Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 123 of 204
Found at i:37586587 original size:18 final size:18
Alignment explanation
Indices: 37586564--37586598 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37586554 ATGGCAAAAC
37586564 CTTAGTATGCTTACAAGA
1 CTTAGTATGCTTACAAGA
37586582 CTTAGTATGCTTACAAG
1 CTTAGTATGCTTACAAG
37586599 TCTCAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
CTTAGTATGCTTACAAGA
Found at i:37586958 original size:13 final size:13
Alignment explanation
Indices: 37586940--37586972 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
37586930 AAAATATCAA
37586940 CATCATTTAGCAT
1 CATCATTTAGCAT
37586953 CATCATTTAGCAT
1 CATCATTTAGCAT
37586966 CATCATT
1 CATCATT
37586973 CATAGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (13 bp):
CATCATTTAGCAT
Found at i:37599744 original size:29 final size:30
Alignment explanation
Indices: 37599687--37599757 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
37599677 ACAAATCAAG
*
37599687 AGAAAGAAAAGAAGAAAAATATGGAGAAAA
1 AGAAAGAAAAGAAGAAAAACATGGAGAAAA
*
37599717 AGAAAGAACAA-AAGAAAAACGT-GAGAAAA
1 AGAAAGAA-AAGAAGAAAAACATGGAGAAAA
*
37599746 AAAAAGCAAAAG
1 AGAAAG-AAAAG
37599758 GGATGATGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 14 0.40
30 19 0.54
31 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (30 bp):
AGAAAGAAAAGAAGAAAAACATGGAGAAAA
Found at i:37622439 original size:28 final size:29
Alignment explanation
Indices: 37622390--37622445 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
37622380 ATGTTTTCGT
* *
37622390 TGATGAATCTTTGAGATTTTAGGTGTTAAA
1 TGATGAA-CTTTGAGATATTAGATGTTAAA
*
37622420 TGATGAA-TTTGAGGTATTAGATGTTA
1 TGATGAACTTTGAGATATTAGATGTTA
37622446 TTTATAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
30 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (29 bp):
TGATGAACTTTGAGATATTAGATGTTAAA
Found at i:37626066 original size:45 final size:45
Alignment explanation
Indices: 37626015--37626152 Score: 267
Period size: 45 Copynumber: 3.1 Consensus size: 45
37626005 GTGTAATAAT
37626015 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
37626060 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
*
37626105 TACATTGTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
37626150 TAC
1 TAC
37626153 TCAATTAAGA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (45 bp):
TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
Found at i:37626096 original size:24 final size:24
Alignment explanation
Indices: 37626069--37626141 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
37626059 CTACATTTTT
37626069 ATTTCTCAAAATATCATTCGATTC
1 ATTTCTCAAAATATCATTCGATTC
* *** *
37626093 ATTTATC-TTTTCTACATT-G-TT-
1 ATTTCTCAAAATAT-CATTCGATTC
37626114 ATTTCTCAAAATATCATTCGATTC
1 ATTTCTCAAAATATCATTCGATTC
37626138 ATTT
1 ATTT
37626142 ATCTTTTCTA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 10 0.29
22 5 0.15
23 5 0.15
24 14 0.41
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTCTCAAAATATCATTCGATTC
Found at i:37636306 original size:51 final size:51
Alignment explanation
Indices: 37636234--37636380 Score: 210
Period size: 51 Copynumber: 2.9 Consensus size: 51
37636224 GTATGACTTT
37636234 ATTTAATGATG-AAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATA
1 ATTT-ATGATGCAAAA-TTTAACTAACATGAGAGTTACATAAAGCATGTCATA
* * *
37636286 ATTTATGATGCAAAATTTAACTAAAACGAGAGTAACATAAAGCATGTCATA
1 ATTTATGATGCAAAATTTAACTAACATGAGAGTTACATAAAGCATGTCATA
* *
37636337 ATTTATGATGC--AACTTAACTAACATGAGAGTTACATAATGCATG
1 ATTTATGATGCAAAATTTAACTAACATGAGAGTTACATAAAGCATG
37636381 ACTTTATTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
49 28 0.33
51 50 0.58
52 8 0.09
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (51 bp):
ATTTATGATGCAAAATTTAACTAACATGAGAGTTACATAAAGCATGTCATA
Found at i:37638197 original size:28 final size:29
Alignment explanation
Indices: 37638157--37638211 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
37638147 CTCTCTTTTA
37638157 TTTCTTTCACTCT-ATTT-TTCTTTTTCAG
1 TTTCTTTCACTCTCATTTCTT-TTTTTCAG
**
37638185 TTTCTTTTTCTCTCATTTCTTTTTTTC
1 TTTCTTTCACTCTCATTTCTTTTTTTC
37638212 TTATCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 10 0.43
30 2 0.09
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTCTTTCACTCTCATTTCTTTTTTTCAG
