Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 280 of 333
Found at i:92711370 original size:24 final size:26
Alignment explanation
Indices: 92711293--92711385 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 26
92711283 CTTTACCAAA
*
92711293 GTATGT-TATGTATATTACTATTATGTAT
1 GTATGTCTATGTATGTTAC-A--ATGTAT
* *
92711321 GTATG-CTATGTATATTACTATG-AT
1 GTATGTCTATGTATGTTACAATGTAT
92711345 GTATGTCTAT-TATGTTA-AATGTAT
1 GTATGTCTATGTATGTTACAATGTAT
*
92711369 GTATAT-TATGTATGTTA
1 GTATGTCTATGTATGTTA
92711386 TGTATATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
23 6 0.11
24 27 0.47
25 7 0.12
28 17 0.30
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (26 bp):
GTATGTCTATGTATGTTACAATGTAT
Found at i:92711378 original size:9 final size:9
Alignment explanation
Indices: 92711293--92711395 Score: 66
Period size: 9 Copynumber: 11.0 Consensus size: 9
92711283 CTTTACCAAA
*
92711293 GTATGTTAT
1 GTATATTAT
92711302 GTATATTA-
1 GTATATTAT
*
92711310 CTATTATGTAT
1 GTA-TAT-TAT
**
92711321 GTATGCTAT
1 GTATATTAT
92711330 GTATATTA-
1 GTATATTAT
*
92711338 CTATGATGTAT
1 GTAT-AT-TAT
*
92711349 GTCTATTAT
1 GTATATTAT
*
92711358 GTTAAATGTAT
1 G-TATAT-TAT
92711369 GTATATTAT
1 GTATATTAT
*
92711378 GTATGTTAT
1 GTATATTAT
92711387 GTATATTAT
1 GTATATTAT
92711396 TGTTATGTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
8 5 0.07
9 44 0.62
10 14 0.20
11 8 0.11
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (9 bp):
GTATATTAT
Found at i:92714212 original size:29 final size:29
Alignment explanation
Indices: 92714171--92714270 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
92714161 GCAATATTAC
* *
92714171 TGTTT-ATGTATGTACATTATATATGTTA
1 TGTTTAATGTATGTATATTATGTATGTTA
*
92714199 TGTTTAACGTATGTATATTATGTATGTTA
1 TGTTTAATGTATGTATATTATGTATGTTA
*
92714228 TGTTTAATGTATGTATACTATGTATGTTA
1 TGTTTAATGTATGTATATTATGTATGTTA
*
92714257 TATTTAATGTATGT
1 TGTTTAATGTATGT
92714271 TATGTTTAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 5 0.08
29 60 0.92
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (29 bp):
TGTTTAATGTATGTATATTATGTATGTTA
Found at i:92714239 original size:16 final size:16
Alignment explanation
Indices: 92714192--92714278 Score: 87
Period size: 16 Copynumber: 5.8 Consensus size: 16
92714182 GTACATTATA
*
92714192 TATGTTATGTTTAACG
1 TATGTTATGTTTAATG
*
92714208 TATG-TAT-ATT-ATG
1 TATGTTATGTTTAATG
92714221 TATGTTATGTTTAATG
1 TATGTTATGTTTAATG
**
92714237 TATG-TAT-ACT-ATG
1 TATGTTATGTTTAATG
*
92714250 TATGTTATATTTAATG
1 TATGTTATGTTTAATG
92714266 TATGTTATGTTTA
1 TATGTTATGTTTA
92714279 GCACTGTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
13 13 0.23
14 9 0.16
15 9 0.16
16 26 0.46
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (16 bp):
TATGTTATGTTTAATG
Found at i:92724639 original size:67 final size:67
Alignment explanation
Indices: 92724464--92724639 Score: 271
Period size: 67 Copynumber: 2.6 Consensus size: 67
92724454 GAGCAGATAT
* * * * *
92724464 ATATATGTGGCGAAGCCACCAGATTACAGCGAGGCTGCAAGATATTGTGATGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAACAGAAC
92724529 AG
66 AG
* *
92724531 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTACCAGATATTGTGGCGAAGTCAACAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAACAGAAC
92724596 AG
66 AG
* *
92724598 TTATATGTGGCGAGGCCACCAGATTGCAGCGTGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
92724640 ACACTTCCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 99 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAACAGAAC
AG
Found at i:92732065 original size:27 final size:26
Alignment explanation
Indices: 92732017--92732068 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
92732007 GCGAGGCTGC
*
92732017 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
92732043 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
92732069 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:92732087 original size:67 final size:67
Alignment explanation
Indices: 92731979--92732151 Score: 319
Period size: 67 Copynumber: 2.6 Consensus size: 67
92731969 ACAGATATAT
* *
92731979 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAAC
92732044 AG
66 AG
*
92732046 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAATTCACCAAAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAAC
92732111 AG
66 AG
92732113 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCC
92732152 GGAACGCTTC
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 103 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAAC
AG
Found at i:92738006 original size:5 final size:5
Alignment explanation
Indices: 92737996--92738068 Score: 65
Period size: 5 Copynumber: 14.0 Consensus size: 5
92737986 AGGTGATCAT
* * * *
92737996 GGGCC GGGCC GGGTC GGGTTC GGGCC GGGCC GGGTC GGGTTC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC
* *
92738048 GGGTC GGGTTC GGGCC GGGCC
1 GGGCC GGG-CC GGGCC GGGCC
92738069 CATACAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
5 44 0.75
6 15 0.25
ACGTcount: A:0.00, C:0.30, G:0.58, T:0.12
Consensus pattern (5 bp):
GGGCC
Found at i:92738021 original size:16 final size:15
Alignment explanation
Indices: 92738000--92738066 Score: 61
Period size: 16 Copynumber: 4.6 Consensus size: 15
92737990 GATCATGGGC
92738000 CGGGCCGGGTCGGGTT
1 CGGGCCGGGTCGGG-T
*
92738016 CGGGCCGGGCCGGGT
1 CGGGCCGGGTCGGGT
* *
92738031 C--G--GGTTCGGGC
1 CGGGCCGGGTCGGGT
92738042 CGGGCCGGGTCGGGTT
1 CGGGCCGGGTCGGG-T
92738058 CGGGCCGGG
1 CGGGCCGGG
92738067 CCCATACAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 7 0.17
13 2 0.05
15 9 0.22
16 22 0.55
ACGTcount: A:0.00, C:0.28, G:0.58, T:0.13
Consensus pattern (15 bp):
CGGGCCGGGTCGGGT
Found at i:92738022 original size:21 final size:21
Alignment explanation
Indices: 92737996--92738068 Score: 146
Period size: 21 Copynumber: 3.5 Consensus size: 21
92737986 AGGTGATCAT
92737996 GGGCCGGGCCGGGTCGGGTTC
1 GGGCCGGGCCGGGTCGGGTTC
92738017 GGGCCGGGCCGGGTCGGGTTC
1 GGGCCGGGCCGGGTCGGGTTC
92738038 GGGCCGGGCCGGGTCGGGTTC
1 GGGCCGGGCCGGGTCGGGTTC
92738059 GGGCCGGGCC
1 GGGCCGGGCC
92738069 CATACAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.00, C:0.30, G:0.58, T:0.12
Consensus pattern (21 bp):
GGGCCGGGCCGGGTCGGGTTC
Found at i:92738252 original size:26 final size:24
Alignment explanation
Indices: 92738222--92738271 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
92738212 AAATAAAAAA
*
92738222 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
92738248 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
92738272 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:92738377 original size:15 final size:16
Alignment explanation
Indices: 92738347--92738379 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
92738337 AAATGGTTAT
92738347 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
92738364 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
92738379 A
1 A
92738380 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:92764104 original size:39 final size:39
Alignment explanation
Indices: 92764050--92764138 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
92764040 GCTCTAATGA
* *
92764050 GCTTCAATTAGCCTTCGGTCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
92764089 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
92764128 GCTTCAGTTAG
1 GCTTCAGTTAG
92764139 ATTTCGGGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:92764132 original size:21 final size:21
Alignment explanation
Indices: 92764069--92764132 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
92764059 AGCCTTCGGT
*
92764069 CTTCCGTTTAGCACTTATGTG
1 CTTCCGTTTAGCACTTTTGTG
* * *
92764090 CTTCAG-TTAGC-C-TTCGGG
1 CTTCCGTTTAGCACTTTTGTG
92764108 CTTCCGTTTAGCACTTTTGTG
1 CTTCCGTTTAGCACTTTTGTG
92764129 CTTC
1 CTTC
92764133 AGTTAGATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.42
Consensus pattern (21 bp):
CTTCCGTTTAGCACTTTTGTG
Found at i:92772311 original size:40 final size:40
Alignment explanation
Indices: 92772074--92772297 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
92772064 TGAATGATGT
* * * *
92772074 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
92772114 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
92772154 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
92772192 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
92772233 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
92772273 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
92772298 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:92772319 original size:119 final size:119
Alignment explanation
Indices: 92772073--92772330 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
92772063 TTGAATGATG
* *
92772073 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
92772138 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
92772192 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
92772255 TTGTGCGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
