Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1740
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: 654062
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 4 of 4
Found at i:618612 original size:20 final size:20
Alignment explanation
Indices: 618587--618632 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
618577 CCAATATATC
**
618587 GATACAATTTTTTGTGTATT
1 GATACAATACTTTGTGTATT
618607 GATAC-ATACTTTGTGTATT
1 GATACAATACTTTGTGTATT
618626 GATACAA
1 GATACAA
618633 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (20 bp):
GATACAATACTTTGTGTATT
Found at i:619304 original size:40 final size:41
Alignment explanation
Indices: 619258--619348 Score: 100
Period size: 39 Copynumber: 2.3 Consensus size: 41
619248 TTTTCTTTCT
619258 CCCTTAACTAAAG-TAATTTTAAG-AAATTCGTACATTCTCC
1 CCCTTAACTAAAGATAATTTT-AGCAAATTCGTACATTCTCC
** *
619298 CCCTTAA-T-AAGATAATTTTAGCAAATTTTTGCATTCTCC
1 CCCTTAACTAAAGATAATTTTAGCAAATTCGTACATTCTCC
* *
619337 CCTTTTACTAAA
1 CCCTTAACTAAA
619349 AAAAATCTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
38 5 0.12
39 27 0.64
40 8 0.19
41 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAGCAAATTCGTACATTCTCC
Found at i:620743 original size:21 final size:20
Alignment explanation
Indices: 620714--620756 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
620704 GACTAGTGTG
* *
620714 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
620735 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
620755 GG
1 GG
620757 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:621206 original size:13 final size:13
Alignment explanation
Indices: 621188--621225 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
621178 ATAATCCCCC
621188 TGTATCGATACAG
1 TGTATCGATACAG
*
621201 TGTATCGATACAT
1 TGTATCGATACAG
621214 TGTATCGATACA
1 TGTATCGATACA
621226 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:623327 original size:15 final size:15
Alignment explanation
Indices: 623307--623337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
623297 ATTTCGTTTG
*
623307 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
623322 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
623337 G
1 G
623338 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:625168 original size:21 final size:21
Alignment explanation
Indices: 625139--625183 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
625129 AAGTTTTTAT
*
625139 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
625159 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
625181 TTT
1 TTT
625184 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:627432 original size:13 final size:13
Alignment explanation
Indices: 627414--627439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
627404 CAATTTTTTG
627414 TGTATCGATACAT
1 TGTATCGATACAT
627427 TGTATCGATACAT
1 TGTATCGATACAT
627440 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:627456 original size:32 final size:33
Alignment explanation
Indices: 627394--627457 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
627384 TACAAGCCAA
**
627394 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
*
627427 TGTATCGATAC-ATACTTTGTGTATTGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
627458 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:628736 original size:476 final size:475
Alignment explanation
Indices: 627832--636397 Score: 9203
Period size: 476 Copynumber: 18.1 Consensus size: 475
627822 AGATCCTAAC
* ** * *
627832 AGCTTTGCG-TTCATAAGAAAGGCTTTCTTCCTTCAAATTTTGTTAAAGTCTAAGTTAGTGCCTC
1 AGCTTTG-GTTTCGTAAGAAAGGCTTTCTTCCACCAATTTTTG-TAAAGTCTAAGTTCGTGCCTC
** * * ** **
627896 AATTGTGATGAACATGGATT-T--T-TTG-TCGTCATTCGCTTTGTGATTACACACTATAAA-AG
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA-
** * ** * * * *
627955 CATTC-CTCTCAATAGGATAAATGAGGCAAGGAT-TTTTTTTTTTGCTTGAAAATCTTTTCTTTG
128 CATTCTC-CTCTTTAGGATAAATGA--TATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTG
* * * * * * * *
628018 CCCTATTTTCTTTAAAATCAAAGTTCTTCTCTTAAATAAGGCAAGCATTTATTTTCATAATAGTC
190 CCCTATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTC
* * * * * * *
628083 TTCATTCATTTCATGTTTGGGAACAAAAAACAAATTCCATTCAATAGGATACATGACATTGACAC
255 TCCATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACAC
* * * *
628148 TTAGGTGTTTG-AAGAAAAGCATTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCATAA
320 TTTGGTG-TCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAA
*
628212 AAAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
384 ATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
628277 TCTTCTAATAAGGATACACGATATTGA
449 TCTTCTAATAAGGATACACGATATTGA
* * * *
628304 AGCATTGGTTTCTTAAGAAAGGCTTTCTTCGCACCAATTTTTGGAAAGCCTAAGTTCGTGCCTCA
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTTC-CACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * *
628369 ATTGTGACAAACATGGATTTTAGTAATGATCTTCATTTATTTTGTGAGTAGGCACTATAAACATA
65 ATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * * * * *
628434 TTTTCCACTTTAGTATAAATGATATTGAAGTTTTTCTTTTGCATAGAAATCTTTTCATTGCCCTA
130 TTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
* * *
628499 TTTTCCTTAAAATTAAAGTTTATTCCTTAAATAAGGCAA-CAATTGATTCTTGTAACAGTCTCCA
195 TTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGC-ATTGATTCTCGTAACAGTCTCCA
* * * * ** * * * *
628563 TTTTTTTTATGAGTGGGCAGTAGAAACACATTCCTTTCATTAAGATACATGACATTGATACATTG
259 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTTG
* * * * *
628628 GTGTCGCAAGAAAGGCATTTCTTTCAATCGTTATTGATAGAATCAATGTTTGTCTCTTAAATATG
324 GTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
* * * * * * * * *
628693 ACAAACATGAATAATTATATTATTGCCTATTCTTTTTAGGATTAGGCACTATAAACTTATTCTTC
389 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTC
* * * *
628758 TTATAAGGATGCATGATACTGA
454 TAATAAGGATACACGATATTGA
* * * * * * *
628780 TGCATTGGCTTCGTAAGAAAGGCTTTTTTCCTACTAATTTTTGTAAAGTCTAAGTTCATGCCTGA
