Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 111 of 172
Found at i:37246402 original size:56 final size:56
Alignment explanation
Indices: 37246337--37246456 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
37246327 ACAAGGGATG
37246337 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
37246393 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37246449 ATGGGCAA
1 ATGGGCAA
37246457 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:37248037 original size:47 final size:47
Alignment explanation
Indices: 37247904--37248827 Score: 1749
Period size: 47 Copynumber: 19.6 Consensus size: 47
37247894 TATTTGAATA
*
37247904 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37247953 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248002 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248049 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248096 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248143 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248190 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248237 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248284 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248331 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248378 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248425 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248472 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248519 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248566 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248613 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248660 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248707 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37248754 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
37248801 GATGTGGAAGTGTATAAATATGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37248828 TCCCGAAGGG
Statistics
Matches: 868, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
47 808 0.93
49 60 0.07
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:37251574 original size:34 final size:34
Alignment explanation
Indices: 37251532--37251596 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
37251522 TTAAAGGTTG
37251532 AAAAACCTTATTCTAATCACTGTCAAATAGATTA
1 AAAAACCTTATTCTAATCACTGTCAAATAGATTA
37251566 AAAAACCTTATTCTAATCACTGTCAAATAGA
1 AAAAACCTTATTCTAATCACTGTCAAATAGA
37251597 ATTGTAGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (34 bp):
AAAAACCTTATTCTAATCACTGTCAAATAGATTA
Found at i:37253480 original size:41 final size:40
Alignment explanation
Indices: 37253424--37253509 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
37253414 CAAATACATT
* *
37253424 TAAAACAAATATTAAAATAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAAAAAGAAACAAATAAAAAAT-ATAA
* * * * *
37253465 TAAAACAATTCTTAAAAAAATACACAAATTAAAAATATAA
1 TAAAACAAATATTAAAAAAAGAAACAAATAAAAAATATAA
37253505 TAAAA
1 TAAAA
37253510 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.22
Consensus pattern (40 bp):
TAAAACAAATATTAAAAAAAGAAACAAATAAAAAATATAA
Found at i:37256210 original size:32 final size:32
Alignment explanation
Indices: 37256173--37256237 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37256163 AATGCTTACC
37256173 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
37256205 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
37256237 A
1 A
37256238 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:37261097 original size:12 final size:12
Alignment explanation
Indices: 37261080--37261110 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37261070 AGTACTACCT
*
37261080 CGGCCTCAAGCA
1 CGGCCTCAACCA
37261092 CGGCCTCAACCA
1 CGGCCTCAACCA
37261104 CGGCCTC
1 CGGCCTC
37261111 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.48, G:0.23, T:0.10
Consensus pattern (12 bp):
CGGCCTCAACCA
Found at i:37263672 original size:42 final size:42
Alignment explanation
Indices: 37263625--37263707 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
37263615 AATTACATAA
*
37263625 TTTATGTAGCTTCTAACTCATCTCCCACAATTTATGGTGATC
1 TTTATGCAGCTTCTAACTCATCTCCCACAATTTATGGTGATC
37263667 TTTATGCAGCTTCTAACTCATCTCCCACAATTTATGGTGAT
1 TTTATGCAGCTTCTAACTCATCTCCCACAATTTATGGTGAT
37263708 TTTCCAAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (42 bp):
TTTATGCAGCTTCTAACTCATCTCCCACAATTTATGGTGATC
Found at i:37265205 original size:40 final size:39
Alignment explanation
Indices: 37265107--37265369 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
37265097 TCCTCGTTCA
* * * *
37265107 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
37265146 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37265185 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37265225 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
37265265 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
37265305 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37265346 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37265370 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37265329 original size:120 final size:119
Alignment explanation
Indices: 37265107--37265369 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
37265097 TCCTCGTTCA
* * *
37265107 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
37265172 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
37265225 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
37265290 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
37265346 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37265370 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:37265378 original size:41 final size:41
Alignment explanation
Indices: 37265301--37265378 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37265291 TTTGTATCTC
* * *
37265301 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37265342 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37265379 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37267480 original size:175 final size:175
Alignment explanation
Indices: 37267183--37267528 Score: 584
Period size: 175 Copynumber: 2.0 Consensus size: 175
37267173 AATCTATACG
*
37267183 CAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCTTGGGCTCAACTTGCCCTTA
1 CAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCTCGGGCTCAACTTGCCCTTA
* * *
37267248 CGGCCAAACCTGAGTATCTTTTTCCAAGGTGAAACCTTAAGGAACACTTTGTCTCCCACCTGATA
66 CGGCCAAACCTGAGTATCTTTTTCCAAGGCGAAACCTTAAGAAACACTTTATCTCCCACCTGATA
* * *
37267313 CTCGATGTCTTTTCGTTTCAAATCTGCGTACGACTTCTGACGATC
131 CTCAATGTCTTTTCGTTTCAAATCCGCATACGACTTCTGACGATC
37267358 CAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCTCGGGCTCAACTTGCCCTTA
1 CAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCTCGGGCTCAACTTGCCCTTA
* * *
37267423 CGGCCAAATCTGAGTATCTTTTTTCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATA
66 CGGCCAAACCTGAGTATCTTTTTCCAAGGCGAAACCTTAAGAAACACTTTATCTCCCACCTGATA
* *
37267488 TTCAATGTCTTTTCGTTTCAAATCCGCATACGATTTCTGAC
131 CTCAATGTCTTTTCGTTTCAAATCCGCATACGACTTCTGAC
37267529 AATCTGTGGC
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 159 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (175 bp):
CAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCTCGGGCTCAACTTGCCCTTA
CGGCCAAACCTGAGTATCTTTTTCCAAGGCGAAACCTTAAGAAACACTTTATCTCCCACCTGATA
CTCAATGTCTTTTCGTTTCAAATCCGCATACGACTTCTGACGATC
Found at i:37269208 original size:38 final size:38
Alignment explanation
Indices: 37269157--37269231 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
37269147 CAGTCAAGTA
*
37269157 TGGCTGAAATTTTGTTCGGGTCAACTCGAATACCCGAC
1 TGGCTGAAATTTTGCTCGGGTCAACTCGAATACCCGAC
*
37269195 TGGCTGAAATTTTGCTCGGGTCAGCTCGAATACCCGA
1 TGGCTGAAATTTTGCTCGGGTCAACTCGAATACCCGA
37269232 TGCGGATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (38 bp):
TGGCTGAAATTTTGCTCGGGTCAACTCGAATACCCGAC
Found at i:37269830 original size:45 final size:45
Alignment explanation
Indices: 37269764--37269849 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
37269754 TGGTCGAGCG
*
37269764 AAACCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCGCA
1 AAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCCGCA
37269809 AAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTC
1 AAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTC
37269850 TTTTAACTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.30
Consensus pattern (45 bp):
AAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCCGCA
Found at i:37271704 original size:297 final size:297
Alignment explanation
Indices: 37271170--37271763 Score: 1098
Period size: 297 Copynumber: 2.0 Consensus size: 297
37271160 CAAATTTTCG
* *
37271170 CTCGTAATCAGTAACCGACATGGAGCCTTGCTTAAGCTCAAGAAATTCCTTCCGTTTTTGATCAA
1 CTCGTAATCAGTAACCGACAGGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCGTTTTTGATCAA
*
37271235 CAAATCTCTGACTGATATACTTTTTCCGAAACTCAGTTTGGAAAAACTCCCAAGTTGCTTGCTCT
66 CAAATCTCTGACTGATATACTTTTTCCGAAACTCAGTTTGGAAAAACTCCCAAGTTACTTGCTCT
*
37271300 CGGGGCACAACAGAAGTCAGAGTACTCCACCAATAGTAGGCAGAATCACGTAGCAAGGAGATAGC
131 CGGGGCACAACAGAAGTCAGAGTACTCCACCAATAATAGGCAGAATCACGTAGCAAGGAGATAGC
*
37271365 ACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCCGGATAGTGTTGTCCAGCC
196 ACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCCGGATAGTGTTGTCCAACC
37271430 AAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGC
261 AAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGC
*
