAAGACTACATTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTATGAGTATTAATGTT
323 TGAGAAGACTACGTTT-TGGTGCCTAATCCTGAAATGAAT-GGGATTAGTATGACTATTAATGTT
* * * * * ** *
510582 TATCTTATTTAAAAGATAAACTTTGATTCTATC-AAAA-AGGTTGGAAA-GAAAAGCTTTTCTTA
386 T-GCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACA-G-T-GAAATAAAAAGAATTTCTTG
* * * *
510644 CGACACC-AAAGTATCAATGCCGTGTA
447 CGAC-CCTAAAGCACCAATGCCTTGTC
* * * * * * **
510670 TCCT-ATCGAAAGAAATGTGTTTTTGGTT-CCTAATCTTGAAAAAAATAGCGACTGTTAAGAGAA
1 TCCTAAT-GAAGGGAATCTGTTTTTGGTTCCCT-ATCTTGAAAAGAATGGAGACTGTTTCGAGAA
* * *
510733 TCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAAGGCAAAGAAATGATTT
64 TCGATGCTTATCTTATTTAAGGGATGAACTTTGATTT-AAGGAAAATAGGGCAAAGAAAAGATTT
* * *
510798 TCATGCAAAAGAAAATT-TCCTATATCATTTATCCTAAGGAGGAGAATGTGTTTATAGCACT-CC
128 TCATGCAAAAGAAAATTATCAT-TATCATTTATCCTAATGAGGAGAATGGGTTTATAG---TGCC
* * * * *
510861 TAATCACAAAATAAATGAAA-ATCGTTACTAGAATCCATGTTTAGCTCACTTAAGGCACGAAC-T
189 TAATCACAAAATGAAT-AAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTT
* * * * * * *
510924 AGACTTTACAAAAAGT-GGTTGGAAAAAAGCCTTTCTTGCGAATCTAAAGCATCAATATCATATA
253 AGACTTTACAAAAATTAGG-GGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTA
* * ** * ** *
510988 TCCTAACGAGAAGACTGTGTTTATGATGCCTAATCCT-AAAAAAATTGGGATTAGTTTGACTATT
317 TCCTTATGAGAAGACTACGTTT-TGGTGCCTAATCCTGAAATGAA-TGGGATTAGTATGACTATT
* * * * *
511052 TATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATC-AACAAC-GTTGCAAA-GAAAAG-CT
380 AATGTTTG-CTTATTTAAGAGACAAACTTTTATTCTATCGAA-AACAG-TG-AAATAAAAAGAAT
* * * ** * *
511113 TT-TTGCAAAACC-AAAGCATCAATATCATATAC
441 TTCTTGC-GACCCTAAAGCACCAATGCCTTGT-C
* * * * ** * * *
511145 -CCTAATAAAGGGAATGTGTTTTTGGTTCACTATCTTTGAAATGCTTGGAGACAGCTACGAGAAT
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATC-TTGAAAAGAATGGAGACTGTTTCGAGAAT
* ** * * ** *
511209 CGATACTCGTCTTATTTAAGGAAT-AAGCTCTGATATT-TTGAAAATAGGGTAAAGAAAAGATTT
65 CGATGCTTATCTTATTTAAGGGATGAA-CTTTGAT-TTAAGGAAAATAGGGCAAAGAAAAGATTT
* * ** * * *
511272 T-AGTACAAAAAAAAATTAAAAATATCATTTATCCTAATAAGGAGAATGGGTTTATGGTGCCTAA
128 TCA-TGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAGTGCCTAA
* ** * * *
511336 TCAC-AAATGAATAAAGATCATTACTAGAATCTATGTTTATCTCATTTGAAGCATGAACTTAAAC
192 TCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGAC
* * *
511400 TTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTTGAAACCAAAGCTTCAATATCGTGTATCCTT
257 TTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTT
* * *
511465 ATGAGAAGAATACGCTTATGGTGCCTAATCCT-AAAGTGAATGAGGATTAATATGACTATTAATG
322 ATGAGAAGACTACG-TTTTGGTGCCTAATCCTGAAA-TGAATG-GGATTAGTATGACTATTAATG
* * * * * ** * *
511529 CTGGCGTTATTTAAAAGATAAACTTTTATTCTATCGAAAACTGTGGTATAAAAACAATTTCTTGT
384 TTTGC-TTATTTAAGAGACAAACTTTTATTCTATCGAAAACAGTGAAATAAAAAGAATTTCTTGC
* * *
511594 GACCGTAAGGCACCAAAGCCTTGTC
448 GACCCTAAAGCACCAATGCCTTGTC
* *
511619 TCCTAATGAAGGG-ATCTGTTTTTGGTT-CCTAATCTTCAAAAGAATGGAGACAGTTTCGAGAAT
1 TCCTAATGAAGGGAATCTGTTTTTGGTTCCCT-ATCTTGAAAAGAATGGAGACTGTTTCGAGAAT
*
511682 CGATGCTTATCTTATTTAAGGGATAAACTTTGATTTCAAGGAAAATAGGGCAAA-AAAATGATTT
65 CGATGCTTATCTTATTTAAGGGATGAACTTTGATTT-AAGGAAAATAGGGCAAAGAAAA-GATTT
* * * * * * *
511746 CCACGCAAAAGGAAATTATCATTAACTTTTATCCTAATGAGGAGAATGTGTTTATCA-AGCCTAA
128 TCATGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTAT-AGTGCCTAA
* * * * * * * *
511810 TCAGAAAATGAATAAAGATCAGTACTAGAATCTATGTTCGGCACATTTGTGGCACAAAGTTAGAC
192 TCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGAC
* * * *
511875 TTTACAAAAATTTGTGGGAAAAAAGCCTTT-TTAGT-GAAACCAAAGCATCAATATCATGTATTC
257 TTTACAAAAATTAGGGGGAAGAAAGCCTTTCTT--TCGAAACCAAAGCATCAATATCATGTATCC
* * * *
511938 TAACGAGAAGACTATGTTTACGGTGCCT
320 TTATGAGAAGACTACGTTT-TGGTGCCT
511966 GATGACAACC
Statistics
Matches: 4171, Mismatches: 687, Indels: 379
0.80 0.13 0.07
Matches are distributed among these distances:
431 5 0.00
432 59 0.01
433 46 0.01
434 51 0.01
435 1 0.00
437 1 0.00
439 1 0.00
441 5 0.00
443 1 0.00
444 1 0.00
446 178 0.04
447 3 0.00
450 1 0.00
453 3 0.00
454 3 0.00
460 6 0.00
461 596 0.14
463 2 0.00
464 5 0.00
465 2 0.00
466 11 0.00
468 2 0.00
469 1 0.00
470 4 0.00
471 49 0.01
472 103 0.02
473 279 0.07
474 342 0.08
475 346 0.08
476 1187 0.28
477 553 0.13
478 257 0.06
479 62 0.01
480 5 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (472 bp):
TCCTAATGAAGGGAATCTGTTTTTGGTTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATC
GATGCTTATCTTATTTAAGGGATGAACTTTGATTTAAGGAAAATAGGGCAAAGAAAAGATTTTCA
TGCAAAAGAAAATTATCATTATCATTTATCCTAATGAGGAGAATGGGTTTATAGTGCCTAATCAC
AAAATGAATAAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTA
CAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTATGA
GAAGACTACGTTTTGGTGCCTAATCCTGAAATGAATGGGATTAGTATGACTATTAATGTTTGCTT
ATTTAAGAGACAAACTTTTATTCTATCGAAAACAGTGAAATAAAAAGAATTTCTTGCGACCCTAA
AGCACCAATGCCTTGTC
Found at i:510252 original size:937 final size:936
Alignment explanation
Indices: 508433--511935 Score: 3892
Period size: 937 Copynumber: 3.7 Consensus size: 936
508423 TATTTAAGGG
* * * * ** ** * *
508433 TAAACAAAAGATTTTCATACAAAAGAAAATAAAAAACATCATTTATCCTAA-CAAG-GAGAGTGG
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAAGAGA-AG-GT
* *
508496 GTTTATAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGA
64 GTTTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGA
* * *
508561 GGCACGAACTTAGACTTTACAAAAATTAGCGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCA
129 GGCACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCA
* * * *
508626 ATATCGTGTATCCTTATGAGAAGACTACGTTT-GCCTTATTTAT-GGATTAGTATGGCTATCAAT
194 ATATCGTGTATCCTTATGAGAAGACTACATTTAGCCTTATTAATGGGATTAATATGGCTATTAAT
* * *
508689 CTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGATTTTTTTA
259 GTTTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTA
* * * *
508754 CGACCCTAAAGCACCAATGTCTTATCTCCTAATGAATGGAATCTGGTTTTGGTTCCCT-ACCTTG
324 CGACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT-CCTAATCTTA
*
508818 AAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAA
388 AAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAA
*
508883 GGAAAATAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGA
453 GGAAAATAGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGA
* *
508948 GGAGAAGGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGGATCCATGTTTAG
518 GGAGAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAG
*
509013 CTTATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAA-CCTTTCTTTCGAAAC
583 CTCATTTGAGACACGAATTTAGACCTTACAAAAATT-AGGGGAA-AAAAGCCTTTCTTTCGAAAC
* * *
509077 CAAAGCATCAATATCGTGTATCCTTATGAGAAAACTACGTTATTGTGGCCTAATCTTGAAATGAA
646 CAAAGCATCAATATCATGTATCCTTATGAGAAAACTACGTTTTTGAGGCCTAATCTTGAAATGAA
* * *
509142 TGTGGATTAGTATGGCTATTAATGTTTGCCTTCTTTGAGAGACAAACTTCTATTCTATCAAAAAC
711 TGTGGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATC-AAAAT
* * *
509207 TGTGAAATGAAAAGAATTTCTTGCGACCCTAAAACACCAATGTCTTATCTCCTAATGAAGGGAAT
775 TGTGAAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCATATCTCCTAATGAAGGGAAT
* *
509272 CTGGTTTTGGTTCCCTATCTTGAAAAGAAT-AGAGACTGTTTCGAGAATCGATGTTTATCTTATT
840 CTGGTTTTGGTTCCCTATCTTGAAAAGAATGA-AGACAGTTTCGAGAATCGATGCTTATCTTATT
*
509336 TAAGCGATGAACTTTTATTTTAAGGAAAAGAGGA
904 TAAG-GATGAACTTTTATTTTAAGGAAAATAGGA
**
509370 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTCGTCCTAATGAAGAGAAGGTGT
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAAGAGAAGGTGT
*
509435 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
66 TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
* * *
509500 CGCGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCAAT
131 CACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAAT
*
509565 ATCGTGTATCCTTATGAGAAGACTACATTTA-CCTTATTTAT-GGATTAATATGGCTATTAATGT
196 ATCGTGTATCCTTATGAGAAGACTACATTTAGCCTTATTAATGGGATTAATATGGCTATTAATGT
* *
509628 TTGCCTTATTTAAGAGGCAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
261 TTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
*
509693 ACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCCCT-ATCTTAAA
326 ACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT-CCTAATCTTAAA
* * *
509757 AAGAATGGAGACTGTTTTGAGAATCAATGCTTATCTTATTTAAGGGATGAACTTTTATTTCATGG
390 AAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAGG
* * * * *
509822 AAAATAGGATAAAGAAAAGATTTTCATGCAAAAGCAAATTATCTTTATCATTCATCCTAATGAAG
455 AAAATAGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGG
* *
509887 AGAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAAAATCCATGTTTGGCT
520 AGAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCT
*
509952 CATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAA
585 CATTTGAGACACGAATTTAGACCTTACAAAAATT-AGGGGAAAAAAGCCTTTCTTTCGAAACCAA
* *
510017 AGCATCAATATCGTGTATCCTTATGAGAAAACTACGTTTTTGGGGCCTAATCTTGAAATGAATGT
649 AGCATCAATATCATGTATCCTTATGAGAAAACTACGTTTTTGAGGCCTAATCTTGAAATGAATGT
510082 GGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCGAAAATTGT
714 GGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATC-AAAATTGT
*
510147 GAAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCCTATCTCCTAATGAAGGGAATCTG
778 GAAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCATATCTCCTAATGAAGGGAATCTG
* *
510212 GTTTTGCTTCCCTATCTTGAAAAGAATGAAAACAGTTTCGAGAATCGATGCTTATCTTATTTAAG
843 GTTTTGGTTCCCTATCTTGAAAAGAATGAAGACAGTTTCGAGAATCGATGCTTATCTTATTTAA-
* *
510277 GGATGAACTTTGATTTCAAGGAAAATAGGA
907 GGATGAACTTTTATTTTAAGGAAAATAGGA
* * * *
510307 CAAAGAAAAGATTTCCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAATGTGT
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAAGAGAAGGTGT
* * * * ** **
510372 TTATCGTGCCTAATCAGAAAATGGATAAAGATCATTACTAGAATCTATGTTTGGCAT-ATTTTTG
66 TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTT-GTTTCATTTGAG
* * * * * ***
510436 TCACGAACTTAGACTTTACAAAGATTTATGTGGAAAAAAGCCTTTCTGGAGAAACCAAAGCATCA
130 GCACGAACTTAGACTTTACAAA-AATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCA
* * * ** *
510501 ATATCATGTATTCTAACAAGAAGACTACATTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAG
194 ATATCGTGTATCCTTATGAGAAGACTACATTTA----GCCTTAT--T------AAT-GGGATTAA
** * * * * *
510566 TATGAG-TATTAATGTTTATCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAGGT-TGGAAA
246 TATG-GCTATTAATGTTTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAA-CTAT-AAAA
* * * * * * * * * *
510629 -GAAAAG-CTTTTCTTACGACACC-AAAGTATCAATGCCGTGTATCCT-ATCGAAAGAAATGTGT
308 TGAAAAGAATTTT-TTACGAC-CCTAAAGCACCAATGCCTTATCTCCTAAT-GAAGGGAATCTGG
* * ** *
510690 TTTTGGTTCCTAATCTTGAAAAA-AATAGCGACTGTTAAGAGAATCGATGCTTGTCTTATTTAAG
370 TTTTGGTTCCTAATCTT-AAAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAG
* * *
510754 GGATGAACTTTGATTTAAAGGAAAATAAGG-CAAAGAAATGATTTTCATGCAAAAGAAAATT-TC
434 GGATGAACTTTGATTTCAAGGAAAAT-AGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATC
* * * * *
510817 CTATATCATTTATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCTAATCACAAAATAAATGAAA
498 AT-TATCATTTATCCTAATGAGGAGAAGGTGTTTATAG---TGCCTAATCACAAAATGAATGAAG
* * * * * * *
510881 ATCGTTACTAGAATCCATGTTTAGCTCACTTAAGGCACGAA-CTAGACTTTACAAAAAGT-GGTT
559 ATCATTACTAGAATCCATGTTTAGCTCATTTGAGACACGAATTTAGACCTTACAAAAATTAGG--
* * * * * * * **
510944 GGAAAAAAGCCTTTCTTGCGAATCTAAAGCATCAATATCATATATCCTAACGAGAAGACTGTGTT
622 GGAAAAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAAACTACGTT
* * * ** * * * * *
511009 TATGATGCCTAATCCT-AAAAAAAT-TGGGATTAGTTTGACTATTTATGTTTGTCTTATTTAAGA
687 TTTGAGGCCTAATCTTGAAATGAATGT-GGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGA
* * * * *
511072 GACAAACTTTGATTTTATCAACAACGTTG-CAAA-GAAAAGC--TTT-TTGCAAAACC-AAAGCA
751 GACAAACTTTTATTCTATCAA-AA--TTGTGAAATGAAAA-CAATTTCTTGC-GACCCTAAAGCA
* * * * * * * ** *
511131 TCAATATCATATAC-CCTAATAAAGGGAATGTGTTTTTGGTTCACTATCTTTGAAATGCTTGGAG
811 CCAATGTCATAT-CTCCTAATGAAGGGAATCTGGTTTTGGTTCCCTATC-TTGAAAAGAATGAAG
* * * ** *
511195 ACAGCTACGAGAATCGATACTCGTCTTATTTAAGGAAT-AAGCTCTGATATTTT---GAAAATAG
874 ACAGTTTCGAGAATCGATGCTTATCTTATTTAAGG-ATGAA-CT-T-TTATTTTAAGGAAAATAG
*
511256 GG
935 GA
* ** ** *
511258 TAAAGAAAAGATTTT-AGTACAAAAAAAAATTAAAAATATCATTTATCCTAAT-AAGGAGAATGG
1 TAAAGAAAAGATTTTCA-TGCAAAAGGAAATTATCATTATCATTTATCCTAATGAA-GAGAA-GG
* * * *
511321 -GTTTATGGTGCCTAATCAC-AAATGAATAAAGATCATTACTAGAATCTATGTTTATCTCATTTG
63 TGTTTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTG
* * * * *
511384 AAGCATGAACTTAAACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTTGAAACCAAAGCTTC
128 AGGCACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATC
* * * *
511449 AATATCGTGTATCCTTATGAGAAGAATACGCTTATGGTGCCTAATCCTAAAGTGAATGAGGATTA
193 AATATCGTGTATCCTTATGAGAAGACTA--C--AT--T---T-AGCCT-TA-TTAATG-GGATTA
* * * * * * *** *
511514 ATATGACTATTAATGCTGGCGTTATTTAAAAGATAAACTTTTATTCTATCGAAAACTGTGGTATA
245 ATATGGCTATTAATGTTTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATG
* * ** * * * * *
511579 AAAACAATTTCTTGTGACCGTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGG-ATCTGTTTTTG
310 AAAAGAATTTTTTACGACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTG
* * * *
511643 GTTCCTAATCTTCAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATAA
375 GTTCCTAATCTTAAAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGA
* * * *
511708 ACTTTGATTTCAAGGAAAATAGGGCAAA-AAAATGATTTCCACGCAAAAGGAAATTATCATTAAC
440 ACTTTGATTTCAAGGAAAATAGGACAAAGAAAA-GATTTTCATGCAAAAGGAAATTATCATTATC
* * * * * *
511772 TTTTATCCTAATGAGGAGAATGTGTTTATCA-AGCCTAATCAGAAAATGAATAAAGATCAGTACT
504 ATTTATCCTAATGAGGAGAAGGTGTTTAT-AGTGCCTAATCACAAAATGAATGAAGATCATTACT
* ** * * * * * * *
511836 AGAATCTATGTTCGGCACATTTGTGGCACAAAGTTAGACTTTACAAAAATTTGTGGGAAAAAAGC
568 AGAATCCATGTTTAGCTCATTTGAGACACGAATTTAGACCTTACAAAAATTAG-GGGAAAAAAGC
511901 CTTT-TTAGT-GAAACCAAAGCATCAATATCATGTAT
632 CTTTCTT--TCGAAACCAAAGCATCAATATCATGTAT
511936 TCTAACGAGA
Statistics
Matches: 2195, Mismatches: 287, Indels: 158
0.83 0.11 0.06
Matches are distributed among these distances:
936 3 0.00
937 998 0.45
938 70 0.03
939 2 0.00
943 6 0.00
945 1 0.00
946 51 0.02
947 63 0.03
948 140 0.06
949 146 0.07
950 63 0.03
951 128 0.06
952 67 0.03
953 286 0.13
954 104 0.05
955 62 0.03
956 2 0.00
957 1 0.00
958 1 0.00
959 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (936 bp):
TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAAGAGAAGGTGT
TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
CACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAAT
ATCGTGTATCCTTATGAGAAGACTACATTTAGCCTTATTAATGGGATTAATATGGCTATTAATGT
TTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
ACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCCTAATCTTAAAA
AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAGGA
AAATAGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGA
GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTC
ATTTGAGACACGAATTTAGACCTTACAAAAATTAGGGGAAAAAAGCCTTTCTTTCGAAACCAAAG
CATCAATATCATGTATCCTTATGAGAAAACTACGTTTTTGAGGCCTAATCTTGAAATGAATGTGG
ATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCAAAATTGTGAA
ATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCATATCTCCTAATGAAGGGAATCTGGTT
TTGGTTCCCTATCTTGAAAAGAATGAAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGAT
GAACTTTTATTTTAAGGAAAATAGGA
Found at i:518234 original size:475 final size:470
Alignment explanation
Indices: 517213--522628 Score: 4534
Period size: 475 Copynumber: 11.4 Consensus size: 470
517203 CTTTTCCTTA
* ** * * * *
517213 CCCTTAAATAAGACAAGCATCGATTCTC-ATAGCAGTCTCCAAGCCTTGCAAGGTTAGTGAACCA
1 CCCTTAAATAAGACAAGCATCGATTCTCGA-AACAGTCTCCATTCTTTTCAAGATT-GGGAACCA
* *
517277 AAAACACATTCCCTTC-TTAAGGGTACATGACATTGATGCTTTGGTGTCGCAA-AAAGCTTTTCT
64 AAAACATATTCCCTTCATT-AGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAGCTTTTCT
* * *
517340 TTGCAACGTTTTTAATAAAATCAAAGTTTATCTCTTAAATAAGATAAAC-TTGAATAGTCATACT
128 TT-CAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATT-AATAGTCATACT
* * *
517404 AATCCCCATTGTTTTTAGGATTAGGGTACGATAAAACATAGTCTTCTCATTAGGATACATGATAT
191 AATCCCCATTCTTTTTAGGATTA-GGCACCAT-AAACATAGTCTTCTCATTAGGATACATGATAT
* * * * * * * *
517469 TAAAGCTTTGGATTCACAAAAGAAAGGGGTTTTTTCCAACCAATTTTTGTAAAGTCTAAATTCAT
254 TGATGCTTTGGTTTCAC--AAGAAA--GGCTTTTTCCCACAAATTTTTGTAAAGTCTAAGTTCGT
* * * * *
517534 GCCTCAAATGAGCCAAACATGGATTCTAGTAACGACCTTCTTTTTATTTTGTGACTAGGCACTAT
315 GCCTCAAATGAGCC-AACATGGATTCTAGTAATGATCTTC-ATTCATTTTGTGATTAGGCACTA-
* * ** * *
517599 TAAACCACATTCTTCTCAATAGGATAAATGATATTGGCAATTTTCTTTTGCATGGAAATCTTTTC
377 TAAA-CACATTCTCCTCATTAGGATAAATGATATTGATAA-TTTCCTTTGCATAGAAATCTTTTC
* *
517664 TTTGCCATGTTTTCCTTAATATCAAAGTTCAT
440 TTTGCCCTATTTTCCTTAA-ATCAAAGTTCAT
** * * *
517696 CCCTTAAATAAGACAAGTGTCGATTCTCGTAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* * * *
517761 AACATATTCCGTTCATTAGGATACATAACATTGATACTTTGGTGTTGCAAGAAAGCTTTTCTTTC
66 AACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAGCTTTTCTTTC
* * * ** * *
517826 TAACTTTTTTGGTAGAATCAAAGTTTATCTTTTAAATAAGGGAAACATTAATACTCAAACTAATC
131 -AACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAATC
* * ** * *
517891 CCCATTCTTTTTCAAGA-TAGGGAACCGCAAACATAGTCTTCTCATTAGAATATATGATATTGAT
195 CCCATTCTTTTT-AGGATTA-GGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGAT
* * *
517955 GCTTTGGTTTCACCAGAAAGGCTTTTTCCCACAAATTTTTGTAAAGTCTAAGCTCGTGCCACAAA
258 GCTTTGGTTTCACAAGAAAGGCTTTTTCCCACAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAA
* * * *
518020 TGAGCCAACATAGATTCTAGTAATGATCTTTTATTCATTTTTTGATTAGGCACGAATAAACACAT
323 TGAGCCAACATGGATTCTAGTAATGATC-TTCATTCATTTTGTGATTAGGCAC-TATAAACACAT
* * *
518085 TCTCCTTATTAGGATAAATGATA-TGATAATGTCCTTTGGATTAGAAATCTTTTCTTTGCCCTAT
386 TCTCCTCATTAGGATAAATGATATTGATAATTTCCTTTGCA-TAGAAATCTTTTCTTTGCCCTAT
* * *
518149 TTTCCTTGAATTAAAATTCAT
450 TTTCCTTAAATCAAAGTTCAT
* * *
518170 CCCTTAAATAAGATAAGCCATCGATTCTCGAAATAGTCTCCATTCTTTTCAAGATTGAGAACC-A
1 CCCTTAAATAAGACAAG-CATCGATTCTCGAAACAGTCTCCATTCTTTTCAAGATTGGGAACCAA
* * * * * * * * * *
518234 ATATAGATTCTCTTCTTTAGGAGACAAGACATTGGTGCTTTTAGG-GTCACAAGAAATTCTTTTC
65 AAACATATTCCCTTCATTAGGATACATGACATTGATGC-TTT-GGTGTCGCAAGAAA-GCTTTTC
* * * *
518298 ATTTCCACAGTTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGGCAAACATTAATAGCCATAC
127 -TTTCAAC-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATAC
* ** * * * * * *
518363 TAATGCAGA-TCGTTTTCAAGATTAGGCCCCAAAAACGTAGTCTTCTCATAAGGATACATGATAT
190 TAATCCCCATTC-TTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATAT
* * * *
518427 TGATGCTTTGGTTTCGAAAAGAAAGGCTTTCTTCCCCCTAATTTTCGTAAAGTCTAAGTTCGTGC
254 TGATGCTTTGGTTTC-ACAAGAAAGGCTTT-TTCCCACAAATTTTTGTAAAGTCTAAGTTCGTGC
* * * *
518492 CTCAAATGAGGACAAACATGGTTTCTAGTAAT-ATTCTT-ATTCATGTTATGATTAGGCACTATG
317 CTCAAATGA-G-CCAACATGGATTCTAGTAATGA-TCTTCATTCATTTTGTGATTAGGCACTAT-
* * ** * * * *
518555 AATC-CATTCT--TCTTGTAGGATAAATG-TATTCTTTATTTCTTTTGCA-CGAAAATCTTTTTT
378 AAACACATTCTCCTCAT-TAGGATAAATGATATTGATAATTTCCTTTGCATAG-AAATCTTTTCT
* * * *
518615 TTGCCGTATTTTCCTAAAAATCAGAGCTCAT
441 TTGCCCTATTTTCCT-TAAATCAAAGTTCAT
* * * * ** *
518646 CGCTTAAATAAGAACAAGCATCGATTCTCGTAGCAGCCTCCAAGCTTTTCAAAGATTGTGAACCA
1 CCCTTAAATAAG-ACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTC-AAGATTGGGAACCA
* * * * * * * *
518711 AAAGCACATTCCCTTCATTAGTATTCATCACATTGATGCTCTAGTGTCGCAAAAAAGC-TTTCTT
64 AAAACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAGCTTTTCTT
* * * * * * *
518775 GCAATGTTTTTGATAGAATCAATGCTTGTCT-TT---TAA-AC--A-A-GAA-AGCCATACTAAT
129 TCAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAAT
* * * * *
518830 CCCCATTGTTTTTAGGAGTAGGCAACTATAAACACAGTCTTCTCATTAGGATACATGATATTGCT
194 CCCCATTCTTTTTAGGATTAGGC-ACCATAAACATAGTCTTCTCATTAGGATACATGATATTGAT
** * * * *
518895 GCTTTGGATTT-GTAAG-AAGGTTTTTTCCAACCAAATTTTTTGTAAAGTCTAAATTCATGCCTC
258 GCTTTGG-TTTCACAAGAAAGGCTTTTTCCCA-CAAA-TTTTTGTAAAGTCTAAGTTCGTGCCTC
* ** * * *
518958 AAATGAGCCAAACATGGATTCCAGTAACAATTTTCATTTATTTTGTGACTAGGCACTATAAACAC
320 AAATGAGCC-AACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * ** ** *
519023 ATTCTCCTCAATAGGAAAAATGATATTGGCAATTTTATTTTGCATGGAAATCTTTTCTTTGCCCT
384 ATTCTCCTCATTAGGATAAATGATATTGATAA-TTTCCTTTGCATAGAAATCTTTTCTTTGCCCT
*
519088 ATTTTCCTTAAAATCAAAAGTTCCT
448 ATTTTCCTT-AAATC-AAAGTTCAT
* * * * * *
519113 CCTTTAAATAAGGACAAGCGTCAATTCTCGTAACAGTCTCTATTCTTTTCAAGATTGGGAACCGA
1 CCCTTAAATAA-GACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTCAAGATTGGGAACCAA
*** * *
519178 AAACATATTCTGATCACTAGGATACATGACATTGATGCTTTGGTGTCGTAAGAAAAGCCTTTTCT
65 AAACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG-AAAG-CTTTTCT
* * * * * * *
519243 TTCCAA-ATTTTTTATTAGAATCAAAGTTTTATCTTTTTAAAAAAGACAAGCATTAATACTCTTA
128 TT-CAACGTTTTTGA-TAGAATCAAAG-TTTATC-TCTTAAATAAGACAAACATTAATAGTCATA
* * * ** * ** * *
519307 CTAATCTCCATTCTTTTAAGGATAAGGCACTTGTAAACATTGTCTTCTCACAAGAATGCATGATA
189 CTAATCCCCATTCTTTTTAGGATTAGGCAC-CATAAACATAGTCTTCTCATTAGGATACATGATA
*
519372 TTGATGCTTTGG-TTCACCAGAAAGGGCTTTTTCCC-CTAAATTTTTGTAAAGTCTAAGTTCGTG
253 TTGATGCTTTGGTTTCACAAGAAA-GGCTTTTTCCCAC-AAATTTTTGTAAAGTCTAAGTTCGTG
* * * * * *
519435 CCACAAATGAGCCAACATAGATTCGAGTAAAGATCTTTATTCATTTTCG-GATTAGGC-GTGGAT
316 CCTCAAATGAGCCAACATGGATTCTAGTAATGATCTTCATTCATTTT-GTGATTAGGCACT--AT
* *
519498 AAACACATTTTCCTCATTAGGATAAATGATAATGATAATTTCCTTTGCAT-GAAATCTTTTCTTT
378 AAACACATTCTCCTCATTAGGATAAATGATATTGATAATTTCCTTTGCATAGAAATCTTTTCTTT
*
519562 TCCCTATTTTCCTTGAAATC-AAGTTCAT
443 GCCCTATTTTCCTT-AAATCAAAGTTCAT
* * **
519590 CCCTTAAATAAGATAAGTAATCGATTCTCGAAACAGTCTCCATT-TTTTCAAGATTAAGAA-CAA
1 CCCTTAAATAAGACAAG-CATCGATTCTCGAAACAGTCTCCATTCTTTTCAAGATTGGGAACCAA
* * * * * * ** *
519653 AAACAGA-TCCCTTCATTAAGGAGACAAGACATTGGTGATTTAAG-GTCTTAAGAAATTCTTTTC
65 AAACATATTCCCTTCATT-AGGATACATGACATTGATGCTTT-GGTGTCGCAAGAAA-GCTTTTC
* * * *
519716 ATTTC-ACAGTTTTTGATAGAATAAAAATTTGTCTCTT-AATAAGGCAAACATTAATAGTCATAC
127 -TTTCAAC-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATAC
* * * * * **
519779 TAATCCTCATTCATTATAGGATTAGGCACCATAAACATAGTCTTCTCATAATGATACACAATATT
190 TAATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATT
* *** * * * *
519844 GATGCTTTGATTTCGGGAGTATGGCTTTCTTCCC-CTTAATTTTTGTAAAGTCTAAGTTTGTGCC
255 GATGCTTTGGTTTCACAAGAAAGGCTTT-TTCCCAC-AAATTTTTGTAAAGTCTAAGTTCGTGCC
* * * * **
519908 TCAAATGAGACAAACATGGAATCTAGTAATCATCTTTATTCA-TTTGCAATTAGGCACTATAAAC
318 TCAAATGAG-CCAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAAC
* * ** * *
519972 -CCTTCTCCTCGTTA-GATAAATGATATTTTTATTTTCTTTTG--TACGAAAATCTTTTCTTTGC
382 ACATTCTCCTCATTAGGATAAATGATATTGATAATTTCCTTTGCATA-G-AAATCTTTTCTTTGC
* * * * *
520033 CCTATGTTCCTAAAAATTAGAGCTCAT
445 CCTATTTTCCT-TAAATCAAAGTTCAT
** * * * * * * ** * * *
520060 CCCTTAAATAAGATGAGCAAT-GCTTTTTGTAGCAGTGTCCAAGCTTTTCGAAGGTAGTGAACCA
1 CCCTTAAATAAGACAAGC-ATCGATTCTCGAAACAGTCTCCATTCTTTTC-AAGATTGGGAACCA
* * * * *
520124 AAAACACATTCCGTTTATTAGG-TACATGACATTGATGCATTGGTGTCACAA-AAAGCTTTTCTT
64 AAAACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAGCTTTTCTT
* * * * *
520187 TGCAATGTTTTTGATA-AATTAAAGTTTGTCTCTTAATTAAGACAAACATGAATAGTCATAC-AC
129 T-CAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTA-
* * ** * *
520250 ATCCCCATTC-TTTTAGGATTGGGCACCCTAAACATAGTCTTCTTGTTAGGATATATGATTTTGA
192 ATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGA
* * * **
520314 TGCTTTGGTTTTGCACAAGAAAGTCTTTTCTCCCACCAATTTTTGTAAAGTCCAAGTTTTTGCCT
257 TGCTTTGG-TTT-CACAAGAAAGGCTTTT-TCCCACAAATTTTTGTAAAGTCTAAGTTCGTGCCT
* * * * * *
520379 CAAATGAGACAAACACGGGTTCTAGTAATGATCTTCGTTCATTTTGTGATTAGGCACTCTAAATA
319 CAAATGAG-CCAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* ** * * *
520444 CATTCTCCTCGTTAGGATAAATGATATTTTTGATTTTCTTTTGCA-CGAAAATCTTTTCTTTGCC
383 CATTCTCCTCATTAGGATAAATGATATTGAT-AATTTCCTTTGCATAG-AAATCTTTTCTTTGCC
*
520508 CTATTTTCCTTAAATC-AATTCTCAT
446 CTATTTTCCTTAAATCAAAGT-TCAT
* * * * ** * *
520533 CCCTGAAATAAGACAA-CATCGATTCTCGTAGCAATCTCCAAGCTTTTCAAAGATTGTGAAGCAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTC-AAGATTGGGAACCAA
* * *
520597 AAACA-CTTCCCTTCGTTAGGATACATGACATTGATGCTTTGGTGTCGC--GAAAGGCTTTTTTT
65 AAACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAA-GC--TTTTC
* * * * *
520659 TTTGCAACGTTTTTGATAGAATTAAAGATTGA-CTCTTAAATAAGACACACCTGAATAGTCATAC
127 TTT-CAACGTTTTTGATAGAATCAAAG-TTTATCTCTTAAATAAGACAAACATTAATAGTCATAC
** * * * * * *
520723 TAATCCTTATTCTTTTTAGGATTAGGAACAATAAACATAATTCGTCTCATTAAGGACACATAATA
190 TAATCCCCATTCTTTTTAGGATTAGGCACCATAAACAT-AGTCTTCTCATT-AGGATACATGATA
* * * * *
520788 TTAATGCTTTGGTTTCGCAAGAAAAGCTTTCTTCCC-CTAATTTTTGTAAAGTCTAAGTTCGAGC
253 TTGATGCTTTGGTTTCACAAGAAAGGCTTT-TTCCCACAAATTTTTGTAAAGTCTAAGTTCGTGC
* * * * *
520852 CTAAAATGAGCCAAACATGGATTTTAGTAATGATCTTCATTCAATTTGTGATTAGGGAATATAAA
317 CTCAAATGAGCC-AACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAA
* * * * * * * * *
520917 CAAATTCTCCTCATTAGGATAAATGATACTGATGATTTTCTTTTTCTTTGAAATATTTTCTTTGG
381 CACATTCTCCTCATTAGGATAAATGATATTGAT-AATTTCCTTTGCATAGAAATCTTTTCTTTGC
520982 CCTATTTTCCTTAAAATCAAAGTTCAT
445 CCTATTTTCCTT-AAATCAAAGTTCAT
* * * * * *
521009 CCTTTAAATAAGTCAAGCATCAATTCTCAAAATAGTCTCCATTGTTTTCAA-ATTGGGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
*** * * *
521073 AACACCT-TTTTTTTCATTAGGATACATGACATTAATG-ATTGGTGTCGTAAGGAAAAGCTTTTC
66 AACA--TATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAA-G-AAAGCTTTTC
* * *
521136 TTTCCAACG-TTTTGATAGAATC-AAGTTTATCTCTTAAATATGACAAACATGAATTGGTCATAC
127 TTT-CAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAA-TAGTCATAC
* * * *
521199 TAATCCCCATTC-TTTTGGGATTAAGCACCATAAACACAGTCTTCTCATTAGGATGCATGATATT
190 TAATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATT
* * * * ** *
521263 GATGATTTAGATTCTCAAGAAAGGCTTTTTTCTAACCAATTTTTGTAAAGTCTAAGTTCGTGCCT
255 GATGCTTTGGTTTCACAAGAAAGGC-TTTTTCCCACAAATTTTTGTAAAGTCTAAGTTCGTGCCT
* * * * * * *
521328 CAAATGTGCAAACATGGATTTTAGTAATGTTCGTCATTCATTTTGTGAGTAGGCACTACAAACAC
319 CAAATGAGCCAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * * * *
521393 GTTCTTCTCATTAGGATAAAAGATATTGACGATTTTCTTTTACAT-GAAAATCTTTTC-GTGCCC
384 ATTCTCCTCATTAGGATAAATGATATTGA-TAATTTCCTTTGCATAG-AAATCTTTTCTTTGCCC
*
521456 TATTTTCCCTAAAATCAAAGTTCA-
447 TATTTT-CCTTAAATCAAAGTTCAT
* *
521480 CCCTTAAATAAGACAAGCATCGATTCT-AATAACAGTCTCCATTCCTCTTCAAGATTGGGAACC-
1 CCCTTAAATAAGACAAGCATCGATTCTCGA-AACAGTCTCCATT-CTTTTCAAGATTGGGAACCA
* * * * * *
521543 AAAACATATTGCCTTCAATAGGATACATGACATTGATGCTTGGGTGTAGTAAGAAAAGCGTTTCT
64 AAAACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG-AAAGCTTTTCT
* * * * *
521608 TTCTAACTTTTTTTTGACAGAATCAAAGTTTGTCT-TTAAAATAAGGCAAACATTAATACTCATA
128 TTC-AAC--GTTTTTGATAGAATCAAAGTTTATCTCTT-AAATAAGACAAACATTAATAGTCATA
*** * ** * * *
521672 CTAATCTTTATTCTTTTTAGGATAAGGCACTGTAAACATAGTCTTCTCATTTGAATACATGGTAT
189 CTAATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATAT
* *
521737 TGATGC-TTGGTTTCACTAGAAAGGCTTTTTCCCACAAATTTTTGTTAAGTCT-AGTTCGTGCCT
254 TGATGCTTTGGTTTCACAAGAAAGGCTTTTTCCCACAAATTTTTGTAAAGTCTAAGTTCGTGCCT
* * * * *
521800 CAAATTAGCCAAACATAGATTCTAGTAATGATGTTCATTCATTTTCTGATTAGACACTATAAACC
319 CAAATGAGCC-AACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAA-C
* * ***
521865 ACCATTCTCCTCATTCGGATAAATGATAATGATAATTTCCCTTTTGCATAGAAATCTTTTCCCAG
382 A-CATTCTCCTCATTAGGATAAATGATATTGATAATTT-CC-TTTGCATAGAAATCTTTTCTTTG
*
521930 CCCTATTTT-CTTGAAATCATAGTTCAT
444 CCCTATTTTCCTT-AAATCAAAGTTCAT
* * * * * * * *
521957 CCCGTAAATAAGAACAAACACCGATT-TCCATAATAGTCTCAATTTTTTTCATGATTGGGAACCA
1 CCCTTAAATAAG-ACAAGCATCGATTCTCGA-AACAGTCTCCATTCTTTTCAAGATTGGGAACCA
* * * * * * *
522021 AAAACACATTTCCCTTCATTAAGAGACATGGCATTGGTGCTTTAGG-ATCGCAAGAAGAATTCTT
64 AAAACATA-TTCCCTTCATTAGGATACATGACATTGATGCTTT-GGTGTCGCAAG-A-AA-GC-T
* * * * * * * ***
522085 TTTCAATTCCACAGTTTTCGATAAAATAAAAG-TTGTCTCTTAAATAAGATATTTATTAATAGTC
123 TTTC-TTTCAAC-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTC
* * * ** ** * *
522149 ATACTAATCCCTATTCCTTTCAGGATTAATCACTGTAAACATAGTCTTCTCATAAGGATACAGGA
186 ATACTAATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGA
* ** * * * **
522214 TA-TGATG-TCTTGGTCTCTTAAG-AAGGCTTTTTTTCTACCAATTTTTGTAAAGTCTAAGTTTA
251 TATTGATGCT-TTGGTTTCACAAGAAAGGC-TTTTTCCCACAAATTTTTGTAAAGTCTAAGTTCG
**
522276 TGCCTCAAATGAGCCAAACACAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTAT
314 TGCCTCAAATGAGCC-AACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTAT
* * * * * ** * *
522341 AAACACCTTTTCCTCATTAGAATAAATGATACTGATGATTTTGTTTTGC-TTGAAATATTTTCTT
378 AAACACATTCTCCTCATTAGGATAAATGATATTGAT-AATTTCCTTTGCATAGAAATCTTTTCTT
522405 TGCCCTATTTTCCTGTAAAATCAAAGTT-AT
442 TGCCCTATTTTCCT-T-AAATCAAAGTTCAT
* * * *** * ** * *
522435 CCCCTAAATAAGACAAGCATCAATTCTTGCTTCTGTCTCCAAGCTTCTCAAAGA-CGGGAACC-A
1 CCCTTAAATAAGACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTC-AAGATTGGGAACCAA
* * *
522498 AAGCATATTCCTTTCATTAGGATACATGACATTAATGCTTTGGTG-CAGCAA-AAAGCTTTTCTT
65 AAACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTC-GCAAGAAAGCTTTTCTT
* * *
522561 TGCAACATTTTTGATAAAATCAAAGTTTATCTCTTAAATAA-A-AAAAATTGAATAGTCATACTA
129 T-CAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATT-AATAGTCATACTA
522624 ATCCC
192 ATCCC
522629 TAGTATTTAG
Statistics
Matches: 3965, Mismatches: 780, Indels: 390
0.77 0.15 0.08
Matches are distributed among these distances:
461 5 0.00
462 32 0.01
463 86 0.02
464 54 0.01
465 11 0.00
466 93 0.02
467 50 0.01
468 100 0.03
469 158 0.04
470 196 0.05
471 245 0.06
472 193 0.05
473 282 0.07
474 257 0.06
475 532 0.13
476 318 0.08
477 353 0.09
478 210 0.05
479 121 0.03
480 194 0.05
481 159 0.04
482 171 0.04
483 140 0.04
484 5 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (470 bp):
CCCTTAAATAAGACAAGCATCGATTCTCGAAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
AACATATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAGCTTTTCTTTC
AACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAATCC
CCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGATGCT
TTGGTTTCACAAGAAAGGCTTTTTCCCACAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGA
GCCAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCC
TCATTAGGATAAATGATATTGATAATTTCCTTTGCATAGAAATCTTTTCTTTGCCCTATTTTCCT
TAAATCAAAGTTCAT
Found at i:523672 original size:475 final size:478
Alignment explanation
Indices: 522669--526106 Score: 1382
Period size: 478 Copynumber: 7.1 Consensus size: 478
522659 TTCTACCAAC
* ** * *
522669 TTTTGTAAAGTCTAAGTTCGTGCCTCAAATTAGAGAGAAACA-AGGACTCTAGTAATGATCTTCA
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAA-T-GAGCCAAAGATA-GATTCTAGTAATGATCTTCA
* * * * *
522733 TTCATTCTATGATTAGGCACTATAAACACATTCTCCATATTAGGATAAAAGATATTGATGATTTT
63 TTCATTTTGTGATTAGGCACTATAAACACAATCGCCATATTAGGATAAAAGATATTGATAATTTT
* *
522798 CTTTGCATGGAAATCATTTTCTTTGCCCTATTTTCATTAAATTCAATGTCTATGCCTTTAAAAAA
128 CTTTGCATGAAAATCATTTTCTTTGCCCTATTTTCATTAAATTCAAAGTCTATGCCTTTAAAAAA
* * * *
522863 TATAAGAATCGATTCTCGTAACAATAACTATTCTTTTCAATATTGAGAACCAAAATCACATTCCC
193 GACAAGAATCGATTCTCGTAACAATAACCATTCTTTTCAATATTGAGAACCAAAAACACATTCCC
* * * *
522928 TTCATTAGGATAAAGGACATTGATGCTTTTCGGTCGCAGGAGGAAACGCTTTTCTTTCCACCAAT
258 TTCATTAGGACAAAGGACATTGATGCTTTGCGGTCACA-GAGGAAAAGCTTTTCTTTCCACCAAT
* * **
522993 TTTGATAGAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACAGTCATACTTATCGTATTTC
322 TTTGATAGAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACACTCATACTAATCCCATTTC
* * ***
523058 TTTTAAGATTATGGCACTATAAACATAGTTCTTCTCATAAGGACACATGATATTGGTGCTTGATT
387 TTTTAAGATTATGGCACCATAAACATAGTTCTTCTCATAACGACACATGATATTGACACTTGATT
* * *
523123 TCGAAAGAAAGGCTTTCTTGTCCCAAT
452 TCGAAAGAAAAGCTTTCTTCTCCAAAT
* * * * *
523150 TTTTGTAAAGTCTGAGTTCATGCCTCAAATGAGCTAAAG-TTGATTCTAGTAATTATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAATGATCTTCATTC
* * * * * *
523214 ATTTTGTGATTATG-ACTATAAACATAATCGCCTTTTTAGGATAAAAGCTATTGGCA-AATTTTT
66 ATTTTGTGATTAGGCACTATAAACACAATCGCCATATTAGGATAAAAGATATT-G-ATAATTTTC
*
523277 TTTGCATGAAAAT-ATTTTCTTTGCCCCTATTTTCCTCTTAAA-TCAAAGTTCTCAT-CCTTT-A
129 TTTGCATGAAAATCATTTTCTTTG-CCCTATTTT-C-ATTAAATTCAAAG-TCT-ATGCCTTTAA
** * ** *
523338 AAAAGACAAGCCTCGATTCTCGTAACGATCTCCATTCTTTTCCAA-ATTGGGAACCAAAAACACA
189 AAAAGACAAGAATCGATTCTCGTAACAATAACCATTCTTTT-CAATATTGAGAACCAAAAACACA
* * *
523402 TTCCCTTCATTAGGACACATGACATTGATGCTTTGGGGTCACA-A-GAAAAGC-TTTCTTTCCAC
253 TTCCCTTCATTAGGACAAAGGACATTGATGCTTTGCGGTCACAGAGGAAAAGCTTTTCTTTCCAC
* * * * * * **
523464 CACTTTTGATAGAATCAAAGTTTGGT-TCTTAAATAAGATAAACATTAATTCTCATACTAATCCC
318 CAATTTTGATAGAACCAAAGTTT-GTCCCCTAAATAAGAAAAACATGAACACTCATACTAAT-CC
* * *
523528 CA-TTCTTTTCAAGATTA-GGCACCGTAAACATAG-TCTTCTCAT-TCGATACATGATATTGACA
381 CATTTCTTTT-AAGATTATGGCACCATAAACATAGTTCTTCTCATAACGACACATGATATTGACA
