Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_pilon, whole genome shotgun sequence
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: 1412076
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1144456 original size:14 final size:15
Alignment explanation
Indices: 1144418--1144459 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1144408 ACCGATTTTT
* *
1144418 TTTATAATTTTATAA
1 TTTAAAATTTTTTAA
*
1144433 TTTAATATTTTTTAA
1 TTTAAAATTTTTTAA
1144448 -TTAAAATTTTTT
1 TTTAAAATTTTTT
1144460 TTACAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTAAAATTTTTTAA
Found at i:1145412 original size:20 final size:21
Alignment explanation
Indices: 1145368--1145414 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1145358 TAGATATTTT
1145368 TTTTATATTTTCTATTAATAA
1 TTTTATATTTTCTATTAATAA
* *
1145389 -TTTATTTTTTCTTTTAA-AA
1 TTTTATATTTTCTATTAATAA
1145408 TTTTATA
1 TTTTATA
1145415 AATTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATATTTTCTATTAATAA
Found at i:1147483 original size:55 final size:55
Alignment explanation
Indices: 1147399--1147559 Score: 182
Period size: 55 Copynumber: 2.9 Consensus size: 55
1147389 TGAATATTTC
* ** * ** *
1147399 AACTCATTATTAATTTCGTGGTTTTGCACACGTAGTGCTGATA-CGATGATTCACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATATCGA-AATTCACA
* * *
1147454 AACTCATTATGAATTACGTGGGGTTGCACACATAGTGCCAATATGGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATATCGAAATTCACA
* *
1147509 AACTCGTTATGAATTTCGTGAGGTTGCACACATAGTGCCAATA-CGGAAATT
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATATC-GAAATT
1147560 TCAACATATA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
55 88 0.98
56 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (55 bp):
AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATATCGAAATTCACA
Found at i:1149531 original size:182 final size:181
Alignment explanation
Indices: 1149237--1149707 Score: 712
Period size: 182 Copynumber: 2.6 Consensus size: 181
1149227 CGATACAAAT
* * * * *
1149237 TAAAAATGTATCGATCCATAGCAATATAACATGTAAAAATATGATAAAACCGGTGTC-ATTATGA
1 TAAAAATGTATCGATCCATAGCAATATAACA-GTAATAATATGACAAAACAGGTCTCGA-AATGA
** *
1149301 TAAATCCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTGTCGACACT
64 TAAATCCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
1149366 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGATGTCGATACTTTA
129 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAG-TGTCGATACTTTA
*
1149419 TAAAAATGTGTCGATCCATAGCAATATAACAGATAATAATATGACAAAACAGGTCTCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAG-TAATAATATGACAAAACAGGTCTCGAAATGAT
1149484 AAATCCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
65 AAATCCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
1149549 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
130 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
* * * * * * *
1149601 TACAAATATATCAATCCATAGTAATATATACGGTAATAATATGACAAAAGAGGTCTTGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATA-ACAGTAATAATATGACAAAACAGGTCTCGAAATGAT
* * *
1149666 AAAACCGGTATAAAGATACCGGATATATTGAAAGTGTCGATA
65 AAATCCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATA
1149708 CAAAAACATT
Statistics
Matches: 265, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
181 1 0.00
182 255 0.96
183 9 0.03
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (181 bp):
TAAAAATGTATCGATCCATAGCAATATAACAGTAATAATATGACAAAACAGGTCTCGAAATGATA
AATCCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
TGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
Found at i:1150278 original size:404 final size:398
Alignment explanation
Indices: 1149696--1150638 Score: 1358
Period size: 404 Copynumber: 2.4 Consensus size: 398
1149686 GGATATATTG
* *
1149696 AAAGTGTCGAT-ACAAAAACATTGAAACCTGTAACTATAATGTAATAGGTCACTTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAACC-GTAACTATAATGTAATAGGTCACTTTACAATGTAA
*
1149760 CCGGTTTAAATTTACTGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATT
65 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATT
1149825 TGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACAT
130 TGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACAT
*
1149890 TTATAAAAAGTATCGATCCCAAAAACATCGAAATC-CGTAATTATAATATAATAGGTAAAATAAC
195 TTATAAAAAGTATCGATCCCAAAAACATCGAAA-CACATAATTATAATATAATAGGTAAAATAAC
* *
1149954 AATGTAACCGATCTAAATATACCGGTT-TATGAGAAAAGAGGTATTCATAAAGTATCAACACTTT
259 AATGTAACCGATCTAAATATACCGGTTAT-TGA-AAAAAAGGTATACATAAAGTATCAACACTTT
* * * ***
1150018 ATAAATTTGTACCGATACTTTGTGTCTATAATGTGTTTTCCAAACAAAACAAGGTCA-CAAATAA
322 ATAAATTTGTACCGACACTTTATGTCCATAATAAATTTT-C---C-AAACAAGGTCATCAAA-AA
* *
1150082 GTGTCGACACATTTATAT
381 GTGTCGACACATTTAGAA
*
1150100 CAAGTGTCGATCCCAAAAACATCGAAACCGTAACTATAATGTAATAGGTCACTTTACAATGTAAC
1 AAAGTGTCGATCCCAAAAACATCGAAACCGTAACTATAATGTAATAGGTCACTTTACAATGTAAC
1150165 CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTT
66 CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTT
*
1150230 GTGTCGATACATGTTGTCCAGAGTGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATT
131 GTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATT
* * * * * *
1150295 TATAAAAAGTGTCGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAA
196 TATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATATAATAGGTAAAATAACAA
* * * * * * * *
1150360 TGTAACTGGTCTAAATATACTGGTTATTTAAAAAAAGGTATACATAATGTATCGATACTTTATAC
261 TGTAACCGATCTAAATATACCGGTTATTGAAAAAAAGGTATACATAAAGTATCAACACTTTATAA
** * * *
1150425 ATTTGTGTCGACACTTTATGTCCATAATAAATTTTCCAAACAAGTTCATGAAAAAGTGTCGATAC
326 ATTTGTACCGACACTTTATGTCCATAATAAATTTTCCAAACAAGGTCATCAAAAAGTGTCGACAC
1150490 ATTTAGAA
391 ATTTAGAA
* * *
1150498 AAAGTGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATGGGTCACTTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAA-CCGTAACTATAATGTAATAGGTCACTTTACAATGTAA
* *
1150563 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAGA-ATGTATCGACACTTT-TTAAA
65 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-ATATGTGTCGACACTTTATT-CA
*
1150626 TTAGTGTCGATAC
128 TTTGTGTCGATAC
1150639 TTTTGAAAAT
Statistics
Matches: 490, Mismatches: 42, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
398 54 0.11
399 107 0.22
400 1 0.00
402 1 0.00
403 57 0.12
404 254 0.52
405 16 0.03
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (398 bp):
AAAGTGTCGATCCCAAAAACATCGAAACCGTAACTATAATGTAATAGGTCACTTTACAATGTAAC
CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTT
GTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATT
TATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATATAATAGGTAAAATAACAA
TGTAACCGATCTAAATATACCGGTTATTGAAAAAAAGGTATACATAAAGTATCAACACTTTATAA
ATTTGTACCGACACTTTATGTCCATAATAAATTTTCCAAACAAGGTCATCAAAAAGTGTCGACAC
ATTTAGAA
Found at i:1150327 original size:200 final size:199
Alignment explanation
Indices: 1149696--1150639 Score: 1052
Period size: 200 Copynumber: 4.7 Consensus size: 199
1149686 GGATATATTG
* * *
1149696 AAAGTGTCGAT-ACAAAAACATTGAAACCTGTAACTATAATGTAATAGGTCACTTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAACC-GTAATTATAATGTAATAGGTCACTTTACAATGTAA
* *
1149760 CCGGTTTAAATTTACTGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATT
65 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTATCGACACTTTATTCATT
1149825 TGTGTCGATACATGT-TGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACA
130 TGTGTCGATAC-TGTATGTCCAGAATGTATTTCCAAACCAAGTGCACGAA-AAAGTGTCGATACA
1149889 TTTATAA
193 TTTATAA
* * * ** *
1149896 AAAGTATCGATCCCAAAAACATCGAAATCCGTAATTATAATATAATAGGTAAAATAACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAA-CCGTAATTATAATGTAATAGGTCACTTTACAATGTAA
* * * * * * * * **
1149961 CCGATCTAAATATACCGG-TTTATGAGAAAAGAGGTATTC-ATAAAGTATCAACACTTTATAAAT
65 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAAT-ATGTATCGACACTTTATTCAT
** * * * * *
1150024 TTGTACCGATACTTTGTGTCTATAATGTGTTTTCCAAACAAAACAAG-GTCAC-AAATAAGTGTC
129 TTGTGTCGATACTGTATGTCCAGAATGT-ATTTCCAAAC----CAAGTG-CACGAAA-AAGTGTC
* *
1150087 GACACATTTATAT
187 GATACATTTATAA
* *
1150100 CAAGTGTCGATCCCAAAAACATCGAAACCGTAACTATAATGTAATAGGTCACTTTACAATGTAAC
1 AAAGTGTCGATCCCAAAAACATCGAAACCGTAATTATAATGTAATAGGTCACTTTACAATGTAAC
*
1150165 CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTT
66 CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTATCGACACTTTATTCATTT
*
1150230 GTGTCGATACATGT-TGTCCAGAGTGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACAT
131 GTGTCGATAC-TGTATGTCCAGAATGTATTTCCAAACCAAGTGCACGAA-AAAGTGTCGATACAT
1150294 TTATAA
194 TTATAA
* * * * * * *
1150300 AAAGTGTCGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAC-CGTAATTATAATGTAATAGGTCACTTTACAATGTAA
* * * * * * * *
1150365 CTGGTCTAAATATACTGGTTATT-T-A-AAAAAAGGTATAC-ATAATGTATCGATACTTTATACA
65 CCGGTTTAAATTTACCGGTT-TTATGAGAAAATAGGTCTACAAT-ATGTATCGACACTTTATTCA
* * * ** * *
1150426 TTTGTGTCGACACTTTATGTCCATAATAAATTTTCCAAA-CAAGTTCATGAAAAAGTGTCGATAC
128 TTTGTGTCGATACTGTATGTCCAGAATGTA-TTTCCAAACCAAGTGCACGAAAAAGTGTCGATAC
*
1150490 ATTTAGAA
192 ATTTATAA
* *
1150498 AAAGTGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATGGGTCACTTTACAATGTAA
1 AAAGTGTCGATCCCAAAAACATCGAAA-CCGTAATTATAATGTAATAGGTCACTTTACAATGTAA
*
1150563 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAGA-ATGTATCGACACTTT-TTAAA
65 CCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-ATATGTATCGACACTTTATT-CA
*
1150626 TTAGTGTCGATACT
128 TTTGTGTCGATACT
1150640 TTTGAAAATT
Statistics
Matches: 614, Mismatches: 101, Indels: 58
0.79 0.13 0.08
Matches are distributed among these distances:
197 2 0.00
198 98 0.16
199 73 0.12
200 157 0.26
201 113 0.18
202 5 0.01
203 56 0.09
204 99 0.16
205 11 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (199 bp):
AAAGTGTCGATCCCAAAAACATCGAAACCGTAATTATAATGTAATAGGTCACTTTACAATGTAAC
CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTATCGACACTTTATTCATTT
GTGTCGATACTGTATGTCCAGAATGTATTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTT
ATAA
Found at i:1150424 original size:22 final size:21
Alignment explanation
Indices: 1150398--1150443 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1150388 TAAAAAAAGG
*
1150398 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