37271467 CTCGTAATCAGTAACTGACAGGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCGTTTTTGATCAA
1 CTCGTAATCAGTAACCGACAGGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCGTTTTTGATCAA
37271532 CAAATCTCTGACTGATATACTTTTTCCGAAACTCAGTTTGGAAAAACTCCCAAGTTACTTGCTCT
66 CAAATCTCTGACTGATATACTTTTTCCGAAACTCAGTTTGGAAAAACTCCCAAGTTACTTGCTCT
*
37271597 CGGGGCACAACAGAAGTCAGAGTACTCCACCAATAATAGGCAGAATCACGTAGCAAGGAGATAGT
131 CGGGGCACAACAGAAGTCAGAGTACTCCACCAATAATAGGCAGAATCACGTAGCAAGGAGATAGC
*
37271662 ACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCTGGATAGTGTTGTCCAACC
196 ACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCCGGATAGTGTTGTCCAACC
* *
37271727 AAAATTCAGCTTGCTCGGCATCGTCGCTATCCGTAGC
261 AAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGC
37271764 TTTAAATTCA
Statistics
Matches: 287, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
297 287 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (297 bp):
CTCGTAATCAGTAACCGACAGGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCGTTTTTGATCAA
CAAATCTCTGACTGATATACTTTTTCCGAAACTCAGTTTGGAAAAACTCCCAAGTTACTTGCTCT
CGGGGCACAACAGAAGTCAGAGTACTCCACCAATAATAGGCAGAATCACGTAGCAAGGAGATAGC
ACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCCGGATAGTGTTGTCCAACC
AAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGC
Found at i:37273639 original size:39 final size:40
Alignment explanation
Indices: 37273594--37273765 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
37273584 GCTCCTCGTT
* * *
37273594 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
37273634 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTTGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37273673 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
37273713 CAAAGGCCTTCGGGGCTTAACCCGAAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCG-GATTTAGTAACTCGCA
37273753 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37273766 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37273694 original size:40 final size:39
Alignment explanation
Indices: 37273596--37273818 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
37273586 TCCTCGTTCA
* * * *
37273596 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
37273635 AATGCCTTCGGGACATAACCCGGATTTAATAACTTGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37273674 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
37273714 AAAGGCCTTCGGGGCTTAACCCGAAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCG-GATTTAGTAACTCGCAC
** * * * *
37273754 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37273795 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37273819 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 39 0.25
40 102 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37273827 original size:41 final size:41
Alignment explanation
Indices: 37273750--37273827 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37273740 TTTGTATCTC
* * *
37273750 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37273791 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37273828 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37281637 original size:40 final size:40
Alignment explanation
Indices: 37281539--37281801 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
37281529 TCCTCGTTCA
* * * * *
37281539 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37281578 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37281618 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37281658 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37281698 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
37281738 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37281778 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37281802 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37281810 original size:41 final size:41
Alignment explanation
Indices: 37281733--37281810 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37281723 TTAGTATCTC
* * *
37281733 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37281774 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37281811 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37292913 original size:40 final size:40
Alignment explanation
Indices: 37292866--37293009 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
37292856 TCGCACAAGA
* * * * *
37292866 CCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
37292906 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
* * *
37292946 CCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATG
*
37292987 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
37293010 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
Found at i:37294240 original size:38 final size:38
Alignment explanation
Indices: 37294198--37294273 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
37294188 CAAGAACTCC
37294198 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
37294236 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
37294274 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:37296548 original size:28 final size:30
Alignment explanation
Indices: 37296486--37296548 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
37296476 TATGGGTTTT
37296486 GGTGTTATATATAATATATATTTACGTGCATG
1 GGTGTTATATATAATATATATTTA-GTG-ATG
* *
37296518 GGTGTTATATGTATTATATATTT-GTG-TG
1 GGTGTTATATATAATATATATTTAGTGATG
37296546 GGT
1 GGT
37296549 CTACTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
30 3 0.10
32 21 0.72
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (30 bp):
GGTGTTATATATAATATATATTTAGTGATG
Found at i:37303527 original size:10 final size:10
Alignment explanation
Indices: 37303512--37303537 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
37303502 CAAAATTATT
37303512 ATTTTAGAAA
1 ATTTTAGAAA
37303522 ATTTTAGAAA
1 ATTTTAGAAA
37303532 ATTTTA
1 ATTTTA
37303538 ACTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (10 bp):
ATTTTAGAAA
Found at i:37303581 original size:19 final size:20
Alignment explanation
Indices: 37303558--37303601 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
37303548 ATTTTTTTAG
*
37303558 AATTTTTTTAAAAA-ATATA
1 AATTTTTATAAAAATATATA
*
37303577 TA-TTTTATAAAAATATATA
1 AATTTTTATAAAAATATATA
37303596 AATTTT
1 AATTTT
37303602 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 10 0.50
19 7 0.35
20 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTTTATAAAAATATATA
Found at i:37303594 original size:15 final size:16
Alignment explanation
Indices: 37303563--37303595 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
37303553 TTTAGAATTT
37303563 TTTTAAAAAATATATA
1 TTTTAAAAAATATATA
37303579 TTTTATAAAAATATATA
1 TTTTA-AAAAATATATA
37303596 AATTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTAAAAAATATATA
Found at i:37303615 original size:18 final size:19
Alignment explanation
Indices: 37303592--37303628 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37303582 TATAAAAATA
37303592 TATAAAT-TTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
37303610 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
37303629 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:37305266 original size:27 final size:27
Alignment explanation
Indices: 37305235--37305289 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
37305225 AGTCGTATCG
37305235 TTAAAAGCTTTATTATTTTAAAAACTA
1 TTAAAAGCTTTATTATTTTAAAAACTA
37305262 TTAAAAGCTTTATTATTTTAAAAACTA
1 TTAAAAGCTTTATTATTTTAAAAACTA
37305289 T
1 T
37305290 CCTTATCCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
TTAAAAGCTTTATTATTTTAAAAACTA
Found at i:37305522 original size:16 final size:16
Alignment explanation
Indices: 37305493--37305540 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
37305483 AACTTTATTA
*
37305493 TTTT-TCCTTAGTTCT
1 TTTTCTCCTTCGTTCT
37305508 TTTTCTCCTTCGTTCT
1 TTTTCTCCTTCGTTCT
37305524 TTTTCTCCTTCGTTCT
1 TTTTCTCCTTCGTTCT
37305540 T
1 T
37305541 CTTCCTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.02, C:0.27, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTCTCCTTCGTTCT
Found at i:37305539 original size:26 final size:26
Alignment explanation
Indices: 37305510--37305581 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
37305500 TTAGTTCTTT
* * *
37305510 TTCTCCTTCGTTCTTTTTCTCCTTCG
1 TTCTTCTTCCTTCTTTTTCTCATTCG
*
37305536 TTCTTCTTCCTTATTTTTCTCATTCG
1 TTCTTCTTCCTTCTTTTTCTCATTCG
* **
37305562 TTTTTCTTTTTTCTTTTTCT
1 TTCTTCTTCCTTCTTTTTCT
37305582 TCTTTGTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.03, C:0.26, G:0.04, T:0.67
Consensus pattern (26 bp):
TTCTTCTTCCTTCTTTTTCTCATTCG
Found at i:37305590 original size:26 final size:26
Alignment explanation
Indices: 37305515--37305590 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
37305505 TCTTTTTCTC
* * *
37305515 CTTCGTTCTTTTTCTCCTTCGTTCTT
1 CTTCCTTCTTTTTCTTCTTCGTTTTT
*
37305541 CTTCCTTATTTTTC-TCATTCGTTTTT
1 CTTCCTTCTTTTTCTTC-TTCGTTTTT
** *
37305567 CTTTTTTCTTTTTCTTCTTTGTTT
1 CTTCCTTCTTTTTCTTCTTCGTTT
37305591 GTTTTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.03
26 37 0.93
27 2 0.05
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.68
Consensus pattern (26 bp):
CTTCCTTCTTTTTCTTCTTCGTTTTT
Found at i:37307986 original size:19 final size:20
Alignment explanation
Indices: 37307946--37307994 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
37307936 TTACATGATT
37307946 TTCATGTTAATTTATATTAA
1 TTCATGTTAATTTATATTAA
37307966 TTCATGTTAATTTAT-TTAA