* * *
523589 CTTTGGTTTC-ACTAGAAAAGCTTT-TTCCTTCAAAT
445 C-TTGATTTCGA-AAGAAAAGCTTTCTT-CTCCAAAT
*
523624 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGGGCCAAAGATAGATTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAATGATCTTCATTC
* * * * **
523689 ATTTTGTGATTAGGCACTATAAATACATTCTCC-TCCTTAGGAT-AAA-ATATTGACGATTTTCT
66 ATTTTGTGATTAGGCACTATAAACACAATCGCCAT-ATTAGGATAAAAGATATTGATAATTTTC-
* * * ** * * * ***
523751 TTTGCATGGAAATC---TTCTTTGCCTTATTTTCCTTTGATT----TTCTTTTGCCTATGGGAAA
129 TTTGCATGAAAATCATTTTCTTTGCCCTATTTTCATTAAATTCAAAGTC-TATGCCTTTAAAAAA
* ***** * * * * * * * **
523809 -TCTTCTTTGCCTTATTTTTCCTTACAATCAAAGTTCATCCCTTAACTATGGCAAGCATCTG-TT
193 GACAAGAAT--C-GA-TTCTCGTAACAAT--AA--CCAT-TCTT---T-T--CAA-TAT-TGAGA
* ** * * ** * * ** *** * *
523872 TCTCGTAATAGTCTCCTTTCTTTTAAAGATTGGGAACCAAAAACACATCCCT-CATTAG-GATCC
241 AC-C--AA-AAAC-ACATTCCCTT---CATTAGG-A-C-AAAGGACATTGATGC-TTTGCGGT-C
* ** * * *
523935 ATGACATTAATGCTTTGGGGTTGCAAGAAATGCTTTTCTTTTCACCATTTTTTGATAGAATCAAA
293 ---ACA--GA-G-GA------------AAA-GCTTTTCTTTCCACCA-ATTTTGATAGAACCAAA
* * * * * * ** * * *
524000 ATTTCTCTCATGAATAAGAAAAACATTAA-TGTCAGACTAATCCCCATTTTTTTTTAGGATTA-G
337 GTTTGTCCCCTAAATAAGAAAAACATGAACACTCATACTAAT-CCCA-TTTCTTTTAAGATTATG
* * * *** * * *
524063 GCACCGTCAACATAGTTTTTCTCATTTGGATACATGATATTGACACTTTGCTTTC-ACAAGAAAG
400 GCACCATAAACATAGTTCTTCTCATAACGACACATGATATTGACAC-TTGATTTCGA-AAGAAAA
* *
524127 GCTTTTTTCCCTCAAAT
463 GCTTTCTTCTC-CAAAT
* * * * *
524144 TTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAGATGGATTATAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAATGATCTTCATTC
* *** ** ** *
524209 ATTTTGTAATTAGGCACTATAAACATGTTCTTC-TAATTAGGATAAATA-ATATTGGCCATTTTT
66 ATTTTGTGATTAGGCACTATAAACACAATCGCCAT-ATTAGGATAAA-AGATATT-GATAATTTT
* * * * * * * *
524272 TTGTTGAATGGAAAT-ATTTTCTTTGCCATATTTTCTTTAAAATT-AAAGTTTAT-CCCTTAAAT
128 CT-TTGCATGAAAATCATTTTCTTTGCCCTATTTTCATT-AAATTCAAAGTCTATGCCTTTAAAA
* * * ** * * * * * *
524334 AA-ACAAGCATCGATTCTCATAGCCGTCACCAATCTTTTCAAGATTAAGAACCAAAAACTCATTT
191 AAGACAAGAATCGATTCTCGTAACAATAACCATTCTTTTCAATATTGAGAACCAAAAACACATTC
* * * * * *
524398 CCTTTATTAGGATACATGG-CATTGATGCTTTG-GTGTCACA-A-GAAAATCTTTTCTTTCTAAC
256 CCTTCATTAGGACA-AAGGACATTGATGCTTTGCG-GTCACAGAGGAAAAGCTTTTCTTTCCACC
* * * * * * *
524459 ATTTTTGACAGAATCAAAGGTTTGTCTCGTAAATAAGACAAACATGAATACTCATACTAAATCCC
319 AATTTTGATAGAACCAAA-GTTTGTCCCCTAAATAAGAAAAACATGAACACTCATACT-AATCCC
* * * * * * * * * * **
524524 ACATTCTTTTCCAGATT-GGGCACCATAAGCATGGTT-TTCTCGTTAGGAGTAAACTGATATCAA
382 A-TTTCTTTT-AAGATTATGGCACCATAAACATAGTTCTTCTCATAACGA-CACA-TGATATTGA
** * * * *
524587 TGCTTTCG-TTTTGCAAG-AAAG-GTTCTTTTCCCACCAAT
443 CAC-TT-GATTTCGAAAGAAAAGCTTTCTTCT-CCA--AAT
* * * * * * * * *
524625 TTTTGTAATGTCTAAGTCCATACCTC-AATAAGCAAAACATGGATTCTAGTAATAATCTTCAATC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAATGATCTTCATTC
* * * *
524689 ATTTTATGATTAGGCACTATAAACACATTCTCC-TCATGAGGATAAAAGATATTGA-AGA-TTTC
66 ATTTTGTGATTAGGCACTATAAACACAATCGCCAT-ATTAGGATAAAAGATATTGATA-ATTTTC
* * *
524751 TTTCGC-TGGAAA-CCTTTTCTTTGCCCTATTTTCCTTGAAA-TCAAAGTTCGTA--CC-TTAAA
129 TTT-GCATGAAAATCATTTTCTTTGCCCTATTTTCATT-AAATTCAAAG-TC-TATGCCTTTAAA
* * * * ** * * * *
524810 TAAGGACAAGCATCGATTCTTGTAATCAGTCTTCCATTC-TTTCAAGATTAGTAAAACTAAAAGC
190 -AAAGACAAGAATCGATTCTCGTAA-CAAT-AACCATTCTTTTCAATATT-G-AGAACCAAAAAC
* * * * * * ** * *
524874 ACAGTCCTTTCATTAAGATACATGACATTGATGC-TTG-GTGTCGTA-A-AAAAAGTTTTTCTTT
250 ACATTCCCTTCATTAGGACAAAGGACATTGATGCTTTGCG-GTCACAGAGGAAAAGCTTTTCTTT
** ** * * * * * * *
524935 -CGTCGTTTTTTATGGAATCAACGTTTGTCTCTCTTAAA-AA-AAACAA-A-GAATAGTCATACT
314 CCACCAATTTTGATAGAACCAAAGTTTGTC-C-CCTAAATAAGAAA-AACATGAACACTCATACT
* * * ** *
524995 AATCCC-TATTCTTTTTAAGATTA-GGCACTATAAAACATAATT-TTCTCATAAGGGTACACGAT
376 AATCCCAT-TTC-TTTTAAGATTATGGCACCAT-AAACATAGTTCTTCTCATAACGACACATGAT
*** * ** * * *
525057 ATTGATGTTTTGCTTTCTCAAGAAAGGCTTTTCTTCCCCCTAAT
438 ATTGA-CACTTGATTTCGAAAGAAAAGC-TTTCTT-CTCCAAAT
** * * *
525101 TTTTGTAAAGTCTAAGTTCATGCCAAAAATGAGCCAAACATGGATTTCTAGTAATGATTTTCATT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGA-TTCTAGTAATGATCTTCATT
* * * * * * **
525166 CATTTTGTGGTTTGGCACTATAAATACATTCTCC-TCATTAGGAT-AAAGATATTAACGATTTTC
65 CATTTTGTGATTAGGCACTATAAACACAATCGCCAT-ATTAGGATAAAAGATATTGATAATTTTC
* * *
525229 TCTTGCATTGGAAAATC-TTTTCTTTACCCTATTTTCCTTAAAATCAAAGT-TCAT-CCTTTAAA
129 T-TTGCA-T-GAAAATCATTTTCTTTGCCCTATTTTCATTAAATTCAAAGTCT-ATGCCTTTAAA
* * * * * * * * **
525291 TAAGACAAGCATCGATTCTCGTAATAGT-CCCAATTCTTTTAAAGATTGGGAAATAAAAAACACA
190 AAAGACAAGAATCGATTCTCGTAACAATAACC-ATTCTTTTCAATATTGAG-AACCAAAAACACA
* * * * * * * * * *
525355 TTCCCTTCATTAGGATACATGAGAGTAATGCTTTGGGGTCGCA-A-GAAATGCTTTTCTTTTCAC
253 TTCCCTTCATTAGGACAAAGGACATTGATGCTTTGCGGTCACAGAGGAAAAGCTTTTCTTTCCAC
* * ** * ** * * * *** *
525418 CATTTTTGATATTAATTAAAATTTGTTTCTTAAATAAGACAAACATTAATTGTCATGCTAATCCC
318 CAATTTTGATA-GAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACACTCATACTAAT-CC
* * * * * * *
525483 CA-TTCTTTTCAGGATTA-GGCATCGTCAACATAG-TCTTCTCAT-TCAGATACATGATATAGAC
381 CATTTCTTTT-AAGATTATGGCACCATAAACATAGTTCTTCTCATAAC-GACACATGATATTGAC
* *
525544 AC-TGTAGTTT--ACAAGAAAGGCTTT-TTCCCTCAAAT
444 ACTTG-A-TTTCGA-AAGAAAAGCTTTCTTCTC-CAAAT
* * * *
525579 TTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAATGATCTTCATTC
* * ** * * * *
525644 ATTTTGTAATTAAGCACTATAAACACGTTCTCC-TCATTAGGATAAATGATATTGGTGATTTTCT
66 ATTTTGTGATTAGGCACTATAAACACAATCGCCAT-ATTAGGATAAAAGATATTGATAATTTTC-
* * * * * *
525708 TTTGCACGAAAATC-TTTTCTTTACCCTATTTTTC-TTAAAATCAACGT-TCAT-CCCTTAAATA
129 TTTGCATGAAAATCATTTTCTTTGCCCTA-TTTTCATTAAATTCAAAGTCT-ATGCCTTTAAAAA
** * * ** * * * *
525769 AGACAATTATCGATTCTCATAACAGGTCTCCGTTCTTTTCAAGATTGGGAACCAAAAACACTTTC
192 AGACAAGAATCGATTCTCGTAACA-ATAACCATTCTTTTCAATATTGAGAACCAAAAACACATTC
* * * * *
525834 CTTTCATTAGGATACATGATATTGATGCTTTAG-GGTCACA-A-G-AAAGCTTTTCTTTCCA-C-
256 CCTTCATTAGGACAAAGGACATTGATGCTTT-GCGGTCACAGAGGAAAAGCTTTTCTTTCCACCA
* * ** * * * ***
525893 ACTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTGTCACTACTAATCCCCA
320 ATTTTGATAGAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACACTCA-TACTAAT-CCCA
* * * * *
525958 -ATCTTTTCAAGATTA-GGCCCCATAAACATAG-TCTTCTCAT-TCAGATAAATGATATTGACAC
383 TTTCTTTT-AAGATTATGGCACCATAAACATAGTTCTTCTCATAAC-GACACATGATATTGACAC
* * * * *
526019 TTTGGTTTC-ACTAGAAAGGCTTTTTTCCCTCAAAT
446 -TTGATTTCGA-AAGAAAAGCTTTCTTCTC-CAAAT
*
526054 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAA
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAA
526107 ATGTTCATTT
Statistics
Matches: 2299, Mismatches: 474, Indels: 374
0.73 0.15 0.12
Matches are distributed among these distances:
465 3 0.00
466 7 0.00
467 3 0.00
468 1 0.00
469 5 0.00
470 11 0.00
471 8 0.00
472 47 0.02
473 97 0.04
474 101 0.04
475 215 0.09
476 198 0.09
477 236 0.10
478 294 0.13
479 216 0.09
480 206 0.09
481 184 0.08
482 64 0.03
483 6 0.00
485 2 0.00
486 2 0.00
487 6 0.00
490 5 0.00
491 1 0.00
492 4 0.00
493 11 0.00
494 1 0.00
496 3 0.00
497 3 0.00
499 1 0.00
500 10 0.00
501 3 0.00
502 1 0.00
503 5 0.00
506 5 0.00
507 2 0.00
508 2 0.00
510 2 0.00
511 3 0.00
512 3 0.00
514 4 0.00
515 3 0.00
516 28 0.01
517 59 0.03
518 17 0.01
519 42 0.02
520 102 0.04
521 3 0.00
522 7 0.00
523 24 0.01
524 1 0.00
525 19 0.01
526 3 0.00
527 7 0.00
528 2 0.00
529 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (478 bp):
TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATAGATTCTAGTAATGATCTTCATTC
ATTTTGTGATTAGGCACTATAAACACAATCGCCATATTAGGATAAAAGATATTGATAATTTTCTT
TGCATGAAAATCATTTTCTTTGCCCTATTTTCATTAAATTCAAAGTCTATGCCTTTAAAAAAGAC
AAGAATCGATTCTCGTAACAATAACCATTCTTTTCAATATTGAGAACCAAAAACACATTCCCTTC
ATTAGGACAAAGGACATTGATGCTTTGCGGTCACAGAGGAAAAGCTTTTCTTTCCACCAATTTTG
ATAGAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACACTCATACTAATCCCATTTCTTTT
AAGATTATGGCACCATAAACATAGTTCTTCTCATAACGACACATGATATTGACACTTGATTTCGA
AAGAAAAGCTTTCTTCTCCAAAT
Found at i:523816 original size:46 final size:44
Alignment explanation
Indices: 523743--523831 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 44
523733 AAATATTGAC
523743 GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTA-TTTTCCTTT
1 GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTTCCTTT
523786 GATTTTCTTTTGCCTATGGGAAATCTTCTTTGCCTTATTTTTCCTT
1 GATTTTCTTTTG-C-AT-GGAAATCTTCTTTGCCTTATTTTTCCTT
523832 ACAATCAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
43 12 0.29
44 1 0.02
45 2 0.05
46 19 0.45
47 8 0.19
ACGTcount: A:0.13, C:0.19, G:0.12, T:0.55
Consensus pattern (44 bp):
GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTTCCTTT
Found at i:524809 original size:477 final size:477
Alignment explanation
Indices: 523786--526106 Score: 2131
Period size: 478 Copynumber: 4.9 Consensus size: 477
523776 ATTTTCCTTT
* * *
523786 GATTTTCTTTTGCCTATGGGAAATC--TTCTTTGCCTTATTTTTCCTTACAATCAAAGTTCATCC
1 GATTTTCTTTTG-C-AT-GGAAATCTTTTCTTTACCCTA-TTTTCCTTAAAATCAAAGTTCATCC
* * * * * * ** * **
523849 CTTAACTATGGCAAGCATCTGTTTCTCGTAATAGTCTCCTTTCTTTTAAAGATTGGGAACCAAAA
62 CTTAAATAAGACAAGCATC-GATTCTCATAACAGTCTCCAATCTTTTCAAGATTAAGAACCAAAA
* * * * **
523914 ACACA--TCC-CTCATTAGGATCCATGACATTAATGCTTTGGGGTTGCAAGAAATGCTTTTCTTT
126 ACACATTTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAT-CTTTTCTTT
* * * * * * * *
523976 -TCACCATTTTTTGATAGAATCAAAATTTCTCTCATGAATAAGAAAAACATTAAT-GTCAGACTA
190 CT-AACA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTA
* * * * * * ** *
524039 ATCCCCATTTTTTTTTAGGATTAGGCACCGT-CAACATAGTTTTTCTCATTTGGATACATGATAT
253 ATCCCCA-TTCTTTTCAAGATTAGGCACCATAAAACATAG-TCTTCTCATTCAGATAAATGATAT
* * * *
524103 TGACACTTT-GCTTTCACAAGAAAGGCTTTTTTCCCTCAAATTTTTGTAAAATCTAAGTTCGTGC
316 TAACACTTTAG-TTTTACAAGAAAGGCTTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGC
* *
524167 CTCAAATGAGCCAAAGATGGATTATAGTAATGATCTTCATTTATTTTGTAATTAGGCACTATAAA
380 CTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTAATTAGGCACTATAAA
** * * **
524232 CATGTTCTTCTAATTAGGATAAATA-ATATTGGC
445 CACATTCTCCTCATTAGGATAAA-AGATATTGAA
* * * * * * * * *
524265 CATTTTTTTGTTGAATGGAAATATTTTCTTTGCCATATTTTCTTTAAAATTAAAGTTTATCCCTT
1 GATTTTCTT-TTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCCTT
* * * *
524330 AAATAA-ACAAGCATCGATTCTCATAGCCGTCACCAATCTTTTCAAGATTAAGAACCAAAAACTC
65 AAATAAGACAAGCATCGATTCTCATAACAGTCTCCAATCTTTTCAAGATTAAGAACCAAAAACAC
*
524394 ATTTCCTTT-ATTAGGATACATGGCATTGATGCTTTGGTGTCACAAGAAAATCTTTTCTTTCTAA
130 ATTTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCACAAG-AAATCTTTTCTTTCTAA
* * *
524458 CATTTTTGACAGAATCAAAGGTTTGTCTCGTAAATAAGACAAACATGAATACTCATACTAAATCC
194 CATTTTTGATAGAATCAAA-GTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACT-AATCC
* * * * * * *
524523 CACATTCTTTTCCAGATTGGGCACCAT-AAGCATGGTTTTCTCGTT-AGGAGTAAACTGATATCA
257 C-CATTCTTTTCAAGATTAGGCACCATAAAACATAGTCTTCTCATTCA-GA-TAAA-TGATATTA
** * * * * * * *
524586 ATGCTTTCGTTTTGCAAGAAAGG-TTCTTTTCCCACCAATTTTTGTAATGTCTAAGTCCATACCT
318 ACACTTTAGTTTTACAAGAAAGGCTT-TTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGCCT
* * * * * * *
524650 C-AATAAGCAAAACATGGATTCTAGTAATAATCTTCAATCATTTTATGATTAGGCACTATAAACA
382 CAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTAATTAGGCACTATAAACA
*
524714 CATTCTCCTCATGAGGATAAAAGATATTGAA
447 CATTCTCCTCATTAGGATAAAAGATATTGAA
* * * * * *
524745 GA-TTTCTTTCGC-TGGAAACCTTTTCTTTGCCCTATTTTCCTTGAAATCAAAGTTCGTACCTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
** * * *
524808 AATAAGGACAAGCATCGATTCTTGTAATCAGTCTTCCATTC-TTTCAAGATTAGTAAAACTAAAA
66 AATAA-GACAAGCATCGATTCTCATAA-CAGTC-TCCAATCTTTTCAAGATTA--AGAACCAAAA
* * * *
524872 GCACA-GTCCTTTCATTAAGATACATGACATTGATGC-TTGGTGTCGTA-AAAAAAGT-TTTTCT
126 ACACATTTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTC--ACAAGAAA-TCTTTTCT
* * * * * *
524933 TTCGT--CGTTTTTTATGGAATCAACGTTTGTCTCTCTTAA-AA-A-AAACAAAGAATAGTCATA
188 TTC-TAACATTTTTGATAGAATCAAAGTTTGTCTCT-TAAATAAGACAAAC-ATGAATAGTCATA
* * * * * * * * *
524993 CTAATCCCTATTCTTTTTAAGATTAGGCACTATAAAACATAATTTTCTCA-TAAGGGTACACGAT
250 CTAATCCCCATTCTTTTCAAGATTAGGCACCATAAAACATAGTCTTCTCATTCA-GATAAATGAT
* ** * * *
525057 ATTGA-TGTTTTGCTTTCT-CAAGAAAGGCTTTTCTTCCCCCTAATTTTTGTAAAGTCTAAGTTC
314 ATTAACACTTTAG-TTT-TACAAGAAAGGCTTTT-TTCCCTCAAATTTTTGTAAAGTCTAAGTTC
** * * ** *
525120 ATGCCAAAAATGAGCCAAACATGGATTTCTAGTAATGATTTTCATTCATTTTGTGGTTTGGCACT
376 ATGCCTCAAATGAGCCAAAGATGGA-TTCTAGTAATGATCTTCATTCATTTTGTAATTAGGCACT
*
525185 ATAAATACATTCTCCTCATTAGGAT-AAAGATATT-AA
440 ATAAACACATTCTCCTCATTAGGATAAAAGATATTGAA
* *
525221 CGATTTTCTCTTGCATTGGAAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCT
1 -GATTTTCTTTTGCA-TGG-AAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCC
* * * ** **
525286 TTAAATAAGACAAGCATCGATTCTCGTAATAGTC-CCAATTCTTTTAAAGATTGGGAAATAAAAA
63 TTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCAA-TCTTTTCAAGATTAAG-AACCAAAA
* * * * * *
525350 ACACA-TTCCCTTCATTAGGATACATGAGAGTAATGCTTTGGGGTCGCAAGAAATGCTTTTCTTT
126 ACACATTTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAAT-CTTTTCTTT
* * * * * * * *
525414 -TCACCATTTTTGATATTAATTAAAATTTGTTTCTTAAATAAGACAAACATTAATTGTCATGCTA
190 CT-AACATTTTTGATA-GAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTA
* * * * *
525478 ATCCCCATTCTTTTCAGGATTAGGCATCGT-CAACATAGTCTTCTCATTCAGATACATGATA-TA
253 ATCCCCATTCTTTTCAAGATTAGGCACCATAAAACATAGTCTTCTCATTCAGATAAATGATATTA
* * *
525541 GACACTGTAG-TTTACAAGAAAGGC-TTTTTCCCTCAAATTTTTGTAAAATCTAAGTTCGTGCCT
318 -ACACTTTAGTTTTACAAGAAAGGCTTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGCCT
* *
525604 CAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTTATTTTGTAATTAAGCACTATAAACA
382 CAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTAATTAGGCACTATAAACA
* * **
525669 CGTTCTCCTCATTAGGATAAATGATATTGGT
447 CATTCTCCTCATTAGGATAAAAGATATTGAA
* * * *
525700 GATTTTCTTTTGCACGAAAATCTTTTCTTTACCCTATTTTTCTTAAAATCAACGTTCATCCCTTA
1 GATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
** ** **
525765 AATAAGACAATTATCGATTCTCATAACAGGTCTCCGTTCTTTTCAAGATTGGGAACCAAAAACAC
66 AATAAGACAAGCATCGATTCTCATAACA-GTCTCCAATCTTTTCAAGATTAAGAACCAAAAACAC
* * *
525830 -TTTCCTTTCATTAGGATACATGATATTGATGCTTTAGG-GTCACAAGAAAGCTTTTCTTTC-CA
130 ATTTCCTTTCATTAGGATACATGACATTGATGCTTT-GGTGTCACAAGAAATCTTTTCTTTCTAA
* * * * *
525892 CA-CTTTGATAGAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTGTCACTACTAATCCC
194 CATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCA-TACTAATCCC
* * *
525956 CAATCTTTTCAAGATTAGGCCCCAT-AAACATAGTCTTCTCATTCAGATAAATGATATTGACACT
258 CATTCTTTTCAAGATTAGGCACCATAAAACATAGTCTTCTCATTCAGATAAATGATATTAACACT
* * *
526020 TTGGTTTCACTAGAAAGGCTTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATG
323 TTAGTTTTACAAGAAAGGCTTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATG
526085 AGCCAAAGATGGATTCTAGTAA
388 AGCCAAAGATGGATTCTAGTAA
526107 ATGTTCATTT
Statistics
Matches: 1499, Mismatches: 270, Indels: 150
0.78 0.14 0.08
Matches are distributed among these distances:
472 39 0.03
473 72 0.05
474 19 0.01
475 94 0.06
476 216 0.14
477 210 0.14
478 293 0.20
479 107 0.07
480 192 0.13
481 173 0.12
482 79 0.05
483 5 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (477 bp):
GATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTA
AATAAGACAAGCATCGATTCTCATAACAGTCTCCAATCTTTTCAAGATTAAGAACCAAAAACACA
TTTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCACAAGAAATCTTTTCTTTCTAACA
TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCAT
TCTTTTCAAGATTAGGCACCATAAAACATAGTCTTCTCATTCAGATAAATGATATTAACACTTTA
GTTTTACAAGAAAGGCTTTTTTCCCTCAAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGC
CAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTAATTAGGCACTATAAACACATTCTCCT
CATTAGGATAAAAGATATTGAA
Found at i:528815 original size:20 final size:20
Alignment explanation
Indices: 528790--528862 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
528780 ACATCTTTTT
528790 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
***
528810 CATGTATCGATACATCT-TTT
1 CATGTATCGATACAT-TGCAA
528830 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
528850 CATGTATCGATAC
1 CATGTATCGATAC
528863 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:528841 original size:40 final size:41
Alignment explanation
Indices: 528770--528862 Score: 179
Period size: 40 Copynumber: 2.3 Consensus size: 41
528760 CTGCCAAGAA
528770 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
528811 ATGTATCGATACATC-TTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
528851 ATGTATCGATAC
1 ATGTATCGATAC
528863 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 37 0.71
41 15 0.29
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:532389 original size:476 final size:474
Alignment explanation
Indices: 531444--534962 Score: 3661
Period size: 476 Copynumber: 7.5 Consensus size: 474
531434 TATTTAAGGG
* * * * ** ** **
531444 TAAACAAAAGATTTTCATACAAAAGAAAATAAAAAACATCATTTATCCTAACAAGGAG-A-GTGG
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGT-G
* * * *
531507 GTTATAGTGCCTAATCAAAAAAATGAATGAAGATCATTACTAGAATCCATGTTT-GTTTCATTTG
65 TTTACAGTGCCTAATC-ACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAG-CTCATTTG
* *
531571 AGGCACGAACTTAGACTTTACAAAAATT-AGCGGGTAG-AAAGCTTTCTTTCGAAACCAAAGCAT
128 AGGCACGAACTTAGACTTTACAAAAATTAAG-GGGAAGAAAACCTTTCTTTCGAAACCAAAGCAT
*
531634 CAATATCGTGTATCCTTATGAGAAGACTACG---TT-TGCCT--TATT---T--A--TGGATTAG
192 CAATATCGTGTATCCTTATGAGAAGACTACGTTATTGTGCCTAATCTTAAATGAATGTGGATTAG
* * * *
531686 TATGGCTATCAATCTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGA
257 TATGGCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTGAAATGA
* * * *
531751 AAAGATTTTTTTACGACCCTAAAGCACCAATGTCTTATCTCCTAATGAATGGAATCTGGTTTTGG
322 AAAGAATTTCTTGCGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGG
* *
531816 TTCCCTACCTTGAAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAA
387 TTCCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGAA
531881 CTTTTATTTCAAGGAAAATAGGA
452 CTTTTATTTCAAGGAAAATAGGA
531904 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTGT
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTGT
* * *
531969 TTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGGATCCATGTTTAGCTTATTTGAGA
66 TTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTCATTTGAGG
* *
532034 CACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCAAT
131 CACGAACTTAGACTTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCAAT
*
532099 ATCGTGTATCCTTATGAGAAAACTACGTTATTGTGGCCTAATCTTGAAATGAATGTGGATTAGTA
196 ATCGTGTATCCTTATGAGAAGACTACGTTATTGT-GCCTAATCTT-AAATGAATGTGGATTAGTA
* * * *
532164 TGGCTATTAATGTTTGCCTTCTTTGAGAGACAAACTTCTATTCTATCAAAAACTGTGAAATGAAA
259 TGGCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTGAAATGAAA
*
532229 AGAATTTCTTGCGACCCTAAAACACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT
324 AGAATTTCTTGCGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT
* * *
532294 CCCTATCTTGAAAAGAATAGAGACTGTTTCGAGAATCGATGTTTATCTTATTTAAGCGATGAACT
389 CCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGAACT
* *
532359 TTTATTTTAAGGAAAAGAGGA
454 TTTATTTCAAGGAAAATAGGA
** *
532380 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTCGTCCTAATGAAGAGAAGGTGT
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTGT
* *
532445 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTT-GTTTCATTTGAG
66 TTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAG-CTCATTTGAG
* * * * *
532509 GCGCGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCAA
130 GCACGAACTTAGACTTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCAA
* * *
532574 TATCGTGTATCCTTATGAGAAGACTAC---ATT-TACCT--TATT---T--A--TGGATTAATAT
195 TATCGTGTATCCTTATGAGAAGACTACGTTATTGTGCCTAATCTTAAATGAATGTGGATTAGTAT
* * *
532626 GGCTATTAATGTTTGCCTTATTTAAGAGGCAAACTTTTATTCTATCGAAAACTATAAAATGAAAA
260 GGCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTGAAATGAAAA
* *
532691 GAATTTTTTACGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT-
325 GAATTTCTTGCGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTC
* * *
532755 CCTATCTTAAAAAGAATGGAGACTGTTTTGAGAATCAATGCTTATCTTATTTAAGGGATGAACTT
390 CCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGAACTT
*
532820 TTATTTCATGGAAAATAGGA
455 TTATTTCAAGGAAAATAGGA
* * * *
532840 TAAAGAAAAGATTTTCATGCAAAAGCAAATTATCTTTATCATTCATCCTAATGAAGAGAAGGTGT
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTGT
* * * *
532905 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAAAATCCATGTTTGGCTCATTTGAGA
66 TTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTCATTTGAGG
* * *
532970 CACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAAT
131 CACGAACTTAGACTTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCAAT
* * *
533035 ATCGTGTATCCTTATGAGAAAACTACGTTTTTGGGGCCTAATCTTGAAATGAATGTGGATTAGTA
196 ATCGTGTATCCTTATGAGAAGACTACGTTATT-GTGCCTAATCTT-AAATGAATGTGGATTAGTA
* *
533100 TGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCGAAAATTGTGAAATGAAA
259 TGGCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTGAAATGAAA
* * *
533165 ACAATTTCTTGCGACCCTAAAGCACCAATGTCCTATCTCCTAATGAAGGGAATCTGGTTTTGCTT
324 AGAATTTCTTGCGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT
* * *
533230 CCCTATCTTGAAAAGAATGAAAACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGAACT
389 CCCTATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGAACT
*
533295 TTGATTTCAAGGAAAATAGGA
454 TTTATTTCAAGGAAAATAGGA
* * *
533316 CAAAGAAAAGATTTCCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAATGTGT
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTGT
* * * * * **
533381 TTATC-GTGCCTAATCAGAAAATGGATAAAGATCATTACTAGAATCTATGTTTGGCAT-ATTTTT
66 TTA-CAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGC-TCATTTGA
* * * * ***
533444 GTCACGAACTTAGACTTTACAAAGATTTATGTGGAA-AAAAGCCTTTCTGGAGAAACCAAAGCAT
129 GGCACGAACTTAGACTTTACAAA-AATTAAGGGGAAGAAAA-CCTTTCTTTCGAAACCAAAGCAT
* * * ** * ** * * * *
533508 CAATATCATGTATTCTAACAAGAAGACTACATTTACGGTGCCTTATCCTGAAAAGAATGGGGATT
192 CAATATCGTGTATCCTTATGAGAAGACTAC-GTTATTGTGCCTAAT-CTTAAATGAATGTGGATT
** * * * **
533573 AGTATGAG-TATTAATGTTTATCTTATTTAAAAGATAAACTTTGATTCTATC-AAAAAGGTTGGA
255 AGTATG-GCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTG-T-GA
** * * * * * * * * * *
533636 AA-GAAAAGCTTTTCTTACGACACC-AAAGTATCAATGCCGTGTATCCT-ATCGAAAGAAATGTG
317 AATGAAAAGAATTTCTTGCGAC-CCTAAAGCACCAATGTCTTATCTCCTAAT-GAAGGGAATCTG
* * * * ** *
533698 TTTTTGGTT-CCTAATCTTGAAAAAAATAGCGACTGTTAAGAGAATCGATGCTTGTCTTATTTAA
380 GTTTTGGTTCCCT-ATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAA
* *
533762 GGGATGAACTTTGATTTAAAGGAAAATAAGG-
444 GGGATGAACTTTTATTTCAAGGAAAAT-AGGA
* * * * * *
533793 CAAAGAAATGATTTTCATGCAAAAGAAAATT-TCCTATATCATTTATCCTAAGGAGGAGAATGTG
1 TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCAT-TATCATTTATCCTAATGAGGAGAAGGTG
* * * * *
533857 TTTATAGCACT-CCTAATCACAAAATAAATGAAAATCGTTACTAGAATCCATGTTTAGCTCACTT
65 -TT-TA-CAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTCATTT
* * * * *
533921 AAGGCACGAAC-TAGACTTTACAAAAAGT--GGTTGGAA-AAAAGCCTTTCTTGCGAATCTAAAG
127 GAGGCACGAACTTAGACTTTACAAAAATTAAGG--GGAAGAAAA-CCTTTCTTTCGAAACCAAAG
* * * * ** * **
533982 CATCAATATCATATATCCTAACGAGAAGACTGTGTT-TATGATGCCTAATCCTAAAAAAAT-TGG
189 CATCAATATCGTGTATCCTTATGAGAAGACTACGTTAT-TG-TGCCTAATCTTAAATGAATGT-G
* * * * * *
534045 GATTAGTTTGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATC-AACAAC-GT
251 GATTAGTATGGCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAA-AACTG-
* * * * * * *
534108 TGCAAA-GAAAAG-CTTT-TTGCAAAACC-AAAGCATCAATATCATATAC-CCTAATAAAGGGAA
314 TG-AAATGAAAAGAATTTCTTGC-GACCCTAAAGCACCAATGTCTTAT-CTCCTAATGAAGGGAA
* * * * ** * * * * **
534168 TGTGTTTTTGGTTCACTATCTTTGAAATGCTTGGAGACAGCTACGAGAATCGATACTCGTCTTAT
376 TCTGGTTTTGGTTCCCTATC-TTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTAT
* * * * *
534233 TTAAGGAAT-AAGCTCTGATATTT--TGAAAAATAGGG
440 TTAAGGGATGAA-CT-T-TTATTTCAAGGAAAATAGGA
* ** ** * *
534268 TAAAGAAAAGATTTT-AGTACAAAAAAAAATTAAAAATATCATTTATCCTAATAAGGAGAATGG-
1 TAAAGAAAAGATTTTCA-TGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAA-GGT
** * * *
534331 GTTTATGGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCTATGTTTATCTCATTTGA
64 GTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTCATTTGA
* * * * * * *
534396 AGCATGAACTTAAACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTTGAAACCAAAGCTTCA
129 GGCACGAACTTAGACTTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCA
* * * * *
534461 ATATCGTGTATCCTTATGAGAAGAATACGCTTATGGTGCCTAATCCTAAAGTGAATGAGGATTAA
194 ATATCGTGTATCCTTATGAGAAGACTACG-TTATTGTGCCTAATCTTAAA-TGAATGTGGATTAG
* * * * * * ** *
534526 TATGACTATTAATGCTGGCGTTATTTAAAAGATAAACTTTTATTCTATCGAAAACTGTGGTATAA
257 TATGGCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTGAAATGA
* * * * * * * *
534591 AAACAATTTCTTGTGACCGTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGG-ATCTGTTTTTGG
322 AAAGAATTTCTTGCGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGG
* * *
534655 TT-CCTAATCTTCAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATAA
387 TTCCCT-ATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGA
* *
534719 ACTTTGATTTCAAGGAAAATAGGG
451 ACTTTTATTTCAAGGAAAATAGGA
* * * * * *
534743 CAAA-AAAATGATTTCCACGCAAAAGGAAATTATCATTAACTTTTATCCTAATGAGGAGAATGTG
1 TAAAGAAAA-GATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTG
* * * * * ** * *
534807 TTTATCA-AGCCTAATCAGAAAATGAATAAAGATCAGTACTAGAATCTATGTTCGGCACATTTGT
65 TTTA-CAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTCATTTGA
* * *
534871 GGCACAAAGTTAGACTTTACAAAAATT-TGTGGGAA-AAAAGCCTTT-TTAGT-GAAACCAAAGC
129 GGCACGAACTTAGACTTTACAAAAATTAAG-GGGAAGAAAA-CCTTTCTT--TCGAAACCAAAGC
* * * *
534932 ATCAATATCATGTATTCTAACGAGAAGACTA
190 ATCAATATCGTGTATCCTTATGAGAAGACTA
534963 TGTTTACGGT
Statistics
Matches: 2565, Mismatches: 390, Indels: 193
0.81 0.12 0.06
Matches are distributed among these distances:
460 401 0.16
461 204 0.08
462 2 0.00
463 3 0.00
464 2 0.00
465 5 0.00
466 4 0.00
467 3 0.00
468 3 0.00
469 3 0.00
471 4 0.00
472 3 0.00
473 64 0.02
474 139 0.05
475 520 0.20
476 739 0.29
477 382 0.15
478 30 0.01
479 53 0.02
480 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (474 bp):
TAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGAGAAGGTGT
TTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTCATTTGAGG
CACGAACTTAGACTTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAAGCATCAAT
ATCGTGTATCCTTATGAGAAGACTACGTTATTGTGCCTAATCTTAAATGAATGTGGATTAGTATG
GCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTGAAATGAAAAG
AATTTCTTGCGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCC
CTATCTTGAAAAGAATGGAGACTGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTT
TATTTCAAGGAAAATAGGA
Found at i:533261 original size:936 final size:936
Alignment explanation
Indices: 531508--534946 Score: 3893
Period size: 936 Copynumber: 3.6 Consensus size: 936
531498 GGAGAGTGGG
* *
531508 TTATAGTGCCTAATCAAAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAG
1 TTATAGTGCCTAATC-ACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAG
* *
531573 GCACGAACTTAGACTTTACAAAAATTAGCGGGTAGAAAG-CTTTCTTTCGAAACCAAAGCATCAA
65 GCACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAA
* * * * *
531637 TATCGTGTATCCTTATGAGAAGACTACGTTT-GCCTTATTTAT-GGATTAGTATGGCTATCAATC
130 TATCGTGTATCCTTATGAGAAGACTACATTTAGCCTTATTAATGGGATTAATATGGCTATTAATG
* *
531700 TTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGATTTTTTTAC
195 TTTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTAC
* * * *
531765 GACCCTAAAGCACCAATGTCTTATCTCCTAATGAATGGAATCTGGTTTTGGTTCCCT-ACCTTGA
260 GACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT-CCTAATCTTAA
*
531829 AAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAG
324 AAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAG
*
531894 GAAAATAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAG
389 GAAAATAGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAG
* *
531959 GAGAAGGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGGATCCATGTTTAGC
454 GAGAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGC
*
532024 TTATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAA-CCTTTCTTTCGAAACC
519 TCATTTGAGACACGAATTTAGACCTTACAAAAATT-AGGGGAA-AAAAGCCTTTCTTTCGAAACC
* * *
532088 AAAGCATCAATATCGTGTATCCTTATGAGAAAACTACGTTATTGTGGCCTAATCTTGAAATGAAT
582 AAAGCATCAATATCATGTATCCTTATGAGAAAACTACGTTTTTGAGGCCTAATCTTGAAATGAAT
* * *
532153 GTGGATTAGTATGGCTATTAATGTTTGCCTTCTTTGAGAGACAAACTTCTATTCTATCAAAAACT
647 GTGGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATC-AAAATT
* * *
532218 GTGAAATGAAAAGAATTTCTTGCGACCCTAAAACACCAATGTCTTATCTCCTAATGAAGGGAATC
711 GTGAAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCATATCTCCTAATGAAGGGAATC
* *
532283 TGGTTTTGGTTCCCTATCTTGAAAAGAAT-AGAGACTGTTTCGAGAATCGATGTTTATCTTATTT
776 TGGTTTTGGTTCCCTATCTTGAAAAGAATGA-AGACAGTTTCGAGAATCGATGCTTATCTTATTT
*
532347 AAGCGATGAACTTTTATTTTAAGGAAAAGAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTA
840 AAG-GATGAACTTTTATTTTAAGGAAAATAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTA
**
532412 TCATTATCATTCGTCCTAATGAAGAGAAGGTGT
904 TCATTATCATTTATCCTAATGAAGAGAAGGTGT
*
532445 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
1 TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
* * *
532510 CGCGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCAAT
66 CACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAAT
*
532575 ATCGTGTATCCTTATGAGAAGACTACATTTA-CCTTATTTAT-GGATTAATATGGCTATTAATGT
131 ATCGTGTATCCTTATGAGAAGACTACATTTAGCCTTATTAATGGGATTAATATGGCTATTAATGT
* *
532638 TTGCCTTATTTAAGAGGCAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
196 TTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
*
532703 ACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCCT-ATCTTAAAA
261 ACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCCTAATCTTAAAA
* * *
532767 AGAATGGAGACTGTTTTGAGAATCAATGCTTATCTTATTTAAGGGATGAACTTTTATTTCATGGA
326 AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAGGA
* * * * *
532832 AAATAGGATAAAGAAAAGATTTTCATGCAAAAGCAAATTATCTTTATCATTCATCCTAATGAAGA
391 AAATAGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGA
* *
532897 GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAAAATCCATGTTTGGCTC
456 GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTC
*
532962 ATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAA
521 ATTTGAGACACGAATTTAGACCTTACAAAAATT-AGGGGAAAAAAGCCTTTCTTTCGAAACCAAA
* *
533027 GCATCAATATCGTGTATCCTTATGAGAAAACTACGTTTTTGGGGCCTAATCTTGAAATGAATGTG
585 GCATCAATATCATGTATCCTTATGAGAAAACTACGTTTTTGAGGCCTAATCTTGAAATGAATGTG
533092 GATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCGAAAATTGTG
650 GATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATC-AAAATTGTG
*
533157 AAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCCTATCTCCTAATGAAGGGAATCTGG
714 AAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCATATCTCCTAATGAAGGGAATCTGG
* *
533222 TTTTGCTTCCCTATCTTGAAAAGAATGAAAACAGTTTCGAGAATCGATGCTTATCTTATTTAAGG
779 TTTTGGTTCCCTATCTTGAAAAGAATGAAGACAGTTTCGAGAATCGATGCTTATCTTATTTAA-G
* * * *
533287 GATGAACTTTGATTTCAAGGAAAATAGGACAAAGAAAAGATTTCCATGCAAAAGGAAATTATCAT
843 GATGAACTTTTATTTTAAGGAAAATAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTATCAT
* *
533352 TATCATTTATCCTAATGAGGAGAATGTGT
908 TATCATTTATCCTAATGAAGAGAAGGTGT
* * * * ** **
533381 TTATCGTGCCTAATCAGAAAATGGATAAAGATCATTACTAGAATCTATGTTTGGCAT-ATTTTTG
1 TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTT-GTTTCATTTGAG
* * * * * ***
533445 TCACGAACTTAGACTTTACAAAGATTTATGTGGAAAAAAGCCTTTCTGGAGAAACCAAAGCATCA
65 GCACGAACTTAGACTTTACAAA-AATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCA
* * * ** *
533510 ATATCATGTATTCTAACAAGAAGACTACATTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAG
129 ATATCGTGTATCCTTATGAGAAGACTACATTTA----GCCTTAT--T------AAT-GGGATTAA
** * * * * *
533575 TATGAG-TATTAATGTTTATCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAGGT-TGGAAA
181 TATG-GCTATTAATGTTTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAA-CTAT-AAAA
* * * * * * * * * *
533638 -GAAAAG-CTTTTCTTACGACACC-AAAGTATCAATGCCGTGTATCCT-ATCGAAAGAAATGTGT
243 TGAAAAGAATTTT-TTACGAC-CCTAAAGCACCAATGCCTTATCTCCTAAT-GAAGGGAATCTGG
* * ** *
533699 TTTTGGTTCCTAATCTTGAAAAA-AATAGCGACTGTTAAGAGAATCGATGCTTGTCTTATTTAAG
305 TTTTGGTTCCTAATCTT-AAAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAG
* * *
533763 GGATGAACTTTGATTTAAAGGAAAATAAGG-CAAAGAAATGATTTTCATGCAAAAGAAAATT-TC