1150420 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
1150441 TAT
1 TAT
1150444 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:1154270 original size:198 final size:198
Alignment explanation
Indices: 1153802--1154279 Score: 583
Period size: 197 Copynumber: 2.4 Consensus size: 198
1153792 GATTTTGTGT
* *
1153802 CGATAAATATAATGTAATAGGTAAATTT-TCAATGTAACCGG-TAGAAATATACCGGGTTCATGA
1 CGATAATTATAATGTAATAGGTAAATTTAT-AATGTAACCGGTTA-AAATATACC-GGTTAATGA
* * * *
1153865 GAGAATAGGTCAACATAAAGTATCGACACTTTGTTTAATTTGTGTCGATACATTTTTTCAAAATG
63 GAAAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATG
* * *
1153930 AATGACAAACGAGATGTACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCTCGAAACA
128 AAAGACAAACGAGATGCACGCATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCATCGAAACA
*
1153995 TCGAAAT
192 TCGAAAC
* * * * *
1154002 CGATAATTATTATGTAACAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGTA
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTAAAATATACCGGTTAATGAGAA
* * *
1154067 AATAGGTCTACATTATGTATCGACACTCT-TTAAATATGTGTCGATAC-TTTTTTCCAAAAT-AA
66 AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTT-CAAAATGAA
* *
1154129 AGCACAAACGAGTTGCACGCATAAAGTGTCGATACA-TTTAAAATTGTATCGATCAT-GAAAACA
130 AG-ACAAACGAGATGCACGCATAAAGTGTCGATACATTTTAAAA-AGTATCGATCATCG-AAACA
1154192 TCGAAAC
192 TCGAAAC
* * * * * *
1154199 CGATATTTATAATGTAATAGGTCAATTTATAATGTAACCGGTTTAAATTTACCGTTTTTATGAGA
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTAAAATATACCG-GTTAATGAGA
*
1154264 AAATAGGTCAATATAA
65 AAATAGGTCAACATAA
1154280 GCGCTACCTA
Statistics
Matches: 237, Mismatches: 34, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
196 8 0.03
197 77 0.32
198 72 0.30
199 33 0.14
200 45 0.19
201 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (198 bp):
CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTAAAATATACCGGTTAATGAGAA
AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGAAA
GACAAACGAGATGCACGCATAAAGTGTCGATACATTTTAAAAAGTATCGATCATCGAAACATCGA
AAC
Found at i:1154377 original size:87 final size:87
Alignment explanation
Indices: 1154274--1154436 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
1154264 AAATAGGTCA
* *
1154274 ATATAAGCGCTACCTATTACATTATATAAGCTCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1154339 CCGGTTAAATGCCTATGTTATT
66 CCGGTTAAATGCCTATGTTATT
* *
1154361 ATATAAGCGCTACCTATTACATTATTTAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1154426 CCGGTTAAATG
66 CCGGTTAAATG
1154437 ATATAACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATGTTATT
Found at i:1154409 original size:23 final size:23
Alignment explanation
Indices: 1154358--1154402 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1154348 TGCCTATGTT
* *
1154358 ATTATATAAGCGCTACCTATTAC
1 ATTATTTAAGCGCTACCTAATAC
1154381 ATTATTTAAGCGCTACCTAATA
1 ATTATTTAAGCGCTACCTAATA
1154403 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATTTAAGCGCTACCTAATAC
Found at i:1162485 original size:36 final size:36
Alignment explanation
Indices: 1162438--1162533 Score: 165
Period size: 36 Copynumber: 2.7 Consensus size: 36
1162428 ATTCGGTGAA
1162438 CTTAACGAGCAACGAGACGAGCAAGAGTTTAATGAG
1 CTTAACGAGCAACGAGACGAGCAAGAGTTTAATGAG
*
1162474 CTTAATGAGCAACGAGACGAGCAAGAGTTTAATGAG
1 CTTAACGAGCAACGAGACGAGCAAGAGTTTAATGAG
* *
1162510 CTTAACGAGTAACGAGTCGAGCAA
1 CTTAACGAGCAACGAGACGAGCAA
1162534 TAAAATTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.18
Consensus pattern (36 bp):
CTTAACGAGCAACGAGACGAGCAAGAGTTTAATGAG
Found at i:1162578 original size:67 final size:67
Alignment explanation
Indices: 1162474--1162658 Score: 217
Period size: 67 Copynumber: 2.7 Consensus size: 67
1162464 GTTTAATGAG
* * * * * * *
1162474 CTTAATGAGCAACGAGACGAGCAAGAGTTTAATGAGCTTAACGAGTAACGAGTCGAGCAATAAAA
1 CTTAATGAGC-ACGAGTCAAGCAAAACTTTAACGAGCTTAACAAGCAACGAGTCGAGCAATAAAA
1162539 TTT
65 TTT
* * *
1162542 CTTAATGAGCACGAGTCAAGCAAAACTTTAACGAGCTTAACAAGCAATGAGTGGAGCAATAAATT
1 CTTAATGAGCACGAGTCAAGCAAAACTTTAACGAGCTTAACAAGCAACGAGTCGAGCAATAAAAT
1162607 TT
66 TT
* ** * * *
1162609 CTTAACGAAAACGACTCAAACAAAATTTTAACGAGCTTAACAAGCAACGA
1 CTTAATGAGCACGAGTCAAGCAAAACTTTAACGAGCTTAACAAGCAACGA
1162659 ACCGAAATTA
Statistics
Matches: 100, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
67 90 0.90
68 10 0.10
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (67 bp):
CTTAATGAGCACGAGTCAAGCAAAACTTTAACGAGCTTAACAAGCAACGAGTCGAGCAATAAAAT
TT
Found at i:1163165 original size:15 final size:15
Alignment explanation
Indices: 1163145--1163200 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
1163135 AATCGGGTAT
1163145 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
1163160 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
1163177 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
1163192 CGGGTACCC
1 CGGGTACCC
1163201 TTAACATCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 20 0.57
16 4 0.11
17 11 0.31
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:1163271 original size:15 final size:16
Alignment explanation
Indices: 1163249--1163293 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
1163239 ACCCGAAAGT
1163249 TCCGGGTACCCGGAAA
1 TCCGGGTACCCGGAAA
*
1163265 T-CGGGTACCCGAAAA
1 TCCGGGTACCCGGAAA
1163280 TCCGGGTACCCGGA
1 TCCGGGTACCCGGA
1163294 TTTGCACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.13
Consensus pattern (16 bp):
TCCGGGTACCCGGAAA
Found at i:1163287 original size:16 final size:16
Alignment explanation
Indices: 1163239--1163291 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
1163229 GAAATCGTCG
*
1163239 ACCCGAAAGTTCCGGGT
1 ACCCGAAA-ATCCGGGT
*
1163256 ACCCGGAAAT-CGGGT
1 ACCCGAAAATCCGGGT
1163271 ACCCGAAAATCCGGGT
1 ACCCGAAAATCCGGGT
1163287 ACCCG
1 ACCCG
1163292 GATTTGCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.44
16 11 0.34
17 7 0.22
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.13
Consensus pattern (16 bp):
ACCCGAAAATCCGGGT
Found at i:1166273 original size:3 final size:3
Alignment explanation
Indices: 1166255--1166331 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
1166245 TGTAATATTA
* * * * *
1166255 AAT AAT ATAT ATT AAT AAT AAT AAT AAT AAT TAT TAT TAT AAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
1166301 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1166332 TAAATAACAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:1166782 original size:113 final size:113
Alignment explanation
Indices: 1166562--1167683 Score: 1882
Period size: 113 Copynumber: 10.0 Consensus size: 113
1166552 TAGAGTCATT
* ** * * *
1166562 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC-T--T-CTTCTCCTGATGAGTTTTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*** * * *
1166623 TTATGAACT-TTTCTGGAAAA-ACTGACCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGA-TAATCCATCAAGTGATAGATTTGAG
* * * *
1166670 CAAAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
** * *
1166735 TTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
1166783 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGAGTTCTTCTC
1 C-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
*
1166847 GTTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
65 ATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
1166896 CAAAAGGTTGAAGAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1166961 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
1167009 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1167074 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
1167122 CAAAAGGTTGAACAAATTCTTCTCATTATAAACTTCTTCATACTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*
1167187 TTATGAACTCGAACTGGAAAAGATGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
1167235 GAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*
1167300 TTATGAACTCGAACTGGAAAAGATGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
1167348 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1167413 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
1167461 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*
1167526 TTATGAACTCGAACTGGAAAAGATGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
1167574 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
1167639 TTATGAACTCGAACTGGAAAAGATGATCCATCAAGTGATGGATTT
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTT
1167684 AAATCTTTGC
Statistics
Matches: 971, Mismatches: 33, Indels: 15
0.95 0.03 0.01
Matches are distributed among these distances:
108 31 0.03
109 1 0.00
111 1 0.00
112 63 0.06
113 843 0.87
114 32 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
Found at i:1168053 original size:52 final size:52
Alignment explanation
Indices: 1167975--1168079 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
1167965 CAACATGTTA
1167975 ATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTTC-AGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGACC-TTTCAAGATGATTTCAC
*
1168027 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCAC
1168079 A
1 A
1168080 GATATCGATA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 4 0.08
52 47 0.92
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (52 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCAC
Found at i:1168709 original size:83 final size:83
Alignment explanation
Indices: 1168570--1169044 Score: 817
Period size: 83 Copynumber: 5.7 Consensus size: 83
1168560 GGTTTCATAT
* * *
1168570 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
* *
1168635 TTCAATAACTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
1168653 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCACATTCCTCTTCCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCAA
* *
1168717 ATTCAATAACTGGTTTTAC
65 ATTCAATGATTGGTTTTAC
1168736 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1168801 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
1168819 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1168884 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
1168902 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1168967 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
** *
1168985 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGCTCACATTTATCTT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTT
1169045 GTTCCAGTTA
Statistics
Matches: 380, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
82 2 0.01
83 377 0.99
84 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:1170189 original size:1 final size:1
Alignment explanation
Indices: 1170185--1170245 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
1170175 TTGACCCCCA
* * * * * * * *
1170185 TTTTTTCTTTTTTTTTTCTTTTTTTTTATTTTTCTTTTTCTCTTTTTTTTCTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1170246 CTCTTCAAGC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:1170201 original size:11 final size:11
Alignment explanation
Indices: 1170185--1170247 Score: 83
Period size: 11 Copynumber: 5.7 Consensus size: 11
1170175 TTGACCCCCA
1170185 TTTTTTCTTTT
1 TTTTTTCTTTT
1170196 TTTTTTCTTTT
1 TTTTTTCTTTT
1170207 TTTTTAT-TTTT
1 TTTTT-TCTTTT
* *
1170218 CTTTTTCTCTT
1 TTTTTTCTTTT
1170229 TTTTTTCTTTT
1 TTTTTTCTTTT
*
1170240 CTTTTTCT
1 TTTTTTCT
1170248 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
10 1 0.02
11 43 0.96
12 1 0.02
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:1170217 original size:22 final size:22
Alignment explanation
Indices: 1170192--1170250 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
1170182 CCATTTTTTC
1170192 TTTTTTTTTTCTTTTTTTTTAT
1 TTTTTTTTTTCTTTTTTTTTAT
* *
1170214 TTTTCTTTTTCTCTTTTTTTTCT
1 TTTTTTTTTTCT-TTTTTTTTAT
*
1170237 TTTCTTTTTCTCTT
1 TTT-TTTTTTTCTT
1170251 CAAGCATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 11 0.35
23 13 0.42
24 7 0.23
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTTTTTCTTTTTTTTTAT
Found at i:1177588 original size:15 final size:15
Alignment explanation
Indices: 1177565--1177596 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1177555 TGAAATGAAT
1177565 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1177580 AATGCATGTATGCAA
1 AATGAATGTATGCAA
1177595 AA
1 AA
1177597 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1183008 original size:3 final size:3
Alignment explanation
Indices: 1182990--1183063 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
1182980 TGTAATATTA
* * * * * *
1182990 AAT AAT ATAT ATT AAT AAT AAT AAT TAT TAT TAT TAT AAT TAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
1183036 AAT AAT AAT TAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1183064 TAAATAACAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:1188527 original size:19 final size:17
Alignment explanation
Indices: 1188472--1188528 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 17
1188462 TTTAATAAAT
*
1188472 TATTTAAAATTTTAGTAA
1 TATTTAAAATATTA-TAA
1188490 TATTTAAAATCCA-TATAA
1 TATTTAAAAT--ATTATAA
1188508 TATTTTTAAAATATTATAA
1 TA--TTTAAAATATTATAA
1188527 TA
1 TA
1188529 AATATATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 16 0.48
19 9 0.27
20 8 0.24
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTTAAAATATTATAA
Found at i:1190804 original size:22 final size:22
Alignment explanation
Indices: 1190779--1190830 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
1190769 ATTAATGGCA
1190779 AAGATGACGATGTCTGACTAAG
1 AAGATGACGATGTCTGACTAAG
1190801 AAGATGACGATGTCTGACTAAG
1 AAGATGACGATGTCTGACTAAG
1190823 AAGATGAC
1 AAGATGAC
1190831 AAGGACGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (22 bp):
AAGATGACGATGTCTGACTAAG
Found at i:1191157 original size:2 final size:2
Alignment explanation
Indices: 1191150--1191175 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1191140 AAAATATGAA
1191150 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1191176 TAAAAGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1196843 original size:60 final size:60
Alignment explanation
Indices: 1196733--1196845 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
1196723 GAATGAGTGA
* * * ** * * *
1196733 CATAATTTAGGGATAAAATTGAAATTTTAAAAAGTTTGAGGCCTAGTTTAAAAACATAGT
1 CATAATTTAAGGATAAAATTAAAATATTAAAAAAATTAAGACCTACTTTAAAAACATAGT
1196793 CATAATTTAAGGATAAAATTAAAATATTAAAAAAATTAAGTACC-ACTTTAAAA
1 CATAATTTAAGGATAAAATTAAAATATTAAAAAAATTAAG-ACCTACTTTAAAA
1196846 TAAAATTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 42 0.95
61 2 0.05
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (60 bp):
CATAATTTAAGGATAAAATTAAAATATTAAAAAAATTAAGACCTACTTTAAAAACATAGT
Found at i:1198445 original size:27 final size:27
Alignment explanation
Indices: 1198415--1198473 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
1198405 GGGTCGGGTC
*
1198415 ATATCGGGTTCGGGTCGGGTGAAAGGT
1 ATATAGGGTTCGGGTCGGGTGAAAGGT
*** * *
1198442 ATATATTTTTTGGGTCGGGTGAAGGGT
1 ATATAGGGTTCGGGTCGGGTGAAAGGT
1198469 ATATA
1 ATATA
1198474 TATTTTGGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.34
Consensus pattern (27 bp):
ATATAGGGTTCGGGTCGGGTGAAAGGT
Found at i:1198474 original size:27 final size:27
Alignment explanation
Indices: 1198426--1198488 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
1198416 TATCGGGTTC
*
1198426 GGGTCGGGTGAAAGGTATATATTTTTT
1 GGGTCGGGTGAAAGGTATATATATTTT
*
1198453 GGGTCGGGTGAAGGGTATATATATTTT
1 GGGTCGGGTGAAAGGTATATATATTTT
1198480 GGGTCGGGT
1 GGGTCGGGT
1198489 CGGGTCGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.19, C:0.05, G:0.40, T:0.37
Consensus pattern (27 bp):
GGGTCGGGTGAAAGGTATATATATTTT
Found at i:1215373 original size:57 final size:57
Alignment explanation
Indices: 1215304--1215418 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
1215294 AAACACAATG
* * *
1215304 CTGCTCATTCTTC-CTATGGTTGAACTCCTGTTCCTGGGATCGTAAATTGGATCGATT
1 CTGCTCATTCTTCTC-ATGGTTGAACTCCTGCTCATGGGACCGTAAATTGGATCGATT
1215361 CTGCTCATTCTTCTCATGGTTGAACTCCTGCTCATGGGACCGTAAATTGGATCGATT
1 CTGCTCATTCTTCTCATGGTTGAACTCCTGCTCATGGGACCGTAAATTGGATCGATT
1215418 C
1 C
1215419 GCCTCAGGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 53 0.98
58 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (57 bp):
CTGCTCATTCTTCTCATGGTTGAACTCCTGCTCATGGGACCGTAAATTGGATCGATT
Found at i:1217459 original size:19 final size:20
Alignment explanation
Indices: 1217435--1217478 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1217425 TTTTACTAAA
*
1217435 CGCATCGGCCCGCATCA-AC
1 CGCATCGGACCGCATCAGAC
*
1217454 CGCATCGGATCGCATCAGAC
1 CGCATCGGACCGCATCAGAC
1217474 CGCAT
1 CGCAT
1217479 TATATACCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.14
Consensus pattern (20 bp):
CGCATCGGACCGCATCAGAC
Found at i:1224422 original size:66 final size:65
Alignment explanation
Indices: 1224309--1224435 Score: 150
Period size: 66 Copynumber: 1.9 Consensus size: 65
1224299 CTGGGCAGAA
* * **
1224309 GGTATCGGTACCCTATGAAGGGGTATCGATACTCCCTTTTAACGAAAAATTACAGAATGTCAGTA
1 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCCTGAAACG-AAAATTACAGAATGTCAGTA
1224374 T
65 T
* * *
1224375 GGTATCGATACCCTAT-AGTGGGGTATCGATAC-CCCCTGAAGATGAAAATTTCAGAATGTCA
1 GGTATCGATACCCTATGA-AGGGGTATCGATACTCCCCTGAA-ACGAAAATTACAGAATGTCA
1224436 TCAGGGTAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
65 22 0.42
66 30 0.58
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (65 bp):
GGTATCGATACCCTATGAAGGGGTATCGATACTCCCCTGAAACGAAAATTACAGAATGTCAGTAT
Found at i:1224825 original size:11 final size:11
Alignment explanation
Indices: 1224801--1224837 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
1224791 GAAATGGATG
1224801 TATGTTAT-TA
1 TATGTTATATA
1224811 TATGTTATATA
1 TATGTTATATA
1224822 TATGTTATATGA
1 TATGTTATAT-A
1224834 TATG
1 TATG
1224838 ACATGCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 8 0.32
11 12 0.48
12 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (11 bp):
TATGTTATATA
Found at i:1229000 original size:60 final size:60
Alignment explanation
Indices: 1228915--1229076 Score: 145
Period size: 60 Copynumber: 2.7 Consensus size: 60
1228905 ATTATATGTT
* * * *
1228915 CTCAAAGTATGATCC-TCATTTTAAATTGTTTCCAAAACTTTTAAAT-GTTCTAATATCATC
1 CTCAAACTATGA-CCTTCATTCTAAATTGTATCCAAAACTTTTAAATATTTC-AATATCATC
* * * *
1228975 C-CTATACTATGA-CTATCATTCTAAATT-TATCCTTAATCTTTTAAATATTTCAATTTCATC
1 CTC-AAACTATGACCT-TCATTCTAAATTGTATCC-AAAACTTTTAAATATTTCAATATCATC
***
1229035 CTCAAACTATGACCTTCATTCTAAATTGGCCCCAAAACTTTT
1 CTCAAACTATGACCTTCATTCTAAATTGTATCCAAAACTTTT
1229077 TGAACATTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
58 1 0.01
59 5 0.06
60 66 0.82
61 8 0.10
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (60 bp):
CTCAAACTATGACCTTCATTCTAAATTGTATCCAAAACTTTTAAATATTTCAATATCATC
Found at i:1229270 original size:29 final size:29
Alignment explanation
Indices: 1229238--1229320 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 29
1229228 AATTAGCCCA
1229238 TAAACTTTTAAACATTCTAATTTAGACCT
1 TAAACTTTTAAACATTCTAATTTAGACCT
* * ** * *
1229267 TAAACTATGACTCTCATTCTAAATTAGTCCT
1 TAAACTTTTA--AACATTCTAATTTAGACCT
*
1229298 TAAACTTTTGAACATTCTAATTT
1 TAAACTTTTAAACATTCTAATTT
1229321 TATCCCTAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
29 18 0.45
31 22 0.55
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (29 bp):
TAAACTTTTAAACATTCTAATTTAGACCT
Found at i:1229336 original size:60 final size:60
Alignment explanation
Indices: 1229226--1229392 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 60
1229216 AATCCTATTT
* * * *
1229226 TAAATTAGCCCATAAACTTTTAAACATTCTAA-TTTAGACCTTAAACTATGACTC-TCATTC
1 TAAATTAGTCCATAAACTTTTAAACATTCTAATTTTA-TCCCTAAATTATGAC-CATCATTC
* * *
1229286 TAAATTAGTCCTTAAACTTTTGAACATTCTAATTTTATCCCTAAATTATGACCATCTTTC
1 TAAATTAGTCCATAAACTTTTAAACATTCTAATTTTATCCCTAAATTATGACCATCATTC
* * ** * * * *
1229346 TATATTGGTCCCCAAAATTTTTAATATTCTAATTTTATCCCCAAATT
1 TAAATTAGTCCATAAACTTTTAAACATTCTAATTTTATCCCTAAATT
1229393 CACCCAAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 85 0.94
61 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (60 bp):
TAAATTAGTCCATAAACTTTTAAACATTCTAATTTTATCCCTAAATTATGACCATCATTC
Found at i:1229686 original size:60 final size:59
Alignment explanation
Indices: 1229511--1229895 Score: 209
Period size: 60 Copynumber: 6.5 Consensus size: 59
1229501 GTATATACAT
* * * * * *
1229511 ATAGTTT-GGGGTGAAATTAGAATATTCAAAAAGTTTGGGGACTAATATAGAATGAAATTA
1 ATAGTTTAGGGATGAAATTGGAATATT-AAAAAGTTT-GGGACTAATTTAGAATGAGAGTC
* * * * *
1229571 ATAGTTTAGGGATGAAATTGAAATGTTCAAAAGTTTGAAGACTAGTTTAGAATGAGAGTC