Found at i:37638246 original size:21 final size:19
Alignment explanation
Indices: 37638185--37638243 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
37638175 TCTTTTTCAG
37638185 TTTCTTTTTCTCTCATTTCT
1 TTTC-TTTTCTCTCATTTCT
* * *
37638205 TTTTTTCTTATCTCAAATTCT
1 TTTCTT-TTCTCTC-ATTTCT
37638226 TTTACTTTTCTCTCATTT
1 TTT-CTTTTCTCTCATTT
37638244 TCTCTCATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 14 0.47
22 2 0.07
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTTTTCTCTCATTTCT
Found at i:37650566 original size:50 final size:51
Alignment explanation
Indices: 37650507--37650613 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
37650497 AACACATGCT
*
37650507 TAAACTAAATGAACAAACAAGATGCTTAAATGCAAGACTTAA-TTAA-GATG
1 TAAACTAAATGAACAAACAAGATACTT-AATGCAAGACTTAATTTAATGATG
* * *
37650557 TAAACTAAATGAACAAACGAGTTACTTAATGCATGACTTAATTTAATGATG
1 TAAACTAAATGAACAAACAAGATACTTAATGCAAGACTTAATTTAATGATG
*
37650608 CAAACT
1 TAAACT
37650614 TTAACTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 13 0.26
50 28 0.56
51 9 0.18
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (51 bp):
TAAACTAAATGAACAAACAAGATACTTAATGCAAGACTTAATTTAATGATG
Found at i:37650643 original size:52 final size:51
Alignment explanation
Indices: 37650576--37650706 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 51
37650566 TGAACAAACG
*
37650576 AGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAAAATGAA
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAAAATGAA
* * * ** *
37650628 AGTTACATAAAGCATGTCATAATTT-ATGATGCAAACTTAACTACCATGAG
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAAAATGAA
*
37650678 AGTTACATAATGCATGACTTTATTTAATG
1 AGTTACATAATGCATGACTTAATTTAATG
37650707 CAAAACACAT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
50 32 0.48
51 14 0.21
52 21 0.31
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (51 bp):
AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAAAATGAA
Found at i:37650753 original size:33 final size:35
Alignment explanation
Indices: 37650704--37650771 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
37650694 ACTTTATTTA
* *
37650704 ATGCAAAACACATAATG-CATGTCATAATTAAAAG
1 ATGCAAAACACATAATGACAAGACATAATTAAAAG
*
37650738 ATGC-AAACACTTAATGATCAAGACATAATTAAAA
1 ATGCAAAACACATAATGA-CAAGACATAATTAAAA
37650772 ATTGTAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 11 0.38
34 4 0.14
35 14 0.48
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (35 bp):
ATGCAAAACACATAATGACAAGACATAATTAAAAG
Found at i:37658028 original size:37 final size:37
Alignment explanation
Indices: 37657978--37658051 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
37657968 ATTGCGATCA
*
37657978 ATTTTTGAAGGACTGCTGAAATTATTACAGAGTTTCT
1 ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
37658015 ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
1 ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
37658052 TCTTCCTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (37 bp):
ATTTTTAAAGGACTGCTGAAATTATTACAGAGTTTCT
Found at i:37664052 original size:51 final size:51
Alignment explanation
Indices: 37663995--37664228 Score: 289
Period size: 51 Copynumber: 4.6 Consensus size: 51
37663985 CCGGTTCACA
* *
37663995 TAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACG
* *** *
37664046 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-ATCCAGTATGCA--
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTTTCATCC-G-ATACACG
* * * *
37664097 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCA-TCCGATACACG
*
37664147 TAGTAGCCTACACATAGTACTACACACGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACG
37664198 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
37664229 TCTAGCAACT
Statistics
Matches: 154, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
48 4 0.03
49 2 0.01
50 34 0.22
51 102 0.66
52 8 0.05
53 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACG
Found at i:37664202 original size:101 final size:101
Alignment explanation
Indices: 37663992--37664223 Score: 301
Period size: 101 Copynumber: 2.3 Consensus size: 101
37663982 TACCCGGTTC
* * * *
37663992 ACATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTAC
*
37664057 ACATAGTACTACACACGTGATCGAAGCTATCCAGTAT
65 ACATAGTACTACACACGTGATCCAAGCTATCCAGTAT
* *
37664094 GCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTAC
***
37664158 ACATAGTACTACACACGTGA-CCATTTTCATCC-G-AT
65 ACATAGTACTACACACGTGATCCAAGCT-ATCCAGTAT
37664193 ACACGTAGTAGCCTGCACATAGTACTACACA
1 ACA--TAGTAGCCTGCACATAGTACTACACA
37664224 CGTGATCTAG
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
99 4 0.03
100 8 0.07
101 70 0.61
102 33 0.29
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCCAAGCTATCCAGTAT
Found at i:37665798 original size:13 final size:13
Alignment explanation
Indices: 37665780--37665808 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37665770 AGTTAAAATA
37665780 AATTATATGTACC
1 AATTATATGTACC
37665793 AATTATATGTACC
1 AATTATATGTACC
37665806 AAT
1 AAT
37665809 GTTACAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (13 bp):
AATTATATGTACC
Found at i:37672310 original size:16 final size:15
Alignment explanation
Indices: 37672287--37672331 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
37672277 AATTTTTGAA
*
37672287 AAATAATTATTTTAT
1 AAATAATTAATTTAT
37672302 AAATAAATTAATTTAT
1 AAAT-AATTAATTTAT
*
37672318 AAA-AATTAAATTAT
1 AAATAATTAATTTAT
37672332 TATTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 10 0.37
15 4 0.15
16 13 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATAATTAATTTAT
Found at i:37675046 original size:43 final size:43
Alignment explanation
Indices: 37674993--37675343 Score: 366
Period size: 43 Copynumber: 8.2 Consensus size: 43
37674983 TTTTAGAAAT
* * * *
37674993 AAACGCCGCTATAGAACAAGACCTTTAGCAGCACGTTTCACAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
*
37675036 AAACTCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTTC-CAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGC-TTTTCACAC
* * * *
37675079 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGTTTTTCACAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * *
37675122 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
* * ** * *
37675165 AAATGCTGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * * *
37675208 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGGTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
** * * *
37675251 AAACGCCGCTATA-AATCATCACTTTTAGTGGCACTTTTCTCAC
1 AAACGCCGCTATAGAA-CAAGACTTTTAGCGGCGCTTTTCACAC
* * * *
37675294 AAACGCCGCGAAAGATC-AGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
37675336 AAACGCCG
1 AAACGCCG
37675344 GTAAAAACAT
Statistics
Matches: 269, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
42 32 0.12
43 232 0.86
44 5 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGAACAAGACTTTTAGCGGCGCTTTTCACAC
Found at i:37675106 original size:86 final size:86
Alignment explanation
Indices: 37674993--37675348 Score: 419
Period size: 86 Copynumber: 4.2 Consensus size: 86
37674983 TTTTAGAAAT
* * * * * * * *
37674993 AAACGCCGCTATAGAACAAGACCTTTAGCAGCACGTTTCACACAAACTCCGCTATAGAACAAGAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCACTTTTCACACAAACGCCGCTATAGATCAAGAC
*
37675058 TTTTAGCGGCGCTTTTTCCAC
66 TTTTAGCGGCGCTTTTCCCAC
** * *
37675079 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGTTTTTCACACAAACGCCGCTATAGGTCATGAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCACTTTTCACACAAACGCCGCTATAGATCAAGAC
37675144 TTTTAGCGGCGCTTTTCCCAC
66 TTTTAGCGGCGCTTTTCCCAC
* * * * * * * *
37675165 AAATGCTGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCACTTTTCACACAAACGCCGCTATAGATCAAGAC
*
37675230 TTTTAGCGGCGGTTTTCCCAC
66 TTTTAGCGGCGCTTTTCCCAC
* * * * *
37675251 AAACGCCGCTATAA-ATCATCACTTTTAGTGGCACTTTTCTCACAAACGCCGCGAAAGATC-AGA
1 AAACGCCGCTA-AAGATCATGACTTTTAGCGGCACTTTTCACACAAACGCCGCTATAGATCAAGA
* *
37675314 CCTTTAGCGGCGCTTTTCACAC
65 CTTTTAGCGGCGCTTTTCCCAC
*
37675336 AAACGCCGGTAAA
1 AAACGCCGCTAAA
37675349 AACATATCTT
Statistics
Matches: 233, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
84 2 0.01
85 31 0.13
86 199 0.85
87 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGACTTTTAGCGGCACTTTTCACACAAACGCCGCTATAGATCAAGAC
TTTTAGCGGCGCTTTTCCCAC
Found at i:37675200 original size:129 final size:128
Alignment explanation
Indices: 37674970--37675348 Score: 440
Period size: 129 Copynumber: 2.9 Consensus size: 128
37674960 ACCGCCGCTA
* * * * * * * *
37674970 ACTTTT-GCGGCGTTTTTAGAAATAAACGCCGCTATAGAACAAGACCTTTAGCAGCACGTTTCAC
1 ACTTTTAGCGGCGTTTTT-CACACAAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCAC
*