369 GGATGAACTTTGATTTCAAGGAAAAT-AGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATC
* * * * *
533826 CTATATCATTTATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCTAATCACAAAATAAATGAAA
433 AT-TATCATTTATCCTAATGAGGAGAAGGTGTTTATAG---TGCCTAATCACAAAATGAATGAAG
* * * * * * *
533890 ATCGTTACTAGAATCCATGTTTAGCTCACTTAAGGCACGAA-CTAGACTTTACAAAAAGT-GGTT
494 ATCATTACTAGAATCCATGTTTAGCTCATTTGAGACACGAATTTAGACCTTACAAAAATTAGG--
* * * * * * * **
533953 GGAAAAAAGCCTTTCTTGCGAATCTAAAGCATCAATATCATATATCCTAACGAGAAGACTGTGTT
557 GGAAAAAAGCCTTTCTTTCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAAACTACGTT
* * * ** * * * * *
534018 TATGATGCCTAATCCT-AAAAAAAT-TGGGATTAGTTTGACTATTTATGTTTGTCTTATTTAAGA
622 TTTGAGGCCTAATCTTGAAATGAATGT-GGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGA
* * * * *
534081 GACAAACTTTGATTTTATCAACAACGTTG-CAAA-GAAAAGC--TTT-TTGCAAAACC-AAAGCA
686 GACAAACTTTTATTCTATCAA-AA--TTGTGAAATGAAAA-CAATTTCTTGC-GACCCTAAAGCA
* * * * * * * ** *
534140 TCAATATCATATAC-CCTAATAAAGGGAATGTGTTTTTGGTTCACTATCTTTGAAATGCTTGGAG
746 CCAATGTCATAT-CTCCTAATGAAGGGAATCTGGTTTTGGTTCCCTATC-TTGAAAAGAATGAAG
* * * ** * *
534204 ACAGCTACGAGAATCGATACTCGTCTTATTTAAGGAAT-AAGCTCTGATATTTT--GAAAAATAG
809 ACAGTTTCGAGAATCGATGCTTATCTTATTTAAGG-ATGAA-CT-T-TTATTTTAAGGAAAATAG
* * ** ** *
534266 GGTAAAGAAAAGATTTT-AGTACAAAAAAAAATTAAAAATATCATTTATCCTAAT-AAGGAGAAT
870 GATAAAGAAAAGATTTTCA-TGCAAAAGGAAATTATCATTATCATTTATCCTAATGAA-GAGAA-
534329 GG-GT
932 GGTGT
* * * * *
534333 TTATGGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCTATGTTTATCTCATTTGAAG
1 TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
* * * *
534398 CATGAACTTAAACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTTGAAACCAAAGCTTCAAT
66 CACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAAT
* * * *
534463 ATCGTGTATCCTTATGAGAAGAATACGCTTATGGTGCCTAATCCTAAAGTGAATGAGGATTAATA
131 ATCGTGTATCCTTATGAGAAGACTA--C--AT--T---T-AGCCT-TA-TTAATG-GGATTAATA
* * * * * * *** *
534528 TGACTATTAATGCTGGCGTTATTTAAAAGATAAACTTTTATTCTATCGAAAACTGTGGTATAAAA
183 TGGCTATTAATGTTTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAA
* * ** * * * * *
534593 ACAATTTCTTGTGACCGTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGG-ATCTGTTTTTGGTT
248 AGAATTTTTTACGACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTT
* * * *
534657 CCTAATCTTCAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGGATAAACT
313 CCTAATCTTAAAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACT
* * * * *
534722 TTGATTTCAAGGAAAATAGGGCAAA-AAAATGATTTCCACGCAAAAGGAAATTATCATTAACTTT
378 TTGATTTCAAGGAAAATAGGACAAAGAAAA-GATTTTCATGCAAAAGGAAATTATCATTATCATT
* * * * *
534786 TATCCTAATGAGGAGAATGTGTTTATCA-AGCCTAATCAGAAAATGAATAAAGATCAGTACTAGA
442 TATCCTAATGAGGAGAAGGTGTTTAT-AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGA
* ** * * * * * * *
534850 ATCTATGTTCGGCACATTTGTGGCACAAAGTTAGACTTTACAAAAATTTGTGGGAAAAAAGCCTT
506 ATCCATGTTTAGCTCATTTGAGACACGAATTTAGACCTTACAAAAATTAG-GGGAAAAAAGCCTT
534915 T-TTAGT-GAAACCAAAGCATCAATATCATGTAT
570 TCTT--TCGAAACCAAAGCATCAATATCATGTAT
534947 TCTAACGAGA
Statistics
Matches: 2142, Mismatches: 277, Indels: 154
0.83 0.11 0.06
Matches are distributed among these distances:
935 3 0.00
936 739 0.35
937 277 0.13
942 6 0.00
944 1 0.00
948 51 0.02
949 63 0.03
950 142 0.07
951 206 0.10
952 294 0.14
953 194 0.09
954 97 0.05
955 60 0.03
956 1 0.00
957 4 0.00
958 1 0.00
959 1 0.00
960 1 0.00
961 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (936 bp):
TTATAGTGCCTAATCACAAAATGAATAAAGATCATTACTAGAATCCATGTTTGTTTCATTTGAGG
CACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAAT
ATCGTGTATCCTTATGAGAAGACTACATTTAGCCTTATTAATGGGATTAATATGGCTATTAATGT
TTGCCTTATTTAAAAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
ACCCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCCTAATCTTAAAA
AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAGGA
AAATAGGACAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGA
GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTC
ATTTGAGACACGAATTTAGACCTTACAAAAATTAGGGGAAAAAAGCCTTTCTTTCGAAACCAAAG
CATCAATATCATGTATCCTTATGAGAAAACTACGTTTTTGAGGCCTAATCTTGAAATGAATGTGG
ATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCAAAATTGTGAA
ATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCATATCTCCTAATGAAGGGAATCTGGTT
TTGGTTCCCTATCTTGAAAAGAATGAAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGAT
GAACTTTTATTTTAAGGAAAATAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTAT
CATTTATCCTAATGAAGAGAAGGTGT
Found at i:534712 original size:475 final size:471
Alignment explanation
Indices: 532616--534976 Score: 2262
Period size: 475 Copynumber: 5.0 Consensus size: 471
532606 CCTTATTTAT
* * * * *
532616 GGATTAATATGGCTATTAATGTTTGCCTTATTTAAGAGGCAAACTTTTATTCTATCGAAAACTAT
1 GGATTAGTATGACTATTAATG-TTGGCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGT
** * * * * *
532681 AAAATGAAAAGAATTTTTTACGACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTG
65 GGAATAAAAACAATTTCTTGCGA-CCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTG
* * * * *
532746 GTTTTGGTTCCTATCTTAAAAAGAATGGAGACTGTTTTGAGAATCAATGCTTATCTTATTTAAGG
129 TTTTTGGTTCCTATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGG
* * ** * *
532811 GATGAACTTTTATTTCATGGAAAATAGGATAAAGAAAAGATTTTCATGCAAAAGCAAATTATCTT
194 GATGAACTTTGATTTCAAGGAAAATAGGGCAAAGAAAAGATTTT-ATGCAAAAGAAAATTATCAT
* * * * *
532876 TATCATTCATCCTAATGAAGAGAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATT
258 TATCATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCACAAAATGAATAAAGATCATT
* * * * * *
532941 ACTAAAATCCATGTTTGGCTCATTTG-AGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGA
323 ACTAGAATCTATGTTTGGCTCATTTGAAG-CACGAACTTAGACTTTACAAAAATTAGGGGGAAAA
* * * * *
533005 AAGCCTTTCTTTCGAAACCAAAGCATCAATATCGTGTATCCTTATGAGAA-AACTACGTTTTTGG
387 AAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAA-TACGTTTATGG
* * *
533069 GGCCTAATCTTGAAATGAATG
451 TGCCTAATCCTGAAAAGAATG
* * * *
533090 TGGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCGAAAATTG
1 -GGATTAGTATGACTATTAATG-TTGGCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTG
* *
533155 TGAAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCC-TATCTCCTAATGAAGGGAATC
64 TGGAATAAAAACAATTTCTTGCGA-CCTAAAGCACCAATG-CCTTATCTCCTAATGAAGGGAATC
* * * *
533219 TGGTTTTGCTTCCCTATCTTGAAAAGAATGAAAACAGTTTCGAGAATCGATGCTTATCTTATTTA
127 TGTTTTTGGTT-CCTATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTA
* * *
533284 AGGGATGAACTTTGATTTCAAGGAAAATAGGACAAAGAAAAGATTTCCATGCAAAAGGAAATTAT
191 AGGGATGAACTTTGATTTCAAGGAAAATAGGGCAAAGAAAAGATTT-TATGCAAAAGAAAATTAT
* *
533349 CATTATCATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCAGAAAATGGATAAAGATC
255 CATTATCATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCACAAAATGAATAAAGATC
** * * *
533414 ATTACTAGAATCTATGTTTGGCAT-ATTT-TTGTCACGAACTTAGACTTTACAAAGATTTATGTG
320 ATTACTAGAATCTATGTTTGGC-TCATTTGAAG-CACGAACTTAGACTTTACAAA-AATTAGGGG
* * * * * *
533477 GAAAAAAGCCTTTCTGGAGAAACCAAAGCATCAATATCATGTATTCTAACAAGAAGACTACATTT
382 GAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAATACGTTT
* *
533542 ACGGTGCCTTATCCTGAAAAGAATGG
447 ATGGTGCCTAATCCTGAAAAGAAT-G
* ** * * * **
533568 GGATTAGTATGAGTATTAATGTTTATCTTATTTAAAAGATAAACTTTGATTCTATC-AAAAAGGT
1 GGATTAGTATGACTATTAATG-TTGGCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTG-
* * * * * * * * * *
533632 TGGAA-AGAAAAGC-TTTTCTTACGACACCAAAGTATCAATGCCGTGTATCCT-ATCGAAAGAAA
64 TGGAATA-AAAA-CAATTTCTTGCGAC-CTAAAGCACCAATGCCTTATCTCCTAAT-GAAGGGAA
* * * * * ** *
533694 TGTGTTTTTGGTTCCTAATCTTGAAAAAAATAGCGACTGTTAAGAGAATCGATGCTTGTCTTATT
125 TCTGTTTTTGGTTCCT-ATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATT
* * *
533759 TAAGGGATGAACTTTGATTTAAAGGAAAATAAGGCAAAGAAATGATTTTCATGCAAAAGAAAATT
189 TAAGGGATGAACTTTGATTTCAAGGAAAATAGGGCAAAGAAAAGATTTT-ATGCAAAAGAAAATT
* * * *
533824 -TCCTATATCATTTATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCTAATCACAAAATAAATG
253 ATCAT-TATCATTTATCCTAATGAGGAGAATGTGTTTAT--C-GTGCCTAATCACAAAATGAAT-
* * * * *
533887 AAA-ATCGTTACTAGAATCCATGTTTAGCTCACTT-AAGGCACGAAC-TAGACTTTACAAAAAGT
313 AAAGATCATTACTAGAATCTATGTTTGGCTCATTTGAA-GCACGAACTTAGACTTTACAAAAATT
* * * * *
533949 -GGTTGGAAAAAAGCCTTTCTTGCGAATCTAAAGCATCAATATCATATATCCTAACGAGAAGACT
377 AGG-GGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAAT
** * *
534013 GTGTTTATGATGCCTAATCCT-AAAAAAATTG
441 ACGTTTATGGTGCCTAATCCTGAAAAGAA-TG
* * * * *
534044 GGATTAGTTTGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATC-AACAAC-G
1 GGATTAGTATGACTATTAATG-TTGGCTTATTTAAGAGACAAACTTTTATTCTATCGAA-AACTG
* * * ** * *
534107 TTGCAA-AGAAAAGC--TTT-TTGCAAAACC-AAAGCATCAATATCATATAC-CCTAATAAAGGG
64 -TGGAATA-AAAA-CAATTTCTTGC--GACCTAAAGCACCAATGCCTTAT-CTCCTAATGAAGGG
* * ** * * * **
534166 AATGTGTTTTTGGTTCACTATCTTTGAAATGCTTGGAGACAGCTACGAGAATCGATACTCGTCTT
123 AATCTGTTTTTGGTTC-CTATC-TTGAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTT
* * ** * * * *
534231 ATTTAAGGAAT-AAGCTCTGATATT-TTGAAAAATAGGGTAAAGAAAAGATTTTAGTACAAAAAA
186 ATTTAAGGGATGAA-CTTTGAT-TTCAAGGAAAATAGGGCAAAGAAAAGATTTTA-TGCAAAAGA
** * * * *
534294 AAATTAAAAATATCATTTATCCTAATAAGGAGAATGGGTTTATGGTGCCTAATCACAAAATGAAT
248 AAATTATCATTATCATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCACAAAATGAAT
** * *
534359 AAAGATCATTACTAGAATCTATGTTTATCTCATTTGAAGCATGAACTTAAACTTTACAAAAATTA
313 AAAGATCATTACTAGAATCTATGTTTGGCTCATTTGAAGCACGAACTTAGACTTTACAAAAATTA
* ** * * * *
534424 GGGGGAAGAAAGCCTTTCTTTTGAAACCAAAGCTTCAATATCGTGTATCCTTATGAGAAGAATAC
378 GGGGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAATAC
* *
534489 GCTTATGGTGCCTAATCCT-AAAGTGAATG
443 GTTTATGGTGCCTAATCCTGAAA-AGAATG
* * * *
534518 AGGATTAATATGACTATTAATGCTGGCGTTATTTAAAAGATAAACTTTTATTCTATCGAAAACTG
1 -GGATTAGTATGACTATTAATGTTGGC-TTATTTAAGAGACAAACTTTTATTCTATCGAAAACTG
* * * * *
534583 TGGTATAAAAACAATTTCTTGTGACCGTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGG-ATCT
64 TGGAATAAAAACAATTTCTTGCGACC-TAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCT
*
534647 GTTTTTGGTTCCTAATCTTCAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAA
128 GTTTTTGGTTCCT-ATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAA
* * * *
534712 GGGATAAACTTTGATTTCAAGGAAAATAGGGCAAA-AAAATGATTTCCACGCAAAAGGAAATTAT
192 GGGATGAACTTTGATTTCAAGGAAAATAGGGCAAAGAAAA-GATTT-TATGCAAAAGAAAATTAT
* * ** *
534776 CATTAACTTTTATCCTAATGAGGAGAATGTGTTTATCAAGCCTAATCAGAAAATGAATAAAGATC
255 CATTATCATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCACAAAATGAATAAAGATC
* * * ** * * * *
534841 AGTACTAGAATCTATGTTCGGCACATTTGTGGCACAAAGTTAGACTTTACAAAAATTTGTGGGAA
320 ATTACTAGAATCTATGTTTGGCTCATTTGAAGCACGAACTTAGACTTTACAAAAATTAGGGGGAA
* * * * *
534906 AAAAGCCTTT-TTAGTGAAACCAAAGCATCAATATCATGTATTCTAACGAGAAGACTATGTTTAC
385 AAAAGCCTTTCTT-GCGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAATACGTTTAT
534970 GGTGCCT
449 GGTGCCT
534977 GATGACAACC
Statistics
Matches: 1550, Mismatches: 277, Indels: 118
0.80 0.14 0.06
Matches are distributed among these distances:
472 4 0.00
473 51 0.03
474 144 0.09
475 549 0.35
476 329 0.21
477 403 0.26
478 17 0.01
479 48 0.03
480 5 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (471 bp):
GGATTAGTATGACTATTAATGTTGGCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTGTG
GAATAAAAACAATTTCTTGCGACCTAAAGCACCAATGCCTTATCTCCTAATGAAGGGAATCTGTT
TTTGGTTCCTATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGGA
TGAACTTTGATTTCAAGGAAAATAGGGCAAAGAAAAGATTTTATGCAAAAGAAAATTATCATTAT
CATTTATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCACAAAATGAATAAAGATCATTACT
AGAATCTATGTTTGGCTCATTTGAAGCACGAACTTAGACTTTACAAAAATTAGGGGGAAAAAAGC
CTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAACGAGAAGAATACGTTTATGGTGCCT
AATCCTGAAAAGAATG
Found at i:542433 original size:475 final size:473
Alignment explanation
Indices: 540237--545643 Score: 5212
Period size: 476 Copynumber: 11.4 Consensus size: 473
540227 CTTTTCCTTA
* * ** * * * *
540237 CCCTTAAATAAGACAAGCATCGATTCTCATAGCAGTCTCCAAGCCTTGCAAGGTTAGTGAACCAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATT-GGGAACCAA
* *
540302 AAACACATTCCCTTC-TTAAGGGTACATGACATTGATGCTTTGGTGTCGCA-AAAAGCTTTTCTT
65 AAACACATTCCCTTCATT-AGGATACATGACATTGATGCTTTGGTGTCGAAGAAAAGCTTTTCTT
* * * *
540365 TGCAACGTTTTTAATAAAATCAAAGTTTATCTCTTAAATAAGATAAAC-TTGAATAGTCATACTA
129 TCCAA-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATT-AATAGTCATACTA
* * * * *
540429 ATCCCCATTGTTTTTAGGATTAGGTACGATAAACATAGTCTTCTCATTAGGATACATGATATTAA
192 ATCCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGA
* * * * *
540494 AGCTTTGGATTCACAAGAAAGGGTTTTTTCCAACC--AATTTTTGTAAAGTCTAAATTCATGCCT
257 TGCTTTGGTTTCACAAGAAA-GGCTTTTTCC--CCTAAATTTTTGTAAAGTCTAAGTTCGTGCCT
* ** * * *
540557 CAAATGAGCCAAACATGGATTCTAGTAACGACCTTCTTTTATTTTGTGACTAGGCACTATAAACA
319 CAAATGAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACA
* * ** *
540622 CATTCTTCTCAATAGGATAAATGATATTGGCAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCA
384 CATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* *
540687 TGTTTTCCTTAATATCAAAGTTCAT
449 TATTTTCCTTAAAATCAAAGTTCAT
** * *
540712 CCCTTAAATAAGACAAGTGTCGATTCTCGTAATAGTCTCTATTCTTTTCAAGATTGGGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* * * * *
540777 AACATATTCCGTTCATTAGGATACATAACATTGATACTTTGGTGTTGCAAGAAAAGCTTTTCTTT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTTTCTTT
* * * * ** * *
540842 CTAACTTTTTTGGTAGAATCAAAGTTTATCTTTTAAATAAGGGAAACATTAATACTCAAACTAAT
130 CCAA-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAAT
* ** * *
540907 CCCCATTCTTTTCAA-GA-TAGGGAACCGCAAACATAGTCTTCTCATTAGAATATATGATATTGA
194 CCCCATTCTTTT-AAGGATTA-GGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGA
* * *
540970 TGCTTTGGTTTCACCAGAAAGGCTTTTTCCCAC-AAATTTTTGTAAAGTCTAAGCTCGTGCCACA
257 TGCTTTGGTTTCACAAGAAAGGCTTTTTCCC-CTAAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * *
541034 AATGAGCC-AACATAGATTCTAGTAATGATCTTT-ATTCATTTTTTGATTAGGCACGATAAACAC
321 AATGAGCCAAACATGGATTCTAGTAATGAT-TTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * *
541097 ATTCTCCTTATTAGGATAAATGATAATGATAA-TGTCCTTTGGATAGAAATCTTTTCTTTGCCCT
385 ATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * *
541161 ATTTTCCTTGAAATTAAAATTCAT
450 ATTTTCCTTAAAATCAAAGTTCAT
* * * * *
541185 CCCTTAAATAAGATAAGCATCGATTCTCGAAATAGTCTCCATTCTTTTCAAGATTGAGAACCAAT
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* * * * * * * * **
541250 AATAGATTCTCTTCTTTAGGAGACAAGACATTGGTGCTTTAGG-GTCACAAGAAATTCTTTTCAT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GGTGTC-GAAGAAAAGCTTTTC-T
* * *
541314 TT-CACAGTTTTTGATAGAATAAAAGTTTATCTCTTAAATAAGGCAAACATTAATAGCCATACTA
128 TTCCA-AGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTA
* ** * * * * *
541378 ATGCAGATTCGTTTCAA-GATTAGGCCCCAAAAACGTAGTCTTCTCATAAGGATACATGATATTG
192 ATCCCCATTC-TTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTG
*
541442 ATGCTTTGGTTTCGA-AAGAAAAGGCTTTCTTCCCCCT-AATTTTCGTAAAGTCTAAGTTCGTGC
256 ATGCTTTGGTTTC-ACAAG-AAAGGCTTT-TT-CCCCTAAATTTTTGTAAAGTCTAAGTTCGTGC
* * * * *
541505 CTCAAATGAGACAAACATGGTTTCTAGTAATAATCTTT-ATTCATGTTATGATTAGGCACTATGA
317 CTCAAATGAGCCAAACATGGATTCTAGTAATGAT-TTTCATTCATTTTGTGATTAGGCACTAT-A
* * ** * * * * *
541569 ATC-CATTCT--TCTTGTAGGATAAATGATATTCTTTATTCTCTTTTGCACGAAAATCTTTTTTT
380 AACACATTCTCCTCAT-TAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTT
* * * *
541631 TGCCGTATTTTCCTAAAAATCAGAGCTCAT
444 TGCCCTATTTTCCTTAAAATCAAAGTTCAT
* * * ** *
541661 CGCTTAAATAAGACAAGCATCGATTCTCGTAGCAGCCTCCAAGCTTTTCAAAGATTGTGAACCAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC-AAGATTGGGAACCAA
* * * * * * *
541726 AAGCACATTCCCTTCATTAGTATTCATCACATTGATGCTCTAGTGTCGCA-AAAAGCTTTTCTTT
65 AAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGAAGAAAAGCTTTTCTTT
* * * * * *
541790 GCAATGTTTTTGATAGAATCAATGCTTGTCT-TT---TAA-AC--A-A--GA-AGCCATACTAAT
130 CCAA-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAAT
* * * * *
541844 CCCCATTGTTTTTAGGATTAGGCACTATAAACACAGTCTTCTCATTAGGATACATGATATTGCTG
194 CCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGATG
** * * *
541909 CTTTGGATTT-GTAAGAAAGGTTTTTTCCAACC--AATTTTTGTAAAGTCTAAATTCATGCCTCA
259 CTTTGG-TTTCACAAGAAAGGCTTTTTCC--CCTAAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* ** * *
541971 AATGAGCCAAACATGGATTCCAGTAACAATTTTCATTTATTTTGTGACTAGGCACTATAAACACA
321 AATGAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * ** *
542036 TTCTCCTCAATAGGAAAAATGATATTGGCAATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTA
386 TTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
542101 TTTTCCTTAAAATCAAAGTTCAT
451 TTTTCCTTAAAATCAAAGTTCAT
* * * * *
542124 CCTTTAAATAAGACAAGCGTCAATTCTCGTAACAGTCTCTATTCTTTTCAAGATTGGGAACCGAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* *** *
542189 AACATATTCTGATCACTAGGATACATGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTTTCTTT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTTTCTTT
* * * * * * *
542254 CCAAATTTTTTATTAGAATCAAAGTTTATCTTTTAAAAAAGACAAGCATTAATACTCTTACTAAT
130 CCAAGTTTTTGA-TAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAAT
* * ** * ** * *
542319 CTCCATTCTTTTAAGGATAAGGCACTGTAAACATTGTCTTCTCACAAGAATGCATGATATTGATG
194 CCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGATG
* *
542384 CTTTGGTTTCACCAGAAAGGCTTTTTCCCCTAAATTTTTGTAAAGTCTAAGTTCGTGCCACAAAT
259 CTTTGGTTTCACAAGAAAGGCTTTTTCCCCTAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * *
542449 GAGCCAAACATAGATTCGAGTAAAGATCTTT-ATTCATTTTCG-GATTAGGC-GTGATAAACACA
324 GAGCCAAACATGGATTCTAGTAATGAT-TTTCATTCATTTT-GTGATTAGGCACT-ATAAACACA
* * * *
542511 TTTTCCTCATTAGGATAAATGATAATGATAATTTCCTTTTGCATGGAAATCTTTTCTTTTCCCTA
386 TTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
*
542576 TTTTCCTTGAAATCAAAGTTCAT
451 TTTTCCTTAAAATCAAAGTTCAT
* * * **
542599 CCCTTAAATAAGATAAGTATCGATTCTCGAAACAGTCTCCATT-TTTTCAAGATTAAGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* * * * * * * **
542663 AACAGATTCCCTTCATTAAGAGACAAGACATTGGTGATTTAAG-GTCGTAAGAAATTCTTTTCAT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GGTGTCG-AAGAAAAGCTTTTC-T
* * * *
542727 TT-CACAGTTTTTGATAGAATAAAAATTTGTCTCTTAAATAAGGCAAACATTAATAGTCATACTA
128 TTCCA-AGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTA
* * * * **
542791 ATCCTCATTC-ATTATAGGATTAGGCACCATAAACATAGTCTTCTCATAATGATACACAATATTG
192 ATCCCCATTCTTTTA-AGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTG
* *** * * * *
542855 ATGCTTTGATTTCGGGAGTATGGCTTTCTTCCCCTTAATTTTTGTAAAGTCTAAGTTTGTGCCTC
256 ATGCTTTGGTTTCACAAGAAAGGCTTT-TTCCCCTAAATTTTTGTAAAGTCTAAGTTCGTGCCTC
* * * **
542920 AAATGAGACAAACATGGAATCTAGTAATCATCTTT-ATTCATTTTGCAATTAGGCACTATAAAC-
320 AAATGAGCCAAACATGGATTCTAGTAATGAT-TTTCATTCATTTTGTGATTAGGCACTATAAACA
* * ** * * * *
542983 CCTTCTCCTCGTTAGGATAAATGATATTTTTTATTTTCTTTTGTACGAAAATCTTTTCTTTGCCC
384 CATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * * *
543048 TATGTTCCTAAAAATTAGAGCTCAT
449 TATTTTCCTTAAAATCAAAGTTCAT
** * * * * * ** * * *
543073 CCCTTAAATAAGATGAGCAAT-GCTTTTTGTAGCAGTGTCCAAGCTTTTCGAAGGTAGTGAACCA
1 CCCTTAAATAAGACAAGC-ATCGATTCTCGTAACAGTCTCCATTCTTTTC-AAGATTGGGAACCA
* * *
543137 AAAACACATTCCGTTTATTAGGATACATGACATTGATGCATTGGTGTC-ACA-AAAAGCTTTTCT
64 AAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGA-AGAAAAGCTTTTCT
* * * * * *
543200 TTGCAATGTTTTTGATAAAATTAAAGTTTGTCTCTTAATTAAGACAAACATGAATAGTCATAC-A
128 TTCCAA-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTA
* * ** * *
543264 CATCCCCATTCTTTTAGGGATTGGGCACCATAAACATAGTCTTCTTGTTAGGATATATGATTTTG
192 -ATCCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTG
** * * * **
543329 ATGCTTTGGTTTTGCAAGAAAGTCTTTTCTCCCAC-CAATTTTTGTAAAGTCCAAGTTTTTGCCT
256 ATGCTTTGGTTTCACAAGAAAGGCTTTT-TCCC-CTAAATTTTTGTAAAGTCTAAGTTCGTGCCT
* * * * * * *
543393 CAAATGAGACAAACACGGGTTCTAGTAATGATCTTCGTTCATTTTGTGATTAGGCACTCTAAATA
319 CAAATGAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACA
* ** * * *
543458 CATTCTCCTCGTTAGGATAAATGATATTTTTGATTTTCTTTTGCACGAAAATCTTTTCTTTGCCC
384 CATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
*
543523 TATTTTCCTTAAAATC-AATTCTCAT
449 TATTTTCCTTAAAATCAAAGT-TCAT
* * * * ** * *
543548 CCCTGAAATAAGACAAACATCGATTCTCGTAGCAATCTCCAAGCTTTTCAAAGATTGTGAAGCAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC-AAGATTGGGAACCAA
* * * *
543613 AAACAC-TTCCCTTCGTTAGGATACATGACATTGATGCTTTGGTGTCG-CGAAAGGCTTTTTTTT
65 AAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGAAGAAAAGC--TTTTCT
* * * * * *
543676 TTGCAACGTTTTTGATAGAATTAAAGATTGA-CTCTTAAATAAGACACACCTGAATAGTCATACT
128 TTCCAA-GTTTTTGATAGAATCAAAG-TTTATCTCTTAAATAAGACAAACATTAATAGTCATACT
** * * * * * * * * *
543740 AATCCTTATTCTTTTTAGGATTAGGAACAATAAACATAATCGTCTCATAAGGACACATAATATTA
191 AATCCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTG
* * *
543805 ATGCTTTGGTTTCGCAAGAAAAGCTTTCTTCCCCCT-AATTTTTGTAAAGTCTAAGTTCGAGCCT
256 ATGCTTTGGTTTCACAAGAAAGGCTTT-TT-CCCCTAAATTTTTGTAAAGTCTAAGTTCGTGCCT
* * * * * *
543869 AAAATGAGCCAAACATGGATTTTAGTAATGATCTTCATTCAATTTGTGATTAGGGAATATAAACA
319 CAAATGAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACA
* * * * * * * *
543934 AATTCTCCTCATTAGGATAAATGATACTGATGATTTTCTTTTTCTTTGAAATATTTTCTTTGGCC
384 CATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
543999 TATTTTCCTTAAAATCAAAGTTCAT
449 TATTTTCCTTAAAATCAAAGTTCAT
* * * * ** * * *
544024 CCTTTAAATAGGTCAAGCATCAATTCTCAAAATAGTCTCCATTTTTTTCAAAATTGGGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* *** * *
544089 AACACCTTTTTTTCATTAGGATACATGACATTAATGATTTGGTGTCGTAAGAAAAGCTTTTCTTT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTTTCTTT
* * *
544154 CCAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATATGACAAACATGAATTGTCATACTAAT
130 CCAA-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAAT
** * * *
544219 CCCCATTCTTTTTGGGATTAAGCACCATAAACACAGTCTTCTCATTAGGATGCATGATATTGATG
194 CCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGATG
* * * * *
544284 ATTTAGATTCTCAAGAAAGGCTTTTT--TCTAACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
259 CTTTGGTTTCACAAGAAAGGCTTTTTCCCCT-A--AATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * *
544347 AATGTGGCAAACATGGATTTTAGTAATG-TTCTTCATTCATTTTGTGATTAGGCACTACAAACAC
321 AATGAGCCAAACATGGATTCTAGTAATGATT-TTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * ** * *
544411 GTTCTTCTCATTAGGATAAAAGATATTGACGATTTTCTTTTACATGAAAATCTTTTCTTTGCCCT
385 ATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
*
544476 ATTTTCCCTAAAATCAAAGTTCA-
450 ATTTTCCTTAAAATCAAAGTTCAT
** *
544499 CCCTTAAATAAGACAAGCATCGATTCTAATAACAGTCTCCATTCTCTTCAAGATTGGGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* * * *
544564 AACATATTGCCTTCAATAGGATACATGACATTGATGCTTTGGTGTAGTAAGAAAAGCTTTTCTTT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG-AAGAAAAGCTTTTCTTT
* * * * * *
544629 CTAACTTTTTTTGACAGAATCAAAGTTTGTCT-TTAAAATAAGGCAAACATTAATACTCATACTA
130 CCAA--GTTTTTGATAGAATCAAAGTTTATCTCTT-AAATAAGACAAACATTAATAGTCATACTA
*** * * ** * * *
544693 ATCTTTATTCTTTTTAGGATAAGGCACTGTAAACATAGTCTTCTCATTTGAATACATGGTATTGA
192 ATCCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGA
* *
544758 TGCTTTGGTTTCACTAGAAAGGCTTTTTCCCAC-AAATTTTTGTTAAGTCTAAGTTCGTGCCTCA
257 TGCTTTGGTTTCACAAGAAAGGCTTTTTCCC-CTAAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * * *
544822 AATTAGCCAAACATAGATTCTAGTAATGATGTTCATTCATTTTCTGATTAGACACTATAAACACA
321 AATGAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * ***
544887 TTCTCCTCATTAGGATAAATGATAATGATAATTTCCTTTTGCATAGAAATCTTTTCCCAGCCCTA
386 TTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
* * *
544952 TTTTTCTTGAAATCATAGTTCAT
451 TTTTCCTTAAAATCAAAGTTCAT
* * * * * * * *
544975 CCCGTAAATAAGACAAACACCGATTCTCATAATAGTCTCAATTTTTTTCATGATTGGGAACCAAA
1 CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
* * * * * ** *
545040 AACACATTCCCTTCATTAAGAGACATGGCATTGGTGCTTTAGG-ATCGCAAGAAATTCTTTTCAT
66 AACACATTCCCTTCATTAGGATACATGACATTGATGCTTT-GGTGTCG-AAGAAAAGCTTTTCTT
* * * * * ***
545104 TCCACAGTTTTCGATAAAATAAAAGTTTGTCTCTTAAATAAGATATTTATTAATAGTCATACTAA
129 TCCA-AGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAA
* * * ** ** * *
545169 TCCCTATTCCTTTCAGGATTAATCACTGTAAACATAGTCTTCTCATAAGGATACAGGATATTGAT
193 TCCCCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGAT
* ** ** **
545234 G-TCTTGGTCTCTTAAGAAAGGCTTTTT-TTCTACCAATTTTTGTAAAGTCTAAGTTTATGCCTC
258 GCT-TTGGTTTCACAAGAAAGGCTTTTTCCCCTA--AATTTTTGTAAAGTCTAAGTTCGTGCCTC
** *
545297 AAATGAGCCAAACACAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
320 AAATGAGCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * * * * *
545362 CTTTTCCTCATTAGAATAAATGATACTGATGATTTTGTTTTGCTTGAAAATATTTTCTTTGCCCT
385 ATTCTCCTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
*
545427 ATTTTCCTTAAAATCAAAGTTAAT
450 ATTTTCCTTAAAATCAAAGTTCAT
* * * * * ** * *
545451 CCCCTAAATAAGACAAGCATCAATTCTTGCT-TCTGTCTCCAAGCTTCTCAAAGA-CGGGAACC-
1 CCCTTAAATAAGACAAGCATCGATTCTCG-TAACAGTCTCCATTCTTTTC-AAGATTGGGAACCA
* * * * *
545513 AAAGCATATTCCTTTCATTAGGATACATGACATTAATGCTTTGGTG-CAGCA-AAAAGCTTTTCT
64 AAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTC-GAAGAAAAGCTTTTCT
* * * * *
545576 TTGCAACATTTTTGATAAAATCAAAGTTTATCTCTTAAATAA-A-AAAAATGAATAGTCATACTA
128 TTCCAA-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTA
545639 ATCCC
192 ATCCC
545644 TAGTATTTAG
Statistics
Matches: 4026, Mismatches: 789, Indels: 238
0.80 0.16 0.05
Matches are distributed among these distances:
461 8 0.00
462 131 0.03
463 125 0.03
464 102 0.03
465 6 0.00
467 1 0.00
468 3 0.00
469 2 0.00
470 1 0.00
471 24 0.01
472 5 0.00
473 318 0.08
474 691 0.17
475 1144 0.28
476 1389 0.35
477 69 0.02
478 6 0.00
479 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (473 bp):
CCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAA
AACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGAAGAAAAGCTTTTCTTTC
CAAGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACATTAATAGTCATACTAATCC
CCATTCTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGATGCT
TTGGTTTCACAAGAAAGGCTTTTTCCCCTAAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGA
GCCAAACATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTC
CTCATTAGGATAAATGATATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTC
CTTAAAATCAAAGTTCAT
Found at i:546718 original size:474 final size:473
Alignment explanation
Indices: 545684--549115 Score: 3483
Period size: 475 Copynumber: 7.2 Consensus size: 473
545674 TTCTACCAAC
* * ** * * *
545684 TTTTGTAAAGTCTAAGTTCGTGCCTCAAATTAGAGAAACAAGGACTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * **
545749 ATTCTATGATTAGGCACTATAAACACATTCTCCAT-ATTAGGATAAAAGATATTGATGATTTTC-
66 ATTTTGTGATTAGGCACTATAAACACATTCTCC-TCATTAGGATAAAAGATATTGGCGATTTTCT
* * * *
545812 TTTGCATGGAAATCA-TTTCTTTGCCCTATTTTCATTAAATTCAATG-TCTATGCCTTAAAAAAT
130 TTTGCATGGAAAT-ATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTC-AT-CCTTAAAAAAG
* * ** * * * *
545875 ATAAGAATCGATTCTCGTAACAATAACTATTCTTTTCAATATTGAGAACCAAAATCACATTCCCT
192 ACAAGCATCGATTCTCGTAAC-ATCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCT
* * ** * * * *
545940 TCATTAGGATAAAGGACATTGATGCTTTTCGGTCGCAGGAAACGCTTTTCTTTCCACCAATTTTG
256 TCATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTG
* ** * * ** * **
546005 ATAGAACCAAAGTTTGTCCCCTAAATAAGAAAAACATGAACAGTCATACTTAT-CGTATTTCTTT
321 ATAGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCA-TTCTTT
* * * * *** *
546069 TTAAGATTAGGCACTATAAACATAGTCTTCTCATAAGGACACATGATATTGGTGCTTTGATTTCG
385 TCAAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTC-
546134 A-AAGAAAGGCTTTCTTGTCCC-C-AAT
449 ACAAGAAAGGC-TT-TT-TCCCTCAAAT
* * * * *
546159 TTTTGTAAAGTCTGAGTTCATGCCTCAAATGAGCTAAAGGTTGATTCTAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * * ** * *
546224 ATTTTGTGATTATG-ACTATAAACATAATCTCCTTTTTAGGATAAAAGCTATTGGCAATTTT-TT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
*
546287 TTGCATGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAAAAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC-TTAAAAAAGACA
*
546352 AGCCTCGATTCTCGTAACGATCTCCATTCTTTTCCAA-ATTGGGAACCAAAAACACATTCCCTTC
195 AGCATCGATTCTCGTAAC-ATCTCCATTCTTTT-CAAGATTGGGAACCAAAAACACATTCCCTTC
* *
546416 ATTAGGACACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCACTTTTGAT
258 ATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGAT
* *
546481 AGAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTCTCATACTAATCCCCATTCTTTTCA
323 AGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCA
* * *
546546 AGATTAGGCACCGTAAACATAGTCTTCTCATTCGGATACATGATATTGACACTTTGGTTTCACTA
388 AGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACAA
* *
546611 GAAAAGCTTTTTCCTTCAAAT
453 GAAAGGCTTTTTCCCTCAAAT
* *
546632 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGGGCCAAAGATAGATTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * *
546697 ATTTTGTGATTAGGCACTATAAATACATTCTCCTCCTTAGGATAAAAGATATTGACGATTTTCTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * * *
546762 TTGCATGGAAATCTTCTTTGCCTTATTTTCCTTTGATTTTCTTTTGCATGGAAATCTTCTTTGCC
131 TTGCATGGAAAT-AT-TTT--C---TTTGCC-CT-ATTTTC-CTT--A---AAA-----------
* * * * *
546827 TTATTTTCCTTACAATCAAAGTTCATCCCTTAAATATGGCAAGCATCGTTTCTCGTAATAGTCTC
170 ---------------TCAAAGTTCAT-CCTTAAAAAAGACAAGCATCGATTCTCGTAACA-TCTC
* * * *
546892 CTTTCTTTTAAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATCCATGACATTAATGCTT
218 CATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTT
** * * * * * * *
546957 TGGGGTTGCAAGAAATGCTTTTCTTTTCACCATTTTTGATAGAATCAAAATTTCTCTCATGAATA
283 TGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTTTCTTAAATA
* * * * * * *
547022 AGAAAAACATTAA-TGTCAGACTAATCCCCATTTTTTTTAGGATTAGGCACCGTCAACATAGTTT
348 AGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAACATAGTCT
* *
547086 TCTCATTTGGATACATGATATTGACACTTTGCTTTCACAAGAAAGGCTTTTTCCCTCAAAT
413 TCTCATTAGGATACATGATATTGACACTTTGGTTTCACAAGAAAGGCTTTTTCCCTCAAAT
* * * *
547147 TTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAGATGGATTATAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* ** * * *
547212 ATTTTGTAATTAGGCACTATAAACATGTTCTTCTAATTAGGATAAATA-ATATTGGCCATTTT-T
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAA-AGATATTGGCGATTTTCT
* * * * *
547275 TTTGTATGGAAATATTTTCTTTGCCATATTTTCTTTAAAATTAAAGTTTATCCCTTAAATAAAG-
130 TTTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCTTAAA-AAAGA
* * * * * ** * *
547339 CAAGCATCGATTCTCATAGCCGTCACCAATCTTTTCAAGATTAAGAACCAAAAACTCATTTCCTT
193 CAAGCATCGATTCTCGTA-ACATCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTT
* * * * * *
547404 TATTAGGATACATGGCATTGATGCTTTGGTGTCACAAGAAAATCTTTTCTTTCTAACATTTTTGA
257 CATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGA
* * * * ** *
547469 CAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCACATTCTTTTC
322 TAGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTC
* * * * * * * * ** ** * **
547534 CAGATTGGGCACCATAAGCATGGTTTTCTCGTTAGGATAAACGATATCAATGCTTTCGTTTTGCA
387 AAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACA
* * *
547599 AGAAAGGTTCTTTTCCCACCAAT
452 AGAAAGGCT-TTTTCCCTCAAAT
* * * * * * * * *
547622 TTTTGTAATGTCTAAGTCCGTACCTCAAATAAGCAAAACATGGATTCTAGTAATAATCTTCAATC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* **
547687 ATTTTATGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGAAGATTTTCTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * ** * * *
547752 TCGCTTGGAAACCTTTTCTTTGCCCTATTTTCCTTGAAATCAAAGTTCGTACCTTAAATAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCTTAAAAAAGACA
* * ** * * *
547817 AGCATCGATTCTTGTAACAGTCTCCATTCTTTCCAAGATTTAGAACTAAAAGCACATTCCTTTCA
195 AGCATCGATTCTCGTAACA-TCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCA
* * ** * * * ** * * *
547882 TTAAGATACATGACATTGATGCTTTGGTGTCGTAAAAAAAGTTTTTCTTTTCGTCGTTTTTTATG
259 TTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATA
* ** * * *
547947 GAATCAACGTTTGTCTCTCTT-AA-AA-AAAAACAAGAATAGTCATACTAATCCCTATTCTTTTT
324 GAATCAAAGTTTGT-T-TCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTC
* * * * * * *** * *
548009 AAGATTAGGCACTATAAACATAATTTTCTCATAAGGGTACACGATATTGATGTTTTGCTTTCTCA
387 AAGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACA
* *
548074 AGAAAGGCTTTCTTCCCCCTAAT
452 AGAAAGGCTTT-TTCCCTCAAAT
** * *
548097 TTTTGTAAAGTCTAAGTTCATGCCAAAAATGAGCCAAACATGGATTCTAGTAATGATTTTCATTC
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * * ** *
548162 ATTTTGTGGTTTGGCACTATAAATACATTCTCCTCATTAGGATAAAAGATATTAACGATTTTCTC