1 ATAGTTTAGGGATGAAATTGGAATATTAAAAAGTTTG-GGACTAATTTAGAATGAGAGTC
* * * *
1229631 ATAGTTTAGGGATGAAATTGGAATATTTAAAAGTTTAGGGATTAATTTAAAATGAGGGTC
1 ATAGTTTAGGGATGAAATTGGAATATTAAAAAGTTT-GGGACTAATTTAGAATGAGAGTC
** ** * * * * * * * *
1229691 ATACCTTA-AAATTTAATTTAGGTTAA-ACT-ATAA--TT-GAACTAA-TTACATTGTG-G--
1 ATAGTTTAGGGA-TGAAATT-GG--AATATTAAAAAGTTTGGGACTAATTTAGAATGAGAGTC
* * * * * *
1229744 ATGAATTTAAGGATGAAATTGGAATATTAAAAAGTTTGGGGACTAATTTAGAAAGTGAATT
1 AT-AGTTTAGGGATGAAATTGGAATATTAAAAAGTTT-GGGACTAATTTAGAATGAGAGTC
* ** ** * * *
1229805 ATAGTTTAGAGATGAAATTGGAATATTCTAAAGCTTAAGGATTGATTTAGAATGAAAGTC
1 ATAGTTTAGGGATGAAATTGGAATATTAAAAAG-TTTGGGACTAATTTAGAATGAGAGTC
1229865 ATAGTTT-GAGGATGAAATTGGAATATTAAAA
1 ATAGTTTAG-GGATGAAATTGGAATATTAAAA
1229896 CAATTAGAGA
Statistics
Matches: 242, Mismatches: 62, Indels: 42
0.70 0.18 0.12
Matches are distributed among these distances:
51 2 0.01
52 2 0.01
53 7 0.03
54 9 0.04
55 4 0.02
56 7 0.03
57 11 0.05
58 7 0.03
59 5 0.02
60 159 0.66
61 25 0.10
62 2 0.01
63 2 0.01
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.34
Consensus pattern (59 bp):
ATAGTTTAGGGATGAAATTGGAATATTAAAAAGTTTGGGACTAATTTAGAATGAGAGTC
Found at i:1230028 original size:24 final size:24
Alignment explanation
Indices: 1229995--1230049 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 24
1229985 TTTATCATAA
1229995 ATAAATATTACTATAA-ATTTAATTTT
1 ATAAA-ATTA-TATAACA-TTAATTTT
*
1230021 -TAAAATTATTTAACATTAATTTT
1 ATAAAATTATATAACATTAATTTT
1230044 ATAAAA
1 ATAAAA
1230050 ATTAATGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 12 0.46
24 10 0.38
25 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATAAAATTATATAACATTAATTTT
Found at i:1230879 original size:40 final size:40
Alignment explanation
Indices: 1230823--1230918 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
1230813 GCGATTTTCC
*
1230823 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
1 GACTATCGCAATGCGAATATATAAATCGCAATGCGAGTAT
* *
1230863 GACTATCGCAACGCGAATATATAAATCGCAATGCGATTAT
1 GACTATCGCAATGCGAATATATAAATCGCAATGCGAGTAT
1230903 GACTATCGCAATGCGA
1 GACTATCGCAATGCGA
1230919 TTCTGACTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
GACTATCGCAATGCGAATATATAAATCGCAATGCGAGTAT
Found at i:1230931 original size:40 final size:39
Alignment explanation
Indices: 1230823--1230960 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 39
1230813 GCGATTTTCC
* *
1230823 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
1 GACTATCGCAATGCGATTATG-AAATCGCAATGCGATTAT
*
1230863 GACTATCGCAACGCGAATATAT-AAATCGCAATGCGATTAT
1 GACTATCGCAATGCG-AT-TATGAAATCGCAATGCGATTAT
* * * *
1230903 GACTATCGCAATGCGATTCTGACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTATGA-AATCGCAATGCGATTAT
*
1230943 GACTGTCGCAATGCGATT
1 GACTATCGCAATGCGATT
1230961 TTCAAAGCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 3 0.04
40 76 0.89
41 1 0.01
42 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (39 bp):
GACTATCGCAATGCGATTATGAAATCGCAATGCGATTAT
Found at i:1230952 original size:60 final size:62
Alignment explanation
Indices: 1230823--1230960 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 62
1230813 GCGATTTTCC
*
1230823 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTATGACTATCGCAACGCGAATATAT
1 GACTATCGCAATGCGATTATGTAAATCGCAATGCGAGTATGACTATCGCAACGCGAATATAT
* * * * *
1230885 -A-AATCGCAATGCGATTATG-ACTATCGCAATGCGATTCTGACTATCGCAACGCG-AT-TCT
1 GACTATCGCAATGCGATTATGTA-AATCGCAATGCGAGTATGACTATCGCAACGCGAATATAT
*
1230943 GACTGTCGCAATGCGATT
1 GACTATCGCAATGCGATT
1230961 TTCAAAGCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 4 0.06
60 58 0.89
61 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (62 bp):
GACTATCGCAATGCGATTATGTAAATCGCAATGCGAGTATGACTATCGCAACGCGAATATAT
Found at i:1230959 original size:20 final size:20
Alignment explanation
Indices: 1230823--1230960 Score: 129
Period size: 20 Copynumber: 6.9 Consensus size: 20
1230813 GCGATTTTCC
* *
1230823 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTCT
* * *
1230843 GTA-AATCGCAATGCGAGTAT
1 G-ACTATCGCAATGCGATTCT
* *
1230863 GACTATCGCAACGCGAATATAT
1 GACTATCGCAATGCG-AT-TCT
* *
1230885 -A-AATCGCAATGCGATTAT
1 GACTATCGCAATGCGATTCT
1230903 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTCT
*
1230923 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTCT
*
1230943 GACTGTCGCAATGCGATT
1 GACTATCGCAATGCGATT
1230961 TTCAAAGCAC
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
18 3 0.03
19 4 0.04
20 87 0.87
21 3 0.03
22 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (20 bp):
GACTATCGCAATGCGATTCT
Found at i:1231625 original size:20 final size:20
Alignment explanation
Indices: 1231541--1231627 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
1231531 AGAATCGCAA
* *
1231541 TGCGATTTT-AGTTTCGCAT
1 TGCGATTTTCATTTTCGCGT
1231560 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
1231579 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
1231599 TGCGATTTTCATTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
1231619 TGCGATTTT
1 TGCGATTTT
1231628 AAGTTTCAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 25 0.42
20 34 0.58
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:1233354 original size:18 final size:18
Alignment explanation
Indices: 1233331--1233380 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
1233321 TTTACTCGTA
1233331 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1233349 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1233367 ATTTCACTTAGATT
1 ATTTCACTTAGATT
1233381 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:1233652 original size:20 final size:20
Alignment explanation
Indices: 1233598--1233653 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1233588 GCGATTCTCT
**
1233598 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
1233618 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1233638 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
1233654 CGTGTTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1233660 original size:18 final size:18
Alignment explanation
Indices: 1233598--1233664 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 18
1233588 GCGATTCTCT
1233598 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC--ATTCG
*
1233618 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA--TTCG
1233638 CGTTGCGATAGTCATTCG
1 CGTTGCGATAGTCATTCG
*
1233656 TGTTGCGAT
1 CGTTGCGAT
1233665 TTTAAGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.31
20 29 0.69
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (18 bp):
CGTTGCGATAGTCATTCG
Found at i:1234188 original size:21 final size:21
Alignment explanation
Indices: 1234136--1234195 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
1234126 ACCGACTCAC
* *
1234136 CTGTCATCGTTCAAGAGTCCC
1 CTGTCATCGTTCAAGAGGCCA
** *
1234157 CTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGCCA
* *
1234178 TTGTCATCGTTGAAGAGG
1 CTGTCATCGTTCAAGAGG
1234196 TCCCTCCCAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (21 bp):
CTGTCATCGTTCAAGAGGCCA
Found at i:1235670 original size:36 final size:30
Alignment explanation
Indices: 1235590--1235655 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
1235580 ATAAGAGTTG
1235590 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
1235620 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
1235650 ATTTGT
1 ATTTGT
1235656 GCTTGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:1235776 original size:20 final size:20
Alignment explanation
Indices: 1235751--1236068 Score: 251
Period size: 20 Copynumber: 16.9 Consensus size: 20
1235741 GTGATTTTCT
*
1235751 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
1235771 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1235791 CATTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
1235810 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
1235824 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
1235844 TGTTGCGATCGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1235864 CGTTGCGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCG
**
1235884 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
1235904 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* **
1235924 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
1235944 CATTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
1235958 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
1235978 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
1235998 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* * *
1236012 CGTTGCAATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
1236032 CATTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
1236052 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
1236069 GAATGTGTAA
Statistics
Matches: 239, Mismatches: 41, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
14 30 0.13
16 3 0.01
17 1 0.00
18 2 0.01
19 16 0.07
20 187 0.78
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1235837 original size:73 final size:73
Alignment explanation
Indices: 1235707--1235892 Score: 237
Period size: 73 Copynumber: 2.5 Consensus size: 73
1235697 TTCAATCTGC
* * * * * *
1235707 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGTGATTTTCTCGTTGCGATAGTCAAATTCCC
1 ATCAAATTCGCGTTGCGATAGTC-ATTTCACGTTGCGATTATCTCGTTGCGATAGTCAAATTCCC
1235772 GTTGCGATA
65 GTTGCGATA
* * **
1235781 ATCAAATTCGCATTGCGATAGTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGTG
1 ATCAAATTCGCGTTGCGATAGTCATTTCACGTTGCGATTATCTCGTTGCGATAGTCAAATTCCCG
*
1235846 TTGCGATC
66 TTGCGATA
* *
1235854 GTTAAATTCGCGTTGCGATAGTCATATTCACGTTGCGAT
1 ATCAAATTCGCGTTGCGATAGTCAT-TTCACGTTGCGAT
1235893 AGTCATTTTC
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
73 63 0.66
74 33 0.34
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (73 bp):
ATCAAATTCGCGTTGCGATAGTCATTTCACGTTGCGATTATCTCGTTGCGATAGTCAAATTCCCG
TTGCGATA
Found at i:1235986 original size:54 final size:54
Alignment explanation
Indices: 1235845--1236060 Score: 234
Period size: 54 Copynumber: 3.9 Consensus size: 54
1235835 TCAAATTCGT
* * * * *
1235845 GTTGCGATCGTTAAATTCGCGTTGCGATAGTCATATTCACGTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCATTGCGAT--T-A---TCCC
