Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
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: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 2 of 16
Found at i:368906 original size:474 final size:474
Alignment explanation
Indices: 367739--369460 Score: 2035
Period size: 474 Copynumber: 3.6 Consensus size: 474
367729 CCATTTTTTT
* * *
367739 TGCATGACATTGATGCTTTGGTGTCACAAGAAAA-ATGTTTCTTTCCACCATTTTTGGTAGAATC
1 TGCATGACATTGATGCTTTGGTGTCGCAAGAAAAGCT-TTTCTTTCCACCATTTTTGATAGAATC
* ** * * *
367803 AATGTTTGTCTTTTAAATACGACAAACATGAATACTCGTACTAATCCCCATT-TTTTCGAGATTA
65 AAAGTTTGTCCCTTAAATACGACAAACATAAATACTCATACTAATCCCCATTCTTTTCAAGATTA
* * *
367867 GGCACCATAAACATAGTTTTCTCTTTAGGTTACA-CGATATTGATGCTTTGGTAACACAAGAAAG
130 GGCACCATAAAC-TAGTCTTCTCTTTAGGATACATC-ATATTGATGCTTTGGTATCACAAGAAAG
* * *
367931 GCA-TTTTCCTC-CTAATTTTCGTAAAGTCCAAGTTCTTGCCTCAAATGAGACAAACATGGATTC
193 GCATTTTTCC-CACCAATTTTCGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTC
* * *
367994 TAGTTATGATCTTCATTCATTTTGTGATTAGGGACTATAAAAACATTCTCCTCATTAGGATAAAT
257 TAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAAT
* *
368059 GATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTACCCTATTTTCCTTTAAATCAATGTT
322 GATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCC-TTAAATCAAAGTT
* * * * *
368124 CATACCTTAAATAAGACAAGCATCAATACT-TAGCAGTCTCCATTCTTTTCAAGACT-AGAAGCC
386 CATACCTTAAATAAGACAAGCATCGATTCTCTAACAGTCTCCATTCTTTTCAAGATTGGGAAGCC
368187 AAAAACACATTCCCTTCATTAGGA
451 AAAAACACATTCCCTTCATTAGGA
* * * *
368211 TGCATGACATTGAAGCTTTGGTGTCGCAAGAAAAGCTTTTGTTTCCACCATTTTTTATGGAATCA
1 TGCATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCA
* * * * * * * * *
368276 AAGTTTCTCTCTTAAATAGGACAAAGATGAAA-ACTCCTACTAATCCTCGTTCTTTTCTATATTA
66 AAGTTTGTCCCTTAAATACGACAAACAT-AAATACTCATACTAATCCCCATTCTTTTCAAGATTA
* * * * * *
368340 GGCAGCATAAACCTAGT-TCGCTCTTTTGGATACATCATATTGATGGTTTCGT-TACGCAAGAAA
130 GGCACCATAAA-CTAGTCT-TCTCTTTAGGATACATCATATTGATGCTTTGGTAT-CACAAGAAA
* * * * *
368403 AGCTTTTTTCCCACTAACTTTT-GTAAAGTCTAAGTTCATGCCTCAAATGAGATAGACATGGATT
192 GGCATTTTTCCCACCAA-TTTTCGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATT
** *
368467 CTAGTAATGATCTTTTTTCATTTTGTGATTAGGCACTATAAACACATTCTCCTTATTAGGATAAA
256 CTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAA
* * *
368532 TGCTGTTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGT
321 TGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTT-AAATCAAAGT
** * * *
368597 TCATACCCCAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCAAGATTGGGAAG
385 TCATACCTTAAATAAGACAAGCATCGATTCTC-TAACAGTCTCCATTCTTTTCAAGATTGGGAAG
* * *
368662 -CTAAAACTCATTCCCTTCATTAGGG
449 CCAAAAACACATTCCCTTCATTAGGA
* ** *
368687 TCCATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATTATTTTTTATAGAATCA
1 TGCATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCA
* * * *
368752 AAGTTTATCCCTAAAATAAGACAAACATAAATACTCATACTAATCCCCATTCATTTCAAGATTAG
66 AAGTTTGTCCCTTAAATACGACAAACATAAATACTCATACTAATCCCCATTCTTTTCAAGATTAG
* * * * * * * ** * *
368817 ACATCGTATAC-AGTCTTCTCATTAGGACAC-GCGACGTTGATGCTTTGGTATGATAAGAAAGGC
131 GCACCATAAACTAGTCTTCTCTTTAGGATACATC-ATATTGATGCTTTGGTATCACAAGAAAGGC
** * * * *
368880 ATTTTTAGCACCAATTTTTC-TAAAGTCTAAGTTCATGCCTCAAATGAGACCAATATAGATTGTA
195 ATTTTTCCCACCAA-TTTTCGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTA
*
368944 GTAATGATCTTCATTCATTTTGTGATTAGGCA-TATAAGCACATTCTCCTCATTAGGATAAATGA
259 GTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGA
* * * *
369008 TATTAATGATTTTCTTTTCCATGGAAATCTTTTCTTTACCTTATTTTTCCTTAAATCGAAGTTCA
324 TATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTA-TTTTCCTTAAATCAAAGTTCA
* * **
369073 TACATTAAATACA-ACAAGCATCGATTCCTATAATTGTCTCCATTCTTTTCAAGATTGGG-AGCC
388 TACCTTAAATA-AGACAAGCATCGATT-CTCTAACAGTCTCCATTCTTTTCAAGATTGGGAAGCC
** *
369136 AAACAAAACACATTCCCTTTTTTAGGT
451 --A-AAAACACATTCCCTTCATTAGGA
** * * *
369163 TGCATGACATTGATGCTTTAATGTCGCAAGAAAAACTTTTCGTTCCACCGTTTTTGATAGAATCA
1 TGCATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCA
* * * *
369228 ATGTTTGTCTCC-TAAATACGACAAACATGAATACTCATACTAATCTCCATTCTTTTCAGGATTA
66 AAGTTTGTC-CCTTAAATACGACAAACATAAATACTCATACTAATCCCCATTCTTTTCAAGATTA
* *
369292 GGCACCATAAACATTGTCTTCTCTTTAGGATACATCATATTGATGCTTTGGTTTCACAAGAAAGG
130 GGCACCATAAAC-TAGTCTTCTCTTTAGGATACATCATATTGATGCTTTGGTATCACAAGAAAGG
** * * *
369357 C-TTCTTTCCCATGAATTTTCGTAAACTCTAAGTTCATGCCTCAAATGAAACAAACATTGATTCT
194 CATT-TTTCCCACCAATTTTCGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCT
* *
369421 AGTAATGATCTTTATTCATTTTGTGATTAGGCAATATAAA
258 AGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAA
369461 TGCTGAGAAC
Statistics
Matches: 1049, Mismatches: 168, Indels: 59
0.82 0.13 0.05
Matches are distributed among these distances:
472 98 0.09
473 192 0.18
474 317 0.30
475 10 0.01
476 296 0.28
477 13 0.01
478 117 0.11
479 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (474 bp):
TGCATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCA
AAGTTTGTCCCTTAAATACGACAAACATAAATACTCATACTAATCCCCATTCTTTTCAAGATTAG
GCACCATAAACTAGTCTTCTCTTTAGGATACATCATATTGATGCTTTGGTATCACAAGAAAGGCA
TTTTTCCCACCAATTTTCGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGT
AATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATA
TTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAAATCAAAGTTCATAC
CTTAAATAAGACAAGCATCGATTCTCTAACAGTCTCCATTCTTTTCAAGATTGGGAAGCCAAAAA
CACATTCCCTTCATTAGGA
Found at i:371127 original size:51 final size:51
Alignment explanation
Indices: 371072--371169 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
371062 AAGTGAAAAA
*
371072 AGAGATAAGAA-GAATGATAGGAGGAGAGATAAAAGAGATAGTAGAGATAGT
1 AGAGATAA-AAGGAATGATAGGAGGAGAGATAAAAGAGATAATAGAGATAGT
* * **
371123 AGAGATAAAAGGGATGATAGGATGAGAGATAGGAGAGATAATAGAGA
1 AGAGATAAAAGGAATGATAGGAGGAGAGATAAAAGAGATAATAGAGA
371170 GAGGAGGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (51 bp):
AGAGATAAAAGGAATGATAGGAGGAGAGATAAAAGAGATAATAGAGATAGT
Found at i:371178 original size:42 final size:42
Alignment explanation
Indices: 371105--371186 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
371095 GAGAGATAAA
* * * *
371105 AGAGATAGTAGAGATAGTAGAGATAAAAGGGATGATAGGATG
1 AGAGATAGGAGAGATAATAGAGAGAAAAGGGATGACAGGATG
**
371147 AGAGATAGGAGAGATAATAGAGAGAGGAGGGATGACAGGA
1 AGAGATAGGAGAGATAATAGAGAGAAAAGGGATGACAGGA
371187 GAAGGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.45, C:0.01, G:0.39, T:0.15
Consensus pattern (42 bp):
AGAGATAGGAGAGATAATAGAGAGAAAAGGGATGACAGGATG
Found at i:377022 original size:478 final size:477
Alignment explanation
Indices: 376121--379942 Score: 4574
Period size: 478 Copynumber: 8.1 Consensus size: 477
376111 GTTGTCATCA
* * *
376121 ATAAACACATTCTCCTCATTAGGATAAATGATATCGATGATTTTCTTTTGCATGAAAATTTTTTC
1 ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
* * *
376186 TTTGCCCTATGTTT-CTTATAATCAAAGTTTA-GCCTTTAAATAAGACAAGTATCGATTCTTGTA
66 TTTGCCCTAT-TTTCCTTA-AATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTA
* * * * *
376249 ACAATCTCCATTCTTTTCAAAATTGGAAAGCC-AAAACACATCCGCTTT-ATTAGGATACATGAC
129 ACAATCTCCATTCTTTTCAAGACTGGGAAGCCAAAAACACATTC-CTTTCATTAGGATGCATGAC
* * * * ** * *
376312 AATGATGCTTTAGTGTCAAAAGAAAAGCTTTTCCTTCCACCGTATTTTAA-AGAATCGAAGTTTA
193 ATTGAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCACCAT-TTTTAATAGAATCAAAGTTTA
* * * * * ** * *
376376 TCTCTTAAATAGGACAAGCACGAATACTCATACTAATCGCCATTCATTTCAGGATAAGGCACCAT
257 TCTCTTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCAT
* ** * * ** * * *
376441 AAACACAACCTTCTCAATAAGATACAAAATATTGATGCTTTGGTTTCGCAAGAAAGACATTTTTC
322 AAACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTC
* * * *
376506 CCATCAATTTTCGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAATGAT
387 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGAT
376571 CTTCATTCATTTTGTGATTAGGCACT
452 CTTCATTCATTTTGTGATTAGGCACT
* * *
376597 ATAAACACATTCTCCACATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTT
1 ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
* * * * * *
376662 TTTGCCGTATTTTCCATTAAATCAAAATTCATACC-TTAAATAAGATAAGCATCGATTCTTGCAA
66 TTTGCCCTATTTTCC-TTAAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTAA
* * * * * *
376726 CAGTCTCCATTTTTTTTCAAGACCGGGAAACTAAAAACACATTCCTTTCATTAGGATGCAAGACA
130 CAATCTCCA-TTCTTTTCAAGACTGGGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGACA
** * *
376791 TTGAAGAATTGGTGTCACAAGAAAAGCTTTTGTTTCCACCATTTTTAATAAAATCAAAGTTTGTC
194 TTGAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCACCATTTTTAATAGAATCAAAGTTTATC
* * * *
376856 TCTTAAATAAGACAAACTTGAATACTCCTCCTAATCCCCTTTTTTTTCAGTATTAGGCAGCATAA
259 TCTTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCATAA
* *
376921 ACATAGTTTTCTCATTATGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCC
324 ACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCC
* * * * * *
376986 ACCAATTTTTGTAAAGTCTAAGTTCGTGCATCAAATGAGGCAAATAGGGATTCCAGTAATGATCT
389 ACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGATCT
* *
377051 TCATTCAGTTTGTGATTAGGAACT
454 TCATTCATTTTGTGATTAGGCACT
* *
377075 ATAAACACATTCTCCTCATTAGGATAAATGATAATGATGATTTTCTTTTGCATGAAAATCTTTTC
1 ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
*
377140 TTTGCCCTGTTTTCCTTAAAATCAAAGTTTAT-CCTTTAAATAAGACAAGCATCGATTCAT-GTA
66 TTTGCCCTATTTTCCTT-AAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTC-TCGTA
* * * *
377203 ATAGTCTCCATTCTTTTCAAGATTGGGAAGCC-AAAACACATTCCTTTCATTAGGATGCAAGACA
129 ACAATCTCCATTCTTTTCAAGACTGGGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGACA
* * * * * *
377267 TTGAAGCTTTGGTATCGCAAGAAAAGTTTTTCTTTCCACC------AATAGAATCAAAATTTATA
194 TTGAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCACCATTTTTAATAGAATCAAAGTTTATC
*
377326 TCTTAAATAAGACAAACATGAGTACTCCTACTAAT-CCCATTTTTTTCAGGATTAGGCAGCATAA
259 TCTTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCATAA
* * *
377390 ACATAGTCTTCTCATTAGGATACATCATATTGATGCTTTGGTTTTGCTAGAAAGGCTTTTTTCCC
324 ACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCC
* * * *
377455 ACCAATTTTTGTAAAGTC-AAGTTCGTGCCTCAAATGAGACAAGCTTAGAATCTAGTAAAGATCT
389 ACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGATCT
*
377519 TCATTCATTTTGTAATTAGGCACT
454 TCATTCATTTTGTGATTAGGCACT
* * *
377543 ATAAACACATTGTCCTCGTTAGGATAAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTC
1 ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
* *
377608 TTTGTCCTATTTTCCTTAAAATCAAAGTTTAT-CCTTTAAACAAGACAAGCATCGATTCTCGTAA
66 TTTGCCCTATTTTCCTT-AAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTAA
* * * * * * *
377672 TAATCTCCATTCTTTTCAATACTGGGAAGTCAAAAACACATTCCTTTCAATAGGATACCTGACGT
130 CAATCTCCATTCTTTTCAAGACTGGGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGACAT
* * **
377737 T-AATGCTTTGGTGTCATAAGAAAGGCTTTT-TTTCCACTGTTTTTTAA-AGAATCAAAGTTTAT
195 TGAA-GCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCAC-CATTTTTAATAGAATCAAAGTTTAT
* ** * * *
377799 CTCTTAAATAAGACAAACATGAAGACTAGTACTAAT-CCCATTGTTTTCAGGATTAGGTACCATA
258 CTCTTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCATA
* * * **
377863 AGCATAGTCTTCTCATTATGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGACTTTTTTTG
323 AACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCC
* * * * * * * * *
377928 CACCAAGTTTTGTAAAGTCTAACTTTGTGTCTTAAATGAGCCAAACATGGATTCTAGTTATGACC
388 CACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGATC
* *
377993 TTTATTCATTTTGTGATTAGGGACT
453 TTCATTCATTTTGTGATTAGGCACT
* * * *
378018 ACAAACACATTCAT-CTTATTAGGATAAATTATATTGATGATTTTCTTTTACATGGAAATCTTTT
1 ATAAACACATTC-TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTT
* * *
378082 CTTTGCCCTATTTTCCTTTAAATCAAAGTTCATACC-TTAAAGAAGACAAGCACCGATTCTCGTA
65 CTTTGCCCTATTTTCC-TTAAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTA
** * *
378146 ACAATCTCCATTCTTTTCAAGA-TGAGGAAGCCAAAAATGCATTCCCTTCATTAGGAAGCATGAC
129 ACAATCTCCATTCTTTTCAAGACTG-GGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGAC
* * * *
378210 ATTGAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTTCACAATTTTTGATAGAATCAAAGTTTGT
193 ATTGAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCACCATTTTTAATAGAATCAAAGTTTAT
** **
378275 CTCTTAAA-AAGGACAAACATGAATACTCCTACTAATCCCTGTTCTTTTT-AATATTAGGCAGCA
258 CTCTTAAATAA-GACAAACATGAATACTCCTACTAATCCCCATT-TTTTTCAGGATTAGGCAGCA
*
378338 TAAACAAAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTT
321 TAAACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTT
* * ** * * * *
378403 CTCACCAATTTTTGTAAGGTCTAAGTTTATGCCTCAAATGAGATAAAAAAGGATTCTAATAAAGA
386 CCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGA
*
378468 TCTTCATTCATTTTGTGATTAGGCATT
451 TCTTCATTCATTTTGTGATTAGGCACT
378495 ATAAACACATTCTCCAT-ATTAGGATAAATG--A-TGATGATTTTCTTTTGCATGGAAATCTTTT
1 ATAAACACATTCTCC-TCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTT
* * * * * *
378556 CTTTGCCCTATTTTTCTAAAAATCAAAGTTTATACC-TTAGATAAGACAAGTATCAATTCTCATA
65 CTTTGCCCTATTTTCCT-TAAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTA
* * * ** * * *
378620 ATAGTTTTGACTCTTTTCAAGACTGGGAAGCCAAAAACACAATCCCTTT--TTCAAGATGCATGA
129 ACAATCTCCATTCTTTTCAAGACTGGGAAGCCAAAAACAC-ATTCCTTTCATT-AGGATGCATGA
* ** * *
378683 CATTGAAGATTTGGTGTTGCAAGAATTA-CTTTTGTTTCCACCATTTTTGATAGAATCAAAGTTT
192 CATTGAAGCTTTGGTGTCACAAGAA-AAGCTTTTGTTTCCACCATTTTTAATAGAATCAAAGTTT
* * ** *
378747 ATCTCTTAAATAAGA-AAA-A-CAATGCTCCTACTAATCCCTTTTTTTTTCAGGATTAGGTAGCA
256 ATCTCTTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCA
* * * * * **
378809 TAAACAAAGTCTTCTCATTAGGATACACCAGAGTGATGCTTTGGTTTCTTAAGAAAGGCTTTTTT
321 TAAACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTT
* * *
378874 -CCACCAATTATTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAGCATAGATTCTAGTAAAGA
386 CCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGA
378938 TCTTCATTCATTTTGTGATTAGGCACT
451 TCTTCATTCATTTTGTGATTAGGCACT
* * *
378965 ATAAACACATTGTCCTCATTAGGATAAATGATATTGATAATTGTT-TTTTGCATGGAAATATTTT
1 ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATT-TTCTTTTGCATGGAAATCTTTT
* *
379029 CTTTGCCCTATTTTCCTTAAAATCAAAGTTGAT-CCTTTAAATAAGACAAGCATCGA-T-TCATA
65 CTTTGCCCTATTTTCCTT-AAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTA
* * * ** *
379091 ATAGTCTCCATTTTTTTCAAGACTGGGAAGCCAAAAACACATTCCCATCATTAGGATACATGACA
129 ACAATCTCCATTCTTTTCAAGACTGGGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGACA
* * * * * *** * *
379156 TTGATGCTCTCGTGTCGCTAGAAAAGCTTTT-TTTCCATGTTTCTTTAA-AAAATCAAAGTTTTT
194 TTGAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCACCATT-TTTAATAGAATCAAAGTTTAT
* * * * * *
379219 CTCTTAAATAGGACAAACATGAATACTAAC-ACTAATCCCCATTCTTTTCAAGATTAGGTACCAT
258 CTCTTAAATAAGACAAACATGAATACT-CCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCAT
* * *
379283 AAACATAGTGTTCTCATTAGGATACATCATATTAATGCTTTAGTTTCGCAAGAAAGACTTTTTTC
322 AAACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTC
* * *
379348 GCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTTATGAT
387 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGAT
* *
379413 CTTTATTCATTTTGTGATTAGGGACT
452 CTTCATTCATTTTGTGATTAGGCACT
* *
379439 ATAAACACATTCTCCTCTTTAGGAGAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
1 ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
* * * *
379504 TTTACCCCATTTTCCTTTAAATCAAGGTTTATACC-TTAAATAAGACAAGCATCAATTCTCGTAA
66 TTTGCCCTATTTTCC-TTAAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTAA
* * * *