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * *
548227 TTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAAATCAAAGTTCATCCTTTAAATAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC-TTAAAAAAGACA
* * *
548292 AGCATCGATTCTCGTAATAGTC-CCAATTCTTTTAAAGATTGGGAACTAAAAACACATTCCCTTC
195 AGCATCGATTCTCGTAACA-TCTCC-ATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTC
* * * * * *
548356 ATTAGGATACATGAGAGTAATGCTTTGGGGTCGCAAGAAATGCTTTTCTTTTCACCATTTTTGAT
258 ATTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGAT
* * * * *
548421 ATAATTAAAATTTGTTTCTTAAATAAGACAAACATTAATTGTCATGCTAATCCCCATTCTTTTCA
323 AGAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCA
* * * * * * *
548486 GGATTAGGCATCGTCAACATAGTCTTCTCATTCA-GATACATGATATAGACACTGTAGTTTCACA
388 AGATTAGGCACCATAAACATAGTCTTCTCATT-AGGATACATGATATTGACACTTTGGTTTCACA
548550 AGAAAGGCTTTTTCCCTCAAAT
452 AGAAAGGCTTTTTCCCTCAAAT
* * *
548572 TTTTGTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
* * * * *
548637 ATTTTGTAATTAAGCACTATAAACACGTTCTCCTCATTAGGATAAATGATATTGGTGATTTTCTT
66 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
* * * * * * *
548702 TTGCACGAAAATCTTTTCTTTACCCTATTTTTCTTAAAATCAACGTTCATCCCTTAAATAAGACA
131 TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCTTAAAAAAGACA
** * * * *
548767 ATTATCGATTCTCATAACAGTCTCCGTTCTTTTCAAGATTGGGAACCAAAAACACTTTCCTTTCA
195 AGCATCGATTCTCGTAACA-TCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCA
* * *
548832 TTAGGATACATGATATTGATGCTTTAGGGTCACAAGAAAAGCTTTTCTTTCCA-CACTTTTGATA
259 TTAGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATA
* *
548896 GAATCAAAGTTTGTTTCTTAAATAAGATAAACATTAATTGTCATACTAATCCCCAATCTTTTCAA
324 GAATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCAA
* *
548961 GATTAGGCACCATAAACATAGTCTTCTCATTCA-GATAAATGATATTGACACTTTGGTTTCACTA
389 GATTAGGCACCATAAACATAGTCTTCTCATT-AGGATACATGATATTGACACTTTGGTTTCACAA
549025 GAAAGGCTTTTTCCCTCAAAT
453 GAAAGGCTTTTTCCCTCAAAT
* *
549046 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAA--ATGTTCATTT
1 TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
549109 ATTTTGT
66 ATTTTGT
549116 ATTTATAGTG
Statistics
Matches: 2451, Mismatches: 430, Indels: 155
0.81 0.14 0.05
Matches are distributed among these distances:
471 3 0.00
472 19 0.01
473 239 0.10
474 626 0.26
475 864 0.35
476 255 0.10
477 6 0.00
478 4 0.00
479 1 0.00
482 5 0.00
483 1 0.00
484 6 0.00
485 2 0.00
487 1 0.00
490 3 0.00
499 3 0.00
502 1 0.00
504 3 0.00
505 6 0.00
506 1 0.00
507 5 0.00
510 1 0.00
512 3 0.00
513 1 0.00
514 13 0.01
515 213 0.09
516 164 0.07
517 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (473 bp):
TTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGCCAAAGATGGATTCTAGTAATGATCTTCATTC
ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAAGATATTGGCGATTTTCTT
TTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCTTAAAAAAGACAA
GCATCGATTCTCGTAACATCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATT
AGGATACATGACATTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGA
ATCAAAGTTTGTTTCTTAAATAAGAAAAACATTAATTGTCATACTAATCCCCATTCTTTTCAAGA
TTAGGCACCATAAACATAGTCTTCTCATTAGGATACATGATATTGACACTTTGGTTTCACAAGAA
AGGCTTTTTCCCTCAAAT
Found at i:546814 original size:43 final size:43
Alignment explanation
Indices: 546753--546837 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
546743 AGATATTGAC
546753 GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTCCTTT
1 GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTCCTTT
546796 GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTCCTT
1 GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTCCTT
546838 ACAATCAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.14, C:0.19, G:0.12, T:0.55
Consensus pattern (43 bp):
GATTTTCTTTTGCATGGAAATCTTCTTTGCCTTATTTTCCTTT
Found at i:550031 original size:475 final size:470
Alignment explanation
Indices: 549117--550763 Score: 1753
Period size: 475 Copynumber: 3.5 Consensus size: 470
549107 TTATTTTGTA
* * * * *
549117 TTTATAGTGCCTAATCACAAAATGAATGAAGAACATTACTAAAATCCACGTTTGCCACATTTGGG
1 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGAG
** * * *
549182 GCACGAAGATAGACTTTACAAAAATTGGTTAGAAAAAAGCCTTTCTTGAGAATCCAAAGCATCAA
66 GCACGAACTTAGACTTTACAAAAATTGG--GGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCAA
* * * *
549247 TATCATGCAT-CTTAATGAAAAGACTATGTTTATGGTGTCTAATCCTAAAAAGAATGGGGATTAG
129 TATCATGTATCCTT-ATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
* * ** *
549311 TATGACTATTCATGTTTATCATATTTAAGAGACAAACTTTGATTCTATCAAAAACATTGGAAAGA
193 TATGACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGA
* * *
549376 AAAGCTTTTCTTGCGACACCAAAGCATTAATGTCATGCATCCTAATGAAA-CGAACGTGTTTTTG
258 AAAGCTTTTC--GCGACACCAAAGCATTAATGTCATGTATCCTAAT-AAAGGGAAAGTGTTTTTG
* * ** ** ** *
549440 GTTCCCAAT-TTTGAATAGAATGGAGATTATTTTGAGAATTGATGCTTGACTT-TTTAAAGGATG
320 GTTCACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAA-TGATGCTT-ACTTATTTAAGGGATG
* * ** * *
549503 AACTTTGATTTTAAGAAAAATAGGGCAAAGAAAATATTTCAAAG-AATAAGAAAATCATCAGTGT
383 AGCTTTGATTTTAAGAAAAATAGGGCAAAGAAAAGATTTC-AAGCAA-AAGAAAATCAAAAATAT
*
549567 CATTTATCCTAATGAGGAGAATTTG
446 CATTTATCCTAATGAGGAGAATGTG
* * * *
549592 TTTATATTGCCTAATCACAAATTGAATGAAGATCATTACT-GAAATCCATGTTTGGCTCATTTTA
1 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG-AATCCATGTTTGCCTCATTTGA
* *
549656 GGCATGAACTTAGACTTTACAAAAATTAGGCGGAAGAAAGCCTTTCTTGTGAAACCAAAGCATCA
65 GGCACGAACTTAGACTTTACAAAAATT-GG-GGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCA
* * * *
549721 ATATCGTGTATCCTTATGAGAAGATTATGTTTATTGTTCCTAATCCTAAAAAGAATAGGGATTAG
128 ATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
* * * * * *
549786 TATGACTATTCATGTGTCTCTTATTTAAGAGTCAATCTTTAATTCTATAAAAAATGTTGCAAAAA
193 TATGACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGA
* **
549851 AAAGCTTTTCGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTTCTT
258 AAAGCTTTTCGCGACACCAAAGCATTAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTGGTT
*
549916 CACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAATCGATGCTTATCTTATTTCAGGGATGAGC
323 CACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAAT-GATGCTTA-CTTATTTAAGGGATGAGC
* *
549981 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAGTTTCACGCAAAAGAAAATCAAAAATATCATT
386 TTTGATTTTAAGAAAAATAGGGCAAAGAAAAGA-TTTCAAGCAAAAGAAAATCAAAAATATCATT
*
550046 TATCCTAACGAGGAGAATGTG
450 TATCCTAATGAGGAGAATGTG
* * *
550067 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAACCCGTGTTTGCCTTATTTGAG
1 TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGAG
** *
550132 G--C--AC--A-A----AC-----TT--GG-----A--CTTTCTTGCAAAACCAAAACATCAATA
66 GCACGAACTTAGACTTTACAAAAATTGGGGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATA
* * * * * * * *
550172 TCATATATCCTAACGAGAAGACTATGTTTTTGGTGCCCAATACTTAAAAGAATGGGGATTAGTAT
131 TCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAGTAT
* * *
550237 AACTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATCAAAAATGTTGCAAAGAAAA
196 GACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGAAAA
* * * * * *
550302 GCTTTTTGCAACACCAATGCATTAATGTCATGTAACCGAATAAAGGGAATGTGTTTTTGGTTCAC
261 GCTTTTCGCGACACCAAAGCATTAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTGGTTCAC
* * * * * * * ** *
550367 TACCTTTGAAAAGCTTAGACACTGCTACAAGAAGTGTTGCTCGCCTTATTTAAGGGATGAGCTCT
326 AATCTTTGAAAAGCTTGGAGATTGCTACGAGAA-TGATGCT-TACTTATTTAAGGGATGAGCTTT
* * * *
550432 GACTTTT-AGAAAAATAGGGCAAAGAAAAGATTTTCGTA-CAAAATAAACTAAAAAATATCATTT
389 GA-TTTTAAGAAAAATAGGGCAAAGAAAAGA-TTTC-AAGCAAAAGAAAATCAAAAATATCATTT
* *
550495 ATCCTAATAAGGAGAATGGG
451 ATCCTAATGAGGAGAATGTG
* * * *
550515 TTTATAGTGCCTAAAT-ACAAAATGAATAAAGATGATTACTAGATTCCATGTTTGTCTCATTTGA
1 TTTATAGTGCCT-AATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGA
* * * *
550579 GGCACGAACTTAGACGTTACAAAAATTAGGGGGAAAAAAGCCATTCTTTTGAAACCAAAGAATCA
65 GGCACGAACTTAGACTTTACAAAAATT--GGGGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCA
** * * * *
550644 ATATTGTGTATCCTTATGAGAAGACTACGTTTATGGTGCCAAATCCTAAAATGAATAAGGATTAG
128 ATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
* * **
550709 TATGACTATTAATGTTTGC-CTTATTTAAGAGACAAATTTTTTTTTCTATCAAAAA
193 TATGACTATTCATGTTT-CTCTTATTTAAGAGACAAA-CTTTGATTCTATCAAAAA
550764 CTGTGAAATG
Statistics
Matches: 970, Mismatches: 157, Indels: 89
0.80 0.13 0.07
Matches are distributed among these distances:
448 362 0.37
449 8 0.01
450 2 0.00
452 2 0.00
454 1 0.00
455 3 0.00
459 4 0.00
464 4 0.00
468 3 0.00
469 1 0.00
471 2 0.00
472 3 0.00
473 53 0.05
474 32 0.03
475 464 0.48
476 26 0.03
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (470 bp):
TTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGCCTCATTTGAG
GCACGAACTTAGACTTTACAAAAATTGGGGAAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATA
TCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAGTAT
GACTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAATGTTGCAAAGAAAA
GCTTTTCGCGACACCAAAGCATTAATGTCATGTATCCTAATAAAGGGAAAGTGTTTTTGGTTCAC
AATCTTTGAAAAGCTTGGAGATTGCTACGAGAATGATGCTTACTTATTTAAGGGATGAGCTTTGA
TTTTAAGAAAAATAGGGCAAAGAAAAGATTTCAAGCAAAAGAAAATCAAAAATATCATTTATCCT
AATGAGGAGAATGTG
Found at i:550537 original size:448 final size:448
Alignment explanation
Indices: 549697--550589 Score: 1164
Period size: 448 Copynumber: 2.0 Consensus size: 448
549687 GGAAGAAAGC
** * * * * * * * *
549697 CTTTCTTGTGAAACCAAAGCATCAATATCGTGTATCCTTATGAGAAGATTATGTTTATTGTTCCT
1 CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTTATTGTGCCC
* * * *
549762 AATCCTAAAAAGAATAGGGATTAGTATGACTATTCATGTGTCTCTTATTTAAGAGTCAATCTTTA
66 AATACTAAAAAGAATAGGGATTAGTATAACTATTCATGTGTCTCTTATTTAAGAGACAAACTTTA
* * *
549827 ATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCGACACCAAAGCATCAATGTCATGTATCCT
131 ATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCAACACCAAAGCATCAATGTCATGTAACCG
* * * * * *
549892 AATAAAGGGAAAGTGTTTTTTCTTCACAATCTTTGAAAAGCTTGGAGATTGCTACGAGAATCGAT
196 AATAAAGGGAAAGTGTTTTTGCTTCACAACCTTTGAAAAGCTTAGACACTGCTACAAGAATCGAT
* * * * * *
549957 GCTTATCTTATTTCAGGGATGAGCTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAGTTTCACG
261 GCTCACCTTATTTAAGGGATGAGCTCTGATTTTAAGAAAAATAGGGCAAAGAAAAGAGTTTCACA
* * *
550022 CAAAAGAAAATCAAAAATATCATTTATCCTAACGAGGAGAATGTGTTTATAGTGCCTAATCACAA
326 CAAAAGAAAATAAAAAATATCATTTATCCTAACAAGGAGAATGGGTTTATAGTGCCTAATCACAA
* * *
550087 AATGAATGAAGATCATTACTAGAACCCGTGTTTGCCTTATTTGAGGCACAAACTTGGA
391 AATGAATAAAGATCATTACTAGAACCCATGTTTGCCTCATTTGAGGCACAAACTTGGA
550145 CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTT-TTGGTGCC
1 CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTTATT-GTGCC
* * * *
550209 CAATACTTAAAAGAATGGGGATTAGTATAACTATTCATGTTTGTCTTATTTAAGAGACAAACTTT
65 CAATACTAAAAAGAATAGGGATTAGTATAACTATTCATGTGTCTCTTATTTAAGAGACAAACTTT
* * * * * * *
550274 GATTTTATCAAAAATGTTGCAAAGAAAAGCTTTTTGCAACACCAATGCATTAATGTCATGTAACC
130 AATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCAACACCAAAGCATCAATGTCATGTAACC
* * *
550339 GAATAAAGGGAATGTGTTTTTGGTTCACTACCTTTGAAAAGCTTAGACACTGCTACAAGAAGT-G
195 GAATAAAGGGAAAGTGTTTTTGCTTCACAACCTTTGAAAAGCTTAGACACTGCTACAAGAA-TCG
* * *
550403 TTGCTCGCCTTATTTAAGGGATGAGCTCTGACTTTT-AGAAAAATAGGGCAAAGAAAAGATTTTC
259 ATGCTCACCTTATTTAAGGGATGAGCTCTGA-TTTTAAGAAAAATAGGGCAAAGAAAAGAGTTTC
** * * *
550467 GTACAAAATAAACTAAAAAATATCATTTATCCTAATAAGGAGAATGGGTTTATAGTGCCTAAAT-
323 ACACAAAAGAAAATAAAAAATATCATTTATCCTAACAAGGAGAATGGGTTTATAGTGCCT-AATC
* ** * *
550531 ACAAAATGAATAAAGATGATTACTAGATTCCATGTTTGTCTCATTTGAGGCACGAACTT
387 ACAAAATGAATAAAGATCATTACTAGAACCCATGTTTGCCTCATTTGAGGCACAAACTT
550590 AGACGTTACA
Statistics
Matches: 379, Mismatches: 62, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
447 2 0.01
448 369 0.97
449 8 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (448 bp):
CTTTCTTGCAAAACCAAAACATCAATATCATATATCCTAACGAGAAGACTATGTTTATTGTGCCC
AATACTAAAAAGAATAGGGATTAGTATAACTATTCATGTGTCTCTTATTTAAGAGACAAACTTTA
ATTCTATAAAAAATGTTGCAAAAAAAAGCTTTTCGCAACACCAAAGCATCAATGTCATGTAACCG
AATAAAGGGAAAGTGTTTTTGCTTCACAACCTTTGAAAAGCTTAGACACTGCTACAAGAATCGAT
GCTCACCTTATTTAAGGGATGAGCTCTGATTTTAAGAAAAATAGGGCAAAGAAAAGAGTTTCACA
CAAAAGAAAATAAAAAATATCATTTATCCTAACAAGGAGAATGGGTTTATAGTGCCTAATCACAA
AATGAATAAAGATCATTACTAGAACCCATGTTTGCCTCATTTGAGGCACAAACTTGGA
Found at i:551698 original size:13 final size:13
Alignment explanation
Indices: 551680--551705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
551670 CAATTTTTTG
551680 TGTATCGATACAT
1 TGTATCGATACAT
551693 TGTATCGATACAT
1 TGTATCGATACAT
551706 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:551770 original size:21 final size:21
Alignment explanation
Indices: 551744--551819 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
551734 CTGCCAAGAA
551744 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
551765 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
551785 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
551806 ATGTATCGATACAT
1 ATGTATCGATACAT
551820 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:551789 original size:20 final size:20
Alignment explanation
Indices: 551764--551837 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
551754 ACATCTTTTT
551764 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
551784 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
551805 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
551825 CATGTATCGATAC
1 CATGTATCGATAC
551838 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:551801 original size:41 final size:41
Alignment explanation
Indices: 551744--551837 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
551734 CTGCCAAGAA
551744 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
551785 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
551826 ATGTATCGATAC
1 ATGTATCGATAC
551838 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:553647 original size:478 final size:472
Alignment explanation
Indices: 552120--556980 Score: 3675
Period size: 476 Copynumber: 10.3 Consensus size: 472
552110 CAAAACCAAG
* * * * * *
552120 ATCCTAACAGAGGAGAATGTGTTTATCGTGCCTAATCAGAAAAGGAATAAAGATCATTCCTAGAA
1 ATCCTAA-TGAGGAGAATGTGTTTATAGTGCCTAATCACAAAA-TAAAAAAGATCATTACTAGAA
* ** * *
552185 TCTATGTTTGGCAT-ATTTTTGGCACGAACATAGACTTTACAAAGATTTGTGGGG-AAAAAGCCT
64 TCCATGTTTGGC-TCATTTGAGGCACGAACTTAGACTTTACAAA-AATTG-GGGGAAAAAAGCCT
* * * ** ** *
552248 TT-TTGGT-GAAACCAAAGAATCAATATCATGTATTCTAACGAGAAGACTACATTTACAGTGCTT
126 TTCTT--TCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCT
* * * * * * *
552311 TATCTTGAAAAGAATGGGGATTAGTCTGAGTATTATTGTTTATCTTATTTAAAAGATAAACTTTG
189 AATCCTGAAAAGAATGGGGATTAGTATGACTATTAATGTTT-GCTTATTTAAAAGATAAACTTTT
* * * * * * * * *
552376 ATTCTGTCAAAAAACTTCGA-AAGAAAAGCTTTTCTTGTGACACCAAAGTATCAATGTCATGTAT
253 ATTCTATCAAAACAGTT-GACAAGAAAAGCATTTCTTGCGAC-CCAAGGCATCAAAGCCATGTAT
** * * * * * *
552440 CCTATTGGAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAGCGACTGTTACGAGAATCG
316 CCTAAAGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATCG
** * * * * * * * *
552505 ATGCTTGCCTTTTTTAAGGGATGAACTTTAATTTAAAGGAAAATAAGGCAAATAAACGATTTTCA
381 ATGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCA
*
552570 TGCAAAAGAAAATTGCCAATATCATTT
446 TGCAAAAGAAAATTACCAATATCATTT
* * *
552597 ATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCTAATCACAAAATAAATGAAGATCGTTACTAG
1 ATCCTAATGAGGAGAATGTGTTTATAG---TGCCTAATCACAAAATAAA-AAAGATCATTACTAG
* * * * * * ** * * * * * *
552661 AATCCACGTTTAGCTCAGTTAAAGCATGAACTTTCACCTAAGAAAAAGTGGTTGGAAAAAAGCTT
62 AATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG-GGGAAAAAAGCCT
* * * * *
552726 TTCTTGCGAATCTAAAGCATCAATATCATGTATCTTAATGAGAAGACTGTGTTTATGGTGCCTAA
126 TTCTTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAA
* * ** * * *
552791 TCCTAAAAAAAATGGGGATTAGTATGAC-ATTCGTGGTTAT-CTTATTTAAGAGACAAACTTTGA
191 TCCTGAAAAGAATGGGGATTAGTATGACTATTAAT-GTT-TGCTTATTTAAAAGATAAACTTTTA
* * * * * * *
552854 TTTTGTCAACAAC-GTTG-CAAAGAAAAGC-TTT-TTGCAAAACCAAAGCATCAATGTCATGTAT
254 TTCTATCAA-AACAGTTGAC-AAGAAAAGCATTTCTTGC-GACCCAAGGCATCAAAGCCATGTAT
* ** ** * * *
552915 CCTAATA-AAGGGAATGTGTTTTTGGTTCACT-ATCTTTGAAATGCTTGGAGACTGCTACAAGTA
316 CCTAA-AGAAGGGAATGTGTTTTTGGTTC-CTAATC-TTGAAAAGAATGGAGACTATTTCGAGAA
** * ** *
552978 TCGATGCTCGTCTTATTTAAGGGA-TAAGCACTGATGTTT-TGGAAAATAGGGCAAAGAAAAA-A
378 TCGATGCTTATCTTATTTAAGGGACGAA-CTTTGAT-TTTAAGGAAAATAGGGCAAA-AAAAAGA
* * **
553040 TTT-TAGTACAAAAGAAAATTAAAAATATCATTT
440 TTTCCA-TGCAAAAGAAAATTACCAATATCATTT
* *
553073 ATCCTAACGAGGAGAATGGGTTTATAGTGCCTAATCACAAAATAAACAAAGATCATTACTAGAAT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAA-AAAGATCATTACTAGAAT
* *
553138 CCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTC
65 CCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT-GGGGGAAAAAAGCCTTTC
* * * * *
553203 TTTCAAAACCAAAGCTTCAATATCATGTATCCTTATGAGAAGAATACGCTTT-TGGTGCCTAATC
129 TTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATG-TTTATGGTGCCTAATC
** * * *
553267 CTGAAGTGAATGAGGATTAATATGACTATTAATGTTTGCGTTATTTAAAAGACAAACTTTTATTC
193 CTGAAAAGAATGGGGATTAGTATGACTATTAATGTTTGC-TTATTTAAAAGATAAACTTTTATTC
* * * * *
553332 TATCGAAAACAG-TGACATA-AAAAGAATTTCTTACGACCCTAAGGCACCAAAGCCTTGTCTCCT
257 TATC-AAAACAGTTGACA-AGAAAAGCATTTCTTGCGACCC-AAGGCATCAAAGCCATGTATCCT
* * *
553395 AATGAAGGGAATCTATTTTTGGTTCCTAATCTTGAAAAGAATGGAGAC-AGTTTCGAGAATCGAT
319 AAAGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTA-TTTCGAGAATCGAT
*
553459 GCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAAATAGGGCAAAAAAAAGATTTTCAT
383 GCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGG-AAAATAGGGCAAAAAAAAGATTTCCAT
* * **
553524 GCAAAA-AGAAATTATCATTATTTTTTT
447 GCAAAAGA-AAATTACCAATA-TCATTT
* * * * * *
553551 ATCCTAATGAGGAGTATGTGTTTATCA-AGCCTAATCAGAAAATGAATAAAGATTATTAGTAGAA
1 ATCCTAATGAGGAGAATGTGTTTAT-AGTGCCTAATCACAAAAT-AAAAAAGATCATTACTAGAA
* ** * * * *
553615 TCTATGTTTGGGACAATTGTGGCACAAACTTAGACTTTACAAAAATTTGTGGGAAAAAAGCCTTT
64 TCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAA-TTGGGGGAAAAAAGCCTTT
* ** * *
553680 CTAGT-GAAACCAAAGCATCAATATCATGTATTCC-AACAAGAAGACTATGTTTACGGTGCCTCA
128 CT-TTCGAAACCAAAGCATCAATATCATGTA-TCCTAATGAGAAGACTATGTTTATGGTGCCTAA
* * *
553743 TCTTGAAAAGAATGGGGATTAGTATGAGTATTAATGTTTATCTTATTTAAAAGATAAA-TTTTGA
191 TCCTGAAAAGAATGGGGATTAGTATGACTATTAATGTTT-GCTTATTTAAAAGATAAACTTTT-A
* * * *
553807 TTCTATCAAAAAAGTTGGA-AAGAAAAGCTTTTCTTGCGGTA-CCAAGGCATCAATA-TCGTGTA
254 TTCTATCAAAACAGTT-GACAAGAAAAGCATTTCTTGC-G-ACCCAAGGCATCAA-AGCCATGTA
* * * * * * *
553869 TCCTAACGAAGGGAATGTGTTTTTGGTTCCCAATCTCGAAAAAAATAGAGACTATTACGAGAATT
315 TCCTAAAGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATC
* * * *
553934 GATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCC
380 GATGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCC
*
553999 ATGCAAAAGAAAATTGCCAATATCATTT
445 ATGCAAAAGAAAATTACCAATATCATTT
* * * * *
554027 ATCCTATTTAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAAAGAATATCGTTACTATAAT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAAA-AAGATCATTACTAGAAT
* * * * *
554092 CCATGTTTGGCTCATTTAAGGTAGGAATTTAGACTTTACAAAAATTGGTTGGAAAAAAGCCTTTC
65 CCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG-GGGAAAAAAGCCTTTC
* * * * * * * *
554157 TTGCGAATCTAAAGCATCAATATCTTGTATCCTAATGAGAAGACTGTGTTTGTGGTACATAATCC
129 TTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCC
* * * * *
554222 T-AAAACAATGGGGATTAGTATGACTATTCAA-GTTTGTCTTATTTAAGAGATAAGCTTTGATTT
194 TGAAAAGAATGGGGATTAGTATGACTATT-AATGTTTG-CTTATTTAAAAGATAAACTTTTATTC
* *
554285 TATCAAAA-ACGTTG-CAAAGAAAAGCA-TT-TTGCGACACCAAAGCATCAATGCCATGTATCCT
257 TATCAAAACA-GTTGAC-AAGAAAAGCATTTCTTGCGAC-CCAAGGCATCAAAGCCATGTATCCT
* * *
554346 AAAGAAGGGAATGTGTTTTTGGTTCACTAA-CTTTGTAAAGATTGGAGACTACTAT-GAGAATCG
319 AAAGAAGGGAATGTGTTTTTGGTTC-CTAATC-TTGAAAAGAATGGAGACTA-TTTCGAGAATCG
*
554409 ATGCTTATCTTATTTAA--G--G------G----T------AA-A---C----AAAAGATTTTCA
381 ATGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCA
* * ** *
554446 TACAAAAGAAAATAAAAAACATCATTT
446 TGCAAAAGAAAATTACCAATATCATTT
** * * * **
554473 ATCCTAACAAGGAGAGTGGGTTTATAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAAT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAAT-AAAAAAGATCATTACTAGAAT
** * * * *
554538 CCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTAGCGGGTAGAAAGCTTTTC
65 CCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT-GGGGGAAAAAAGCCTTTC
* * * *
554603 TTTCGAAACCAAAGCATCAATATCGTGTATCCTTATGAGAAGACTACG--T-T--TGCCTTAT--
129 TTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCC
* * * * * *
554661 T------TAT--GGATTAGTATGGCTATCAATCTTTGCCTTATTTAAGAGACAAACTTTTATTCT
194 TGAAAAGAATGGGGATTAGTATGACTATTAATGTTTG-CTTATTTAAAAGATAAACTTTTATTCT
* * * * * * * * * *
554718 ATCGAAAAC--TAT-AAAATGAAAAG-ATTTTTTTACGACCCTAAAGCACCAATGTCTTATCTCC
258 ATC-AAAACAGT-TGACAA-GAAAAGCA-TTTCTTGCGACCC-AAGGCATCAAAGCCATGTATCC
* * * * * * *
554779 TAATGAATGGAATCTGGTTTTGGTTCCCT-ACCTTGAAAAGAATGGAGACTGTTTTGAGAATCGA
318 TAAAGAAGGGAATGTGTTTTTGGTT-CCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATCGA
* * * ** * *
554843 TGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAGGAAAATAGGATAAAGAAAAGATTTTCAT
382 TGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCAT
* * *
554908 GCAAAAGGAAATTATCATTATCATTT
447 GCAAAAGAAAATTACCAATATCATTT
* * ** *
554934 ATCCTAATGAGGAGAAGGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGGAT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAAT-AAAAAAGATCATTACTAGAAT
* * * * * *
554999 CCATGTTTAGCTTATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAA-CCTTT
65 CCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT-GGGGGAA-AAAAGCCTTT
* * * * * *
555063 CTTTCGAAACCAAAGCATCAATATCGTGTATTCTTATGAGAAAACTACG-TTATTGTGGCCTAAT
128 CTTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGT-GCCTAAT
* * * * * * * * *
555127 CTTGAAATGAATGTGGATTAGTATGGCTATTAATGTTTGCCTTCTTTGAGAGACAAACTTCTATT
192 CCTGAAAAGAATGGGGATTAGTATGACTATTAATGTTTG-CTTATTTAAAAGATAAACTTTTATT
* * ** * * * * * *
555192 CTATCAAAA-ACTGTGA-AATGAAAAGAATTTCTTGCGACCCTAAAACACCAATGTCTTATCTCC
256 CTATCAAAACAGT-TGACAA-GAAAAGCATTTCTTGCGACCC-AAGGCATCAAAGCCATGTATCC
* * * * *
555255 TAATGAAGGGAATCTGGTTTTGGTTCCCT-ATCTTGAAAAGAATAGAGACTGTTTCGAGAATCGA
318 TAAAGAAGGGAATGTGTTTTTGGTT-CCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATCGA
* * * * * ** * *
555319 TGTTTATCTTATTTAAGCGATGAACTTTTATTTTAAGGAAAAGAGGATAAAGAAAAGATTTTCAT
382 TGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCAT
* * * *
555384 GCAAAAGGAAATTATCATTATCATTC
447 GCAAAAGAAAATTACCAATATCATTT
* * * * ** *
555410 GTCCTAATGAAGAGAAGGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGATT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAAT-AAAAAAGATCATTACTAGAAT
** * * * *
555475 CCATGTTTGTTTCATTTGAGGCGCGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTC
65 CCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT-GGGGGAAAAAAGCCTTTC
* * ** *
555540 TTTCGAAACCAAAGCATCAATATCGTGTATCCTTATGAGAAGACTACATTTA-----CCTTAT--
129 TTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCC
* * * * **
555598 T------TAT--GGATTAATATGGCTATTAATGTTTGCCTTATTTAAGAGGCAAACTTTTATTCT
194 TGAAAAGAATGGGGATTAGTATGACTATTAATGTTTG-CTTATTTAAAAGATAAACTTTTATTCT
* * * * * * * * * * *
555655 ATCGAAAAC--TAT-AAAATGAAAAGAATTTTTTACGACCCTAAAGCACCAATGTCTTATCTCCT
258 ATC-AAAACAGT-TGACAA-GAAAAGCATTTCTTGCGACCC-AAGGCATCAAAGCCATGTATCCT
* * * * * *
555717 AATGAAGGGAATCTGGTTTTGGTTCCCT-ATCTTAAAAAGAATGGAGACTGTTTTGAGAATCGAT
319 AAAGAAGGGAATGTGTTTTTGGTT-CCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATCGAT
* * * * ** * *
555781 GCTTATCTTATTTAAGGGATGAACTTTTATTTCATGGAAAATAGGATAAAGAAAAGATTTTCATG
383 GCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCATG
* * ** *
555846 CAAAAGCAAATTATCTTTATCATTC
448 CAAAAGAAAATTACCAATATCATTT
* * ** *
555871 ATCCTAATGAAGAGAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAAAAT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAAT-AAAAAAGATCATTACTAGAAT
* * * * *
555936 CCATGTTTGGCTCATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTC
65 CCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT-GGGGGAAAAAAGCCTTTC
* * * * * * *
556001 TTTCGAAACCAAAGCATCAATATCGTGTATCCTTATGAGAAAACTACGTTTTTGGGGCCTAATCT
129 TTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCC
* * * * * *
556066 TGAAATGAATGTGGATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCT
194 TGAAAAGAATGGGGATTAGTATGACTATTAATGTTTG-CTTATTTAAAAGATAAACTTTTATTCT
* * * * * * *
556131 ATCGAAA-ATTGTGA-AATGAAAA-CAATTTCTTGCGACCCTAAAGCACCAATGTCC-TATCTCC
258 ATCAAAACAGT-TGACAA-GAAAAGC-ATTTCTTGCGACCC-AAGGCATCAAAG-CCATGTATCC
* * * * * * *
556192 TAATGAAGGGAATCTGGTTTTGCTTCCCT-ATCTTAAAAAGAATGAAAAC-AGTTTCGAGAATCG
318 TAAAGAAGGGAATGTGTTTTTGGTT-CCTAATCTTGAAAAGAATGGAGACTA-TTTCGAGAATCG
* * * *
556255 ATGCTTATCTTATTTAAGGGATGAACTTTGATTTCAAGGAAAATAGGACAAAGAAAAGATTTCCA
381 ATGCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCA
* * *
556320 TGCAAAAGGAAATTATCATTATCATTT
446 TGCAAAAGAAAATTACCAATATCATTT
* * * *
556347 ATCCTAATGAGGAGAATGTGTTTATCGTGCCTAATCAGAAAATGGATAAAGATCATTACTAGAAT
1 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAAT-AAAAAAGATCATTACTAGAAT
* ** * * * *
556412 CTATGTTTGGCAT-ATTTTTGTCACGAACTTAGACTTTACAAAGATTTATGTGGAAAAAAGCCTT
65 CCATGTTTGGC-TCATTTGAGGCACGAACTTAGACTTTACAAA-AATT-GGGGGAAAAAAGCCTT
*** * ** ** * *
556476 TCTGGAGAAACCAAAGCATCAATATCATGTATTCTAACAAGAAGACTACATTTACGGTGCCTTAT
127 TCTTTCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAAT
* * *
556541 CCTGAAAAGAATGGGGATTAGTATGAGTATTAATGTTTATCTTATTTAAAAGATAAACTTTGATT
192 CCTGAAAAGAATGGGGATTAGTATGACTATTAATGTTT-GCTTATTTAAAAGATAAACTTTTATT
* * * * * *
556606 CTATCAAAA-AGGTTGGA-AAGAAAAGCTTTTCTTACGACACCAAAGTATCAATGCCGTGTATCC
256 CTATCAAAACA-GTT-GACAAGAAAAGCATTTCTTGCGAC-CCAAGGCATCAAAGCCATGTATCC
** * * * * * * * **
556669 TATCGAAAGAAATGTGTTTTTGGTTCCCAATCTTGAAAAAAATAGCGACTGTTAAGAGAATCGAT
318 TAAAGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATCGAT
* * * * * * *
556734 GCTTGTCTTATTTAAGGGATGAACTTTGATTTAAAGGAAAATAAGGCAAAGAAATGATTTTCATG
383 GCTTATCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCATG
* *
556799 CAAAAGAAAATTTCCTATATCATTT
448 CAAAAGAAAATTACCAATATCATTT
* *
556824 ATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCTAATCACAAAATAAATGAAA-ATCGTTACTA
1 ATCCTAATGAGGAGAATGTGTTTATAG---TGCCTAATCACAAAATAAA--AAAGATCATTACTA
* * * * *
556887 GAATCCATGTTTAGCTCACTTAAGGCACGAAC-TAGACTTTACAAAAAGTGGTTGGAAAAAAGCC
61 GAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG-GGGAAAAAAGCC
* * *
556951 TTTCTTGCGAATCTAAAGCATCAATATCAT
125 TTTCTTTCGAAACCAAAGCATCAATATCAT
556981 ATGAAAGCTT
Statistics
Matches: 3625, Mismatches: 575, Indels: 368
0.79 0.13 0.08
Matches are distributed among these distances:
431 6 0.00
432 54 0.01
433 50 0.01
434 49 0.01
435 2 0.00
437 1 0.00
439 1 0.00
441 5 0.00
443 1 0.00
444 1 0.00
446 176 0.05
447 3 0.00
453 3 0.00
454 3 0.00
460 2 0.00
461 592 0.16
462 8 0.00
463 3 0.00
464 1 0.00
465 1 0.00
466 11 0.00
468 2 0.00
469 1 0.00
470 1 0.00
471 6 0.00
472 2 0.00
473 51 0.01
474 201 0.06
475 190 0.05
476 1086 0.30
477 553 0.15
478 487 0.13
479 67 0.02
480 5 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (472 bp):
ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAAAAAGATCATTACTAGAATC
CATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGGGGAAAAAAGCCTTTCTT
TCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTG
AAAAGAATGGGGATTAGTATGACTATTAATGTTTGCTTATTTAAAAGATAAACTTTTATTCTATC
AAAACAGTTGACAAGAAAAGCATTTCTTGCGACCCAAGGCATCAAAGCCATGTATCCTAAAGAAG
GGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTATTTCGAGAATCGATGCTTATCT
TATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAAAGATTTCCATGCAAAAGAA
AATTACCAATATCATTT
Found at i:556248 original size:937 final size:937
Alignment explanation
Indices: 554492--556978 Score: 3476
Period size: 937 Copynumber: 2.6 Consensus size: 937
554482 AGGAGAGTGG
*
554492 GTTTATAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGA
1 GTTTACAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGA
*
554557 GGCACGAACTTAGACTTTACAAAAATTAGCGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCA
66 GGCACGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCA
* * * *
554622 ATATCGTGTATCCTTATGAGAAGACTACGTTTGCCTTATTTATGGATTAGTATGGCTATCAATCT
131 ATATCGTGTATCCTTATGAGAAGACTACATTTACCTTATTTATGGATTAGTATGGCTATTAATGT
*
554687 TTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGATTTTTTTACG
196 TTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
* * *
554752 ACCCTAAAGCACCAATGTCTTATCTCCTAATGAATGGAATCTGGTTTTGGTTCCCTACCTTGAAA
261 ACCCTAAAGCACCAATGTCTTATCTCCTAATGAAAGGAATCTGGTTTTGGTTCCCTATCTTAAAA
554817 AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAGGA
326 AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAGGA
* *
554882 AAATAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTATCATTATCATTTATCCTAATGAGGA
391 AAATAGGATAAAGAAAAGATTTTCATGCAAAAGAAAATTATCTTTATCATTTATCCTAATGAGGA
* * *
554947 GAAGGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGGATCCATGTTTAGCTT
456 GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTC
*
555012 ATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAACCTTTCTTTCGAAACCAAA
521 ATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAA
* *
555077 GCATCAATATCGTGTATTCTTATGAGAAAACTACGTTATTGTGGCCTAATCTTGAAATGAATGTG
586 GCATCAATATCGTGTATCCTTATGAGAAAACTACGTTATTGGGGCCTAATCTTGAAATGAATGTG
*
555142 GATTAGTATGGCTATTAATGTTTGCCTTCTTTGAGAGACAAACTTCTATTCTATCAAAAACTGTG
651 GATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTCTATTCTATCAAAAACTGTG
* *
555207 AAATGAAAAGAATTTCTTGCGACCCTAAAACACCAATGTCTTATCTCCTAATGAAGGGAATCTGG
716 AAATGAAAACAATTTCTTGCGACCCTAAAACACCAATGTCCTATCTCCTAATGAAGGGAATCTGG
* * * * *
555272 TTTTGGTTCCCTATCTTGAAAAGAATAGAGACTGTTTCGAGAATCGATGTTTATCTTATTTAAGC
781 TTTTGCTTCCCTATCTTAAAAAGAATAGAAACAGTTTCGAGAATCGATGCTTATCTTATTTAAGC
* * * *
555337 GATGAACTTTTATTTTAAGGAAAAGAGGATAAAGAAAAGATTTTCATGCAAAAGGAAATTATCAT
846 GATGAACTTTGATTTCAAGGAAAAGAGGACAAAGAAAAGATTTCCATGCAAAAGGAAATTATCAT
*
555402 TATCATTCGTCCTAATGAAGAGAAGGT
911 TATCATTCATCCTAATGAAGAGAAGGT
* *
555429 GTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGATTCCATGTTTGTTTCATTTGA
1 GTTTACAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGA
*
555494 GGCGCGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCA
66 GGCACGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCA
*
555559 ATATCGTGTATCCTTATGAGAAGACTACATTTACCTTATTTATGGATTAATATGGCTATTAATGT
131 ATATCGTGTATCCTTATGAGAAGACTACATTTACCTTATTTATGGATTAGTATGGCTATTAATGT
*
555624 TTGCCTTATTTAAGAGGCAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
196 TTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
*
555689 ACCCTAAAGCACCAATGTCTTATCTCCTAATGAAGGGAATCTGGTTTTGGTTCCCTATCTTAAAA
261 ACCCTAAAGCACCAATGTCTTATCTCCTAATGAAAGGAATCTGGTTTTGGTTCCCTATCTTAAAA
*
555754 AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCATGGA
326 AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAGGA
* * *
555819 AAATAGGATAAAGAAAAGATTTTCATGCAAAAGCAAATTATCTTTATCATTCATCCTAATGAAGA
391 AAATAGGATAAAGAAAAGATTTTCATGCAAAAGAAAATTATCTTTATCATTTATCCTAATGAGGA
* *
555884 GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAAAATCCATGTTTGGCTC
456 GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTC
555949 ATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAA
521 ATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAA
*
556014 GCATCAATATCGTGTATCCTTATGAGAAAACTACGTTTTTGGGGCCTAATCTTGAAATGAATGTG
586 GCATCAATATCGTGTATCCTTATGAGAAAACTACGTTATTGGGGCCTAATCTTGAAATGAATGTG
* * *
556079 GATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTTTATTCTATCGAAAATTGTG
651 GATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTCTATTCTATCAAAAACTGTG
*
556144 AAATGAAAACAATTTCTTGCGACCCTAAAGCACCAATGTCCTATCTCCTAATGAAGGGAATCTGG
716 AAATGAAAACAATTTCTTGCGACCCTAAAACACCAATGTCCTATCTCCTAATGAAGGGAATCTGG
556209 TTTTGCTTCCCTATCTTAAAAAGAAT-GAAAACAGTTTCGAGAATCGATGCTTATCTTATTTAAG
781 TTTTGCTTCCCTATCTTAAAAAGAATAG-AAACAGTTTCGAGAATCGATGCTTATCTTATTTAAG
* *
556273 GGATGAACTTTGATTTCAAGGAAAATAGGACAAAGAAAAGATTTCCATGCAAAAGGAAATTATCA
845 CGATGAACTTTGATTTCAAGGAAAAGAGGACAAAGAAAAGATTTCCATGCAAAAGGAAATTATCA
* * *
556338 TTATCATTTATCCTAATGAGGAGAATGT
910 TTATCATTCATCCTAATGAAGAGAAGGT
* * * * **
556366 GTTTATC-GTGCCTAATCAGAAAATGGATAAAGATCATTACTAGAATCTATGTTTGGCAT-ATTT