92772312 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
92772331 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 31 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:92775336 original size:21 final size:20
Alignment explanation
Indices: 92775311--92775375 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
92775301 TAGCCTTCGG
92775311 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
* * *
92775332 GCTTCAG-TTAGC-CTTCGA
1 GCTTCCGTTTAGCACTTTGT
92775350 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCAC-TTTGT
92775371 GCTTC
1 GCTTC
92775376 AGCTAGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 6 0.17
21 14 0.40
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:92775339 original size:39 final size:39
Alignment explanation
Indices: 92775293--92775377 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
92775283 GCTCTGATGA
*
92775293 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
*
92775332 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
92775371 GCTTCAG
1 GCTTCAG
92775378 CTAGATTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
Found at i:92779744 original size:4 final size:4
Alignment explanation
Indices: 92779729--92779770 Score: 66
Period size: 4 Copynumber: 10.2 Consensus size: 4
92779719 GATTTTCCAT
*
92779729 TTTC TCTC TTTC TTTC TTTC TTTC TTTC TTTCC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC T
92779771 CCCATGTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:92780461 original size:32 final size:32
Alignment explanation
Indices: 92780420--92780484 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
92780410 TGAATTAGAA
92780420 GAAAATTTTACGACTTTAAAAATAATTTAATT
1 GAAAATTTTACGACTTTAAAAATAATTTAATT
* *
92780452 GAAAATTTTATGACTTTAGAAATAATTTAATT
1 GAAAATTTTACGACTTTAAAAATAATTTAATT
92780484 G
1 G
92780485 GGTCAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (32 bp):
GAAAATTTTACGACTTTAAAAATAATTTAATT
Found at i:92784018 original size:37 final size:37
Alignment explanation
Indices: 92783959--92784097 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
92783949 AGCTCAGACG
* *
92783959 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
92783996 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
92784033 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
92784070 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
92784098 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:92784294 original size:25 final size:25
Alignment explanation
Indices: 92784266--92784344 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
92784256 ACTCGGCCCT
92784266 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
92784291 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
92784313 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
92784338 ATCACAT
1 ATCACAT
92784345 CGGCTATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:92784437 original size:49 final size:47
Alignment explanation
Indices: 92784216--92784629 Score: 634
Period size: 47 Copynumber: 8.7 Consensus size: 47
92784206 CCCTTCGGGA
* * * * * *
92784216 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
92784263 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92784310 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92784357 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92784404 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92784453 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92784500 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92784548 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
92784595 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
92784630 AGAATCCTAA
Statistics
Matches: 344, Mismatches: 17, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 37 0.11
47 216 0.63
48 10 0.03
49 81 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92784463 original size:96 final size:96
Alignment explanation
Indices: 92784216--92784608 Score: 643
Period size: 96 Copynumber: 4.1 Consensus size: 96
92784206 CCCTTCGGGA
* * * * * *
92784216 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
92784279 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
92784310 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
92784373 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
92784404 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
92784469 ACTTTCACATTCATCACATCGGCCGTTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
92784500 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
92784564 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
92784595 CTTATCTCATATAT
1 CTTATCACATATAT
92784609 GCATGTTCAC
Statistics
Matches: 280, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
93 1 0.00
94 89 0.32
95 61 0.22
96 129 0.46
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92787870 original size:25 final size:25
Alignment explanation
Indices: 92787833--92787882 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
92787823 AAGGAATTCG
*
92787833 CACACACACAGTGCCTCTAATCATT
1 CACACACACAGTGCCCCTAATCATT
* * *
92787858 CACATACATAGTGCCCCTATTCATT
1 CACACACACAGTGCCCCTAATCATT
92787883 TGTTGTTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.34, G:0.08, T:0.28
Consensus pattern (25 bp):
CACACACACAGTGCCCCTAATCATT
Found at i:92788370 original size:40 final size:40
Alignment explanation
Indices: 92788044--92788361 Score: 422
Period size: 40 Copynumber: 8.0 Consensus size: 40
92788034 GCCCGAATAC
* * * *
92788044 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * ** *
92788084 ATAACACCAGCATAAATGCTCTTC-GGACTTAGCTCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
92788123 ATATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
92788163 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
92788203 ACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * *
92788243 ACATCACTAGCGCGAATGCTCTTTGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
92788283 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
92788323 ACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
92788362 CATTTCACTC
Statistics
Matches: 248, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.13
40 215 0.87
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:92789699 original size:37 final size:37
Alignment explanation
Indices: 92789640--92789778 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
92789630 AGCTCAGACG
* *
92789640 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
92789677 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
92789714 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
92789751 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
92789779 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:92789975 original size:25 final size:25
Alignment explanation
Indices: 92789947--92790025 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
92789937 ACTCGGCCCT
92789947 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
92789972 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
92789994 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
92790019 ATCACAT
1 ATCACAT
92790026 CGGCTATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:92790118 original size:49 final size:47
Alignment explanation
Indices: 92789897--92790456 Score: 897
Period size: 47 Copynumber: 11.7 Consensus size: 47
92789887 CCCTTCAGGA
* * * * * *
92789897 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
92789944 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92789991 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92790038 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92790085 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92790134 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92790181 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92790230 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92790279 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92790326 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92790375 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
92790422 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
92790457 AGAATCCTAA
Statistics
Matches: 489, Mismatches: 17, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 300 0.61
49 188 0.38
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92790143 original size:22 final size:22
Alignment explanation
Indices: 92790115--92790190 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
92790105 TTTCACATTC
92790115 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
92790137 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
92790161 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
92790184 ATCACAT
1 ATCACAT
92790191 ATATATACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:92790144 original size:96 final size:94
Alignment explanation
Indices: 92789897--92790456 Score: 897