379568 CAATCTCTATTCTTTTCAAGA-TGGGGAAGCCAAAAACGCATTCCCTTCATTAGGAAGCATGA-A
130 CAATCTCCATTCTTTTCAAGACT-GGGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGACA
* * * * * * *
379631 TTTGAAGCTTTGGGGTCGCAAGAAAAGCTTTTTTTTTCCATCTTTTTTTATAGAATCAAAGTTTG
194 -TTGAAGCTTTGGTGTCACAAGAAAAGC-TTTTGTTTCCACCATTTTTAATAGAATCAAAGTTTA
* * * * ** **
379696 TCTCCTAAAAAAGACAAACATAAATACTCCTACTAATCTCCATGCTTTTCAATATTAGGCAGCAT
257 TCTCTTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCAT
* * * * *
379761 AAGCATAGTCTTCTCATTAGGATACATCATTTTGATGCTTTGATTTCACAAGAAAGGCTTTTTTC
322 AAACATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTC
* * * *
379826 CTACCAATTTTTATAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGAATTCTAATAAAGAT
387 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGAT
* * **
379891 CTTCATCCATTCTACGATTAGGCACT
452 CTTCATTCATTTTGTGATTAGGCACT
* *
379917 ATAAACAGATTCTCCTTTATTAGGAT
1 ATAAACACATTCTCC-TCATTAGGAT
379943 CTTGGTTTTC
Statistics
Matches: 2867, Mismatches: 411, Indels: 133
0.84 0.12 0.04
Matches are distributed among these distances:
467 1 0.00
468 212 0.07
469 156 0.05
470 197 0.07
471 170 0.06
472 8 0.00
473 167 0.06
474 521 0.18
475 273 0.10
476 318 0.11
477 232 0.08
478 604 0.21
479 8 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (477 bp):
ATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTC
TTTGCCCTATTTTCCTTAAATCAAAGTTTATACCTTTAAATAAGACAAGCATCGATTCTCGTAAC
AATCTCCATTCTTTTCAAGACTGGGAAGCCAAAAACACATTCCTTTCATTAGGATGCATGACATT
GAAGCTTTGGTGTCACAAGAAAAGCTTTTGTTTCCACCATTTTTAATAGAATCAAAGTTTATCTC
TTAAATAAGACAAACATGAATACTCCTACTAATCCCCATTTTTTTCAGGATTAGGCAGCATAAAC
ATAGTCTTCTCATTAGGATACATCATATTAATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCAC
CAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGATCTTC
ATTCATTTTGTGATTAGGCACT
Found at i:380240 original size:13 final size:13
Alignment explanation
Indices: 380222--380246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
380212 CACACCCAGA
380222 TGTATCGATACAT
1 TGTATCGATACAT
380235 TGTATCGATACA
1 TGTATCGATACA
380247 AGTTCATTGC
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:380280 original size:20 final size:19
Alignment explanation
Indices: 380230--380287 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
380220 GATGTATCGA
*
380230 TACATTGTATCGATACAAG
1 TACATTGTATCGATACATG
* *
380249 TTCATTGCATCGATACATG
1 TACATTGTATCGATACATG
380268 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
380288 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:380348 original size:13 final size:13
Alignment explanation
Indices: 380330--380354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
380320 CATGGCACAT
380330 TGTATCGATACAA
1 TGTATCGATACAA
380343 TGTATCGATACA
1 TGTATCGATACA
380355 TGATGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:380365 original size:33 final size:33
Alignment explanation
Indices: 380310--380374 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
380300 GCTACCTATT
*
380310 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTACCGATACAA
380343 TGTATCGATACATGATG-A-ATTGTACCGATACA
1 TGTATCGATACATG--GCACATTGTACCGATACA
380375 TTGCTTCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTACCGATACAA
Found at i:383368 original size:13 final size:13
Alignment explanation
Indices: 383350--383375 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
383340 TACACATAAG
383350 ATGTATCGATACA
1 ATGTATCGATACA
383363 ATGTATCGATACA
1 ATGTATCGATACA
383376 TCCCAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:383392 original size:33 final size:32
Alignment explanation
Indices: 383332--383395 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
383322 CTTAATTGTT
* *
383332 TGTATCGATACACATAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
383364 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
383396 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:391905 original size:20 final size:20
Alignment explanation
Indices: 391860--391916 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
391850 TTGTATTGAT
391860 ACAA-TGTATCGATACAT-G
1 ACAATTGTATCGATACATGG
**
391878 TTAATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
391898 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
391917 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 18 0.55
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:394532 original size:74 final size:74
Alignment explanation
Indices: 394407--394554 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
394397 TCCCAAAACG
* ** * *
394407 TATGTTTTGTTGCGGACAACAATGACATACCTCGGCTATGGCATTGGAAATTAGGACATGCAAGT
1 TATGTTTTGTTACGGACAACAATGACATACCTCGGCTATGGCACCGAAAATTAGGACAAGCAAGT
394472 ATGAGTGTA
66 ATGAGTGTA
* * *
394481 TATGTTTTGTTACGGACAACAATGATATACCTTGGCTATGGCCCCGAAAATTAGGACAAGCAAGT
1 TATGTTTTGTTACGGACAACAATGACATACCTCGGCTATGGCACCGAAAATTAGGACAAGCAAGT
394546 ATGAGTGTA
66 ATGAGTGTA
394555 CTTTCTAAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (74 bp):
TATGTTTTGTTACGGACAACAATGACATACCTCGGCTATGGCACCGAAAATTAGGACAAGCAAGT
ATGAGTGTA
Found at i:399683 original size:20 final size:19
Alignment explanation
Indices: 399658--399709 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
399648 TTTGTTGATG
*
399658 ATTTTGAAGAAAAATGAAGT
1 ATTTTGAAGAAAAAT-AAGA
399678 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAA--GAAAAATAAGA
*
399699 AATTTGAAGAA
1 ATTTTGAAGAA
399710 GATTTGATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 3 0.11
20 8 0.29
21 10 0.36
22 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (19 bp):
ATTTTGAAGAAAAATAAGA
Found at i:399833 original size:13 final size:13
Alignment explanation
Indices: 399815--399840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
399805 ATAGTACCCT
399815 TTGTATCGATACA
1 TTGTATCGATACA
399828 TTGTATCGATACA
1 TTGTATCGATACA
399841 AAGAATATTG
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):
TTGTATCGATACA
Found at i:407262 original size:79 final size:77
Alignment explanation
Indices: 407133--407350 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 77
407123 GATGGGGCTG
* * *
407133 GAGTATCCTC-GATTATGGAAAATCGGTGTTTTGGAAGTAAAATCGGGGTTGGAGTATCCCTTCA
1 GAGTATCC-CAGATTATAGAAAATCGGTGTTTTGAAAATAAAATC-GGGTTGGAGTATCCC-TCA
*
407197 GAAATAACAGGGTTG
63 GAAATAACAGGGTTA
* * * *
407212 GAGTATCCCTA-ATTTTAGAAAATCCGTATTTTGAAACTAAAATCGAGGTTGGAGTATCTCCTCA
1 GAGTATCCC-AGATTATAGAAAATCGGTGTTTTGAAAATAAAATCG-GGTTGGAGTATC-CCTCA
*
407276 GAAATAACGGGGTTA
63 GAAATAACAGGGTTA
*
407291 GAGTATCCCAGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
1 GAGTATCCCAGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGG-GTTGGAGTATCCC
407351 CAATTGTGAA
Statistics
Matches: 120, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 6 0.05
79 112 0.93
80 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (77 bp):
GAGTATCCCAGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGGTTGGAGTATCCCTCAGAA
ATAACAGGGTTA
Found at i:407350 original size:51 final size:50
Alignment explanation
Indices: 407286--407400 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 50
407276 GAAATAACGG
* *
407286 GGTTAGAGTATCCCAGATTATAGAAAA-TTGGTGTTTT-GAAAATAAAATCG-
1 GGTTGGAGTATCCCA-ATTAT-GAAAATTTGGTATTTTAG-AAATAAAATCGA
*
407336 GAGTTGGAGTATCCCCAATTGTGAAAATTTGGTATTTTAGAAATAAAATCGA
1 G-GTTGGAGTAT-CCCAATTATGAAAATTTGGTATTTTAGAAATAAAATCGA
407388 GGTTGGAGTATCC
1 GGTTGGAGTATCC
407401 TCTTGAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
50 8 0.14
51 43 0.75
52 6 0.11
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCCAATTATGAAAATTTGGTATTTTAGAAATAAAATCGA
Found at i:407508 original size:51 final size:51
Alignment explanation
Indices: 407445--407664 Score: 203
Period size: 51 Copynumber: 4.3 Consensus size: 51
407435 ACCTAACGGG
* ** * *
407445 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTGGGAATATAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATATAATCGGA
* * *
407496 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAGATGA-AATAGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAAT-ATAATCGGA
* * ** ** * * * * *
407546 GAATGGAGTATCCCCGGTTGCGGTAAATCGTTGCTTTAGAAATAAAATCAGA
1 G-TTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATATAATCGGA
* *
407598 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAAT-TAAACCGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATATAATCGGA
407648 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
407665 GATGAAAAAT
Statistics
Matches: 133, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
50 8 0.06
51 123 0.92
52 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATATAATCGGA
Found at i:409998 original size:20 final size:19
Alignment explanation
Indices: 409973--410084 Score: 116
Period size: 20 Copynumber: 5.6 Consensus size: 19
409963 ATGCCTGAAA
*
409973 GTATCGATACATTGTAAAAT
1 GTATCGATACAATG-AAAAT
*
409993 GTATCGATACAATGAGCAAT
1 GTATCGATACAATGA-AAAT
*
410013 GTATCGATACAATGCAAAGT
1 GTATCGATACAATG-AAAAT
* **
410033 GTATCGATACAAAGAGCGAT
1 GTATCGATACAATGA-AAAT
*
410053 GTATCGACACAATGAACAAT
1 GTATCGATACAATGAA-AAT
410073 GTATCGATACAA
1 GTATCGATACAA
410085 ATTGTGAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 72 0.96
21 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (19 bp):
GTATCGATACAATGAAAAT
Found at i:410036 original size:40 final size:39
Alignment explanation
Indices: 409973--410085 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 39
409963 ATGCCTGAAA
* *
409973 GTATCGATACATTGTAAAATGTATCGATACAATGAGCAAT
1 GTATCGATACAATG-AAAATGTATCGATACAAAGAGCAAT
* *
410013 GTATCGATACAATGCAAAGTGTATCGATACAAAGAGCGAT
1 GTATCGATACAATG-AAAATGTATCGATACAAAGAGCAAT
*
410053 GTATCGACACAATGAACAATGTATCGATACAAA
1 GTATCGATACAATGAA-AATGTATCGATACAAA
410086 TTGTGAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.03
40 63 0.97
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (39 bp):
GTATCGATACAATGAAAATGTATCGATACAAAGAGCAAT
Found at i:412172 original size:20 final size:19
Alignment explanation
Indices: 412121--412173 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
412111 ATTGGATGAA
*
412121 TTTGATGTGTAATTATGTTG
1 TTTGATGTG-AATTATCTTG
412141 TGTT-AT-TGAATTATACTTG
1 T-TTGATGTGAATTAT-CTTG
412160 TTTGATGTGAATTA
1 TTTGATGTGAATTA
412174 GGGTCTGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 10 0.36
21 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.53
Consensus pattern (19 bp):
TTTGATGTGAATTATCTTG
Found at i:414525 original size:19 final size:20
Alignment explanation
Indices: 414501--414553 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
414491 CATTATGCTT
*
414501 TGTATCGATACATGTTC-AC
1 TGTATCGATACATGTACAAC
*
414520 TGTATCGATACATGTACAAT
1 TGTATCGATACATGTACAAC
*
414540 TGTATCGATGCATG
1 TGTATCGATACATG
414554 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGTACAAC
Found at i:414545 original size:20 final size:19
Alignment explanation
Indices: 414481--414553 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
414471 CACACCCAGA
*
414481 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTA--CAT
* *
414501 TGTATCGATACATGTTCAC
1 TGTATCGATACATGTACAT
414520 TGTATCGATACATGTACAAT
1 TGTATCGATACATGTAC-AT
*
414540 TGTATCGATGCATG
1 TGTATCGATACATG
414554 AAACTGGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.38
20 27 0.60
21 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTACAT
Found at i:414607 original size:20 final size:19
Alignment explanation
Indices: 414582--414635 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
414572 CTACCACTAT
414582 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
414602 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
414622 TTGTATCGATACAT
1 TTGTATCGATACAT
414636 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:416679 original size:80 final size:81
Alignment explanation
Indices: 416586--416738 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 81
416576 GACAAAAATG
* * *
416586 AATACTTATACTAATCCCCATTC-TTTTTTTCAGGGTTAGGCACCATAAACATAGTCTTCTCATT
1 AATACTCATACTAATCCCCATTCTTTTTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATT
416650 ACGATACACGATATTA
66 ACGATACACGATATTA
416666 AATACTCATACTAATCCCCATTCTTTTTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATT
1 AATACTCATACTAATCCCCATTCTTTTTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATT
*
416731 AGGATACA
66 ACGATACA
416739 TAATATTGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
80 22 0.32
81 46 0.68
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (81 bp):
AATACTCATACTAATCCCCATTCTTTTTTTTAAGGATTAGGCACCATAAACATAGTCTTCTCATT
ACGATACACGATATTA
Found at i:418203 original size:20 final size:20
Alignment explanation
Indices: 418162--418230 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
418152 GTTACAAGCT
418162 ATGTATCGATACA-TG-A--
1 ATGTATCGATACATTGTACC
418178 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
418198 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
418218 ATGTATCGATACA
1 ATGTATCGATACA
418231 AATAGTGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
16 13 0.29
17 1 0.02
20 29 0.64
21 1 0.02
22 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:418305 original size:19 final size:19
Alignment explanation
Indices: 418260--418333 Score: 94
Period size: 19 Copynumber: 3.7 Consensus size: 19
418250 CTGCCAGTTT
*
418260 CATGTATCGATACAATTTGAC
1 CATGTATCGATACAA--TGAA
418281 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
418300 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AA
418320 CATGTATCGATACA
1 CATGTATCGATACA
418334 TCTGGGTGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.39
20 15 0.31
21 15 0.31
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:419298 original size:159 final size:158
Alignment explanation
Indices: 418661--419803 Score: 445
Period size: 159 Copynumber: 7.2 Consensus size: 158
418651 TAGGCACTCT
* * * * * * * *
418661 AAACACATTCTCCTTATTTGGATAAGTGATATTGATGATTT-TTTTTGCATGGAAATCTTTTCTT
1 AAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTGGTTTCG-AAGGAAAGCATTTCTT
* * * ** * * *
418725 TGC-CTGATTTTCTTTAAAATCAAAGTTTATCCCATAAATAAGACAGGCATCGATTCCTGTAACA
65 T-CACTGATTTTCCTTAAAATCAAAGTTTATGCCTTAAATAAGACAAACATCGATTCTTATAATA
*
418789 GTCTCCATTCTTTTCAAGATTTGGAAGCCA-
129 GTCTCCATTCTTTTCAAGATTAGGAA-CCAG
* * * * * ** * *
418819 AAACACATTC-CTTTCATTAGGTTACATGACATTGATGCTTTGGTGCCGTAAGAAAAGCTTTTCT
1 AAACACATTCTC-CTCATTAGGATAAATGATATTGATGATTTGGTTTCG-AAGGAAAGCATTTCT
* ** * * * *
418883 TTCTACTGTTTTTGATT-GAATCAAAGTTTGT-CTCTTAAATAAGACAAACAT-GAATACTCATA
64 TTC-ACTGATTTTCCTTAAAATCAAAGTTTATGC-CTTAAATAAGACAAACATCG-ATTCTTATA
* * * * *
418945 CTAAG-CCCCATT-TTTTTAGGATTAGGCACCAG
126 AT-AGTCTCCATTCTTTTCAAGATTAGGAACCAG
* * * * *
418977 AAACA-TTGTCTTCTCATTAGGATAAATGATATTGATGCTTTGGTTTC-ACAAGAAAGGCATTTT
1 AAACACAT-TCTCCTCATTAGGATAAATGATATTGATGATTTGGTTTCGA-AGGAAA-GCATTTC
* * * * ** ** * *
419040 TTTCACTAATTTTTC-TAAAGTCTAAGTTCGTGCCTCGAATGAGACAAACATAGATTC-TAGTAA
63 TTTCACTGATTTTCCTTAAAATCAAAGTTTATGCCTTAAATAAGACAAACATCGATTCTTA-TAA
* ** * * *
419103 T-GATCTTCATTCATTTT-GGGATTAGGCACTAT
127 TAG-TCTCCATTC-TTTTCAAGATTAGGAACCAG
* ** *
419135 AAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTCGAATGGAAATCATTTCTT
1 AAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTGGTTTCGAA-GGAAAGCATTTC-T
* *
419200 TTCCCT-ATTTTCCTTAAAATCAAAGTTTATGCCTTAAATAAGACAAGCATCGATTCTTATAATA
64 TTCACTGATTTTCCTTAAAATCAAAGTTTATGCCTTAAATAAGACAAACATCGATTCTTATAATA
* *
419264 GTCTCCATTCCTTTCAAGATTGGGAAACCA-