1 GTTTA-CAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAATCCATGTTT-GTTTCATTT
** * * * * * * * ***
556429 TTGTCACGAACTTAGACTTTACAAAGATTTATGTGGAAAAAAGCCTTTCTGGAGAAACCAAAGCA
64 GAGGCACGAACTTAGACTTTACAAA-AATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCA
* * * ** *
556494 TCAATATCATGTATTCTAACAAGAAGACTACATTTACGGTGCCTTATCCTGAAAAGAATGGGGAT
128 TCAATATCGTGTATCCTTATGAGAAGACTACATTTA-----CCTTAT--T------TAT--GGAT
** * * * * * *
556559 TAGTATGAG-TATTAATGTTTATCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAGGT-TGG
178 TAGTATG-GCTATTAATGTTTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAA-CTAT-A
* * * * * * * * *
556622 AAA-GAAAAG-CTTTTCTTACGACACC-AAAGTATCAATGCCGTGTATCCT-ATCGAAAGAAATG
240 AAATGAAAAGAATTTT-TTACGAC-CCTAAAGCACCAATGTCTTATCTCCTAAT-GAAAGGAATC
* * * * ** *
556683 TGTTTTTGGTTCCCAATCTTGAAAAA-AATAGCGACTGTTAAGAGAATCGATGCTTGTCTTATTT
302 TGGTTTTGGTTCCCTATCTT-AAAAAGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTT
* * * *
556747 AAGGGATGAACTTTGATTTAAAGGAAAATAAGG-CAAAGAAATGATTTTCATGCAAAAGAAAATT
366 AAGGGATGAACTTTTATTTCAAGGAAAAT-AGGATAAAGAAAAGATTTTCATGCAAAAGAAAATT
* * * *
556811 -TCCTATATCATTTATCCTAAGGAGGAGAATGTGTTTATAGCACT-CCTAATCACAAAATAAATG
430 AT-CTTTATCATTTATCCTAATGAGGAGAAGGTGTTTATAG---TGCCTAATCACAAAATGAATG
* * * * * * * *
556874 AAAATCGTTACTAGAATCCATGTTTAGCTCACTTAAGGCACGAA-CTAGACTTTACAAAAAGT--
491 AAGATCATTACTAGAATCCATGTTTAGCTCATTTGAGACACGAATTTAGACCTTACAAAAATTAA
* * * *
556936 GGTTGGAAAAAAGCCTTTCTTGCGAATCTAAAGCATCAATATC
556 GG--GGAAGAAAGCCTTTCTTTCGAAACCAAAGCATCAATATC
556979 ATATGAAAGC
Statistics
Matches: 1387, Mismatches: 130, Indels: 49
0.89 0.08 0.03
Matches are distributed among these distances:
936 1 0.00
937 956 0.69
938 64 0.05
943 6 0.00
945 1 0.00
951 2 0.00
952 9 0.01
953 227 0.16
954 65 0.05
955 55 0.04
956 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (937 bp):
GTTTACAGTGCCTAATCAAAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTTTCATTTGA
GGCACGAACTTAGACTTTACAAAAATTAGGGGGTAGAAAGCTTTTCTTTCGAAACCAAAGCATCA
ATATCGTGTATCCTTATGAGAAGACTACATTTACCTTATTTATGGATTAGTATGGCTATTAATGT
TTGCCTTATTTAAGAGACAAACTTTTATTCTATCGAAAACTATAAAATGAAAAGAATTTTTTACG
ACCCTAAAGCACCAATGTCTTATCTCCTAATGAAAGGAATCTGGTTTTGGTTCCCTATCTTAAAA
AGAATGGAGACTGTTTTGAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTTATTTCAAGGA
AAATAGGATAAAGAAAAGATTTTCATGCAAAAGAAAATTATCTTTATCATTTATCCTAATGAGGA
GAAGGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTAGCTC
ATTTGAGACACGAATTTAGACCTTACAAAAATTAAGGGGAAGAAAGCCTTTCTTTCGAAACCAAA
GCATCAATATCGTGTATCCTTATGAGAAAACTACGTTATTGGGGCCTAATCTTGAAATGAATGTG
GATTAGTATGGCTATTAATGTTTGCCTTATTTGAGAGACAAACTTCTATTCTATCAAAAACTGTG
AAATGAAAACAATTTCTTGCGACCCTAAAACACCAATGTCCTATCTCCTAATGAAGGGAATCTGG
TTTTGCTTCCCTATCTTAAAAAGAATAGAAACAGTTTCGAGAATCGATGCTTATCTTATTTAAGC
GATGAACTTTGATTTCAAGGAAAAGAGGACAAAGAAAAGATTTCCATGCAAAAGGAAATTATCAT
TATCATTCATCCTAATGAAGAGAAGGT
Found at i:557749 original size:13 final size:13
Alignment explanation
Indices: 557731--557756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
557721 CAATTTTTTG
557731 TGTATCGATACAT
1 TGTATCGATACAT
557744 TGTATCGATACAT
1 TGTATCGATACAT
557757 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:558505 original size:31 final size:31
Alignment explanation
Indices: 558467--558528 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
558457 TCCCCCGTTT
558467 AAAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAAATCTCCCCCTTAATCAAGTAATTCA
558498 AAAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAAATCTCCCCCTTAATCAAGTAATTCA
558529 TATCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (31 bp):
AAAAAAATCTCCCCCTTAATCAAGTAATTCA
Found at i:560340 original size:13 final size:13
Alignment explanation
Indices: 560322--560346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
560312 ATAATCACCC
560322 TGTATCGATACAG
1 TGTATCGATACAG
560335 TGTATCGATACA
1 TGTATCGATACA
560347 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:560360 original size:20 final size:20
Alignment explanation
Indices: 560335--560411 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
560325 ATCGATACAG
560335 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
560355 TGTATCGATACATAGAATTTTCAGA
1 TGTATCGATACAAAGAA-----AAA
*
560380 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
560400 TGTATCGATACA
1 TGTATCGATACA
560412 TTTTGAACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:568649 original size:476 final size:475
Alignment explanation
Indices: 566930--571743 Score: 5252
Period size: 475 Copynumber: 10.1 Consensus size: 475
566920 AGATCCTAAC
* * * * * * * * * *
566930 ATCATATATCCTAACGAGAAGACTGTGTTTATGATGCCTAATCCT-AAAAAAATTGGGATTAGTT
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* * * * * * * *
566994 TGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATCAACAACGTTGCAAAGAAA
66 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
* * * * * * **
567059 AGC-TTT-TTGCAAAACCAAAGCATCAATATCATATACCCTAATAAAGGGAATGTGTTTTTGGTT
131 AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
* * * ** * * * * * *
567122 CACTATCTTTGAAATGCTTGGAGACAGCTACGAGAATCGATACTCGTCTTATTTAAGGAAT-AAG
196 CCCAATC-TTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAA-
* * * * * * * ***
567186 CTCTGATATTT-TGAAAAATAGGGTAAAGAAAAGATTT-TAGTACAAAAAAAAATTAAAAATATC
259 CTTTGAT-TTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA-TGCAAAAGAAAATTGCCAATATC
* * * * * *
567249 ATTTATCCTAATAAGGAGAATGGGTTTATGGTGCCTAATCACAAAATGAATAAAGATCATTACTA
322 ATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTA
** * * * * *
567314 GAATCTATGTTTATCTCATTTGAAGCATGAACTTAAACTTTACAAAAATTAGGGGGAAGAAAGCC
387 GAATCTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAA-AAAACC
** *
567379 TTTCTTTTGAAACCAAAGCTTCAAT
451 TTTCTGGTGAAACCAAAGCATCAAT
* * * * * * * * * * *
567404 ATCGTGTATCCTTATGAGAAGAATACGCTTATGGTGCCTAATCCT-AAAGTGAATGAGGATTAAT
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAA-AGAATGGGGATTAGT
* * * * * * *
567468 ATGACTATTAATG-CTGGCGTTATTTAAAAGATAAACTTTTATTCTATC-GAAAACTGTGGTATA
65 ATGAGTATTAATGTTTGTC-TTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGT-TGG-AAA
* * * * * * * * * * *
567531 -AAAA-CAATTTCTTGTGAC-CGTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGG-ATCTGTTT
127 GAAAAGC-TTTTCTTGCGACAC-CAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTT
* * * * * *
567592 TTGGTTCCTAATCTTCAAAAGAATGGAGACAGTTTCGAGAATCGATGCTTATCTTATTTAAGGGA
190 TTGGTTCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGA
* * * * ** *
567657 TAAACTTTGATTTCAAGGAAAATAGGGCAAA-AAAATGATTTCCACGCAAAAGGAAATTATCATT
255 TGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAA-GATTTCCATGCAAAAGAAAATTGCCAAT
* * * * * *
567721 AACTTTTATCCTAATGAGGAGAATGTGTTTATCA-AGCCTAATCAGAAAATGAATAAAGATCAG-
319 ATCATTTATCCTAATGAGGAGAATGTGTTTAT-AGTGCCTAATCACAAAATAAATGAAGATC-GT
* * * ** *
567784 TACTAGAATCTATGTTCGGCACATTTGTGGCACAAAGTTAGACTTTACAAAAATTTGTGGGAAAA
382 TACTAGAATCTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAA
* *
567849 AAGCCTTTTTAGTGAAACCAAAGCATCAAT
447 AA-CCTTTCTGGTGAAACCAAAGCATCAAT
* *
567879 ATCATGTATTCTAACGAGAAGACTATGTTTACGGTGCCTTATCTTGAAAAGAATGGGGATTAGTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* *
567944 TGAGTATTAATGTTTATCTTATTTAAAAGATAAATTTTGATTCTATC-AAAAAGTTGGAAAGAAA
66 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
* * *
568008 AGCTTTTCTTGCGATACCAAAGCATCAATATCATGTATCCTAACGAAGGGAATGTGTTTTTGGTT
131 AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
* * * * *
568073 CCTAATCTCGAAAAGAGTAGAGATTGTTACGAGAATTGATGCTTGTCTTATTTAAGGGATGAACT
196 CCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACT
*
568138 TTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATTT
261 TTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATTT
* * *
568203 ATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCACAAAATATATGAAGATCGTTACTAGAAT
326 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGAAT
* * * ** * *
568268 CGATGTTTGGCTGATTTGAGGCATGAGCTTAGACTTTACAGCAGTTTGTGGGAAAAAACCTTTCA
391 CTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAAAACCTTTCT
568333 GGTGAAACCAACA-CATCAAT
456 GGTGAAACCAA-AGCATCAAT
* *
568353 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAACATGAAAGGGGATTAGT
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAA-AAGAATGGGGATTAGT
* * * * *
568418 ATGAGTACTAATGTTTGTCTTATTTATAACATAAACTCTAATTCTATCAAAAAAGTTGGAAAGAA
65 ATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAA
* * * * * * * *
568483 AAACTTTTCTTGCGACACTAAAGCATCAATGTTGTGTATCCTAACGAAGAGAACGTGTTTCTAGC
130 AAGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGT
*
568548 TCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAGGGATGAAC
195 TCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAAC
**
568613 TTTGATTTTAAGGAAAATAGGGTGAAGAAAAGATTTCCATGCCAAAA-AAAATTGCCAATATCAT
260 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATG-CAAAAGAAAATTGCCAATATCAT
568677 TTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGA
324 TTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGA
* * * *
568742 ATCTATGTTTGGCCCATTTGAGGCACGAGCTTAGACTTTACAAATATTTGTGGGAAAAAACCTTT
389 ATCTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAAAACCTTT
* * *
568807 TTGCTAAAACCAAAGCATCAAT
454 CTGGTGAAACCAAAGCATCAAT
* * * *
568829 GTCATGTATTCGAATAAGAAGACTATGTTTACGGTGCCTTATCCTGCAAAGAATGGGGATTAGTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* *
568894 TGAGTATTAATGTTTATCTTATTTAAAAGAAAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
66 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
* * * *
568959 AGCTTTTCTTGCGACACCAAAGTATCAATGTTGTCTATCCTATCGAAGGGAATGTGTTTTTGGTT
131 AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
* * * *
569024 CCCAATCTTGATAAGAATAGCGACTGTTAGGAGAATCGATGCTTGTCTTATTTAAAGGATGAACT
196 CCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACT
* * * * * *
569089 TTGATTTAAAGGAAAATAAGGCAAAGAAACGATTTTCGTGCAAAAGAAAATTGCCAATATAATTT
261 TTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATTT
* * * *
569154 ATCCTAAGGAGGAGAATGAGTTTATAGCACT-CCTAATCACAAAATAAATGAAAAGCGTTACTAG
326 ATCCTAATGAGGAGAATGTGTTTATAG---TGCCTAATCACAAAATAAATGAAGATCGTTACTAG
* * * * * * * * * *
569218 AATCCATGTTTAGCTTAGTTAAGGCATGAACTTACACTTTAGAAAAAGTGGTTGGAAAAAAGCCT
388 AATCTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAAAA-CCT
* * *
569283 TTCTTGTGAATCTAAAGCATCAAT
452 TTCTGGTGAAACCAAAGCATCAAT
* * * * * * *
569307 ATCATGTATCCTAATGAGAAAACTATGTTTATGGTGCCTAATCCTAAAAAAAATGGGGATTATTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* ** * * * * * * * * *
569372 TGACTATTCGTGGTTGTTTTATTTAAGAGACAAACTTTGATTTTGTCAACAACGTTGCAAAGAAA
66 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
* * * * **
569437 AGC-TTT-TTGCAAAACCAAAGCATCAATGTCATGTATCCGAAAAAAGGGAATGTGTTTTTGGTT
131 AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
* * ** ** * * * * * ***
569500 CACTATCTTTGAAGTGCTTGGAGACTGCTACGAGTATCAATCCTCACCTTATTTAAGGGAT-AAG
196 CCCAATC-TTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAA-
* * * * ***
569564 CTCTGATATTT-TGGAAAATAGGGCAAAGAAAAGATTT-TAGTACAAAAGAAAATTAAAAATATC
259 CTTTGAT-TTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA-TGCAAAAGAAAATTGCCAATATC
* * * * *
569627 ATTTATCCTAATGAGGGGAATGGGTTTATAGTGCCTAATCAC-AAATGAA-CAATGATCATTACT
322 ATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAA-GATCGTTACT
* * * * *
569690 AGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTAGGGGGAAAAAAAC
386 AGAATCTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGG-AAAAAAC
* *
569755 CTTTCT-TTCGAAACCAAAGCTTCAAT
450 CTTTCTGGT-GAAACCAAAGCATCAAT
* * * * * * * * * ** * *
569781 ATCGTGTATCCTTATGAGAAGAATACGCTTATGGTGCCTAATCTTGAAGTGAATGAGGATTAATA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* * * * *
569846 TAACTATTAATGTTTG-CGTTATTTAAAAGACAAACTATT-ATTCTATCGAAAACAG-TGGTATA
66 TGAGTATTAATGTTTGTC-TTATTTAAAAGATAAACT-TTGATTCTATC-AAAAAAGTTGG-AAA
** * * * * * * * * *
569908 -AAAAGAATTTCTTGCGAC-CCTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGGAATCTATTTT
127 GAAAAGCTTTTCTTGCGACACC-AAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTT
* * * * * * * * *
569971 TGGCTCCAAATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATACTTATATTATTTAAGAGAT
191 TGGTTCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGAT
* * * * * * ** *
570036 GAACTTTAATTTCAAGGAAGATAGGGCAAAAAAAAAGATTTCCATGCAAATGGAAATTATCATTA
256 GAACTTTGATTTTAAGGAAAATAGGGC-AAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATA
* * * * *
570101 TCATTTATCCTAATGAGGAGAATGTGTTTATCA-AGCCTAATCAGAAAATGAATAAAGATCATTA
320 TCATTTATCCTAATGAGGAGAATGTGTTTAT-AGTGCCTAATCACAAAATAAATGAAGATCGTTA
* * * ** *
570165 CTAGAATCTATGTTTCGCACA-TTAATGGCACAAACTTAGACTTTACAAAAATTTTTGGGAAAAA
384 CTAGAATCTATGTTTGGCTCATTTGA-GGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAAA
* *
570229 TGCCTTTCTAGTGAAACCAAAGCATCAAT
448 -ACCTTTCTGGTGAAACCAAAGCATCAAT
* *
570258 ATCATGTATTCTAATGAGAAGACTTTGTTTACGGTGCCTTATCCTGCAAAGAATGGGGATTAGTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* * * * *
570323 TGAGTATTAATGTTTATCTTATTTAAAAGATAAATTTTGTTTCTATAAAAAAAGTTAGAAAGAAA
66 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
* * *
570388 AGCTTTTCTTGCAACACCAAAGCATCAATATCGTGTACCCTAACGAAAGGG-ATGTGTTTTTGGT
131 AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACG-AAGGGAATGTGTTTTTGGT
* * * *
570452 TCCTAATCTCGAAAAGAATAAAGACTGTTACGAGAATTGATGCTTGTCTTATTTAAGGGATGAAC
195 TCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAAC
* * *
570517 TTTCATTTTAAGGAAAATAGGGCAAAAAAAAGAGTTCCATGCAAAAGAAAATTGCCAATATCATT
260 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATT
* * * * * *
570582 TATCCTAATGAGGAGAATCTGTTTATGGTGCCTATTCATAAAAAAAAATGAAAATCGTTACTAGA
325 TATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCA-CAAAATAAATGAAGATCGTTACTAGA
* * *
570647 ATCGATGTTTGGCTGATTTGAGGCAT-AAGCTTAGACTTTACAACAATTTGTGGGAAAAAACCTT
389 ATCTATGTTTGGCTCATTTGAGGCATGAA-CTTAGACTTTACAAAAATTTGTGGGAAAAAACCTT
*
570711 TTTGGTGAAACCAAAGCATCAAT
453 TCTGGTGAAACCAAAGCATCAAT
* *
570734 ATCATGCATTCTAATGAGAATACTATGTTTACGGTGCCTTATCCTGAACAAGAATGGGGATTAGT
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAA-AAGAATGGGGATTAGT
*
570799 ATGAGTATTAATGTTTGTCTTATTTATAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAA
65 ATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAA
** * *
570864 AAAATTTTCTTGCGACACCGAAGTATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGT
130 AAGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGT
* * * ** *
570929 TCCCAATCTTGAAAAGAATAGAGACTATTATGAGAATTGACACTTGTCTTATTTATGGGATGAAC
195 TCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAAC
** * * *
570994 TTTGATTTTAAGGAAAATAGGGTGAAGAAAAGATTTTCATGCCAAAGAAAATTGCCAATATCAGT
260 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATT
*
571059 TATCCTAATGATGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGAA
325 TATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGAA
* * * * *
571124 TTTATGTTTGGCTCGTTTGAGGCACGAGCTTAGAC-TTAGTAAAAATTTGTGGGAAAAAACCTTT
390 TCTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTA-CAAAAATTTGTGGGAAAAAACCTTT
*
571188 CTGCTGAAACCAAAGCATCAAT
454 CTGGTGAAACCAAAGCATCAAT
* * * * *
571210 ATCATCTATTCGAATGAGAAGTCTATGTGTACGATGCCTTATCCTGAAAAGAATGGGGATTAGTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
571275 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
66 TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
* *
571340 AGCTTTTCTTGTGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTATTTTTGGTT
131 AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
* * * * *
571405 CCCAATCTTGAAAAAAATAAAGACTATTACGAGAATCGATGCTTGTCTTACTTATGGGAT-AAGC
196 CCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAA-C
* *
571469 TTTCATTTTAAGGAAAATAGGGCAAAGAAAAGATTT-CATACAAAA-AAAATTGCCAATATCATT
260 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATT
* *
571532 TATCCTAATGAGGAGAATGTATTTATAGTGCCTAATTACAAAATAAATGAAGATCGTTACTAGAA
325 TATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGAA
* * * *
571597 TGCT-TGTTTGGCTCTTTTAAGGCATGAACTTAGACTTTACAAAAATTGGTTGGAAAAAAGCCTT
390 T-CTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAAAA-CCTT
* * * *
571661 TCTTGAGAATCTAAAGCATCAAT
453 TCTGGTGAAACCAAAGCATCAAT
* * * * * * * *
571684 ATCATGTATCCTAATAAGAAGACTA--TTTATGGTACCTAATCCTAAAAACAATGGGAATTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTA
571744 TTCATGTTTG
Statistics
Matches: 3626, Mismatches: 637, Indels: 156
0.82 0.14 0.04
Matches are distributed among these distances:
472 27 0.01
473 129 0.04
474 400 0.11
475 1206 0.33
476 863 0.24
477 854 0.24
478 147 0.04
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (475 bp):
ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
TGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
AGCTTTTCTTGCGACACCAAAGCATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
CCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACT
TTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATTT
ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAGAAT
CTATGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAAATTTGTGGGAAAAAACCTTTCT
GGTGAAACCAAAGCATCAAT
Found at i:569985 original size:952 final size:944
Alignment explanation
Indices: 566930--571743 Score: 4847
Period size: 951 Copynumber: 5.1 Consensus size: 944
566920 AGATCCTAAC
* * * * * * * * * *
566930 ATCATATATCCTAACGAGAAGACTGTGTTTATGATGCCTAATCCT-AAAAAAATTGGGATTAGTT
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* * * * * * * *
566994 TGACTATTTATGTTT-GTCTTATTTAAGAGACAAACTTTGATTTTATCAACAACGTTGCAAAGAA
66 TGAGTATTAATGTTTAG-CTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAA
* * * * * * **
567058 AAG-CTTT-TTGCAAAACCAAAGCATCAATA-TCATATACCCTAATAAAGGGAATGTGTTTTTGG
130 AAGAATTTCTTGCGACACCAAAGCATCAA-AGTCTTGTATCCTAACGAAGGGAATGTGTTTTTGG
* * * ** * * * *
567120 TTCACTATCTTTGAAATGCTTGGAGACAGCTACGAGAATCGATACTCGTCTTATTT-AAGGAAT-
194 TTCCCAATC-TTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAAGG-ATG
* * * * * * * ***
567183 AAGCTCTGATATTT-TGAAAAATAGGGTAAAGAAAAGATTT-TAGTACAAAAAAAAATTAAAAAT
257 AA-CTTTGAT-TTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA-TGCAAAAGAAAATTGCCAAT
* * * *
567246 ATCATTTATCCTAATAAGGAGAATGGGTTTATGGTGCCTAATCACAAAATGAAT-AAAGATCATT
319 ATCATTTATCCTAATGAGGAGAATGTGTTTAT-GTGCCTAATCACAAAATAAATGAAA-ATCGTT
** * * * * * *
567310 ACTAGAATCTATGTTTATCTCATTTGAA-GCATGAACTTAAACTTTACAAAAA-TTAGGGGGAAG
382 ACTAGAATCTATGTTTGGCTTAGTT-AAGGCACGAACTTAGACTTTAGAAAAAGTT-GTGGGAA-
* * * * * * * * * *
567373 AAAGCCTTTCTTTTGAAACCAAAGCTTCAATATCGTGTATCCTTATGAGAAGAATACGCTTATGG
444 AAAACCTTTCTTGTGAAACCAAAGCATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGG
* *** * * * * *
567438 TGCCTAATCCTAAAGTGAATGAGGATTAATATGACTATTAATG-CTGGCGTTATTTAAAAGATAA
509 TGCCTTATCCTAAAAAAAATGGGGATTAGTATGAGTATTAATGTTTGTC-TTATTTAAAAGATAA
* * * * * ** * * * *
567502 ACTTTTATTCTATC-GAAAACTGTGGTATA-AAAA-CAATTTCTTGTGAC-CGTAAGGCACCAAA
573 ACTTTGATTCTATCAAAAAAGT-TGG-AAAGAAAAGC-TTTTCTTGCAACAC-CAAAGCATCAAT
* * * ** * * * ** * *
567563 GCCTTGTCTCCTAATGAAGGG-ATCTGTTTTTGGTTCCTAATCTTCAAAAGAATGGAGACAGTTT
634 GTCGTGTATCCTAACAAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTGTTA
* * * *
567627 CGAGAATCGATGCTTATCTTATTTAAGGGATAAACTTTGATTTCAAGGAAAATAGGGCAAA-AAA
699 CGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTCATTTTAAGGAAAATAGGGCAAAGAAA
** * ** * * *
567691 ATGATTTCCACGCAAAAGGAAATTATCATTAACTTTTATCCTAATGAGGAGAATGTGTTTATCA-
764 A-GATTT-CATACAAAA-AAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT-AG
* * * * * * *
567755 AGCCTAATCAGAAAATGAATA-AAGATCAG-TACTAGAATCTATGTTCGGCACATTTGTGGCACA
825 TGCCTAATCA-CAAAT-AA-AGAAGATC-GTTACTAGAATCCATGTTTGGCTCATTTGAGGCACG
* *
567818 AAGTTAGACTTTACAAAAATTTGTGGGAAAAAAGCCTTTTTAGTGAAACCAAAGCATCAAT
886 AACTTAGACTTTACAAAAATTTGTGGGAAAAAAACCTTTTT--TGAAACCAAAGCATCAAT
* *
567879 ATCATGTATTCTAACGAGAAGACTATGTTTACGGTGCCTTATCTTGAAAAGAATGGGGATTAGTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* *
567944 TGAGTATTAATGTTTATCTTATTTAAAAGATAAATTTTGATTCTATC-AAAAAGTTGGAAAGAAA
66 TGAGTATTAATGTTTAGCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
** * *
568008 AGCTTTTCTTGCGATACCAAAGCATCAATA-TCATGTATCCTAACGAAGGGAATGTGTTTTTGGT
131 AGAATTTCTTGCGACACCAAAGCATCAA-AGTCTTGTATCCTAACGAAGGGAATGTGTTTTTGGT
* * * * * * *
568072 TCCTAATCTCGAAAAGAGTAGAGATTGTTACGAGAATTGATGCTTGTCTTATTTAAGGGATGAAC
195 TCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAAGGATGAAC
*
568137 TTTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATT
260 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATT
* * *
568202 TATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCACAAAATATATGAAGATCGTTACTAGAA
325 TATCCTAATGAGGAGAATGTGTTTAT-GTGCCTAATCACAAAATAAATGAAAATCGTTACTAGAA
* * * * * * * **
568267 TCGATGTTTGGCTGATTTGAGGCATGAGCTTAGACTTTA-CAGCAGTTTGTGGGAAAAAACCTTT
389 TCTATGTTTGGCTTAGTTAAGGCACGAACTTAGACTTTAGAAAAAG-TTGTGGGAAAAAACCTTT
**
568331 CAGGTGAAACCAACA-CATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTAT
453 CTTGTGAAACCAA-AGCATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTAT
** * * * * *
568395 CCTGAACATGAAA-GGGGATTAGTATGAGTACTAATGTTTGTCTTATTTATAACATAAACTCTAA
517 CCT-AA-AAAAAATGGGGATTAGTATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGA
* * * *
568459 TTCTATCAAAAAAGTTGGAAAGAAAAACTTTTCTTGCGACACTAAAGCATCAATGTTGTGTATCC
580 TTCTATCAAAAAAGTTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCGTGTATCC
* * * * * * *
568524 TAACGAAGAGAACGTGTTTCTAGCTCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGAT
645 TAACAAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTGTTACGAGAATCGAT
* * **
568589 ACTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGTGAAGAAAAGATTTCCATG
710 GCTTGTCTTATTTAAGGGATGAACTTTCATTTTAAGGAAAATAGGGCAAAGAAAAGATTT-CAT-
*
568654 CCAAAAAAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAA
773 ACAAAAAAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCAC-A
* * *
568719 AATAAATGAAGATCGTTACTAGAATCTATGTTTGGCCCATTTGAGGCACGAGCTTAGACTTTACA
837 AATAAA-GAAGATCGTTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACA
* *
568784 AATATTTGTGGG-AAAAAACCTTTTTGCTAAAACCAAAGCATCAAT
901 AAAATTTGTGGGAAAAAAACCTTTTT--TGAAACCAAAGCATCAAT
* * * *
568829 GTCATGTATTCGAATAAGAAGACTATGTTTACGGTGCCTTATCCTGCAAAGAATGGGGATTAGTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* *
568894 TGAGTATTAATGTTTATCTTATTTAAAAGAAAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
66 TGAGTATTAATGTTTAGCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
** * * * *
568959 AGCTTTTCTTGCGACACCAAAGTATCAATGT-TGTCTATCCTATCGAAGGGAATGTGTTTTTGGT
131 AGAATTTCTTGCGACACCAAAGCATCAAAGTCT-TGTATCCTAACGAAGGGAATGTGTTTTTGGT
* * * *
569023 TCCCAATCTTGATAAGAATAGCGACTGTTAGGAGAATCGATGCTTGTCTTATTTAAAGGATGAAC
195 TCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAAGGATGAAC
* * * * * *
569088 TTTGATTTAAAGGAAAATAAGGCAAAGAAACGATTTTCGTGCAAAAGAAAATTGCCAATATAATT
260 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATT
* * *
569153 TATCCTAAGGAGGAGAATGAGTTTATAGCACT-CCTAATCACAAAATAAATGAAAAGCGTTACTA
325 TATCCTAATGAGGAGAATGTGTTTAT-G---TGCCTAATCACAAAATAAATGAAAATCGTTACTA
* * * * * *
569217 GAATCCATGTTTAGCTTAGTTAAGGCATGAACTTACACTTTAGAAAAAGTGGTTGGAAAAAAGCC
386 GAATCTATGTTTGGCTTAGTTAAGGCACGAACTTAGACTTTAGAAAAAGTTGTGGGAAAAAA-CC
* * * * * *
569282 TTTCTTGTGAATCTAAAGCATCAATATCATGTATCCTAATGAGAAAACTATGTTTATGGTGCCTA
450 TTTCTTGTGAAACCAAAGCATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTT
* * ** * * * *
569347 ATCCTAAAAAAAATGGGGATTATTATGACTATTCGTGGTTGTTTTATTTAAGAGACAAACTTTGA
515 ATCCTAAAAAAAATGGGGATTAGTATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGA
* * * * * * *
569412 TTTTGTCAACAACGTTGCAAAGAAAAGC-TTT-TTGCAAAACCAAAGCATCAATGTCATGTATCC
580 TTCTATCAAAAAAGTTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCGTGTATCC
* * * * ** ** ** * * *
569475 GAAAAAAGGGAATGTGTTTTTGGTTCACTATCTTTGAAGTGCTTGGAGACTGCTACGAGTATCAA
645 TAACAAAGGGAATGTGTTTTTGGTTCCCAATC-TTGAAAAGAATAAAGACTGTTACGAGAATCGA
* *** * * * *
569540 TCCTCACCTTATTTAAGGGAT-AAGCTCTGATATTT-TGGAAAATAGGGCAAAGAAAAGATTTTA
709 TGCTTGTCTTATTTAAGGGATGAA-CTTTCAT-TTTAAGGAAAATAGGGCAAAGAAAAGATTTCA
*** * *
569603 GTACAAAAGAAAATTAAAAATATCATTTATCCTAATGAGGGGAATGGGTTTATAGTGCCTAATCA
772 -TACAAAA-AAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCA
* * * *
569668 CAAATGAACAATGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTA
835 CAAATAAAGAA-GATCGTTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTA
* * *
569733 CAAAAATTAGGGGGAAAAAAACCTTTCTTTCGAAACCAAAGCTTCAAT
899 CAAAAATTTGTGGGAAAAAAACCTTT-TTT-GAAACCAAAGCATCAAT
* * * * * * * * * ** * *
569781 ATCGTGTATCCTTATGAGAAGAATACGCTTATGGTGCCTAATCTTGAAGTGAATGAGGATTAATA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
* * * * *
569846 TAACTATTAATGTTT-GCGTTATTTAAAAGACAAACTATT-ATTCTATCGAAAACAG-TGGTATA
66 TGAGTATTAATGTTTAGC-TTATTTAAAAGATAAACT-TTGATTCTATC-AAAAAAGTTGG-AAA
* * * * * * *
569908 -AAAAGAATTTCTTGCGAC-CCTAAGGCACCAAAGCCTTGTCTCCTAATGAAGGGAATCTATTTT
127 GAAAAGAATTTCTTGCGACACC-AAAGCATCAAAGTCTTGTATCCTAACGAAGGGAATGTGTTTT
* * * * * * *
569971 TGGCTCCAAATCTTGAAAAGAATGGAGACAGTTTCGAGAATCGATACTTATATTATTT-AAGAGA
191 TGGTTCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAAG-GA
* * * * * * ** *
570035 TGAACTTTAATTTCAAGGAAGATAGGGCAAAAAAAAAGATTTCCATGCAAATGGAAATTATCATT
255 TGAACTTTGATTTTAAGGAAAATAGGGC-AAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAAT
** * * *
570100 ATCATTTATCCTAATGAGGAGAATGTGTTTATCAAGCCTAATCAGAAAATGAAT-AAAGATCATT
319 ATCATTTATCCTAATGAGGAGAATGTGTTTAT-GTGCCTAATCACAAAATAAATGAAA-ATCGTT
* ** * * * *
570164 ACTAGAATCTATGTTTCGCACA-TTAATGGCACAAACTTAGACTTTACAAAAATTTTTGGGAAAA
382 ACTAGAATCTATGTTTGGCTTAGTTAA-GGCACGAACTTAGACTTTAGAAAAAGTTGTGGGAAAA
* * *
570228 ATGCCTTTCTAGTGAAACCAAAGCATCAATATCATGTATTCTAATGAGAAGACTTTGTTTACGGT
446 A-ACCTTTCTTGTGAAACCAAAGCATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGGT
** * * *
570293 GCCTTATCCTGCAAAGAATGGGGATTAGTATGAGTATTAATGTTTATCTTATTTAAAAGATAAAT
510 GCCTTATCCTAAAAAAAATGGGGATTAGTATGAGTATTAATGTTTGTCTTATTTAAAAGATAAAC
* * * *
570358 TTTGTTTCTATAAAAAAAGTTAGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATATCGTG
575 TTTGATTCTATCAAAAAAGTTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCGTG
* * *
570423 TACCCTAACGAAAGGG-ATGTGTTTTTGGTTCCTAATCTCGAAAAGAATAAAGACTGTTACGAGA
640 TATCCTAAC-AAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTGTTACGAGA
* *
570487 ATTGATGCTTGTCTTATTTAAGGGATGAACTTTCATTTTAAGGAAAATAGGGCAAAAAAAAGAGT
704 ATCGATGCTTGTCTTATTTAAGGGATGAACTTTCATTTTAAGGAAAATAGGGCAAAGAAAAGA-T
* * * * *
570552 TCCATGCAAAAGAAAATTGCCAATATCATTTATCCTAATGAGGAGAATCTGTTTATGGTGCCTAT
768 TTCATACAAAA-AAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAA
* * * * * *
570617 TCATAAAAAAAAATGAAAATCGTTACTAGAATCGATGTTTGGCTGATTTGAGGCA-TAAGCTTAG
832 TC--ACAAATAAA-GAAGATCGTTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAA-CTTAG
*
570681 ACTTTACAACAATTTGTGGG-AAAAAACCTTTTTGGTGAAACCAAAGCATCAAT
893 ACTTTACAAAAATTTGTGGGAAAAAAACCTTTTT--TGAAACCAAAGCATCAAT
* *
570734 ATCATGCATTCTAATGAGAATACTATGTTTACGGTGCCTTATCCTGAACAAGAATGGGGATTAGT
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAA-AAGAATGGGGATTAGT
*
570799 ATGAGTATTAATGTTT-GTCTTATTTATAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGA
65 ATGAGTATTAATGTTTAG-CTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGA
* * * *
570863 AAA-AATTTTCTTGCGACACCGAAGTATCAATGTCGTGTATCCTAACGAAGGGAATGTGTTTTTG
129 AAAGAA-TTTCTTGCGACACCAAAGCATCAAAGTCTTGTATCCTAACGAAGGGAATGTGTTTTTG
* * * * **
570927 GTTCCCAATCTTGAAAAGAATAGAGACTATTATGAGAATTGACACTTGTCTTATTTATGGGATGA
193 GTTCCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAAGGATGA
** * *
570992 ACTTTGATTTTAAGGAAAATAGGGTGAAGAAAAGATTTTCATGCCAAAGAAAATTGCCAATATCA
258 ACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCA
* * *
571057 GTTATCCTAATGATGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGATCGTTACTAG
323 TTTATCCTAATGAGGAGAATGTGTTTAT-GTGCCTAATCACAAAATAAATGAAAATCGTTACTAG
* * * * *
571122 AATTTATGTTTGGC-TCGTTTGAGGCACGAGCTTAGAC-TTAGTAAAAATTTGTGGGAAAAAACC
387 AATCTATGTTTGGCTTAG-TTAAGGCACGAACTTAGACTTTAG-AAAAAGTTGTGGGAAAAAACC
* * * * *
571185 TTTC-TGCTGAAACCAAAGCATCAATATCATCTATTCGAATGAGAAGTCTATGTGTACGATGCCT
450 TTTCTTG-TGAAACCAAAGCATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCT
* *
571249 TATCCTGAAAAGAATGGGGATTAGTATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTG
514 TATCCTAAAAAAAATGGGGATTAGTATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTG
**
571314 ATTCTATCAAAAAAGTTGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCGTGTATC
579 ATTCTATCAAAAAAGTTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCGTGTATC
* * * *
571379 CTAACGAAGGGAATGTATTTTTGGTTCCCAATCTTGAAAAAAATAAAGACTATTACGAGAATCGA
644 CTAACAAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTGTTACGAGAATCGA
* *
571444 TGCTTGTCTTACTTATGGGAT-AAGCTTTCATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCAT
709 TGCTTGTCTTATTTAAGGGATGAA-CTTTCATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCAT
* *
571508 ACAAAAAAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTATTTATAGTGCCTAATTACAA
773 ACAAAAAAAATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCAC-A
* * * * *
571573 AATAAATGAAGATCGTTACTAGAATGCTTGTTTGGCTCTTTTAAGGCATGAACTTAGACTTTACA
837 AATAAA-GAAGATCGTTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACA
* * * * *
571638 AAAATTGGTTGGAAAAAAGCCTTTCTTGAGAATCTAAAGCATCAAT
901 AAAATTTGTGGGAAAAAAACCTTTTTTGA-AA-CCAAAGCATCAAT
* * * * * * * *
571684 ATCATGTATCCTAATAAGAAGACTA--TTTATGGTACCTAATCCTAAAAACAATGGGAATTA
1 ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTA
571744 TTCATGTTTG
Statistics
Matches: 3198, Mismatches: 576, Indels: 184
0.81 0.15 0.05
Matches are distributed among these distances:
947 12 0.00
948 21 0.01
949 189 0.06
950 567 0.18
951 845 0.26
952 779 0.24
953 467 0.15
954 312 0.10
955 6 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (944 bp):
ATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTGAAAAGAATGGGGATTAGTA
TGAGTATTAATGTTTAGCTTATTTAAAAGATAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAA
AGAATTTCTTGCGACACCAAAGCATCAAAGTCTTGTATCCTAACGAAGGGAATGTGTTTTTGGTT
CCCAATCTTGAAAAGAATAGAGACTGTTACGAGAATCGATACTTGTCTTATTTAAAGGATGAACT
TTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATTT
ATCCTAATGAGGAGAATGTGTTTATGTGCCTAATCACAAAATAAATGAAAATCGTTACTAGAATC
TATGTTTGGCTTAGTTAAGGCACGAACTTAGACTTTAGAAAAAGTTGTGGGAAAAAACCTTTCTT
GTGAAACCAAAGCATCAATATCATGTATTCTAATGAGAAGACTATGTTTACGGTGCCTTATCCTA
AAAAAAATGGGGATTAGTATGAGTATTAATGTTTGTCTTATTTAAAAGATAAACTTTGATTCTAT
CAAAAAAGTTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCGTGTATCCTAACAA
AGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTGTTACGAGAATCGATGCTTGT
CTTATTTAAGGGATGAACTTTCATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCATACAAAAAA
AATTGCCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAATAAAGAA
GATCGTTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTTGTG
GGAAAAAAACCTTTTTTGAAACCAAAGCATCAAT
Found at i:572136 original size:19 final size:20
Alignment explanation
Indices: 572112--572165 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
572102 ACTTTATGCT
**
572112 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
572131 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
572151 TTGTATCGATACATG
1 TTGTATCGATACATG
572166 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:572239 original size:33 final size:33
Alignment explanation
Indices: 572195--572259 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
572185 TACTACTGTT
*
572195 TGTATCGATACAT-AGGACATTGTATCGATACAA
1 TGTATCAATACATGAGGA-ATTGTATCGATACAA
*
572228 TGTATCAATACATGATGAATTGTATCGATACA
1 TGTATCAATACATGAGGAATTGTATCGATACA
572260 TTGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCAATACATGAGGAATTGTATCGATACAA
Found at i:576597 original size:20 final size:20
Alignment explanation
Indices: 576572--576646 Score: 150
Period size: 20 Copynumber: 3.8 Consensus size: 20
576562 ATTTTCCGGA
576572 ATGTATCGATACATTGAAGC
1 ATGTATCGATACATTGAAGC
576592 ATGTATCGATACATTGAAGC
1 ATGTATCGATACATTGAAGC
576612 ATGTATCGATACATTGAAGC
1 ATGTATCGATACATTGAAGC
576632 ATGTATCGATACATT
1 ATGTATCGATACATT
576647 TGGAAAACCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGC
Found at i:578055 original size:32 final size:30
Alignment explanation
Indices: 578019--578077 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