Period size: 96 Copynumber: 5.9 Consensus size: 94
92789887 CCCTTCAGGA
* * * * * * *
92789897 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
92789962 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
92789991 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
92790056 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
92790085 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
92790150 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
92790181 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
92790246 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
92790279 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
92790344 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
92790375 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
92790439 TGTTCACATCCATCACAT
66 T-TTCACATTCATCACAT
92790457 AGAATCCTAA
Statistics
Matches: 445, Mismatches: 16, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 114 0.26
96 284 0.64
98 46 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:92798957 original size:20 final size:21
Alignment explanation
Indices: 92798928--92798967 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
92798918 ATTGACTTAA
*
92798928 TTTAATATATATTT-TAATTG
1 TTTAAAATATATTTATAATTG
92798948 TTTAAAATATATTTATAATT
1 TTTAAAATATATTTATAATT
92798968 TATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAAAATATATTTATAATTG
Found at i:92802215 original size:35 final size:35
Alignment explanation
Indices: 92802129--92802413 Score: 412
Period size: 35 Copynumber: 8.2 Consensus size: 35
92802119 TTCAAATGAT
* *
92802129 TTTCACAACTCGGTATGGAAAATGCCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
** *
92802164 -TTCTTAACTCAGTATGGATAATACCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
*
92802198 TTTCACAACTCGGTATGGATGATACCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* * *
92802233 TATCACAACTCAGTATGGTTAATACCATACCTAC-
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
*
92802267 TTTCACAACTCGGTATGGATGATACCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
92802302 TTTCACAACTCGGTATGGTTAATACCATACTTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
92802337 TTTCACAACTCGGTATGGATGATATCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
92802372 TTTCACAACTCAGTATGGATGATACCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
92802407 TTTCACA
1 TTTCACA
92802414 CTTTGCCATA
Statistics
Matches: 222, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
34 59 0.27
35 163 0.73
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (35 bp):
TTTCACAACTCGGTATGGATAATACCATACCTACG
Found at i:92802433 original size:104 final size:105
Alignment explanation
Indices: 92802129--92802413 Score: 430
Period size: 104 Copynumber: 2.7 Consensus size: 105
92802119 TTCAAATGAT
* * ** *
92802129 TTTCACAACTCGGTATGGAAAATGCCATACCTACG-TTCTTAACTCAGTATGGATAATACCATAC
1 TTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATAC
*
92802193 CTACGTTTCACAACTCGGTATGGATGATACCATACCTACG
66 CTACGTTTCACAACTCGGTATGGATAATACCATACCTACG
* * * *
92802233 TATCACAACTCAGTATGGTTAATACCATACCTAC-TTTCACAACTCGGTATGGATGATACCATAC
1 TTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATAC
* *
92802297 CTACGTTTCACAACTCGGTATGGTTAATACCATACTTACG
66 CTACGTTTCACAACTCGGTATGGATAATACCATACCTACG
* *
92802337 TTTCACAACTCGGTATGGATGATATCATACCTACGTTTCACAACTCAGTATGGATGATACCATAC
1 TTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATAC
92802402 CTACGTTTCACA
66 CTACGTTTCACA
92802414 CTTTGCCATA
Statistics
Matches: 161, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
104 120 0.75
105 41 0.25
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (105 bp):
TTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATAC
CTACGTTTCACAACTCGGTATGGATAATACCATACCTACG
Found at i:92802433 original size:139 final size:138
Alignment explanation
Indices: 92802153--92802433 Score: 395
Period size: 139 Copynumber: 2.0 Consensus size: 138
92802143 ATGGAAAATG
**
92802153 CCATACCTACGTTCTTAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGAT
1 CCATACCTACGTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGAT
* **
92802218 GATACCATACCTACGTATCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACTCGGTAT
66 GATACCATACCTACGTATCACAACTCAGTATGGATAATACCATACCTACTTTCACAACTCGCCAT
* *
92802283 GGATGATA
131 AGATCATA
* * *
92802291 CCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACTTACGTTTCACAACTCGGTATGGA
1 CCATACCTACG-TTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGA
* * * *
92802356 TGATATCATACCTACGTTTCACAACTCAGTATGGATGATACCATACCTACGTTTCAC-ACTTTGC
65 TGATACCATACCTACGTATCACAACTCAGTATGGATAATACCATACCTAC-TTTCACAAC-TCGC
92802420 CATAGATCA-A
128 CATAGATCATA
92802430 CCAT
1 CCAT
92802434 TGTCTTTTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
138 11 0.09
139 101 0.80
140 14 0.11
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (138 bp):
CCATACCTACGTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGAT
GATACCATACCTACGTATCACAACTCAGTATGGATAATACCATACCTACTTTCACAACTCGCCAT
AGATCATA
Found at i:92807350 original size:35 final size:35
Alignment explanation
Indices: 92807324--92807677 Score: 439
Period size: 35 Copynumber: 10.2 Consensus size: 35
92807314 CATGGCAAAG
* *
92807324 TGTGAAACGTACGTATGGTATCATCCATACGGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
92807359 TGTGAAATGTAGGTATGGTATTAACCATA-TCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACT-GAGT
*
92807394 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
92807429 TGTGAAACGTAGGTATGGTATCATTCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
92807464 TG-GAAA-GTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
92807497 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
92807532 TGTGAAACGTAGTTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
92807567 TGTGAAATGTAGGTATGGTATCATCCATACCGGGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
92807602 TATGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * * *
92807637 TAAG-AATGTAGGTATGGCAT-TTCTCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATC-CATACTGAGT
92807671 TGTGAAA
1 TGTGAAA
92807678 TGTAAATAAA
Statistics
Matches: 276, Mismatches: 37, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
33 27 0.10
34 33 0.12
35 216 0.78
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:92807613 original size:173 final size:174
Alignment explanation
Indices: 92807324--92807677 Score: 534
Period size: 173 Copynumber: 2.0 Consensus size: 174
92807314 CATGGCAAAG
*
92807324 TGTGAAACGTACGTATGGTATCATCCATACGGAGTTGTGAAATGTAGGTATGGTATTAACCATAT
1 TGTGAAACGTACGTATGGTATCATCCATACGGAGTTGTGAAACGTAGGTATGGTATTAACCATAT
* *
92807389 CGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATT
66 CGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTATGAAACGTAGGTATGGTATCATC
* * *
92807454 CATACCGAGTT-GGAAAGTAGGTATGGTATTAAC-CATACTGAGT
131 CATACCGAGTTAAGAAAGTAGGTATGGCATT-ACTCATACCGAGT
* * *
92807497 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGTTATGGTATTAACCATA-
1 TGTGAAACGTACGTATGGTATCATCCATACGGAGTTGTGAAACGTAGGTATGGTATTAACCATAT
* * *
92807561 CTGAGTTGTGAAATGTAGGTATGGTATCATCCATACCGGGTTATGAAACGTAGGTATGGTATTAT
66 C-GAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTATGAAACGTAGGTATGGTATCAT
* * *
92807626 CCATACTGAGTTAAGAATGTAGGTATGGCATTTCTCATACCGAGT
130 CCATACCGAGTTAAGAAAGTAGGTATGGCATTACTCATACCGAGT
92807671 TGTGAAA
1 TGTGAAA
92807678 TGTAAATAAA
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
172 1 0.01
173 130 0.80
174 32 0.20
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (174 bp):
TGTGAAACGTACGTATGGTATCATCCATACGGAGTTGTGAAACGTAGGTATGGTATTAACCATAT
CGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTATGAAACGTAGGTATGGTATCATC
CATACCGAGTTAAGAAAGTAGGTATGGCATTACTCATACCGAGT
Found at i:92809097 original size:10 final size:10
Alignment explanation
Indices: 92809082--92809128 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
92809072 GCGACCTCTC
92809082 AAATTAAACT
1 AAATTAAACT
92809092 AAATTAAACT
1 AAATTAAACT
*
92809102 AAGATTAATCT
1 AA-ATTAAACT
92809113 -AATT-AACT
1 AAATTAAACT
92809121 AAGATTAA
1 AA-ATTAA
92809129 TTATAATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 4 0.13
10 16 0.52
11 8 0.26
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (10 bp):
AAATTAAACT
Found at i:92811780 original size:12 final size:12
Alignment explanation
Indices: 92811765--92811795 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
92811755 TTCTCTTTTA
92811765 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
92811777 TTTTTCTTTCTC
1 TTTTTCTTTCCC
92811789 TTTTTCT
1 TTTTTCT
92811796 CCCCTGCTTC
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:92811896 original size:16 final size:16
Alignment explanation
Indices: 92811875--92811905 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92811865 TTTATTATTT
92811875 TATTAACATAATATAA
1 TATTAACATAATATAA
*
92811891 TATTAATATAATATA
1 TATTAACATAATATA