** * * *
1235905 GTTGCGATAGTCATTTTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCTC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCATTGCGATTATCCC
*
1235959 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCATTGCGATTATCCC
* * * * *
1236013 GTTGCAATATTCAAATTCACATTGCGATAGTCATATTCGCGTTGCGAT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCATTGCGAT
1236061 AGTCAAATGA
Statistics
Matches: 137, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
54 95 0.69
57 1 0.01
58 1 0.01
60 40 0.29
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (54 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCATTGCGATTATCCC
Found at i:1236038 original size:74 final size:73
Alignment explanation
Indices: 1235864--1236065 Score: 219
Period size: 74 Copynumber: 2.7 Consensus size: 73
1235854 GTTAAATTCG
* * * **
1235864 CGTTGCGATAGTCATATTCACGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGTGTTG
1 CGTTGC-ATATTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCATTG
1235929 CGATAGTCA
65 CGATAGTCA
** * * * * *
1235938 TTTTCGCAT-TGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATT
1 CGTT-GCATATTCAAAT-TCACGTTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCATT
*
1236002 GCGATTA-TCC
64 GCGA-TAGTCA
*
1236012 CGTTGCAATATTCAAATTCACATTGCGATAGTCATATTCGCGTTGCGATAGTCA
1 CGTTGC-ATATTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGATAGTCA
1236066 AATGAATGTG
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
73 4 0.04
74 90 0.88
75 8 0.08
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (73 bp):
CGTTGCATATTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCATTGC
GATAGTCA
Found at i:1236266 original size:18 final size:18
Alignment explanation
Indices: 1236243--1236277 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1236233 AAGCCGGTTG
*
1236243 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1236261 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
1236278 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1238566 original size:24 final size:24
Alignment explanation
Indices: 1238532--1238585 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1238522 CTGAAACATC
1238532 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1238556 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1238580 ATCAAA
1 ATCAAA
1238586 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1241679 original size:151 final size:151
Alignment explanation
Indices: 1241405--1241700 Score: 522
Period size: 151 Copynumber: 2.0 Consensus size: 151
1241395 AATGGTTGCT
* *
1241405 TGACTATAGGATGTTACTTTGTTGAGTTCCTCGATTATTAAAATTTACAAAATAATAATCTGACT
1 TGACTATAGGACGTTACTTTGTTGAGTTCCTCGATTATTAAAATTTACAAAATAATAATATGACT
* * *
1241470 ATTCATATGTTCCAAACATATACTTTTCTGTTAAAAAATCCGATCCCATAATTGTTTGATTTGTA
66 ATTCATATGATCCAAACATATAATTTTCTGTTAAAAAATCCGATCCCATAACTGTTTGATTTGTA
1241535 TAGTCGTTTGAAATTCTAGGA
131 TAGTCGTTTGAAATTCTAGGA
1241556 TGACTATAGGACGTTACTTTGTTGAG-TCCGTCGATTATTAAAATTTACAAAATAATAATATGAC
1 TGACTATAGGACGTTACTTTGTTGAGTTCC-TCGATTATTAAAATTTACAAAATAATAATATGAC
1241620 TATTCATATGATCCAAACATATAATTTTCTGTTAAAAAATCCGATCCCATAACTGTTTGATTTGT
65 TATTCATATGATCCAAACATATAATTTTCTGTTAAAAAATCCGATCCCATAACTGTTTGATTTGT
*
1241685 GTAGTCGTTTGAAATT
130 ATAGTCGTTTGAAATT
1241701 TTATGATCAA
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
150 3 0.02
151 135 0.98
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (151 bp):
TGACTATAGGACGTTACTTTGTTGAGTTCCTCGATTATTAAAATTTACAAAATAATAATATGACT
ATTCATATGATCCAAACATATAATTTTCTGTTAAAAAATCCGATCCCATAACTGTTTGATTTGTA
TAGTCGTTTGAAATTCTAGGA
Found at i:1242387 original size:89 final size:89
Alignment explanation
Indices: 1242236--1242413 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
1242226 AGTGGTCCAA
1242236 GGATTCTGAGTTAATTGTTCAAAGCGATTGTGCTGTTGTGGTTAATTGGATTCTGAATCCTTCCT
1 GGATTCTGAGTTAATTGTTCAAAGCGATTGTGCTGTTGTGGTTAATTGGATTCTGAATCCTTCCT
1242301 CTATTCCGGTCGAATGGTCGTCAC
66 CTATTCCGGTCGAATGGTCGTCAC
1242325 GGATTCTGAGTTAATTGTTCAAAGCGATTGTGCTGTTGTGGTTAATTGGATTCTGAATCCTTCCT
1 GGATTCTGAGTTAATTGTTCAAAGCGATTGTGCTGTTGTGGTTAATTGGATTCTGAATCCTTCCT
1242390 CTATTCCGGTCGAATGGTCGTCAC
66 CTATTCCGGTCGAATGGTCGTCAC
1242414 TCCTTCACCC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (89 bp):
GGATTCTGAGTTAATTGTTCAAAGCGATTGTGCTGTTGTGGTTAATTGGATTCTGAATCCTTCCT
CTATTCCGGTCGAATGGTCGTCAC
Found at i:1248653 original size:60 final size:60
Alignment explanation
Indices: 1248557--1248677 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
1248547 AAAGCTGACT
*
1248557 ATAGAACAATAACCAACAAATATCCTCCAAACTAGTACACTCCAAACACTGACATCAACA
1 ATAGAACAATAACCAACAAATATCCTCCAAAATAGTACACTCCAAACACTGACATCAACA
* *
1248617 ATAGAACAATAACCAACAAATATCCTCCAAAATAGTACACTCCTAACATTGACATCAACA
1 ATAGAACAATAACCAACAAATATCCTCCAAAATAGTACACTCCAAACACTGACATCAACA
1248677 A
1 A
1248678 CATGAAATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (60 bp):
ATAGAACAATAACCAACAAATATCCTCCAAAATAGTACACTCCAAACACTGACATCAACA
Found at i:1268288 original size:32 final size:31
Alignment explanation
Indices: 1268252--1268341 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 31
1268242 GATTTCAAAA
1268252 TAAATAAGATATGGTCACCTTCGTTCTTTATT
1 TAAATAAGATATGGTCACCTTCGTT-TTTATT
* *
1268284 TAAATAAGATATGGTCACTTTCATTTTTATT
1 TAAATAAGATATGGTCACCTTCGTTTTTATT
* *
1268315 TAATTAAGATGTGGTCACCTTTCGTTT
1 TAAATAAGATATGGTCACC-TTCGTTT
1268342 ACAGTTAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 22 0.43
32 29 0.57
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (31 bp):
TAAATAAGATATGGTCACCTTCGTTTTTATT
Found at i:1268603 original size:27 final size:25
Alignment explanation
Indices: 1268573--1268662 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 25
1268563 TTAAATTCAT
1268573 AATATTTTATATATATTAACTTTAAA
1 AATATTTTAT-TATATTAACTTTAAA
1268599 AA-ATATTT-TTATATTAACTTATTAAA
1 AATAT-TTTATTATATTAAC-T-TTAAA
*
1268625 TATATTTTATTATTCACTTAA-TTTAAA
1 AATATTTTATTA-T-A-TTAACTTTAAA
1268652 AATATTTTATT
1 AATATTTTATT
1268663 TTAATTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
24 9 0.17
25 4 0.07
26 14 0.26
27 20 0.37
28 2 0.04
29 1 0.02
30 4 0.07
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
AATATTTTATTATATTAACTTTAAA
Found at i:1268615 original size:24 final size:25
Alignment explanation
Indices: 1268584--1268659 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
1268574 ATATTTTATA
1268584 TATATTAACTT-TAAAAAATATTTT
1 TATATTAACTTATAAAAAATATTTT
* *
1268608 TATATTAACTTATTAAATATA-TTT
1 TATATTAACTTATAAAAAATATTTT
* *
1268632 TATTATTCACTTAATTTAAAAATATTTT
1 TA-TATTAACTT-A-TAAAAAATATTTT
1268660 ATTTTAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
24 16 0.37
25 15 0.35
26 1 0.02
27 8 0.19
28 3 0.07
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
TATATTAACTTATAAAAAATATTTT
Found at i:1268672 original size:27 final size:27
Alignment explanation
Indices: 1268599--1268683 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
1268589 TAACTTTAAA
1268599 AAATAT-TTTTA-TATTAACTT-A-TT
1 AAATATATTTTATTATTAACTTAATTT
*
1268622 AAATATATTTTATTATTCACTTAATTT
1 AAATATATTTTATTATTAACTTAATTT
* *
1268649 AAAAATATTTTATT-TTAATTTTAATTT
1 AAATATATTTTATTATTAA-CTTAATTT
1268676 AAATATAT
1 AAATATAT
1268684 ATGTTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 6 0.12
24 5 0.10
25 8 0.15
26 4 0.08
27 29 0.56
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATATATTTTATTATTAACTTAATTT
Found at i:1268917 original size:31 final size:31
Alignment explanation
Indices: 1268848--1268924 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
1268838 TTAACGGCAT
* * *
1268848 GTGACCACATCTTAATTAAATAAAAATGAAA
1 GTGACCATATCTTATTTAAATAAAAACGAAA
*
1268879 GTGACCATATCTTATTTAAATAAAAACGAAG
1 GTGACCATATCTTATTTAAATAAAAACGAAA
*
1268910 GTGACCATATTTTAT
1 GTGACCATATCTTAT
1268925 GTATTTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (31 bp):
GTGACCATATCTTATTTAAATAAAAACGAAA
Found at i:1271114 original size:23 final size:23
Alignment explanation
Indices: 1271069--1271143 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
1271059 CACCGAAGTG
* *
1271069 CCACATA--TTTGTCCTAAAAGA
1 CCACATAGGTTTGTCCTGAAGGA
* * *
1271090 CCACATAGTTTTGT-TTCGAATGA
1 CCACATAGGTTTGTCCT-GAAGGA
1271113 CCACATAGGTTTGTCCTGAAGGA
1 CCACATAGGTTTGTCCTGAAGGA
1271136 CCACATAG
1 CCACATAG
1271144 AACCCTCAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.16
22 1 0.02
23 35 0.80
24 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (23 bp):
CCACATAGGTTTGTCCTGAAGGA
Found at i:1277365 original size:24 final size:24
Alignment explanation
Indices: 1277311--1277402 Score: 109
Period size: 23 Copynumber: 3.9 Consensus size: 24
1277301 GTGCCACATA
* *
1277311 TTTGTCTCGAAGGACCACATA-GT
1 TTTGTCCCAAAGGACCACATAGGT
*
1277334 TTTATCCCAAAGGACCACATAGGT
1 TTTGTCCCAAAGGACCACATAGGT
*
1277358 TTTGTCCCTAAA-AACCACATAGG-
1 TTTGTCCC-AAAGGACCACATAGGT
*
1277381 TTTGTCCCAAATGACCACATAG
1 TTTGTCCCAAAGGACCACATAG
1277403 AACCCTCGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.05
23 35 0.58
24 19 0.32
25 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (24 bp):
TTTGTCCCAAAGGACCACATAGGT
Found at i:1279270 original size:40 final size:40
Alignment explanation
Indices: 1279225--1279306 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
1279215 ATCCTGAGTT
*
1279225 AGTAGTTTGGCTCAACTCGAGACCCAAAGTTGAGCCCAAA
1 AGTAGTTTGGCTCAACCCGAGACCCAAAGTTGAGCCCAAA
1279265 AGTAGTTTGGCTCAACCCGAGACCCAAAGTTGAGCCCAAA
1 AGTAGTTTGGCTCAACCCGAGACCCAAAGTTGAGCCCAAA
1279305 AG
1 AG
1279307 ACTTTATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (40 bp):
AGTAGTTTGGCTCAACCCGAGACCCAAAGTTGAGCCCAAA
Found at i:1290645 original size:18 final size:19
Alignment explanation
Indices: 1290610--1290646 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1290600 CACGGAATGT
1290610 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1290630 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1290647 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1290870 original size:37 final size:37
Alignment explanation
Indices: 1290797--1290871 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
1290787 GTTGAAAAAT
* *