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTTCC-ACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * ** * * *
628845 ATAGGGACAAACATGGATTCTAGTAACAATCTTCATTCATTTTCTGATTAGGCACTACAAACACC
65 ATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * *
628910 TTCTCCT-TATTAGGATAAGA-GATATTGGTGATTTTCTTTTGCATGGAAATCTTTCCTTTACCC
130 TTCTCCTCT-TTAGGATAA-ATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * *
628973 TATTTTCCTTAAAATTAAACTTCATCCCTTAAATAA-GCAAGCATTGATTCTCGTAATAGTCACC
193 TATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
* * * * * * *
629037 ATTCTTTTCATGATTGGGAACTAGAAACCCATTGCTTTCATTAGGATACATGACACTAACACATT
258 ATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTT
* * **
629102 GGTGTTGCAAGAAAAGTATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATTT
323 GGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* ** * * * * *
629167 GAAAAAGTTGAATAGTCACACTAATCCCCATTCTTTTCAAGAATAAGCACCATAAACTTAGCCTT
388 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT
* *
629232 CCT-AGAAGGATATACGATATT-A
453 -CTAATAAGGATACACGATATTGA
* * * * * **
629254 ATGCTTTGGTTTTGTAAGAAACGCTTTCTTTCCTCAAATTATAATAAAGTCTAAGTTCGTGCCTC
1 A-GCTTTGGTTTCGTAAGAAAGGCTTTC-TTCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTC
* * * * * ** *** ** * *
629319 AATTGTGGCGAATAGGGATTTTTTTAATGATCTTCATTTGCTTTGTGATTACACATTATAAAAAC
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * *
629384 ATTCTCCTCTTTAGGATAAATGATATT-ATTGATTTTCTTTTCCTTGGAAATCTTTTCTTTTCCC
129 ATTCTCCTCTTTAGGATAAATGATATTGA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * *
629448 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGTATTGATTATCGTAATAGTCTCC
193 TATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
* * *
629513 ATT-TCTTTCATGATTGGGAACCAAAAACACATTCCATTCAATAGGATGCATGACATTGACACTT
258 ATTCT-TTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTT
* * * * *
629577 TAGTGCCGCAAGAAAAGCATTTCTTTCAACCGTTTTTTATAGAATCAAAGTTTGTCTTTTAAATG
322 TGGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * *
629642 AGACAAACATGAATAGTCATACTAATCCCCATTCTTTTTAGGATTAGGCACCATATATTTAGTCT
387 AGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCT
* * *
629707 TCTAAAAATGATACATGATATTGA
452 TCTAATAAGGATACACGATATTGA
* * ** * * * *
629731 ATCATTGGTTTTATGAA-AAAGGCTTTCTTCCCACCAATTTATGTAAAGCCTAAATTCATGCCTC
1 AGCTTTGGTTTCGT-AAGAAAGGCTTTCTT-CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTC
** * * * * * *
629795 AACAGTGACAAACATAGATTCTAGTAATAATCTTCATTCATTTTATGATTAGTCACAATAAACAA
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * *
629860 ATTCTCCTCATTGAGG-TAAATGATATTGATTATTTTCTTTTGCATGAAAATCATTTCTTTGCCC
129 ATTCTCCTC-TTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* ** *
629924 TATTTTCCTCAAAATTAAAGTTCAT-TTTTAAATAAGGCAAGCATTAATTCTCGTAACAGTCTCC
193 TATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
* * * *
629988 ACTCTTTTCATGATTGGGAACCAAAAATACATTCCTTTCATTAGGATACATGACATTAACGCTTT
258 ATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTT
* ** *
630053 GAG-GTCGCAAGAAAAGCTTTTC-TTCTTGCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
323 G-GTGTCGCAAGAAAAGCATTTCTTTC-AACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
* * * **
630116 AGGACAAACATGAATAGTCAAAGTAATCCCCATTCTTTTCAGGATTAGGCACCCCAAACTTAGTC
386 AAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTC
* * *
630181 TTCTAATAAGGATACATGCTAGTGA
451 TTCTAATAAGGATACACGATATTGA
* * * * * ** *
630206 AGCATTGGTTTCGTAAAAAAGGCTTTATTCCCACCAATTTTTGCAAAGCCTAAGTTCACGCATCA
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTT-CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * * * * * *
630271 ACTATGATAAATATAGATTCTAGTAATGA-CTTTCATTAATTTTGTGTTTAGGCACTATAAACAT
65 ATTGTGACAAACATGGATTCTAGTAATGATC-TTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * * *
630335 ATTCTCCT-TACTAGGTTAAATGATATTGAAGTTTTTCTTTTGCATGGAAATCTTTTCGTTACCT
129 ATTCTCCTCT-TTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * *
630399 TATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGTAAGCATTGATTCTTGTAACAATCTCC
193 TATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
** * * * * **
630464 ATTGGTTTCATGATTGGGCACCAAAAACACTTTCCATTCATTAGGATATATGACATTGATGCTTT
258 ATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTT
* * * *
630529 GATGCCGCAAGAAAAGTATTTCTTTCAACCGTTTTTGATTGAATCAAAGTTTGTCTCTTAAATAA
323 GGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* *
630594 GACAAACATGAATAATCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT
388 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT
* * *
630659 CTCATAATGATACACGATACTGA
453 CTAATAAGGATACACGATATTGA
* * * * * *
630682 CGCTTTGGCTTTC-CAAAAAAGGCTTTCTTCCCACCAATTTCTATAAAGTCTAAGTTTGTGCCTC
1 AGCTTTGG-TTTCGTAAGAAAGGCTTTCTT-CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTC
* * * * * * * *
630746 AATTGGGACAAACATAGATTCTAGTAATGATCCTCTTTCATTTTCTGGTTAGGCACTACAAATAC
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * *
630811 ATTCTCCTTTTTAGGGTAAAAGATATAGATGATTTTCTTTTGAATGGAAATCTTTTCTTTGCCGT
129 ATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * *** * *
630876 ATTCTCCTTAAAATTAAAGTTTATTTGTTAAATAAGGCAAGCATTGATTCTCGTTACAGTCACCA
194 ATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * *
630941 TTCTTTTCATAATTGGGAACCAAAAACACATTTCTTTCATTAGGATACATGACATTGACACATTG
259 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTTG
* * * * * *
631006 GTGTCACATGAAAAGCATTTCTTTCAGCCATTTTTGGTAGTATCAAAGTTTGTCTCTTAAATAAG
324 GTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
* * * ** * * *
631071 ACAAACATGAGTTGTAATTGTAATACCCATTCTTTTCAAGAATAGGCACCATAAACTTAGTCTTG
389 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT-
* **
631136 C-CATAAGGATATGCGATATT-A
453 CTAATAAGGATACACGATATTGA
* * * * *
631157 ATTCTTTGGTTTCATAAGAAAGGCTTTCTTCC-CTCAAATTTTGTTAAAGTCTAAGTTAGAGCCT
1 A-GCTTTGGTTTCGTAAGAAAGGCTTTCTTCCAC-CAATTTTTG-TAAAGTCTAAGTTCGTGCCT
** * ** *** *
631221 CAATTGTGATGAACATGGATT-T--T--TGATCGTCATTCGCTTTGTGATTACATACTATAAAAA