92811906 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:92817524 original size:8 final size:8
Alignment explanation
Indices: 92817511--92817535 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
92817501 GTATTCCAAT
92817511 TTTTTTTA
1 TTTTTTTA
92817519 TTTTTTTA
1 TTTTTTTA
92817527 TTTTTTTA
1 TTTTTTTA
92817535 T
1 T
92817536 AAAAATTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:92819062 original size:31 final size:31
Alignment explanation
Indices: 92819024--92819087 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
92819014 CCTTTTCATA
*
92819024 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
92819055 TTTCATATTTCATATTACTAGGCTGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
92819086 TT
1 TT
92819088 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:92819399 original size:50 final size:48
Alignment explanation
Indices: 92819307--92819499 Score: 287
Period size: 50 Copynumber: 3.9 Consensus size: 48
92819297 CCTCTTTTAG
* * *
92819307 TAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTATCG
1 TAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTATCA
*
92819356 TAACTGGGGCATAAGCCCTTCATCATAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTT--TAATAACTGGGGCATAAGCCCTTTATCA
* *
92819406 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTCCTTTAA
1 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTT--TATCA
92819456 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
1 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
92819500 TGCACTTCCT
Statistics
Matches: 134, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
48 25 0.19
49 17 0.13
50 92 0.69
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCA
Found at i:92819435 original size:23 final size:23
Alignment explanation
Indices: 92819302--92819499 Score: 252
Period size: 25 Copynumber: 8.1 Consensus size: 23
92819292 CCTAGCCTCT
* *
92819302 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
92819325 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
92819349 TTTATCGTAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
*
92819374 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
92819399 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
92819424 TTTAATAACTGGGGCATAAGCCCTTCC
1 TTTAATAACTGGGGCATAAG--C--CC
92819451 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
92819474 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
92819497 TTT
1 TTT
92819500 TGCACTTCCT
Statistics
Matches: 156, Mismatches: 8, Indels: 21
0.84 0.04 0.11
Matches are distributed among these distances:
23 48 0.31
24 20 0.13
25 65 0.42
27 23 0.15
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:92819572 original size:9 final size:9
Alignment explanation
Indices: 92819558--92819614 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
92819548 ATCTCATGTG
92819558 CATATCATA
1 CATATCATA
*
92819567 CATATCATGTG
1 CATATCA--TA
92819578 CATATCATA
1 CATATCATA
* *
92819587 CATGTCATGTG
1 CATATCA--TA
92819598 CATATCATA
1 CATATCATA
92819607 CATATCAT
1 CATATCAT
92819615 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:92819574 original size:20 final size:20
Alignment explanation
Indices: 92819546--92819616 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
92819536 GCATTTATGA
*
92819546 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
92819566 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
92819586 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
92819606 ACATATCATGT
1 ACATATCATGT
92819617 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:92819581 original size:11 final size:11
Alignment explanation
Indices: 92819551--92819605 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
92819541 TATGAACATC
92819551 TCATGTGCATA
1 TCATGTGCATA
*
92819562 TCA--TACATA
1 TCATGTGCATA
92819571 TCATGTGCATA
1 TCATGTGCATA
* *
92819582 TCA--TACATG
1 TCATGTGCATA
92819591 TCATGTGCATA
1 TCATGTGCATA
92819602 TCAT
1 TCAT
92819606 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:92820451 original size:18 final size:17
Alignment explanation
Indices: 92820425--92820458 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92820415 TTTAATCCTC
*
92820425 ACTAGCACCAACAAACCA
1 ACTAACACCAA-AAACCA
92820443 ACTAACACCAAAAACC
1 ACTAACACCAAAAACC
92820459 CTTTTAGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.38, G:0.03, T:0.06
Consensus pattern (17 bp):
ACTAACACCAAAAACCA
Found at i:92820957 original size:27 final size:27
Alignment explanation
Indices: 92820857--92820940 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
92820847 GGGCATATTC
* * *
92820857 GTCATTTTACCATACAGGGG-TATTACT
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
92820884 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
92820911 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
92820938 GTC
1 GTC
92820941 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:92821186 original size:81 final size:81
Alignment explanation
Indices: 92821090--92821270 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 81
92821080 TTTGTAAATC
92821090 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTA-TTTCGATAATTTCACAAACC-AGTGGTATT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTCG-TAATTTCACAAACCAAG-GGTATT
* *
92821153 TTGGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
* * *
92821171 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTCGTAATTTCACAAACCAAGGGTATTTT
*
92821236 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* *
92821252 A-GGGTATTCTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
92821271 GTAAATCGAG
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 16 0.18
81 68 0.76
82 6 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTCGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:92821242 original size:27 final size:27
Alignment explanation
Indices: 92820979--92821270 Score: 194
Period size: 27 Copynumber: 10.8 Consensus size: 27
92820969 TTTCATCCTA
* * *
92820979 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** **
92821006 CAAAGGTATTCCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** * *
92821033 CAATGGTATTTCCATAATTTTTAAAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* ** *
92821062 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
92821089 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
92821116 TAAGGGTATTTCGATAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
92821143 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
92821170 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
92821197 TGAGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
92821224 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
92821250 CTAGGGTATTCTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
92821271 GTAAATCGAG
Statistics
Matches: 208, Mismatches: 51, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
26 21 0.10
27 160 0.77
28 14 0.07
29 13 0.06
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:92821292 original size:27 final size:27
Alignment explanation
Indices: 92821263--92821419 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
92821253 GGGTATTCTA
* *
92821263 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
92821290 GTAATTCTATAAATCAAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
92821317 GTACTTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
92821344 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
92821371 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
92821398 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
92821420 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:92821446 original size:27 final size:26
Alignment explanation
Indices: 92821416--92821514 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
92821406 GTAAATCGGG
* *
92821416 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
*
92821443 GGTATTTTAGTAATTTTACAAATCGAG
1 GGTA-TTTAGTAATTTTACAAATCGAA
* *
92821470 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTT-AGTAATTTTACAAATCGAA
*
92821496 GCGTATTTCGGTAATTTTA
1 G-GTATTT-AGTAATTTTA
92821515 GTAAACTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 6 0.10
27 55 0.90
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.41
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAA
Found at i:92821528 original size:27 final size:27
Alignment explanation
Indices: 92821425--92821529 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
92821415 GGGTACTTTG
* * *
92821425 GTAATTTTACAAGTCGAAG-GTATTTTA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
92821452 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
92821479 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
92821506 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
92821530 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 53 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:92823594 original size:12 final size:12
Alignment explanation