129 GTCTCCATTCTTTTCAAGATTAGG-AACCAG
* * ** * * * * * * * *
419294 AAACACATT-TCCTTCGTTAAGATGCATAACATTAAAGCTTTGGTGTCGCAAGAAAAGCTTTTCT
1 AAACACATTCTCC-TCATTAGGATAAATGATATTGATGATTTGGTTTCG-AAGGAAAGCATTTCT
* * * * * *
419358 TTCCAC-CATTTTCGTTTTTGAAAGAATCAAAGTTTGT-CTCTTAAATAAGACCAATAT-GAATA
64 TT-CACTGATTTTC---CTT--AA-AATCAAAGTTTATGC-CTTAAATAAGACAAACATCG-ATT
* * * * * * ** *
419420 GTCATACTAATCCCCATTCTTTTCAAGATTAGGCATAAT
120 CTTATAATAGTCTCCATTCTTTTCAAGATTAGGAACCAG
* * * * * * * *
419459 AAACATAGTT-TTCTCACTAGGATACATCATGTTGATGCTTTGGTTTC-ACAGAAAAGCATTT-T
1 AAACACA-TTCTCCTCATTAGGATAAATGATATTGATGATTTGGTTTCGA-AGGAAAGCATTTCT
** ** * * ** * * * *
419521 CCCACCAATTTT--TGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAATAAT
64 TTCACTGATTTTCCT-TAAAATCAAAGTTTATGCCTTAAATAAGACAAACATCGATTCTTATAAT
* ** * * * *
419584 -GATCTTCATTCATTTT-GTGATAAGGCACTAT
128 AG-TCTCCATTC-TTTTCAAGATTAGGAACCAG
* ** *
419615 AAACACAATCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAGG-AA--ATTTCTT
1 AAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTGGTTTCG-AAGGAAAGCATTTCTT
* * * * * * *
419677 TGCCCT-ATTTTCCTTAAAATTAAAGTTCATACCTTAAATAAG-CAAGCATCGATTCTCA-AAGC
65 T-CACTGATTTTCCTTAAAATCAAAGTTTATGCCTTAAATAAGACAAACATCGATTCTTATAA-T
*
419739 AGTCTCCATTC-TTACAAGATT-GGTAAGCCA-
128 AGTCTCCATTCTTTTCAAGATTAGG-AA-CCAG
* *
419769 AAACACATTC-CCTTCATTAGGATACATGACATTGA
1 AAACACATTCTCC-TCATTAGGATAAATGATATTGA
419804 CACTTTGGTA
Statistics
Matches: 725, Mismatches: 197, Indels: 130
0.69 0.19 0.12
Matches are distributed among these distances:
153 6 0.01
154 39 0.05
155 31 0.04
156 111 0.15
157 63 0.09
158 168 0.23
159 170 0.23
160 19 0.03
162 5 0.01
163 7 0.01
164 17 0.02
165 85 0.12
166 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (158 bp):
AAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTGGTTTCGAAGGAAAGCATTTCTTT
CACTGATTTTCCTTAAAATCAAAGTTTATGCCTTAAATAAGACAAACATCGATTCTTATAATAGT
CTCCATTCTTTTCAAGATTAGGAACCAG
Found at i:420550 original size:20 final size:19
Alignment explanation
Indices: 420521--420627 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 19
420511 TTTACCCAGA
*
420521 TGTATTGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
420541 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
420561 TGTATTGAT--A----CAT
1 TGTATCGATACATTTTCAT
420574 TGTATCGATACATTGCTT-AT
1 TGTATCGATACATT--TTCAT
*
420594 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
420614 TGTATCGATACATT
1 TGTATCGATACATT
420628 CAGGCATTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
18 3 0.04
20 55 0.77
21 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:420574 original size:13 final size:13
Alignment explanation
Indices: 420558--420588 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
420548 ATACATTGCT
*
420558 CATTGTATTGATA
1 CATTGTATCGATA
420571 CATTGTATCGATA
1 CATTGTATCGATA
420584 CATTG
1 CATTG
420589 CTTATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:420580 original size:33 final size:33
Alignment explanation
Indices: 420538--420607 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
420528 ATACATTTTG
*
420538 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
420571 CATTGTATCGATACATTGCTTATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
420604 CATT
1 CATT
420608 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:423107 original size:102 final size:102
Alignment explanation
Indices: 422920--423154 Score: 278
Period size: 102 Copynumber: 2.3 Consensus size: 102
422910 AAGTTTCTCA
* * * ** *
422920 AATTTTCATAATCAGGGGTACTCCAGCCCCGGTTTTATTTCTAAAACAGTAGTTTTTCACAATCG
1 AATTTTCATAATCAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCG
* *
422985 AGGATACTGCAACTCCGATTTTATTTTC-GAAACACC
66 AGGATACTGCAACTCCGATTTTATTTCCAAAAACACC
* *
423021 AATTTTCCATAATCAGGGATACTCCAACCCCAGTTTTATTT-TCAAAACACCAA-TTTTCTATAT
1 AATTTT-CATAATCAGGGATACTCCAACCCCAGTTTTATTTCT-AAAACACCAATTTTTC-ACAA
* * *
423084 TCGGGGATACTTCAACTCTGATTTTATTTCCAAAAACACC
63 TCGAGGATACTGCAACTCCGATTTTATTTCCAAAAACACC
* *
423124 AATTTTTCACAATCGGGGATACTCCAACCCC
1 AA-TTTTCATAATCAGGGATACTCCAACCCC
423155 GTTAATCATC
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
101 12 0.11
102 67 0.59
103 31 0.27
104 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (102 bp):
AATTTTCATAATCAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCG
AGGATACTGCAACTCCGATTTTATTTCCAAAAACACC
Found at i:423142 original size:52 final size:51
Alignment explanation
Indices: 422922--423151 Score: 216
Period size: 51 Copynumber: 4.5 Consensus size: 51
422912 GTTTCTCAAA
* * * * ** *
422922 TTTTCATAATCAGGGG-TACTCCAGCCCCGGTTTTA-TTTCTAAAACAGTAGT
1 TTTTCACAATC-GGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAAT
* * *
422973 TTTTCACAATCGAGGATACTGCAACTCCGATTTTATTTTCGAAACACCAAT
1 TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAAT
* * * *
423024 TTTCCATAATCAGGGATACTCCAAC-CCCAGTTTTATTTTCAAAACACCAA-
1 TTTTCACAATCGGGGATACTCCAACTCCGA-TTTTATTTTCAAAACACCAAT
* * * * *
423074 TTTTCTATATTCGGGGATACTTCAACTCTGATTTTATTTCCAAAAACACCAAT
1 TTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAAT
423127 TTTTCACAATCGGGGATACTCCAAC
1 TTTTCACAATCGGGGATACTCCAAC
423152 CCCGTTAATC
Statistics
Matches: 145, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
50 10 0.07
51 97 0.67
52 33 0.23
53 5 0.03
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAAT
Found at i:423165 original size:27 final size:27
Alignment explanation
Indices: 423135--423213 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
423125 ATTTTTCACA
423135 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
423162 ATCGGGAATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
423188 TTCGCAAGGATACTCCAACCCCGTTA
1 ATCG--GGGATACTCCAACCCCGTTA
423214 TTTTTGAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.11
27 22 0.50
28 17 0.39
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:423209 original size:28 final size:27
Alignment explanation
Indices: 423140--423236 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
423130 TCACAATCGG
**
423140 GGATACTCCAACCCCGTTAATCATCG--
1 GGATACTCCAACCCCGTT-ATTTTCGAA
423166 GGAATACTCCAACCCCGTTATTTTCGCAA
1 GG-ATACTCCAACCCCGTTATTTTCG-AA
*
423195 GGATACTCCAACCCCGTTATTTTTGAA
1 GGATACTCCAACCCCGTTATTTTCGAA
423222 GGGATACTCCAACCC
1 -GGATACTCCAACCC
423237 TGATTTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.11
27 18 0.29
28 36 0.57
29 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTTCGAA
Found at i:423342 original size:79 final size:79
Alignment explanation
Indices: 423195--423369 Score: 194
Period size: 79 Copynumber: 2.2 Consensus size: 79
423185 ATTTTCGCAA
** *
423195 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTTCCAAGGGATACTCCAACCCTGATTTTATTTTCAAAACAACAA
* *
423260 TTTTCTATAATTAG
66 TTTTCCATAATCAG
** *
423274 GGATACTCCAACCTTGTTA-TTTCCAAGGGGATACTCCAA-CCTCGATTTTA-TTTCTAGAACAA
1 GGATACTCCAACCCCGTTATTTTCCAA-GGGATACTCCAACCCT-GATTTTATTTTC-AAAACAA
**
423336 TGATTTTCCATAATCAG
63 CAATTTTCCATAATCAG
* *
423353 GGGTACTCCAGCCCCGT
1 GGATACTCCAACCCCGT
423370 CGTCATCTCC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 12 0.15
79 67 0.85
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTCCAAGGGATACTCCAACCCTGATTTTATTTTCAAAACAACAA
TTTTCCATAATCAG
Found at i:425465 original size:12 final size:12
Alignment explanation
Indices: 425434--425467 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
425424 TTTTGAGGTG
* *
425434 TTTATTTATTTA
1 TTTATTTGTTGA
425446 TTTATTTGTTGA
1 TTTATTTGTTGA
425458 TTTATTTGTT
1 TTTATTTGTT
425468 TTGTTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTATTTGTTGA
Found at i:435744 original size:18 final size:18
Alignment explanation
Indices: 435716--435766 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
435706 AATCTTTTTC
*
435716 AAAAATAAAAATAA-AAATA
1 AAAAACAAAAA-AACAAA-A
435735 AAAAACAAAAAAACAAAA
1 AAAAACAAAAAAACAAAA
435753 AAAAACAAAGAAAA
1 AAAAACAAA-AAAA
435767 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.86, C:0.06, G:0.02, T:0.06
Consensus pattern (18 bp):
AAAAACAAAAAAACAAAA
Found at i:435756 original size:12 final size:12
Alignment explanation
Indices: 435716--435778 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
435706 AATCTTTTTC
*
435716 AAAAATAAAAAT
1 AAAAATAAAAAA
435728 AAAAATAAAAAA
1 AAAAATAAAAAA
435740 CAAAAA-AACAAAA
1 -AAAAATAA-AAAA
*
435753 AAAAACAAAGAAA
1 AAAAATAAA-AAA
* *
435766 AAAGAGAAAAAA
1 AAAAATAAAAAA
435778 A
1 A
435779 GAGAAGAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
12 23 0.52
13 21 0.48
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.05
Consensus pattern (12 bp):
AAAAATAAAAAA
Found at i:436863 original size:62 final size:60
Alignment explanation
Indices: 436740--437014 Score: 291
Period size: 61 Copynumber: 4.6 Consensus size: 60
436730 CTCCTTTCAC
* *
436740 CTTT-CAGTCCTCAAAAAGCAGTACGC---CTC-TT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
436794 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCTTT-CAAAGCCCACACAAG-TTGGTGGCA
* * * * *
436856 CTTTCCAGTTCTCAAAGAGCAGGACACCTTC-CTTTTCAAAGCCCACATAAGCTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACGCTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
436916 CCTTT--AGTCCTCAAAGAGCAGGACGCTTTCTCATTTTAGAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACGCTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
436976 C-TTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTCA
1 CTTTCC-AGTCCTCAAAGAGCAGGACGCTTTCT-CTTTCA
437015 CCCTTAGTCC
Statistics
Matches: 183, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
54 3 0.02
55 19 0.10
58 5 0.03
59 25 0.14
60 32 0.17
61 60 0.33
62 39 0.21
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (60 bp):
CTTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:436959 original size:121 final size:122
Alignment explanation
Indices: 436771--437012 Score: 332
Period size: 121 Copynumber: 2.0 Consensus size: 122
436761 TACGCCTCTT
* * *
436771 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAG
1 AAAGCCCACACAAGCTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACGCTTTCTCTTTGCAAAG
* *
436836 CCCACACAAGTTTGGTGGCACTTTCC-AGTTCTCAAAGAGCAGGACAC-CT-TCCTTTTC
65 CCCACACAAG-TTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTTC
* * *
436893 AAAGCCCACATAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCTTTCTCATTT-TAGA
1 AAAGCCCACACAAGCTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCTTTCTC-TTTGCAAA
436956 GCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTT
64 GCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTT
437013 CACCCTTAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
119 4 0.04
120 29 0.27
121 41 0.38
122 30 0.28
123 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (122 bp):
AAAGCCCACACAAGCTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTGCAAAGC
CCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTTC
Found at i:437064 original size:93 final size:96
Alignment explanation
Indices: 436914--437089 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 96
436904 AAGCTGGTGG
* *
436914 CACCTTTAGTCCTCAAAGAGCAGGACGCTTTCTCATTTTAGAGCCCACACAAGTTGGTGGCA-CT
1 CACCCTTAGTCCTCAAAGAGCAGGACGCCTTCTCA---TAGAGCCCACACAAGTTGGTGGCACCT
*
436978 TCCTAGTCCTCAAAGAGCAAGACACTCTCTCCTTT
63 TCC-AATCCTCAAAGAGCAAGACACTCTCTCCTTT
*
437013 CACCCTTAGTCCTCAAAGAGCAGGACGCCTT-TCA-A-AGCCCACACAAGTTGGTGGCACCTTTC
1 CACCCTTAGTCCTCAAAGAGCAGGACGCCTTCTCATAGAGCCCACACAAGTTGGTGGCACCTTCC
437075 AATCCTCAAAGAGCA
66 AATCCTCAAAGAGCA
437090 GGACGCCTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
93 35 0.49
94 5 0.07
98 3 0.04
99 29 0.40
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (96 bp):
CACCCTTAGTCCTCAAAGAGCAGGACGCCTTCTCATAGAGCCCACACAAGTTGGTGGCACCTTCC
AATCCTCAAAGAGCAAGACACTCTCTCCTTT
Found at i:437221 original size:60 final size:59
Alignment explanation
Indices: 437013--437281 Score: 315
Period size: 55 Copynumber: 4.6 Consensus size: 59
437003 TCTCTCCTTT
*
437013 CACCCTTAGTCCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* **
437067 CACCTTTCAATCCTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACATGAGTTGGTGG
1 CACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
437122 CACCCTCTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACATAAGCTGGTGG
1 CA-CCTTTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGG
437183 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGG
* *
437243 CACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
1 CACCT-TTAGTCCTCAAAGAGCAGGACGC-CTTTCCTTT
437282 CGCCTTTGTG
Statistics
Matches: 182, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
51 1 0.01
54 6 0.03
55 58 0.32
56 4 0.02
59 2 0.01
60 54 0.30
61 55 0.30
62 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (59 bp):
CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:437230 original size:269 final size:268
Alignment explanation
Indices: 436729--437423 Score: 896
Period size: 269 Copynumber: 2.5 Consensus size: 268
436719 ATCTAAACTT
* *
436729 TCTCCTTTCACCTTTCAGTCCTCAAAAAGCAGTACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCT-TTAAAGCCCACACAAGTTGGTGGCA
* * *
436794 -TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTTGGTGGCACT
65 CCTTT-CAGTCCTCAAAGAGCAGGACGC---CT-TTT--AAAGCCCACACAAG-TTGGTGGCACC
* *
436858 TTCCAGTTCTCAAAGAGCAGGACACCTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAG
122 TTCTAGTCCTCAAAGAGCAGGACACCTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAG
* *
436923 TCCTCAAAGAGCAGGACGCTTTCTCATTTTAGAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
187 TCCTCAAAGAGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
436988 CAAAGAGCAAGACACTC
252 CAAAGAGCAAGACACTC
*
437005 TCTCCTTTCACCCTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-AAAGCCCACACAAGTTGGTGGCA
* ** *
437069 CCTTTCAATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATGAGTTGGTGGCACCCTCTAGTC
65 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
** *
437134 CTCAAAGAGCAGGATGCCTTTTTCTTTT-AAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCA
130 CTCAAAGAGCAGGACACC--TTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCA
* *
437198 AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGA
193 AAGAGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGA
* *
437263 GCAGGACGCTC
258 GCAAGACACTC
* ** * * *
437274 TCTCCTTTCGCCTTTGTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTAGCA
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTAAAGCCCACACAAGTTGGTGGCA
* * * *
437339 CC-TTCAGTCCTTAAAGAGTAGGATGCCATCTCCTTTTAAATCCCACACAAGTTGGTGGCA-CTT
65 CCTTTCAGTCCTCAAAGAGCA-G--G--A-CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
437402 CCTAGTCCTCAAAGAGCAGGAC
124 -CTAGTCCTCAAAGAGCAGGAC
437424 GCTCTCTCCT
Statistics
Matches: 370, Mismatches: 36, Indels: 27
0.85 0.08 0.06
Matches are distributed among these distances:
268 31 0.08
269 146 0.39
270 51 0.14
271 6 0.02
272 3 0.01
274 5 0.01
275 111 0.30
276 17 0.05
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (268 bp):
TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCAC
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
TCAAAGAGCAGGACACCTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAG
AGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
AGACACTC
Found at i:437417 original size:154 final size:152
Alignment explanation
Indices: 437157--437583 Score: 573
Period size: 154 Copynumber: 2.8 Consensus size: 152