578009 GAAATCAAAT
578019 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
578051 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
578078 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:578394 original size:32 final size:33
Alignment explanation
Indices: 578337--578400 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
578327 TACAAGCCAA
**
578337 TGTATCGATACAATTTTTTGTGTATCCATACAT
1 TGTATCGATACAATACTTTGTGTATCCATACAT
*
578370 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCCATACA
578401 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCCATACAT
Found at i:579073 original size:40 final size:41
Alignment explanation
Indices: 579027--579117 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 41
579017 TTTTCTTTCT
*
579027 CCCTTAACTAAAG-TAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* * *
579067 CCCTTAA-T-AAGATAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* *
579106 CCTTTTACTAAA
1 CCCTTAACTAAA
579118 AAAAATCTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.07
39 29 0.69
40 8 0.19
41 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.37
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
Found at i:584911 original size:21 final size:21
Alignment explanation
Indices: 584882--584926 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
584872 AAGTTTTTAT
*
584882 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
584902 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
584924 TTT
1 TTT
584927 CAACATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:587142 original size:20 final size:20
Alignment explanation
Indices: 587117--587168 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
587107 TACAAGCCAA
**
587117 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
587137 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
587156 TGTATCGATACAA
1 TGTATCGATACAA
587169 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:589140 original size:19 final size:21
Alignment explanation
Indices: 589097--589149 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
589087 CACACCTAGA
*
589097 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTATGCAT
589117 TGTATCGATACATGT-T-CAT
1 TGTATCGATACATGTATGCAT
589136 TGTATCGATACATG
1 TGTATCGATACATG
589150 AAATTGGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATGTATGCAT
Found at i:589222 original size:33 final size:33
Alignment explanation
Indices: 589180--589243 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
589170 ACCACTGTTC
589180 GTATCGATACAT-AGGACATTGTATCAATACAAT
1 GTATCGATACATGAGGA-ATTGTATCAATACAAT
* *
589213 GTATCGATACATGATGAATTGTATCGATACA
1 GTATCGATACATGAGGAATTGTATCAATACA
589244 TTGCTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (33 bp):
GTATCGATACATGAGGAATTGTATCAATACAAT
Found at i:590775 original size:62 final size:62
Alignment explanation
Indices: 590706--590827 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 62
590696 AAAATGAATA
* ** * *
590706 AAGATCATCACTATAATTTATGTTTGGCTCATTTGTGGCACGAACTTAGACTTTACAAAATG
1 AAGATCATCACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTATACAAAATG
* * * * *
590768 AAGATCATTATTAGAATCCATGTTTGGCTGATTTGAGGCATGAGCTTAGACTATACAAAA
1 AAGATCATCACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTATACAAAA
590828 AGTTGTGGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (62 bp):
AAGATCATCACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTATACAAAATG
Found at i:591706 original size:476 final size:475
Alignment explanation
Indices: 590763--591826 Score: 1376
Period size: 476 Copynumber: 2.2 Consensus size: 475
590753 AGACTTTACA
* * * *
590763 AAATGAAGATCATTATTAGAATCCATGTTTGGCTGATTTGAGGCATGAGCTTAGACTATACAAAA
1 AAATGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAGCTTAGACTTTACAAAA
* * *
590828 AGTT-GTGG-GAAAAGCCTTTCTGGTGAAACCAAAGCATCAATATCATATATTCTAATGAAAAGA
66 A-TTGGTGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATATATTCTAATGAAAAGA
* * * *
590891 CCATGTTTGTGATGACTTATCCTAACAAGAATGGGGATTAGTATGAGTATTAATGTTTGTCTTAT
130 CCAGGTCTATGATGACTTATCCTAACAAGAATGGGGATTAGTATGACTATTAATGTTTGTCTTAT
* * * *
590956 TTAAAATATAAACTTTGATTCTATAAAAAAAGTTTGAAAGAAAAGCTTTTCTTGCGATACCAAAA
195 TTAAAAGACAAACTTTGATTCTATAAAAAAAGTTAGAAAGAAAAGCTTTTCTTGCGACACCAAAA
* * *
591021 CATCAATGTCATGTATCCTAAATGAAAGGAATGTGTTTTTGGTTCCCAATCTTGAAAAAATAGAG
260 CATCAATGTCATGCATCCTAAATGAAAGAAATGTGTTTTTGGTTCCCAATCTTAAAAAAATAGAG
* * *
591086 ACTGTTGCAAGAATCTATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGAC
325 ACTGTTACAAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGAC
* *
591151 AAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATATCATTTATCCTAATGATAAGAATGTGTT
390 AAAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATAGCATTTATCCTAATGAGAAGAATGTGTT
*
591216 TATAGTGACTAATCATAAAAT
455 TATAGTGACTAATCACAAAAT
* * * * *
591237 AAATGAAGATCGTTACTCGAATCCATGTTTGGTTTATTTGAGGCACGAACTTAGACTTTACAAAA
1 AAATGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAGCTTAGACTTTACAAAA
* * **
591302 ATTGGTTGGAAAAAAGCCTTTCTTGCGAATCCAAAGCATCAATATCATGTA-TCGTAATGGGAAG
66 ATTGG-TGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATATATTC-TAATGAAAAG
* *
591366 ACTAGGTCTATGATG-CTTAATCCTAA-AGAGAATGGGGATTAGTATGACTATTTATGTTTGTCT
129 ACCAGGTCTATGATGACTT-ATCCTAACA-AGAATGGGGATTAGTATGACTATTAATGTTTGTCT
* * *
591429 TATTTAAAGGACAAACTTTGATTCTATCAAAAATGTTAGAAAGAAAAGCTTTTCTTGCGACACCA
192 TATTTAAAAGACAAACTTTGATTCTATAAAAAAAGTTAGAAAGAAAAGCTTTTCTTGCGACACCA
*
591494 AAGA-ATCAATGTCATGCATCCT-AAT-AAAGAAAATGTGTTTTTGGTTCCTAATCTTAAAAAAG
257 AA-ACATCAATGTCATGCATCCTAAATGAAAG-AAATGTGTTTTTGGTTCCCAATCTT-AAAAA-
* * *
591556 AATGGAGA-TAGTTACGAGAATCGATGCTTATCTTATTTAATGGATGAACTTTGATTTTAAGGAA
318 AATAGAGACT-GTTACAAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTTAAGGAA
* * * * * * *
591620 AATAGGGCAAAGAAAATATTTCCATGCAAATG-AAATTCTCCATTAGCTTTTATCCTAATGAGGA
382 AATAGGACAAAGAAAAGATTTCCATGCAAAAGAAAATT-GCCAATAGCATTTATCCTAATGAGAA
*
591684 GAATGTGTTTATAGT-CCTAATCACAAAAT
446 GAATGTGTTTATAGTGACTAATCACAAAAT
* * ** *
591713 AAATGAAGATTATTTCTAGAATCCATGTTTGGCTCATTTGAGGTGCGAGCATAGACTTTACAAAA
1 AAATGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAGCTTAGACTTTACAAAA
* * * ** * *
591778 ATTGGGAGGAAGAAAGCCTATTCTTTCGAAAGAAAATCATCAATTTCAT
66 ATT-GGTGGAAAAAAGCCT-TTCTTGCGAAACCAAAGCATCAATATCAT
591827 GTTTATGGTG
Statistics
Matches: 509, Mismatches: 67, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
473 2 0.00
474 63 0.12
475 35 0.07
476 263 0.52
477 146 0.29
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (475 bp):
AAATGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAGCTTAGACTTTACAAAA
ATTGGTGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATATATTCTAATGAAAAGAC
CAGGTCTATGATGACTTATCCTAACAAGAATGGGGATTAGTATGACTATTAATGTTTGTCTTATT
TAAAAGACAAACTTTGATTCTATAAAAAAAGTTAGAAAGAAAAGCTTTTCTTGCGACACCAAAAC
ATCAATGTCATGCATCCTAAATGAAAGAAATGTGTTTTTGGTTCCCAATCTTAAAAAAATAGAGA
CTGTTACAAGAATCGATGCTTATCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGACA
AAGAAAAGATTTCCATGCAAAAGAAAATTGCCAATAGCATTTATCCTAATGAGAAGAATGTGTTT
ATAGTGACTAATCACAAAAT
Found at i:592860 original size:476 final size:470
Alignment explanation
Indices: 591949--594483 Score: 2458
Period size: 476 Copynumber: 5.3 Consensus size: 470
591939 TTGCAACCCT
* ** * * * * * * *
591949 AAAGCATGAATATCATGTATCCTTATGAGAAGACTTTGTTTGTGATGCCTAATCCTTAAAGGAAT
1 AAAGCATCAATATTGTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAAT
* * * * * * * *
592014 TGAGATTAGTATGCCTATTTATGCTTGTCTTATTTAACAGATAAACTTTGATTCTATCAAAGACA
66 AGGGATTAGTATGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAACG
* * *
592079 ATGGAAATAAAAGCATTTCTTGTGATCCCAAAGCATTAATGTTTTTTATCCTAATGAAGGGAATG
131 TTGGAAAGAAAAGCATTTCTTGTGA-CCCAAAGCATCAATG-TTTTTATCCTAATGAAGGGAATG
* * * * * *
592144 TGTCTTTGGTTCCCAATATTGAAAAAAATAGAGACTGTTACCAGAATCGATGCTTGTCTTATTTA
194 TGTTTTTGGTTCCCAATCTTTAAAAGAATGGAGACTGTTACAAGAATCGATGCTTGTCTTATTTA
* *
592209 AGAGATGAACTTTGATTTTAAGGAAAATAGGCCAAAGAAAATATTTTCATGCAAAAGAAAACTAT
259 AGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAA-AAAA--AT
* * * * *
592274 CAGC--ATCATTTATCCTAACGAGGAAAAGGTTTTTATAGTGCCTACTCACAAAATGAGTGAAGA
321 CACCATATCATTTATCCTAACGAGGAAAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGA
* *
592337 TCATTACTAGATTCCATGTTT-GCCTTATTTGAGGCACAAACTTAGACTTTGCAAAAATTAGGGG
386 TCATTACTAGAATCCATGTTTGGCC-T-TTTGAGGCACAAACTTAGACTTTACAAAAATT-GGGG
* **
592401 GAAGAAAGCCATTCTTGAGAGACC
448 GAAAAAAGCTTTTCTTGAGA-ACC
* * * * *
592425 AAGGCATTAATATTGTGTATCCTGATAAGAAGATTATGTTTATGGTGCCTAATCCAAAAAAGAAT
1 AAAGCATCAATATTGTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAAT
*
592490 AGGGATTAGTATGACTATTTATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATCAAAAACA
66 AGGGATTAGTATGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAC-
* * * *
592555 G-TGGAAAGAAAAGCATTTCTTGCGACCGCAAAGCTTCAATGCTTTTTACCCTAATGAAGAGAAT
130 GTTGGAAAGAAAAGCATTTCTTGTGACC-CAAAGCATCAATG-TTTTTATCCTAATGAAGGGAAT
* *
592619 GTGTTTTTGGTTCCGAATCTTTAAAAGAATGGAGACTGTTACAATAATCGATGCTTGTCTTA-TT
193 GTGTTTTTGGTTCCCAATCTTTAAAAGAATGGAGACTGTTACAAGAATCGATGCTTGTCTTATTT
* * * *
592683 ATTGGGATGAACTTTGATTTTATGGAAAATAGGGCAAAGAAAATATTTCCATGCAAAAGAAAATC
258 A-AGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAAAAAATC
* * * * * * *
592748 ACCCATATCTTTTA-CCTTAATGAGGATAATGTGTTTATAGTGCATAATTAGAAAATTAATGAAG
322 A-CCATATCATTTATCC-TAACGAGGAAAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAG
* * * **
592812 ATCACTACTAGAATCCATGTTTGTCACTTTTGAGGCACAAATTTAGACTTTACAAAAATTGGTAT
385 ATCATTACTAGAATCCATGTTTGGC-CTTTTGAGGCACAAACTTAGACTTTACAAAAATTGG-GG
* *
592877 GAAAATTA-CTTTTCTTGCGAATCC
448 GAAAA-AAGCTTTTCTTGAGAA-CC
* * *
592901 AAAGCATCAATATCT-TGTATCATAATAAGAA-AGCTATGCTTATGGTGCCTAATCCTGAAAAGA
1 AAAGCATCAATAT-TGTGTATCCTAATAAGAAGA-CTATGTTTATGGTGCCTAATCCTAAAAAGA
* * * * * * *
592964 ATAGGGGTTAGTATGAGTATTCATCTTTTGTTTTATTTAAGAAACAAACTTTAATTCTATCAAAA
64 ATAGGGATTAGTATGACTATTTAT-GTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAA
* * * * *
593029 ACGTTGAAAAGAAAAGC--TT-TTGTGACACCAATGCATCAATGTCATGTATCCTAATGACGGGA
128 ACGTTGGAAAGAAAAGCATTTCTTGTGAC-CCAAAGCATCAATGT-TTTTATCCTAATGAAGGGA
* * ** *
593091 AAGTGTTTTTGGTTCCCTATGTTGTTTTTCGTTCCCTATGTTGAAAAGCCTGGAGA-TAGTTACG
191 ATGTGTTTTTGGTTCCC-A------------AT--C--T-TT-AAAAGAATGGAGACT-GTTACA
* * * * * * * *
593155 AGAATTGTTGCTGGTTTTATTTAAGGGATGAACTTTGATTTTAAGGAAATTTGCGTC-AACAAAA
236 AGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAG-GGCAAAGAAAA
* * * * * * * * *
593219 GATTTTCGTGC-AAAAAAAATTATCGACATCATTTATCCAAATGA-GAAGAATATGTTTATAGTA
300 TATTTTCATGCAAAAAAAAATCA-CCATATCATTTATCCTAACGAGGAA-AATGTGTTTATAGTG
* * * * * * **
593282 CCTAATCACAAAATGATTGAAAATTATTACTAGAATCTATGTTTGGCTTATTTGAGACACGGACT
363 CCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGGCCT-TTTGAGGCACAAACT
* *
593347 TAGACTTTACAAAATTTTGGGAGAAAAAAGCTTTTCATTCGA-AACC
427 TAGACTTTACAAAA-ATTGGGGGAAAAAAGCTTTTC-TT-GAGAACC
** * * * *
593393 AAAGTGTCAATATCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCAAATCCTAAAAAAAAC
1 AAAGCATCAATATTGTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAA-
* * *
593458 TA-GGATTAGTACGACTATTAATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATAAAAAAC
65 TAGGGATTAGTATGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAC
* * * * *
593522 GTTGAAAAGGAAAGC--TT-TTGTGATACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAAT
130 GTTGGAAAGAAAAGCATTTCTTGTGA-CCCAAAGCATCAATGT-TTTTATCCTAATGAAGGGAAT
* * * ** * * *
593584 ATGTTTTTGGTTCCCTATCTTTGAATAGCTTGAAGACTGTTACGAGAATCGATGCTTATCTTATT
193 GTGTTTTTGGTTCCCAATCTTT-AAAAGAATGGAGACTGTTACAAGAATCGATGCTTGTCTTATT
* * **
593649 TCAGGGATGAACTTTGATTTTAAGAAAAATAAAGCAAAGAAAATATTTTCATGCAAAAAAAAAAT
257 TAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGC-AAAAAAAAAT
* * *
593714 CATCAGTATCATTTATCCTAACGAGGAGAATGTGTTTTTAGTGCCTAATCACAAAATGAATGAAG
321 CACCA-TATCATTTATCCTAACGAGGAAAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAG
* * * * *
593779 ATCATTACTAGAATCCATGCTTGGCTCATTTAAGACACAGACTTAGACTTTACAAAAATTGAGGG
385 ATCATTACTAGAATCCATGTTTGGC-CTTTTGAGGCACAAACTTAGACTTTACAAAAATTG-GGG
*
593844 AAAAAAAGCTTTTCTTGAGAGACC
448 GAAAAAAGCTTTTCTTGAGA-ACC
* * * *
593868 AAGGCATCAATATCGTGTATCCTAATAAGAGGACTATGTTTTTGGTGCCTAATCCTAAAAAGAAT
1 AAAGCATCAATATTGTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAAT
* * * *
593933 AAGGATTAGTATGACTATTTATGTTTATTTTATTTAAGAGACAAACTTTGATTCTATCAAAAATA
66 AGGGATTAGTATGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAA-C
* * *
593998 G-TGGAAAGAAAAGCATTTCTTGAGACCCCAAACCATCAATTTTCTTTATCCTAATGAAGGGAAT
130 GTTGGAAAGAAAAGCATTTCTTGTGA-CCCAAAGCATCAATGTT-TTTATCCTAATGAAGGGAAT
* * *
594062 GTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTGCTACAAGAATTC-ATGCTTGTCTTATT
193 GTGTTTTTGGTTCCCAATCTTTAAAAGAATGGAGACTGTTACAAGAA-TCGATGCTTGTCTTATT
* * * *
594126 TAAAGGATGAACTTTGATTTTAAAGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAAAAAATC
257 TAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAAAAAATC
* * * * *
594191 GCCA-AT-ATCTTATACCTTGAGGAGGAAAATGTGTTTATAATGCCTAATCAGAAAATGAATGAA
322 ACCATATCAT-TTAT-CC-TAACGAGGAAAATGTGTTTATAGTGCCTAATCACAAAATGAATGAA
* * * * * * *
594254 AAGCACTACTAGAATCCATGTTTGTCTCTTTTAAGGCACGAATTTAGACTTTACAAAAATTGGTG
384 GATCATTACTAGAATCCATGTTTGGC-CTTTTGAGGCACAAACTTAGACTTTACAAAAATTGG-G
* * *
594319 TGAAAAAAAGCCTTTCTTGCGAATCC
447 -GGAAAAAAGCTTTTCTTGAGAA-CC
* * * *
594345 AAAGCATCAATATCT-TGTATCTTAGTAAGAAGACTATGCTTATGGTGCCTAATCCTGAAAAGAA
1 AAAGCATCAATAT-TGTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAA
* * * * * * * * *
594409 TGGGGATTAGCATGAGTATTCATCATTTATCTTATTTAAGAGATAAACTCTGACTCTATCAAAAA
65 TAGGGATTAGTATGACTATTTAT-GTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAA
594474 CGTTGGAAAG
129 CGTTGGAAAG
594484 TGTTTCTTGT
Statistics
Matches: 1694, Mismatches: 288, Indels: 152
0.79 0.13 0.07
Matches are distributed among these distances:
472 1 0.00
473 86 0.05
474 64 0.04
475 268 0.16
476 560 0.33
477 227 0.13
478 103 0.06
487 1 0.00
489 1 0.00
491 112 0.07
492 182 0.11
493 83 0.05
494 6 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (470 bp):
AAAGCATCAATATTGTGTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTAAAAAGAAT
AGGGATTAGTATGACTATTTATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAACG
TTGGAAAGAAAAGCATTTCTTGTGACCCAAAGCATCAATGTTTTTATCCTAATGAAGGGAATGTG
TTTTTGGTTCCCAATCTTTAAAAGAATGGAGACTGTTACAAGAATCGATGCTTGTCTTATTTAAG
GGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAAAAAATCACCA
TATCATTTATCCTAACGAGGAAAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATT
ACTAGAATCCATGTTTGGCCTTTTGAGGCACAAACTTAGACTTTACAAAAATTGGGGGAAAAAAG
CTTTTCTTGAGAACC
Found at i:593118 original size:19 final size:19
Alignment explanation
Indices: 593094--593133 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
593084 GACGGGAAAG
*
593094 TGTTTTTGGTTCCCTATGT
1 TGTTTTTCGTTCCCTATGT
593113 TGTTTTTCGTTCCCTATGT
1 TGTTTTTCGTTCCCTATGT
593132 TG
1 TG
593134 AAAAGCCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.17, G:0.20, T:0.57
Consensus pattern (19 bp):
TGTTTTTCGTTCCCTATGT
Found at i:595231 original size:425 final size:415
Alignment explanation
Indices: 594041--595301 Score: 1396
Period size: 425 Copynumber: 3.0 Consensus size: 415
594031 CATCAATTTT
* *
594041 CTTTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTGCTACAA
1 CTTTATCCTAACGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTGTTACAA
594106 GAATTC-ATGCTTGTCTTATTTAA-AGGATGAACTTTGATTTTAAAGAAAATAGGGCAAAGAAAA
66 GAA-TCGATGCTTGTCTTATTTAAGA-GATGAACTTTGATTTTAAA-AAAATAGGGCAAAGAAAA
* * * * *
594169 GATTTCCATGCAAAAAAAA-ATC-GCCAAT-ATCTTATACCTTGAGGAGGAAAATGTGTTTATAA
128 GATTTCTATACAAAAAAAATATCAG-C-ATCAT-TTAT-CC-TAAAGAGGAGAATGTGTTTATAA
* * * * * *
594231 TGCCTAATCAGAAAATGAATGAAAAGCACTACTAGAATCCATGTTTGTCTCTTTTAAGGCACGAA
188 TGCCTAATCACAAAAT-AATGAAAATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAA
* * * *
594296 TTTAGACTTTACAAAAATTGGTGTGAAAAAAAGCCTTTCTTGCGAATCCAAAGCATCAATATCTT
252 CTTAGACTTTACAAAAATTGGTG-G-AAAAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCAT
* * * *
594361 GTATCTTAGTAAGAAGACTATGCTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGCATGAGT
315 GTATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGT
* * *
594426 ATTCATCATTTATCTTATTTAAGAGATAAAC-TCTGA
380 ATTCAT-GTTTGTCTTATTTAAGAGACAAACTTCTGA
* ** ** * * * * *
594462 CTCTATCAAAAACG-TTGGAAAGTGTTTCTT-GTTCCCAATCTTGAAAAGAATGGAGATTATTAT
1 CTTTATC-CTAACGAAGGGAATGTGTTT-TTGGTTCCCAATCTTGAAAAGAATAGAGACTGTTAC
* * * *
594525 GAGAATTGATGCTTGCCTTATTTAAGGGAT-AACTTTGATTTTAAGAAAAATAGGGCAAAGAAAA
64 AAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTTGATTTTAA-AAAAATAGGGCAAAGAAAA
** * *
594589 GATTT-TCA-AGCAAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGT
128 GATTTCT-ATA-C-AAAAAAAAT-ATCAGCATCATTTATCCTAAAGAGGAGAATGTGTTTATAAT
* * * *
594652 GCCTAATCACAAAATAAATGAAGATCTTTACTAGAATCCATGTTTGGCTCATTTGAGGTATGAAC
189 GCCTAATCACAAAAT-AATGAAAATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAAC
* * * * *
594717 TTAGACTTTACAAAAATTAGGGGGAAGAAAGCCTTTCTTGAGAGACCAAGGCATCAATATCGTGT
253 TTAGACTTTACAAAAATT-GGTGGAAAAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGT
* * * * * *
594782 ATCCTTATAAGAAGTCTATGTTTATGGTGCCTACTCCTGAAAAGAATAGCGATTAGTATGACTAT
317 ATCCTAATAAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTAT
*
594847 TCATGTTTGTCTTATTTAAGAGACAAACTATGTTCATGTT
382 TCATGTTTGTCTTATTTAAGAGACAAAC----TTC-TG-A
* * * ** * *
594887 TTTTATCCTAGCGAAGGGAATTTGTTTTTGGTTCCCAAAATTAAAAAGAATAAAGACTGTTACAA
1 CTTTATCCTAACGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTGTTACAA
* * *
594952 GAATCGATGCTTGTCTTATGTAAGAGATGAACTTTGATTTTGAAAAAAATAAGGCAAAGAAATGA
66 GAATCGATGCTTGTCTTATTTAAGAGATGAACTTTGATTTT-AAAAAAATAGGGCAAAGAAAAGA
*
595017 TTTCTATACAAAAGAAAATTATCAGCATCATTTATCCTAAAGAGGAGAATCTGTTTATAATGCCT
130 TTTCTATACAAAA-AAAA-TATCAGCATCATTTATCCTAAAGAGGAGAATGTGTTTATAATGCCT
* * * * *
595082 AATCACAAAATAATTGAAAATCATTACCATAATCCA-GTTTCTCTAATTCGAGGCATGAACTTAG
193 AATCACAAAATAA-TGAAAATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAG
** *
595146 A-TTCTACAAAAATTGGTAGGAAAAAAGCCTTTCTTGAGAAACCAAAGCAAGAATTTCATGTATC
257 ACTT-TACAAAAATTGGT-GGAAAAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTATC
* * * * *
595210 CAAATGAGAGGACTATGTTTATGATGCCTAATCCTAAAAAGAATGGGGATTAGTATGAGTATTCA
320 CTAATAAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCA
595275 TGTTTGTCTTATTTAAGAGACAAACTT
385 TGTTTGTCTTATTTAAGAGACAAACTT
595302 TGATTCTATC
Statistics
Matches: 695, Mismatches: 114, Indels: 62
0.80 0.13 0.07
Matches are distributed among these distances:
418 21 0.03
419 94 0.14
420 132 0.19
421 83 0.12
422 11 0.02
423 7 0.01
424 11 0.02
425 222 0.32
426 109 0.16
427 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (415 bp):
CTTTATCCTAACGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTGTTACAA
GAATCGATGCTTGTCTTATTTAAGAGATGAACTTTGATTTTAAAAAAATAGGGCAAAGAAAAGAT
TTCTATACAAAAAAAATATCAGCATCATTTATCCTAAAGAGGAGAATGTGTTTATAATGCCTAAT
CACAAAATAATGAAAATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTT
TACAAAAATTGGTGGAAAAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTATCCTAATA
AGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTG
TCTTATTTAAGAGACAAACTTCTGA
Found at i:596746 original size:949 final size:948
Alignment explanation
Indices: 594909--598793 Score: 4162
Period size: 949 Copynumber: 4.1 Consensus size: 948
594899 GAAGGGAATT
** * * ** * * *
594909 TGTTTTTGGTTCCCAAAATTAAAAAGAATAAAGACTGTTACAAGAATCGATGCTTGTCTTATGT-
1 TGTTTTTGGTTCCCAATCTTGAAAAGATTGGAGACTATTACGAGAATCGATGCTTGTCTTATTTA
* * *
594973 AAGAGATGAACTTTGATTTTGAA-AAAAATAAGGCAAAGAAATGATTTCTAT-ACAAAAGAAAAT
66 AAG-GATGAACTTTGATTTT-AAGGAAAATAGGGCAAAGAAAAGATTTCTATGA-AAAAGAAAAT
* * * * *
595036 TATCAGCATCATTTATCCTAA-AGAGGAGAATCTGTTTATAATGCCTAATCACAAAAT-AATTGA
128 CATCAGTATCATTTATCCTAATA-AGGAGAATGTGATTATAGTGCCTAATCACAAAATGAA-TGA
* * * * * * * *
595099 AAATCATTACCATAATCCA-GTTTCTCTAATTCGAGGCATGAACTTAGA-TTCTACAAAAATTGG
191 AGATCATTACTAGAATCCATATTTGTCTCATTTGAGGCA-GAAC-TAAACTT-TACAAAAATTGG
* ** * * **
595162 T-AGGAAAAAAGCCTTTCTTGAGAAACCAAAGCAAGAATTTCATGTATCCAAATGAGAGGACTAT
253 TGA-G-AAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAAACTAT
* *
595226 GTTTATGATGCCTAATCCTAAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
316 GTTTATGATGCCTAATCCTAAAAAGAATTGGGATTAGTATGAGTATTCATATTTGTCTTATTTAA
* ** *
595291 GAGACAAACTTTGATTCTATCAAAAAAGTTGGAAAGAAAAACTTTTCTTGCGACACCAAAGCATC
381 GAGACAAACTTTGATTCTACCAAAAAAGTTACAAAGAAAAACTTTTCTTGCAACACCAAAGCATC
* * * * *
595356 AATGTCGTGTATCTTAATGAAAGG-AATGTGGTTTTGGTTCCCAATCTTTGAAAAGCTTGGAGA-
446 AATGTCATGCATCCTAATG-AAGGAAATGTGTTTTTGGTTCACAATCTTTGAAAAGCTTGGAGAC
** * * *
595419 TA-T-C-GAT-G---GGTGTCTTATTTAAGGGATAAACTTTGATATTAAGGAAAATAGGGCAAAG
510 TATTACAGATCGATCCTTGTCTTATTTAAAGGATAAACTTTGATTTTAAGGAAAATAGAGCAAAG
* * * * * *
595477 AAATGACTTCCATGCAAAAGAAATTCATCAGTATCGT-TTATCGTAATTAGGAAAATGTGTTTAT
575 AAAAGATTTCCATGCAAAAGAAAATCATCAATATC-TATTATCCTAATGAGGAAAATGTGTTTAT
* * *
595541 AGTGCCTAATCACAAAATGAATGAAGAACCATTACTAGAATCTATGTTTAG-CTCATTTGAGGCA
639 AGTGCCCAATCACAAAATGAATGAAG-ATCATTACTAGAATCTATGTTT-GTCTCATTT-AAGCA
* * *
595605 -CGAACTTAGACTTTACAAAAATTAGAGGGAAGAAAGCCTTTCTT-TCGAAACCAAAGCATCAAT
701 TCGAACTTAGACATTACAAAAATTTGTGGGAA-AAAGCCTTTCTTGT-GAAACCAAAGCATCAAT
* * * *
595668 ATCGTGTATCCTTATAAGAAAACTATGTTTATGGTGCCTAATCCTGAAAAGAATTAAGG-TTAGT
764 ATCATGTATCCTAACAAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAA-TAAGGATTAGT
** * *
595732 GCGAGTATTCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATTAAAAACATTGTAAAGAA
828 ATGAGTATTCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATCAAAAACATTGGAAAGAA
* * *
595797 ACGC-TTTC-TAGCGACACCAAAGAATTAATGCCATGCATCCTAATGAAGGAAAATG
893 AAGCTTTTCTTA-CGACACCAAAGCATTAATGCCACGCATCCTAATGAAGGAAAATG
** * * *
595852 TGTTTTTGGTTCATAATCTTTGAAAAGCTTGCAGACTATTACGAGAATCAATGCTTGTCTTATTT
1 TGTTTTTGGTTCCCAATC-TTGAAAAGATTGGAGACTATTACGAGAATCGATGCTTGTCTTATTT
* * *
595917 AAAGGATGAACTTTGATTTTGAGGAAAATAGGGCAAAGAAAAGATTTTTGTGAAAAAGAAAATCA
65 AAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCTATGAAAAAGAAAATCA
*
595982 GCAGTATCATTTATCCTAATAAGGAGAATGTGATTATAGTGCCTAATCAC-AAATGAATGAAGAT
130 TCAGTATCATTTATCCTAATAAGGAGAATGTGATTATAGTGCCTAATCACAAAATGAATGAAGAT
* * *
596046 TATTACTAGAATCCTTATTTGTCTCATTTGAGGCAGGAACTAAGACTTTATAAAAATTGGTGAGA
195 CATTACTAGAATCCATATTTGTCTCATTTGAGGCA-GAACTAA-ACTTTACAAAAATTGGTGAGA
** * ** * * * * * *
596111 AAAAGATTTTTTTGTGAATGCAAGGCATCAATATCATGTATTCTAATGAGAAGACCATGATTGTG
258 AAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAAACTATGTTTATG
* * * * * * * * *
596176 GTGCCTAATCCTGAAAGGAA-TGGGAATTTGCATGAGTATTCACATTTGCCTTATTTAGGAGGCA
323 ATGCCTAATCCTAAAAAGAATTGGG-ATTAGTATGAGTATTCATATTTGTCTTATTTAAGAGACA
* * * * *
596240 AACTTGGATTCTACCAAAAACAG-TAAAAAGAAAAGCATTTCTTGCGAC-CTCAAAGCATCAATG
387 AACTTTGATTCTACCAAAAA-AGTTACAAAGAAAAACTTTTCTTGCAACAC-CAAAGCATCAATG
** * * * *
596303 TCATTTATCCTAATGAA-AAGAATGTGTTTTTAGTTCCCAATCTTT-AAAA-CATTAGAGACTAT
450 TCATGCATCCTAATGAAGGA-AATGTGTTTTTGGTTCACAATCTTTGAAAAGC-TTGGAGACTAT
* *
596365 TACGAGAATCGATCCTTGTCTTATTT-AAGCGATAAACATTGATTTTAAGGAAAATA-AG-ACAG
513 TAC-AG-ATCGATCCTTGTCTTATTTAAAG-GATAAACTTTGATTTTAAGGAAAATAGAGCAAAG
* * *
596427 ATAAGATTTCCATGCAAAAAAAAATCATCAATATCTACTATCCTAATGAGGAAAATGTGTTTATA
575 AAAAGATTTCCATGCAAAAGAAAATCATCAATATCTATTATCCTAATGAGGAAAATGTGTTTATA
* *
596492 GTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCAATGTTTGTCTCATTTAAAGCA-CG
640 GTGCCCAATCACAAAATGAATGAAGATCATTACTAGAATCTATGTTTGTCTCATTT-AAGCATCG
* * * * *
596556 AACTTAGA-TTTCACAAAAATTGGTGGGAAAAAAGCCTTTCTTGTGAAACCAAAGTATGAGTATC
704 AACTTAGACATT-ACAAAAATTTGTGGG-AAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATC
* * **
596620 ATGTAT-CTAGACAAGAGGACTATGTTTATGGTGCCTAATCCTAAAAAGAATGGGGATTAGTATG
767 ATGTATCCTA-ACAAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATAAGGATTAGTATG
* *
596684 AGTATTCATGTTTGTCTAATTTAAGAGATAAACTTTGATTCTATCAAAAA-AGTTGGAAAGAAAA
831 AGTATTCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATCAAAAACA-TTGGAAAGAAAA
* * * * *
596748 GCTTTTCTTATGACACCAAAGCATAAATGTCACGTATCCTAATGAAGG-GAATG
895 GCTTTTCTTACGACACCAAAGCATTAATGCCACGCATCCTAATGAAGGAAAATG
* * * *
596801 TGTTTTTGGTTCCTAATCATTGAAAAGCTTGGAGACTATTACAAGAATCGATGCTTGTCCTATTT
1 TGTTTTTGGTTCCCAATC-TTGAAAAGATTGGAGACTATTACGAGAATCGATGCTTGTCTTATTT
* * *
596866 AAAGGATGAACTTTGATTTTAAGGAAAATGGGGCAAAGAAAAGATTTCCATGGAAAAGAAAATCA
65 AAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCTATGAAAAAGAAAATCA
* * *
596931 TCATTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGAT
130 TCAGTATCATTTATCCTAATAAGGAGAATGTGATTATAGTGCCTAATCACAAAATGAATGAAGAT
* * * * * * *
596996 CATTACTGGAATCCATGTTTGTCTCATTTGAGGATCA-AATTTTAACATTACAAAAATTTGTGGG
195 CATTACTAGAATCCATATTTGTCTCATTTGAGG--CAGAA-CTAAACTTTACAAAAATTGGTGAG
* * * * *
597060 AAAAAGCCTTTCTGGTGAAACCAAAGCATCAATATCGTGTATCTTTATGAGAAAACAATGTTTAT
257 AAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAAACTATGTTTAT
* * *
597125 GATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTCATGTTTGTCTTATTTAAGAAACA
322 GATGCCTAATCCTAAAAAGAATTGGGATTAGTATGAGTATTCATATTTGTCTTATTTAAGAGACA
* * * * *
597190 AACTTTGATTCTACAAAAAAACATTGCAAAGAAAAACTTTTCTAGCAACACCAAAGCATTAATGT
387 AACTTTGATTCTACCAAAAAA-GTTACAAAGAAAAACTTTTCTTGCAACACCAAAGCATCAATGT
** * * *
597255 TGTGCATCCTAATGAAGGAAATATGTTTTTGGTTCACAATCTTTGAAATGCTTGGCGACTATTA-
451 CATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCACAATCTTTGAAAAGCTTGGAGACTATTAC
* * * * * * *
597319 TG-TCGATGCTTGTCCTATTTAAAGGATGAACTTCGATTTTAAGGAAAATGGGGCAAAGAAAAGA
516 AGATCGATCCTTGTCTTATTTAAAGGATAAACTTTGATTTTAAGGAAAATAGAGCAAAGAAAAGA
* * ** * * * *
597383 TTTTCGTGGGAAAGAAAATCATCAGTATC-ATTTATCCTAATAAAGAGAATGTGTTTATAGTGCC
581 TTTCCATGCAAAAGAAAATCATCAATATCTA-TTATCCTAATGAGGAAAATGTGTTTATAGTGCC
* * * * * *
597447 CAATCACAAAATGAATGAAGATCGTTACTGGAATTTATGTTTGTCAT-ATTTGAGGATCGAATTT
645 CAATCACAAAATGAATGAAGATCATTACTAGAATCTATGTTTGTC-TCATTTAAGCATCGAACTT
* * **
597511 AGACATTACAAAAATTTGTGGGAAAAAGCCTTTCTGGTGATACCAAAGCATCAATATCATGTAAG
709 AGACATTACAAAAATTTGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATC
*** * ** * *
597576 CTATTGAGAAGACTATGTTTATGGTGCCTTATCCTGAAGGGAAAAAGGATTAGTATAAGTATTCA
774 CTAACAAGAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATAAGGATTAGTATGAGTATTCA
* * *
597641 CGTTTGTCTCATTTAAGACACAAACTTTGATTCTATCAAAAACATTGGAAAGAAAAGCATTTCTT
839 TGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATCAAAAACATTGGAAAGAAAAGCTTTTCTT
* ** * * ***
597706 GCGAC-CCCGAGCATCAATGTCATTTATCCTAATGAA--AAGAATG
904 ACGACACCAAAGCATTAATGCCACGCATCCTAATGAAGGAA-AATG
* * * * *
597749 TGTTTTTGGTTTCCAATCTTGAAAAGATTGGAGACTTTTATGAGAATCGATCCTTGCCTTATTT-
1 TGTTTTTGGTTCCCAATCTTGAAAAGATTGGAGACTATTACGAGAATCGATGCTTGTCTTATTTA
* * * * *
597813 AAGCGATGAACATTGATTTTAAGGAAAATAAGGTAAAGAAAAGATTTCTGTGCAAAAGAAAATCA
66 AAG-GATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCTATGAAAAAGAAAATC-
* * * *
597878 AT-AGTGTCA-TTATCCTAATGAGGAAAATGT-ATTTATAGTGCCTAATC-CCAAATGAATGAAG
129 ATCAGTATCATTTATCCTAATAAGGAGAATGTGA-TTATAGTGCCTAATCACAAAATGAATGAAG
* * * * * * * * * *
597939 AGCTTTACTAGAATTCATGTTTGGCTCATTTGACGCACAAACTTAAACTTTATAAAAATTGGGGG
193 ATCATTACTAGAATCCATATTTGTCTCATTTGAGGCA-GAAC-TAAACTTTACAAAAATTGGTGA
* * * * * *
598004 GAAGAAAGCCTTACTT-TCAAAACCAGAGCATCAATATCGTGTATCCTTATAAGAAAACTATGTT
256 GAA-AAAGCCTTTCTTGT-GAAACCAAAGCATCAATATCATGTATCCTAATGAGAAAACTATGTT
* * * * *
598068 TGTGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGGGTACTCATATTTATCTTATTTAAGAG
319 TATGATGCCTAATCCTAAAAAGAATTGGGATTAGTATGAGTATTCATATTTGTCTTATTTAAGAG
* * * *
598133 ACAAACTTTGATTCTA-TAAAAAAGGTTACAAAGAAAAGCTTCTCTTGCAACCCCAAAGCATCAA
384 ACAAACTTTGATTCTACCAAAAAA-GTTACAAAGAAAAACTTTTCTTGCAACACCAAAGCATCAA
** *
598197 TGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCATGATCATTGAAAAGCTTGGAGACTAT
448 TGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCACAATCTTTGAAAAGCTTGGAGACTAT
* * ** * *
598262 TACAAGAATTGATGCC-TATCTTATTTAAAGGATGCACTTTGATTTTAAGGAAAACAGAGTAAAG
513 TAC-AG-ATCGAT-CCTTGTCTTATTTAAAGGATAAACTTTGATTTTAAGGAAAATAGAGCAAAG
* * * *
598326 AAAAGATTTCCATGCAAAAGAAAATCCTCAATATCTTTTATCCTAATGAGGAGAAGGTGTTTATA
575 AAAAGATTTCCATGCAAAAGAAAATCATCAATATCTATTATCCTAATGAGGAAAATGTGTTTATA
* * * * * * * *
598391 GTGCCCAATCACAAAATGAATGAAGATCACTACTGGAATCCATGTTTATCTTATTTGAGAATTGA
640 GTGCCCAATCACAAAATGAATGAAGATCATTACTAGAATCTATGTTTGTCTCATTTAAGCATCGA
* * *
598456 ACTTAGACATTACAAAAATTTGTGGGAAAAAGCCTTTCTCGTGAAACCAAAGTA-AAATTATCAT
705 ACTTAGACATTACAAAAATTTGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAA-TATCAT
*** *
598520 GTATCCTAACAAGAAGACTATGTTTGCAGTGCCTAA-CCTTGAAAAGAATAGGGATTAGTATGAG
769 GTATCCTAACAAGAAGACTATGTTTATGGTGCCTAATCC-TGAAAAGAATAAGGATTAGTATGAG
* * * * *
598584 TGTTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATCAAAAACGTTAGAAAGAAAAGCT
833 TATTCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATCAAAAACATTGGAAAGAAAAGCT
** * *
598649 TTTCTTACGACACCATGGCATTAATGCCACGCATCCAAATGAAGGGAAA-G
898 TTTCTTACGACACCAAAGCATTAATGCCACGCATCCTAATGAAGGAAAATG
* * * * * *
598699 TGTTTTTGGTTCCCAATCTTAAAAAGAATGGAGACTGTTATGAGAATTGATGCTTCTCTTA-TTA
1 TGTTTTTGGTTCCCAATCTTGAAAAGATTGGAGACTATTACGAGAATCGATGCTTGTCTTATTTA
598763 AAGGGATGAACTTTGATTTTAAGGAAAATAG
66 AA-GGATGAACTTTGATTTTAAGGAAAATAG
598794 AGCTGTTAGG
Statistics
Matches: 2463, Mismatches: 398, Indels: 155
0.82 0.13 0.05
Matches are distributed among these distances:
941 1 0.00
942 16 0.01
943 228 0.09
944 168 0.07
945 172 0.07
946 164 0.07
947 99 0.04
948 103 0.04
949 841 0.34
950 534 0.22
951 83 0.03
952 53 0.02
953 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (948 bp):
TGTTTTTGGTTCCCAATCTTGAAAAGATTGGAGACTATTACGAGAATCGATGCTTGTCTTATTTA
AAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCTATGAAAAAGAAAATCAT
CAGTATCATTTATCCTAATAAGGAGAATGTGATTATAGTGCCTAATCACAAAATGAATGAAGATC
ATTACTAGAATCCATATTTGTCTCATTTGAGGCAGAACTAAACTTTACAAAAATTGGTGAGAAAA
AGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAAACTATGTTTATGATG
CCTAATCCTAAAAAGAATTGGGATTAGTATGAGTATTCATATTTGTCTTATTTAAGAGACAAACT
TTGATTCTACCAAAAAAGTTACAAAGAAAAACTTTTCTTGCAACACCAAAGCATCAATGTCATGC
ATCCTAATGAAGGAAATGTGTTTTTGGTTCACAATCTTTGAAAAGCTTGGAGACTATTACAGATC
GATCCTTGTCTTATTTAAAGGATAAACTTTGATTTTAAGGAAAATAGAGCAAAGAAAAGATTTCC
ATGCAAAAGAAAATCATCAATATCTATTATCCTAATGAGGAAAATGTGTTTATAGTGCCCAATCA
CAAAATGAATGAAGATCATTACTAGAATCTATGTTTGTCTCATTTAAGCATCGAACTTAGACATT
ACAAAAATTTGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTAACAA
GAAGACTATGTTTATGGTGCCTAATCCTGAAAAGAATAAGGATTAGTATGAGTATTCATGTTTGT
CTCATTTAAGAGACAAACTTTGATTCTATCAAAAACATTGGAAAGAAAAGCTTTTCTTACGACAC
CAAAGCATTAATGCCACGCATCCTAATGAAGGAAAATG
Found at i:597477 original size:473 final size:473
Alignment explanation
Indices: 594954--598793 Score: 3905
Period size: 473 Copynumber: 8.1 Consensus size: 473
594944 TGTTACAAGA
* * * *
594954 ATCGATGCTTGTCTTATGT-AAGAGATGAACTTTGATTTTGAA-AAAAATAAGGCAAAGAAATGA
1 ATCGATGCTTGTCTTATTTAAAG-GATGAACTTTGATTTT-AAGGAAAATAGGGCAAAGAAAAGA
* * * * * * *
595017 TTTCTATACAAAAGAAAATTATCAGCATCATTTATCCTAAAGAGGAGAATCTGTTTATAATGCCT
64 TTTCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * *
595082 AATCACAAAAT-AATTGAAAATCATTACCATAATCCA-GTTTCTCTAATTCGAGGCATGAACTTA
129 AATCACAAAATGAA-TGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGG-ACGAACTTA
* * ** *
595145 GA-TTCTACAAAAATTGGTAGGAAAAAAGCCTTTCTTGAGAAACCAAAGCAAGAATTTCATGTAT
192 GACTT-TACAAAAATTGGT-GGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTAT
** * *
595209 CCAAATGAGAGGACTATGTTTATGATGCCTAATCCTAAAAAGAA-TGGGGATTAGTATGAGTATT
255 CCTTATAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGG-TTAGTATGAGTATT
* *
595273 CATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAA-GTTGGAAAGAAAAACTTTT
319 CATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTT
* * * * * *
595337 CTTGCGACACCAAAGCATCAATGTCGTGTATCTTAATGAAAGG-AATGTGGTTTTGGTTCCCAAT
384 CTAGCGACACCAAAGCATCAATGTCATGCATCCTAATG-AAGGAAATGTGTTTTTGGTTCACAAT
595401 CTTTGAAAAGCTTGGAG---A-T---
448 CTTTGAAAAGCTTGGAGACTATTAAG
** * * * * *
595420 ATCGATGGGTGTCTTATTTAAGGGATAAACTTTGATATTAAGGAAAATAGGGCAAAGAAATGACT
1 ATCGATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATT
* * * * *
595485 TCCATGCAAAAGAAATTCATCAGTATCGTTTATCGTAATTAGGAAAATGTGTTTATAGTGCCTAA
66 TCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAA
* *