Indices: 92823579--92823614 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
92823569 TTCTCTTTTA
92823579 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
92823591 TTTTTCTTTCTC
1 TTTTTCTTTCCC
92823603 TTTTTC-TTCCC
1 TTTTTCTTTCCC
92823614 T
1 T
92823615 GCTTCCCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:92825491 original size:146 final size:147
Alignment explanation
Indices: 92825220--92825501 Score: 469
Period size: 146 Copynumber: 1.9 Consensus size: 147
92825210 TGATATAAAA
* * *
92825220 TGCTATTTTGATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
1 TGCTAGTTTAATCATCAATTGAAATAGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
*
92825285 GATCTAGTTGAATTGTGGCATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
66 GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
92825350 AATCATAAACGCACCAC
131 AATCATAAACGCACCAC
92825367 TGCTAGTTTAATCATCAATTGAAATAGTGTAAAAGTA-GATATTTGAGTATTGAATATGCAAATT
1 TGCTAGTTTAATCATCAATTGAAATAGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
* * * *
92825431 TATTTGGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTTA-TCTGTGACTT
66 GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACT-TGTGACTT
92825495 GAATCAT
130 GAATCAT
92825502 GAAAGTACCA
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
145 1 0.01
146 91 0.72
147 34 0.27
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (147 bp):
TGCTAGTTTAATCATCAATTGAAATAGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
AATCATAAACGCACCAC
Found at i:92829504 original size:20 final size:20
Alignment explanation
Indices: 92829475--92829563 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
92829465 TACAATATCT
*
92829475 TAAAAAAAAATTAATAACTA
1 TAAAATAAAATTAATAACTA
92829495 TAAAATAAAATT-A-AACTA
1 TAAAATAAAATTAATAACTA
* * *
92829513 TAAACT----TTAAAACACAA
1 TAAAATAAAATTAATA-ACTA
*
92829530 TAAAAACAAAATTAATAACTA
1 T-AAAATAAAATTAATAACTA
92829551 TAAAATAAAATTA
1 TAAAATAAAATTA
92829564 CAATCTAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 1 0.02
17 4 0.08
18 13 0.25
19 1 0.02
20 22 0.42
21 4 0.08
22 5 0.09
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAAATTAATAACTA
Found at i:92829556 original size:56 final size:56
Alignment explanation
Indices: 92829475--92829594 Score: 208
Period size: 56 Copynumber: 2.2 Consensus size: 56
92829465 TACAATATCT
92829475 TAAAAA-AAAATTAATAACTATAAAATAAAATTA-AACTATAAACTTTAAAACACAA
1 TAAAAACAAAATTAATAACTATAAAATAAAATTACAA-TATAAACTTTAAAACACAA
*
92829530 TAAAAACAAAATTAATAACTATAAAATAAAATTACAATCTAAACTTTAAAACACAA
1 TAAAAACAAAATTAATAACTATAAAATAAAATTACAATATAAACTTTAAAACACAA
92829586 TAAAAACAA
1 TAAAAACAA
92829595 TTGTAAAATT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
55 6 0.10
56 54 0.87
57 2 0.03
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (56 bp):
TAAAAACAAAATTAATAACTATAAAATAAAATTACAATATAAACTTTAAAACACAA
Found at i:92841374 original size:23 final size:22
Alignment explanation
Indices: 92841331--92841377 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
92841321 AATGCTCTAA
*
92841331 TTTTCCTTTTTATTTCTTTTTC
1 TTTTCCTTTTTATTTCATTTTC
92841353 TTTTCTCTTTTT-TCTTCATTTTC
1 TTTTC-CTTTTTAT-TTCATTTTC
92841376 TT
1 TT
92841378 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCCTTTTTATTTCATTTTC
Found at i:92841383 original size:20 final size:21
Alignment explanation
Indices: 92841360--92841398 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
92841350 TTCTTTTCTC
92841360 TTTTTTC-TTCAT-TTTCTTA
1 TTTTTTCATTCATCTTTCTTA
92841379 TTTTTTCATTCATCTTTCTT
1 TTTTTTCATTCATCTTTCTT
92841399 TCTATTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTTCATTCATCTTTCTTA
Found at i:92841386 original size:16 final size:17
Alignment explanation
Indices: 92841347--92841388 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
92841337 TTTTTATTTC
*
92841347 TTTTTC-TTTTCTCTTT
1 TTTTTCATTTTCTCTAT
92841363 TTTCTTCATTTTCT-TAT
1 TTT-TTCATTTTCTCTAT
92841380 TTTTTCATT
1 TTTTTCATT
92841389 CATCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTCTCTAT
Found at i:92841396 original size:21 final size:19
Alignment explanation
Indices: 92841340--92841398 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
92841330 ATTTTCCTTT
92841340 TTATTTCTTT-TTC-TTTTC
1 TTATTT-TTTCTTCATTTTC
*
92841358 -TCTTTTTTCTTCATTTTC
1 TTATTTTTTCTTCATTTTC
92841376 TTATTTTTTCATTCATCTTTC
1 TTATTTTTTC-TTCAT-TTTC
92841397 TT
1 TT
92841399 TCTATTCTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 5 0.15
19 8 0.24
20 5 0.15
21 6 0.18
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTTTCTTCATTTTC
Found at i:92843005 original size:12 final size:12
Alignment explanation
Indices: 92842990--92843070 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 12
92842980 AATATAATAG
* *
92842990 ATAATATATGAT
1 ATAACATATAAT
92843002 ATAACATATAAT
1 ATAACATATAAT
* *
92843014 ATAAAAAAATAAT
1 AT-AACATATAAT
*
92843027 AGGTAATATATAAT
1 A--TAACATATAAT
*
92843041 A-AAAATATAAT
1 ATAACATATAAT
92843052 A-AA-ATATAAT
1 ATAACATATAAT
92843062 ATAA-ATATA
1 ATAACATATA
92843071 TGTGATAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
10 8 0.14
11 19 0.33
12 12 0.21
13 9 0.16
14 9 0.16
15 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAACATATAAT
Found at i:92843035 original size:39 final size:39
Alignment explanation
Indices: 92842974--92843062 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
92842964 AATATAAAAC
* * *
92842974 ATAAATAATATAATAGATAATATATGATATAACATATAAT
1 ATAAATAAAATAATAGATAATATATAATA-AAAATATAAT
*
92843014 ATAAA-AAAATAATAGGTAATATATAATAAAAATATAAT
1 ATAAATAAAATAATAGATAATATATAATAAAAATATAAT
*
92843052 A-AAATATAATA
1 ATAAATAAAATA
92843063 TAAATATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 3 0.07
38 15 0.35
39 20 0.47
40 5 0.12
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
ATAAATAAAATAATAGATAATATATAATAAAAATATAAT
Found at i:92843040 original size:7 final size:7
Alignment explanation
Indices: 92842962--92843071 Score: 61
Period size: 7 Copynumber: 16.3 Consensus size: 7
92842952 AATATAATGG
92842962 ATAATAT
1 ATAATAT
* *
92842969 AAAACAT
1 ATAATAT
92842976 A-AATAAT
1 ATAAT-AT
*
92842983 ATAATAG
1 ATAATAT
92842990 ATAATAT
1 ATAATAT
*
92842997 AT--GAT
1 ATAATAT
*
92843002 ATAACAT
1 ATAATAT
92843009 ATAATAT
1 ATAATAT
* *
92843016 A-AAAAA
1 ATAATAT
*
92843022 ATAATAG
1 ATAATAT
*
92843029 GTAATAT
1 ATAATAT
92843036 ATAATA-
1 ATAATAT
*
92843042 AAAATAT
1 ATAATAT
*
92843049 AATAAAAT
1 -ATAATAT
92843057 ATAATAT
1 ATAATAT
92843064 A-AATAT
1 ATAATAT
92843070 AT
1 AT
92843072 GTGATAAATT
Statistics
Matches: 76, Mismatches: 19, Indels: 16
0.68 0.17 0.14
Matches are distributed among these distances:
5 4 0.05
6 17 0.22
7 47 0.62
8 8 0.11
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (7 bp):
ATAATAT
Found at i:92843050 original size:11 final size:11
Alignment explanation
Indices: 92843034--92843070 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
92843024 AATAGGTAAT
92843034 ATATAATAAAA
1 ATATAATAAAA
92843045 ATATAAT-AAA
1 ATATAATAAAA
*
92843055 ATATAATATAA
1 ATATAATAAAA
92843066 ATATA
1 ATATA
92843071 TGTGATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:92843060 original size:21 final size:22
Alignment explanation
Indices: 92843011--92843070 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
92843001 TATAACATAT
*
92843011 AATATAA-AAAAATAATAGGTAA
1 AATATAATAAAAAT-ATAGATAA
*
92843033 TATATAATAAAAATATA-ATAA
1 AATATAATAAAAATATAGATAA
*
92843054 AATATAATATAAATATA
1 AATATAATAAAAATATA
92843071 TGTGATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
AATATAATAAAAATATAGATAA
Found at i:92843117 original size:25 final size:25
Alignment explanation
Indices: 92843080--92843140 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
92843070 ATGTGATAAA
*
92843080 TTTTTTTATATAA-ATATATAAATAG
1 TTTTTTTA-ATAAGACATATAAATAG
*
92843105 TATTTTTTAATAATGACATATATATAG
1 T-TTTTTTAATAA-GACATATAAATAG
92843132 TTTTTTTAA
1 TTTTTTTAA
92843141 AATAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 5 0.16
26 15 0.48
27 11 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTTTTAATAAGACATATAAATAG
Found at i:92843155 original size:25 final size:27
Alignment explanation
Indices: 92843101--92843151 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
92843091 AAATATATAA
* *
92843101 ATAGTATTTTTTAATAATGACATATAT
1 ATAGTATTTTTTAATAATGAAATAAAT
92843128 ATAGT-TTTTTTAA-AAT-AAATAAAT
1 ATAGTATTTTTTAATAATGAAATAAAT
92843152 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 8 0.36
27 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (27 bp):
ATAGTATTTTTTAATAATGAAATAAAT
Found at i:92846710 original size:20 final size:20
Alignment explanation
Indices: 92846674--92846725 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
92846664 CTGAGGTGTT
92846674 ATACAGGGCA-CGAAAATGC
1 ATACAGGGCACCGAAAATGC
92846693 ATACAGGAGCACCG-AAATGC
1 ATACAGG-GCACCGAAAATGC
*
92846713 TTATCAGGGCACC
1 ATA-CAGGGCACC