63 CAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* * * *
631281 CTTTCTCCT-TTAATGGATAAATGATATT-ATTGATTTTCTTTTGCTTGGAAACCTTTTCTTTGC
128 CATTCTCCTCTTTA-GGATAAATGATATTGA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGC
* * * * *
631344 CTTATTTTCCTTAAAATCAAAGTTCATCTCTTAAATAAGGCAATCATTGATTCTCATAACAGTCT
191 CCTATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCT
** * * ** * * *
631409 TTATTCCTTTCATGATTGGAAATGAAAAACAAATAT--TATTCAATAGGATACATGACATTGGCA
256 CCATTCTTTTCATGATTGGGAACCAAAAACACAT-TCCT-TTCATTAGGATACATGACATTGACA
* * *
631472 CTTTGGGGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCATAA
319 CTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAA
* *
631537 AAAAGAAAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
384 ATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
631602 TCTTCTAATAAGGATACACGATATTGA
449 TCTTCTAATAAGGATACACGATATTGA
* * * *
631629 AGCATTGGTTTCTTAAGAAAGGCTTTTTTCGCACCAATTTTTGCAAAG-CGTAAGTTCGTGCCTC
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTTC-CACCAATTTTTGTAAAGTC-TAAGTTCGTGCCTC
* *
631693 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTTATTTTGTGATTAGGCACTATAAACAT
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * * *
631758 ATTTTCCTCATTAGGATAAATGATATTGAAGTTTTTCTTTTGTATTGAAATCTTTTCATTGCCCT
129 ATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * *
631823 ATATTCCTTAAAATTAAAGTTCACCCCTTAAATAAGGCAAGCATTGATTCTTGTAACAGTCTCCA
194 ATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * * * *
631888 TTTTTTTCATGATTGGGCACCAAAAACACATTCCATTCATTAAGATACATGACATTGATACATTT
259 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACAC-TTT
* * ** * * * *
631953 -GTGTCACAAGAAAAGCATTTCTTTTAGTCATATTTGATTGAATGAAAGTTTGTCTCTTAAATAA
323 GGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * *
632017 GACAAACATGAATAATCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATGAACTTAGTCTT
388 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT
* **
632082 CTCATAAGGATACACGATCCTGA
453 CTAATAAGGATACACGATATTGA
* ** * * *
632105 TGCTTTCACTTATC--AAGAAAGGCTTTCTTCCCACCAATTTTTTTATAGTAT-AGTTCGTGCCT
1 AGCTTT-GGTT-TCGTAAGAAAGGCTTTCTT-CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCT
* ** * * *
632167 CAAATAAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTTTGATTAGGCACAACAAACA
63 CAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* * * *
632232 CATTCTCCAT-ATTAGGATAAAAGATATTCATGATTTTCTTTTG-ATGGAAATATTTTCTTTGCC
128 CATTCTCC-TCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCC
* * * * * *
632295 CTCTTTTCCTTACAATTAAAGTTCATCCCTTAAACAAGGCGAGCACTGATTCTCGTAACAGTCAC
192 CTATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTC
* * * *
632360 CGTTCTTTTCATGATTGGGAACCAAAAACACTTTCCTTTCATTAAGATACACGACATTGACACTT
257 CATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTT
** * * * * * * * *
632425 TTTTGCCGCAATAAAACCATTTCTTTCTACCATTTTTTATAGAATTAAAGTTTGTCTCTAAAATA
322 TGGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * *
632490 AGACAAACATGAATAGTCATACTATTCCCCATTCTTTTCAGGATTAGGCATCGTAAACTTAGTCT
387 AGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCT
* *
632555 TCTAATAGGGATACACAATATTGA
452 TCTAATAAGGATACACGATATTGA
* * * * * *
632579 AACATTGATTTCATGAGAAAGGCTTTCTTTCCACCAATTTTTGTAAAG-CATAAGTTCATGCCTC
1 AGCTTTGGTTTCGTAAGAAAGGCTTTC-TTCCACCAATTTTTGTAAAGTC-TAAGTTCGTGCCTC
** * * * *
632643 AACAGTGACAAACATCGATTCTAGAAATGATCTTCATTCA---AGTGATTAGGCACTATAAACAG
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * ** * * *
632705 ACTCTCCTCATTGGGATAAATGATATTGATCATTTTCTTTTAAATGGAAATCATATCTTTGCCCC
129 ATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * * * *
632770 ATTTTCCTTAAAATTAAAGCT-ATCTCTTAAATAAAGCAAGCACTGATTCTTGTAACAGTCTCCA
194 ATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * *
632834 TGCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCATTAGAATACATGACATTGACACTTTG
259 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTTG
* * *
632899 GTGCCGTAAGCAAAA-CATTTCTTTCAACCGTTTTTGATTA-AATTAAAGTTTGTCTCTTAAATA
324 GTGTCGCAAG-AAAAGCATTTCTTTCAACCGTTTTTGA-TAGAATCAAAGTTTGTCTCTTAAATA
* * * *
632962 AGATAAACATGAATAATCATACTAATCCCTATTTTTTTCAGGATTAGGCACCATAAACTTAGTCT
387 AGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCT
* * *
633027 TCTCATAAGGATACATGATACTGA
452 TCTAATAAGGATACACGATATTGA
* * * * * * * * * *
633051 CGCTTTAGCTTAGCAAGAAAGGCTTTTTTCCCCTCAATTTTCGGAAAGTCTAATTTCGTGCCTCA
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCAC-CAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * * *
633116 ATTGGGACAAACATAGATTCTAATAATGATCTTCATTCATTGTCTGATTAGGCACTATAAACACA
65 ATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* *
633181 TTCT-CTTTATTAGGATAAAAGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
130 TTCTCCTCT-TTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * * *** *
633245 ATTTTGCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAACCATTGATTCTCATAGTTGTCACCA
194 ATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * * * *
633310 TTCTTTTCATGGTTGGGAACCAAAAACATATTCTTTTCATTAGGATACATGACCTTGACGCTTTG
259 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTTG
* * * * * * * *
633375 GGGCCACAAGAAATGCATTTCTTTCAACCATTTTTGATAGAATC-AATTTTGCCTTTTAAATAAG
324 GTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
* * * *
633439 ACAAATATGAATAGTCATACTAGTCCCTATTCTTTTCAGGAATAGGCACCATAAACTTAGTCTTC
389 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTC
* *
633504 TCATAAGGATATACGATATTGA
454 TAATAAGGATACACGATATTGA
* * * **
633526 TGCTTCGGTTTCGTGAGAAAGGCCTTGTCCTT--GTCAATTTTTGTAAAGTCTAAGTTCGTGCCT
1 AGCTTTGGTTTCGTAAGAAAGG-CTT-T-CTTCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCT
* * ** * * *
633589 CAATTGGGACAAACGTGGAAGCTAGTAATGATCTCCAATCATTTTGTGATTAGGCACCATAAACA
63 CAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* * * * *
633654 CATTGTCCT-TATTCGGATAAATGATATTGATGAATTTCTTTTGCATGGAAATCATTTCTTTGCT