1 TTCATGTTAATTTATATTAA
37307985 TTCATGTTAA
1 TTCATGTTAA
37307995 CATGTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (20 bp):
TTCATGTTAATTTATATTAA
Found at i:37307994 original size:10 final size:10
Alignment explanation
Indices: 37307946--37307994 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
37307936 TTACATGATT
37307946 TTCATGTTAA
1 TTCATGTTAA
* *
37307956 TTTATATTAA
1 TTCATGTTAA
37307966 TTCATGTTAA
1 TTCATGTTAA
*
37307976 TTTAT-TTAA
1 TTCATGTTAA
37307985 TTCATGTTAA
1 TTCATGTTAA
37307995 CATGTTTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (10 bp):
TTCATGTTAA
Found at i:37335006 original size:27 final size:27
Alignment explanation
Indices: 37334965--37335055 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
37334955 CTCAAAATTA
*
37334965 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
37334992 GTAAAACGACTGTAATACCCATGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
37335019 GTAAAATGACCGTAATAACCCTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
37335046 GTAAAATGAC
1 GTAAAATGAC
37335056 GATTATGCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:37335432 original size:32 final size:32
Alignment explanation
Indices: 37335390--37335452 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
37335380 TGATATTGAA
* * * *
37335390 ATGGGCTAGGCGCAACTGATATTGGTTCTAAT
1 ATGGGATAGGCCCAACTAATATTGATTCTAAT
37335422 ATGGGATAGGCCCAACTAATATTGATTCTAA
1 ATGGGATAGGCCCAACTAATATTGATTCTAA
37335453 GATCAGCTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (32 bp):
ATGGGATAGGCCCAACTAATATTGATTCTAAT
Found at i:37335464 original size:32 final size:32
Alignment explanation
Indices: 37335394--37335468 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
37335384 ATTGAAATGG
* * * * **
37335394 GCTAGGCGCAACTGATATTGGTTCTAATATGG
1 GCTAGGCCCAACTAATATTGATTCTAAGATCA
*
37335426 GATAGGCCCAACTAATATTGATTCTAAGATCA
1 GCTAGGCCCAACTAATATTGATTCTAAGATCA
37335458 GCTAGGCCCAA
1 GCTAGGCCCAA
37335469 TTCGAACTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (32 bp):
GCTAGGCCCAACTAATATTGATTCTAAGATCA
Found at i:37349675 original size:31 final size:31
Alignment explanation
Indices: 37349609--37349676 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
37349599 TTAACAACAT
* * *
37349609 AGTGACTTAAATAAAAACTTTTCAATAGTTT
1 AGTGACTTAAAGAAAAACTTTTCAAAAGTTC
* *
37349640 AGTGACTTAAAGGAATA-TTTTCAAAAAGTTC
1 AGTGACTTAAAGAAAAACTTTTC-AAAAGTTC
37349671 AGTGAC
1 AGTGAC
37349677 CAAATTGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAAGAAAAACTTTTCAAAAGTTC
Found at i:37373457 original size:12 final size:12
Alignment explanation
Indices: 37373440--37373468 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
37373430 ACAATAAAAA
37373440 AATAAAGTAAAT
1 AATAAAGTAAAT
37373452 AATAAAGTAAAT
1 AATAAAGTAAAT
37373464 AATAA
1 AATAA
37373469 TAATGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (12 bp):
AATAAAGTAAAT
Found at i:37373469 original size:15 final size:15
Alignment explanation
Indices: 37373433--37373486 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
37373423 AATATGAACA
37373433 ATAAAAA-AATAAAG
1 ATAAAAATAATAAAG
37373447 -T--AAATAATAAAG
1 ATAAAAATAATAAAG
*
37373459 -TAAATAATAATAATG
1 ATAAA-AATAATAAAG
37373474 ATAAAAATAATAA
1 ATAAAAATAATAA
37373487 TAATGACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 1 0.03
14 1 0.03
15 17 0.50
16 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (15 bp):
ATAAAAATAATAAAG
Found at i:37373490 original size:18 final size:18
Alignment explanation
Indices: 37373460--37373497 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
37373450 ATAATAAAGT
*
37373460 AAATAATAATAATGATAA
1 AAATAATAATAATGACAA
37373478 AAATAATAATAATGACAA
1 AAATAATAATAATGACAA
37373496 AA
1 AA
37373498 TATGCACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAATAATAATGACAA
Found at i:37373674 original size:23 final size:26
Alignment explanation
Indices: 37373646--37373699 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
37373636 GTACATTTTG
37373646 TAATAAAG-TACAT-AAATAA-ATAA
1 TAATAAAGATACATAAAATAATATAA
* *
37373669 TAATAATGATAGATAAAATAATATAA
1 TAATAAAGATACATAAAATAATATAA
37373695 TAATA
1 TAATA
37373700 GTGAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 4 0.15
25 6 0.23
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (26 bp):
TAATAAAGATACATAAAATAATATAA
Found at i:37373843 original size:17 final size:18
Alignment explanation
Indices: 37373823--37373866 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
37373813 ATAATAAAAT
37373823 AAATAAATTAAA-TAATA
1 AAATAAATTAAAGTAATA
* *
37373840 AAATAAAGTAAAGTATTA
1 AAATAAATTAAAGTAATA
37373858 AAATCAAAT
1 AAAT-AAAT
37373867 CTGCAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 8 0.36
19 3 0.14
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
AAATAAATTAAAGTAATA
Found at i:37376003 original size:21 final size:20
Alignment explanation
Indices: 37375967--37376010 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
37375957 TTGATGATTT
*
37375967 TTAAAAAAAATGAATTTTAA
1 TTAAAAAAAATGAATTCTAA
37375987 TTAATAAAGAAAT-AATTCTAA
1 TTAA-AAA-AAATGAATTCTAA
37376008 TTA
1 TTA
37376011 TTCTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 13 0.62
22 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
TTAAAAAAAATGAATTCTAA
Found at i:37378293 original size:18 final size:17
Alignment explanation
Indices: 37378270--37378313 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
37378260 AAATAAAATA
37378270 AATAATAAAGCAAATAAT
1 AATAATAAA-CAAATAAT
*
37378288 AATAATGATACAAATAAT
1 AATAAT-AAACAAATAAT
37378306 AATAATAA
1 AATAATAA
37378314 TGAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAATAAACAAATAAT
Found at i:37386170 original size:42 final size:44
Alignment explanation
Indices: 37386101--37386201 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 44
37386091 GTTAAGATAT
*
37386101 TATTATAGGATA-TATCTTTTAGCAAA-TTGATTCCTAAAAAGA
1 TATTATAGGATATTATCTCTTAGCAAATTTGATTCCTAAAAAGA
* * * *
37386143 TATTATAAGATATTATCTCTTAG-AAATTTTATTCCTAATAGGA
1 TATTATAGGATATTATCTCTTAGCAAATTTGATTCCTAAAAAGA
37386186 TATTATAGGATATTAT
1 TATTATAGGATATTAT
37386202 TATGGGATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 14 0.27
43 37 0.73
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (44 bp):
TATTATAGGATATTATCTCTTAGCAAATTTGATTCCTAAAAAGA
Found at i:37390549 original size:27 final size:27
Alignment explanation
Indices: 37390515--37390665 Score: 212
Period size: 27 Copynumber: 5.6 Consensus size: 27
37390505 TAAATTGTAC
37390515 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
37390542 TGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
37390569 TGCACTAAGTGTGCGAATTGACTAGGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
37390596 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
37390624 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
37390651 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37390666 GACTTAATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 87 0.78
28 24 0.22
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:37390635 original size:82 final size:81
Alignment explanation
Indices: 37390515--37390665 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 81
37390505 TAAATTGTAC
* * *
37390515 AGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGTGTGCGAATTGAATATGTTGCACTAAGTG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGAATATATAGCACTAAGTG
37390580 TGCGAATTGACTAGGT
66 TGCGAATTGACTAGGT
* * * * *
37390596 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAATTGAATATATAGCACTAAGT
37390661 GTGCG
65 GTGCG
37390666 GACTTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
81 16 0.26
82 45 0.74
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGAATATATAGCACTAAGTG
TGCGAATTGACTAGGT
Found at i:37390646 original size:55 final size:54
Alignment explanation
Indices: 37390515--37390665 Score: 221
Period size: 55 Copynumber: 2.8 Consensus size: 54
37390505 TAAATTGTAC
*
37390515 AGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGT
* * * *
37390569 TGCACTAAGTGTGCGAATTGACTAGGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-ATTGAATATGT
* * *
37390624 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
37390666 GACTTAATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 40 0.47
55 46 0.53
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGT
Found at i:37400821 original size:23 final size:25
Alignment explanation
Indices: 37400779--37400824 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
37400769 CTTAGGAAAT
37400779 AAACTATATACATAATAGATTTACA
1 AAACTATATACATAATAGATTTACA
*
37400804 AAAC-ATATATAT-ATAGATTTA
1 AAACTATATACATAATAGATTTA
37400825 GAAGCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 7 0.35
25 4 0.20
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (25 bp):
AAACTATATACATAATAGATTTACA
Found at i:37402351 original size:27 final size:28
Alignment explanation
Indices: 37402298--37402365 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
37402288 TCAATTCAAC
* *
37402298 TTTAATTTTTAAATTAAACAAATAAAAA
1 TTTAATTTTAAAAATAAACAAATAAAAA
37402326 TTTAATTTTAAAAAT-AA-AAATAAAAAA
1 TTTAATTTTAAAAATAAACAAAT-AAAAA
* *
37402353 GTTAAATTTAAAA
1 TTTAATTTTAAAA
37402366 TTTTAAAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.11
27 18 0.51
28 13 0.37
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (28 bp):
TTTAATTTTAAAAATAAACAAATAAAAA
Found at i:37404479 original size:28 final size:28
Alignment explanation