437147 ATGCCTTTTT
* * * *
437157 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 CTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTCAAAGAG-AGGA-GCCATCTCCTTTT
* *
437222 AAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTC-GCC
64 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCC
* *
437286 TTTGTGTCCTCAAAGAGCAGGATGC
129 TTT-AGTCCCCAAAGAGCAGGATGC
*
437311 CTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTTAAAGAGTAGGATGCCATCTCCTTTT
1 CTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTCAAAGAG-AGGA-GCCATCTCCTTTT
*
437376 AAATCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCC
64 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCC
437441 TTTAGTCCCCAAAGAGCAGGATGC
129 TTTAGTCCCCAAAGAGCAGGATGC
* * * *
437465 CTTTCAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGCGG-G--AT-ACCTTTTA
1 CTTTTAAAGCCCACACAAGCTGGTAGCACC-TTCAGTCCTCAAAGAGAGGAGCCATCTCCTTTTA
* * *
437526 AAGCCCACACAAGCTGGTGGTACCTT-C-AGTCCTCAAAGAGCGGGACGC-CTTCTCCTTT
65 AAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTC-TCTCCTTT
437584 TAAAGCCCAC
Statistics
Matches: 248, Mismatches: 21, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
147 1 0.00
148 28 0.11
149 27 0.11
150 5 0.02
152 1 0.00
154 166 0.67
155 20 0.08
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (152 bp):
CTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTCAAAGAGAGGAGCCATCTCCTTTTAA
AGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTT
TAGTCCCCAAAGAGCAGGATGC
Found at i:437434 original size:61 final size:60
Alignment explanation
Indices: 437310--437435 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
437300 GAGCAGGATG
* * *
437310 CCTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTTAAAGAGTAGGATGCCATCT
1 CCTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTCAAAGAGCAGGACGCCATCT
* * *
437370 CCTTTTAAATCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTC-TCT
1 CCTTTTAAAGCCCACACAAGCTGGTAGCACCTT-C-AGTCCTCAAAGAGCAGGACGC-CATCT
437431 CCTTT
1 CCTTT
437436 CACCCTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 3 0.05
60 27 0.47
61 26 0.46
62 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTCAAAGAGCAGGACGCCATCT
Found at i:437650 original size:61 final size:61
Alignment explanation
Indices: 437466--437754 Score: 319
Period size: 61 Copynumber: 4.9 Consensus size: 61
437456 GCAGGATGCC
* * * *
437466 TTTCAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGC-GG--G--ATACCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTT
* * * *
437522 TTT-AAAGCCCACACAAGCTGGTGGTACC-TTCAGTCCTCAAAGAGCGGGACGCCTTCTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTT-TCTT
* *
437582 TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTCTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTT
* * * *
437641 TTTGCAAAGCCCGCACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGCCGCCTTT-TCT
1 TTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCT-T
** * *
437703 TTTCAAAGCCCACATGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGAC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
437755 ACACTTCCTT
Statistics
Matches: 197, Mismatches: 25, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
54 17 0.09
55 24 0.12
56 3 0.02
57 1 0.01
59 7 0.04
60 31 0.16
61 106 0.54
62 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTT
Found at i:437723 original size:122 final size:116
Alignment explanation
Indices: 437466--437753 Score: 373
Period size: 122 Copynumber: 2.4 Consensus size: 116
437456 GCAGGATGCC
* * *
437466 TTTCAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGCGGGATACCTTTTAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCC
* *
437531 CACACAAGCTGGTGGTACCTTCAGTCCTCAAAGAGCGGGACGCCTTCTCCT
66 CACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
*
437582 TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATAC---C-TTTT--
* * * * *
437646 AAAGCCCGCACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGCCGCCTT-TTCT
60 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTCCT
** *
437703 TTTCAAAGCCCACATGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
437754 CACACTTCCT
Statistics
Matches: 150, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
115 46 0.31
116 3 0.02
118 1 0.01
119 4 0.03
121 30 0.20
122 66 0.44
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (116 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCC
CACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
Found at i:437835 original size:42 final size:42
Alignment explanation
Indices: 437737--437870 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 42
437727 GCACTTTTCA
* ** *
437737 GTCCTCAAAGAGTAGGACACACTTCCTTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGTAGGACGCACTTTATTTCC--CTTTT-TCTTTT
* *
437782 GTCCTCAAAGAGTAGGATGCACTTTATTTTCCTTTTTCTTTT
1 GTCCTCAAAGAGTAGGACGCACTTTATTTCCCTTTTTCTTTT
* * * *
437824 GTCCTCAAAGAGTAGGACGTATTTTGTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGTAGGACGCACTTTATTTCCCTTTTTCTTTT
437866 GTCCT
1 GTCCT
437871 TGAAAAATGG
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 47 0.61
43 5 0.06
45 25 0.32
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (42 bp):
GTCCTCAAAGAGTAGGACGCACTTTATTTCCCTTTTTCTTTT
Found at i:438744 original size:13 final size:13
Alignment explanation
Indices: 438726--438751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
438716 ACCAAGGAAA
438726 TGTATCGATACAT
1 TGTATCGATACAT
438739 TGTATCGATACAT
1 TGTATCGATACAT
438752 CGATCTTTGT
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:438872 original size:21 final size:20
Alignment explanation
Indices: 438842--438916 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 20
438832 TATTGATACG
*
438842 TTGTAGCGATACATTTGCT-CA
1 TTGTATCGATACATTT--TACA
438863 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTTACA
* *
438883 ATGTATCGATACA-TTTAAA
1 TTGTATCGATACATTTTACA
*
438902 ATGTATCGATACATT
1 TTGTATCGATACATT
438917 CAGTCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 19 0.39
20 15 0.31
21 15 0.31
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATTTTACA
Found at i:438889 original size:20 final size:20
Alignment explanation
Indices: 438864--438916 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
438854 ATTTGCTCAT
*
438864 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTAAAA
438884 TGTATCGATACA-TTTAAAA
1 TGTATCGATACATTTTAAAA
438903 TGTATCGATACATT
1 TGTATCGATACATT
438917 CAGTCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTTTAAAA
Found at i:441276 original size:51 final size:51
Alignment explanation
Indices: 441201--441438 Score: 300
Period size: 51 Copynumber: 4.6 Consensus size: 51
441191 TTAAGTTTCT
* * * *
441201 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGTTTTATTTTTAAAACAT
1 CAATTTTTCACAATC-GGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * *
441252 TAATTTTTCACAATCGGGGATACTCTAACTCCGATTTTATTTTCCAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* *
441303 CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * *
441354 C-AGTTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
*
441406 CAATTTTTCACAATCGGAGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
441439 TTAATCATCG
Statistics
Matches: 158, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
50 10 0.06
51 114 0.72
52 28 0.18
53 6 0.04
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:441377 original size:102 final size:103
Alignment explanation
Indices: 441201--441438 Score: 338
Period size: 102 Copynumber: 2.3 Consensus size: 103
441191 TTAAGTTTCT
* * **
441201 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGTTTTATTTTTAAAACATTAATTTTTCACAA
1 CAATTTTTCACAATC-GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAA
* *
441265 TCGGGGATACTCTAACTCCGATTTTATTTTC-CAAACAC
65 TCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
* * *
441303 CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACC-AGTTTTCTATAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTC-ACAA
*
441367 TCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACAC
65 TCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
*
441406 CAATTTTTCACAATCGGAGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
441439 TTAATCATCG
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
101 10 0.08
102 74 0.61
103 37 0.31
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAAT
CGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
Found at i:441528 original size:79 final size:78
Alignment explanation
Indices: 441445--441648 Score: 311
Period size: 79 Copynumber: 2.6 Consensus size: 78
441435 CCCGTTAATC
* * **
441445 ATCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCTAACCCTGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGG-GATACTCCAACCCCAGCTTTATTCCTAAAAT
441510 ATTAATTTCTCACA
65 ATTAATTTCTCACA
*
441524 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGG-ATACTCCAACCCCAGCTTTATTCCTAAAAT
*
441589 ATTGATTTCTCACA
65 ATTAATTTCTCACA
441603 ATCGGGGATACTCCAACCCCGTTATTTTCGCG-GGGATACTCCAACC
1 ATCGGGGATACTCCAACCCCGTTA-TTTC-CGAGGGATACTCCAACC
441649 TCGTTATTTT
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 106 0.91
80 7 0.06
81 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGATACTCCAACCCCAGCTTTATTCCTAAAATA
TTAATTTCTCACA
Found at i:441637 original size:107 final size:107
Alignment explanation
Indices: 441526--441756 Score: 270
Period size: 107 Copynumber: 2.2 Consensus size: 107
441516 TTCTCACAAT
*
441526 CGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAG-TTTTATTC-CTAAAAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAA-CCCAGATTTTATTCTC-AAAAC
*** * *
441589 ATTGA-TTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCG
64 ACCAATTTTCT-ACAATCAGGGATACTCCAACCCCGTTATTTTCA
* ** * * *
441633 CGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACAC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCAGATTTTATTCTCAAAACAC
* * *
441698 CAATTTTCTATAATTAGGGATACTCCAACCCTGTTATTTTCA
66 CAATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCA
*
441740 AGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
441757 AGATTTTATT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
106 4 0.04
107 94 0.90
108 6 0.06
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (107 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCAGATTTTATTCTCAAAACAC
CAATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCA
Found at i:441645 original size:28 final size:28
Alignment explanation
Indices: 441605--441677 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
441595 TTCTCACAAT
441605 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* *
441633 CGGGGATACTCCAACCTCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCG
*
441661 AGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
441678 TGATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:441719 original size:79 final size:79
Alignment explanation
Indices: 441635--441810 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 79
441625 TATTTTCGCG
** * *
441635 GGGATACTCCAA-CCTCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACC
1 GGGATACTCCAACCCT-GTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAAAACACC
* *
441699 AATTTTCTATAATTA
65 AATTTTCCATAATCA
* *
441714 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAGAACACCG
1 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAAAACACCA
441779 ATTTTCCATAATCA
66 ATTTTCCATAATCA
* *
441793 GGGGTACTCCAGCCCTGT
1 GGGATACTCCAACCCTGT
441811 CGTCATCTCC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 83 0.97
80 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAAAACACCA
ATTTTCCATAATCA
Found at i:441803 original size:186 final size:184
Alignment explanation
Indices: 441369--441803 Score: 441
Period size: 186 Copynumber: 2.3 Consensus size: 184
441359 TTCTATAATC
* * * * * *
441369 GGGGATACTCCAACTCTGATTTTATTTTCAAAAACACCAATTTTTCACAATCGGAGATACTCCAA
1 GGGGATACTCCAACCCAGATTTTA-TTTCCAAAACACCGATTTTCCACAATCGG-GGTACTCCAA
* * *
441434 CCCCGTTAATCATCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCTAACCCTGGCTTT
64 CCCCGTTAATCAGCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCTGACTTT
* ** * *
441499 ATTCCTAAAATATTAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGA
129 ATTCCTAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAA
* * **
441555 GGGAATACTCCAACCCCAG-TTTTA-TTCCTAAAATATTGA-TTTCTCACAATCGGGGATACTCC
1 GGGGATACTCCAA-CCCAGATTTTATTTCC-AAAACACCGATTTTC-CACAATCGGGG-TACTCC
* * * ** *
441617 AACCCCGTTATTTTC-GCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCCAACCCTGA
62 AACCCCGTTA--ATCAGCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCTGA
* * * * * *
441681 TTTTATT-TTCAAAACACCAATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTTTCAA
125 CTTTATTCCT-AAAACACCAATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCAA
* *
441741 GGGGATACTCCAACCCAGATTTTATTTCCAGAACACCGATTTTCCATAATCAGGGGTACTCCA
1 GGGGATACTCCAACCCAGATTTTATTTCCAAAACACCGATTTTCCACAATC-GGGGTACTCCA
441804 GCCCTGTCGT
Statistics
Matches: 201, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
184 7 0.03
185 39 0.19
186 138 0.69
187 17 0.08
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (184 bp):
GGGGATACTCCAACCCAGATTTTATTTCCAAAACACCGATTTTCCACAATCGGGGTACTCCAACC
CCGTTAATCAGCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCTGACTTTAT
TCCTAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAA
Found at i:443882 original size:4 final size:4
Alignment explanation
Indices: 443873--443899 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
443863 TTTTGAGGTG
443873 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
443900 GTTTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:455307 original size:61 final size:60
Alignment explanation
Indices: 455178--455452 Score: 284
Period size: 61 Copynumber: 4.6 Consensus size: 60
455168 CTCCTTTCAC
*
455178 CTTT-CAGTCCTCAAAGAGCAGGACGC---CTC-TT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
455232 TTTTCCAGTCCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCA
* * * *
455293 CTTTCCAGTTCTCAAAGAGCAGGACACCTTTC-CTTTTCAAAGCCCACATAAGCTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGA-AGCTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
455354 CCTTT--AGTCCTCAAAGAGCAGGACGCTTTCTCATTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
455414 CTGCTT--AGTCTTCAAAGAGCAGGACGCTCTCTCCTTTCA
1 CT--TTCCAGTCCTCAAAGAGCAGGAAGCTTTCT-CTTTCA
455453 CCCTTTAGTC
Statistics
Matches: 187, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.02
55 20 0.11
58 3 0.02
59 9 0.05
60 42 0.22
61 97 0.52
62 13 0.07
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (60 bp):
CTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:455452 original size:121 final size:119
Alignment explanation
Indices: 455178--455452 Score: 325
Period size: 121 Copynumber: 2.3 Consensus size: 119
455168 CTCCTTTCAC
* * *
455178 CTTTCAGTCCTCAAAGAGCAGGACG-C-CT-C-TT-AAAGCCCACACAAGTTGGTGGCATTTTCC
1 CTTTCAGTCTTCAAAGAGCAGGACGCCTCTCCTTTCAAAGCCCACACAAGCTGGTGGCACTTT-C
*
455238 AGTCCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
65 AGTCCTCAAAGAGCAAGACGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
* * *
455293 CTTTCCAGT-TCTCAAAGAGCAGGACACCTTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCT
1 CTTT-CAGTCT-TCAAAGAGCAGGACGCCTCTCC-TTTCAAAGCCCACACAAGCTGGTGGCA-CT
* *
455357 TT-AGTCCTCAAAGAGCAGGACGCTTTCTCATTT-TAAAGCCCACACAAGTTGGTGGCA