128 CATTCTCCTCT-TTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCC
* * * *
633718 CTA-TTTCCTTAAAATTAAAGTTTATCCCTTAAATAAGGCAAGCATTGATTCTTGTAATAGTCAC
192 CTATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTC
* * * * * * *
633782 CTTTC-TTTCACGATTAGGAACCAAAAACATATTCTTTTCATTAAGATACATGACATTGACACAT
257 CATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTT
* * *
633846 AGGTGTTGCAAGAAAAGCATTTCTTTCAACTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
322 TGGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
*
633911 AGACAAACAAT-AATAGTCATACTAATCCCCATTCTTTTCTAGAATT-GGCACCATAAACTTAGT
387 AGACAAAC-ATGAATAGTCATACTAATCCCCATTCTTTTC-AGGATTAGGCACCATAAACTTAGT
*
633974 CTT-TCAATAAGGATATACGATATTGA
450 CTTCT-AATAAGGATACACGATATTGA
* * * *
634000 TGCTTTGGTTTCGAAAGAAAGGCTTTGTTCC-CTCAAATTTTGTTAAAGTCTAAGTTCGTGCCTC
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCAC-CAATTTTTG-TAAAGTCTAAGTTCGTGCCTC
* * ** * ** * *
634064 CACTAAGACAAACATGGATTTTAGTAATGATCTTCATTCGCTTTGTGATTACTTGCA--ATAAAA
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTA--GGCACTATAAAC
* * ** * *
634127 ACATTCCCCTCGTTAGGATAAATGATATT-ATTGATTTTCTTTCACTTGAAAATCTTTTCTTTGC
127 ACATTCTCCTCTTTAGGATAAATGATATTGA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGC
* * * * *
634191 CCTATTTTCATTAAAATCAAAGTTCATCCTTTAAATAAGGCGAGCATTGATTCTCGTAATAGTCT
191 CCTATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCT
* * * * * * * * *
634256 CTATTCCTTTCACGATCGAGAACCAAAAACACATTCCATTCAATAGGGTACATGACATTGACGCT
256 CCATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACT
* * * * *
634321 TTGGTGTCACAAGAAAAACATTT-TTTCAGCCGTTTTTGATAAAATCAAAGTTTATCTCTTAAAT
321 TTGGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
*
634385 AAGACAAACATGAATAGTCATACTAATCCCCGTTCTTTTCAGGATTAGGCACCATAAAC-TAGTC
386 AAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTC
*
634449 TTCTAAT-AGGATACATGATATTGA
451 TTCTAATAAGGATACACGATATTGA
* * * * *
634473 AGCATTGATTTCGTAAGAAAGGTTTTCTTCCCACCAATTTTTGTAAAGCCTAAGTTCATGCCTCA
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTT-CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * * * * * * *
634538 ACTATGACAAATATAGATTCTAGTAATGATCTTCACT-ATTTTTGTGATTGGGCACAACAAACAT
65 ATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCA-TTTTGTGATTAGGCACTATAAACAC
* * * * *
634602 ATTCTCCTCTTTAAGATAAATGATATTGATGTTTTTCTTTTGTATGGAAATCTTTTCGTTACCCT
129 ATTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * ** * *
634667 ATTTTCCTTAAAACTAAAGTTCATCCCTCAAATAAGGCAAGCATTGATTCTTATAACAGCCTTCA
194 ATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * * * * *
634732 TTTTTTTCATTATTGGGAACCAAAAACGCATTCCTCTCATTAGTATAAATGACATTGA-AGCTTT
259 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACA-CTTT
* * * * * * *
634796 GGCGACACAAGAAAAGCATTTC-TTGAAGCCGTTTTTGATAGAATCGAAGTTTGTCCCATAAA-A
323 GGTGTCGCAAGAAAAGCATTTCTTTCAA-CCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * * * * * * *
634859 GATACAAACATTAATAGTCTTACTTATCCCAATTCTTTTTAGAATTTGGCACCATAAACTTAGTC
387 -AGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTC
* *
634924 TTCTCATAAGGATGCACGATATTGA
451 TTCTAATAAGGATACACGATATTGA
* * * *
634949 TGCTTTTGTTTCGTAAGAAAGGCTTTCTTCCCACAAATTTTTGTAAAGTCTATGTTCGTGCCTCA
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTT-CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * * * * **
635014 ATTGAGACAAACATGGATTCTAGTAAGGAT-TTTAGTCATTTTCTGATTAGGCAGTGCAAACACA
65 ATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* *
635078 TTCTCCT-TATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTACCTT
130 TTCTCCTCT-TTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * *
635142 ATTTTCCTTAAAATTAAAGTTTATCCCTTAAATAAGGCAAGCATTAATTCTCGTAATAGTCTCCA
194 ATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * * * * * *
635207 TTCATTTCTTGACTAGGAA-TAAGAAACACATTCATTTCATTAGGATACATGACATTGACACATT
259 TTCTTTTCATGATTGGGAACCAA-AAACACATTCCTTTCATTAGGATACATGACATTGACACTTT
* * **
635271 GGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGGTAGAATCAAAGTTTGTCTATTAACCAA
323 GGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * ** * * *
635336 GACAAACATGAATAGTAATAGTAATTGCCATTCTTTTCAGGA-AAGACACCATAAACTTAGTTTT
388 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT
** * * *
635400 CCCATAAGGATATATGATACT-A
453 CTAATAAGGATACACGATATTGA
* * * *** * *
635422 ATGCTTTGCTTTCATAAGAAAGGCTTTCTACCTTAAAATTTTGTTAAAGTCTAAGTTAGTG-CTC
1 A-GCTTTGGTTTCGTAAGAAAGGCTTTCTTCCACCAATTTTTG-TAAAGTCTAAGTTCGTGCCTC
** * * ** ** *
635486 AATTGTGATGAACATGGATT-T--T--TTATCATCATTCGCTTTGTGATTACACACTATAAAAAC
64 AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* ** * * * *
635546 ATTCTTCTCAATAGGATAAATGATATT-ATTGA-TTT-TTTTCCTTAGAAATCTTTTCTTTTCCC
129 ATTCTCCTCTTTAGGATAAATGATATTGA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * * * *
635608 TATTTTCATTAAAATCAAAGTTCATCCTTTAAATAAGGCAAGCGTTGATTCTCATAACAGTCTCT
193 TATTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
* * * * * * * *
635673 ATTCCTTTCACGATTGAGAACCAAAAACATATTCCATTCAATAGGTTACATGACATTGACGCTTT
258 ATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTT
* * *
635738 GGTGTCACAAGAAAAGCATTTTTTTCAACCGTTTTTGATAGAATAAAAGTTTGTCTCTTAAATAA
323 GGTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
*
635803 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTTAGGATTAGGCACCATAAACTTAGTCTT
388 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT
*
635868 CTAATAAGGATACATGATATTGA
453 CTAATAAGGATACACGATATTGA
* * * *
635891 AGCATTGGTTTCGTAAGAAAGGCTTTTCTCCCACCAATTTTTGTAAAGCCTAAGTTCATGCCTCA
1 AGCTTTGGTTTCGTAAGAAAGGC-TTTCTTCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCA
* * * * * * *
635956 ATTATGACAAATATAGATTCTAGTAATGATCTTTATTCTTTTTGTGATTGGGCACTATAAACATA
65 ATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * * *
636021 TTCTCCTCTTTAAGATAAATGATATTGATGTTTTTCTTTTGCATGAAAATCTTTTCGTTACCCTA
130 TTCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
* *