Indices: 37404447--37404571 Score: 110
Period size: 28 Copynumber: 4.5 Consensus size: 28
37404437 ATTAACTGAC
* * *
37404447 CATATTGCAACGGTCAGATCCCAACAGT
1 CATATTGTAACGGCCAGATTCCAACAGT
* *
37404475 CATATTGTAATGGCCAAATTCCAACAG-
1 CATATTGTAACGGCCAGATTCCAACAGT
**
37404502 CTATATTGTAACAACCAGATTCCAACAGT
1 C-ATATTGTAACGGCCAGATTCCAACAGT
** * *
37404531 CATATTGTAA-TACTTAGATTCCAACGGT
1 CATATTGTAACGGC-CAGATTCCAACAGT
*
37404559 TATATTGTAACGG
1 CATATTGTAACGG
37404572 TCATATTTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.04
28 74 0.95
29 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (28 bp):
CATATTGTAACGGCCAGATTCCAACAGT
Found at i:37404552 original size:56 final size:56
Alignment explanation
Indices: 37404461--37404569 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
37404451 TTGCAACGGT
*
37404461 CAGATCCCAACAGTCATATTGTAATGGCCAAATTCCAACAGCTATATTGTAACAAC
1 CAGATCCCAACAGTCATATTGTAATGACCAAATTCCAACAGCTATATTGTAACAAC
* * * * *
37404517 CAGATTCCAACAGTCATATTGTAAT-ACTTAGATTCCAACGGTTATATTGTAAC
1 CAGATCCCAACAGTCATATTGTAATGAC-CAAATTCCAACAGCTATATTGTAAC
37404570 GGTCATATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 45 0.98
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (56 bp):
CAGATCCCAACAGTCATATTGTAATGACCAAATTCCAACAGCTATATTGTAACAAC
Found at i:37405183 original size:90 final size:90
Alignment explanation
Indices: 37405020--37405191 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 90
37405010 AATTGATGAA
* * * * * *
37405020 TTCATCAAGTCCGTCTCAGTGGGACCACCCAAAGCTTAGGATATGAATTCATTAAGAACATTTAG
1 TTCATCAAGTACGTCTCAATAGGACCACCAAAACCTTAGGATATGAAATCATTAAGAACATTTAG
* *
37405085 TGGCTCATCTTATAAATTCAATAGG
66 TAGCTCATCCTATAAATTCAATAGG
* * *
37405110 TTCATCAAGTATGTCTCAATAGGACCACCAAAACCTTAGGCTATGAAATCATTAAGAGC-TTCTA
1 TTCATCAAGTACGTCTCAATAGGACCACCAAAACCTTAGGATATGAAATCATTAAGAACATT-TA
*
37405174 GTAGTTCATCCTATAAAT
65 GTAGCTCATCCTATAAAT
37405192 CTGGTGAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
89 2 0.03
90 67 0.97
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (90 bp):
TTCATCAAGTACGTCTCAATAGGACCACCAAAACCTTAGGATATGAAATCATTAAGAACATTTAG
TAGCTCATCCTATAAATTCAATAGG
Found at i:37405204 original size:90 final size:92
Alignment explanation
Indices: 37405016--37405207 Score: 207
Period size: 90 Copynumber: 2.1 Consensus size: 92
37405006 AAAAAATTGA
* * * * * *
37405016 TGAATTCATCAAGTCCGTCTCAGTGGGACCACCCAAAGCTTAGGATATGAATTCATTAAGAACAT
1 TGAATTCATCAAGTACGTCTCAATAGGACCACCAAAACCTTAGGATATGAAATCATTAAGAACAT
* *
37405081 TTAGTGGCTCATCTTATAAATTCAATAG
66 TTAGTAGCTCATCCTATAAATTC-ATAG
* * *
37405109 -G--TTCATCAAGTATGTCTCAATAGGACCACCAAAACCTTAGGCTATGAAATCATTAAGAGC-T
1 TGAATTCATCAAGTACGTCTCAATAGGACCACCAAAACCTTAGGATATGAAATCATTAAGAACAT
* *
37405170 TCTAGTAGTTCATCCTATAAA-TC-TGG
66 T-TAGTAGCTCATCCTATAAATTCATAG
37405196 TGAATTCATCAA
1 TGAATTCATCAA
37405208 ACCCGTCTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
87 2 0.02
88 1 0.01
89 4 0.05
90 74 0.90
92 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (92 bp):
TGAATTCATCAAGTACGTCTCAATAGGACCACCAAAACCTTAGGATATGAAATCATTAAGAACAT
TTAGTAGCTCATCCTATAAATTCATAG
Found at i:37407705 original size:23 final size:23
Alignment explanation
Indices: 37407677--37407723 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
37407667 TCACGTAGCA
37407677 TAAAATGCAAATTAGTTTAAAAT
1 TAAAATGCAAATTAGTTTAAAAT
37407700 TAAAATGCAAATTAGTTTAAAAT
1 TAAAATGCAAATTAGTTTAAAAT
37407723 T
1 T
37407724 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (23 bp):
TAAAATGCAAATTAGTTTAAAAT
Found at i:37407920 original size:62 final size:62
Alignment explanation
Indices: 37407854--37407978 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
37407844 TATGACATAA
* * * *
37407854 AAATAACATAAACACAATATGAACATCTCAAAATCAATATAAAACAACATAAAAAGGTTTAT
1 AAATAACATAAACACAACATCAACATCTCAAAACCAATATAAAACAACAAAAAAAGGTTTAT
** * * *
37407916 AAATAACATAAACATGACATCAACTTCTCAAAACCTATATAATACAACAAAAAAAGGTTTAT
1 AAATAACATAAACACAACATCAACATCTCAAAACCAATATAAAACAACAAAAAAAGGTTTAT
37407978 A
1 A
37407979 CTGATAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (62 bp):
AAATAACATAAACACAACATCAACATCTCAAAACCAATATAAAACAACAAAAAAAGGTTTAT
Found at i:37409022 original size:105 final size:105
Alignment explanation
Indices: 37408839--37409028 Score: 283
Period size: 105 Copynumber: 1.8 Consensus size: 105
37408829 TATGTTAATG
* * * *
37408839 AGCTATAGAGGCATTAGTGGCGTTTTACTTAAAACGCCACAATATATTAGAATTAACGACGCTTT
1 AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCACAATATATAAGAATTAACGACGCTTC
*
37408904 TTTAGAAACGCCGCAAAAGTCTTGAGAGAAACGACGACGT
66 TATAGAAACGCCGCAAAAGTCTTGAGAGAAACGACGACGT
* * *
37408944 AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCGCAATATATAAGAATTAGCGGCGCTTC
1 AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCACAATATATAAGAATTAACGACGCTTC
*
37409009 TATA-ATAATGCCGCAAAAGT
66 TATAGA-AACGCCGCAAAAGT
37409029 GGTTATAGAG
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
104 1 0.01
105 74 0.99
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (105 bp):
AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCACAATATATAAGAATTAACGACGCTTC
TATAGAAACGCCGCAAAAGTCTTGAGAGAAACGACGACGT
Found at i:37410077 original size:37 final size:37
Alignment explanation
Indices: 37409961--37410064 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
37409951 AAATCTCCTG
* * * *
37409961 TGCATTGCTACCCATCTCCTCCGTCGCCTTCTCCCCA
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCACCCCA
* *
37409998 TGCATCGCAAACCATC-CCTTCCATCGCCTTTACCCCA
1 TGCATCGCAACCCATCTCC-TCCATCGCCTTCACCCCA
37410035 TGCATCGCAACCCATCTCCTCCATCGCCTT
1 TGCATCGCAACCCATCTCCTCCATCGCCTT
37410065 GGCCCCGTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 2 0.03
37 54 0.93
38 2 0.03
ACGTcount: A:0.16, C:0.47, G:0.10, T:0.27
Consensus pattern (37 bp):
TGCATCGCAACCCATCTCCTCCATCGCCTTCACCCCA
Found at i:37412714 original size:6 final size:6
Alignment explanation
Indices: 37412705--37412809 Score: 72
Period size: 6 Copynumber: 16.8 Consensus size: 6
37412695 AATTAAAATG
* *
37412705 AGAATC AGAATC AGAATC AAGTGAT- AGAATC AGAATCC AAAATC AGAATC
1 AGAATC AGAATC AGAATC -AG-AATC AGAATC AGAAT-C AGAATC AGAATC
* * * *
37412755 AGAATT TG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
37412805 AGAAT
1 AGAAT
37412810 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.06
6 57 0.74
7 11 0.14
8 4 0.05
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:37412735 original size:19 final size:19
Alignment explanation
Indices: 37412711--37412780 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
37412701 AATGAGAATC
37412711 AGAATCAGAATCAAGTGAT
1 AGAATCAGAATCAAGTGAT
*
37412730 AGAATCAGAATCCAA--AAT
1 AGAATCAGAAT-CAAGTGAT
*** *
37412748 CAGAATCAGAATTTGGTGAC
1 -AGAATCAGAATCAAGTGAT
37412768 AGAATCAGAATCA
1 AGAATCAGAATCA
37412781 GTATCAGGTA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
19 33 0.85
20 4 0.10
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (19 bp):
AGAATCAGAATCAAGTGAT
Found at i:37412750 original size:38 final size:38
Alignment explanation
Indices: 37412707--37412779 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
37412697 TTAAAATGAG
*
37412707 AATCAGAATCAGAATCAAGTGATAGAATCAGAATCCAA
1 AATCAGAATCAGAATCAAGTGACAGAATCAGAATCCAA
***
37412745 AATCAGAATCAGAATTTGGTGACAGAATCAGAATC
1 AATCAGAATCAGAATCAAGTGACAGAATCAGAATC
37412780 AGTATCAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (38 bp):
AATCAGAATCAGAATCAAGTGACAGAATCAGAATCCAA
Found at i:37412773 original size:25 final size:25
Alignment explanation
Indices: 37412745--37412809 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
37412735 CAGAATCCAA
** *
37412745 AATCAGAATCAGAATTTGGTGACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
37412770 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
37412795 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
37412810 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.22
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:37412966 original size:27 final size:26
Alignment explanation
Indices: 37412928--37413007 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
37412918 GCATGGCTGT
*
37412928 CAGAACAGATATTGTGACAGAGTCAC
1 CAGAACAGATATTGTGACAGAGCCAC
*
37412954 CAGATACAGATATTGTGGCAGAGCCAC
1 CAGA-ACAGATATTGTGACAGAGCCAC
* * *
37412981 CAGAATCAGATAATGTGGCAAAGCCAC
1 CAGAA-CAGATATTGTGACAGAGCCAC
37413008 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CAGAACAGATATTGTGACAGAGCCAC
Found at i:37413108 original size:22 final size:22
Alignment explanation
Indices: 37413074--37413136 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
37413064 CCACAATAAC
37413074 GGCACACAA-CCATAATCAGGTT
1 GGCACA-AAGCCATAATCAGGTT
*
37413096 GGCACAAAGCCATACGT-AGGTT
1 GGCACAAAGCCATA-ATCAGGTT
*
37413118 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
37413137 AATAATTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 3 0.09
22 31 0.89
23 1 0.03
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:37413264 original size:32 final size:32
Alignment explanation
Indices: 37413227--37413292 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
37413217 CCTTGAGTAA
37413227 ATATGATAGACACGAGTCATCAATAATCATAT
1 ATATGATAGACACGAGTCATCAATAATCATAT
*
37413259 ATATGATAGACACGAGTCGTCAATAATCATAT
1 ATATGATAGACACGAGTCATCAATAATCATAT
37413291 AT
1 AT
37413293 TGGCACACAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
ATATGATAGACACGAGTCATCAATAATCATAT
Found at i:37413356 original size:26 final size:27