92846726 AGAGTGCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.24
20 16 0.55
21 6 0.21
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.13
Consensus pattern (20 bp):
ATACAGGGCACCGAAAATGC
Found at i:92855764 original size:45 final size:45
Alignment explanation
Indices: 92855715--92855827 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 45
92855705 GTCATAGCGC
* *
92855715 CTTTCAGCTATGGTCTTACTCAT-TTCTATCATGATGCCATAACAT
1 CTTTCAACTATGGTCTTACTCATCTT-AATCATGATGCCATAACAT
* * ***
92855760 CTTTCAACTATGGTTTTACTTATCTTAATCATGATGCCATAGTGT
1 CTTTCAACTATGGTCTTACTCATCTTAATCATGATGCCATAACAT
*
92855805 CTTTTAACTA-GGTTCTTACTCAT
1 CTTTCAACTATGG-TCTTACTCAT
92855828 TTTAGGCGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.93
46 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (45 bp):
CTTTCAACTATGGTCTTACTCATCTTAATCATGATGCCATAACAT
Found at i:92856809 original size:15 final size:15
Alignment explanation
Indices: 92856789--92856838 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
92856779 TACAATGATC
*
92856789 CCTAATGTAATTTAT
1 CCTAATGCAATTTAT
*
92856804 CCTAATGCAA-TGAT
1 CCTAATGCAATTTAT
92856818 CCCTAATGCAATTTAT
1 -CCTAATGCAATTTAT
92856834 CCTAA
1 CCTAA
92856839 GTATGCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.80
16 3 0.10
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (15 bp):
CCTAATGCAATTTAT
Found at i:92856817 original size:30 final size:30
Alignment explanation
Indices: 92856781--92856838 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
92856771 AAACTAAATA
*
92856781 CAATGATCCCTAATGTAATTTATCCTAATG
1 CAATGATCCCTAATGCAATTTATCCTAATG
92856811 CAATGATCCCTAATGCAATTTATCCTAA
1 CAATGATCCCTAATGCAATTTATCCTAA
92856839 GTATGCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CAATGATCCCTAATGCAATTTATCCTAATG
Found at i:92890668 original size:34 final size:34
Alignment explanation
Indices: 92890625--92890700 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
92890615 TTGCATACTA
* *
92890625 TACTGAAATGGGCTAAGGCCCAGATTGCCTCTAT
1 TACTGAAATGGGCTAAGGCCCAGACTGACTCTAT
* *
92890659 TACTGAAATGGGCTCAGGCCCAGACTGATTCTAT
1 TACTGAAATGGGCTAAGGCCCAGACTGACTCTAT
92890693 TACTGAAA
1 TACTGAAA
92890701 AAGTGGTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGACTCTAT
Found at i:92902252 original size:46 final size:45
Alignment explanation
Indices: 92902151--92902308 Score: 163
Period size: 46 Copynumber: 3.4 Consensus size: 45
92902141 TGATATGTGT
* ** **
92902151 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCCCATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATAA-A
* * **
92902197 GCCAATGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGAT-AAA
* *
92902243 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTT-A-AGATA-AA
*
92902291 GCTAGTGTAAGACCTGTC
1 GCTAGTGTAAGACATGTC
92902309 AGGTACAGGG
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 66 0.73
47 4 0.04
48 21 0.23
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATAAA
Found at i:92902409 original size:49 final size:49
Alignment explanation
Indices: 92902338--92902467 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
92902328 GTTGTGTGTT
* * *
92902338 AGTGTCAA-ACCTATCTAGGACATGGCATCGACAC-CGATAGATGAGAG-C
1 AGTGT-AAGACCTATCTGGGACATGGCATCGAC-CTCAATAGATGAAAGTC
* * * *
92902386 TAGTGTAAGACTTATCTGGGACATGGTATCGGCCTCAATATATGAAAGTC
1 -AGTGTAAGACCTATCTGGGACATGGCATCGACCTCAATAGATGAAAGTC
*
92902436 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC
92902468 TTTAACGTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.04
49 63 0.94
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTCAATAGATGAAAGTC
Found at i:92920625 original size:46 final size:45
Alignment explanation
Indices: 92920466--92920628 Score: 215
Period size: 46 Copynumber: 3.6 Consensus size: 45
92920456 TGATATGTGT
*
92920466 GCTAGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATA-A-G-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATTA-AGACGAA
* * *
92920512 GCCAGTGTAAGACATGTCTGAGACATGCATCAGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGA-A
92920558 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACG-AA
92920604 GCTAGTGTAAGACATGTCTGGGACA
1 GCTAGTGTAAGACATGTCTGGGACA
92920629 GGGCGTCAGC
Statistics
Matches: 105, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 1 0.01
46 97 0.92
47 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGAA
Found at i:92920727 original size:49 final size:49
Alignment explanation
Indices: 92920668--92920778 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
92920658 GACTTGTCTG
* *
92920668 GGACATGGCATCGACAC-CGATAGATGAGA-TCTAGTGTAAAACCTATCTA
1 GGACATGGCATCGAC-CTCGATAGATGAAAGTC-AGTGTAAAACCTACCTA
* * * * *
92920717 GGACACGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTACCTG
1 GGACATGGCATCGACCTCGATAGATGAAAGTCAGTGTAAAACCTACCTA
92920766 GGACATGGCATCG
1 GGACATGGCATCG
92920779 TCTTTAACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.02
49 49 0.94
50 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (49 bp):
GGACATGGCATCGACCTCGATAGATGAAAGTCAGTGTAAAACCTACCTA
Found at i:92923102 original size:30 final size:30
Alignment explanation
Indices: 92923066--92923125 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
92923056 TTAGACACAA
92923066 ACACAAGTCATATAGACACCACAATACCAT
1 ACACAAGTCATATAGACACCACAATACCAT
92923096 ACACAAGTCATATAGACACCACAATACCAT
1 ACACAAGTCATATAGACACCACAATACCAT
92923126 CAATCACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.30, G:0.07, T:0.17
Consensus pattern (30 bp):
ACACAAGTCATATAGACACCACAATACCAT
Found at i:92923456 original size:25 final size:25
Alignment explanation
Indices: 92923422--92923472 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
92923412 TTCTAGCTAC
92923422 CCATCTAGAGCTTTCCCTTTTAACA
1 CCATCTAGAGCTTTCCCTTTTAACA
*
92923447 CCATTTAGAGCTTTCCCTTTTAACA
1 CCATCTAGAGCTTTCCCTTTTAACA
92923472 C
1 C
92923473 ACTCTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.37
Consensus pattern (25 bp):
CCATCTAGAGCTTTCCCTTTTAACA
Found at i:92925331 original size:18 final size:19
Alignment explanation
Indices: 92925308--92925359 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
92925298 CAAGTTTATG
*
92925308 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
*
92925326 GTAAAAGTAATATACATAT
1 GTAAAAATAATATACATAT
*
92925345 GTATATAATAATATA
1 GTA-AAAATAATATA
92925360 TGCAATACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 10 0.36
19 9 0.32
20 9 0.32
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:92925392 original size:5 final size:5
Alignment explanation
Indices: 92925382--92925474 Score: 170
Period size: 5 Copynumber: 18.8 Consensus size: 5
92925372 TATTTAAGTA
92925382 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
92925432 TATAT TATAT TATAT TATAT TATAT TATAT TATAA TA-AT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
92925475 AAAGAATAAA
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
4 3 0.04
5 82 0.96
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:92925580 original size:13 final size:13
Alignment explanation
Indices: 92925539--92925581 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
92925529 GAAGTAAAAT
92925539 GAAAGAAAAAGAAA
1 GAAAGAAAAAG-AA
*
92925553 GAAGGAAAAA-AA
1 GAAAGAAAAAGAA
*
92925565 GAAAGAAAAAGGA
1 GAAAGAAAAAGAA
92925578 GAAA
1 GAAA
92925582 AAGTCAAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAGAA
Found at i:92925582 original size:19 final size:20
Alignment explanation
Indices: 92925546--92925584 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
92925536 AATGAAAGAA
92925546 AAAGAAAGAAGGAAAAAAAG
1 AAAGAAAGAAGGAAAAAAAG
*
92925566 AAAGAAA-AAGGAGAAAAAG
1 AAAGAAAGAAGGAAAAAAAG
92925585 TCAAGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAGGAAAAAAAG
Found at i:92933738 original size:39 final size:40
Alignment explanation
Indices: 92933624--92933808 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
92933614 GCTATTCGTT
* *
92933624 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACA
*
92933664 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * **
92933704 CCAATGCATTCGGG-CTTAGCCCGGAATTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* * * * *
92933743 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CA
92933784 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
92933809 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.65
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
Found at i:92933795 original size:79 final size:81
Alignment explanation
Indices: 92933624--92933808 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
92933614 GCTATTCGTT
* *
92933624 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
92933688 GATTTAGTAACTCACAC
65 GATATAGTAACTCACAC
* * * **
92933705 CAATGCATTCGGG-CTTAGCCCGGAAT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
92933767 GATATGGTCACTTAGCA-
65 GATATAGTAACTCA-CAC
92933784 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