37675034 ACAAACT-CCGCTATAGAACAAGACTTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCAT
65 ACAAA-TGCCGCTATAGATC-AGACTTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCAT
37675098 G
128 G
* * *
37675099 ACTTTTAGCGGCGTTTTTCACACAAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCA
1 ACTTTTAGCGGCGTTTTTCACACAAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCACA
* * * * *
37675164 CAAATGCTGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATG
66 CAAATGCCGCTATAGATCA-GACTTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATG
* * * * * *
37675228 ACTTTTAGCGGCGGTTTTCCCACAAACGCCGCTATAAATCATCACTTTTAGTGGCACTTTTCTCA
1 ACTTTTAGCGGCGTTTTTCACACAAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCACA
* * * * *
37675293 CAAACGCCGCGAAAGATCAGACCTTTAGCGGCGC-TTTTCACACAAACGCCGGTAAA
66 CAAATGCCGCTATAGATCAGACTTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAA
37675349 AACATATCTT
Statistics
Matches: 212, Mismatches: 34, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
127 4 0.02
128 30 0.14
129 167 0.79
130 11 0.05
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (128 bp):
ACTTTTAGCGGCGTTTTTCACACAAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCACA
CAAATGCCGCTATAGATCAGACTTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATG
Found at i:37675680 original size:43 final size:43
Alignment explanation
Indices: 37675614--37675700 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
37675604 ACATATGCAA
* *
37675614 GGTAATAAAACATACAATGCATTTTCTTAATC-AAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAAG-AAATCTT
* *
37675657 GGTAATAAAAGATATAATACATTTACTTAATCAAAGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAAGAAATCTT
37675700 G
1 G
37675701 TACATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 36 0.92
44 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAAGAAATCTT
Found at i:37679134 original size:7 final size:7
Alignment explanation
Indices: 37679121--37679157 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
37679111 AACCTTAAAT
37679121 CCCTAAC
1 CCCTAAC
*
37679128 TCCTAAC
1 CCCTAAC
37679135 CCCTAAC
1 CCCTAAC
37679142 CCCTAAC
1 CCCTAAC
*
37679149 TCCTAAC
1 CCCTAAC
37679156 CC
1 CC
37679158 TTAAACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.54, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:37679568 original size:14 final size:14
Alignment explanation
Indices: 37679551--37679604 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
37679541 CCCTAGCCTT
37679551 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
37679565 TAAACCATAACCCC
1 TAAACCATAAACCA
*
37679579 TAAACCCATAATCCA
1 TAAA-CCATAAACCA
*
37679594 TAAACCTTAAA
1 TAAACCATAAA
37679605 ATGGTAACAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:37679676 original size:13 final size:13
Alignment explanation
Indices: 37679658--37679684 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37679648 CCAAAAACCC
37679658 TATACTCTAACGA
1 TATACTCTAACGA
37679671 TATACTCTAACGA
1 TATACTCTAACGA
37679684 T
1 T
37679685 TATATAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (13 bp):
TATACTCTAACGA
Found at i:37679884 original size:42 final size:40
Alignment explanation
Indices: 37679836--37680067 Score: 157
Period size: 41 Copynumber: 5.6 Consensus size: 40
37679826 GCTAAAAATA
* * *
37679836 GAGCATTCGCGGAGCTTTATCAAAATCATCACTAAAAGCCCT
1 GAGCATTAGCGGAGCTTTCTCAAAAT-ACCACT-AAAGCCCT
* *
37679878 GAGCATTAGCGGCGCTTTCTCAAAAATACCGCTAAAGCCCT
1 GAGCATTAGCGGAGCTTTCTC-AAAATACCACTAAAGCCCT
* * **
37679919 GAGCATTAGCGGTGCTTTCTCAAAA-ACGCCGCTAAATTCCT
1 GAGCATTAGCGGAGCTTTCTCAAAATA--CCACTAAAGCCCT
* * * *
37679960 GAGCATTAGCGGCGCTTTCCCAACAA-ACGCCGCTAAATCCCT
1 GAGCATTAGCGGAGCTTTCTCAA-AATA--CCACTAAAGCCCT
* * * * *
37680002 GAGCATTCGCTGCGCTTTCTCAAAA-ACGCCGCTAAATCCCT
1 GAGCATTAGCGGAGCTTTCTCAAAATA--CCACTAAAGCCCT
* *
37680043 TAGCATTAGC-GACGCTTTCTTAAAA
1 GAGCATTAGCGGA-GCTTTCTCAAAA
37680068 ATGACGTTAA
Statistics
Matches: 167, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 97 0.58
42 59 0.35
43 5 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
GAGCATTAGCGGAGCTTTCTCAAAATACCACTAAAGCCCT
Found at i:37679926 original size:41 final size:41
Alignment explanation
Indices: 37679874--37680068 Score: 282
Period size: 41 Copynumber: 4.7 Consensus size: 41
37679864 TCACTAAAAG