Alignment explanation
Indices: 37413291--37413357 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
37413281 ATAATCATAT
*
37413291 ATTGGCACACAGCCTTAGGCAAATATG
1 ATTGGCACACAGCCTTAGGCAAACATG
* * *
37413318 TTTGGCACACAGCCTTCGG-TAACATG
1 ATTGGCACACAGCCTTAGGCAAACATG
*
37413344 ATTGGCACTCAGCC
1 ATTGGCACACAGCC
37413358 ATCGATCAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (27 bp):
ATTGGCACACAGCCTTAGGCAAACATG
Found at i:37413713 original size:27 final size:27
Alignment explanation
Indices: 37413681--37413842 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
37413671 GGGGCAAAAT
* * * *
37413681 GGTAATTTTACCCCACAATGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
37413708 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37413735 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37413762 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37413789 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37413816 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37413843 AATAATTTTG
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:37413843 original size:27 final size:27
Alignment explanation
Indices: 37413710--37413849 Score: 208
Period size: 27 Copynumber: 5.2 Consensus size: 27
37413700 GGTATCTCGA
* *
37413710 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * * *
37413737 TATTTTTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
37413764 TAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
37413791 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
37413818 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
37413845 TAATT
1 TAATT
37413850 TTGTAAATCG
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:37413864 original size:27 final size:27
Alignment explanation
Indices: 37413834--37413910 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
37413824 TACCCTACAG
* *
37413834 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCAA
* ** *
37413861 GGGTACTTT-GGTAATTTTACAAGTCAA
1 GGGTA-TTTCAGTAATTTTGTAAATCAA
*
37413888 GGGTATTTCAGTAATTTGGTAAA
1 GGGTATTTCAGTAATTTTGTAAA
37413911 CTAAAATATT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
26 3 0.08
27 31 0.84
28 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCAA
Found at i:37414895 original size:14 final size:14
Alignment explanation
Indices: 37414876--37414904 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37414866 CTATAATAAT
37414876 TATATGAAGTAAAA
1 TATATGAAGTAAAA
37414890 TATATGAAGTAAAA
1 TATATGAAGTAAAA
37414904 T
1 T
37414905 TAAATTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
TATATGAAGTAAAA
Found at i:37416382 original size:15 final size:17
Alignment explanation
Indices: 37416348--37416381 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37416338 AATGTTTCTA
37416348 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
37416365 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
37416382 TTTTTTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTCAAAAGTAATATAT
Found at i:37416435 original size:16 final size:16
Alignment explanation
Indices: 37416414--37416810 Score: 127
Period size: 16 Copynumber: 24.8 Consensus size: 16
37416404 TCACATAATT
*
37416414 TACATAATTTACATAA
1 TACATAACTTACATAA
37416430 TACATAACTTACATAA
1 TACATAACTTACATAA
** *
37416446 TTTA-AAGTT-CA-AA
1 TACATAACTTACATAA
*
37416459 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
*
37416476 TTTACTTAACTTACATAA
1 --TACATAACTTACATAA
37416494 TACATAACTTACATAA
1 TACATAACTTACATAA
*
37416510 TACATGACTTACATAA
1 TACATAACTTACATAA
** **
37416526 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
* *
37416539 TTTCATAACTTACATGA
1 -TACATAACTTACATAA
37416556 TACATAACTTACATAA
1 TACATAACTTACATAA
* **
37416572 T--TTAA-AGACCA-AA
1 TACATAACTTA-CATAA
* *
37416585 TTTCATAAGTTACATAA
1 -TACATAACTTACATAA
37416602 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
*
37416620 TA-ATTTAAAGTT-CA-AA
1 TACA--T-AACTTACATAA
*
37416636 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
* *
37416653 T--TTAA--TCCATCAAA
1 TACATAACTTACAT--AA
* *
37416667 TTTCATAAGTTACATAA
1 -TACATAACTTACATAA
37416684 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
**
37416702 TA-ATTTAA-AGATCA-AA
1 TACA--TAACTTA-CATAA
*
37416718 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
37416735 TACATAACTTACATAA
1 TACATAACTTACATAA
** ** *
37416751 TTTA-AAGAT-CAAAA
1 TACATAACTTACATAA
*
37416765 TTCATAACTTACATAA
1 TACATAACTTACATAA
37416781 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
*
37416799 TACATGACTTAC
1 TACATAACTTAC
37416811 TTAACTTAAT
Statistics
Matches: 284, Mismatches: 55, Indels: 84
0.67 0.13 0.20
Matches are distributed among these distances:
12 4 0.01
13 7 0.02
14 28 0.10
15 26 0.09
16 123 0.43
17 26 0.09
18 66 0.23
19 4 0.01
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:37416511 original size:80 final size:78
Alignment explanation
Indices: 37416414--37416572 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 78
37416404 TCACATAATT
* *
37416414 TACATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATTT
1 TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAA--T
*
37416479 ACTTAACTTACATAA
64 ACATAACTTACATAA
* *
37416494 TACATAACTTACATAATACATGACTTACATAATTTAAAGATCAAATTTCATAACTTACATGATAC
1 TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATAC
37416559 ATAACTTACATAA
66 ATAACTTACATAA
37416572 T
1 T
37416573 TTAAAGACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
78 16 0.22
80 58 0.78
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (78 bp):
TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATAC
ATAACTTACATAA
Found at i:37416559 original size:46 final size:46
Alignment explanation
Indices: 37416496--37416653 Score: 226
Period size: 46 Copynumber: 3.3 Consensus size: 46
37416486 TTACATAATA
*
37416496 CATAACTTACATAATACATGACTTACATAATTTAAAGATCAAATTT
1 CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTT
* *
37416542 CATAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTT
1 CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTT
* *
37416588 CATAAGTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTT
1 CATAACTTACATAA--TACATAACTTAC---ATAATTTAAAGATCAAATTT
37416639 CATAACTTACATAAT
1 CATAACTTACATAAT
37416654 TTAATCCATC
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
46 55 0.56
48 12 0.12
49 1 0.01
51 31 0.31
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (46 bp):
CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTT
Found at i:37416561 original size:126 final size:127
Alignment explanation
Indices: 37416410--37416784 Score: 462
Period size: 126 Copynumber: 2.9 Consensus size: 127
37416400 CAACTCACAT
* *
37416410 AATTTACATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATA
1 AATTT-CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATA
* * *
37416475 ATTTACTTAACTTACATAATACA-T-AACTTACATAA-TACATGACTTACATAATTTAA-AGATC
65 ATTTACATAACTTACATAATA-ATTAAACTT-CA-AATTACATAACTTACATAATTTAATACATC
37416536 A
127 A
* * *
37416537 AATTTCATAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAA
1 AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAA
* * *
37416602 TTTACATAACTTACATAATAATTTAAAGTTCAAATTTCATAACTTACATAATTTAATCCATCA
66 TTTACATAACTTACATAATAA-TTAAACTTCAAATTACATAACTTACATAATTTAATACATCA
*
37416665 AATTTCATAAGTTACATAATTTACATAACTTACATAATAATTTAAAGATCAAATTTCATAACTTA
1 AATTTCATAACTTACATAA--TACATAACTTAC---ATAATTTAAAGATCAAATTTCATAACTTA
**
37416730 CATAA--TACATAACTTACATAAT--TTAAAGATCAAAATT-CATAACTTACATAATTTA
61 CATAATTTACATAACTTACATAATAATTAAACTTC-AAATTACATAACTTACATAATTTA
37416785 CATAACTTAC
Statistics
Matches: 221, Mismatches: 16, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
125 1 0.00
126 76 0.34
127 27 0.12
128 51 0.23
129 5 0.02
130 12 0.05
131 17 0.08
133 32 0.14
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (127 bp):
AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAA
TTTACATAACTTACATAATAATTAAACTTCAAATTACATAACTTACATAATTTAATACATCA
Found at i:37416681 original size:82 final size:81
Alignment explanation
Indices: 37416558--37416735 Score: 311
Period size: 82 Copynumber: 2.2 Consensus size: 81
37416548 TTACATGATA
*
37416558 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAACACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
*
37416623 TTTAAAGTTCAAATTT
66 TTTAAAGATCAAATTT
* *
37416639 CATAACTTACATAATTTAATCCATCAAATTTCATAAGTTACATAATTTACATAACTTACATAATA
1 CATAACTTACATAATTTAA-ACACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATA
37416704 ATTTAAAGATCAAATTT
65 ATTTAAAGATCAAATTT
37416721 CATAACTTACATAAT
1 CATAACTTACATAAT
37416736 ACATAACTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 19 0.21
82 73 0.79
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (81 bp):
CATAACTTACATAATTTAAACACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
TTTAAAGATCAAATTT
Found at i:37416740 original size:179 final size:177
Alignment explanation
Indices: 37416410--37416800 Score: 557
Period size: 179 Copynumber: 2.2 Consensus size: 177
37416400 CAACTCACAT
*
37416410 AATTTACATAATTTACATAA--TACATAACTTAC---ATAATTTAAAGTTCAAATTTCATAACTT
1 AATTT-CATAACTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTTCATAACTT
* * *
37416470 ACATAATTTACTTAACTTACATAATACATAACTTACATAATACATGACTTACATAATTTAAAGAT
65 ACATAATTTACTCAAATTACATAATACATAACTTACATAATACATGACATACATAATTTAAAGAT
*
37416535 CAAATTTCATAACTTACATGATACATAACTTACATAATTTAAAGACCA
130 CAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGACCA
*
37416583 AATTTCATAAGTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTTCATAACTTA
1 AATTTCATAACTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTTCATAACTTA
* * *
37416648 CATAATTTAATCCATCAAATTTCATAAGTTACATAATTTACAT-A-AC-TTACATA-ATAATTTA
66 CATAATTT-A--C-TCAAATTACATAA--TACATAACTTACATAATACATGACATACATAATTTA
*
37416709 AAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
125 AAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGACCA
*
37416762 AAATTCATAACTTACATAATTTACATAACTTACATAATA
1 AATTTCATAACTTACATAATTTACATAACTTACATAATA
37416801 CATGACTTAC
Statistics
Matches: 196, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
172 13 0.07
173 5 0.03
174 12 0.06
177 37 0.19
178 1 0.01
179 96 0.49
180 6 0.03
181 12 0.06
182 1 0.01
183 13 0.07
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (177 bp):
AATTTCATAACTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTTCATAACTTA
CATAATTTACTCAAATTACATAATACATAACTTACATAATACATGACATACATAATTTAAAGATC
AAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGACCA
Found at i:37416763 original size:46 final size:47
Alignment explanation
Indices: 37416634--37416799 Score: 226
Period size: 46 Copynumber: 3.4 Consensus size: 47
37416624 TTAAAGTTCA
* ** *
37416634 AATTTCATAACTTACATAATTTAATCCATCAAATTTCATAAGTTACAT
1 AATTACATAACTTACATAATTTAA-AGATCAAATTTCATAACTTACAT
37416682 AATTTACATAACTTACATAATAATTTAAAGATCAAATTTCATAACTTACAT
1 AA-TTACATAACTTAC---ATAATTTAAAGATCAAATTTCATAACTTACAT
*
37416733 AA-TACATAACTTACATAATTTAAAGATCAAAATTCATAACTTACAT
1 AATTACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACAT
37416779 AATTTACATAACTTACATAAT
1 AA-TTACATAACTTACATAAT
37416800 ACATGACTTA
Statistics
Matches: 107, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
46 33 0.31
48 19 0.18
49 24 0.22
51 22 0.21
52 9 0.08
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (47 bp):
AATTACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACAT
Found at i:37416817 original size:9 final size:9
Alignment explanation
Indices: 37416401--37416818 Score: 123
Period size: 9 Copynumber: 45.7 Consensus size: 9
37416391 GTTCACCAGC
*
37416401 AACTCACAT
1 AACTTACAT
*
37416410 AATTTACAT
1 AACTTACAT
*
37416419 AATTTACAT
1 AACTTACAT
37416428 AA--TACAT
1 AACTTACAT
37416435 AACTTACAT
1 AACTTACAT
* *
37416444 AATTTAAAGTT
1 AACTTACA--T
* *
37416455 CAAATTTCAT
1 -AACTTACAT
37416465 AACTTACAT
1 AACTTACAT
* *
37416474 AATTTACTT
1 AACTTACAT
37416483 AACTTACAT
1 AACTTACAT
37416492 AA--TACAT
1 AACTTACAT
37416499 AACTTACAT
1 AACTTACAT
37416508 AA--TACAT
1 AACTTACAT
*
37416515 GACTTACAT
1 AACTTACAT
* *
37416524 AATTTAAAGAT
1 AACTT--ACAT
* *
37416535 CAAATTTCAT
1 -AACTTACAT
37416545 AACTTACAT
1 AACTTACAT
*
37416554 GA--TACAT
1 AACTTACAT
37416561 AACTTACAT
1 AACTTACAT
* * *
37416570 AATTTAAAGACC
1 AACTT--ACA-T
* *
37416582 AAATTTCAT
1 AACTTACAT
*
37416591 AAGTTACAT
1 AACTTACAT
*
37416600 AATTTACAT
1 AACTTACAT
37416609 AACTTACAT
1 AACTTACAT
* **
37416618 AA-TAATTT
1 AACTTACAT
*
37416626 AAAGTT-CA-
1 -AACTTACAT
*
37416634 AA-TTTCAT
1 AACTTACAT
37416642 AACTTACAT
1 AACTTACAT
*
37416651 AATTTAATCCAT
1 AACTT-A--CAT
* *
37416663 CAAATTTCAT
1 -AACTTACAT
*
37416673 AAGTTACAT
1 AACTTACAT
*
37416682 AATTTACAT
1 AACTTACAT
37416691 AACTTACATAAT
1 AACTTAC---AT
* *
37416703 AATTTAAAGAT
1 AACTT--ACAT
* *
37416714 CAAATTTCAT
1 -AACTTACAT
37416724 AACTTACAT
1 AACTTACAT
37416733 AA--TACAT
1 AACTTACAT
37416740 AACTTACAT
1 AACTTACAT
* *
37416749 AATTTAAAGAT
1 AACTT--ACAT
*
37416760 CAAAATT-CAT
1 --AACTTACAT
37416770 AACTTACAT
1 AACTTACAT
*
37416779 AATTTACAT
1 AACTTACAT
37416788 AACTTACAT
1 AACTTACAT
37416797 AA--TACAT
1 AACTTACAT
* *
37416804 GACTTACTT
1 AACTTACAT
37416813 AACTTA
1 AACTTA
37416819 ATTATACTTA
Statistics
Matches: 302, Mismatches: 66, Indels: 82
0.67 0.15 0.18
Matches are distributed among these distances:
6 2 0.01
7 43 0.14
8 9 0.03
9 189 0.63
10 13 0.04
11 11 0.04
12 26 0.09
13 8 0.03
14 1 0.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:37423224 original size:55 final size:54
Alignment explanation
Indices: 37423129--37423278 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
37423119 CTACTTTGTT
* ** * *
37423129 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
37423183 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
37423238 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
37423279 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:37423241 original size:27 final size:27
Alignment explanation
Indices: 37423101--37423278 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
37423091 TAAATTGTAC
37423101 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
37423128 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
37423154 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
37423182 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
37423210 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
37423237 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
37423264 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37423279 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:37423242 original size:82 final size:81
Alignment explanation
Indices: 37423102--37423257 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
37423092 AAATTGTACA
* * * *
37423102 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
37423167 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
37423183 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
37423246 TGTGCGAGTTGA
63 TGTGCGAATTGA
37423258 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:37425097 original size:13 final size:14
Alignment explanation
Indices: 37425081--37425109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37425071 TTACAAATAT
37425081 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
37425094 TTATAATGGTTTAA
1 TTATAATGGTTTAA
37425108 TT
1 TT
37425110 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:37427219 original size:98 final size:98
Alignment explanation
Indices: 37427100--37427493 Score: 752
Period size: 98 Copynumber: 4.0 Consensus size: 98
37427090 TTTCTATTAT
*
37427100 TATAATTGTGTGTATATATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
1 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
37427165 TTGTGCGAATATATGCTTATAACCATTATTCAA
66 TTGTGCGAATATATGCTTATAACCATTATTCAA
37427198 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
1 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
37427263 TTGTGCGAATATATGCTTATAACCATTATTCAA
66 TTGTGCGAATATATGCTTATAACCATTATTCAA
37427296 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
1 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
37427361 TTGTGCGAATATATGCTTATAACCATTATTCAA
66 TTGTGCGAATATATGCTTATAACCATTATTCAA
37427394 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
1 TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
* * *
37427459 TTGTGTGAATATATGTTTATAATCATTATTCAA
66 TTGTGCGAATATATGCTTATAACCATTATTCAA
37427492 TA
1 TA
37427494 AGATATCTTT
Statistics
Matches: 292, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 292 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (98 bp):
TATAATTGTGTGTATTTATATTATATGCATATCAATGATTTTGAGGACTAATGCATGATTATAGT
TTGTGCGAATATATGCTTATAACCATTATTCAA
Found at i:37429192 original size:13 final size:13
Alignment explanation
Indices: 37429174--37429201 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37429164 TTTGTTCTAT
37429174 ATTCAGCTAATTC
1 ATTCAGCTAATTC
37429187 ATTCAGCTAATTC
1 ATTCAGCTAATTC
37429200 AT
1 AT
37429202 CTTCTATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTCAGCTAATTC
Found at i:37434071 original size:14 final size:14
Alignment explanation
Indices: 37434052--37434082 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
37434042 GAGAGTCAAC
37434052 ACACTATCAATTAG
1 ACACTATCAATTAG
37434066 ACACTATCAATTAG
1 ACACTATCAATTAG
37434080 ACA
1 ACA
37434083 AGCTTTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (14 bp):
ACACTATCAATTAG
Found at i:37439525 original size:24 final size:25
Alignment explanation
Indices: 37439474--37439525 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
37439464 AAAAGGTATC
* * *
37439474 GAGATTTGGTCGAAAAGGTAAACTT
1 GAGATTTAGTCAAAAAGGTAAACGT
37439499 GAGATTTAGTCAAAAAGGTAAA-GT
1 GAGATTTAGTCAAAAAGGTAAACGT
37439523 GAG
1 GAG
37439526 TCCACGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.25
Consensus pattern (25 bp):
GAGATTTAGTCAAAAAGGTAAACGT
Found at i:37449255 original size:23 final size:23
Alignment explanation
Indices: 37449227--37449273 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
37449217 TCACGTAGCA
37449227 TAAAATGCAAATTAGTTTAAAAT
1 TAAAATGCAAATTAGTTTAAAAT
37449250 TAAAATGCAAATTAGTTTAAAAT
1 TAAAATGCAAATTAGTTTAAAAT
37449273 T
1 T
37449274 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (23 bp):
TAAAATGCAAATTAGTTTAAAAT
Found at i:37449470 original size:62 final size:62
Alignment explanation
Indices: 37449404--37449528 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
37449394 TATGACATAA
* * * *
37449404 AAATAACATAAACACAATATGAACATCTCAAAATCAATATAAAACAACATAAAAAGGTTTAT
1 AAATAACATAAACACAACATCAACATCTCAAAACCAATATAAAACAACAAAAAAAGGTTTAT
** * * *
37449466 AAATAACATAAACATGACATCAACTTCTCAAAACCTATATAATACAACAAAAAAAGGTTTAT
1 AAATAACATAAACACAACATCAACATCTCAAAACCAATATAAAACAACAAAAAAAGGTTTAT
37449528 A
1 A
37449529 CTGATAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (62 bp):