636086 TTTTCTTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGCCTCCAT
195 TTTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCAT
* * * **
636151 TTTTTTCATTATTGGGAACCAAAAACACATTCCTTTCATTAGTATACATGACATTGATGCTTTGG
260 TCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTTGG
* *
636216 -GAACACAAGAAAAGCATTTCTTT-AAGCCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAA-AG
325 TG-TCGCAAGAAAAGCATTTCTTTCAA-CCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATA-
* * * * * *
636278 ATACAAACATTAATAGTCATATTTATCCCAATTCTTTTCAGAATTAGGCACCATAAACTTAGTCT
387 AGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCT
*
636343 TCTCATAAGGATACACGATATTGA
452 TCTAATAAGGATACACGATATTGA
* ** *
636367 TGCTTTTATTTCATAAGAAAGGCTTTCTTCC
1 AGCTTTGGTTTCGTAAGAAAGGCTTTCTTCC
636398 CATAAATTTG
Statistics
Matches: 6701, Mismatches: 1242, Indels: 299
0.81 0.15 0.04
Matches are distributed among these distances:
467 221 0.03
468 77 0.01
469 81 0.01
470 9 0.00
471 382 0.06
472 424 0.06
473 474 0.07
474 822 0.12
475 1726 0.26
476 2407 0.36
477 72 0.01
478 6 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (475 bp):
AGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAA
TTGTGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
TCTCCTCTTTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTAT
TTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATT
CTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACTTTGGT
GTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAC
AAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCTA
ATAAGGATACACGATATTGA
Found at i:637179 original size:13 final size:13
Alignment explanation
Indices: 637138--637186 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
637128 CCGTTACAAG
637138 CAATGTATCGATA
1 CAATGTATCGATA
637151 CAAT-T-TC-AT-
1 CAATGTATCGATA
637160 C-ATGTATCGATA
1 CAATGTATCGATA
637172 CAATGTATCGATA
1 CAATGTATCGATA
637185 CA
1 CA
637187 TTATCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:637202 original size:33 final size:34
Alignment explanation
Indices: 637138--637207 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
637128 CCGTTACAAG
*
637138 CAATGTATCGATACAATTTCATCATGTATCGATA
1 CAATGTATCGATACAATTTCACCATGTATCGATA
637172 CAATGTATCGATAC-ATTATC-CCATGTATCGATA
1 CAATGTATCGATACAATT-TCACCATGTATCGATA
637205 CAA
1 CAA
637208 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 18 0.53
34 16 0.47
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
CAATGTATCGATACAATTTCACCATGTATCGATA
Found at i:637261 original size:20 final size:20
Alignment explanation
Indices: 637236--637290 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
637226 CTGCCAATCT
* *
637236 CATGTATTGATACAATTGTC
1 CATGTATCGATACAATTGAC
* *
637256 CATGTATCAATACAA-TGAG
1 CATGTATCGATACAATTGAC
637275 CATGTATCGATACAAT
1 CATGTATCGATACAAT
637291 GTATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:637294 original size:13 final size:13
Alignment explanation
Indices: 637276--637302 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
637266 TACAATGAGC
637276 ATGTATCGATACA
1 ATGTATCGATACA
637289 ATGTATCGATACA
1 ATGTATCGATACA
637302 A
1 A
637303 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:640162 original size:476 final size:474
Alignment explanation
Indices: 638974--641461 Score: 2474
Period size: 476 Copynumber: 5.2 Consensus size: 474
638964 ATATGTGATG
* * * * * * * *
638974 CTTTTCAGGATTAGGCACCATAAATTTAGT-TTTCTCATAAAGATACACGATACTGACGCTTTAG
1 CTTTTCAAGATTAGGCACCATAAACTTAGTCTTCCT-ATAAGGATACACGATATTAATGCTTTGG
* * * * * * *
639038 CTTCGCAAGAAAGGCTTTTTTTCCCCTC-AATTTCT-GTAAAGTCTAATTTTGTGCCTCAA-TTG
65 TTTTGTAAGAAAGGC-TTTCTT--CCTCAAATTT-TACTAAAGTCTAAGTTCGTGCCTCAATTTG
* * *
639100 AGACAAACATGGATTCTAATAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCT
126 -G-TAAACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCT
*
639165 -CTTTATTAGGATAAAAGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
189 CCTTT-TTAGGATAAAAGATATTTATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * *
639229 TGCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAACCATTGATTCTCGTAGCT-GTCACCATTC
253 TCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTA-ATAGTCACCATTC
* * * * * * *
639293 TTTTCATGGTTGGGAACCAAAAACATATTCTTTTTATTAGGATACACGACCTTGACACTTTGG-G
317 TTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTG
* * * * * ** * * *
639357 GCCACAAGAAATGCATTTATTTCAATCG-TTTT--T-G-AT----GTTTACCTTTTAAATAAGAC
382 TCGA-AAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATATGAA
*
639413 AAACATGAATAGGT-ATACTAGTCCCTATT
446 AAACATGAATA-GTCATACTAATCCCTATT
* * ** * *
639442 CTTTTCAGGATTAGGCACCATAAACTTAGTCTTCTTATAAGGATACACGATACAAATGCGTTGGC
1 CTTTTCAAGATTAGGCACCATAAACTTAGTCTTCCTATAAGGATACACGATATTAATGCTTTGGT
* * * * * *
639507 TTCGCAAGAAAGGCTTTCTTGCCACCAATTTCTA-TAAAGTCTAAGTTCGTGCCTCAATTGGGAC
66 TTTGTAAGAAAGGCTTTCTT-CCTCAAATTT-TACTAAAGTCTAAGTTCGTGCCTCAATTTGG-T
* * *
639571 AAACATGGATTCTGGTAACGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTT
128 AAACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTT
* * **
639636 ATTAGGATAAGAGATATTGGTGATTTTCTTTTGCATGGAAAT-TGTTTCTTTGCCCTATTTTCCT
193 TTTAGGATAAAAGATATTTATGATTTTCTTTTGCATGGAAATCT-TTTCTTTGCCCTATTTTCCT
* *
639700 TAAAATTAAAGTTAATCCCTTAAATTAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTTC
257 TAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTTC
* * * * ** *
639765 ATGATTGGGAACTAAAAACACATTCCTTTCATCAAGATACATGACACTGATGCATTGGTTTCGAA
322 ATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTCGAA
* * *
639830 AGAAAAACATTTCTTTCAACCGTTTTTGATAGAATTAAAGTTTGTCTCTTAAATTTGAAAAACAT
387 AGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATATGAAAAACAT
* *
639895 TAATAGTCACACTAATCCCTATT
452 GAATAGTCATACTAATCCCTATT
* * * * * *
639918 CTTTTCAAGAATAGGCACCATAAAATTAGCCTTCCTAGAAGTATATACGATATTAATGCTTTGGT
1 CTTTTCAAGATTAGGCACCATAAACTTAGTCTTCCTATAAGGATACACGATATTAATGCTTTGGT
* * *