62 TTCAGTCCTCAAAGAGCAAGACGCTTTCTC-TTTGCAAAGCCCACACAAGTTGGTGGCA
455414 CTGCTT-AGTCTTCAAAGAGCAGGACGCTCTCTCCTTTCA
1 CT--TTCAGTCTTCAAAGAGCAGGACGC-CTCTCCTTTCA
455453 CCCTTTAGTC
Statistics
Matches: 135, Mismatches: 11, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
115 4 0.03
116 18 0.13
117 1 0.01
118 1 0.01
119 1 0.01
121 75 0.56
122 30 0.22
123 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (119 bp):
CTTTCAGTCTTCAAAGAGCAGGACGCCTCTCCTTTCAAAGCCCACACAAGCTGGTGGCACTTTCA
GTCCTCAAAGAGCAAGACGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
Found at i:455769 original size:61 final size:61
Alignment explanation
Indices: 455481--455768 Score: 371
Period size: 61 Copynumber: 4.8 Consensus size: 61
455471 GCATGATGCC
* * *
455481 TTTCAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGTAGAAT-AC---C-T
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCTT
* *
455537 TTT-AAAGCCCACACAAGCTGGTGGCACC-TTCAGTCCTCAAAGAGTAGGATGCCTTCTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCCTT-TCTT
* *
455597 TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTCTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCTT
* * *
455656 TTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGTAGGACGCCTTT-TT
1 TTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCTT
* *
455717 TTTCCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAATGAGTAGGA
1 TTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGA
455769 CACACTTCCT
Statistics
Matches: 204, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
54 21 0.10
55 24 0.12
56 3 0.01
59 7 0.03
60 30 0.15
61 115 0.56
62 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCTT
Found at i:455933 original size:119 final size:116
Alignment explanation
Indices: 455794--456008 Score: 267
Period size: 119 Copynumber: 1.8 Consensus size: 116
455784 TCTTTTCTCT
* * *
455794 TTTGTCCTCAAAAAGTAGGACACACTTT-ATTTTCCTT-T-TTCTTTTGTCCTC-AGAGAGCAGG
1 TTTGTCCTCAAAAAGCAGG--ACACTTTCATTTT-CTTCTCTTCCTTTGTCCTCAAG-GAGCAAG
* *
455855 ACGTATTTCGTTTCCCTTTTTCCTTTGTCCTTGAAAAACAGGATGTACTCTTTTTCAC
62 ACCTATTTC-ATTCCC-TTTTCCTTTGTCCTT-AAAAACAGGATGTACTCTTTTTCAC
* *
455913 TTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTCTCTTCCTTTGTCCTCAAGGAGCAAGACCT
1 TTTGTCCTCAAAAAGCAGGACACTTTCATTTTCTTCTCTTCCTTTGTCCTCAAGGAGCAAGACCT
*
455978 ATTTCATTCTCTTTTCCTTTGTCCTTAAAAA
66 ATTTCATTCCCTTTTCCTTTGTCCTTAAAAA
456009 GTGGGACACC
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
116 5 0.06
117 25 0.30
118 9 0.11
119 43 0.51
120 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (116 bp):
TTTGTCCTCAAAAAGCAGGACACTTTCATTTTCTTCTCTTCCTTTGTCCTCAAGGAGCAAGACCT
ATTTCATTCCCTTTTCCTTTGTCCTTAAAAACAGGATGTACTCTTTTTCAC
Found at i:456606 original size:19 final size:20
Alignment explanation
Indices: 456560--456613 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
456550 TTTCAATAAT
*
456560 TTGTATCGATACAAAAAGTAAG
1 TTGTATCGATAC-ATAAGT-AG
456582 -TGTATCGATACATAAGT-G
1 TTGTATCGATACATAAGTAG
456600 TTGTATCGATACAT
1 TTGTATCGATACAT
456614 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 5 0.17
21 11 0.37
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAAGTAG
Found at i:456783 original size:13 final size:13
Alignment explanation
Indices: 456765--456794 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
456755 ATACATTGCT
*
456765 CATTGTATTGATA
1 CATTGTAGTGATA
456778 CATTGTAGTGATA
1 CATTGTAGTGATA
456791 CATT
1 CATT
456795 TGCTCATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (13 bp):
CATTGTAGTGATA
Found at i:459145 original size:51 final size:51
Alignment explanation
Indices: 459070--459307 Score: 302
Period size: 51 Copynumber: 4.6 Consensus size: 51
459060 TTAAGTTTCT
* * *
459070 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGTTTTA-TTTCTAAAACAT
1 CAATTTTTCACAATC-GGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * *
459121 TAATTTTTCACAATCGGGGATACTCTAACTCCGATTTTATTTTCCAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* *
459172 CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * *
459223 C-AGTTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
459275 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
459308 TTAATCATCG
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
50 10 0.06
51 110 0.69
52 33 0.21
53 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:459246 original size:102 final size:103
Alignment explanation
Indices: 459070--459307 Score: 340
Period size: 102 Copynumber: 2.3 Consensus size: 103
459060 TTAAGTTTCT
* **
459070 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAA
1 CAATTTTTCACAATC-GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAA
* *
459134 TCGGGGATACTCTAACTCCGATTTTATTTTC-CAAACAC
65 TCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
* * *
459172 CAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTT-TCAAAACACC-AGTTTTCTATA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTTC-ACA
*
459235 ATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACAC
64 ATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
459275 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
459308 TTAATCATCG
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
101 11 0.09
102 73 0.60
103 38 0.31
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAAT
CGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
Found at i:459397 original size:79 final size:79
Alignment explanation
Indices: 459314--459519 Score: 310
Period size: 79 Copynumber: 2.6 Consensus size: 79
459304 CCCGTTAATC
* * **
459314 ATCGGGGATACTCCAACCCCATTATTTCCGA-GGAGATACTCTAACCCTGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGA-ATACTCCAACCCCAGCTTTATTCCTAAAA
459378 TATTAATTTCTCACA
65 TATTAATTTCTCACA
*
459393 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAGCTTTATTCCTAAAAT
*
459458 ATTGATTTCTCACA
66 ATTAATTTCTCACA
459472 ATCGGGGATACTCCAACCCCGTTATTTTCACG-GGG-ATACTCCAACCCC
1 ATCGGGGATACTCCAACCCCGTTA-TTTC-CGAGGGAATACTCCAACCCC
459520 GTTATTTTTG
Statistics
Matches: 118, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
79 106 0.90
80 10 0.08
81 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAGCTTTATTCCTAAAAT
ATTAATTTCTCACA
Found at i:459514 original size:28 final size:29
Alignment explanation
Indices: 459474--459546 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
459464 TTCTCACAAT
459474 CGGGGATACTCCAACCCCGTTA-TTTTCA
1 CGGGGATACTCCAACCCCGTTATTTTTCA
*
459502 CGGGGATACTCCAACCCCGTTATTTTTGA
1 CGGGGATACTCCAACCCCGTTATTTTTCA
*
459531 -AGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
459547 TGATTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 37 0.88
29 5 0.12
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (29 bp):
CGGGGATACTCCAACCCCGTTATTTTTCA
Found at i:459516 original size:107 final size:107
Alignment explanation
Indices: 459395--459625 Score: 281
Period size: 107 Copynumber: 2.2 Consensus size: 107
459385 TTCTCACAAT
459395 CGGGGATACTCCAACCCCGTTATTTCCG-AGGGAATACTCCAACCCCAG-TTTTATTC-CTAAAA
1 CGGGGATACTCCAACCCCGTTATTTCCGAAGGG-ATACTCCAA-CCCAGATTTTATTCTC-AAAA
* *** *
459457 TATTGA-TTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCA
63 CACCAATTTTCT-ACAATCAGGGATACTCCAACCCCGTTATTTTCA
** * *
459502 CGGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACAC
1 CGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCAGATTTTATTCTCAAAACAC
* * *
459567 CAATTTTCTATAATTAGGGATACTCCAACCCTGTTATTTTCA
66 CAATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCA
*
459609 AGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
459626 AGATTTTATT
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
106 4 0.04
107 93 0.87
108 10 0.09
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCAGATTTTATTCTCAAAACAC
CAATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCA
Found at i:459587 original size:79 final size:79
Alignment explanation
Indices: 459504--459672 Score: 241
Period size: 79 Copynumber: 2.1 Consensus size: 79
459494 TATTTTCACG
* * *
459504 GGGATACTCCAACCCCGTTATTTTTGAA-GGGATACTCCAACCCTGATTTTATTTTCAAAACACC
1 GGGATACTCCAACCCCGTTA-TTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAAAACACC
* *
459568 AATTTTCTATAATTA
65 AATTTTCCATAATCA
* * *
459583 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAGAACACCG
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAAAACACCA
459648 ATTTTCCATAATCA
66 ATTTTCCATAATCA
*
459662 GGGGTACTCCA
1 GGGATACTCCA
459673 GCCCTGTCGT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 6 0.08
79 74 0.93
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCAGATTTTATTTCCAAAACACCA
ATTTTCCATAATCA
Found at i:459672 original size:186 final size:185
Alignment explanation
Indices: 459238--459672 Score: 472
Period size: 186 Copynumber: 2.3 Consensus size: 185
459228 TTCTATAATC
* * * * *
459238 GGGGATACTCCAACTCTGATTTTATTTTCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCAGATTTTA-TTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAA
* *
459303 CCCCGTTAATCATCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCTAACCCTGGCTTT
65 CCCCGTTAATCATCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCTGACTTT
* ** * *
459368 ATTCCTAAAATATTAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGA
130 ATTCCTAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAA
* * **
459424 GGGAATACTCCAACCCCAG-TTTTA-TTCCTAAAATATTGA-TTTCTCACAATCGGGGATACTCC
1 GGGGATACTCCAA-CCCAGATTTTATTTCC-AAAACACCGATTTTC-CACAATCGGGGATACTCC
* * **
459486 AACCCCGTTATTTTCA-CGGGGATACTCCAACCCCGTTATTTTTGAAGG-GATACTCCAACCCTG
63 AACCCCGTTA--ATCATCGGGGATACTCCAACCCCATTATTTCCG-AGGAGATACTCCAACCCTG
* * * * * *
459549 ATTTTATT-TTCAAAACACCAATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTTTCAA
125 ACTTTATTCCT-AAAACACCAATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCAA
* *
459610 GGGGATACTCCAACCCAGATTTTATTTCCAGAACACCGATTTTCCATAATCAGGGG-TACTCCA
1 GGGGATACTCCAACCCAGATTTTATTTCCAAAACACCGATTTTCCACAATC-GGGGATACTCCA
459673 GCCCTGTCGT
Statistics
Matches: 205, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
184 6 0.03
185 42 0.20
186 136 0.66
187 21 0.10
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (185 bp):
GGGGATACTCCAACCCAGATTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCTGACTTTA
TTCCTAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAA
Found at i:460845 original size:20 final size:20
Alignment explanation
Indices: 460820--460907 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
460810 TTTACCCAGA
*
460820 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
460840 TGTATCAATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
460860 TGTATTGATACATTG-T-A-
1 TGTATCGATACATTGCTCAT
460877 -G---CGATACATTTGCTCAT
1 TGTATCGATACA-TTGCTCAT
460894 TGTATCGATACATT
1 TGTATCGATACATT
460908 TTACAATGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
13 6 0.11
14 3 0.06
15 1 0.02
16 2 0.04
18 2 0.04
19 1 0.02
20 31 0.57
21 8 0.15
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:460895 original size:34 final size:33
Alignment explanation
Indices: 460837--460907 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
460827 ATACATTTTG
* *
460837 CATTGTATCAATACATTGCTCATTGTATTGATA
1 CATTGTAGCAATACATTGCTCATTGTATCGATA
*
460870 CATTGTAGCGATACATTTGCTCATTGTATCGATA
1 CATTGTAGCAATACA-TTGCTCATTGTATCGATA
460904 CATT
1 CATT
460908 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 13 0.38
34 21 0.62
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (33 bp):
CATTGTAGCAATACATTGCTCATTGTATCGATA
Found at i:460906 original size:54 final size:53
Alignment explanation
Indices: 460820--460927 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 53
460810 TTTACCCAGA
* *
460820 TGTATCGATACATTTTGCATTGTATCAATACATTGCT-CATTGTATTGATACAT
1 TGTAGCGATACATTTTGCATTGTATCAATACATT-CTACAATGTATTGATACAT
* *
460873 TGTAGCGATACA-TTTGCTCATTGTATCGATACATTTTACAATGTATTGATACAT
1 TGTAGCGATACATTTTG--CATTGTATCAATACATTCTACAATGTATTGATACAT
460927 T
1 T
460928 TAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
52 4 0.08
53 12 0.25
54 32 0.67
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (53 bp):
TGTAGCGATACATTTTGCATTGTATCAATACATTCTACAATGTATTGATACAT
Found at i:463284 original size:51 final size:51
Alignment explanation
Indices: 463209--463443 Score: 242
Period size: 51 Copynumber: 4.6 Consensus size: 51
463199 TTAAGTTTCT
* * *
463209 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTCCACAATC-GGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * ** **
463260 TAATTTTCCACGATCGGGGATACTCCAACTTCGATTTTATTTTCGGAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * * * *
463311 CAATTTTCCACAATTGGGAATGCTCCAACCCTGGTTTTATTTTCAAAATAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
463362 CAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
*
463414 CAACTTTT-CATAATCGGGGATACTCCAACC
1 CAA-TTTTCCACAATCGGGGATACTCCAACC
463444 TCGTTATTCA
Statistics
Matches: 148, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
50 4 0.03
51 107 0.72
52 33 0.22
53 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:463477 original size:27 final size:27
Alignment explanation
Indices: 463426--463478 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
463416 ACTTTTCATA
* *
463426 ATCGGGGATACTCCAACCTCGTTATTC
1 ATCGGGGATACTCCAACCCCATTATTC
463453 ATCGGGGATACTCCAACCCCATTATT
1 ATCGGGGATACTCCAACCCCATTATT
463479 TTCGAGGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCATTATTC
Found at i:463574 original size:28 final size:28
Alignment explanation
Indices: 463534--463606 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
463524 TTCTCACAAT
463534 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* *
463562 CGGGGATACTCCAACCTCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* *
463590 AGGGGATACTTCAACCC
1 CGGGGATACTCCAACCC
463607 TGATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:463665 original size:107 final size:107
Alignment explanation
Indices: 463377--463685 Score: 310
Period size: 107 Copynumber: 2.9 Consensus size: 107
463367 TTCTATAATC
*
463377 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAACTTTTC-ATAATCGGGGATACTCCA
1 GGGGATACTTCAAC-CCGATTTTATTTTCAAAAACACCAA-TTTTCTATAATCGGGGATACTCCA
463441 A-CCTCGTTA--TTCATCGGGGATACTCCAACCCCATTATTTTCGA
64 ACCCT-GTTATTTTCA-CGGGGATACTCCAACCCCATTATTTTCGA
* ** * * * ** *
463484 GGGGATA-TTCCATCCCCGGCTTTA-TTCCTAAAATATTAA-TTTCTCACAATCGGGGATACTCC
1 GGGGATACTT-CA-ACCCGATTTTATTTTCAAAAACACCAATTTTCT-ATAATCGGGGATACTCC
* * * * *
463546 AACCCCGTTATTTTCGCGGGGATACTCCAACCTCGTTATTTTTGA
63 AACCCTGTTATTTTCACGGGGATACTCCAACCCCATTATTTTCGA
**
463591 GGGGATACTTCAACCCTGATTTTATTTTC-AAAACACCAATTTTCTATAATTAGGGATACTCCAA
1 GGGGATACTTCAACCC-GATTTTATTTTCAAAAACACCAATTTTCTATAATCGGGGATACTCCAA
* **
463655 CCCTGTTATTTCCAAAGGGATACTCCAACCC
65 CCCTGTTATTTTCACGGGGATACTCCAACCC
463686 TGATTTTATT
Statistics
Matches: 160, Mismatches: 31, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
104 4 0.03
106 36 0.22
107 106 0.66
108 14 0.09
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (107 bp):
GGGGATACTTCAACCCGATTTTATTTTCAAAAACACCAATTTTCTATAATCGGGGATACTCCAAC
CCTGTTATTTTCACGGGGATACTCCAACCCCATTATTTTCGA
Found at i:463692 original size:79 final size:80
Alignment explanation
Indices: 463564--463736 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 80
463554 TATTTTCGCG
*** * *
463564 GGGATACTCCAA-CCTCGTTATTTTTGAGGGGATACTTCAACCCTGATTTTATTTTCAAAACACC