AAATAACATAAACACAACATCAACATCTCAAAACCAATATAAAACAACAAAAAAAGGTTTAT
Found at i:37451003 original size:105 final size:105
Alignment explanation
Indices: 37450820--37451009 Score: 283
Period size: 105 Copynumber: 1.8 Consensus size: 105
37450810 TATGTTAATG
* * * *
37450820 AGCTATAGAGGCATTAGTGGCGTTTTACTTAAAACGCCACAATATATTAGAATTAACGACGCTTT
1 AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCACAATATATAAGAATTAACGACGCTTC
*
37450885 TTTAGAAACGCCGCAAAAGTCTTGAGAGAAACGACGACGT
66 TATAGAAACGCCGCAAAAGTCTTGAGAGAAACGACGACGT
* * *
37450925 AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCGCAATATATAAGAATTAGCGGCGCTTC
1 AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCACAATATATAAGAATTAACGACGCTTC
*
37450990 TATA-ATAATGCCGCAAAAGT
66 TATAGA-AACGCCGCAAAAGT
37451010 GGTTATAGAG
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
104 1 0.01
105 74 0.99
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (105 bp):
AGCTATAGAGGCATTAGTGGCATTTTACTAAAAACGCCACAATATATAAGAATTAACGACGCTTC
TATAGAAACGCCGCAAAAGTCTTGAGAGAAACGACGACGT
Found at i:37451831 original size:15 final size:15
Alignment explanation
Indices: 37451800--37451838 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
37451790 TATATATGAT
37451800 TTTGGGG-TTTAAAG
1 TTTGGGGTTTTAAAG
*
37451814 TTTGGGGTTTTAAGG
1 TTTGGGGTTTTAAAG
*
37451829 TTTGGTGTTT
1 TTTGGGGTTT
37451839 GGTGTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (15 bp):
TTTGGGGTTTTAAAG
Found at i:37451933 original size:15 final size:15
Alignment explanation
Indices: 37451915--37451946 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37451905 TTAAATTTAG
37451915 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
37451930 AAGATAAATATATAT
1 AAGATAAATATAAAT
37451945 AA
1 AA
37451947 ATCCGTGTGT
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:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:37455812 original size:11 final size:11
Alignment explanation
Indices: 37455798--37455830 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
37455788 TAAAAATTCA
37455798 AAAAAATTATT
1 AAAAAATTATT
37455809 AAAAAATTA-T
1 AAAAAATTATT
37455819 AAAAATATTATT
1 AAAAA-ATTATT
37455831 TTTAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 13 0.65
12 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAAATTATT
Found at i:37456302 original size:12 final size:12
Alignment explanation
Indices: 37456287--37456325 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
37456277 GTTCAATTAT
37456287 ATGTTCATGAAC
1 ATGTTCATGAAC
**
37456299 ATGTTCATTTA-
1 ATGTTCATGAAC
37456310 ATGTTCATGAAC
1 ATGTTCATGAAC
37456322 ATGT
1 ATGT
37456326 CCAATTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (12 bp):
ATGTTCATGAAC
Found at i:37456317 original size:23 final size:24
Alignment explanation
Indices: 37456270--37456350 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 24
37456260 ATTAACATTG
*
37456270 TGAATATGTTCAATTATATGTTCA
1 TGAACATGTTCAATTATATGTTCA
*
37456294 TGAACATGTTCATTTA-ATGTTCA
1 TGAACATGTTCAATTATATGTTCA
* * **
37456317 TGAACATGTCCAATTAAAT-TAAA
1 TGAACATGTTCAATTATATGTTCA
37456340 TGAACATGTTC
1 TGAACATGTTC
37456351 GTGAACATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.67
24 16 0.33
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (24 bp):
TGAACATGTTCAATTATATGTTCA
Found at i:37456892 original size:12 final size:12
Alignment explanation
Indices: 37456875--37456936 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
37456865 AACTCTGTAA
37456875 CTAGTTTAAATT
1 CTAGTTTAAATT
37456887 CTAGTTTAAATT
1 CTAGTTTAAATT
*
37456899 -TAATTTTTAAATT
1 CT-A-GTTTAAATT
* *
37456912 TTAAATTTAAATT
1 CT-AGTTTAAATT
37456925 CTAGTTTAAATT
1 CTAGTTTAAATT
37456937 TGATTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
11 1 0.02
12 22 0.51
13 17 0.40
14 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (12 bp):
CTAGTTTAAATT
Found at i:37456909 original size:13 final size:12
Alignment explanation
Indices: 37456891--37456950 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
37456881 TAAATTCTAG
37456891 TTTAAATTTAATT
1 TTTAAATTTAA-T
*
37456904 TTTAAATTTTAAA
1 TTTAAA-TTTAAT
*
37456917 TTTAAATTCT-AG
1 TTTAAATT-TAAT
*
37456929 TTTAAATTTGATT
1 TTTAAATTT-AAT
37456942 TTTAAATTT
1 TTTAAATTT
37456951 TGAATTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 11 0.28
13 22 0.56
14 5 0.13
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (12 bp):
TTTAAATTTAAT
Found at i:37456922 original size:38 final size:38
Alignment explanation
Indices: 37456879--37456956 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
37456869 CTGTAACTAG
37456879 TTTAAATTCTAGTTTAAATTTAATTTTTAAATTTTAAA
1 TTTAAATTCTAGTTTAAATTTAATTTTTAAATTTTAAA
* *
37456917 TTTAAATTCTAGTTTAAATTTGATTTTTAAATTTTGAA
1 TTTAAATTCTAGTTTAAATTTAATTTTTAAATTTTAAA
37456955 TT
1 TT
37456957 ATTTAGTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (38 bp):
TTTAAATTCTAGTTTAAATTTAATTTTTAAATTTTAAA
Found at i:37467571 original size:50 final size:50
Alignment explanation
Indices: 37467496--37467598 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
37467486 GTTGTTATCA
* *
37467496 TTTGAATTTCAAAATACACCGTACTCGTTTGAATATCTATGGATATTTTC
1 TTTGAATTGCAAAATACACCGTACTCATTTGAATATCTATGGATATTTTC
37467546 TTTGAATTGCAAAATACACCGTACTCATTTGAATATCTATGGATATTTTC
1 TTTGAATTGCAAAATACACCGTACTCATTTGAATATCTATGGATATTTTC
37467596 TTT
1 TTT
37467599 TTTCTTTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.43
Consensus pattern (50 bp):
TTTGAATTGCAAAATACACCGTACTCATTTGAATATCTATGGATATTTTC
Found at i:37478696 original size:3 final size:3
Alignment explanation
Indices: 37478688--37478713 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37478678 ATAACGTGTT
37478688 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
37478714 GCAAATGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37481484 original size:26 final size:26
Alignment explanation
Indices: 37481453--37481534 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
37481443 TGAAATGCCC
37481453 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
37481479 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
37481505 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
37481531 ATCA
1 ATCA
37481535 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 3 0.06
26 50 0.94
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:37487292 original size:26 final size:26
Alignment explanation
Indices: 37487256--37487365 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
37487246 CATGAAATTC
37487256 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
37487282 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
37487308 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
37487334 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
37487360 TTATCA
1 TTATCA
37487366 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:37489609 original size:20 final size:20
Alignment explanation
Indices: 37489584--37489623 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37489574 TCCATCATGA
37489584 TAAAGATAAAGTTTTAATGT
1 TAAAGATAAAGTTTTAATGT
37489604 TAAAGATAAAGTTTTAATGT
1 TAAAGATAAAGTTTTAATGT
37489624 ACTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (20 bp):
TAAAGATAAAGTTTTAATGT
Found at i:37490340 original size:275 final size:276
Alignment explanation
Indices: 37489843--37490398 Score: 972
Period size: 275 Copynumber: 2.0 Consensus size: 276
37489833 TCTAAACCCA
* * * *
37489843 CCTCATTCTTATTTTTCATTTGATACCTACCAAAAAATTTTGAAACCCATACCTTAATTGCTTTC
1 CCTCTTTCTTATTTTTCATTTGATACCCACCAAAAAAATTTGAAACCCATACCTCAATTGCTTTC
*
37489908 TATCATTTTTCTAATCCCCCATTGAATTACTTTCATTATTTTTCTAACCTAGCATTCAAATTGGT
66 TATCATTTTTCTAATCCCCCATTGAATTACTTTCATTATTTTTCTAACCTAGCATTCAAATTGAT
* *
37489973 TGCTTGGCTACCCAAAATTGATAAAAAAAGAGGGGTTCAAACTTGTGCAGCAATTTACTTAAAAT
131 TGCTTGGCTACCCAAAATTGATAAAAAAAGAGGGGTTCAAACTTGTACAGCAATTTACTTAAAAC
37490038 TCTTGGGAGGAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAAA
196 TCTTGGGAGGAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAAA
37490103 TTATTTTATGTTATTT
261 TTATTTTATGTTATTT
*
37490119 CCTCTTTCTTATTTTTCATTTGATACCCACCAAAAAAATTTGAAACCCATACCTCAATTGCTTTT
1 CCTCTTTCTTATTTTTCATTTGATACCCACCAAAAAAATTTGAAACCCATACCTCAATTGCTTTC
* *
37490184 TATCCA-TTTT-TAATCTCCCGTTGAATTACTTTCATTATTTTTCTAACCTAGCATTCAAATTGA
66 TAT-CATTTTTCTAATCCCCCATTGAATTACTTTCATTATTTTTCTAACCTAGCATTCAAATTGA
* *
37490247 TTGCTTGGCTACCCAAAATTGATGAAAAAAGAGGGGTTCAAACTTGTACAGCAATTTGCTTAAAA
130 TTGCTTGGCTACCCAAAATTGATAAAAAAAGAGGGGTTCAAACTTGTACAGCAATTTACTTAAAA
*
37490312 CTCTTGGGAGGAATCGAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAA
195 CTCTTGGGAGGAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAA
37490377 ATTATTTTATGTTATTT
260 ATTATTTTATGTTATTT
37490394 CCTCT
1 CCTCT
37490399 CTTTTTTTCT
Statistics
Matches: 266, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
275 197 0.74
276 67 0.25
277 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (276 bp):
CCTCTTTCTTATTTTTCATTTGATACCCACCAAAAAAATTTGAAACCCATACCTCAATTGCTTTC
TATCATTTTTCTAATCCCCCATTGAATTACTTTCATTATTTTTCTAACCTAGCATTCAAATTGAT
TGCTTGGCTACCCAAAATTGATAAAAAAAGAGGGGTTCAAACTTGTACAGCAATTTACTTAAAAC
TCTTGGGAGGAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAAA
TTATTTTATGTTATTT
Found at i:37492284 original size:43 final size:42
Alignment explanation
Indices: 37492138--37492293 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
37492128 AGTGATATCG
* * * *
37492138 TGTAAGACCATGTTTGGGATGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCATGTATGGGACGTTGGCATCGAATT-TGA-TTACA