1290797 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
1290834 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
1290871 A
1 A
1290872 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:1291235 original size:40 final size:40
Alignment explanation
Indices: 1291180--1291261 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
1291170 CCCGGCTAAT
* *
1291180 CAAACGGGAGAATGTGGATTTCATTCCCATGTGAATCTCA
1 CAAACGGGAGAATGTGGATTCCATTCCAATGTGAATCTCA
1291220 CAAACGGGAGAATGTGGATTCCATTCCAATGTGAATCTCA
1 CAAACGGGAGAATGTGGATTCCATTCCAATGTGAATCTCA
1291260 CA
1 CA
1291262 TTCCCCCAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAACGGGAGAATGTGGATTCCATTCCAATGTGAATCTCA
Found at i:1291895 original size:2 final size:2
Alignment explanation
Indices: 1291888--1291914 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1291878 CCGATCCGGT
1291888 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1291915 TTAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1291993 original size:42 final size:42
Alignment explanation
Indices: 1291946--1292028 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
1291936 TTATAATGTT
* * *
1291946 AAAATATGTT-TTTTAATTA-TTAAAATGATAATAAATTATTAC
1 AAAATATATTATTTTAATAATTTAAAA--ATAATAAATAATTAC
1291988 AAAATATATTATTTTAATAATTTAAAAATAATAAATAATTA
1 AAAATATATTATTTTAATAATTTAAAAATAATAAATAATTA
1292029 TAAATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 22 0.61
43 8 0.22
44 6 0.17
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (42 bp):
AAAATATATTATTTTAATAATTTAAAAATAATAAATAATTAC
Found at i:1292418 original size:172 final size:172
Alignment explanation
Indices: 1292132--1292478 Score: 649
Period size: 172 Copynumber: 2.0 Consensus size: 172
1292122 AAAAGCGAAA
1292132 AACTATCGAGGCAAGTCGGGACCGAATATAGACAATATATTTTCGGGTCGGGGTCGGGGCGGCCA
1 AACTATCGAGGCAAGTCGGGACCGAATATAGACAATATATTTTCGGGTCGGGGTCGGGGCGGCCA
* *
1292197 AAATATCAGCCCGTCTCTCCCCGTGCCCATTCCTACGTGTTACCATAAAACAATGTCACATCATC
66 AAATATCAGCCCGTCTCGCCCCGTGCCCATCCCTACGTGTTACCATAAAACAATGTCACATCATC
1292262 ATTAGAAAAATATCACGTCAACAATACAATCAACTTTTTAAT
131 ATTAGAAAAATATCACGTCAACAATACAATCAACTTTTTAAT
1292304 AACTATCGAGGCAAGTCGGGACCGAATATAGACAATATATTTTCGGGTCGGGGTCGGGGCGGCCA
1 AACTATCGAGGCAAGTCGGGACCGAATATAGACAATATATTTTCGGGTCGGGGTCGGGGCGGCCA
** *
1292369 AAATATTGGCCCGTCTCGCCCCGTGCCCATCCCTACTTGTTACCATAAAACAATGTCACATCATC
66 AAATATCAGCCCGTCTCGCCCCGTGCCCATCCCTACGTGTTACCATAAAACAATGTCACATCATC
1292434 ATTAGAAAAATATCACGTCAACAATACAATCAACTTTTTAAT
131 ATTAGAAAAATATCACGTCAACAATACAATCAACTTTTTAAT
1292476 AAC
1 AAC
1292479 AGGTGATCAA
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (172 bp):
AACTATCGAGGCAAGTCGGGACCGAATATAGACAATATATTTTCGGGTCGGGGTCGGGGCGGCCA
AAATATCAGCCCGTCTCGCCCCGTGCCCATCCCTACGTGTTACCATAAAACAATGTCACATCATC
ATTAGAAAAATATCACGTCAACAATACAATCAACTTTTTAAT
Found at i:1300146 original size:14 final size:14
Alignment explanation
Indices: 1300127--1300166 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1300117 AATATGTTCG
1300127 TTTATGTTCATTCA
1 TTTATGTTCATTCA
* * *
1300141 TTTATGATCGTTCG
1 TTTATGTTCATTCA
1300155 TTTATGTTCATT
1 TTTATGTTCATT
1300167 TATTGTGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.57
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:1300271 original size:24 final size:24
Alignment explanation
Indices: 1300121--1300277 Score: 129
Period size: 24 Copynumber: 6.5 Consensus size: 24
1300111 TTCAGTAATA
*
1300121 TGTTCGTTTATGTTCATTCATTTATG
1 TGTTCGTTTATGTTCGTTCA-TT-TG
* *
1300147 ATCGTTCGTTTATGTTCATTTA-TTG
1 -T-GTTCGTTTATGTTCGTTCATTTG
* * *
1300172 TGTTTGTTTACGTTCGTTCGTTTG
1 TGTTCGTTTATGTTCGTTCATTTG
* * *
1300196 TGTTCGTTAACGTTCGTTTA-TTG
1 TGTTCGTTTATGTTCGTTCATTTG
* * ** *
1300219 TGTTCATTTATGTTCGTTTACATC
1 TGTTCGTTTATGTTCGTTCATTTG
*
1300243 CGTTCGTTTATGTTCGTTCATTTG
1 TGTTCGTTTATGTTCGTTCATTTG
1300267 TGTTCGTTTAT
1 TGTTCGTTTAT
1300278 CATTTAAATA
Statistics
Matches: 105, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
23 34 0.32
24 49 0.47
25 2 0.02
26 1 0.01
27 1 0.01
28 18 0.17
ACGTcount: A:0.12, C:0.13, G:0.18, T:0.56
Consensus pattern (24 bp):
TGTTCGTTTATGTTCGTTCATTTG
Found at i:1303907 original size:24 final size:24
Alignment explanation
Indices: 1303875--1303933 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
1303865 GCGAGCTATA
*
1303875 CGAGAGCATCCAAG-GCCATCCGAC
1 CGAGGGCATCCAAGCG-CATCCGAC
* *
1303899 CGAGGGCATCCGAGCGCATCCGAT
1 CGAGGGCATCCAAGCGCATCCGAC
*
1303923 CGAGGTCATCC
1 CGAGGGCATCC
1303934 GAGGGGTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.29, T:0.12
Consensus pattern (24 bp):
CGAGGGCATCCAAGCGCATCCGAC
Found at i:1303934 original size:24 final size:24
Alignment explanation
Indices: 1303891--1303936 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1303881 CATCCAAGGC
1303891 CATCCGACCGAGGGCATCCGAGCG
1 CATCCGACCGAGGGCATCCGAGCG
* *
1303915 CATCCGATCGAGGTCATCCGAG
1 CATCCGACCGAGGGCATCCGAG
1303937 GGGTAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.35, G:0.30, T:0.13
Consensus pattern (24 bp):
CATCCGACCGAGGGCATCCGAGCG
Found at i:1304817 original size:21 final size:21
Alignment explanation
Indices: 1304766--1304818 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1304756 ATTATGACTA
1304766 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
1304787 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
1304808 TCGCAATGCGA
1 TCGCAATGCGA
1304819 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:1304833 original size:20 final size:21
Alignment explanation
Indices: 1304808--1304859 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1304798 TTTTCCCAAT
*
1304808 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1304828 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1304849 TCGCAATGCGA
1 TCGCAATGCGA
1304860 TACTAACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1304872 original size:41 final size:41
Alignment explanation
Indices: 1304845--1304942 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
1304835 GCGAATTGGG
*
1304845 AAAATCGCAATGCGATACTAACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTAACTATCGCAACGCGATAATAC
* * *
1304886 AAAATCGCAATGCGATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAATGCGATACTAACTATCGCAACGCGATAATAC
* *
1304927 AGAATCACAATGCGAT
1 AAAATCGCAATGCGAT
1304943 TTTCAAAGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTAACTATCGCAACGCGATAATAC
Found at i:1304873 original size:20 final size:20
Alignment explanation
Indices: 1304848--1304915 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
1304838 AATTGGGAAA
1304848 ATCGCAATGCGATACTAACT
1 ATCGCAATGCGATACTAACT
* **
1304868 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTA-ACT
*
1304889 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTAACT
*
1304909 TTCGCAA
1 ATCGCAA
1304916 CGAGATAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTAACT
Found at i:1305679 original size:24 final size:24
Alignment explanation
Indices: 1305652--1305705 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1305642 GTATTCGAAA
*
1305652 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1305676 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1305700 TTTGAT
1 TTTGAT
1305706 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1310323 original size:20 final size:20
Alignment explanation
Indices: 1310300--1310353 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1310290 GAAACTTAAA
1310300 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
1310320 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGCGAAAATGACT
1310340 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
1310354 TGAAAATCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1310375 original size:14 final size:14
Alignment explanation
Indices: 1310356--1310414 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
1310346 ATGCGAAATG
1310356 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
1310370 AAAATCGAAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1310389 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1310403 AAAATCGCAACG
1 AAAATCGCAACG
1310415 CGAAATACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.51, C:0.22, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1310387 original size:33 final size:33
Alignment explanation
Indices: 1310340--1310430 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
1310330 GGAAATGGCT
1310340 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1310373 ATCGAAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1310406 ATCGCAACGCGAAAT-ACAAATCGCA
1 ATCGCAATGCGAAATGA-AAATCGCA
1310431 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 1 0.02
33 53 0.98
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1310448 original size:19 final size:19
Alignment explanation
Indices: 1310426--1310492 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
1310416 GAAATACAAA
1310426 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
1310445 TCGCGTTGTGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1310461 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1310478 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
1310493 TGCGATTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 5 0.13
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 19 0.50
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1310495 original size:28 final size:30
Alignment explanation
Indices: 1310431--1310517 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 30
1310421 ACAAATCGCA
* *
1310431 TTGCGATTTTCATTTCGCGTTGTGATTTTGTC
1 TTGCGATTTTCATTTCGCATTGCGA--TTGTC
1310463 GTTGCGATTTTCATTTCGCATTGCGATT-T-
1 -TTGCGATTTTCATTTCGCATTGCGATTGTC
1310492 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1310518 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
28 26 0.50
30 1 0.02
31 2 0.04
33 23 0.44
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (30 bp):
TTGCGATTTTCATTTCGCATTGCGATTGTC
Found at i:1310553 original size:20 final size:20
Alignment explanation
Indices: 1310502--1310545 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1310492 TTGCGATTTT
* *
1310502 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGTGATAGC
*
1310521 CATTTCCGCGTTGTGATAGT