1 GGGATACTCCAACCCTCGTTATTTCCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACC
* *
463628 AATTTTCTATAATTA
66 AATTTTCCATAATCA
* *
463643 GGGATACTCCAACCCT-GTTATTTCCAAAGGGATACTCCAACCCTGATTTTATTTTCATAACATC
1 GGGATACTCCAACCCTCGTTATTTCCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACC
*
463707 GATTTTCCATAATCA
66 AATTTTCCATAATCA
463722 GCGG-TACTCCAACCC
1 G-GGATACTCCAACCC
463737 CGTCGTCATC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
79 77 0.94
80 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (80 bp):
GGGATACTCCAACCCTCGTTATTTCCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACC
AATTTTCCATAATCA
Found at i:470268 original size:965 final size:965
Alignment explanation
Indices: 468397--470329 Score: 3411
Period size: 965 Copynumber: 2.0 Consensus size: 965
468387 TCCTGAGGGT
* * *
468397 AATCTAAATGGTGGTACTGAGGCCACTACTATGCATGAAGCAGCATTACATGAGCAACACCCCCC
1 AATCTAAATGGTGGTACTGAGGCCACTAATATGCATGAAGCAACATTACATAAGCAACACCCCCC
** * *
468462 GGCGGCAAGAGCTTTGCCCAATCACCCATTTGTGTACATCAATCCTACCACAGCACCGCATTTGG
66 GGCGGCAAGAGCTCCGCCCAATCACCCATTTGTGTACATCAACCCTACCACAGCACCGCATTTAG
*
468527 TTCAAGGCTCTTCACCAGTTATACCTATAGTCCTGGACCTTGAAGAATAGATGGGACAAGAAAAG
131 TTCAAGGCTCTTCACCAGTTATACCTATAGTCCTGGACCTTGAAGAACAGATGGGACAAGAAAAG
* *
468592 CTAAAATGGCCATCTGAAAGCGGTGAAGATTCGAATAAGTACTAGTCTTTAGAAAAACGTCTTCG
196 CTAAAATGGCCATCTGAAAGCGGCGAAGATTCGAATAAGTACCAGTCTTTAGAAAAACGTCTTCG
468657 AGCTGTCGAGGAAAGTGATAAATTTGGAAACCTAGATGCAAAGGCTCTAGGGTTGGTCTCTAGTC
261 AGCTGTCGAGGAAAGTGATAAATTTGGAAACCTAGATGCAAAGGCTCTAGGGTTGGTCTCTAGTC
* * *
468722 TCATCATCCCATGCTAATTCAAAGTGCCAGAATTTGAGAAATATAATGGGACCACATATCCCACT
326 TCATCATCCCACGCAAATTCAAAGTGCCAGAATTTGAGAAATATAATGGGACCACAGATCCCACT
* * * *
468787 GCATACCTTTGGATGTACTGTCGCAAGATGTCCGGGTATGAGGAAATGAAAAGCTGTTGATCCAT
391 GCATACCTTAGGATATACTGTCGCAAGATGTCCGGGTATAAGGAAATGAAAAGCTGTTGATCCAC
468852 TGCTTCCAGGACAGCATAACAAAGGCAGCAATTCGCTGGTACATAGGGCTGGACCCAATAAGAAT
456 TGCTTCCAGGACAGCATAACAAAGGCAGCAATTCGCTGGTACATAGGGCTGGACCCAATAAGAAT
468917 CCAAACATGGGCAGATCTAGCACGTGCTTTCATCGACCAATATAAACATGTATCAGATTGGGTCC
521 CCAAACATGGGCAGATCTAGCACGTGCTTTCATCGACCAATATAAACATGTATCAGATTGGGTCC
468982 CAGATCGCCTTTCCCTCATGAACATGGAGAAGAAAGCCTTTAAAAGTTTTCGATAGTATGCTCAG
586 CAGATCGCCTTTCCCTCATGAACATGGAGAAGAAAGCCTTTAAAAGTTTTCGATAGTATGCTCAG
469047 AGATGGAGAGAGGAAGCAGCCCAGGTTCAACCTCCTTTGACTGAGAAAGAAATGACAATCATGTT
651 AGATGGAGAGAGGAAGCAGCCCAGGTTCAACCTCCTTTGACTGAGAAAGAAATGACAATCATGTT
469112 TGTCAATACTTTACGGGCTCCCTATTATGAGAAATTGGTGGGAAATGCCACGAAAAATTTTGTTG
716 TGTCAATACTTTACGGGCTCCCTATTATGAGAAATTGGTGGGAAATGCCACGAAAAATTTTGTTG
*
469177 ATATGGTTATTTCAGGGGAAATGATTGATAGTGCTATTAAAAGAGGCAAAATATCCAGGGGAGAG
781 ATATGGTTATTTCAGGGGAAATGATCGATAGTGCTATTAAAAGAGGCAAAATATCCAGGGGAGAG
* * *
469242 TCATCAGGGTTAGCTAAGAAGCCGGTAACTAAAGGGGAAGATAAGGAGGTGAATGCTGTCAACGA
846 TCATCAGGGTTAGCTAAGAAGCCGATAACTAAAGGGAAAGATAAGGAGGTGAATACTGTCAAC-A
469307 AAA-TCGCCCCAGGTTTAATAGGAACCCGTATCCGACACAAACTCTATACTTCCCG
910 AAAGTCGCCCCAGGTTTAATAGGAACCCGTATCCGACACAAACTCTATACTTCCCG
* * *
469362 AATCTAAATGGTGGTACTTAGGCCACTAATGTGCATGAAGCAACATTACATAAGCAACACCCCCT
1 AATCTAAATGGTGGTACTGAGGCCACTAATATGCATGAAGCAACATTACATAAGCAACACCCCCC
*
469427 GGCGGTAAGAGCTCCGCCCAATCACCCATTTGTGTACATCAACCCTACCACAGCACCGCATTTAG
66 GGCGGCAAGAGCTCCGCCCAATCACCCATTTGTGTACATCAACCCTACCACAGCACCGCATTTAG
* * * *
469492 TTTAGGGCTCTTCACCAGTTATACCTATAGTCCTGGACCTTGACGAACAGATGGGGCAAGAAAAG
131 TTCAAGGCTCTTCACCAGTTATACCTATAGTCCTGGACCTTGAAGAACAGATGGGACAAGAAAAG
* *
469557 CTAAAATGGCCATCTGAAAGCGGCGAAGATTCGGATAAGTACCAGTCTTTAGAAAAATGTCTTCG
196 CTAAAATGGCCATCTGAAAGCGGCGAAGATTCGAATAAGTACCAGTCTTTAGAAAAACGTCTTCG
*
469622 AGTTGTCGAGGAAAGTGATAAATTTGGAAACCTAGATGCAAAGGCTCTAGGGTTGGTCTCTAGTC
261 AGCTGTCGAGGAAAGTGATAAATTTGGAAACCTAGATGCAAAGGCTCTAGGGTTGGTCTCTAGTC
*
469687 TCATCATCCCACGCAAATTCAAAGTGCCAGAATTTGAGAAATATAATGGGACCACAGATTCCACT
326 TCATCATCCCACGCAAATTCAAAGTGCCAGAATTTGAGAAATATAATGGGACCACAGATCCCACT
469752 GCATACCTTAGGATATACTGTCGCAAGATGTCCGGGTATAAGGAAAATGAAAAGCTGTTGATCCA
391 GCATACCTTAGGATATACTGTCGCAAGATGTCCGGGTATAAGG-AAATGAAAAGCTGTTGATCCA
* * * * *
469817 CTGCTTTCAGGACAGCTTATCAAGGGCAGCACTTCGCTGGTACATAGGGCTGGACCCAATAAGAA
455 CTGCTTCCAGGACAGCATAACAAAGGCAGCAATTCGCTGGTACATAGGGCTGGACCCAATAAGAA
* *
469882 TCCAAACGTGGGCAGATCTAGCACGTGCTTTCATCGACCAATATAAACATGTATTAGATTGGGTC
520 TCCAAACATGGGCAGATCTAGCACGTGCTTTCATCGACCAATATAAACATGTATCAGATTGGGTC
*
469947 CCAGATCGCCTTTCCCTCATGAACATGGAGAAGAAAGCCTTTGAAAGTTTTCGATAGTATGCTCA
585 CCAGATCGCCTTTCCCTCATGAACATGGAGAAGAAAGCCTTTAAAAGTTTTCGATAGTATGCTCA
470012 GAGATGGAGAGAGGAAGCAGCCCAGGTTCAACCTCCTTTGACTGAGAAAGAAATGACAATCATGT
650 GAGATGGAGAGAGGAAGCAGCCCAGGTTCAACCTCCTTTGACTGAGAAAGAAATGACAATCATGT
470077 TTGTCAATACTTTACGGGCTCCCTATTATGAGAAATTGGTGGG-AATGCCACGAAAAATTTTGTT
715 TTGTCAATACTTTACGGGCTCCCTATTATGAGAAATTGGTGGGAAATGCCACGAAAAATTTTGTT
* *
470141 GATATGGTTATTTCAGGGGAAATGATCGATAGTGCTATTAAAAGTGGCAAAATATCCGGGGGAGA
780 GATATGGTTATTTCAGGGGAAATGATCGATAGTGCTATTAAAAGAGGCAAAATATCCAGGGGAGA
*
470206 GTCATCAGGGTTAGCTAAGAAGCCGATAACTAAAGGGAAAGATAAGGAGGTGACTACTGTCAACA
845 GTCATCAGGGTTAGCTAAGAAGCCGATAACTAAAGGGAAAGATAAGGAGGTGAATACTGTCAACA
* * *
470271 AAAGTCGCCCTAGGTTTAGTAGGAACCCGTATCCGACACAGACTCTATACTTCCCG
910 AAAGTCGCCCCAGGTTTAATAGGAACCCGTATCCGACACAAACTCTATACTTCCCG
470327 AAT
1 AAT
470330 GTGTCACAGC
Statistics
Matches: 919, Mismatches: 47, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
964 4 0.00
965 600 0.65
966 315 0.34
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (965 bp):
AATCTAAATGGTGGTACTGAGGCCACTAATATGCATGAAGCAACATTACATAAGCAACACCCCCC
GGCGGCAAGAGCTCCGCCCAATCACCCATTTGTGTACATCAACCCTACCACAGCACCGCATTTAG
TTCAAGGCTCTTCACCAGTTATACCTATAGTCCTGGACCTTGAAGAACAGATGGGACAAGAAAAG
CTAAAATGGCCATCTGAAAGCGGCGAAGATTCGAATAAGTACCAGTCTTTAGAAAAACGTCTTCG
AGCTGTCGAGGAAAGTGATAAATTTGGAAACCTAGATGCAAAGGCTCTAGGGTTGGTCTCTAGTC
TCATCATCCCACGCAAATTCAAAGTGCCAGAATTTGAGAAATATAATGGGACCACAGATCCCACT
GCATACCTTAGGATATACTGTCGCAAGATGTCCGGGTATAAGGAAATGAAAAGCTGTTGATCCAC
TGCTTCCAGGACAGCATAACAAAGGCAGCAATTCGCTGGTACATAGGGCTGGACCCAATAAGAAT
CCAAACATGGGCAGATCTAGCACGTGCTTTCATCGACCAATATAAACATGTATCAGATTGGGTCC
CAGATCGCCTTTCCCTCATGAACATGGAGAAGAAAGCCTTTAAAAGTTTTCGATAGTATGCTCAG
AGATGGAGAGAGGAAGCAGCCCAGGTTCAACCTCCTTTGACTGAGAAAGAAATGACAATCATGTT
TGTCAATACTTTACGGGCTCCCTATTATGAGAAATTGGTGGGAAATGCCACGAAAAATTTTGTTG
ATATGGTTATTTCAGGGGAAATGATCGATAGTGCTATTAAAAGAGGCAAAATATCCAGGGGAGAG
TCATCAGGGTTAGCTAAGAAGCCGATAACTAAAGGGAAAGATAAGGAGGTGAATACTGTCAACAA
AAGTCGCCCCAGGTTTAATAGGAACCCGTATCCGACACAAACTCTATACTTCCCG
Found at i:477094 original size:23 final size:22
Alignment explanation
Indices: 477059--477107 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
477049 ATTCTTTTTC
*
477059 AAAAAAAATAAAAAA-ATGAAAA
1 AAAAAAAAGAAAAAAGA-GAAAA
477081 AAAAACAAAGAAAAAAGAGAAAA
1 AAAAA-AAAGAAAAAAGAGAAAA
477104 AAAA
1 AAAA
477108 GAGAAGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.86, C:0.02, G:0.08, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAGAGAAAA
Found at i:477112 original size:11 final size:10
Alignment explanation
Indices: 477059--477109 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
477049 ATTCTTTTTC
*
477059 AAAAAAAA-T
1 AAAAAAAAGA
*
477068 AAAAAAATGA
1 AAAAAAAAGA
*
477078 AAAAAAAACA
1 AAAAAAAAGA
477088 AAGAAAAAAGA
1 AA-AAAAAAGA
477099 GAAAAAAAAGA
1 -AAAAAAAAGA
477110 GAAGAATCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.21
10 10 0.29
11 15 0.44
12 2 0.06
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:478197 original size:61 final size:60
Alignment explanation
Indices: 478097--478331 Score: 298
Period size: 61 Copynumber: 3.9 Consensus size: 60
478087 AGGATGCCTC
* *
478097 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTT
1 TCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTCTT
* * *
478157 TGCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTTCTCAAAGAGCTGGACACCTTTC-CTTT
1 T-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA-AGCTTTCTC-TT
* * * *
478219 TCAAAGCCCACATAAGCTGGTGGCACCTTT--AGTCCTCAAAAAGCAGGACGCTTTCTCATT
1 TCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTC-TT
*
478279 TTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGAAGCT
1 TCAAAGCCCACACAAGTTGGTGGCACTTTCC-AGTCCTCAAAGAGCAGGAAGCT
478332 CTTTCCTTTC
Statistics
Matches: 149, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.01
59 6 0.04
60 41 0.28
61 88 0.59
62 12 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (60 bp):
TCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAAGCTTTCTCTT
Found at i:478285 original size:121 final size:122
Alignment explanation
Indices: 478097--478340 Score: 336
Period size: 121 Copynumber: 2.0 Consensus size: 122
478087 AGGATGCCTC
* * * *
478097 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAA
1 TCAAAGCCCACACAAGCTGGTGGCACTTT-CAGTCCTCAAAAAGCAGGACGCTTTCTCTTTGCAA
* *
478162 AGCCCACACAAGTTGGTGGCACTTTCC-AGTTCTCAAAGAGCTGGACA-C-CTTTCCTTT
65 AGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGA-AGCTCTTTCCTTT
* *
478219 TCAAAGCCCACATAAGCTGGTGGCACCTTT-AGTCCTCAAAAAGCAGGACGCTTTCTCATTT-TA
1 TCAAAGCCCACACAAGCTGGTGGCA-CTTTCAGTCCTCAAAAAGCAGGACGCTTTCTC-TTTGCA
478282 AAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTTTCCTTT
64 AAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTTTCCTTT
478341 CACCCTTTAG
Statistics
Matches: 109, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
120 5 0.05
121 66 0.61
122 35 0.32
123 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (122 bp):
TCAAAGCCCACACAAGCTGGTGGCACTTTCAGTCCTCAAAAAGCAGGACGCTTTCTCTTTGCAAA
GCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTTTCCTTT
Found at i:478411 original size:55 final size:56
Alignment explanation
Indices: 478344--478599 Score: 254
Period size: 55 Copynumber: 4.5 Consensus size: 56
478334 TTCCTTTCAC
* *
478344 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTC-AAAGCCCACACAAGTTGGTGACA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTAAAGCCCACACAAGCTGGTGGCA
* * * *
478398 CCTTTCAATCCTCAAAGAGCTGGACGCCTTT-TAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTAAAGCCCACACAAGCTGGTGGCA
* * * * *
478453 CCCTCCAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTAAAGCCCACATAAGCTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC--TTTC---TAAAGCCCACACAAGCTGGTGGCA
*
478514 CCTTT-AGTCCTCAAAGA-CAGGACGCCTTCTCCTTTTAAAGCCCACCCAAGCTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C---TAAAGCCCACACAAGCTGGTGGCA
*
478573 -CTTCTTAGTCCTCAAAGAGCAGGACGC
1 CCTT-TCAGTCCTCAAAGAGCAGGACGC
478600 TCTCTCTGTT
Statistics
Matches: 170, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
54 5 0.03
55 66 0.39
57 5 0.03
58 4 0.02
59 34 0.20
60 24 0.14
61 32 0.19
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (56 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTAAAGCCCACACAAGCTGGTGGCA
Found at i:478650 original size:269 final size:271
Alignment explanation
Indices: 478061--478751 Score: 862
Period size: 269 Copynumber: 2.5 Consensus size: 271
478051 AAACTTTCTT
* * *
478061 CTTTCA-CCTTTCAGTCCTCAAATAGCAGGATGCCTCTCAAAGCCCACACAAGTTGGTGGCA-TT
1 CTTTCACCCTTT-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
**
478124 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACTTTCC
65 TT-CAGTCCTCAAAGAGCAGGATGC---CT-TTT-CAAAGCCCACACAAGTTGGTGGCACCCTCC
*
478189 AGTTCTCAAAGAGCTGGACACCTTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCC
124 AGTCCTCAAAGAGCTGGACACCTTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCC
* *
478254 TCAAAAAGCAGGACGCTTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
189 TCAAAAAGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGCTGGTGGCACTTCCTAGTCCTCAA
*
478319 AGAGCAGGAAGCTCTTTC
254 AGAGCAGGAAGCTCTCTC
* *
478337 CTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTT
1 CTTTCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
478402 TCAATCCTCAAAGAGCTGGACGCCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTC
66 TCAGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTC
** *
478466 AAAGAGCAT-GATGCCTTTTTCTTTT-AAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAA
131 AAAGAGC-TGGACACC-TTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAA
* * * *
478529 GA-CAGGACGCCTTCTCCTTTTAAAGCCCACCCAAGCTGGTGGCACTTCTTAGTCCTCAAAGAGC
194 AAGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGCTGGTGGCACTTCCTAGTCCTCAAAGAGC
*
478593 AGGACGCTCTCT-
259 AGGAAGCTCTCTC
* * * * *
478605 CTGTTC-GCCTTTGTGTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACC
1 CT-TTCACCCTTT-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* * *
478669 -TTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTAGTGGCA-CTTCC
64 TTTCAGTCCTCAAAGAGCAGGATG----C-CTTTTCAAAGCCCACACAAGTTGGTGGCACCCTCC
* *
478732 TAGTCCTTAAAGAGCAGGAC
124 -AGTCCTCAAAGAGCTGGAC
478752 GCTCTCTCCT
Statistics
Matches: 362, Mismatches: 39, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
268 27 0.07
269 115 0.32
270 82 0.23
271 9 0.02
272 4 0.01
273 11 0.03
274 36 0.10
276 70 0.19
277 8 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (271 bp):
CTTTCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTC
AAAGAGCTGGACACCTTTCCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAAA
GCAGGACGCCTTCTCATTTTAAAGCCCACACAAGCTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
GAAGCTCTCTC
Found at i:478745 original size:154 final size:151
Alignment explanation
Indices: 478486--478900 Score: 542
Period size: 154 Copynumber: 2.7 Consensus size: 151
478476 ATGCCTTTTT
*
478486 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGA-CAGGACGCCTTCTCCTTTT
1 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGA-GCCTTCT-CTTTT
* *
478550 AAAGCCCACCCAAGCTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCT-CTGTTC-GC
64 AAAGCCCACACAAGCTGGTGGCACTTC-TAGTCCTCAAAGAGCAGGACGCTCTCTCCT-TTCACC
* *
478613 CTTTGTGTCCTCAAAGAGTAGGATGC
127 CTTT-AGTCCTCAAAGAGCAGGATGC
*
478639 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTT
1 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGA-GCCTTCTC-TTTT
* * *
478704 AAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTTAAAGAGCAGGACGCTCTCTCCTTTCACCC
64 AAAGCCCACACAAGCTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCC
478769 TTTAGTCCTCAAAGAGCAGGATGC
128 TTTAGTCCTCAAAGAGCAGGATGC
* * * * *
478793 CTTTCAAAGCCCACACAAG-TGGTAGCACCTTTTAGTCCTTAAAGAGTAGGA---TAC-CTTTTA
1 CTTTTAAAGCCCACACAAGCTGGTGGCACC-TTTAGTCCTCAAAGAGCAGGAGCCTTCTCTTTTA
*
478853 AAGCCCACACAAGCTGGTGGCACCTT-TAGTCCTCAAAAAGCAGGACGC
65 AAGCCCACACAAGCTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACGC
478901 CTTTTCCTTT
Statistics
Matches: 235, Mismatches: 20, Indels: 20
0.85 0.07 0.07
Matches are distributed among these distances:
147 20 0.09
148 25 0.11
149 4 0.02
150 2 0.01
153 53 0.23
154 123 0.52
155 8 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (151 bp):
CTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGAGCCTTCTCTTTTAA
AGCCCACACAAGCTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTT
AGTCCTCAAAGAGCAGGATGC
Found at i:478850 original size:54 final size:55
Alignment explanation
Indices: 478764--479018 Score: 230
Period size: 54 Copynumber: 4.5 Consensus size: 55
478754 TCTCTCCTTT
* * * *
478764 CACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAG-TGGTAG
1 CACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGCTGGTGG
* *
478818 CACCTTTTAGTCCTTAAAGAGTAGGATACCTTTTAAAGCCCACACAAGCTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGCTGGTGG
* * *