** *
37679874 CCCTGAGCATTAGCGGCGCTTTCTCAAAAATACCGCTAAAG
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
*
37679915 CCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAT
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
* *
37679956 TCCTGAGCATTAGCGGCGCTTTCCCAACAAACGCCGCTAAAT
1 CCCTGAGCATTAGCGGCGCTTTCTCAA-AAACGCCGCTAAAT
* *
37679998 CCCTGAGCATTCGCTGCGCTTTCTCAAAAACGCCGCTAAAT
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
* * *
37680039 CCCTTAGCATTAGCGACGCTTTCTTAAAAA
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAA
37680069 TGACGTTAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 100 0.73
42 37 0.27
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (41 bp):
CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
Found at i:37679995 original size:83 final size:82
Alignment explanation
Indices: 37679874--37680061 Score: 277
Period size: 83 Copynumber: 2.3 Consensus size: 82
37679864 TCACTAAAAG
* * *
37679874 CCCTGAGCATTAGCGGCGCTTTCTCAAAAATACCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCT
1 CCCTGAGCATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
37679939 CAAAAACGCCGCTAAAT
66 CAAAAACGCCGCTAAAT
* * * * *
37679956 TCCTGAGCATTAGCGGCGCTTTCCCAACAAACGCCGCTAAATCCCTGAGCATTCGCTGCGCTTTC
1 CCCTGAGCATTAGCGGCGCTTTCCCAA-AAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
37680021 TCAAAAACGCCGCTAAAT
65 TCAAAAACGCCGCTAAAT
* *
37680039 CCCTTAGCATTAGCGACGCTTTC
1 CCCTGAGCATTAGCGGCGCTTTC
37680062 TTAAAAATGA
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 25 0.27
83 69 0.73
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (82 bp):
CCCTGAGCATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
CAAAAACGCCGCTAAAT
Found at i:37680220 original size:39 final size:40
Alignment explanation
Indices: 37680148--37680261 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
37680138 CGCTTTTTGG
* * *
37680148 AAAGCGCCGCTAATGCT-TATTTTTAGCTGCGTTTTCC-A
1 AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
*
37680186 AAAGTGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
1 AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
* *
37680226 AAAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTT
37680262 TTATCCAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 16 0.24
39 17 0.25
40 34 0.51
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
Found at i:37682386 original size:13 final size:13
Alignment explanation
Indices: 37682368--37682392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37682358 AGTCAAAAAA
37682368 TTGAATTTGAAAC
1 TTGAATTTGAAAC
37682381 TTGAATTTGAAA
1 TTGAATTTGAAA
37682393 ATTGGACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGAATTTGAAAC
Found at i:37682769 original size:8 final size:8
Alignment explanation
Indices: 37682756--37682783 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
37682746 AAAATAATAT
37682756 TATTTTAA
1 TATTTTAA
37682764 TATTTTAA
1 TATTTTAA
37682772 TATTTTAA
1 TATTTTAA
37682780 TATT
1 TATT
37682784 AAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:37682852 original size:31 final size:29
Alignment explanation
Indices: 37682817--37682874 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
37682807 AATAGTATTT
*
37682817 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
37682848 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
37682875 GTACATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:37689525 original size:15 final size:15
Alignment explanation
Indices: 37689505--37689534 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37689495 ATCCTAGACA
37689505 TGCACTTCTCATTAC
1 TGCACTTCTCATTAC
37689520 TGCACTTCTCATTAC
1 TGCACTTCTCATTAC
37689535 CACACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
TGCACTTCTCATTAC
Found at i:37689540 original size:15 final size:15
Alignment explanation
Indices: 37689507--37689541 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37689497 CCTAGACATG
**
37689507 CACTTCTCATTACTG
1 CACTTCTCATTACCA
37689522 CACTTCTCATTACCA
1 CACTTCTCATTACCA
37689537 CACTT
1 CACTT
37689542 TTTACGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.37
Consensus pattern (15 bp):
CACTTCTCATTACCA
Found at i:37717974 original size:12 final size:13
Alignment explanation
Indices: 37717944--37717975 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37717934 TTATTTCAAA