1 CATTTCCGCGTTGTGATAGC
1310541 CATTT
1 CATTT
1310546 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTTCCGCGTTGTGATAGC
Found at i:1311120 original size:18 final size:18
Alignment explanation
Indices: 1311097--1311144 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1311087 CGGGTCGATC
1311097 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
1311115 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
1311133 AGGTGATGGCTC
1 AGGTGATGGCTC
1311145 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:1312520 original size:20 final size:20
Alignment explanation
Indices: 1312472--1312520 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1312462 GAAAATAAAA
*
1312472 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1312492 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1312512 ATCGCAACG
1 ATCGCAACG
1312521 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1312824 original size:22 final size:22
Alignment explanation
Indices: 1312797--1312840 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1312787 GATGGAGATA
1312797 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1312819 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1312841 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1313113 original size:20 final size:20
Alignment explanation
Indices: 1313031--1313121 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
1313021 ATGTATTATT
* * *
1313031 GCGTTGAGAAAGTCAGAATC
1 GCGTTGCGATAGTCAGTATC
* *
1313051 GCGTTGCGAAAGTCAGTATT
1 GCGTTGCGATAGTCAGTATC
* *
1313071 GCGTTGCGATTTTGT-ATTATC
1 GCGTTGCGA--TAGTCAGTATC
1313092 GCGTTGCGATAGTCAGTATC
1 GCGTTGCGATAGTCAGTATC
*
1313112 GCATTGCGAT
1 GCGTTGCGAT
1313122 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 40 0.69
21 13 0.22
22 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGTATC
Found at i:1313135 original size:41 final size:41
Alignment explanation
Indices: 1313048--1313142 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
1313038 GAAAGTCAGA
* * * ** *
1313048 ATCGCGTTGCGAAAGTCAGTATTGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
1313089 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAAT
1313131 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1313143 TTACTTATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:1313203 original size:21 final size:22
Alignment explanation
Indices: 1313154--1313203 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1313144 TACTTATTCG
*
1313154 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCA
**
1313175 CAACGCGAAATT-GGAAAATCA
1 CATTGCGAAATTGGGAAAATCA
1313196 CATTGCGA
1 CATTGCGA
1313204 TAGTCATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCA
Found at i:1314519 original size:20 final size:20
Alignment explanation
Indices: 1314494--1314646 Score: 132
Period size: 20 Copynumber: 7.4 Consensus size: 20
1314484 CGATCTATGA
1314494 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * **
1314514 ATCGCAATGTGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
1314534 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
1314555 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
1314575 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
**
1314595 AATCGCAACGCGATAAT-ACAT
1 -ATCGCAACGCGATTCTGAC-T
*
1314616 AATCCCAACGCGCAATTCTGACT
1 -ATCGCAACGCG--ATTCTGACT
1314639 ATCGCAAC
1 ATCGCAAC
1314647 ACTGAATATC
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.04
20 48 0.43
21 44 0.40
22 9 0.08
23 4 0.04
24 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1314542 original size:41 final size:41
Alignment explanation
Indices: 1314493--1314646 Score: 179
Period size: 41 Copynumber: 3.7 Consensus size: 41
1314483 GCGATCTATG
* *
1314493 AATCGCAACGCGATTCTGACTATCGCAATGTGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
**
1314534 AATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAAT-ACAT
**
1314575 -ATCGCAACGCGATAAT-ACATAATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGAC-T-ATCGCAACGCGATAATACAT
*
1314616 AATCCCAACGCGCAATTCTGACTATCGCAAC
1 AATCGCAACGCG--ATTCTGACTATCGCAAC
1314647 ACTGAATATC
Statistics
Matches: 94, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 17 0.18
41 49 0.52
42 12 0.13
43 8 0.09
44 4 0.04
45 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (41 bp):
AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
Found at i:1314568 original size:61 final size:62
Alignment explanation
Indices: 1314493--1314646 Score: 222
Period size: 61 Copynumber: 2.5 Consensus size: 62
1314483 GCGATCTATG
* * **
1314493 AATCGCAACGCGATTCTGACTATCGCAATGTGATAATACATAATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAATCGCAACGCGATAAT-ACAT
1314555 -ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAATCGCAACGCGATAATACAT
*
1314616 AATCCCAACGCGCAATTCTGACTATCGCAAC
1 AATCGCAACGCG--ATTCTGACTATCGCAAC
1314647 ACTGAATATC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
60 2 0.02
61 54 0.65
62 10 0.12
64 17 0.20
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (62 bp):
AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAATCGCAACGCGATAATACAT
Found at i:1315518 original size:24 final size:24
Alignment explanation
Indices: 1315467--1315520 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1315457 GTATTCGAAA
*
1315467 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
1315491 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
1315515 TTTGAT
1 TTTGAT
1315521 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:1315712 original size:12 final size:12
Alignment explanation
Indices: 1315695--1315719 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1315685 ATATAATCCT
1315695 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1315707 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1315719 G
1 G
1315720 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1317797 original size:18 final size:18
Alignment explanation
Indices: 1317774--1317808 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1317764 AGCAAAAGGC
*
1317774 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
1317792 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
1317809 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:1318160 original size:34 final size:34
Alignment explanation
Indices: 1318112--1318193 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
1318102 TTCATTTCAA
* *
1318112 TATCGCAACGCAAAAATCGCAACGTGAATTTGAC
1 TATCGCAACACAAAAATCGCAACGCGAATTTGAC
1318146 TATCGCAACACAAAAATCGCAACGCGAATTTGAC
1 TATCGCAACACAAAAATCGCAACGCGAATTTGAC
*
1318180 TATCTCAACACAAA
1 TATCGCAACACAAA
1318194 TTTGACTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (34 bp):
TATCGCAACACAAAAATCGCAACGCGAATTTGAC
Found at i:1318205 original size:40 final size:39
Alignment explanation
Indices: 1318127--1318268 Score: 159
Period size: 40 Copynumber: 3.7 Consensus size: 39
1318117 CAACGCAAAA
1318127 ATCGCAACGTGAATTTGACTATCGCAACACAAA----A-
1 ATCGCAACGTGAATTTGACTATCGCAACACAAATTTGAT
* *
1318161 ATCGCAACGCGAATTTGACTATCTCAACACAAATTTGACT
1 ATCGCAACGTGAATTTGACTATCGCAACACAAATTTGA-T
* * ***
1318201 ATCGCAACGTGAATTTGATTATCACAACGTGAATTTGATT
1 ATCGCAACGTGAATTTGACTATCGCAACACAAATTTGA-T
*
1318241 ATCGCAACGGGAATTTGACTATCGCAAC
1 ATCGCAACGTGAATTTGACTATCGCAAC
1318269 GAGAAAATTG
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
34 31 0.34
38 1 0.01
40 58 0.64
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (39 bp):
ATCGCAACGTGAATTTGACTATCGCAACACAAATTTGAT
Found at i:1318215 original size:20 final size:20
Alignment explanation
Indices: 1318161--1318269 Score: 137
Period size: 20 Copynumber: 5.5 Consensus size: 20
1318151 CAACACAAAA
1318161 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* * *
1318181 ATCTCAACACAAATTTGACT
1 ATCGCAACGCGAATTTGACT
* *
1318201 ATCGCAACGTGAATTTGATT
1 ATCGCAACGCGAATTTGACT
* * *
1318221 ATCACAACGTGAATTTGATT
1 ATCGCAACGCGAATTTGACT
*
1318241 ATCGCAACGGGAATTTGACT
1 ATCGCAACGCGAATTTGACT
1318261 ATCGCAACG
1 ATCGCAACG
1318270 AGAAAATTGC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:1318361 original size:22 final size:22
Alignment explanation
Indices: 1318335--1318377 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1318325 ATTTTGGCTT
*
1318335 TCGCATTTCGATAACGACAAAA
1 TCGCATTGCGATAACGACAAAA
*
1318357 TCGCATTGCGATAATGACAAA
1 TCGCATTGCGATAACGACAAA
1318378 TCAACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGATAACGACAAAA
Found at i:1319941 original size:21 final size:21
Alignment explanation
Indices: 1319917--1320010 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 21
1319907 GTGGGAGAGA
*
1319917 CCTCTTCAACGATGACAGGGG
1 CCTCTTGAACGATGACAGGGG
* **
1319938 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAGGGG
* ** *
1319959 ACTCTTGAGGGATGATAGGGG
1 CCTCTTGAACGATGACAGGGG
* *
1319980 CCTCTTGAACGAT-AGGAGAGG
1 CCTCTTGAACGATGA-CAGGGG
1320001 CCTCTTGAAC
1 CCTCTTGAAC
1320011 ATTGGCAGGT
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 1 0.02
21 56 0.98
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.21
Consensus pattern (21 bp):
CCTCTTGAACGATGACAGGGG
Found at i:1319964 original size:42 final size:42
Alignment explanation
Indices: 1319897--1320006 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
1319887 ATGAATCGGG
*
1319897 CTCTTGAATGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
* * ** *
1319939 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GAGACCTCTTCAACGATGACAGGGGC
* * *
1319981 CTCTTGAACGATAGGAGAGGCCTCTT
1 CTCTTGAACGGTGGGAGAGACCTCTT
1320007 GAACATTGGC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.91
43 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
Found at i:1320530 original size:20 final size:20
Alignment explanation
Indices: 1320507--1320550 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1320497 CTTAAAATCG
*
1320507 CAACGCGAAAATGACTATCC
1 CAACGAGAAAATGACTATCC
** *
1320527 CAACGAGAATTTGACTATCG
1 CAACGAGAAAATGACTATCC
1320547 CAAC
1 CAAC
1320551 AAGATAATCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (20 bp):
CAACGAGAAAATGACTATCC
Found at i:1320617 original size:19 final size:19
Alignment explanation
Indices: 1320595--1320739 Score: 86