478873 CACC-TTTAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGA------TACCTTTTAAAGCCCACACAAGCTGGTGG
* * * *
478933 CA-CTTTTCAGTCCTTAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACATAAGTTGGTGG
1 CACCTTTT-AGTCCTCAAAGAGCAGGATAC---C-TTTT--AAAGCCCACACAAGCTGGTGG
**
478994 CACCTTCCAGTCCTCAAAG-GCAGGA
1 CACCTTTTAGTCCTCAAAGAGCAGGA
479019 CGCCTTTTCT
Statistics
Matches: 167, Mismatches: 18, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
54 61 0.37
55 11 0.07
58 1 0.01
59 5 0.03
60 38 0.23
61 48 0.29
62 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (55 bp):
CACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGCTGGTGG
Found at i:478878 original size:208 final size:208
Alignment explanation
Indices: 478214--478958 Score: 748
Period size: 208 Copynumber: 3.5 Consensus size: 208
478204 GGACACCTTT
* * * *
478214 CCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAAAGCAGGACGCTTTCTCATT
1 CCTTTT-AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCTTT
* *
478279 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTTTCCTTTCAC
65 TTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
* * * * *
478344 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAATCC
129 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGTCACCTTTTAGTCC
*
478409 TCAAAGAGCT-GGACG
194 TCAAAGAG-TAGGATG
* * * * * * *
478424 CCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCATGATGCCTT-TTTCT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCT-T
* *
478488 TTTAAAGCCCACATAAGCTGGTGGCACCTT-TAGTCCTCAAAGA-CAGGACGC-CTTCTCCTTT-
64 TTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACGCTC-TCTCCTTTC
** * * ** * ** * **
478549 ----TAAAGCCCACCCA-AGCTGG-TGGCAC-TTCTTAGTCCTCAAAGAGCAGGACGCTCTCTCT
127 ACCCTTTAGTCCTCAAAGAGCAGGAT-GC-CTTTCAAAG-CC-C--ACA-CA--A-G--CT-GGT
*
478607 GTTCGCCTTTGT-GTCCTCAAAGAGTAGGATG
179 G-TCACCTTT-TAGTCCTCAAAGAGTAGGATG
* *
478638 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCTTTT
* *
478703 TAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTTAAAGAGCAGGACGCTCTCTCCTTTCACC
66 TAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACC
478768 CTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAG-TGGTAG-CACCTTTTAGTCC
130 CTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGT-GTCACCTTTTAGTCC
* *
478831 TTAAAGAGTAGGATA
194 TCAAAGAGTAGGATG
* * *
478846 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAAAGCAGGACGCCTTTTCCTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCTTTT
* *
478911 TAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGA
66 TAAAGCCCACACAAGTTGGTGGCACTTCT-AGTCCTCAAAGAGCAGGA
478959 TGCTTTCTTT
Statistics
Matches: 434, Mismatches: 65, Indels: 74
0.76 0.11 0.13
Matches are distributed among these distances:
202 12 0.03
203 10 0.02
204 1 0.00
206 2 0.00
207 5 0.01
208 141 0.32
209 36 0.08
210 57 0.13
211 3 0.01
212 4 0.01
213 55 0.13
214 63 0.15
215 16 0.04
216 3 0.01
217 2 0.00
219 1 0.00
220 10 0.02
221 12 0.03
222 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (208 bp):
CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCTTTT
TAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCC
TTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGCTGGTGTCACCTTTTAGTCCTC
AAAGAGTAGGATG
Found at i:478979 original size:61 final size:61
Alignment explanation
Indices: 478794--479080 Score: 294
Period size: 60 Copynumber: 4.9 Consensus size: 61
478784 GCAGGATGCC
* * * *
478794 TTTCAAAGCCCACACAAG-TGGTAGCACCTTTT-AGTCCTTAAAGAGTAGGA-----TACCT
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTTAAAGAGCAGGACGCCTTTCTT
* * * * *
478849 TTT-AAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAAAGCAGGACGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGACGCC-TTTCTT
*
478909 TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGATG-CTTTCTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGACGCCTTTCTT
* * * *
478968 TTTGCAAAGCCCACATAAGTTGGTGGCACCTTCCAGTCCTCAAAG-GCAGGACGCCTTT-TCT
1 TTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGACGCCTTTCT-T
* * *
479029 TTTCAAAGCCTACACGAGTTGGTGGCACTTTTCAGTCCTTAAAGAGTAGGAC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGAC
479081 ACACTTCCTT
Statistics
Matches: 195, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
54 33 0.17
55 10 0.05
59 8 0.04
60 77 0.39
61 67 0.34
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGACGCCTTTCTT
Found at i:479008 original size:423 final size:423
Alignment explanation
Indices: 478214--479021 Score: 1182
Period size: 423 Copynumber: 1.9 Consensus size: 423
478204 GGACACCTTT
* * *
478214 CCTTTTCAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAAAGCAGGACGCTTTCTCATT
1 CCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCATT
* *
478279 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTTTCCTTTCAC
66 TTAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTCTCCTTTCAC
478344 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAATCC
131 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAATCC
* * * *
478409 TCAAAGAGCTGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCA
196 TCAAAGAGCTGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCCTCAAAAAGCA
* * * *
478474 TGATGCCTTTTTCTTTTAAAGCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGACAGGACGC
261 GGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGACAGGACGC
* *
478539 CTTCTCCTTTTAAAGCCCACCCAAGCTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCTCTC
326 CTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACTTCTCAGTCCTCAAAG-GCAGGACGCTCTC
478604 TCTGTTCGCCTTTGTGTCCTCAAAGAGTAGGATG
390 TCTGTTCGCCTTTGTGTCCTCAAAGAGTAGGATG
* * *
478638 CCTTTT-AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTT
1 CCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCATT
* *
478702 TTAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTTAAAGAGCAGGACGCTCTCTCCTTTCAC
66 TTAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTCTCCTTTCAC
* * *
478767 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAG-TGGT-AGCACCTTTTAGTC
131 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGA-CACCTTTCAATC
* * **
478830 CTTAAAGAG-TAGGATACCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTTAGTCCTCAAAAAG
195 CTCAAAGAGCT-GGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCCTCAAAAAG
* * *
478893 CAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGG
259 CAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGA-CAGG
* * * *
478958 ATG-CTT-TCTTTTTGCAAAGCCCACATAAGTTGGTGGCACCTTC-CAGTCCTCAAAGGCAGGAC
322 ACGCCTTCTCCTTTT--AAAGCCCACACAAGCTGGTGGCA-CTTCTCAGTCCTCAAAGGCAGGAC
479020 GC
384 GC
479022 CTTTTCTTTT
Statistics
Matches: 343, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
421 64 0.19
422 75 0.22
423 194 0.57
424 10 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (423 bp):
CCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTCTCATT
TTAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTCAAAGAGCAGGAAGCTCTCTCCTTTCAC
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTCAATCC
TCAAAGAGCTGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCCTCAAAAAGCA
GGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGACAGGACGC
CTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACTTCTCAGTCCTCAAAGGCAGGACGCTCTCT
CTGTTCGCCTTTGTGTCCTCAAAGAGTAGGATG
Found at i:479017 original size:121 final size:115
Alignment explanation
Indices: 478792--479079 Score: 377
Period size: 121 Copynumber: 2.5 Consensus size: 115
478782 GAGCAGGATG
* *
478792 CCTTTCAAAGCCCACACAAG-TGGTAGCACCTTTT-AGTCCTTAAAGAGTAGGATACCTTTTAAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTTAAAGAGTAGGATACCTTTTAAA
*
478855 GCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAAAGCAGGACGCCTTTT
65 GCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTTT
* *
478906 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGCAGGATGCTTTCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGTAGGATAC---C-TTTT
* * *
478971 GCAAAGCCCACATAAGTTGGTGGCACCTTCCAGTCCTC-AAAGGCAGGACGCCTTTT
62 --AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAAAGCAGGACGCCTTTT
* *
479027 -CTTTTCAAAGCCTACACGAGTTGGTGGCACTTTTCAGTCCTTAAAGAGTAGGA
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGTAGGA
479080 CACACTTCCT
Statistics
Matches: 153, Mismatches: 11, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
114 24 0.16
115 26 0.17
118 1 0.01
119 4 0.03
120 5 0.03
121 86 0.56
122 7 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (115 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTTAAAGAGTAGGATACCTTTTAAAG
CCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTTT
Found at i:479167 original size:42 final size:42
Alignment explanation
Indices: 479104--479196 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
479094 TTCTTTTCTT
* *
479104 TTTTGTCCTCAAAGAGTAGGACGCACTTT-ATTTTCCTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCA-TTTCATTTCCCTTTTTC
* *
479146 TTTTGTCCTCAAAGAGCAGGACGTATTTCGTTTCCCTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCCTTTTTC
*
479188 CTTTGTCCT
1 TTTTGTCCT
479197 TGAAAAATGG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCCTTTTTC
Found at i:479994 original size:21 final size:21
Alignment explanation
Indices: 479968--480040 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
479958 TTCAATAATT
479968 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* **
479989 TGTATCGATACATA-AGT-GT
1 TGTATCGATACAAACAGTAAA
480008 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
480029 TGTATTGATACA
1 TGTATCGATACA
480041 TAAGTGTTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 13 0.30
20 6 0.14
21 24 0.56
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:480012 original size:40 final size:40
Alignment explanation
Indices: 479967--480059 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
479957 TTTCAATAAT
479967 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
*
480007 TTGTATCGATACAAACAGTAAATGTATTGATACATAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
480047 TTGTATCGATACA
1 TTGTATCGATACA
480060 TTGTATCGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (40 bp):
TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
Found at i:480013 original size:19 final size:19
Alignment explanation
Indices: 479989--480060 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
479979 AAACAGTAAA
479989 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
* **
480008 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATA-AGT-GT
*
480029 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
480048 TGTATCGATACAT
1 TGTATCGATACAT
480061 TGTATCGCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 25 0.58
20 6 0.14
21 12 0.28
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:480217 original size:20 final size:20
Alignment explanation
Indices: 480194--480282 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
480184 ACATTTTATG
480194 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
*
480214 TTGTATTGATACATTG-T-A
1 TTGTATCGATACATTGCTCA
480232 --G--T-GATACATTTGCTCA
1 TTGTATCGATACA-TTGCTCA
* *
480248 TTGTATCGATAAATT-TTACA
1 TTGTATCGATACATTGCT-CA
*
480268 ATGTATCGATACATT
1 TTGTATCGATACATT
480283 CAGGCATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
13 6 0.11
14 4 0.07
15 1 0.02
16 2 0.04
18 2 0.04
19 2 0.04
20 33 0.60
21 5 0.09
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGCTCA
Found at i:480230 original size:13 final size:13
Alignment explanation
Indices: 480212--480241 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
480202 ATACATTGCT
*
480212 CATTGTATTGATA
1 CATTGTAGTGATA
480225 CATTGTAGTGATA
1 CATTGTAGTGATA
480238 CATT
1 CATT
480242 TGCTCATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (13 bp):
CATTGTAGTGATA
Found at i:481853 original size:13 final size:13
Alignment explanation
Indices: 481835--481860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
481825 TTTTTTTTGG
481835 TGTATCGATACAT
1 TGTATCGATACAT
481848 TGTATCGATACAT
1 TGTATCGATACAT
481861 ACTTTGTGTA
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:487627 original size:13 final size:13
Alignment explanation
Indices: 487609--487636 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
487599 ATACAAAGAT
487609 CAATGTATCGATA
1 CAATGTATCGATA
487622 CAATGTATCGATA
1 CAATGTATCGATA
487635 CA
1 CA
487637 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:487633 original size:33 final size:33
Alignment explanation
Indices: 487591--487656 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
487581 AATTTCCCAG
487591 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
487624 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
487657 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:499681 original size:49 final size:49
Alignment explanation
Indices: 499520--499768 Score: 223
Period size: 52 Copynumber: 5.0 Consensus size: 49
499510 CGAAGAATGA
* * * * * * *
499520 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * ** * * * * *
499567 CAATATGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTA--AA-GATGAAGGTGC
* * * *
499619 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
499668 CAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAATGTGC
1 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGAT-G--AAGGTGC
*
499720 CAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
499769 ATGTCGTAAC
Statistics
Matches: 167, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
47 29 0.17
49 52 0.31
50 6 0.04
51 1 0.01
52 79 0.47
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
Found at i:499721 original size:101 final size:101
Alignment explanation
Indices: 499520--499768 Score: 299
Period size: 101 Copynumber: 2.5 Consensus size: 101
499510 CGAAGAATGA
* * * * *
499520 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATATGCTGAGACAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAGACAA
*
499583 GGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
66 GGCCAGCGACATTGGGCTTAAGAATGTTAAAGATGC
* * * * **
499619 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAGACAA
* *
499684 GGCCAGCGACATTGGTCTTAA-AGATGGTTAATG-TGC
66 GGCCAGCGACATTGGGCTTAAGA-AT-GTTAAAGATGC
* * *
499720 CAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
499769 ATGTCGTAAC
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 37 0.29
100 1 0.01
101 83 0.65
102 6 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (101 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAGACAA
GGCCAGCGACATTGGGCTTAAGAATGTTAAAGATGC
Found at i:499761 original size:52 final size:50
Alignment explanation
Indices: 499616--499768 Score: 211
Period size: 49 Copynumber: 3.1 Consensus size: 50
499606 ATGTTAAAGA
* * * *
499616 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-GAAGG
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGGAAGG
* *
499665 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAATG
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGG--AAGG
*
499717 TGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGAT-GAAGG
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGGAAGG
499766 TGC
1 TGC
499769 ATGTCGTAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
49 45 0.49
50 1 0.01
51 1 0.01
52 45 0.49
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (50 bp):
TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGGAAGG
Found at i:503011 original size:19 final size:17