37717944 AATATTTAATATT
1 AATATTTAATATT
37717957 AA-ATTTAATA-T
1 AATATTTAATATT
37717968 AATATTTA
1 AATATTTA
37717976 GCTTGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTTAATATT
Found at i:37719893 original size:18 final size:18
Alignment explanation
Indices: 37719866--37719901 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37719856 AATAGTATAG
* *
37719866 CAATTCGGTATTGTTTTA
1 CAATTAGGTATCGTTTTA
37719884 CAATTAGGTATCGTTTTA
1 CAATTAGGTATCGTTTTA
37719902 GTATCGATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (18 bp):
CAATTAGGTATCGTTTTA
Found at i:37722188 original size:16 final size:16
Alignment explanation
Indices: 37722167--37722201 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37722157 AGTCCTTGTA
37722167 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
37722183 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
37722199 ATT
1 ATT
37722202 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:37727963 original size:17 final size:18
Alignment explanation
Indices: 37727941--37727974 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37727931 TTTTTCTTTT
37727941 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
37727958 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
37727975 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:37727971 original size:6 final size:6
Alignment explanation
Indices: 37727962--37728057 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
37727952 TCAATCTCAA
* * ** **
37727962 TTTCTT TTTCAAT TTTC-T TTTCTT CACTTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTCTT TTTCTT ---TTTCTT TTTCTT TTTCTT TTTCTT
* ** * *
37728013 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTGCGT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
37728058 TGATTTCATT
Statistics
Matches: 64, Mismatches: 21, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
5 5 0.08
6 48 0.75
7 5 0.08
9 6 0.09
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.69
Consensus pattern (6 bp):
TTTCTT
Found at i:37727992 original size:27 final size:28
Alignment explanation
Indices: 37727933--37727998 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
37727923 TCAACATCTT
37727933 TTTCTTTTTCAATTTTTTCTCAATCTCAA
1 TTTCTTTTTCAATTTTTTCTC-ATCTCAA
* *
37727962 TTTCTTTTTCAATTTTCTTTTC-T-TCAC
1 TTTCTTTTTCAATTTT-TTCTCATCTCAA
37727989 TTTCTTTTTC
1 TTTCTTTTTC
37727999 TCTCACTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 13 0.38
28 1 0.03
29 16 0.47
30 4 0.12
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTCTTTTTCAATTTTTTCTCATCTCAA
Found at i:37727994 original size:14 final size:16
Alignment explanation
Indices: 37727975--37728007 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37727965 CTTTTTCAAT
37727975 TTTC-TTTTCT-TCAC
1 TTTCTTTTTCTCTCAC
37727989 TTTCTTTTTCTCTCAC
1 TTTCTTTTTCTCTCAC
37728005 TTT
1 TTT
37728008 TTCGATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCTTTTTCTCTCAC
Found at i:37728025 original size:18 final size:18
Alignment explanation
Indices: 37728004--37728057 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
37727994 TTTTCTCTCA
*
37728004 CTTTTTCGATTTCTTTTT
1 CTTTTGCGATTTCTTTTT
*
37728022 CTTTTGCAATTTCTTTTT
1 CTTTTGCGATTTCTTTTT
*
37728040 CTTTTGCGTTTTCTTTTT
1 CTTTTGCGATTTCTTTTT
37728058 TGATTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.06, C:0.17, G:0.07, T:0.70
Consensus pattern (18 bp):
CTTTTGCGATTTCTTTTT
Found at i:37731167 original size:28 final size:27
Alignment explanation
Indices: 37731122--37731188 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
37731112 TTTTGTGATA
* * *
37731122 AATGTGTTTTATTCTATTACATGTTATT
1 AATGTGTCTAATTCTATTACATGCT-TT
*
37731150 AATGTGTCTAATTTTATTACATGCTTT
1 AATGTGTCTAATTCTATTACATGCTTT
37731177 AATGATGTCTAA
1 AATG-TGTCTAA
37731189 GTCATAGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (27 bp):
AATGTGTCTAATTCTATTACATGCTTT
Found at i:37733021 original size:28 final size:28
Alignment explanation
Indices: 37732980--37733176 Score: 304
Period size: 28 Copynumber: 7.0 Consensus size: 28
37732970 TTCAGTAACA
* * *
37732980 AACAGTGTGGGCCTTAGCCCAATATAGC
1 AACAATGTGGGCCTTAGCCCAATACAGT
* *
37733008 AACAATATAGGCCTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
*
37733036 AACAATGTGGGCCTTAGCCCAATACAAT