Period size: 20 Copynumber: 7.7 Consensus size: 19
1320585 CGAAACTAAA
*
1320595 TTCGCATTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1320614 TTCGCATTGCGA--TT-A-
1 TTCGCGTTGCGATTTTCAT
* ** *
1320629 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTTTC-AT
**
1320648 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
**
1320668 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
**
1320688 TTCGCGTTGCGATTTTGGT
1 TTCGCGTTGCGATTTTCAT
1320707 TTCGCGTTGCGATTGTT-AT
1 TTCGCGTTGCGATT-TTCAT
* *
1320726 TTCACATTGCGATT
1 TTCGCGTTGCGATT
1320740 ATCTTGTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.08
16 2 0.02
17 2 0.02
18 1 0.01
19 41 0.39
20 51 0.48
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1320657 original size:20 final size:20
Alignment explanation
Indices: 1320632--1320792 Score: 133
Period size: 20 Copynumber: 8.4 Consensus size: 20
1320622 GCGATTATCC
**
1320632 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
1320652 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1320672 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* ***
1320692 CGTTGCGAT-TTTGGTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
1320711 CGTTGCGATTGTTA-TTTCA
1 CGTTGCGATAGTCATTTTCG
* *
1320730 CATTGCGAT--T-ATCTT--
1 CGTTGCGATAGTCATTTTCG
* *
1320745 -GTTGTGATAGTCAAATTT-G
1 CGTTGCGATAGTC-ATTTTCG
1320764 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1320784 CGTTGCGAT
1 CGTTGCGAT
1320793 TTTAAGTTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
14 6 0.05
16 2 0.02
17 3 0.03
18 3 0.03
19 31 0.27
20 70 0.61
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1320803 original size:112 final size:112
Alignment explanation
Indices: 1320595--1320813 Score: 323
Period size: 112 Copynumber: 2.0 Consensus size: 112
1320585 CGAAACTAAA
*
1320595 TTCGCATTGCGATTTTCATTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGA
1 TTCGCATTGCGATTTTCATTTCACATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGA
* *
1320660 TAGTCATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTTTGGT
66 TAGTCATTTTCGCGTTGCGATAGTAAGTTTCGCGTTGCGATTTTGGT
* ** * *
1320707 TTCGCGTTGCGATTGTT-ATTTCACATTGCGATTATCTTGTTGTGATAGTCAAATTTGCGTTGCG
1 TTCGCATTGCGATT-TTCATTTCACATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
** *
1320771 ATAGTCATTTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGATT
65 ATAGTCATTTTCGCGTTGCGATAGTAAGTTTCGCGTTGCGATT
1320814 ATTCTTCTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 93 0.98
113 2 0.02
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.42
Consensus pattern (112 bp):
TTCGCATTGCGATTTTCATTTCACATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGA
TAGTCATTTTCGCGTTGCGATAGTAAGTTTCGCGTTGCGATTTTGGT
Found at i:1321375 original size:18 final size:19
Alignment explanation
Indices: 1321346--1321381 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1321336 TGGTCGATCA
1321346 GGTGATGGTGATGGCTCTG
1 GGTGATGGTGATGGCTCTG
1321365 GGTGA-GGTGATGGCTCT
1 GGTGATGGTGATGGCTCT
1321382 TGAAGTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.11, C:0.11, G:0.47, T:0.31
Consensus pattern (19 bp):
GGTGATGGTGATGGCTCTG
Found at i:1323157 original size:22 final size:22
Alignment explanation
Indices: 1323130--1323181 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
1323120 GGAGATAGAT
* *
1323130 GGATTTCGTCGGAGATGGGGAG
1 GGATTTCGTCGGAGATGAGGAC
1323152 GGATTTCGTCGGAGATGAGGAC
1 GGATTTCGTCGGAGATGAGGAC
1323174 GGATTTCG
1 GGATTTCG
1323182 CCGTAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.44, T:0.25
Consensus pattern (22 bp):
GGATTTCGTCGGAGATGAGGAC
Found at i:1323347 original size:21 final size:21
Alignment explanation
Indices: 1323321--1323375 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1323311 CTCTTTGAAA
1323321 ATCGCATTGCGATTATATATT
1 ATCGCATTGCGATTATATATT
*
1323342 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGATTATATATT
*
1323363 ATCGCGTTGCGAT
1 ATCGCATTGCGAT
1323376 AGTCAGAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (21 bp):
ATCGCATTGCGATTATATATT
Found at i:1323388 original size:20 final size:20
Alignment explanation
Indices: 1323363--1323435 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
1323353 ATTATGTATT
1323363 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* *
1323383 ATCGCGTTGCGATAGTAAAA
1 ATCGCGTTGCGATAGTCAGA
1323403 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
1323423 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
1323436 TCATAGATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:1327978 original size:29 final size:30
Alignment explanation
Indices: 1327946--1328004 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
1327936 TTTTTTTACG
1327946 ATGA-ATGAAATAAAAATT-AAACTTTAAAT
1 ATGATATGAAA-AAAAATTAAAACTTTAAAT
* * *
1327975 ATGATTTTAAAAAAAATTAAAAGTTTAAAT
1 ATGATATGAAAAAAAATTAAAACTTTAAAT
1328005 GTAAATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (30 bp):
ATGATATGAAAAAAAATTAAAACTTTAAAT
Found at i:1334269 original size:33 final size:33
Alignment explanation
Indices: 1334223--1334295 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
1334213 CACAGTTATC
*
1334223 TTGCCTCTTTTCAT-TGATCCCCACCACATTAAT
1 TTGCCTCTTTTCATCAG-TCCCCACCACATTAAT
* *
1334256 TTGCCT-TTCTTCATCAGTCCCCACCGCTTTAAT
1 TTGCCTCTT-TTCATCAGTCCCCACCACATTAAT
1334289 TTGCCTC
1 TTGCCTC
1334296 GAATTATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 31 0.91
34 1 0.03
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (33 bp):
TTGCCTCTTTTCATCAGTCCCCACCACATTAAT
Found at i:1340384 original size:22 final size:22
Alignment explanation
Indices: 1340341--1340384 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1340331 AAATTTACAT
*
1340341 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
1340363 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
1340385 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:1342792 original size:3 final size:3
Alignment explanation
Indices: 1342786--1342843 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
1342776 AAAAAATATG
* **
1342786 TAA TAA TAAA TAA TAA AAA TAAA TAGA TAA CGA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA
1342834 TAAA TAA TAA
1 T-AA TAA TAA
1342844 CGGAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
3 33 0.73
4 12 0.27
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:1342823 original size:17 final size:14
Alignment explanation
Indices: 1342787--1342843 Score: 66
Period size: 13 Copynumber: 4.1 Consensus size: 14
1342777 AAAAATATGT
1342787 AATAATAAATAATA
1 AATAATAAATAATA
1342801 AA-AATAAATAGATA
1 AATAATAAATA-ATA
1342815 ACGATAAT-AATAAT-
1 A--ATAATAAATAATA
1342829 AATAATAAATAATA
1 AATAATAAATAATA
1342843 A
1 A
1342844 CGGAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.14
13 14 0.38
14 8 0.22
15 2 0.05
16 5 0.14
17 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (14 bp):
AATAATAAATAATA
Found at i:1343230 original size:40 final size:42
Alignment explanation
Indices: 1342998--1343496 Score: 243
Period size: 40 Copynumber: 11.7 Consensus size: 42
1342988 TTGGTTGTTG
* * * * * * *
1342998 GGGACGACACTGCTCATACGTGATGAAGAGTTCGGGTCGTCTA
1 GGGATGACACGGCTCCTACGTGATGAGGAGATCTGG-CATCTA
* * * * * *
1343041 AGGAT-ACATGGTTCCTACGTGATGAAGACATCTGG--TCGA
1 GGGATGACACGGCTCCTACGTGATGAGGAGATCTGGCATCTA
* ** * * * *
1343080 AGGATGACACTACTCATACATGATGAAGAGTTCTTGGCCATCTTAA
1 GGGATGACACGGCTCCTACGTGATGAGGAGATC-TGG-CATC-T-A
* * * *
1343126 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GG-GATGACACGGCTCCTACGTGATGAGGA-GATCTGG-CATCTA
* *
1343170 TGGTTGACACGGCTCCTACGTGATGAGGAGATCT-G-ATCT-
1 GGGATGACACGGCTCCTACGTGATGAGGAGATCTGGCATCTA
* * *
1343209 GGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAA
1 GGG-ATGACACGGCTCCTACGTGATGAGGAGATCTGG-CATCT--A
* * * *
1343255 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GG-GATGACACGGCTCCTACGTGATGAGGA-GATCTGG-CATCTA
* *
1343299 TGGTTGACACGGCTCCTACGTGATGAGGAGATCTGG--TC-A
1 GGGATGACACGGCTCCTACGTGATGAGGAGATCTGGCATCTA
* * * * *
1343338 GCTGATGACACGGCTCATACGTGATGAAGAGTTCCGGCCATCTAAA
1 G-GGATGACACGGCTCCTACGTGATGAGGAGATCTGG-CATCT--A
* * * *
1343384 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GG-GATGACACGGCTCCTACGTGATGAGGA-GATCTGG-CATCTA
* * * * *
1343428 TGGTTGACACGGCTCCTACGTGATGAAGAGCTCT-G-ATCTG
1 GGGATGACACGGCTCCTACGTGATGAGGAGATCTGGCATCTA
* *
1343468 GGGATGACACGGTTCCTACATGATGAGGA
1 GGGATGACACGGCTCCTACGTGATGAGGA
1343497 CGGCTGGCCA
Statistics
Matches: 346, Mismatches: 80, Indels: 63
0.71 0.16 0.13
Matches are distributed among these distances:
39 11 0.03
40 109 0.32
41 4 0.01
42 28 0.08
43 88 0.25
44 8 0.02
45 1 0.00
46 72 0.21
47 24 0.07
48 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
GGGATGACACGGCTCCTACGTGATGAGGAGATCTGGCATCTA
Found at i:1343499 original size:83 final size:84
Alignment explanation
Indices: 1343133--1343509 Score: 318
Period size: 83 Copynumber: 4.4 Consensus size: 84
1343123 TAAGGTGATA
* *
1343133 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTCATCTATGGTTGACACGGCTCCTACGTGATGAAG
* *
1343198 AGAT-CTGATCTGGGAATG
66 AGCTCCTGATCTGGGGATG
* * * * * * * *
1343216 ACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGTCATCT-ATGGT--TGACACGGCTCCTACGTGAT
* ** * ** *
1343280 GAGGACGGCTGGTTATCTATGGTTG
62 GAAGA--GCTCCTGATCTGGGGATG
* * * * *
1343305 ACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGC--T-GATGACACGGCTCATACGTGATGAA
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGTCATCTATGGTTGACACGGCTCCTACGTGATGAA
* * * *
1343366 GAGTTCCGGCCATCTAAAGGTGATA
65 GAGCTCCTG--ATCT---GGGGATG
*
1343391 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTCATCTATGGTTGACACGGCTCCTACGTGATGAAG
1343456 AGCT-CTGATCTGGGGATG
66 AGCTCCTGATCTGGGGATG
* *
1343474 ACACGGTTCCTACATGATGAGGACGGCTGGCCATCT
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTCATCT
1343510 TTAGGATTTA
Statistics
Matches: 228, Mismatches: 50, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 91 0.40
84 4 0.02
85 1 0.00
86 58 0.25
87 1 0.00
88 5 0.02
89 65 0.29
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (84 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGTCATCTATGGTTGACACGGCTCCTACGTGATGAAG
AGCTCCTGATCTGGGGATG
Done.