* * * *
37492182 TGTAAGACACA--TCTGGGATGTTGGCATCGTATTTGATTTCA
1 TGTAAGAC-CATGTATGGGACGTTGGCATCGAATTTGATTACA
* *
37492223 TGTAAGACCCTGTTTGGGACAG-TGGCATCGAAATTTGATTACA
1 TGTAAGACCATGTATGGGAC-GTTGGCATCG-AATTTGATTACA
*
37492266 TGTAAGACTATGTATGGGACGTTGGCAT
1 TGTAAGACCATGTATGGGACGTTGGCAT
37492294 TGCATGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
41 11 0.12
42 18 0.19
43 53 0.57
44 8 0.09
45 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTATGGGACGTTGGCATCGAATTTGATTACA
Found at i:37492284 original size:85 final size:85
Alignment explanation
Indices: 37492138--37492293 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 85
37492128 AGTGATATCG
* * * * *
37492138 TGTAAGACCATGTTTGGGATGTTGGCATCGACTTATGATTTACGTGTAAGACACATCTGGGATGT
1 TGTAAGACCATGTTTGGGAAGTTGGCATCGAATTATGATTTACATGTAAGACACATATGGGACGT
37492203 TGGCATCGTATTTGATTTCA
66 TGGCATCGTATTTGATTTCA
* **
37492223 TGTAAGACCCTGTTTGGGACAG-TGGCATCGAAATT-TGA-TTACATGTAAGACTATGTATGGGA
1 TGTAAGACCATGTTTGGGA-AGTTGGCATCG-AATTATGATTTACATGTAAGAC-ACATATGGGA
37492285 CGTTGGCAT
63 CGTTGGCAT
37492294 TGCATGAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 12 0.20
85 44 0.73
86 4 0.07
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (85 bp):
TGTAAGACCATGTTTGGGAAGTTGGCATCGAATTATGATTTACATGTAAGACACATATGGGACGT
TGGCATCGTATTTGATTTCA
Found at i:37496666 original size:42 final size:42
Alignment explanation
Indices: 37496607--37496689 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
37496597 AAAGCCGGTA
37496607 GGATATAAATGGGTATTTGTGTAAAAACGAAATGAAAAAAAT
1 GGATATAAATGGGTATTTGTGTAAAAACGAAATGAAAAAAAT
*
37496649 GGATATAAATGGGTATTTGTGTAAAAATGAAATGAAAAAAA
1 GGATATAAATGGGTATTTGTGTAAAAACGAAATGAAAAAAA
37496690 ATGAAGTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.51, C:0.01, G:0.22, T:0.27
Consensus pattern (42 bp):
GGATATAAATGGGTATTTGTGTAAAAACGAAATGAAAAAAAT
Found at i:37499493 original size:5 final size:5
Alignment explanation
Indices: 37499483--37499508 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37499473 AGAAAATCAA
37499483 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
37499509 TAAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:37504648 original size:22 final size:23
Alignment explanation
Indices: 37504592--37504649 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
37504582 ATTTCAATAC
37504592 AGTTTCAG-AA-ATACTATCTAT
1 AGTTTCAGAAATATACTATCTAT
37504613 AGTGTTTTCA-AAATATACTATCTA-
1 A--G-TTTCAGAAATATACTATCTAT
37504637 AGTTTCAGAAATA
1 AGTTTCAGAAATA
37504650 ATTATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 6 0.19
22 6 0.19
23 1 0.03
24 8 0.26
25 10 0.32
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (23 bp):
AGTTTCAGAAATATACTATCTAT
Found at i:37506256 original size:12 final size:12
Alignment explanation
Indices: 37506239--37506264 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37506229 TCGTGTGCGA
37506239 GTAGTCACCCGT
1 GTAGTCACCCGT
37506251 GTAGTCACCCGT
1 GTAGTCACCCGT
37506263 GT
1 GT
37506265 GGTAGGTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (12 bp):
GTAGTCACCCGT
Found at i:37507328 original size:22 final size:23
Alignment explanation
Indices: 37507272--37507329 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
37507262 ATTTCAATAC
37507272 AGTTTCAG-AA-ATACTATCTAT
1 AGTTTCAGAAATATACTATCTAT
37507293 AGTGTTTTCA-AAATATACTATCTA-
1 A--G-TTTCAGAAATATACTATCTAT
37507317 AGTTTCAGAAATA
1 AGTTTCAGAAATA
37507330 ATTATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 6 0.19
22 6 0.19
23 1 0.03
24 8 0.26
25 10 0.32
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (23 bp):
AGTTTCAGAAATATACTATCTAT
Found at i:37508879 original size:22 final size:23
Alignment explanation
Indices: 37508823--37508880 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
37508813 ATTTCAATAC
37508823 AGTTTCAG-AA-ATACTATCTAT
1 AGTTTCAGAAATATACTATCTAT
37508844 AGTGTTTTCA-AAATATACTATCTA-
1 A--G-TTTCAGAAATATACTATCTAT
37508868 AGTTTCAGAAATA
1 AGTTTCAGAAATA
37508881 ATTATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 6 0.19
22 6 0.19
23 1 0.03
24 8 0.26
25 10 0.32
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (23 bp):
AGTTTCAGAAATATACTATCTAT
Found at i:37511117 original size:26 final size:26
Alignment explanation
Indices: 37511079--37511135 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
37511069 GGGTTAGGAT
*
37511079 TTTGTATATCTGAATCT-GATTCTGTAA
1 TTTGTATACCTGAATCTGGA-TCTGT-A
37511106 TTTG-ATACCTGAATCTGGATCTGTA
1 TTTGTATACCTGAATCTGGATCTGTA
37511131 TTTGT
1 TTTGT
37511136 TTCTGTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.19
26 16 0.59
27 6 0.22
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (26 bp):
TTTGTATACCTGAATCTGGATCTGTA
Found at i:37515328 original size:25 final size:25
Alignment explanation
Indices: 37515284--37515336 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
37515274 TATTTTCTTG
*
37515284 AAATTTTAGTAAGGGCAAAATTATC
1 AAATTTTACTAAGGGCAAAATTATC
* * *
37515309 AAATTTTACTATGGGTAAAATTGTC
1 AAATTTTACTAAGGGCAAAATTATC
37515334 AAA
1 AAA
37515337 AATCTTACCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (25 bp):
AAATTTTACTAAGGGCAAAATTATC
Found at i:37528318 original size:6 final size:6
Alignment explanation
Indices: 37528307--37528341 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37528297 AGGTTTCCAA
* *
37528307 AAATGG AAATGG AAATGT AAATGA AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
37528342 ACCCATTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:37528334 original size:18 final size:18
Alignment explanation
Indices: 37528307--37528341 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37528297 AGGTTTCCAA
*
37528307 AAATGGAAATGGAAATGT
1 AAATGAAAATGGAAATGT
37528325 AAATGAAAATGGAAATG
1 AAATGAAAATGGAAATG
37528342 ACCCATTAGC
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:0.00, G:0.26, T:0.20
Consensus pattern (18 bp):
AAATGAAAATGGAAATGT
Found at i:37528535 original size:26 final size:26
Alignment explanation
Indices: 37528490--37528546 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
37528480 TGTTTTCTAG
*
37528490 AAATTTTACAATGGGCAAAATCGTCA
1 AAATTTTACAAGGGGCAAAATCGTCA
* * *
37528516 AAATTTTACTAGGGGTAAAATCTTCA
1 AAATTTTACAAGGGGCAAAATCGTCA
37528542 AAATT
1 AAATT
37528547 ATGTTAAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (26 bp):
AAATTTTACAAGGGGCAAAATCGTCA
Found at i:37531035 original size:29 final size:29
Alignment explanation
Indices: 37531003--37531100 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
37530993 TATTTCTTAG
37531003 ATTTTATAATTTTACCCCTATTTTTCTAA
1 ATTTTATAATTTTACCCCTATTTTTCTAA
* * * * **
37531032 ATTTTACAATTTTTCCCATATTTTTTTTG
1 ATTTTATAATTTTACCCCTATTTTTCTAA
*
37531061 ATTTTATAGTTTTACCCCTA-TTTTC-AA
1 ATTTTATAATTTTACCCCTATTTTTCTAA
37531088 ATTTTATAATTTT
1 ATTTTATAATTTT
37531101 GCGTCTATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 12 0.22
28 4 0.07
29 39 0.71
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTTATAATTTTACCCCTATTTTTCTAA
Found at i:37531134 original size:23 final size:23
Alignment explanation
Indices: 37531108--37531151 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37531098 TTTGCGTCTA
37531108 TTTTTCAGATTTGACAATTTTTC
1 TTTTTCAGATTTGACAATTTTTC
* * *
37531131 TTTTTTAGATTTTACAGTTTT
1 TTTTTCAGATTTGACAATTTT
37531152 ACCCTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTTTCAGATTTGACAATTTTTC
Found at i:37531301 original size:28 final size:27
Alignment explanation
Indices: 37530993--37531347 Score: 138
Period size: 28 Copynumber: 12.9 Consensus size: 27
37530983 ATGTGTCCCT
* * *
37530993 TATTTCTTAGATTTTATAATTTTACCCC
1 TATTTTTTAGATTTTATAGTTTT-GCCC
* * * *
37531021 TATTTTTCTAAATTTTACAATTTTTCCC
1 TATTTTT-TAGATTTTATAGTTTTGCCC
* *
37531049 ATATTTTTTTTGATTTTATAGTTTTACCCC
1 -TA-TTTTTTAGATTTTATAGTTTT-GCCC
* * * *
37531079 TA-TTTTCAAATTTTATAATTTTGCGTC
1 TATTTTTTAGATTTTATAGTTTTGC-CC
* * * *
37531106 TATTTTTCAGATTTGACAATTTT----
1 TATTTTTTAGATTTTATAGTTTTGCCC
* * *
37531129 TCTTTTTTAGATTTTACAGTTTTACCC
1 TATTTTTTAGATTTTATAGTTTTGCCC
* * *
37531156 T-TTATTTTCAAATTTTAGAATTTTGCCCC
1 TATT-TTTT-AGATTTTATAGTTTTG-CCC
* **
37531185 TATTTTTTTGATTTTATAGTTTTGCTAT
1 TATTTTTTAGATTTTATAGTTTTGC-CC
* *
37531213 TATTTTTTCAAAATTTT-CA-TTTT-CCTTC
1 TATTTTTT--AGATTTTATAGTTTTGCC--C
* * * *
37531241 TATTTTTTAGATTTGACAATTGT-CCC
1 TATTTTTTAGATTTTATAGTTTTGCCC
*
37531267 TGTTTTTTAGATTTTATAGTTTTGCCC
1 TATTTTTTAGATTTTATAGTTTTGCCC
*
37531294 TCATTTTTTTTA-ATTTTTATGGTTTTGCCC
1 T-A--TTTTTTAGA-TTTTATAGTTTTGCCC
* *
37531324 ATATTTTTCATATTTTATAGTTTT
1 -TATTTTTTAGATTTTATAGTTTT
37531348 TCCCCTGCTT
Statistics
Matches: 250, Mismatches: 49, Indels: 56
0.70 0.14 0.16
Matches are distributed among these distances:
23 19 0.08
26 27 0.11
27 32 0.13
28 92 0.37
29 41 0.16
30 38 0.15
31 1 0.00
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TATTTTTTAGATTTTATAGTTTTGCCC
Found at i:37533338 original size:38 final size:38
Alignment explanation
Indices: 37533255--37533345 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
37533245 ATAGTACAAA
* * * *
37533255 AACAGTAGATATGCTTGACATGTATTTAGTTTAACAGT
1 AACAATAGATATGCTTAACATATATTTAGTTCAACAGT
*
37533293 AATAATAGATATGCTTAACATATATTTAGTTCAACAGT
1 AACAATAGATATGCTTAACATATATTTAGTTCAACAGT
** *
37533331 TGCAATAGACATGCT
1 AACAATAGATATGCT
37533346 CCATATGCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (38 bp):
AACAATAGATATGCTTAACATATATTTAGTTCAACAGT
Done.