595550 TCACAAAATGAATGAAGAACCATTACTAGAATCTATGTTTAG-CTCATTTGAGGCACGAACTTAG
131 TCACAAAATGAATGAAG-ATCATTACTAGAATCCATGTTT-GTCTCATTTGAGG-ACGAACTTAG
* * *
595614 ACTTTACAAAAATTAGAGGGAAGAAAGCCTTTCTT-TCGAAACCAAAGCATCAATATCGTGTATC
193 ACTTTACAAAAATTGGTGGGAA-AAAGCCTTTCTTGT-GAAACCAAAGCATCAATATCATGTATC
* * * ** **
595678 CTTATAAGAAAACTATGTTTATGGTGCCTAATCCTGAAAAGAATTAAGGTTAGTGCGAGTATTCA
256 CTTATAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTCA
* * * *
595743 TGTTTGTCTCATTTAAGAGACAAACTTTGATTCTAT-TAAAAACATTGTAAAGAAACGC-TTTCT
321 TGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTTCT
* * * *
595806 AGCGACACCAAAGAATTAATGCCATGCATCCTAATGAAGGAAAATGTGTTTTTGGTTCATAATCT
386 AGCGACACCAAAGCATCAATGTCATGCATCCTAATGAAGG-AAATGTGTTTTTGGTTCACAATCT
*
595871 TTGAAAAGCTTGCAGACTATTACGAG
450 TTGAAAAGCTTGGAGACTATTA--AG
* *
595897 AATCAATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTGAGGAAAATAGGGCAAAGAAAAGAT
1 -ATCGATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAT
*** * * * *
595962 TTTTGTGAAAAAGAAAATCAGCAGTATCATTTATCCTAATAAGGAGAATGTGATTATAGTGCCTA
65 TTCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTA
* * * * *
596027 ATCAC-AAATGAATGAAGATTATTACTAGAATCCTTATTTGTCTCATTTGAGGCAGGAACTAAGA
130 ATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGG-ACGAACTTAGA
* * ** * ** * * *
596091 CTTTATAAAAATTGGTGAGAAAAAGATTTTTTTGTGAATGCAAGGCATCAATATCATGTATTCTA
194 CTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTT
* * * * * * * * * * **
596156 ATGAGAAGACCATGATTGTGGTGCCTAATCCTGAAAGGAA-TGGGAATTTGCATGAGTATTCACA
259 ATAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGG-GTTAGTATGAGTATTCATG
* * * * * * ** * *
596220 TTTGCCTTATTTAGGAGGCAAACTTGGATTCTA-CCAAAAACAGTAAAAAGAAAAGCATTTCTTG
323 TTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTTCTAG
** * * *
596284 CGAC-CTCAAAGCATCAATGTCATTTATCCTAATGAA-AAGAATGTGTTTTTAGTTCCCAATCTT
388 CGACAC-CAAAGCATCAATGTCATGCATCCTAATGAAGGA-AATGTGTTTTTGGTTCACAATCTT
*
596347 T-AAAA-CATTAGAGACTATTACGAG
451 TGAAAAGC-TTGGAGACTATTA--AG
* * * * * *
596371 AATCGATCCTTGTCTTATTT-AAGCGATAAACATTGATTTTAAGGAAAATA-AG-ACAGATAAGA
1 -ATCGATGCTTGTCTTATTTAAAG-GATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGA
* * * *
596433 TTTCCATGCAAAAAAAAATCATCAATATC-TACTATCCTAATGAGGAAAATGTGTTTATAGTGCC
64 TTTCCATGCAAAAGAAAATCATCAGTATCAT-TTATCCTAATGAGGAGAATGTGTTTATAGTGCC
* * *
596497 TAATCACAAAATGAATGAAGATCATTACTAGAATCAATGTTTGTCTCATTTAAAGCACGAACTTA
128 TAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTT-GAGGACGAACTTA
* * *
596562 GA-TTTCACAAAAATTGGTGGGAAAAAAGCCTTTCTTGTGAAACCAAAGTATGAGTATCATGTAT
192 GACTTT-ACAAAAATTGGTGGG-AAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTAT
* * * *
596626 -CTAGACAAGAGGACTATGTTTATGGTGCCTAATCCTAAAAAGAA-TGGGGATTAGTATGAGTAT
255 CCT-TATAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGG-TTAGTATGAGTAT
* * *
596689 TCATGTTTGTCTAATTTAAGAGATAAACTTTGATTCTATCAAAAAA-GTTGGAAAGAAAAGCTTT
318 TCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTT
* * * * *
596753 TCTTA-TGACACCAAAGCATAAATGTCACGTATCCTAATGAAGGGAATGTGTTTTTGGTTC-CTA
383 TC-TAGCGACACCAAAGCATCAATGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCAC-A
*
596816 ATCATTGAAAAGCTTGGAGACTATTACAAG
446 ATCTTTGAAAAGCTTGGAGACTATT--AAG
* *
596846 AATCGATGCTTGTCCTATTTAAAGGATGAACTTTGATTTTAAGGAAAATGGGGCAAAGAAAAGAT
1 -ATCGATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAT
* *
596911 TTCCATGGAAAAGAAAATCATCATTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTA
65 TTCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTA
* * *
596976 ATCACAAAATGAATGAAGATCATTACTGGAATCCATGTTTGTCTCATTTGAGGATCAAATTTTA-
130 ATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGA-CGAA-CTTAG
* * * * *
597040 ACATTACAAAAATTTGTGGGAAAAAGCCTTTCTGGTGAAACCAAAGCATCAATATCGTGTATCTT
193 ACTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCT
* * *
597105 TATGAGAAAACAATGTTTATGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTCATG
258 TATAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTCATG
* * *
597170 TTTGTCTTATTTAAGAAACAAACTTTGATTCTA-CAAAAAAACATTGCAAAGAAAAACTTTTCTA
323 TTTGTCTTATTTAAGAGACAAACTTTGATTCTATC-AAAAAACATTGGAAAGAAAAGCTTTTCTA
* * ** *
597234 GCAACACCAAAGCATTAATGTTGTGCATCCTAATGAAGGAAATATGTTTTTGGTTCACAATCTTT
387 GCGACACCAAAGCATCAATGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCACAATCTTT
* * *
597299 GAAATGCTTGGCGACTATTATG
452 GAAAAGCTTGGAGACTATTAAG
* * *
597321 -TCGATGCTTGTCCTATTTAAAGGATGAACTTCGATTTTAAGGAAAATGGGGCAAAGAAAAGATT
1 ATCGATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATT
* * ** * * *
597385 TTCGTGGGAAAGAAAATCATCAGTATCATTTATCCTAATAAAGAGAATGTGTTTATAGTGCCCAA
66 TCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAA
* * ** *
597450 TCACAAAATGAATGAAGATCGTTACTGGAATTTATGTTTGTCAT-ATTTGAGGATCGAATTTAGA
131 TCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTC-TCATTTGAGGA-CGAACTTAGA
* * * * **
597514 CATTACAAAAATTTGTGGGAAAAAGCCTTTCTGGTGATACCAAAGCATCAATATCATGTAAGC-T
194 CTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTT
* * * * ** *** * * *
597578 ATTGAGAAGACTATGTTTATGGTGCCTTATCCTGAAGGGAAAAAGGATTAGTATAAGTATTCACG
259 A-TAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTCATG
* * * *
597643 TTTGTCTCATTTAAGACACAAACTTTGATTCTATC-AAAAACATTGGAAAGAAAAGCATTTCTTG
323 TTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTTCTAG
** ** *
597707 CGAC-CCCGAGCATCAATGTCATTTATCCTAATGAA-AAGAATGTGTTTTTGGTTTC-CAATC-T
388 CGACACCAAAGCATCAATGTCATGCATCCTAATGAAGGA-AATGTGTTTTTGG-TTCACAATCTT
* *
597768 TGAAAAGATTGGAGACTTTTATGAG
451 TGAAAAGCTTGGAGACTATTA--AG
* * * * *
597793 AATCGATCCTTGCCTTATTT-AAGCGATGAACATTGATTTTAAGGAAAATAAGGTAAAGAAAAGA
1 -ATCGATGCTTGTCTTATTTAAAG-GATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGA
** * * *
597857 TTTCTGTGCAAAAGAAAATCAAT-AGTGTCA-TTATCCTAATGAGGAAAATGTATTTATAGTGCC
64 TTTCCATGCAAAAGAAAATC-ATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCC
* * * * * * *
597920 TAATC-CCAAATGAATGAAGAGCTTTACTAGAATTCATGTTTGGCTCATTTGACGCACAAACTTA
128 TAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGA-GGACGAACTTA
* * * * * * *
597984 AACTTTATAAAAATTGGGGGGAAGAAAGCCTTACTT-TCAAAACCAGAGCATCAATATCGTGTAT
192 GACTTTACAAAAATTGGTGGGAA-AAAGCCTTTCTTGT-GAAACCAAAGCATCAATATCATGTAT
* * * *
598048 CCTTATAAGAAAACTATGTTTGTGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGGGTACTC
255 CCTTATAAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTC
* * ** ** *
598113 ATATTTATCTTATTTAAGAGACAAACTTTGATTCTAT-AAAAAAGGTTACAAAGAAAAGCTTCTC
320 ATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTTC
* * * ** *
598177 TTGCAACCCCAAAGCATCAATGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCATGATCA
385 TAGCGACACCAAAGCATCAATGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCACAATCT
598242 TTGAAAAGCTTGGAGACTATTACAAG
450 TTGAAAAGCTTGGAGACTATT--AAG
* * * * * * *
598268 AATTGATGCCTATCTTATTTAAAGGATGCACTTTGATTTTAAGGAAAACAGAGTAAAGAAAAGAT
1 -ATCGATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGAT
* * * * *
598333 TTCCATGCAAAAGAAAATCCTCAATATCTTTTATCCTAATGAGGAGAAGGTGTTTATAGTGCCCA
65 TTCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTA
* * * * * *
598398 ATCACAAAATGAATGAAGATCACTACTGGAATCCATGTTTATCTTATTTGAGAATTGAACTTAGA
130 ATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGA-CGAACTTAGA
* * * * *
598463 CATTACAAAAATTTGTGGGAAAAAGCCTTTCTCGTGAAACCAAAGTA-AAATTATCATGTATCCT
194 CTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAA-TATCATGTATCCT
* * * * * *
598527 AACAAGAAGACTATG-TT-TGCAGTGCCTAA-CCTTGAAAAGAATAGGGATTAGTATGAGTGTTC
258 TATAAGAAGACTATGTTTATG-A-TGCCTAATCC-TAAAAAGAATTGGGGTTAGTATGAGTATTC
* * *
598589 ATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATC-AAAAACGTTAGAAAGAAAAGCTTTTC
320 ATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTTC
** * * * * *
598653 TTA-CGACACCATGGCATTAATGCCACGCATCCAAATGAAGGGAAA-GTGTTTTTGGTTCCCAAT
385 -TAGCGACACCAAAGCATCAATGTCATGCATCCTAATGAA-GGAAATGTGTTTTTGGTTCACAAT
* ** *
598716 C-TTAAAAAGAATGGAGACTGTTATGAG
448 CTTTGAAAAGCTTGGAGACTATTA--AG
* *
598743 AATTGATGCTTCTCTTA-TTAAAGGGATGAACTTTGATTTTAAGGAAAATAG
1 -ATCGATGCTTGTCTTATTTAAA-GGATGAACTTTGATTTTAAGGAAAATAG
598794 AGCTGTTAGG
Statistics
Matches: 2797, Mismatches: 476, Indels: 193
0.81 0.14 0.06
Matches are distributed among these distances:
465 2 0.00
466 120 0.04
467 60 0.02
468 200 0.07
469 5 0.00
470 19 0.01
471 44 0.02
472 172 0.06
473 559 0.20
474 368 0.13
475 380 0.14
476 440 0.16
477 307 0.11
478 121 0.04
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (473 bp):
ATCGATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATT
TCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAA
TCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGACGAACTTAGACT
TTACAAAAATTGGTGGGAAAAAGCCTTTCTTGTGAAACCAAAGCATCAATATCATGTATCCTTAT
AAGAAGACTATGTTTATGATGCCTAATCCTAAAAAGAATTGGGGTTAGTATGAGTATTCATGTTT
GTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAACATTGGAAAGAAAAGCTTTTCTAGCGA
CACCAAAGCATCAATGTCATGCATCCTAATGAAGGAAATGTGTTTTTGGTTCACAATCTTTGAAA
AGCTTGGAGACTATTAAG
Found at i:607044 original size:476 final size:474
Alignment explanation
Indices: 605518--609447 Score: 3958
Period size: 476 Copynumber: 8.4 Consensus size: 474
605508 TTTTTCACTT
* * *
605518 CAAACATGTATTCTAGTAATGATCTTTATTCATTTTGTGATTAGGCACTAT-AACCCATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* * ** * ** * *
605582 CGTTAGAATAAATGATATTTTTAATTTTCTATTATACGAAAATCTTTTCTTTGCCCTATTTTCCT
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * ** * * **
605647 AAAAACCAAAGCTT-ATCCCTTAAATAAGATGAGCATCAATTCTCGTAGCAGTCTCCAAGCTTTT
131 TAAAATCAAAG-TTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTT
* * * * * *
605711 CAAAGATAGTGAACC-TAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTTTTG
195 C-AAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTCG
* * * * * * *
605775 C-A-AAAAGATTTTTTTTTGCAAAGTTTTTGATAAAATCGAAGTTTGTCTCTTAAGTAAGACAAA
259 CAAGAAAAG-TTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAA
* **
605838 CA-TAA-A-T-A-A-T--CCCCATTGTTTTTAGGATTAGGCACCATAAAC--AGTCTTCTCATTA
323 CATTAATACTCATACTAATCCCATTCATTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTA
* * * * *
605893 GGATACATTATATTGATGCTTTGGATTCTCA-AGAAAGGCTTTTTTCCGACCAATTTTTGTGAAG
388 GGATACATGATATTGATGCTTTGG-TT-TAACAGAAAGGCTTTTTTCCCACAAATTTTTGTAAAG
605957 TCTAAGTTCATGCCTCAAATGAGC
451 TCTAAGTTCATGCCTCAAATGAGC
* * * * * *
605981 CAAACATGGATTCTAGTAACGTTCTTCATTTATTTTGTAATTAAGCACTATAAACACATTTTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* * *
606046 CATTAGAATAAATGATATTGGCAA-TTT-TTTTGCATGGAAATCTTTTCTTTGCCCTATTTTTCT
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * * * *
606109 TAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTCTATTTTTTTC
131 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
* * * *
606174 AAGATTGGGAACCAAAAACACATTCCCTTCGTTGGGATACATGACATTGATGCTTTGGTGTCTCA
196 AAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTCGCA
* * * *
606239 AGAAAAGCTTTTCTTTCCAACTTTTTTGATAGAATCAAAGTTTATCTTTTAAATAAGATAAACAT
261 AGAAAAGTTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACAT
* * * * * * *
606304 TAATACACATACTAATCCCCATTCTTTTTAGGATAAGGCACCGTAAACATAGTCTTCTTATTCGA
326 TAATACTCATACTAAT-CCCATTCATTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGG
* ** *
606369 ATACATGATATCGATGCTTTGGTTTTAGTAAAAAGG-TTTTTTCCCACAAATTTTTGTAAAGTCT
390 ATACATGATATTGATGCTTTGG-TTTAACAGAAAGGCTTTTTTCCCACAAATTTTTGTAAAGTCT
* *
606433 AAGCTCGTGCCTCAAATGAGC
454 AAGTTCATGCCTCAAATGAGC
* * *
606454 CAAACATGGATTATAGTAACGATCTTCATTTATTTTGTGATTAGGCACTATAAACACATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* *
606519 CATTAGGATAAATGATATTGGCAATTTT-TTTTGGCATGGAAATCTTTTCTTCGCCCTATTTTCC
66 CATTAGGATAAATGATATTGGTAATTTTCTTTT-GCATGGAAATCTTTTCTTTGCCCTATTTTCC
* * *
606583 TTAAAATCAAAGTTCATCCCCTAAATAAGACAAGCATTGATTCTCGTAACAGTCTCTATTCTTTT
130 TTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTT
* * *
606648 CAAGATTGGGAACCAAAAACACGTTCCCTTCGTTAGGATACATGACATTGATGCTTCAGTGTCGC
195 CAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTCGC
* *
606713 AGGAAAAGTTTTTCTTTCCAACTTTTTTGATAGAATCAAAGTTTATCT-TATAAATAAGACAAAC
260 AAGAAAAGTTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTATCTCT-TAAATAAGACAAAC
* * *
606777 ATTAATACTCATACTAATCCCTATTCATCTTTATGATAAGGCACCGTAAACATAGTCTTCTCATT
324 ATTAATACTCATACTAATCCC-ATTCAT-TTTAGGATTAGGCACCATAAACATAGTCTTCTCATT
* *
606842 AGAATACATGATATTGATTCTTTGGTTTAACTAGAAAGG-TTTTTTCCCACAAATTTTTGTAAAG
387 AGGATACATGATATTGATGCTTTGGTTTAAC-AGAAAGGCTTTTTTCCCACAAATTTTTGTAAAG
* *
606906 TCTAAGCTCATGCCTCAAATCAGC
451 TCTAAGTTCATGCCTCAAATGAGC
* * * *
606930 CAAACATGGATTCTAGCAATGATCTTCATTTATTTTGTGATTAGGCGCTATAAACATATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
*
606995 CATTAGGATAAATGATATTGGCAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * *
607060 TAAAATCTAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTTACAGTCTCTATTCTTTTC
131 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
* * * * * * * *
607125 GAGATTGGGAACCAAAAACACATTCCCTTCGTTAGGATACACGATATTAATGCTTTGGTATTGCA
196 AAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTCGCA
* * * * *
607190 AGAAAAGCTTTTATTTCCAACTTTTTTGATAGAATCAACA-TTTATCTTTTAAATAAGATAAACA
261 AGAAAAGTTTTTCTTTCCAACGTTTTTGATAGAATCAA-AGTTTATCTCTTAAATAAGACAAACA
* * * * *
607254 TTAATACTCATACTAATCCCCATTC-TTTTCAAGATAAGACATCATAAACATAGTCTTCTCGTTA
325 TTAATACTCATACTAAT-CCCATTCATTTT-AGGATTAGGCACCATAAACATAGTCTTCTCATTA
* * * *
607318 GAATACATGATATTGATGCTTTGGTTTCACTATAAAGGCTTTTTTCCCATAAATTTTTGTAAAGT
388 GGATACATGATATTGATGCTTTGGTTTAAC-AGAAAGGCTTTTTTCCCACAAATTTTTGTAAAGT
* **
607383 CTAAGTTCATGCCACAAATGTTC
452 CTAAGTTCATGCCTCAAATGAGC
* * * *
607406 CAAACATAGATTCTAGTAATGATCTAT-ATTCATTTTCTGATTAGTCA-TGATAAATACATTCTC
1 CAAACATGGATTCTAGTAATGATCT-TCATTCATTTTGTGATTAGGCACT-ATAAACACATTCTC
* * * * *
607469 CTCATTAGGATAAATGGTAATGATAATTTCCTTTTGCATGGAAATCTTTTTTTTGCCCTATTTTC
64 CTCATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTC
* * * * * *
607534 CTTGAAATCAAAGTTCATCCGTTAAATAAGATAAGTATCGATTCTCGAAACTA-TCTTCATTCTT
129 CTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAAC-AGTCTCCATTCTT
* * * * * * * * * *
607598 TTCAAGATTAGGAACCGAAAACAGATTCCCTTCATTAGGAGACAAGGCTTTGGTGCCTTAGGGTC
193 TTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTC
* ** * * *
607663 GCAAG-AAA-TTTTT-TTATACGGCAGTTTTTGATAGAATAAAAGTTTGTCTTTTAAATAACG-C
258 GCAAGAAAAGTTTTTCTT-TCCAAC-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAA-GAC
* * * * **** *
607724 AAACATTAATAGTCATATTAATCCTCATTCATTTCAGGATTAGGCACCGTAGGTGTATTCTTCTC
320 AAACATTAATACTCATACTAATCC-CATTCATTTTAGGATTAGGCACCATAAACATAGTCTTCTC
* * * * * *
607789 ATAAGGAGACACGATATTGAAGCTTTGGTTTCGAA-AGAAAAGCTTTTTTCTCACAAATTTTTGT
384 ATTAGGATACATGATATTGATGCTTTGGTTT--AACAGAAAGGCTTTTTTCCCACAAATTTTTGT
* * **
607853 AAAGTTTAAGTTCGTGCCAAAAAT-ATGC
447 AAAGTCTAAGTTCATGCCTCAAATGA-GC
* * * * * *
607881 CAAACGTAGATTATAGTAATGATCTTTATTCATTTTCTGATTAGGCACGATAAACACATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* * * * * * *
607946 CATTAAGATAAATGATAATGATAATTTCCTTTTGCATTGAAATGTTTTCTTTACCCTATTTTCCT
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * * * *
608011 TGAAATCAAAGTTCATCCCTTAAATAAGATAAGCATCGATTCTCGGAACAATCTCCATTGTTTTC
131 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
* * * * * * *
608076 AAGATAGGGAACCAAAACCAGATTCCCTTCATTAGAAGACAGGACATTGGTGCTTTAAG-GTCGC
196 AAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTT-AGTGTCGC
* * * * *
608140 AAG-AAA-TTCTTTCATTT-C-ACAGTTTTCGATAGAATAAAAGTTTGTCTCTCAAATAAGGCAA
260 AAGAAAAGTT-TTTC-TTTCCAAC-GTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAA
* * * * *
608201 ATATTAATAGC-CATACT-A-CCACATTCATTTCAAGATTAGGC-CCTAAAAACGTAGTCTTCTC
322 ACATTAATA-CTCATACTAATCC-CATTCATTTTAGGATTAGGCACC-ATAAACATAGTCTTCTC
* * * *
608262 ATAAGGATACACGATATTGATGCTTTGGTTTCGAA-AGAAAGGCTTTCTTCCC-CTTAATTTTTG
384 ATTAGGATACATGATATTGATGCTTTGGTTT--AACAGAAAGGCTTTTTTCCCAC-AAATTTTTG
* * * *
608325 TAATGTCTAAATTCGTGTCTCAAATGAGC
446 TAAAGTCTAAGTTCATGCCTCAAATGAGC
* *
608354 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTGGGCACTATAAACACCTTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* * * * * * * *
608419 CATTAGGATGAATGATAATGATAATTTCCTTTTACATGAAAATCTTTTCTTTGTCCAATTTTCCT
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * * *
608484 TAAAATCAAAGTTCATCCCTTAAATAAGATAAGCATTGATTCTCGAAACAGTCTCCATTTTTTTC
131 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
* * * * * * * * * * *
608549 AAGATAGGGAACCAAAACCAGATTCTCTTCATTAGGAGATAAGACATTGGTGCTTCAGGGTCACA
196 AAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTCGCA
* * * ** * *
608614 A-AAAATTCTTTTCATTT-CATA-GTTTTCGATAGAATAAAAGTTTGGCTCTTAGATAAGGCAAA
261 AGAAAAGT-TTTTC-TTTCCA-ACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAA
* * * * * * *
608676 CATTAATAGC-CGTACTAATCCACATTCATTTCAAGATTAGGCCCCAAAAACGTAGTCTTCACAT
323 CATTAATA-CTCATACTAATCC-CATTCATTTTAGGATTAGGCACCATAAACATAGTCTTCTCAT
* * * *
608740 AAGGATACACGATATTGATGCTTTGGTTTCGAA-AGAAAGGCTTTCTTCTCC-CTAATTTTTGTA
386 TAGGATACATGATATTGATGCTTTGGTTT--AACAGAAAGGCTTTTTTC-CCACAAATTTTTGTA
* * * * **
608803 AATTCTAAGTTCGTGTCGCAAATGAAA
448 AAGTCTAAGTTCATGCCTCAAATGAGC
* * *
608830 CAAACATGGATTCTAGTAATGATCTTTATTCATTTTATGATTAGGCACTATAAACCCATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* ** * * * *
608895 CGTTAGGATAAATGATATTTTTTATTTCCTTTTGCA-CGAAA--------AT---C--TTTT-C-
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * * ** *
608944 T----TC---G-----CCCTTAAATAAAACAAGCATCGATTCTCATAGCAGTCTCCAAGCTTTAC
131 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
* * *
608997 AA-AGTTAGTGAACCAAAAACACATTCCCTTCTTTAGCG-TACATGACATTGATGCTTTGGTGTC
196 AAGA-TT-GGGAACCAAAAACACATTCCCTTCATTAG-GATACATGACATTGATGCTTTAGTGTC
* * * * * * *
609060 AC-A-AAAAGCTTTTATTTGCAACGTTTTTGATACAATCAAAGTTTATCTCTAAAATAAGAGAAA
258 GCAAGAAAAGTTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAA
* * ** * *
609123 C-TTGAATAGTTATACTAATTCCCATTGTTTTTAGGATTAGGTACCATAAACATAGTCCTCTCAT
323 CATT-AATACTCATACTAA-TCCCATTCATTTTAGGATTAGGCACCATAAACATAGTCTTCTCAT
* ** * *
609187 TAGGATACATGATATTGATGCTTTGGATTCGCAAGAAAGGCTTTTTTCCAACTAATTTTTGTAAA
386 TAGGATACATGATATTGATGCTTTGGTTTAAC-AGAAAGGCTTTTTTCCCACAAATTTTTGTAAA
* *
609252 GTCTAAATTCATGCTTCAAATGAGC
450 GTCTAAGTTCATGCCTCAAATGAGC
* * *
609277 CAAACATGGATTCTAGTAACGATCTTCTTTTATTTTGTGATTAGGCACTATAAACACATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
* * *
609342 CATTAGGATAAATGCTATTGGCAATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCT
66 CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * *
609407 TAATATGAAAGTTCATCCCTTAAATAAGACAAGCGTCGATT
131 TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATT
609448 TTTGTAACTG
Statistics
Matches: 2959, Mismatches: 406, Indels: 192
0.83 0.11 0.05
Matches are distributed among these distances:
446 7 0.00
447 241 0.08
448 53 0.02
449 44 0.01
450 1 0.00
453 1 0.00
456 3 0.00
459 1 0.00
460 1 0.00
461 18 0.01
462 129 0.04
463 95 0.03
464 40 0.01
465 1 0.00
467 3 0.00
468 1 0.00
469 1 0.00
470 1 0.00
472 33 0.01
473 471 0.16
474 131 0.04
475 761 0.26
476 902 0.30
477 18 0.01
478 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (474 bp):
CAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCT
CATTAGGATAAATGATATTGGTAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCATTCTTTTC
AAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGTGTCGCA
AGAAAAGTTTTTCTTTCCAACGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAACAT
TAATACTCATACTAATCCCATTCATTTTAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
TACATGATATTGATGCTTTGGTTTAACAGAAAGGCTTTTTTCCCACAAATTTTTGTAAAGTCTAA
GTTCATGCCTCAAATGAGC
Found at i:609856 original size:20 final size:20
Alignment explanation
Indices: 609830--609882 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
609820 GTAGCCAAAC
* *
609830 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
609849 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
609870 TTGTATCGATACA
1 TTGTATCGATACA
609883 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:616061 original size:13 final size:13
Alignment explanation
Indices: 616043--616081 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
616033 ATATTTTTCT
616043 TTGTATCGATACA
1 TTGTATCGATACA
616056 TTGTATCGATACA
1 TTGTATCGATACA
* *
616069 CTGTATCGGTACA
1 TTGTATCGATACA
616082 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:616246 original size:20 final size:20
Alignment explanation
Indices: 616203--616248 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
616193 AAATCTTTTG
616203 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
616224 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
616244 CAAAA
1 CAAAA
616249 CCAACATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:618583 original size:20 final size:21
Alignment explanation
Indices: 618560--618614 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
618550 ACAATTCAAA
* *
618560 GTATCGATACATGTTACA-AT
1 GTATCGATACATGTAAAATAT
**
618580 GTATCGATACATCAAAAATAT
1 GTATCGATACATGTAAAATAT
618601 GTATCGATACATGT
1 GTATCGATACATGT
618615 CATTGGGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTAAAATAT
Found at i:620553 original size:240 final size:242
Alignment explanation
Indices: 620111--620556 Score: 623
Period size: 240 Copynumber: 1.9 Consensus size: 242
620101 CCCAAAAATG
* * * * *
620111 TAGTTTTCTCATAAGGATATACGATATTGATGCTTTGGTTTCGAAAGAAAAGGCTTTCTTCCCCC
1 TAGTTTTCTCATAAGAATACAAGATATTGATGCTTTGGTTTCGAAAGAAAAGGCTTTCTTCCACA
* * * * *
620176 TAATTTTTGTAAAGTCTGAGTTCGTGCCTCAAATGAGACAAACATGGATTCTCGTAATGATCTTT
66 TAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATAAGACAAACATAGATTCTAGTAATGATCTTC
* * * * ** *
620241 ATTCATTTTGTGATTAGGCACTATAAATCCATTCTCCTCGTTTGGATAAATGATATTTTTTATTT
131 ATTCATTTTCTGATTAGGCACTATAAATCCATTCTCCTCATTAGGATAAATGATAATGATAATTT
*
620306 TCTTTTGCATGAATCCTTATTCTTTTTAGGATAAAGCACTGTAAACA
196 CCTTTTGCATGAATCCTTATTCTTTTTAGGATAAAGCACTGTAAACA
* * *
620353 TAGTTTTCTCATTAGAATACAAGGTATTGATGCTTTGGTTTC-AGTAG-AAAGGCTTT-TTCCTA
1 TAGTTTTCTCATAAGAATACAAGATATTGATGCTTTGGTTTCGA-AAGAAAAGGCTTTCTTCC-A
*
620415 CAT-ATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATAAGCCAAACATAGATTCTAGTAATGATCT
64 CATAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATAAGACAAACATAGATTCTAGTAATGATCT
*
620479 TCATTCATTTTCTGATTAGGCACTATAAA-CACATTCTTCTCATTAGGATAAATGATAATGATAA
129 TCATTCATTTTCTGATTAGGCACTATAAATC-CATTCTCCTCATTAGGATAAATGATAATGATAA
620543 TTTCCTTTTGCATG
193 TTTCCTTTTGCATG
620557 GAAATCTTTT
Statistics
Matches: 178, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
239 1 0.01
240 126 0.71
241 12 0.07
242 39 0.22
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (242 bp):
TAGTTTTCTCATAAGAATACAAGATATTGATGCTTTGGTTTCGAAAGAAAAGGCTTTCTTCCACA
TAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATAAGACAAACATAGATTCTAGTAATGATCTTC
ATTCATTTTCTGATTAGGCACTATAAATCCATTCTCCTCATTAGGATAAATGATAATGATAATTT
CCTTTTGCATGAATCCTTATTCTTTTTAGGATAAAGCACTGTAAACA
Found at i:621519 original size:33 final size:33
Alignment explanation
Indices: 621477--621541 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
621467 TTAGAAGCAA
*
621477 TGTATCGATACAAT-TCATCATGTATCGATACAC
1 TGTATCGATACAATGT-ACCATGTATCGATACAC
*
621510 TGTATCGATATAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
621542 GACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAC
Found at i:621615 original size:19 final size:19
Alignment explanation
Indices: 621571--621626 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
621561 CTGCCAGTTT
**
621571 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
621591 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
621610 CATGTATCAATACAATG
1 CATGTATCGATACAATG
621627 TATTGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:621649 original size:20 final size:20
Alignment explanation
Indices: 621624--621689 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
621614 TATCAATACA
*
621624 ATGTATTGATACAAAGCATG
1 ATGTATCGATACAAAGCATG
621644 ATGTATCGAT----A-CA--
1 ATGTATCGATACAAAGCATG
*
621657 ATGTATTGATACAAAGCATG
1 ATGTATCGATACAAAGCATG
621677 ATGTATCGATACA
1 ATGTATCGATACA
621690 TCTGGGTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 9 0.25
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
20 21 0.58
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAAAGCATG
Found at i:621656 original size:33 final size:33
Alignment explanation
Indices: 621611--621689 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
621601 TACAATGAAC
*
621611 ATGTATCAATACAATGTATTGATACAAAGCATG
1 ATGTATCGATACAATGTATTGATACAAAGCATG
621644 ATGTATCGATACAATGTATTGATACAAAGCATG
1 ATGTATCGATACAATGTATTGATACAAAGCATG
621677 ATGTATCGATACA
1 ATGTATCGATACA
621690 TCTGGGTGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAATGTATTGATACAAAGCATG
Found at i:623957 original size:20 final size:21
Alignment explanation
Indices: 623932--623971 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
623922 TTTGTTGGTG
*
623932 ATTTTGATG-AAAAATGAAGT
1 ATTTTGAAGTAAAAATGAAGT
623952 ATTTTGAAGTAAAAATGAAG
1 ATTTTGAAGTAAAAATGAAG
623972 AAATTTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTAAAAATGAAGT
Found at i:630310 original size:13 final size:13
Alignment explanation
Indices: 630268--630321 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
630258 GCCATTAGAA
630268 ACAATGTATCGAT
1 ACAATGTATCGAT
630281 ACAA--T-TC-AT
1 ACAATGTATCGAT
630290 -C-ATGTATCGAT
1 ACAATGTATCGAT
*
630301 ACATTGTATCGAT
1 ACAATGTATCGAT
630314 ACAATGTA
1 ACAATGTA
630322 CCATGTATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:630314 original size:33 final size:33
Alignment explanation
Indices: 630272--630336 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
630262 TTAGAAACAA
*
630272 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
630305 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
630337 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:630428 original size:32 final size:32
Alignment explanation
Indices: 630387--630483 Score: 131
Period size: 32 Copynumber: 3.0 Consensus size: 32
630377 ACATTTGTCC
* * *
630387 ATGTATCGATATAATGAACTTGTATTGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
630419 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
* **
630451 ATGTATCGATACAAAGCATGATGTATCGATACA
1 ATGTATCGATACAATG-AACATGTATCGATACA
630484 TTTGGGTGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 44 0.76
33 14 0.24
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:630429 original size:13 final size:13
Alignment explanation
Indices: 630407--630464 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
630397 ATAATGAACT
*
630407 TGTATTGATACAA
1 TGTATCGATACAA
630420 TGTATCGATAC-A
1 TGTATCGATACAA
630432 ---AT-GA-AC-A
1 TGTATCGATACAA
630439 TGTATCGATACAA
1 TGTATCGATACAA
630452 TGTATCGATACAA
1 TGTATCGATACAA
630465 AGCATGATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 24 0.63
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:630443 original size:19 final size:19
Alignment explanation
Indices: 630366--630453 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 19
630356 CTGCCAGTTT
* **
630366 CATGTATCGATACATTTGTC
1 CATGTATCGATACA-ATGAA
*
630386 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
* *
630405 CTTGTATTGATAC-----A
1 CATGTATCGATACAATGAA
630419 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
630437 CATGTATCGATACAATG
1 CATGTATCGATACAATG
630454 TATCGATACA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
18 1 0.02
19 28 0.53
20 13 0.25
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:632615 original size:453 final size:460
Alignment explanation
Indices: 631592--632963 Score: 1412
Period size: 453 Copynumber: 2.9 Consensus size: 460
631582 ATCCCTAGTA
* * * *
631592 TTTGGTTTCGTAAGAAA-GCATTT-TTCCTACC-AACTTTTGTAAAGTCTAAGTTCATGCCTCAA
1 TTTGGATTCGAAAGAAAGGC-TTTCTTCC-ACCTAATTTTTGTAAAGTCTAAGTTCATGCATCAA
* ** * * * * * * *
631654 ATTAGAGAAACAAGGACTCTAGTAATGATCTTCATTCATTCTATGATTAGGCACTATAAACATAT
64 ATGAGCTAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGTACTATAAACAAAT
* * * * *
631719 TCTCCAC-ATTAGAATAAAAGATATTGATGATTTTCTTTACATAGAAATCATTTCTTTGCCCTAT
129 CCTCCTCGA-T---AT-ATAG-TA---ATGA--TTCTTTGCAT----ATCTTTTCTTTGCCCTAT
* * * * * *
631783 TTTCCTTAAAATCAATGTCTATGCCTTAAATAAGACAAGAATCGATTCTCGTAACAATCACAATT
179 TTTCCTTAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCACCATT
* * * * *
631848 CTTTTCAATATTGAGAACCAAAATCACATCCCCTTCATTAGGATAAACGACATTAATACTTTGAG
244 CTTTTCAAGATTG-GAACCAAAA-CACATCCCCTTCATTAGGATACACGACATTGATGCTTTGGG
* ** *
631913 GTCGCAGGAAACACTTTTCTTTCCACCA-TTTTTGATAGAATTAAAGTTTGTC-CTTTAAATAAG
307 GTCGCAAGAAATGCTTTTCTTTCCACCAGTTTTTGATAGAATCAAAGTTTGTCTC-TTAAATAAG
*
631976 ACAAACATGAATAGTCATACTTATCCT-ATTTCTTTTCAGGATTAGGCACTATAAACATAGTCTT
371 ACAAACATGAATAGTCATACTAATCCTCA-TTCTTTTCAGGATTAGGCACTATAAACATAGTCTT
632040 CTCATAAGGATACACGATATTGATGC
435 CTCATAAGGATACACGATATTGATGC
* * * * * *
632066 TTTGGTTTTGAAAGAAAGGCTTTCTTCCCCCTAATTTTTGTGAAGTCTAAGTTCATGCCTTAAAT
1 TTTGGATTCGAAAGAAAGGCTTTCTTCCACCTAATTTTTGTAAAGTCTAAGTTCATGCATCAAAT
* * *
632131 GAGCTAAAGGTTGATTCTAGTAATGATCTTCATTTATTTTGTGATTAGG-ACTATAAACACAAT-
66 GAGCTAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGTACTATAAACA-AATC
*
632194 CTCCATC-AT-T-TAGTAATGA-TC-TT-CAT-T-TTTTCTTTGCCCTATTTTCCTTAAAATAAA
130 CTCC-TCGATATATAGTAATGATTCTTTGCATATCTTTTCTTTGCCCTATTTTCCTTAAAATCAA
* * * * * * *
632251 AGTTTATCCCTTACGA-AAGACAAGCCTCGATTCTCATAACTGCCACCATTTTTTTCGAGATTAG
194 AGTTTATCCCTTA-AATAAGACAAGCATCGATTCTCGTAACAGTCACCATTCTTTTCAAGATT-G
* *
632315 GAACCAGAAACACATTCCCTTCATTCA-GATACAGGACATTGATGCTTTGGGGTCGCAAGAAATG
257 GAACCA-AAACACATCCCCTTCATT-AGGATACACGACATTGATGCTTTGGGGTCGCAAGAAATG
* *
632379 CTTTTCTTTCCA-CAGTTTTTGATCGAATCAAAGTTTGTCTCTTAAATAAGACAAACATAAATAG
320 CTTTTCTTTCCACCAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAG
* * * *
632443 TCATACTAATCCTCATTCTTTTCAGGATTAGGCACCATAAATATAGTCTTCTCATTAGGATACAT
385 TCATACTAATCCTCATTCTTTTCAGGATTAGGCACTATAAACATAGTCTTCTCATAAGGATACAC
632508 GATATTGATGC
450 GATATTGATGC
* **
632519 TTTGGATTCGCAAGAAAGGCTTT-TATCTCACC-AATTTTT-TAAAAGTCTAAGTTTGTGCATCA
1 TTTGGATTCGAAAGAAAGGCTTTCT-TC-CACCTAATTTTTGT-AAAGTCTAAGTTCATGCATCA
* *
632581 AATGTGAC-AAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGTACTATAAACAT
63 AATGAG-CTAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGTACTATAAACAA
*
632645 ATCCTCCTCGTTAGGATAAATGATATTAATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCT
127 ATCCTCCTC-----GAT--AT-ATAGTAATGA--TTC-TTTGCAT----ATCTTTTCTTTGCCCT
* * *
632710 ATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACCGTCTCCA
177 ATTTTCCTTAAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCACCA
* * *
632775 TTCTTTTCAAGATTGGGAACCAAAAACACATCCCCTTTATTAGGATACATGACATTGATGCTTCG
242 TTCTTTTCAAGATT-GGAACC-AAAACACATCCCCTTCATTAGGATACACGACATTGATGCTTTG
* * *
632840 GGGTCGCAAGAAATGCTTTTCTTTCAATC-GTTTTTTATAGAATCAAAGTTTG-CTCTTAAATAA
305 GGGTCGCAAGAAATGCTTTTCTTTCCACCAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * *
632903 GACAAACATGAATACTCATACTAAT-CTCCATTCTTTTTAGGATTAGGCACTATAATCATAG
370 GACAAACATGAATAGTCATACTAATCCT-CATTCTTTTCAGGATTAGGCACTATAAACATAG
632964 GGTTTAGTAT
Statistics
Matches: 760, Mismatches: 92, Indels: 91
0.81 0.10 0.10
Matches are distributed among these distances:
452 4 0.01
453 343 0.45
454 27 0.04
459 5 0.01
460 2 0.00
461 2 0.00
462 1 0.00
464 12 0.02
467 4 0.01
468 2 0.00
469 2 0.00
470 4 0.01
474 37 0.05
475 144 0.19
476 169 0.22
477 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (460 bp):
TTTGGATTCGAAAGAAAGGCTTTCTTCCACCTAATTTTTGTAAAGTCTAAGTTCATGCATCAAAT
GAGCTAAAGATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGTACTATAAACAAATCC
TCCTCGATATATAGTAATGATTCTTTGCATATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAG
TTTATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCACCATTCTTTTCAAGATTGGAAC
CAAAACACATCCCCTTCATTAGGATACACGACATTGATGCTTTGGGGTCGCAAGAAATGCTTTTC
TTTCCACCAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATAC
TAATCCTCATTCTTTTCAGGATTAGGCACTATAAACATAGTCTTCTCATAAGGATACACGATATT
GATGC
Found at i:633954 original size:34 final size:35
Alignment explanation
Indices: 633916--633982 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
633906 CCTTACAACA
633916 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
633950 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