92933809 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.68
80 22 0.25
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCACAC
Found at i:92941615 original size:40 final size:40
Alignment explanation
Indices: 92941543--92941727 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
92941533 GCTACTCGTT
*
92941543 CAAATGCCTTCGGGACATT-GCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TTAGCCCGGATT-TAGTAACTCGCA
*
92941583 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
92941623 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
92941662 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
92941703 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
92941728 CATCATTTGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 75 0.60
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:92941668 original size:39 final size:40
Alignment explanation
Indices: 92941571--92941674 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 40
92941561 TGCCTGGTTA
* *
92941571 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
* *
92941611 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
92941650 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
92941675 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
Found at i:92941687 original size:79 final size:80
Alignment explanation
Indices: 92941571--92941724 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 80
92941561 TGCCTGGTTA
* * *
92941571 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTCG
92941635 GG-CTTAGCCCAGAAT
65 GGACTTAGCCCAGAAT
** * *
92941650 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCG
92941714 GGACTTAGCCC
65 GGACTTAGCCC
92941725 GGACATCATT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.05
79 50 0.77
80 12 0.18
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCAGAAT
Found at i:92947017 original size:30 final size:30
Alignment explanation
Indices: 92946981--92947045 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
92946971 CTCCAGGCCC
*
92946981 TGTCCTTCATACGACTGAGACACACGGTCG
1 TGTCCTTCACACGACTGAGACACACGGTCG
*
92947011 TGTCCTTCACACGGCTGAGACACACGGTCG
1 TGTCCTTCACACGACTGAGACACACGGTCG
92947041 TGTCC
1 TGTCC
92947046 CTACCCATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (30 bp):
TGTCCTTCACACGACTGAGACACACGGTCG
Found at i:92948815 original size:43 final size:43
Alignment explanation
Indices: 92948768--92948854 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
92948758 CACATGATAC
*
92948768 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
1 AACATCACATTAATTAGATATACTTACCATACATGCAATATCA
92948811 AACATCACATTAATTAGATATACTTACCATACATGCAATATCA
1 AACATCACATTAATTAGATATACTTACCATACATGCAATATCA
92948854 A
1 A
92948855 GCATTTAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (43 bp):
AACATCACATTAATTAGATATACTTACCATACATGCAATATCA
Found at i:92951152 original size:20 final size:19
Alignment explanation
Indices: 92951104--92951155 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
92951094 CAAGTGTGTG
*
92951104 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
92951122 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
92951141 GTATATAATAATATA
1 GTA-AAAATAATATA
92951156 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:92951249 original size:17 final size:17
Alignment explanation
Indices: 92951227--92951265 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
92951217 AAGAATAAAC
92951227 AAATAATAAAAGAAAT-G
1 AAATAA-AAAAGAAATAG
*
92951244 AAATAAAAAAGGAATAG
1 AAATAAAAAAGAAATAG
92951261 AAATA
1 AAATA
92951266 GAGAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
AAATAAAAAAGAAATAG
Found at i:92951313 original size:13 final size:13
Alignment explanation
Indices: 92951278--92951320 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
92951268 GAAGTAAAAT
92951278 GAAAGAAAAA-GA
1 GAAAGAAAAAGGA
* *
92951290 AAGAAGGAAAAGGA
1 GA-AAGAAAAAGGA
92951304 GAAAGAAAAAGGA
1 GAAAGAAAAAGGA
92951317 GAAA
1 GAAA
92951321 AAGCTAGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 1 0.04
13 21 0.84
14 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAGGA
Found at i:92951314 original size:22 final size:22
Alignment explanation
Indices: 92951281--92951323 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
92951271 GTAAAATGAA
*
92951281 AGAAAAAGAAAGAAGGAAAAGG
1 AGAAAAAGAAAGAAGAAAAAGG
*
92951303 AGAAAGAA-AAAGGAGAAAAAG
1 AGAAA-AAGAAAGAAGAAAAAG
92951324 CTAGGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
AGAAAAAGAAAGAAGAAAAAGG
Found at i:92952305 original size:40 final size:40
Alignment explanation
Indices: 92952186--92952318 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
92952176 CTTCGAGTCG
* ***
92952186 ATGAGACACTAGGTGTCAATTTATTACTTCGGATTAATTTG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATT-ATCCA
* * * * * *
92952227 ATGAGGCACCGGGTGCCAA--T-TTACTTTGGTTTAGCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
*
92952264 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
*
92952304 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
92952319 CCAAACTGGT
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 17 0.24
38 10 0.14
39 2 0.03
40 27 0.38
41 15 0.21
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
Found at i:92953476 original size:23 final size:23
Alignment explanation
Indices: 92953446--92953491 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
92953436 TTTAATTAGA
92953446 AAAAAAATCCAATTAACGTTCTT
1 AAAAAAATCCAATTAACGTTCTT
*
92953469 AAAAAAATCCAATTAATGTTCTT
1 AAAAAAATCCAATTAACGTTCTT
92953492 TATTCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAAAATCCAATTAACGTTCTT
Found at i:92953533 original size:19 final size:20
Alignment explanation
Indices: 92953491--92953543 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
92953481 TTAATGTTCT
* *
92953491 TTATTCTTTTTATTTTTATA
1 TTATTCTTTTTCTTATTATA
*
92953511 TTATTCTTTTTCTTATT-TC
1 TTATTCTTTTTCTTATTATA
*
92953530 TTATTCATTTTCTT
1 TTATTCTTTTTCTT
92953544 TGTTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTCTTTTTCTTATTATA
Found at i:92953718 original size:34 final size:34
Alignment explanation
Indices: 92953675--92953743 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
92953665 CTTAAGATTA
92953675 TCTATGCGTTTTTAGGAAATAAATGAGGTATTGG
1 TCTATGCGTTTTTAGGAAATAAATGAGGTATTGG
92953709 TCTATGCGTTTTTAGGAAATAAATGAGGTATTGG
1 TCTATGCGTTTTTAGGAAATAAATGAGGTATTGG
92953743 T
1 T
92953744 TTGTTGGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (34 bp):
TCTATGCGTTTTTAGGAAATAAATGAGGTATTGG
Found at i:92955581 original size:24 final size:23
Alignment explanation
Indices: 92955552--92955614 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
92955542 AACCGAATTT
* * *
92955552 GCACACATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAAC-C
92955576 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTG-CATAGTAAACC
92955600 GCACACATAGTGCAT
1 GCACACATAGTGCAT
92955615 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 7 0.20
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (23 bp):
GCACACATAGTGCATAGTAAACC
Found at i:92960938 original size:55 final size:55
Alignment explanation
Indices: 92960868--92960978 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
92960858 GCCATACTAT
92960868 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
1 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
*
92960923 TTTTAGGTTAATTCCCACCTTTATAACTTCCTAGAGTCGTCAAGCCTAGGGTTTA
1 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
92960978 T
1 T
92960979 GTTCTCTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (55 bp):
TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
Found at i:92962210 original size:3 final size:3
Alignment explanation
Indices: 92962172--92962254 Score: 68
Period size: 3 Copynumber: 28.7 Consensus size: 3
92962162 AAATTATATA
* * *
92962172 TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT
**
92962216 TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
92962255 AATAAATTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
2 10 0.16
3 48 0.75
4 6 0.09
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:92962540 original size:33 final size:33
Alignment explanation
Indices: 92962503--92962572 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
92962493 TATTTATACA
* *
92962503 ATTATAATATT-TTATTTAAATT-AGTATATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
*
92962536 ATTATTTATTATTATTAAAATTAAGAGATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
92962569 ATTA
1 ATTA
92962573 ATTAAATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 26 0.81
34 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:92962594 original size:33 final size:33
Alignment explanation
Indices: 92962530--92962594 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
92962520 AAATTAGTAT
* *
92962530 ATATTTATTATTTATTATTATTAAAATTAAGAG
1 ATATTTATTATTAAATATTATTAAAATTAAGAG
92962563 ATATTTATTAATTAAATAGTTA-TAAAA-TAAGA