639983 TTTGTAAGAAAGGCTTTCTTCTCTCAAATCTTACTAAAGTCTAAGTTCGTACCTCAATTATGGTG
66 TTTGTAAGAAAGGCTTTCTTC-CTCAAATTTTACTAAAGTCTAAGTTCGTGCCTCAATT-TGGTA
*** * * * * ** * ** * * *
640048 AATGGAGATTTTTGTAATTATCTTTATTCGCTTTGTGATTACTCATTATAAAAACATTCTCCTTT
129 AACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTTT
* * * *
640113 TTAGGATAAATGATATTTATTGATTTT-TTTTCCTTGGAAATCTTTTCTTTCCCCTATTTTCCTT
194 TTAGGATAAAAGATATTTA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT
* * * ** *
640177 AAAATCAAACTTCATCTCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTTTCCATTCCTTTCA
258 AAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTTCA
* * * *
640242 TGATTGGGAACCAAAAACACATTCCATTCAATAGGATACATGACATTGACACGTTGGTGTCGTAA
323 TGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTCGAAA
* * * *
640307 GAAAAACGTTTCTTTTAACCGTTTTTGATAGAATCAAAGTTTGTCT-TTAAA-ATGACACAAATA
388 GAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATATGA-A-AAACA
640370 TGAATAGTCATACTAATCCGC-ATT
451 TGAATAGTCATACTAATCC-CTATT
* * * * ** * **
640394 CTTTTCAAGATTAGGCACCATATATTTGGTCTTCCAATAAGGATACATAATAGTGAA-GGATTGG
1 CTTTTCAAGATTAGGCACCATAAACTTAGTCTTCCTATAAGGATACACGATA-TTAATGCTTTGG
** * * * * ** * **
640458 TTTCATAACAAAGGCTTTATTCCCGCCAATTTTTAC-AAAG--T--GTTCACGCCTCAACTGTCA
65 TTTTGTAAGAAAGGCTTTCTT-CC-TCAAATTTTACTAAAGTCTAAGTTCGTGCCTCAA-TTTGG
* * * * *
640518 TAAACATAGATTCTAGTAATGATCTTCATTAATTTGGC-GTTTAGGCACTATAAACATATTCTCC
127 TAAACATAGATTCTAGTAATGATCTTCATTCATTT-TCTGATTAGGCACTACAAACACATTCTCC
** * * * * ** *
640582 TCATTAGGATAAATGATATTGAAGTTTTTCTTTTGCATGGAAATC-TTTCGATGCCCTAATTTCC
191 TTTTTAGGATAAAAGATATTTATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCC
* * * * * **
640646 TTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCTTTGATTCTTGTAACAATCTCCATTGGTTT
256 TTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTT
* * ** * * * *
640711 CATGATTAGGCACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGATGCCGG
321 CATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTCGA
* * * *
640776 AAGAAAAGCATTTCTTTTAACCCTTTTTGATTGAATCAAAGTTTGTCTCTTAAATATGACAAACA
386 AAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATATGAAAAACA
* *
640841 TGAATAATCATACTAATACCTATT
451 TGAATAGTCATACTAATCCCTATT
* * * *
640865 CTTTTCAAGATTAGGCACCATAAACTTAGCCTT-CTCATAAAGATACACGATACTAATGCTTTAG
1 CTTTTCAAGATTAGGCACCATAAACTTAGTCTTCCT-ATAAGGATACACGATATTAATGCTTTGG
* ** * * *
640929 CTTTCCAAGAAAGGCTTTCTTCCTACTAATTTCT-GTAAAGTCTAAGTTCGTGCCTCAATTGGGA
65 TTTTGTAAGAAAGGCTTTCTTCCT-CAAATTT-TACTAAAGTCTAAGTTCGTGCCTCAATTTGG-
* * *
640993 CAAACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTGGGCACTACAAATACATTCTCCT
127 TAAACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCT
* * *
641058 TTTTAGGATAAAAGATATTGATGATTTTTTTTTTTTGCATGGAAATCTTTTCTTTGCCTTATTTT
192 TTTTAGGATAAAAGATATTTATGA---TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTT
*** * * * *
641123 CCTTAAAATTAAAGTTCATTTGTTAAGTAAGGCAAGCATTGATTCTCATAACAGTCACTATTCTT
254 CCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTT
** * *
641188 TTCATGATTCTGAACCGAAAACACATTTCTTTCATTAGGATACATGACATTGACACATTGGTGTC
319 TTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTC
* * * * *
641253 GCAAGAAAAGCATTTCTTTCAACCGTTTTTGGTAAAATCAAAGTTTGTCTCTTAAATAAGATAAA
384 GAAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATATGAAAAA
* * **
641318 CATGAACAGTAATTGTAATGCCC-ATT
449 CATGAATAGTCATACTAAT-CCCTATT
* * * * *
641344 CTTTTCAGGAATAGGCACCATAAACTTAGTCTTGCC-ATAAGGATATATGATATTAATTCTTTGG
1 CTTTTCAAGATTAGGCACCATAAACTTAGTCTT-CCTATAAGGATACACGATATTAATGCTTTGG
** *
641408 TTTTGTAAG-AAGGCTTTCTTCCCTCAAATTTTGTTAAAGTCTAAGTTAGTGCCT
65 TTTTGTAAGAAAGGCTTTCTT-CCTCAAATTTTACTAAAGTCTAAGTTCGTGCCT
641462 TGACAGGTTA
Statistics
Matches: 1655, Mismatches: 310, Indels: 100
0.80 0.15 0.05
Matches are distributed among these distances:
466 5 0.00
467 275 0.17
468 77 0.05
469 3 0.00
470 12 0.01
471 265 0.16
472 94 0.06
473 6 0.00
474 6 0.00
475 96 0.06
476 478 0.29
477 24 0.01
478 55 0.03
479 256 0.15
480 2 0.00
481 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (474 bp):
CTTTTCAAGATTAGGCACCATAAACTTAGTCTTCCTATAAGGATACACGATATTAATGCTTTGGT
TTTGTAAGAAAGGCTTTCTTCCTCAAATTTTACTAAAGTCTAAGTTCGTGCCTCAATTTGGTAAA
CATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTTTTT
AGGATAAAAGATATTTATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAA
ATTAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTTCATGA
TTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTCGAAAGAA
AAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATATGAAAAACATGAAT
AGTCATACTAATCCCTATT
Found at i:640924 original size:947 final size:944
Alignment explanation
Indices: 638974--641388 Score: 2683
Period size: 947 Copynumber: 2.5 Consensus size: 944
638964 ATATGTGATG
* * * ** * *
638974 CTTTTCAGGATTAGGCACCATAAATTTAGTTTTCTCATA-AAG-ATACACGATACTGACGCTTTA
1 CTTTTCAAGAATAGGCACCATAAAATTAGCCTTC-C-TAGAAGTATACACGATACTAATGCTTTA
* * * *
639037 GC-TTCGCAAGAAAGGCTTTTTTTCCCCT-C-AATTTCTGTAAAGTCTAATTTTGTGCCTCAATT
64 GCTTTC-CAAGAAAGGC-TTTCTT--CCTACAAATTTC-GTAAAGTCTAAGTTCGTACCTCAATT
* * * * *
639099 GAGACAAACATG-GATTCTAATAATGATCTTCATTCATTTTCTGATTAGGCACTACAAACACATT
124 GGGACAAACA-GAGATTCTAGTAATGATCTTCATTCACTTTCTGATTACGCACTACAAAAACATT
*
639163 CT-CTTTATTAGGATAAAAGATATTGA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
188 CTCCTTT-TTAGGATAAAAGATATTTATTGATTTT-TTTTGCATGGAAATCTTTTCTTTGCCCTA
* * * *
639226 TTTTGCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAACCATTGATTCTCGTAGCT-GTCACCA
251 TTTTCCTTAAAATTAAAGTTCATCTCTTAAATAAGGCAAGCATTGATTCTCGTA-ATAGTCACCA
* * * * * * *
639290 TTCTTTTCATGGTTGGGAACCAAAAACATATTCTTTTTATTAGGATACACGACCTTGACACTTTG
315 TTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTG
* * * * * * **
639355 GGGCCACAAGAAATGCATTTATTTCAATCG-TTTT-T-G-AT----GTTTACCTTTTAAATAAGA
380 GTGTCGCAAGAAAAGCATTTCTTTCAACCGTTTTTGTAGAATCAAAGTTTGTC-TTTAAATAAGA
*
639412 CAAACATGAATAGGTATACTAGTCCCTATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCT
444 CAAACATGAATA-GTATACTAATCCC-ATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTC-
* * * * * * *
639477 TATAAGGATACACGATACAAATGCGTTGGCTTCGCAAGAAAGGCTTTCTTGCCACCAATTTCTAT
506 CATAAGGATACACAATACAAATGCGTTGGCTTCACAACAAAGGCTTTATTCCCACCAATTTCTAC
** * * * * * *
639542 AAAGTCTAAGTTCGTGCCTCAATTGGGACAAACATGGATTCTGGTAACGATCTTCATTCATTTTC
571 AAAG-CT-AGTTCACGCCTCAACTGGCACAAACATAGATTCTAGTAACGATCTTCATTAATTTGC
* **
639607 TGATTAGGCACTACAAACACATTCTCCTTATTAGGATAAGAGATATTGGTGATTTTCTTTTGCAT
634 TGATTAGGCACTACAAACACATTCTCCTCATTAGGATAAGAGATATTGAAGATTTTCTTTTGCAT
* ** * *
639672 GGAAATTGTTTCTTTGCCCTATTTTCCTTAAAATTAAAGTTAATCCCTTAAATTAGGCAAGCATT
699 GGAAATTCTTTCGATGCCCTAATTTCCTTAAAATTAAAGTTAATCCCTTAAATAAGGCAAGCATT
* * * * *
639737 GATTCTCGTAATAGTCACCATTCTTTTCATGATTGGGAACTAAAAACACATTCCTTTCATCAAGA
764 GATTCTCGTAACAATCACCATTCGTTTCATGATTAGGAACCAAAAACACATTCCTTTCATCAAGA
* ** * *
639802 TACATGACACTGATGCATTGGTTTCGAAAGAAAAACATTTCTTTCAACCGTTTTTGATAGAATTA
829 TACATGACACTGATGCATTGATGCCGAAAGAAAAACATTTCTTTCAACCCTTTTTGATAGAATCA
* * * *
639867 AAGTTTGTCTCTTAAATTTGAAAAACATTAATAGTCACACTAATCCCTATT
894 AAGTTTGTCTCTTAAATATGAAAAACATGAATAATCACACTAATACCTATT
* * * *
639918 CTTTTCAAGAATAGGCACCATAAAATTAGCCTTCCTAGAAGTATATACGATATTAATGCTTTGGT
1 CTTTTCAAGAATAGGCACCATAAAATTAGCCTTCCTAGAAGTATACACGATACTAATGCTTTAGC
** *
639983 TTTGTAAGAAAGGCTTTCTTCTCT-CAAATCTTAC-TAAAGTCTAAGTTCGTACCTCAATTATGG
66 TTTCCAAGAAAGGCTTTCTTC-CTACAAAT-TT-CGTAAAGTCTAAGTTCGTACCTCAATT-GGG
** ** * * * * * * * * *
640046 -TGAATGGAGATTTTTGTAATTATCTTTATTCGCTTTGTGATTACTCATTATAAAAACATTCTCC
127 ACAAACAGAGATTCTAGTAATGATCTTCATTCACTTTCTGATTACGCACTACAAAAACATTCTCC
* * * *
640110 TTTTTAGGATAAATGATATTTATTGATTTTTTTTCCTTGGAAATCTTTTCTTTCCCCTATTTTCC
192 TTTTTAGGATAAAAGATATTTATTGATTTTTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCC
* * ** *
640175 TTAAAATCAAACTTCATCTCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTTTCCATTCCTTT
257 TTAAAATTAAAGTTCATCTCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTT
* * * *
640240 CATGATTGGGAACCAAAAACACATTCCATTCAATAGGATACATGACATTGACACGTTGGTGTCGT
322 CATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTCGC
* * * * * *
640305 AAGAAAAACGTTTCTTTTAACCGTTTTTGATAGAATCAAAGTTTGTCTTTAAAATGACACAAATA
387 AAGAAAAGCATTTCTTTCAACCGTTTTTG-TAGAATCAAAGTTTGTCTTT-AAATAAGACAAACA
* * * *
640370 TGAATAGTCATACTAATCCGCATTCTTTTCAAGATTAGGCACCATATATTTGGTCTTCCAATAAG
450 TGAATAGT-ATACTAATCC-CATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCC-ATAAG
* ** * * * *
640435 GATACATAATAGTGAA-G-GATTGGTTTCATAACAAAGGCTTTATTCCCGCCAATTTTTACAAAG
512 GATACACAATA-CAAATGCG-TTGGCTTCACAACAAAGGCTTTATTCCCACCAATTTCTACAAAG
* * * *
640498 -T-GTTCACGCCTCAACTGTCATAAACATAGATTCTAGTAATGATCTTCATTAATTTGGC-GTTT
575 CTAGTTCACGCCTCAACTGGCACAAACATAGATTCTAGTAACGATCTTCATTAATTT-GCTGATT
* * *
640560 AGGCACTATAAACATATTCTCCTCATTAGGATAA-ATGATATTGAAGTTTTTCTTTTGCATGGAA
639 AGGCACTACAAACACATTCTCCTCATTAGGATAAGA-GATATTGAAGATTTTCTTTTGCATGGAA
* *
640624 A-TCTTTCGATGCCCTAATTTCCTTAAAATTAAAGTTCATCCCTTAAATAAGGCAAGCTTTGATT
703 ATTCTTTCGATGCCCTAATTTCCTTAAAATTAAAGTTAATCCCTTAAATAAGGCAAGCATTGATT
* * * * * *
640688 CTTGTAACAATCTCCATTGGTTTCATGATTAGGCACCAAAAACACATTCCTTTCATTAGGATACA
768 CTCGTAACAATCACCATTCGTTTCATGATTAGGAACCAAAAACACATTCCTTTCATCAAGATACA
* * * * * *
640753 TGACATTGATGCTTTGATGCCGGAAGAAAAGCATTTCTTTTAACCCTTTTTGATTGAATCAAAGT
833 TGACACTGATGCATTGATGCCGAAAGAAAAACATTTCTTTCAACCCTTTTTGATAGAATCAAAGT
* *
640818 TTGTCTCTTAAATATGACAAACATGAATAATCATACTAATACCTATT
898 TTGTCTCTTAAATATGAAAAACATGAATAATCACACTAATACCTATT
* *
640865 CTTTTCAAGATTAGGCACCATAAACTTAGCCTTCTCATA-AAG-ATACACGATACTAATGCTTTA
1 CTTTTCAAGAATAGGCACCATAAAATTAGCCTTC-C-TAGAAGTATACACGATACTAATGCTTTA
* *
640928 GCTTTCCAAGAAAGGCTTTCTTCCTACTAATTTCTGTAAAGTCTAAGTTCGTGCCTCAATTGGGA
64 GCTTTCCAAGAAAGGCTTTCTTCCTACAAATTTC-GTAAAGTCTAAGTTCGTACCTCAATTGGGA
* * ** *
640993 CAAACATAGATTCTAGTAATGATCTTCATTCATTTTCTGATTGGGCACTACAAATACATTCTCCT
128 CAAACAGAGATTCTAGTAATGATCTTCATTCACTTTCTGATTACGCACTACAAAAACATTCTCCT
** *
641058 TTTTAGGATAAAAGATATTGATGATTTTTTTTTTTTGCATGGAAATCTTTTCTTTGCCTTATTTT
193 TTTTAGGATAAAAGATATT--T-ATTGATTTTTTTTGCATGGAAATCTTTTCTTTGCCCTATTTT
* * * * * *
641123 CCTTAAAATTAAAGTTCATTTGTTAAGTAAGGCAAGCATTGATTCTCATAACAGTCACTATTCTT
255 CCTTAAAATTAAAGTTCATCTCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTT
** * *
641188 TTCATGATTCTGAACCGAAAACACATTTCTTTCATTAGGATACATGACATTGACACATTGGTGTC
320 TTCATGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTC
* *
641253 GCAAGAAAAGCATTTCTTTCAACCGTTTTTGGTAAAATCAAAGTTTGTCTCTTAAATAAGATAAA
385 GCAAGAAAAGCATTTCTTTCAACCGTTTTT-GTAGAATCAAAGTTTGTCT-TTAAATAAGACAAA
* ** *
641318 CATGAACAGTAATTGTAATGCCCATTCTTTTCAGGAATAGGCACCATAAACTTAGTCTTGCCATA
448 CATGAATAGT-ATACTAAT-CCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT-CCATA
641383 AGGATA
510 AGGATA
641389 TATGATATTA
Statistics
Matches: 1211, Mismatches: 218, Indels: 78
0.80 0.14 0.05
Matches are distributed among these distances:
941 1 0.00
942 7 0.01
943 249 0.21
944 73 0.06
945 4 0.00
946 7 0.01
947 370 0.31
948 110 0.09
949 4 0.00
950 256 0.21
951 13 0.01
952 114 0.09
953 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (944 bp):
CTTTTCAAGAATAGGCACCATAAAATTAGCCTTCCTAGAAGTATACACGATACTAATGCTTTAGC
TTTCCAAGAAAGGCTTTCTTCCTACAAATTTCGTAAAGTCTAAGTTCGTACCTCAATTGGGACAA
ACAGAGATTCTAGTAATGATCTTCATTCACTTTCTGATTACGCACTACAAAAACATTCTCCTTTT
TAGGATAAAAGATATTTATTGATTTTTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAA
AATTAAAGTTCATCTCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCACCATTCTTTTCATG
ATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACACATTGGTGTCGCAAGA
AAAGCATTTCTTTCAACCGTTTTTGTAGAATCAAAGTTTGTCTTTAAATAAGACAAACATGAATA
GTATACTAATCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCCATAAGGATACACAA
TACAAATGCGTTGGCTTCACAACAAAGGCTTTATTCCCACCAATTTCTACAAAGCTAGTTCACGC
CTCAACTGGCACAAACATAGATTCTAGTAACGATCTTCATTAATTTGCTGATTAGGCACTACAAA