633983 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:634459 original size:13 final size:13
Alignment explanation
Indices: 634441--634466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
634431 CAATTTTTTG
634441 TGTATCGATACAT
1 TGTATCGATACAT
634454 TGTATCGATACAT
1 TGTATCGATACAT
634467 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:634481 original size:32 final size:33
Alignment explanation
Indices: 634421--634484 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
634411 TACAAGCCAA
** *
634421 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
634454 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
634485 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:635229 original size:12 final size:12
Alignment explanation
Indices: 635212--635237 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
635202 TAATTCACAC
635212 ATATCAAAATTT
1 ATATCAAAATTT
635224 ATATCAAAATTT
1 ATATCAAAATTT
635236 AT
1 AT
635238 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:636414 original size:13 final size:13
Alignment explanation
Indices: 636396--636420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
636386 ACTGAAGCAA
636396 TGTATCGATACAT
1 TGTATCGATACAT
636409 TGTATCGATACA
1 TGTATCGATACA
636421 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:639570 original size:34 final size:35
Alignment explanation
Indices: 639532--639598 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
639522 CCTTACAACA
639532 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
639566 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
639599 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:640075 original size:13 final size:13
Alignment explanation
Indices: 640057--640082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
640047 CAATTTTTTG
640057 TGTATCGATACAT
1 TGTATCGATACAT
640070 TGTATCGATACAT
1 TGTATCGATACAT
640083 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:640097 original size:32 final size:33
Alignment explanation
Indices: 640037--640100 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
640027 TACAAGCCAA
** *
640037 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
640070 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
640101 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:640992 original size:37 final size:37
Alignment explanation
Indices: 640932--641005 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
640922 AATGCTTGTC
* *
640932 TTATTTAAGGGAGGAACTATGATTTTAAGGAAAATAG
1 TTATTTAAGGGACGAACTATGATTTCAAGGAAAATAG
* * *
640969 TTATTTAGGGGACTAACTTTGATTTCAAGGAAAATAG
1 TTATTTAAGGGACGAACTATGATTTCAAGGAAAATAG
641006 GGTAAAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (37 bp):
TTATTTAAGGGACGAACTATGATTTCAAGGAAAATAG
Found at i:641915 original size:475 final size:474
Alignment explanation
Indices: 640969--643287 Score: 2529
Period size: 475 Copynumber: 4.9 Consensus size: 474
640959 AGGAAAATAG
* * * * *
640969 TTATTTAGGGGACT-AACTTTGATTTCAAGGAAAATAGGGTAAAGAAAAGGTTTCCATGCAAAAA
1 TTATTTAAGGGA-TGAACATTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAG
* * * * *
641033 AAAATCATCAATTTCTTTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCAAAAAATGGA
65 AAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATTACAAAATGAA
*
641098 TGAAGATCATTACTAGAATCCATGTTTGGTTTATTTGAGGCACGAACTTAGACTTTACAAAAATT
130 TGAAGATCATTACTAGAATCCATGTTTGGCTTATTTGAGGCACGAACTTAGACTTTACAAAAATT
* * *** * *
641163 GGTGA-GAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATTGCGTATCCTAAGGAGAAGACT
195 --TGAGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCAAATGAGAAGACT
* * * * * * *
641227 ATGCTTATGCTACCCAA-TCCAGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTT-T-TTAT
258 ATG-TTACGGTGCCTAATTCTA-AAAAGAATGGGGATTAGTATGACTATTAAT-TTTTGTCTTAT
** * * * * * * *
641289 TTAAGAGGCAAACTTTGAATCTGTCAAAAACGTTAGAAAGAAAAGC-TTGTTTTGTGACTCTAAA
320 TTAAGAAACAAACTTTGATTCTATCAAAAATGGTAGAAAGAAAAGCATT-TCTTGTGACACCAAA
* * * * *
641353 GCATTAATGTCATGTATCCTAAT-AAGGAAATGTGTTTTTGGTTCCCAATCTTTGAAAA-AATTG
384 GCATCAATCTCATGTATCCTAATAAAGGGAATATGTTTTTAGTTCCCAATC-TTGAAAAGAA-TG
* *
641416 GTGACTGTTACGAGAATCGATGCTTGTC
447 GAGACTATTACGAGAATCGATGCTTGTC
** * *
641444 TTATTTAAAAGATGAACATTGATTTTAAAGAAAATAGGGTAAAGAAAAGATTTCCGTGCAAAAGA
1 TTATTTAAGGGATGAACATTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAGA
* * * * *
641509 AAATCACCAATATCATTTATCCTAATGAGGAGAACGTGCTTATAGTGCTTAATTACAAAATAAAT
66 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATTACAAAATGAAT
* * *
641574 GAAGATCATTACTAGAATCCATCTTTGGCTTATTTGAGGTACGAACTTAAACTTTACAAAAATTT
131 GAAGATCATTACTAGAATCCATGTTTGGCTTATTTGAGGCACGAACTTAGACTTTACAAAAATTT
* * ** * *
641639 GAGGGAAAAAGCCTTTCTTGTGAAATCAAAGTGTCTATATCATGTATCCGAATGAGAAGACTATG
196 GAGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCAAATGAGAAGACTATG
* * *
641704 TTGACAGTGCCTAATTCTAAAAAGAATGGGGATTAGCATGACAATTAATTTTTGTCTTATTTAAG
261 TT-ACGGTGCCTAATTCTAAAAAGAATGGGGATTAGTATGACTATTAATTTTTGTCTTATTTAAG
* * * * * * *
641769 AAACAAATTTTGATTCTATCAAAAATGGTGGAAACAACAGCATTTCTTGCGACCCCAAAGCATTA
325 AAACAAACTTTGATTCTATCAAAAATGGTAGAAAGAAAAGCATTTCTTGTGACACCAAAGCATCA
* *
641834 ATCTCATGTATCCTAATGAAGGGAATATGTTTTTAGTTCCCAATCTTTAAAAGAATGGAGACTAT
390 ATCTCATGTATCCTAATAAAGGGAATATGTTTTTAGTTCCCAATCTTGAAAAGAATGGAGACTAT
* *
641899 TATGAGAATTGATGCTTGTC
455 TACGAGAATCGATGCTTGTC
* * *
641919 TTATTTAAGGGATGATCTTTGATTTTAAGGAAAATAGGGTCAAA-AAAAGATTTCCATGCAAGAG
1 TTATTTAAGGGATGAACATTGATTTTAAGGAAAATAGGGT-AAAGAAAAGATTTCCATGCAAAAG
** * * * *
641983 AAAATTGTCAATATCTTTTATCCTAAGGAGGAGAATGTATTTATAGTGCCTAATCACAAAATGAA
65 AAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATTACAAAATGAA
* * * *
642048 TGAAAATCATTACTAGAATCCATGTTTGGCTCAATTT-TGGCATGAACTTAGACTTTACAAAAAT
130 TGAAGATCATTACTAGAATCCATGTTTGGCT-TATTTGAGGCACGAACTTAGACTTTACAAAAAT
* * * * ** *
642112 TAGGGGGAAGAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTACCCTTATGAGAAGATT
194 TTGAGGGAA-AAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCAAATGAGAAGACT
* * * * *
642177 ATGTTTATGGTGCCTAA-TCTTAAAAAGAATAGGGATTAGTATGACTATT-CTTGTTTGTTTTTT
258 ATG-TTACGGTGCCTAATTC-TAAAAAGAATGGGGATTAGTATGACTATTAATT-TTTGTCTTAT
* * * * * **
642240 TTAAGAGAGACAAACGTTGATTCTATAAAAAACGGTAGAAAGAAAAGCTTTTTTTACGACACCAA
320 TTAAGA-A-ACAAACTTTGATTCTATCAAAAATGGTAGAAAGAAAAGCATTTCTTGTGACACCAA
* * * * * * * *
642305 AGCGTCAATGTCATGTATCTTAATGAAGGGAATGTGCTTTTAGTTCCGAATCTTGGAAAGAATGG
383 AGCATCAATCTCATGTATCCTAATAAAGGGAATATGTTTTTAGTTCCCAATCTTGAAAAGAATGG
* *
642370 AGGCTATTACGAGAATCGATACTTGTC
448 AGACTATTACGAGAATCGATGCTTGTC
* * * *
642397 TTATTTAAGGGACT-AACATTGATTTCAAGGAAAATAGGGGAAAGAAAAGGTTTCCAGGCAAAAG
1 TTATTTAAGGGA-TGAACATTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAG
** * * *
642461 AAAATTGTCAATAT-ATTTTATCCTAATGAGGAAAATGTTTTTATAGTGCCTAATTATAAAATGA
65 AAAATCATCAATATCA-TTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATTACAAAATGA
* * * *
642525 TTGAAGATCATTACTAGAATTCATGTTTGGCTTATTTGAGGTACGAACTTAGACATTACAAAAAT
129 ATGAAGATCATTACTAGAATCCATGTTTGGCTTATTTGAGGCACGAACTTAGACTTTACAAAAAT
* * * * * *
642590 TGGTGA-GAAAAAAACCTTTCTTGCAAAACCAAAGCATCAATATCGTTTATCCAAATGCGAAGAC
194 T--TGAGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCAAATGAGAAGA-
* * * * * * * *
642654 CT-TGCTTATGGTGCCCAATCCGAAAAAGAATGTGGATTAGTATGAGTATTCATATTTGTCTTAT
256 CTATG-TTACGGTGCCTAATTCTAAAAAGAATGGGGATTAGTATGACTATTAATTTTTGTCTTAT
* * * * * *
642718 TTAAGAGACAAACTTTGATTCTGTC-AAAATGTTAGAAAGAAAAGCCTTTCTTTTGACAACAAAG
320 TTAAGAAACAAACTTTGATTCTATCAAAAATGGTAGAAAGAAAAGCATTTCTTGTGACACCAAAG
* * * *
642782 CATCAATGC-CATGTATCCTAAAAAAGGAAATGA-GTTTTTGGTTCCCAATCTTGAAAAGATTGG
385 CATCAAT-CTCATGTATCCTAATAAAGGGAAT-ATGTTTTTAGTTCCCAATCTTGAAAAGAATGG
* ** * *
642845 TGACGGTTACGAGAATCAATGCTTGTT
448 AGACTATTACGAGAATCGATGCTTGTC
* * * * * * *
642872 TTATTTAAGGGATGAACTTTGATTTT-CGAGAAAATATGGCAAAGAAAATATTTCCATGTAAAAA
1 TTATTTAAGGGATGAACATTGATTTTAAG-GAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAG
* * * ** * *
642936 AAAATCACCAATATTATTTATCCTAATTAGGAGAACATGTTTATAGTGTCTAATTACAAAATAAA
65 AAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATTACAAAATGAA
* * *
643001 TGAAGATCATTATTAGAATCCATCTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT
130 TGAAGATCATTACTAGAATCCATGTTTGGCTTATTTGAGGCACGAACTTAGACTTTACAAAAATT
* * * ** *
643066 TAAGGGAAAAAGTCTTTCTTGTGAAACCAAAGTGTCAATATCATATATCCAAATGAGAAGACTAT
195 TGAGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCAAATGAGAAGACTAT
* * * * *
643131 GTTGACGGTGCCTAATCCTAAAAAAAATGGGGATTAGTATGACAATTAATGTTTGTCTTATTTAG
260 GTT-ACGGTGCCTAATTCTAAAAAGAATGGGGATTAGTATGACTATTAATTTTTGTCTTATTTAA
* *
643196 GAAACAAATTTTGATTCTATCAAAAATGGT-GAAAAGAAAAGCATTTCTTGTGACCCCAAAGCAT
324 GAAACAAACTTTGATTCTATCAAAAATGGTAG-AAAGAAAAGCATTTCTTGTGACACCAAAGCAT
* *
643260 CAATATCGTGTATCCTAATAAAGGGAAT
388 CAATCTCATGTATCCTAATAAAGGGAAT
643288 GTGTCTTATT
Statistics
Matches: 1535, Mismatches: 272, Indels: 74
0.82 0.14 0.04
Matches are distributed among these distances:
473 15 0.01
474 205 0.13
475 766 0.50
476 149 0.10
477 10 0.01
478 382 0.25
479 7 0.00
480 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (474 bp):
TTATTTAAGGGATGAACATTGATTTTAAGGAAAATAGGGTAAAGAAAAGATTTCCATGCAAAAGA
AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATTACAAAATGAAT
GAAGATCATTACTAGAATCCATGTTTGGCTTATTTGAGGCACGAACTTAGACTTTACAAAAATTT
GAGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCAAATGAGAAGACTATG
TTACGGTGCCTAATTCTAAAAAGAATGGGGATTAGTATGACTATTAATTTTTGTCTTATTTAAGA
AACAAACTTTGATTCTATCAAAAATGGTAGAAAGAAAAGCATTTCTTGTGACACCAAAGCATCAA
TCTCATGTATCCTAATAAAGGGAATATGTTTTTAGTTCCCAATCTTGAAAAGAATGGAGACTATT
ACGAGAATCGATGCTTGTC
Found at i:642828 original size:953 final size:952
Alignment explanation
Indices: 640969--643290 Score: 2788
Period size: 953 Copynumber: 2.4 Consensus size: 952
640959 AGGAAAATAG
* * *
640969 TTATTTAGGGGACT-AACTTTGATTTCAAGGAAAATAGGGT-AAAGAAAAGGTTTCCATGCAAAA
1 TTATTTAAGGGA-TGAACTTTGATTTTAAGGAAAATAGGGTCAAAGAAAAGATTTCCATGCAAAA
* * *
641032 AAAAATCATCAATTTCTTTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCAAAAAATGG
65 AAAAATCATCAATATCTTTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGA
* *
641097 ATGAAGATCATTACTAGAATCCATGTTTGGTTTATTTGAGGCACGAACTTAGACTTTACAAAAAT
130 ATGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAAT
* *** *
641162 T-GGTGAGAAAAAAGCCTTTCTTGCA-AAACCAAAGCATCAATATTGCGTATCCTAAGGAGAAGA
195 TAGG-G-GGAAAAAGCCTTTCTTG-AGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGA
* * * * * *
641225 CTATGCTTATGCTACCCAATCCAGAAAAGAATGGGGATTAGTATGAGTATTCATGTTT-TTTTAT
257 CTATGTTTATGGTGCCTAATCTA-AAAAGAATGGGGATTAGTATGACTATTCATGTTTGTTTTAT
* * * * * *
641289 TTAAGAG-G-CAAACTTTGAATCTGTCAAAAACGTTAGAAAGAAAAGCTTGTTTTGTGACTCTAA
321 TTAAGAGAGACAAACTTTGATTCTATCAAAAACGGTAGAAAGAAAAGCTTTTTTTGTGACACCAA
* * * * *
641352 AGCATTAATGTCATGTATCCTAATAAGGAAATGTGTTTTTGGTTCCCAATCTTTGAAAAAATTGG
386 AGCATCAATGTCATGTATCCTAATAAGGGAATGTGCTTTTAGTTCCCAATCTTGGAAAAAATTGG
* * * *
641417 TGACTGTTACGAGAATCGATGCTTGTCTTATTTAAAAGATGAACATTGATTTTAAAGAAAATAGG
451 AGACTATTACGAGAATCGATACTTGTCTTATTTAAAAGATGAACATTGATTTCAAAGAAAATAGG
* *
641482 GTAAAGAAAAGATTTCCGTGCAAAAGAAAATCACCAATATCATTTATCCTAATGAGGAGAACGTG
516 GGAAAGAAAAGATTTCCGTGCAAAAGAAAATCACCAATATCATTTATCCTAATGAGGAAAACGTG
*
641547 CTTATAGTGCTTAATTACAAAATAAATGAAGATCATTACTAGAATCCATCTTTGGCTTATTTGAG
581 CTTATAGTGCCTAATTACAAAATAAATGAAGATCATTACTAGAATCCATCTTTGGCTTATTTGAG
* * * ** * ** *
641612 GTACGAACTTAAACTTTACAAAAATTTGAGGGAAAAAGCCTTTCTTGTGAAATCAAAGTGTCTAT
646 GTACGAACTTAAACATTACAAAAATTTGAGGAAAAAAACCTTTCTTGCAAAACCAAAGCATCAAT
* * * *
641677 ATCATGTATCCGAATGAGAAGACTATGTTGACAGTGCCTAATTCTAAAAAGAATGGGGATTAGCA
711 ATCATGTATCCAAATGAGAAGACTATGTTGACAGTGCCCAATCCGAAAAAGAATGGGGATTAGCA
* * * *
641742 TGACAATTAATTTTTGTCTTATTTAAGAAACAAATTTTGATTCTATCAAAAATGGTGGAAACAAC
776 TGACAATTAATATTTGTCTTATTTAAGAAACAAACTTTGATTCTATCAAAAATGGTAGAAACAAA
** * ** *
641807 AGCATTTCTTGCGACCCCAAAGCATTAATCTCATGTATCCTAATGAAGGGAATATGTTTTTAGTT
841 AGCATTTCTTGCGACAACAAAGCATCAATCTCATGTATCCTAAAAAAGGAAATATGTTTTTAGTT
* * * **
641872 CCCAATCTTTAAAAGAATGGAGACTATTATGAGAATTGATGCTTGTC
906 CCCAATCTTGAAAAGAATGGAGACGATTACGAGAATCAATGCTTGTC
* * *
641919 TTATTTAAGGGATGATCTTTGATTTTAAGGAAAATAGGGTCAAA-AAAAGATTTCCATGCAAGAG
1 TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGTCAAAGAAAAGATTTCCATGCAAAAA
** * *
641983 AAAATTGTCAATATCTTTTATCCTAAGGAGGAGAATGTATTTATAGTGCCTAATCACAAAATGAA
66 AAAATCATCAATATCTTTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAA
* * *
642048 TGAAAATCATTACTAGAATCCATGTTTGGCTCAATTT-TGGCATGAACTTAGACTTTACAAAAAT
131 TGAAGATCATTACTAGAATCCATGTTTGGCTC-ATTTGAGGCACGAACTTAGACTTTACAAAAAT
* * *
642112 TAGGGGGAAGAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTACCCTTATGAGAAGATT
195 TAGGGGGAA-AAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACT
* * *
642177 ATGTTTATGGTGCCTAATCTTAAAAAGAATAGGGATTAGTATGACTATTCTTGTTTGTTTTTTTT
259 ATGTTTATGGTGCCTAATC-TAAAAAGAATGGGGATTAGTATGACTATTCATGTTTGTTTTATTT
* * **
642242 AAGAGAGACAAACGTTGATTCTATAAAAAACGGTAGAAAGAAAAGCTTTTTTTACGACACCAAAG
323 AAGAGAGACAAACTTTGATTCTATCAAAAACGGTAGAAAGAAAAGCTTTTTTTGTGACACCAAAG
* * * *
642307 CGTCAATGTCATGTATCTTAATGAAGGGAATGTGCTTTTAGTTCCGAATCTTGGAAAGAA-TGGA
388 CATCAATGTCATGTATCCTAAT-AAGGGAATGTGCTTTTAGTTCCCAATCTTGGAAAAAATTGGA
* ** *
642371 GGCTATTACGAGAATCGATACTTGTCTTATTTAAGGGACT-AACATTGATTTCAAGGAAAATAGG
452 GACTATTACGAGAATCGATACTTGTCTTATTTAAAAGA-TGAACATTGATTTCAAAGAAAATAGG
* *** *
642435 GGAAAGAAAAGGTTTCCAG-GCAAAAGAAAATTGTCAATAT-ATTTTATCCTAATGAGGAAAATG
516 GGAAAGAAAAGATTTCC-GTGCAAAAGAAAATCACCAATATCA-TTTATCCTAATGAGGAAAACG
** * * * * *
642498 TTTTTATAGTGCCTAATTATAAAATGATTGAAGATCATTACTAGAATTCATGTTTGGCTTATTTG
579 TGCTTATAGTGCCTAATTACAAAATAAATGAAGATCATTACTAGAATCCATCTTTGGCTTATTTG
*
642563 AGGTACGAACTTAGACATTACAAAAATTGGTGA-GAAAAAAACCTTTCTTGCAAAACCAAAGCAT
644 AGGTACGAACTTAAACATTACAAAAATT--TGAGGAAAAAAACCTTTCTTGCAAAACCAAAGCAT
* * * ** *
642627 CAATATCGTTTATCCAAATGCGAAGACCT-TGCTT-ATGGTGCCCAATCCGAAAAAGAATGTGGA
707 CAATATCATGTATCCAAATGAGAAGA-CTATG-TTGACAGTGCCCAATCCGAAAAAGAATGGGGA
* ** * * * *
642690 TTAGTATGAGTATTCATATTTGTCTTATTTAAGAGACAAACTTTGATTCTGTC-AAAATGTTAGA
770 TTAGCATGACAATTAATATTTGTCTTATTTAAGAAACAAACTTTGATTCTATCAAAAATGGTAGA
* * **
642754 AAGAAAAGCCTTTCTTTTGACAACAAAGCATCAATGC-CATGTATCCTAAAAAAGGAAATGA-GT
835 AACAAAAGCATTTCTTGCGACAACAAAGCATCAAT-CTCATGTATCCTAAAAAAGGAAAT-ATGT
* * * * *
642817 TTTTGGTTCCCAATCTTGAAAAGATTGGTGACGGTTACGAGAATCAATGCTTGTT
898 TTTTAGTTCCCAATCTTGAAAAGAATGGAGACGATTACGAGAATCAATGCTTGTC
* * * *
642872 TTATTTAAGGGATGAACTTTGATTTT-CGAGAAAATATGG-CAAAGAAAATATTTCCATGTAAAA
1 TTATTTAAGGGATGAACTTTGATTTTAAG-GAAAATAGGGTCAAAGAAAAGATTTCCATGCAAAA
* * ** * * *
642935 AAAAATCACCAATAT-TATTTATCCTAATTAGGAGAACATGTTTATAGTGTCTAATTACAAAATA
65 AAAAATCATCAATATCT-TTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATG
* *
642999 AATGAAGATCATTATTAGAATCCATCTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAA
129 AATGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAA
* * * ** * *
643064 TTTA-AGGGAAAAAGTCTTTCTTGTGAAACCAAAGTGTCAATATCATATATCCAAATGAGAAGAC
194 -TTAGGGGGAAAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAC
* * * * * *
643128 TATGTTGACGGTGCCTAATCCTAAAAAAAATGGGGATTAGTATGACAATTAATGTTTGTCTTATT
258 TATGTTTATGGTGCCTAAT-CTAAAAAGAATGGGGATTAGTATGACTATTCATGTTTGTTTTATT
* * * * * *
643193 T-AG-GAAACAAATTTTGATTCTATCAAAAATGGT-GAAAAGAAAAGCATTTCTTGTGACCCCAA
322 TAAGAGAGACAAACTTTGATTCTATCAAAAACGGTAG-AAAGAAAAGCTTTTTTTGTGACACCAA
* *
643255 AGCATCAATATCGTGTATCCTAATAAAGGGAATGTG
386 AGCATCAATGTCATGTATCCTAAT-AAGGGAATGTG
643291 TCTTATTTAA
Statistics
Matches: 1160, Mismatches: 185, Indels: 54
0.83 0.13 0.04
Matches are distributed among these distances:
949 6 0.01
950 336 0.29
951 24 0.02
952 112 0.10
953 522 0.45
954 153 0.13
955 7 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (952 bp):
TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGTCAAAGAAAAGATTTCCATGCAAAAA
AAAATCATCAATATCTTTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAA
TGAAGATCATTACTAGAATCCATGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT
AGGGGGAAAAAGCCTTTCTTGAGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACTAT
GTTTATGGTGCCTAATCTAAAAAGAATGGGGATTAGTATGACTATTCATGTTTGTTTTATTTAAG
AGAGACAAACTTTGATTCTATCAAAAACGGTAGAAAGAAAAGCTTTTTTTGTGACACCAAAGCAT
CAATGTCATGTATCCTAATAAGGGAATGTGCTTTTAGTTCCCAATCTTGGAAAAAATTGGAGACT
ATTACGAGAATCGATACTTGTCTTATTTAAAAGATGAACATTGATTTCAAAGAAAATAGGGGAAA
GAAAAGATTTCCGTGCAAAAGAAAATCACCAATATCATTTATCCTAATGAGGAAAACGTGCTTAT
AGTGCCTAATTACAAAATAAATGAAGATCATTACTAGAATCCATCTTTGGCTTATTTGAGGTACG
AACTTAAACATTACAAAAATTTGAGGAAAAAAACCTTTCTTGCAAAACCAAAGCATCAATATCAT
GTATCCAAATGAGAAGACTATGTTGACAGTGCCCAATCCGAAAAAGAATGGGGATTAGCATGACA
ATTAATATTTGTCTTATTTAAGAAACAAACTTTGATTCTATCAAAAATGGTAGAAACAAAAGCAT
TTCTTGCGACAACAAAGCATCAATCTCATGTATCCTAAAAAAGGAAATATGTTTTTAGTTCCCAA
TCTTGAAAAGAATGGAGACGATTACGAGAATCAATGCTTGTC
Found at i:643653 original size:420 final size:418
Alignment explanation
Indices: 642872--643709 Score: 1031
Period size: 419 Copynumber: 2.0 Consensus size: 418
642862 AATGCTTGTT
** * * *
642872 TTATTTAAGGGATGAACTTTGATTTTCGAGAAAATATGGCAAAGAAAATATTTCCATGTAAAAAA
1 TTATTTAAGGGATGAACTTTGATTTTAAAGAAAATAAGGCAAAG-AAAGATTTCCATGCAAAAAA
** * * *
642937 AAATCACCAATATTATTTATCCTAATTAGGAGAACATGTTTATAGTGTCTAATTACAAAATAAAT
65 AAATCACCAATATTATTTATCCTAAGGAGGAGAACATATTTATAGTGCCTAATCACAAAATAAAT
* * * *
643002 GAAGATCATTATTAGAATCCATCTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTT
130 GAAGATCATTACTAGAATCCATCTTTGGCTAATTTGAGGCACGAACTCAGACTTTACAAAAATAT
* **
643067 AAGGGAAAAAGTCTTTCTTGTGAAACCAAAGTGTCAATATCATATATCCAAATGAGAAGACTATG
195 AAGGGAAAAAGTCTTTCTTGTAAAACCAAAGCATCAATATCATATATCCAAATGAGAAGACTATG
** * *
643132 TTGACGGTGCCTAATCCTAAAAAAAATGGGGATTAGTATGACAATTAATGTTTGTCTTATTTAGG
260 TTGACGGACCCTAATCCTAAAAAAAATAGGGATTAGTATGACAATTAATGTTTGTCTTATTTAAG
* ** * ***
643197 AAACAAATTTTGATTCTATCAAAAATGGTGAAAAGAAAAGCATTTCTTGTGACCCCAAAGCATCA
325 AAACAAACTTCAATTCTATCAAAAACGACAAAAAG-AAA-CATTTCTTGTGACCCCAAAGCATCA
*
643262 ATATCGTGTATCCTAATAAAGGGAATGTGTC
388 ATATCATGTATCCTAATAAAGGGAATGTGTC
643293 TTATTTAAGGGATGAACTTTGATTTTAAAGAAAATAAGGCAAAG-AAGATTTCCATGCAAAAAAA
1 TTATTTAAGGGATGAACTTTGATTTTAAAGAAAATAAGGCAAAGAAAGATTTCCATGCAAAAAAA
** ** *
643357 AATCGTCAATATCT-TTTATCCTAAGGAGGAGAATGTATTTATAGTGCCTAATCACAAAATGAAT
66 AATCACCAATAT-TATTTATCCTAAGGAGGAGAACATATTTATAGTGCCTAATCACAAAATAAAT
* * ** *
643421 GAAGATCATTACTAGAATCCATGTTTGGTTAATTTTTGGCATGAACTCAGACTTTACAAAAATAT
130 GAAGATCATTACTAGAATCCATCTTTGGCTAATTTGAGGCACGAACTCAGACTTTACAAAAATAT
* * * * * *
643486 AGGGGAAGAAA-TCCTTTCTT-TCAAAACCAATGCATCAATATCGTGTAT-CATTATTAGAAGAC
195 AAGGGAA-AAAGT-CTTTCTTGT-AAAACCAAAGCATCAATATCATATATCCA-AATGAGAAGAC
* * * * **
643548 TATGTTTATGGACCCTAATCCTGAAAAAAATAGGGATTAGTATGAC-CTCTCTTGTTTGTCTTAT
256 TATGTTGACGGACCCTAATCCTAAAAAAAATAGGGATTAGTATGACAAT-TAATGTTTGTCTTAT
* *
643612 TTAAGAGACAAACTTCAATTCTATCAAAAACGACAAAAAGAAACATTTCTTGTGATCCCAAAGCA
320 TTAAGAAACAAACTTCAATTCTATCAAAAACGACAAAAAGAAACATTTCTTGTGACCCCAAAGCA
* * * * *
643677 TTAATGTCATTTATCGTAATGAAGGGAATGTGT
385 TCAATATCATGTATCCTAATAAAGGGAATGTGT
643710 TTTTGGTTCC
Statistics
Matches: 353, Mismatches: 58, Indels: 15
0.83 0.14 0.04
Matches are distributed among these distances:
418 48 0.14
419 140 0.40
420 124 0.35
421 41 0.12
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (418 bp):
TTATTTAAGGGATGAACTTTGATTTTAAAGAAAATAAGGCAAAGAAAGATTTCCATGCAAAAAAA
AATCACCAATATTATTTATCCTAAGGAGGAGAACATATTTATAGTGCCTAATCACAAAATAAATG
AAGATCATTACTAGAATCCATCTTTGGCTAATTTGAGGCACGAACTCAGACTTTACAAAAATATA
AGGGAAAAAGTCTTTCTTGTAAAACCAAAGCATCAATATCATATATCCAAATGAGAAGACTATGT
TGACGGACCCTAATCCTAAAAAAAATAGGGATTAGTATGACAATTAATGTTTGTCTTATTTAAGA
AACAAACTTCAATTCTATCAAAAACGACAAAAAGAAACATTTCTTGTGACCCCAAAGCATCAATA
TCATGTATCCTAATAAAGGGAATGTGTC
Found at i:645452 original size:476 final size:473
Alignment explanation
Indices: 643898--647228 Score: 3387
Period size: 477 Copynumber: 7.0 Consensus size: 473
643888 AATAAATTAG
* * * *
643898 GACATTGATACTTTGGGGTCGCAAGAAATGCTTTTCTTTCCACCATTTTTGATAGAATCAAA-TT
1 GACATTGATGCTTTGGTGTCGCAAAAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTT
* * * *
643962 TGTCTCTTAAATAAAACAAAGATGAATTA-TCATAGTAATCCCCATTCTTTTCAAGATTAGGCAC
66 TGTCTCTTAAATAAAACAAACATGAA-TAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCAC
*
644026 CATAAACATAGTCTTCTCATAAGGATACATGATATTGATGCTTTGGTTTC-CAAAGAAAGGCTTT
130 CATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCAC-AAGAAAGGCTTT
* * * * *
644090 CTTTCCCCCAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCTAAGCAAGGATTATAGTAT
194 -TTTCCCCCAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAA
* * * * * *
644155 TAATCTTCATTCATTTTGTGATTAGCCACTATAAGCACATTCTCCTCATTTGGA-AAAATGTTAC
258 TGATCTTCATTCATTTTGTGATTAG-CACTATAAACACATTCTTCTCATTAGGATAAAA-GATAT
* * *
644219 TGATGATTTT-TTTTGCATGCAAATCTTTT-TATTACCCTATTTT-TTAAAAATCAAAGTTTTAT
321 TGATGATTTTCTTTTGCATGAAAATCTTTTCT-TTGCCCTATTTTCTT-AAAATCAAAG-TTCA-
* * * * * * *
644281 TCCCTTAAATAAGACAAGCATTGATTTTCATAATAGCCTCTATTCTTTTTAGGATTGGGAACCAA
382 TCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAA
* *
644346 AAACACAATCCTTTCACTAGGATACAT
447 AAACACAATTCTTTCATTAGGATACAT
** *
644373 GACATTGATGCTTTGGTGTCATAAAAAAAGCTTTTCATTCCACCATTTTTGATAGAATCAAAGTT
1 GACATTGATGCTTTGGTGTCGCAAAAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTT
* * * * * * * * **
644438 TATCTCTTATATAAGACAAACATGAGTACTCGTACTAATCCCCTTTTTTTTTCAGGATTAAACAC
66 TGTCTCTTAAATAAAACAAACATGAATAGTCATACTAAT-CCCTATTCTTTTCAGGATTAGGCAC
* * * * ** * *
644503 CAAAAAGATAGTCTTCTC------ATACATGATATTGATGCTTCGGTTTTGCAAGAAAAGCTTTC
130 CATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTT
* ** *
644562 TTCCCCCTCATTTTGGTAAAGTCTAGGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAAT
195 TTCCCCC-AATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAAT
* * * * * *
644627 GATCTTCATTTATTTTCTGATTAGGCACTATAAACATATTCTCCTCATTAGGATAAATGATACTG
259 GATCTTCATTCATTTTGTGATTA-GCACTATAAACACATTCTTCTCATTAGGATAAAAGATATTG
* * * *
644692 ACGATTTT-TTTTGCATGGAAATCATTTCTTTGCCCAATTTTTCTTAAAATCAAAGTTCATCCCT
323 ATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTA-TTTTCTTAAAATCAAAGTTCATCCCT
* ** ** ** * *
644756 TAAATATGACAAGCATCGATTCTTGTAATTGTCTCCAAGCTTTTCAAAGATTAGGAAGCAAAAAC
387 TAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTC-AAGATTGGGAACCAAAAAC
* *
644821 AC-ATTCCCTTCATTAGGGTACAT
451 ACAATT-CTTTCATTAGGATACAT
* *** *
644844 GACATTGATGCTTTGGTG-C-CATAAGAAAAGCTTTTCTTTACAATGTTTTTTATAGAATCAAAG
1 GACATTGATGCTTTGGTGTCGCA-AA-AAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAG
* * * *
644907 TTTGTCTCTCACATAAAATAAACATGAAT-GCTCATACTAATGCCC-ATTATTTTCAGGATTAGG
64 TTTGTCTCTTAAATAAAACAAACATGAATAG-TCATACTAAT-CCCTATTCTTTTCAGGATTAGG
* * ** * ** * * *
644970 CACCATAAACATAGTTTTTCTCGTTCGAATACTTGATATTGATGGTTTGGTTTCACAATAAAGGA
127 CACCATAAACATAG-TCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGC
** * * * * ** *
645035 TTTTTTCCCACCAATTTTTGCAGAGTCTAAGTTCGTGCCTCTAATGAGACAAACATTAATCCTAG
191 TTTTTTCCC-CCAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAG
* * * * * * *
645100 TAATGATCATCATTCATTTTGGGATTA-CA-TAAAAAAACACAATCTTCGCGTTAGGGTAAAAGA
255 TAATGATCTTCATTCATTTTGTGATTAGCACT--ATAAACACATTCTTCTCATTAGGATAAAAGA
* * *
645163 AATTGATGATTTTCTTTTTCATGGAAATCTTTTCTTTGCCCTATTTTCGTTAAAATCAAAGTTCA
318 TATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTC-TTAAAATCAAAGTTCA
* * * * *
645228 TCCCATAAATAAGACAAGCATTGATTCTCGTAACAGTCTCCACTCTTTTCAAGATGGGGAACCAA
382 TCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAA
645293 AAACACAATTCTTTCATTAGGATACAT
447 AAACACAATTCTTTCATTAGGATACAT
** * * * *
645320 GACATTGATGCTTTAATGTAGCAAAAAAAACTTTTCTTTTCACCATTTTTGATTGAATCAAAGTT
1 GACATTGATGCTTTGGTGTCGCAAAAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTT
* * * **
645385 TGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCTATTATTTTCAAGATTACACACC
66 TGTCTCTTAAATAAAACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCACC
* * *
645450 ATAAACATAGTCTTCACATAAGGATACACGATATTGATGCTTTGGTTTCAAAAGAAAGGTTTTTT
131 ATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTT
** * * * *
645515 TCTCCTAAATTTTTTTAAAATCTAAGTTCGTGCCTCAAATGAGCCAAAAATGGATTCTAGTAATG
196 TC-CCCCAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATG
* * *
645580 ATCTTCATTCAGTTTGTGATTAGGCATTATAAACACATT-TTCCTCATTAGGATAAAAGATATTA
260 ATCTTCATTCATTTTGTGATTA-GCACTATAAACACATTCTT-CTCATTAGGATAAAAGATATTG
* * * *
645644 ATGATTTTATTTTGTATGAAAATCTTTTCTTTGCCCTATTTTGTTTAAAATCAAAGTTTTAATCC
323 ATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTT-CTTAAAATCAAAG--TTCATCC
* ** ** * *
645709 CTTAAATAAGACAAGCATTGATTCTTTTAGTAGTC-CCTATTCTTTTGATGATTGGGAACCAAAA
385 CTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCC-ATTCTTTTCAAGATTGGGAACCAAAA
* *
645773 ACAC-TTTCCCTTT--TTAGGCTACAT
449 ACACAATT--CTTTCATTAGGATACAT
* * * ** *
645797 GACATTAATGCTTTGGTGTCGCAAGAAAAGCTTTTATTTCC-CTTGTTTTTGATAGAAT-AAGGG
1 GACATTGATGCTTTGGTGTCGCAAAAAAAGCTTTTCTTTCCAC-CATTTTTGATAGAATCAA-AG
**** * * * * *
645860 TTTGTCTCTT-AATAGGGTAAACATGAATTGTCATACCAATCCTTATTCTTTTTAGGATTAGGTA
64 TTTGTCTCTTAAATAAAACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCA
* * * * * * *
645924 TCATGAACATAGTCTTCTCACAAGGATACACGATACTAACGCTTTGCTTTCACAAGAAAGGCTTT
129 CCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGCTTT
* * ** *
645989 TTTCCCCCAAATTTTTGTAAAGTCTAAGTTCGCACCTCAAATGAGCCAAACATGGATTCTAGCAA
194 TTTCCCCC-AATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAA
* * * *
646054 TGATCTTCATTCAATTTGTGATTAGGCATTATAAACACATTCTCCTTATTAGGATAAAAGATATT
258 TGATCTTCATTCATTTTGTGATTA-GCACTATAAACACATTCTTCTCATTAGGATAAAAGATATT
* * * * * * *
646119 GATGATTTTATCTTGCATGGAAATCTTTTCTTCGCCATATTTTCCTTAAAGTCAAAGTTCATCTC
322 GATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTT-CTTAAAATCAAAGTTCATCCC
* * * *
646184 ATAAATAAGACAAGCATCGATTCTCATAACAGTCTTC-TTCCATTTCAAGATTGTGAACCAAAAA
386 TTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATT-CTTTTCAAGATTGGGAACCAAAAA
** * * * * *
646248 CA-TTTTCCCTTCTTTCGGTTACTT
450 CACAATT-CTTTCATTAGGATACAT
* * * *
646272 GACATTAATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCC-CTTC-TTTTTCATAGAA-CGAAG
1 GACATTGATGCTTTGGTGTCGCAAAAAAAGCTTTTCTTTCCAC--CATTTTTGATAGAATCAAAG
* * * *
646334 CTTTGTCTCTTAAATAAAACAAACATGAATTGTCATATTAATCCCTATTCTTTTTAGGATTACGC
64 -TTTGTCTCTTAAATAAAACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGC
* * * * *
646399 ACCATAAACATAGTCTTCTCGTAAGGATACACGATACTAACGCTTTGGTTTTGA-AAGAAAGGCT
128 ACCATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGG-TTTCACAAGAAAGGCT
* * **
646463 TTCTTCCCCTCATTTTTTATAAAGTCTAAGTTTGTGCCTCAAAAAAGCCAAACATGGATTCTAGT
192 TTTTTCCCC-CAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGT
* * * *
646528 AATGATCTTCATTCATTTTTGAGATTAGCCACTATAAACACATTC-TCTTCATTTGGATAAATGG
256 AATGATCTTCATTCA-TTTTGTGATTAG-CACTATAAACACATTCTTC-TCATTAGGATAAAAGA
* * * *
646592 TATTGATGATTTTCTTTTGCGTGAAAAAT-TTTTCATTACCCTATTTTCCTTAAAGTCAAAGTTC
318 TATTGATGATTTTCTTTTGCATG-AAAATCTTTTCTTTGCCCTATTTT-CTTAAAATCAAAGTTC
* * * * *
646656 ATCTCATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCTTTCATTTCAAGATTGTGAACCA
381 ATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCA
* *
646721 AAAACA-GATTCTCTTCTTTAGGATACAT
446 AAAACACAATTCT-TTCATTAGGATACAT
* * * *
646749 GACATTGATACTTTGG-GCTCGCAAGAAATGCTTTTCTTTCCACCATTTTTTATAGAATCAAAGT
1 GACATTGATGCTTTGGTG-TCGCAAAAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGT
* * * * * * *
646813 TTGTCTCTCAAAAAAAACAAACATGAATTGTCATACTAATCTCGATTTTTTTTAGGATTAGGCAC
65 TTGTCTCTTAAATAAAACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCAC
* * * * *
646878 CATAAACATAGTTTTCTCATAAGGACACACGTTATTGAAGCTTTGGTTTTGA-AAGAAAGGCTTT
130 CATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGG-TTTCACAAGAAAGGCTTT
* * * ** *
646942 CTTCCCCTCAATTTTTATAAAGTATAAGTTTGTGCCTTAAAAAAGCCAAAAATGGATTCTAGTAA
194 TTTCCCC-CAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAA
* * * *
647007 TGATCTTCATTCATTTTTGAGATTAGCCACTATAAACACATTC-TCTTCATTAAGATAAATGGTA
258 TGATCTTCATTCA-TTTTGTGATTAG-CACTATAAACACATTCTTC-TCATTAGGATAAAAGATA
* * * *
647071 TTGATGATTTTCTTTTGCGTGAAAATTTTTTCATTACCCTATTTTTCTTAAAATCAAAGTTCATC
320 TTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTA-TTTTCTTAAAATCAAAGTTCATC
* * * * *
647136 CGTTAAATAAGACAAGCAACGATTCTCGTAACAGTGTCAATTCTTTTCAAGATTGGGAACCAAAA
384 CCTTAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAA
*
647201 ACACAATCCTTTCATTAGGATACAT
449 ACACAATTCTTTCATTAGGATACAT
647226 GAC
1 GAC
647229 TGAAAGCTTA
Statistics
Matches: 2414, Mismatches: 371, Indels: 140
0.83 0.13 0.05
Matches are distributed among these distances:
469 1 0.00
470 77 0.03
471 290 0.12
472 20 0.01
473 8 0.00
474 61 0.03
475 250 0.10
476 730 0.30
477 887 0.37
478 86 0.04
479 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (473 bp):
GACATTGATGCTTTGGTGTCGCAAAAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTT
TGTCTCTTAAATAAAACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCACC
ATAAACATAGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTTT
TCCCCCAATTTTTATAAAGTCTAAGTTTGTGCCTCAAATGAGCCAAACATGGATTCTAGTAATGA
TCTTCATTCATTTTGTGATTAGCACTATAAACACATTCTTCTCATTAGGATAAAAGATATTGATG
ATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCTTAAAATCAAAGTTCATCCCTTAAA
TAAGACAAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACAAT
TCTTTCATTAGGATACAT
Found at i:647073 original size:159 final size:160
Alignment explanation
Indices: 646440--647074 Score: 405
Period size: 159 Copynumber: 4.0 Consensus size: 160
646430 CGATACTAAC
* *
646440 GCTTTGGTTTTGAAAGAAAGGCTTTC-TTCCCCTCATTTTTTATAAAGTCTAAGTTTGTGC-CTC
1 GCTTTGGTTTTGAAAGAAAGGCTTTCATTCCCCTCAATTTTTATAAAGTCAAAGTTTGT-CTCTC
* *
646503 AAAAAAGCCAAACATGGATTCT-AGTAATGATCTTCATTCATTTTTGAGATTAGCCACTATAAAC
65 AAAAAAGACAAACATGGATTCTCA-TAATGATCTTCATTCATTTTTGAGATTAGCCACCATAAAC
** *
646567 ACATTCTCTTCATTTGGATAAATGGTATTGAT
129 ACATTCTCTTCATTAAGATAAATGGTATTGAA
* ** *** *** * **
646599 GATTTTCTTTTGCGTGAAAAATTTTTCATTACCCT--ATTTTCCT-TAAAGTCAAAGTTCATCTC
1 GCTTTGGTTTTGAAAG-AAAGGCTTTCATTCCCCTCAATTTT--TATAAAGTCAAAGTTTGTCTC
* * * * * * ** ** *
646661 AT-AAATAAGACAAGCATCGATTCTCATAA-CAGTCTCCTTTCA-TTTCAAGATT-GTGAACCAA
63 -TCAAAAAAGACAAACATGGATTCTCATAATGA-TCTTCATTCATTTTTGAGATTAG-CCACCAT
* * * * **
646722 AAACAGATTCTCTTCTTTAGGATACATGACATTGATA
125 AAACACATTCTCTTCATTAAGATAAATGGTATTGA-A
** * * * * * *
646759 -CTTTGGGCTCGCAAGAAATGCTTTTCTTTCCAC-CATTTTTTATAGAA-TCAAAGTTTGTCTCT
1 GCTTTGGTTTTGAAAGAAAGGC-TTTCATTCCCCTCAATTTTTATA-AAGTCAAAGTTTGTCTCT
* * * * * * *
646821 CAAAAAAAACAAACATGAATTGTCATACTAATC-TCGATT--TTTTTTAGGATTAGGCACCATAA
64 CAAAAAAGACAAACATGGATTCTCATAATGATCTTC-ATTCATTTTTGA-GATTAGCCACCATAA
* * * * * *
646883 ACATAGTTTTC-TCA-TAAGGACACACGTTATTGAA
127 ACACA-TTCTCTTCATTAA-GATAAATGGTATTGAA
646917 GCTTTGGTTTTGAAAGAAAGGCTTTC-TTCCCCTCAATTTTTATAAAGT-ATAAGTTTGTGC-CT
1 GCTTTGGTTTTGAAAGAAAGGCTTTCATTCCCCTCAATTTTTATAAAGTCA-AAGTTTGT-CTCT
* * * *
646979 TAAAAAAGCCAAAAATGGATTCT-AGTAATGATCTTCATTCATTTTTGAGATTAGCCACTATAAA
64 CAAAAAAGACAAACATGGATTCTCA-TAATGATCTTCATTCATTTTTGAGATTAGCCACCATAAA
647043 CACATTCTCTTCATTAAGATAAATGGTATTGA
128 CACATTCTCTTCATTAAGATAAATGGTATTGA
647075 TGATTTTCTT
Statistics
Matches: 345, Mismatches: 97, Indels: 68
0.68 0.19 0.13
Matches are distributed among these distances:
157 9 0.03
158 69 0.20
159 187 0.54
160 71 0.21
161 9 0.03
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (160 bp):
GCTTTGGTTTTGAAAGAAAGGCTTTCATTCCCCTCAATTTTTATAAAGTCAAAGTTTGTCTCTCA
AAAAAGACAAACATGGATTCTCATAATGATCTTCATTCATTTTTGAGATTAGCCACCATAAACAC
ATTCTCTTCATTAAGATAAATGGTATTGAA
Found at i:648020 original size:13 final size:13
Alignment explanation
Indices: 648002--648027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
647992 CAATTTTTTG
648002 TGTATCGATACAT
1 TGTATCGATACAT
648015 TGTATCGATACAT
1 TGTATCGATACAT
648028 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:648026 original size:33 final size:33
Alignment explanation
Indices: 647982--648046 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
647972 TACAAGCCAA
* *
647982 TGTATCAATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCAATACATA-CTTTGGTGTATCGATACAT
*
648015 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCAATACATACTTTGGTGTATCGATACA
648047 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCAATACATACTTTGGTGTATCGATACAT
Done.