1 ATATTTATT-ATTAAATA-TTATTAAAATTAAGA
92962595 CTTTTATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 14 0.50
34 11 0.39
35 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (33 bp):
ATATTTATTATTAAATATTATTAAAATTAAGAG
Found at i:92962762 original size:22 final size:20
Alignment explanation
Indices: 92962727--92962776 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
92962717 AATATAATAT
92962727 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
92962747 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
92962769 AAACAAAA
1 AAATAAAA
92962777 CAAACAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:92962830 original size:12 final size:12
Alignment explanation
Indices: 92962815--92962858 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
92962805 AAAACAGGGG
92962815 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
92962827 AGAAAAAGGGAA
1 AGAAAAAGAGAA
* *
92962839 AGAAATAGAAAA
1 AGAAAAAGAGAA
92962851 AGGAAAAA
1 A-GAAAAA
92962859 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:92963862 original size:12 final size:12
Alignment explanation
Indices: 92963845--92963869 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92963835 GCGGACTACT
92963845 GTTACTGTTACC
1 GTTACTGTTACC
92963857 GTTACTGTTACC
1 GTTACTGTTACC
92963869 G
1 G
92963870 ATTCGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:92963900 original size:45 final size:45
Alignment explanation
Indices: 92963847--92963953 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
92963837 GGACTACTGT
* *
92963847 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* *
92963892 TATTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
**
92963937 TACTGTTATTGTTACTG
1 TACTGTTACCGTTACTG
92963954 CTACTGCTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:92966362 original size:20 final size:20
Alignment explanation
Indices: 92966337--92966376 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
92966327 GAGCCTATTT
92966337 ATACTTTGATTGATCCTGGA
1 ATACTTTGATTGATCCTGGA
92966357 ATACTTTGATTGATCCTGGA
1 ATACTTTGATTGATCCTGGA
92966377 TCTTCACACT
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:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
ATACTTTGATTGATCCTGGA
Found at i:92970032 original size:13 final size:12
Alignment explanation
Indices: 92970009--92970074 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 12
92969999 ATTGTATATA
92970009 TATTATATATAAT
1 TATTAT-TATAAT
92970022 TGATTATTATAAT
1 T-ATTATTATAAT
*
92970035 TATTAATTATTAT
1 TATT-ATTATAAT
**
92970048 GGTT-TTAT-AT
1 TATTATTATAAT
*
92970058 TATTATTATTAT
1 TATTATTATAAT
92970070 TATTA
1 TATTA
92970075 AATAAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
10 4 0.09
11 8 0.18
12 10 0.23
13 17 0.39
14 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (12 bp):
TATTATTATAAT
Found at i:92970039 original size:3 final size:3
Alignment explanation
Indices: 92970009--92970074 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
92969999 ATTGTATATA
* * **
92970009 TAT TAT ATAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT T-T TA-
1 TAT TAT -TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
92970055 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
92970075 AATAAATTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
2 4 0.08
3 38 0.75
4 9 0.18
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:92970045 original size:16 final size:16
Alignment explanation
Indices: 92970009--92970071 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
92969999 ATTGTATATA
* *
92970009 TATTATATATAATTGAT
1 TATTATA-ATTATTAAT
92970026 TATTATAATTATTAAT
1 TATTATAATTATTAAT
**
92970042 TATTATGGTT-TTATAT
1 TATTATAATTATTA-AT
*
92970058 TATTATTATTATTA
1 TATTATAATTATTA
92970072 TTAAATAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 3 0.08
16 25 0.66
17 10 0.26
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TATTATAATTATTAAT
Found at i:92970405 original size:38 final size:37
Alignment explanation
Indices: 92970312--92970405 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
92970302 TGTAATGATA
* *
92970312 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
92970350 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
92970383 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
92970406 AAAATAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:92970414 original size:33 final size:33
Alignment explanation
Indices: 92970334--92970414 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
92970324 TTATAATATT
* * *
92970334 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAATAA
92970367 TTATTAAAATTAAGAGATATTTATTAATTAAATAA
1 TTATTAAAATTAAGAGATATTTATT-ATT-AATAA
92970402 TTA-TAAAA-TAAGA
1 TTATTAAAATTAAGA
92970415 TTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 10 0.24
35 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAATAA
Found at i:92971407 original size:40 final size:40
Alignment explanation
Indices: 92971361--92971439 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
92971351 TTATGGGATG
* ** *
92971361 CTGAATATTGTTTTGAATATCGAATTGAACTGTGAAATTA
1 CTGAATAATGTTACGAATATCGAATTGAACTGTAAAATTA
* * *
92971401 CTGAATAATGTTACGTATATTGCATTGAACTGTAAAATT
1 CTGAATAATGTTACGAATATCGAATTGAACTGTAAAATT
92971440 TCTAATGAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (40 bp):
CTGAATAATGTTACGAATATCGAATTGAACTGTAAAATTA
Found at i:92971705 original size:45 final size:45
Alignment explanation
Indices: 92971652--92971757 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
92971642 GACTACTGTT
* * *
92971652 ACTGTTACCGTTACTTTTACCGATTC-GACACTTTGTGTGTCGAAT
1 ACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAAA
* *
92971697 ATTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAAA
1 ACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAA
*
92971742 ACTGTTACTGTTACTG
1 ACTGTTACCGTTACTG
92971758 CTACTGCTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
ACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAA
Found at i:92973637 original size:3 final size:3
Alignment explanation
Indices: 92973629--92973685 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
92973619 GTGGCTGTTA
92973629 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92973677 TATT TAT TA
1 TA-T TAT TA
92973686 CAATAATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:92976432 original size:9 final size:9
Alignment explanation
Indices: 92976403--92976460 Score: 50
Period size: 8 Copynumber: 6.7 Consensus size: 9
92976393 AATCATTTTT
92976403 AAAATTA-A
1 AAAATTATA
*
92976411 AATATTAATA
1 AAAATT-ATA
92976421 AAAATTATA
1 AAAATTATA
92976430 AAAA-TATA
1 AAAATTATA
* *
92976438 AGAATT-TT
1 AAAATTATA
*
92976446 AAAATTTTA
1 AAAATTATA
92976455 AAAATT
1 AAAATT
92976461 TCTAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 18 0.45
9 16 0.40
10 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:92976461 original size:17 final size:17
Alignment explanation
Indices: 92976418--92976468 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
92976408 TAAAATATTA
* *
92976418 ATAAAAATTATAAAAAT
1 ATAAAAATTTTAAAATT
*
92976435 ATAAGAATTTTAAAATT
1 ATAAAAATTTTAAAATT
*
92976452 TTAAAAATTTCTAAAAT
1 ATAAAAATTT-TAAAAT
92976469 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAAAAATTTTAAAATT
Found at i:92980836 original size:204 final size:201
Alignment explanation
Indices: 92980444--92980851 Score: 507
Period size: 204 Copynumber: 2.0 Consensus size: 201
92980434 CATATGTTTT
* *
92980444 TTTTATTTTTTTAATTTGGTTATGCCAACTTTAACTGTTTTGTCACTCATCTGTTCTTCTCATTC
1 TTTTATTTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGC
** * * * * * ** *
92980509 TGATTGGGATACAAAATTGTAATTTCTTTTCCGTAGTCTCCCTCCTTTTTCTTCCTCATGCTATC
66 TGAAAGGGATACAAAAATGAAATTTCTTTTCCCTAGTCTCCCTCCTTTCTCTTCCACACACTAAC
* * * *
92980574 AGTCAAGAACTAGAATTTCTAACTGAATTGGGGAGAACATAACCTGTTTTAACTTCCATTGCTGA
131 AGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
92980639 TATTGA
196 TATTGA
* * * *
92980645 TTTTCTTTTTTT-ATTTGGTTATGCCATCTGTAACTGTTTTGTCATTCTTCTGTTCTTCCTCATG
1 TTTTATTTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTT-CTCATG
*
92980709 CTGAAAGGGATACAAAAATGAAATTTCTTTTCCACT-GTCTCCTTCCTTTCTCTTCTTCACACAC
65 CTGAAAGGGATACAAAAATGAAATTTCTTTTCC-CTAGTCTCCCTCCTTTCTCTTC--CACACAC
* * * *
92980773 TCAACAGTCAAGAACTAGAGTTTTTAACTG-ATATAGGGAGAACACAACTTGTGTTAGCTTCCAT
127 T-AACAGTCAAGAACTAGAATTTCTAACTGAAT-TAGGGAGAACACAACCTGTGTTAACTTCCAT
*
92980837 TGCTAATATTTA
190 TGCTAATATTGA
92980849 TTT
1 TTT
92980852 ATTAACATAC
Statistics
Matches: 175, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
200 41 0.23
201 62 0.35
202 1 0.01
203 7 0.04
204 64 0.37
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (201 bp):
TTTTATTTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGC
TGAAAGGGATACAAAAATGAAATTTCTTTTCCCTAGTCTCCCTCCTTTCTCTTCCACACACTAAC
AGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
TATTGA
Done.