Alignment explanation
Indices: 502987--503136 Score: 117
Period size: 19 Copynumber: 8.9 Consensus size: 17
502977 TAGCTTATAT
502987 TGTATCGATACAAAAGTTA
1 TGTATCGATAC-AAA-TTA
503006 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
503019 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
503038 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
503051 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
503070 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
503089 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
503102 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-A--TTA
503122 TGTATCGATACAAAT
1 TGTATCGATACAAAT
503137 CGTTGAAATT
Statistics
Matches: 112, Mismatches: 0, Indels: 40
0.74 0.00 0.26
Matches are distributed among these distances:
13 33 0.29
14 3 0.03
16 6 0.05
17 1 0.01
18 2 0.02
19 54 0.48
20 13 0.12
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (17 bp):
TGTATCGATACAAATTA
Found at i:503024 original size:13 final size:13
Alignment explanation
Indices: 503006--503062 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
502996 ACAAAAGTTA
503006 TGTATCGATACAT
1 TGTATCGATACAT
503019 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
503037 ATGTATCGATACAT
1 -TGTATCGATACAT
503051 TGTATCGATACA
1 TGTATCGATACA
503063 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:503026 original size:32 final size:32
Alignment explanation
Indices: 502985--503081 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
502975 AGTAGCTTAT
* *
502985 ATTGTATCGATACAAAAGTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
503017 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
503049 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
503081 A
1 A
503082 ACACTTATGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:503074 original size:51 final size:52
Alignment explanation
Indices: 503019--503134 Score: 225
Period size: 51 Copynumber: 2.2 Consensus size: 52
503009 ATCGATACAT
503019 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACAC-TTA
1 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTA
503070 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTA
503122 TGTATCGATACAA
1 TGTATCGATACAA
503135 ATCGTTGAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 48 0.75
52 16 0.25
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (52 bp):
TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTA
Found at i:503106 original size:32 final size:33
Alignment explanation
Indices: 503070--503133 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
503060 ACAACACTTA
503070 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
503102 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
503134 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:503107 original size:13 final size:13
Alignment explanation
Indices: 503089--503113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
503079 ACAACACTTA
503089 TGTATCGATACAT
1 TGTATCGATACAT
503102 TGTATCGATACA
1 TGTATCGATACA
503114 ACACTTTATG
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:503540 original size:39 final size:40
Alignment explanation
Indices: 503486--503782 Score: 204
Period size: 48 Copynumber: 6.9 Consensus size: 40
503476 AAAGATGAAA
503486 GTGCCAATATGCTGATTCAAGGCCAGCGATA-TGGAGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAGCTT
* * *
503525 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-G-----GAGCT--T
* *
503573 GTGCCAATATGCTAATTCAAGGCCAGTGATATTGG-GCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAGCTT
* * * * * *
503612 GTGCCAATGTACTGATTCAAGGCTAGCGAAATTGGTCTTAAAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG------AGCT--T
*
503660 GTGCCAATATGCTGATTCAAGGCCAACGATATTGG-GCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAGCTT
* * * **
503699 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-G-----GAG-C-TT
503747 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
503783 CTCAAGATGG
Statistics
Matches: 199, Mismatches: 32, Indels: 51
0.71 0.11 0.18
Matches are distributed among these distances:
39 88 0.44
40 2 0.01
41 5 0.03
42 3 0.02
45 1 0.01
46 7 0.04
47 3 0.02
48 90 0.45
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (40 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAGCTT
Found at i:503596 original size:48 final size:48
Alignment explanation
Indices: 503525--503992 Score: 371
Period size: 48 Copynumber: 9.8 Consensus size: 48
503515 TATGGAGCTT
*
503525 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATAAG
* * *
503573 GTGCCAATATGCTAATTCAAGGCCAGTGATATTGGGC-T-----T---
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATAAG
* * * * *
503612 GTGCCAATGTACTGATTCAAGGCTAGCGAAATTGGTCTTAAAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATAAG
* *
503660 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T-A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATAAG
* * *
503700 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATAAG
* * *
503747 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT-TAGA-GAT-AAG
* * * *
503798 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAGCAATATTG-GTCTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-TC--T-TAGAG--AT-AAG
* * * * *
503852 GTGCTAATGTGCTGATTCAAGGGCAGCGACATTGGTCTTAAAGATGGTTAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT--AGA--GATAAG
* * * * * *
503904 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTAAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGAT-AAG
*
503953 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA
503993 AAGGTGCCAC
Statistics
Matches: 334, Mismatches: 54, Indels: 63
0.74 0.12 0.14
Matches are distributed among these distances:
39 62 0.19
40 2 0.01
41 1 0.00
42 2 0.01
45 1 0.00
46 1 0.00
47 2 0.01
48 100 0.30
49 40 0.12
50 4 0.01
51 38 0.11
52 40 0.12
53 3 0.01
54 37 0.11
55 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATAAG
Found at i:503612 original size:87 final size:87
Alignment explanation
Indices: 503437--503781 Score: 539
Period size: 87 Copynumber: 4.0 Consensus size: 87
503427 AGTGTCTACA
* * *
503437 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAAGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
503502 TCAAGGCCAGCGATA-TGGAGCTT
65 TCAAGGCCAGCGATATTGG-GCTT
* * *
503525 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAGGTGCCAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
*
503590 CAAGGCCAGTGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
503612 GTGCCAATGTACTGATTCAAGGCTAGCGAAATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
*
503677 CAAGGCCAACGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
503699 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
503764 CAAGGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGG
503782 ACTCAAGATG
Statistics
Matches: 234, Mismatches: 22, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
87 190 0.81
88 44 0.19
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:503819 original size:51 final size:51
Alignment explanation
Indices: 503700--503995 Score: 286
Period size: 52 Copynumber: 5.8 Consensus size: 51
503690 ATTGGGCTTA
* * *
503700 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT-TAGA--G-ACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAGATGGTA-AAGG
* *
503748 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAGATGGTAAAGG
* * *
503799 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGAGC-AATA-TTGGTCTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGA-CTAA-AGATGG---TAAAGG
* * * * *
503853 TGCTAATGTGCTGATTCAAGGGCAGCGACATTGGTCTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAGATGGTAAAGG
* * * *
503905 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTAAAAGAT-G--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-AAAGATGGTAAAGG
*
503954 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAG
503996 GTGCCACAGA
Statistics
Matches: 210, Mismatches: 24, Indels: 27
0.80 0.09 0.10
Matches are distributed among these distances:
48 34 0.16
49 42 0.20
50 1 0.00
51 45 0.21
52 46 0.22
53 1 0.00
54 36 0.17
55 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (51 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAGATGGTAAAGG
Found at i:503985 original size:155 final size:152
Alignment explanation
Indices: 503704--503988 Score: 412
Period size: 155 Copynumber: 1.8 Consensus size: 152
503694 GGCTTATGCC
503704 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGG
* * * *
503769 CCAGCGATATTGGACTCAAGATGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGA
66 CCAACGACATCGGACTAAAGATGG-AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGA
503834 GCAATATTGGTCTTAAAGGTGCT
130 GCAATATTGGTCTTAAAGGTGCT
* ** *
503857 AATGTGCTGATTCAAGGGCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA--GACAAGGTGCCAATATGCTGATTC
* *
503922 AAGGCCAACGACATCGGTCTAAAAGAT-G-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
62 AAGGCCAACGACATCGGACT-AAAGATGGAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
503985 TGGA
126 TGGA
503989 CTTAAAGGTG
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
153 33 0.28
155 41 0.35
157 38 0.32
158 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (152 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGG
CCAACGACATCGGACTAAAGATGGAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAG
CAATATTGGTCTTAAAGGTGCT
Found at i:504063 original size:35 final size:32
Alignment explanation
Indices: 503992--504431 Score: 372
Period size: 33 Copynumber: 13.8 Consensus size: 32
503982 TATTGGACTT
*
503992 AAAGGTGCCACAGAGTTGTGGACTT-AAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-A
* * *
504024 AAAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGA
* *
504059 AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGGAA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAA-GG-A
** *
504094 AAAGGGTGCCACGGAGTCATGGACTTAAAAAGA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAGGA
504127 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
** *
504159 ACAAAATGCCACAGAGTTGTGGACTTAAAAGGA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
504192 AAATGATGCCATGGAGTTGTGGACTTAAAAGGA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAGGA
**
504225 ATAAGGTGCCATAGAGTTGTGGACTTAAAA-G-
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
504256 ---GGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
504285 ATAAGGGGCCACGAAGTTGTGGACTTAAAA-G-
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
504316 ---GGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-A
* * * *
504346 AAACAGTTCCACAGAGTTGTGGGCTTTAAAA-G-
1 AAA-GGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
504378 ---GGTGCCACGGAGTCGTGGACTTAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
504407 AAAGGTGTCACGGAGTTATGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
504432 TCAGAAAAGA
Statistics
Matches: 335, Mismatches: 46, Indels: 54
0.77 0.11 0.12
Matches are distributed among these distances:
27 51 0.15
28 17 0.05
32 53 0.16
33 108 0.32
34 59 0.18
35 45 0.13
36 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:504139 original size:32 final size:32
Alignment explanation
Indices: 503992--504506 Score: 317
Period size: 33 Copynumber: 15.8 Consensus size: 32
503982 TATTGGACTT
*
503992 AAAGGTGCCACAGAGTTGTGGACTTAAAGGAA-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAA--AAGA
* * * * *
504025 AAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGA
1 AAAGG-TGCCACGGAGTTGTGGACTTAAAA-AGA
* * *
504059 AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGGAA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAA-AG-A
**
504094 AAAGGGTGCCACGGAGTCATGGACTTAAAAAGA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAAGA
*
504127 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
** * *
504159 ACAAAATGCCACAGAGTTGTGGACTTAAAAGGA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* * *
504192 AAATGATGCCATGGAGTTGTGGACTTAAAAGGA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAAGA
**
504225 ATAAGGTGCCATAGAGTTGTGGACTT-AAAAG-
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* * *
504256 ---GGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* *
504285 ATAAGGGGCCACGAAGTTGTGGACTT-AAAAG-
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* *
504316 ---GGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
* * * * *
504346 AAACAGTTCCACAGAGTTGTGGGCTTTAAAAG-
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAAGA
*
504378 ---GGTGCCACGGAGTCGTGGACTT-AAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
* *
504407 AAAGGTGTCACGGAGTTATGGACTTTCAGAAAAGA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-A-AAAAGA
*
504442 TACTACTGAGTGGTGCCACGGAGTCGTGGACTT-AAAAGAA
1 -A--A---A--GGTGCCACGGAGTTGTGGACTTAAAAAG-A
* *
504482 AAAGGTGTCACGGAGTTATGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
504507 TCAGAAAAGA
Statistics
Matches: 385, Mismatches: 58, Indels: 79
0.74 0.11 0.15
Matches are distributed among these distances:
27 43 0.11
28 25 0.06
32 74 0.19
33 105 0.27
34 71 0.18
35 32 0.08
36 6 0.02
37 1 0.00
38 1 0.00
39 6 0.02
40 1 0.00
41 1 0.00
42 2 0.01
43 17 0.04
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
Found at i:504303 original size:60 final size:61
Alignment explanation
Indices: 504058--504431 Score: 377
Period size: 60 Copynumber: 6.0 Consensus size: 61
504048 CTTAAAAGGG
* * **
504058 AAAAGGGTGCCACAGAGTCGTGGACTTAAAAGGGAAAAAGGGTGCCACG-GAGTCATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAA-GGTGCCACGAGAGTTGTGGACTT
*
504120 AAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAA-ATGCCAC-AGAGTTGTGGAC
1 -AAAAG----GGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGGTGCCACGAGAGTTGTGGAC
504183 TT
60 TT
* * *
504185 AAAAGGAAAATGATGCCATGGAGTTGTGGACTTAAAAGGAATAAGGTGCCA-TAGAGTTGTGGAC
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAGAGTTGTGGAC
504249 TT
60 TT
* * * *
504251 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAATAAGGGGCCACGA-AGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAGAGTTGTGGACTT
* * * *
504311 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAACAGTTCCAC-AGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-GGTGCCACGAGAGTTGTGGAC-TT
* * *
504373 AAAAGGGTGCCACGGAGTCGTGGACTTAAAA-GAAAAAGGTGTCACG-GAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAGAGTTGTGGACTT
504432 TCAGAAAAGA
Statistics
Matches: 264, Mismatches: 28, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
59 2 0.01
60 96 0.36
61 22 0.08
62 31 0.12
63 5 0.02
64 5 0.02
65 20 0.08
66 56 0.21
67 27 0.10
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAGAGTTGTGGACTT
Found at i:504501 original size:75 final size:75
Alignment explanation
Indices: 504378--504531 Score: 308
Period size: 75 Copynumber: 2.1 Consensus size: 75
504368 GCTTTAAAAG
504378 GGTGCCACGGAGTCGTGGACTTAAAAGAAAAAGGTGTCACGGAGTTATGGACTTTCAGAAAAGAT
1 GGTGCCACGGAGTCGTGGACTTAAAAGAAAAAGGTGTCACGGAGTTATGGACTTTCAGAAAAGAT
504443 ACTACTGAGT
66 ACTACTGAGT
504453 GGTGCCACGGAGTCGTGGACTTAAAAGAAAAAGGTGTCACGGAGTTATGGACTTTCAGAAAAGAT
1 GGTGCCACGGAGTCGTGGACTTAAAAGAAAAAGGTGTCACGGAGTTATGGACTTTCAGAAAAGAT
504518 ACTACTGAGT
66 ACTACTGAGT
504528 GGTG
1 GGTG
504532 GACTTTGAAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.23
Consensus pattern (75 bp):
GGTGCCACGGAGTCGTGGACTTAAAAGAAAAAGGTGTCACGGAGTTATGGACTTTCAGAAAAGAT
ACTACTGAGT
Done.