1 AACAATGTGGGCCTTAGCCCAATACAGT
*
37733064 AACAATGTGGGCCTTAGCCCAATATAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
*
37733092 AACAATGTGGGCCTTAGCCCAATACAAT
1 AACAATGTGGGCCTTAGCCCAATACAGT
* *
37733120 AACAATGTGCGCTTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
37733148 AACAATGTGGGCCTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
37733176 A
1 A
37733177 TCGGTACAGT
Statistics
Matches: 152, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 152 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (28 bp):
AACAATGTGGGCCTTAGCCCAATACAGT
Found at i:37733693 original size:27 final size:27
Alignment explanation
Indices: 37733539--37733704 Score: 215
Period size: 27 Copynumber: 6.1 Consensus size: 27
37733529 TATAACTGTT
* *
37733539 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
*
37733566 ATTTTACCCTATGGGGGTAATTCAGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
* * *
37733593 ATTTTACCTTGTGGGGGTAATTCGATC
1 ATTTTACCCTATGGGGGTAATTCGGTC
* * *
37733620 ATTTTACCTTATGGGGGTAATTCAGTT
1 ATTTTACCCTATGGGGGTAATTCGGTC
*
37733647 ATTTTACCCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
* * *
37733674 ATTTTACCCTGTGAGGGTAATTTGGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
37733701 ATTT
1 ATTT
37733705 ATTGACCTCT
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTAATTCGGTC
Found at i:37736888 original size:14 final size:14
Alignment explanation
Indices: 37736869--37736896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37736859 TTTTTAATAT
37736869 GATTGATATGTTGA
1 GATTGATATGTTGA
37736883 GATTGATATGTTGA
1 GATTGATATGTTGA
37736897 TATGTATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GATTGATATGTTGA
Found at i:37744485 original size:422 final size:422
Alignment explanation
Indices: 37743687--37744534 Score: 1491
Period size: 422 Copynumber: 2.0 Consensus size: 422
37743677 ACATGTCATT
*
37743687 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTTATAGACAGAGA
1 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
*
37743752 TGTTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
66 TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
*
37743817 GCTAATGATGAGCTAAATTTCATAAAGGTTAGATTAGAGGTTCATAATCTTATATTAATAATGAA
131 GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGGTTCATAATCTTATATTAATAATGAA
37743882 TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
196 TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
* *
37743947 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTGAAGAGTTTAG
261 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
* *
37744012 CGGATGAATGAGTAATAATGTGGCCATAGTTGAGATATAGTTAGAAAATAAACAGATTTCTGAGT
326 CAGATGAATGAGTAATAATGTGGCCATAGTCGAGATATAGTTAGAAAATAAACAGATTTCTGAGT
* *
37744077 TAGATATTAGATCTTTCTGAAGATTATCTAAG
391 TAGATATTAGATCTTTCTAAAAATTATCTAAG
37744109 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
1 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
* *
37744174 TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTTGAATATCTGATTAAAATGTT
66 TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
* * *
37744239 GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGTTTCATAATGTTATGTTAATAATGAA
131 GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGGTTCATAATCTTATATTAATAATGAA
* *
37744304 TGTTATGTTTGATGTGTTCACATGAGAATTAAATTTTGTGGCATTACGATCTCCACCCCCTCGTT
196 TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
37744369 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
261 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
* * * *
37744434 TAGATGAATGAGTAATAATGTGGTCATAGTCGAGAGT-TGGTTAGCAAATAAACAGATTTCTGAG
326 CAGATGAATGAGTAATAATGTGGCCATAGTCGAGA-TATAGTTAGAAAATAAACAGATTTCTGAG
*
37744498 TTAGATATTAGATCTTTCTAAAAATTATCTGAG
390 TTAGATATTAGATCTTTCTAAAAATTATCTAAG
37744531 ATAT
1 ATAT
37744535 GCAATGTCAA
Statistics
Matches: 404, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
422 403 1.00
423 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (422 bp):
ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGGTTCATAATCTTATATTAATAATGAA
TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
CAGATGAATGAGTAATAATGTGGCCATAGTCGAGATATAGTTAGAAAATAAACAGATTTCTGAGT
TAGATATTAGATCTTTCTAAAAATTATCTAAG
Found at i:37747308 original size:6 final size:6
Alignment explanation