CACATTCTCCTCATTAGGATAAGAGATATTGAAGATTTTCTTTTGCATGGAAATTCTTTCGATGC
CCTAATTTCCTTAAAATTAAAGTTAATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCA
CCATTCGTTTCATGATTAGGAACCAAAAACACATTCCTTTCATCAAGATACATGACACTGATGCA
TTGATGCCGAAAGAAAAACATTTCTTTCAACCCTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
ATGAAAAACATGAATAATCACACTAATACCTATT
Found at i:642685 original size:20 final size:21
Alignment explanation
Indices: 642660--642698 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
642650 TTCCCGTGTG
642660 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
642680 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
642699 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:642772 original size:13 final size:13
Alignment explanation
Indices: 642754--642779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
642744 AATTTTTTGG
642754 TGTATCGATACAT
1 TGTATCGATACAT
642767 TGTATCGATACAT
1 TGTATCGATACAT
642780 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:644882 original size:21 final size:20
Alignment explanation
Indices: 644853--644895 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
644843 GGCTAGTGTG
* *
644853 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
644874 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
644894 GG
1 GG
644896 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:645194 original size:21 final size:21
Alignment explanation
Indices: 645170--645216 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
645160 TTTGAGGCTG
645170 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
645190 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
645211 ATTTTG
1 ATTTTG
645217 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:645357 original size:13 final size:13
Alignment explanation
Indices: 645339--645371 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
645329 AATCCCCCTC
*
645339 TATCGATACACTG
1 TATCGATACAATG
645352 TATCGATACAATG
1 TATCGATACAATG
645365 TATCGAT
1 TATCGAT
645372 CCAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:649303 original size:22 final size:22
Alignment explanation
Indices: 649248--649303 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
649238 AATGAATATG
**
649248 CAAGTT-TTTATTTTTTTTAGC
1 CAAGTTCTTTATTTTCATTAGC
* *
649269 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTCATTAGC
649290 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
649304 CAACTTGCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
22 9 0.33
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (22 bp):
CAAGTTCTTTATTTTCATTAGC
Found at i:650865 original size:459 final size:456
Alignment explanation
Indices: 650086--650931 Score: 1284
Period size: 459 Copynumber: 1.8 Consensus size: 456
650076 TATTGAAGCA
* *
650086 TTGGTTTCGTAAGAAAGGCTTTCTTCCCAACAATTTTTGTAAAGCCTAAGTTCGTGCCTCAATTG
1 TTGGTTTCCTAAGAAAGGCTTTCTTCCCAACAATTTTTATAAAGCCTAAGTTCGTGCCTCAATTG
*
650151 TGACAAACATGGATTCCAGTAATGATTATTCATTTTGTGATTAGGCACTATAAACACATTCGCCT
66 GGACAAACATGGATTCCAGTAATGATTATTCATTTTGTGATTAGGCACTATAAACACATTCGCCT
* * * *
650216 CATTGGGATAAATGATATTGATGATTTTTTTTTAAACTAAAATATTTTCTTTGCCCTATTTTCTT
131 CATTAGGATAAATGACATTGATGATTTTCTTTTAAACTAAAATATTTTCTTTACCCTATTTTCTT
* * *
650281 TAAAATCAAAGTTGATCCTTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTC
196 GAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTC
* * * ** *
650346 ATTATTCGGAACCAAAAACATATTCCTTTCATTAGGATACATGGTATTGACACTTTGGTGTCGCA
261 ATGATTCGGAACCAAAAACACATTCCTTTCATTAGCATACATGACATTGACACATTGGTGTCGCA
*
650411 AGAAAAGCATTTCTTTCATCCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
326 AG-AAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
650476 GAATAGCCAAACTAATCCCTATCCTTTTCAAATTTATGCACCATAAAGGATGCAGCATATTAATG
390 GAATAGCCAAACTAATCCCTATCCTTTTCAAATTTATGCACCATAAAGGATGCAGCATATTAATG
650541 CT
455 CT
* *
650543 TTGGTTTCCTAAGAAAGGCTTTCTTCCCATCAATTTTTATAAAGCTTAAGTTCGTGCCTCAATTG
1 TTGGTTTCCTAAGAAAGGCTTTCTTCCCAACAATTTTTATAAAGCCTAAGTTCGTGCCTCAATTG
* * *
650608 GGACAAACATGGATTCTAGTAATGACCTTCATTCATTTTGTGATTA-GCACTTTAAACACATTCT
66 GGACAAACATGGATTCCAGTAATGA--TT-ATTCATTTTGTGATTAGGCACTATAAACACATTCG
* ** * * **
650672 CCTCATTAGGATAAATGACATTGGTGATTTTCTTTTGCA-TGGAAATCTTTTCTTTACTTTATTT
128 CCTCATTAGGATAAATGACATTGATGATTTTCTTTTAAACT-AAAATATTTTCTTTACCCTATTT
* * * **
650736 TAC-TGAAAATTAAAGTTCATCCCTTCAATAATGCAAGCATTGATTCTCGTAACAATCTTTATTC
192 T-CTTGAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTC
**
650800 TTTTCATGATTCGGAACCAAAAACACATTCCTTTCATTAGCATACATGACATTGATGCATTGGTG
256 TTTTCATGATTCGGAACCAAAAACACATTCCTTTCATTAGCATACATGACATTGACACATTGGTG
*
650865 TCGCAAGAAAGTATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAA
321 TCGCAAGAAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAA
650930 AC
386 AC
650932 GGGGTTGGAG
Statistics
Matches: 347, Mismatches: 37, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
457 84 0.24
458 59 0.17
459 187 0.54
460 17 0.05
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (456 bp):
TTGGTTTCCTAAGAAAGGCTTTCTTCCCAACAATTTTTATAAAGCCTAAGTTCGTGCCTCAATTG
GGACAAACATGGATTCCAGTAATGATTATTCATTTTGTGATTAGGCACTATAAACACATTCGCCT
CATTAGGATAAATGACATTGATGATTTTCTTTTAAACTAAAATATTTTCTTTACCCTATTTTCTT
GAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTC
ATGATTCGGAACCAAAAACACATTCCTTTCATTAGCATACATGACATTGACACATTGGTGTCGCA
AGAAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
AATAGCCAAACTAATCCCTATCCTTTTCAAATTTATGCACCATAAAGGATGCAGCATATTAATGC
T
Found at i:653192 original size:20 final size:20
Alignment explanation
Indices: 653167--653243 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
653157 GTAAAAAGAT
653167 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
653187 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
653207 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
653227 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
653244 CTGGGTACTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Done.