Indices: 37747294--37747345 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
37747284 ATCAAAAAGC
*
37747294 ATAAAA ATAACA ATAAAA ATAAAA AT-AAA AT-AAA ATAAAA A-ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA
37747340 ATAAAA
1 ATAAAA
37747346 TGAATAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 11 0.27
6 29 0.71
7 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:37747317 original size:17 final size:16
Alignment explanation
Indices: 37747294--37747346 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 16
37747284 ATCAAAAAGC
37747294 ATAAAAATAACAATAAAA
1 ATAAAAATAA-AAT-AAA
37747312 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
37747328 ATAAAAAATAAAATAAA
1 AT-AAAAATAAAATAAA
37747345 AT
1 AT
37747347 GAATAGATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.15
17 19 0.56
18 10 0.29
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAAATAAAATAAA
Found at i:37747323 original size:5 final size:5
Alignment explanation
Indices: 37747297--37747346 Score: 55
Period size: 5 Copynumber: 9.0 Consensus size: 5
37747287 AAAAAGCATA
37747297 AAAAT AACAAT AAAAAT AAAAAT AAAAT AAAAT AAAAAAT AAAAT AAAAT
1 AAAAT AA-AAT -AAAAT -AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT
37747347 GAATAGATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 22 0.54
6 12 0.29
7 7 0.17
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:37749072 original size:21 final size:21
Alignment explanation
Indices: 37749048--37749090 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37749038 ATAAGTAACA
37749048 AATAAAAATAAT-AAGAATAAG
1 AATAAAAATAATAAAGAA-AAG
**
37749069 AATAATGATAATAAAGAAAAG
1 AATAAAAATAATAAAGAAAAG
37749090 A
1 A
37749091 GAGGGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.19
Consensus pattern (21 bp):
AATAAAAATAATAAAGAAAAG
Found at i:37752809 original size:19 final size:19
Alignment explanation
Indices: 37752777--37752815 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37752767 AGAATATTTT
37752777 AGAGAATGATGGATGAGTG
1 AGAGAATGATGGATGAGTG
37752796 AGAG-ATGATGGGATGAGTG
1 AGAGAATGAT-GGATGAGTG
37752815 A
1 A
37752816 TGATTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.21
Consensus pattern (19 bp):
AGAGAATGATGGATGAGTG
Found at i:37756403 original size:26 final size:27
Alignment explanation
Indices: 37756320--37756433 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 27
37756310 AATGGGCCAC
* * *
37756320 AAATGACCGAATTACCCCCAAATGATA
1 AAATGACCGAATTACCCGCAAAGGGTA
* ***
37756347 AAATGACTGAATTACCCTTGAAGGGTA
1 AAATGACCGAATTACCCGCAAAGGGTA
*
37756374 AAATAACCGAATTACCC-CAAAGGGTA
1 AAATGACCGAATTACCCGCAAAGGGTA
* * *
37756400 AAATGACCCAATTACCCGTATAGGGTA
1 AAATGACCGAATTACCCGCAAAGGGTA
37756427 AAATGAC
1 AAATGAC
37756434 TATTATACCC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.31
27 50 0.69
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCGCAAAGGGTA
Found at i:37756406 original size:53 final size:54
Alignment explanation
Indices: 37756320--37756430 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 54
37756310 AATGGGCCAC
* * ** *
37756320 AAATGACCGAATTACCCCCAAATGATAAAATGACTGAATTACCCTTGA-AGGGTA
1 AAATAACCGAATTACCCCCAAAGGATAAAATGACCCAATTACCCGT-ATAGGGTA
*
37756374 AAATAACCGAATTA-CCCCAAAGGGTAAAATGACCCAATTACCCGTATAGGGTA
1 AAATAACCGAATTACCCCCAAAGGATAAAATGACCCAATTACCCGTATAGGGTA
37756427 AAAT
1 AAAT
37756431 GACTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.02
53 36 0.72
54 13 0.26
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATAACCGAATTACCCCCAAAGGATAAAATGACCCAATTACCCGTATAGGGTA
Found at i:37756651 original size:40 final size:40
Alignment explanation
Indices: 37756593--37756670 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
37756583 TACTATACTA
* *
37756593 GTGGCTTTGCCACTTATACTGTTACTGGCAGCTTTACTGT
1 GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACTGT
37756633 GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACT
1 GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACT
37756671 TCGTTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (40 bp):
GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACTGT
Found at i:37757532 original size:27 final size:26
Alignment explanation
Indices: 37757494--37757637 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 26
37757484 AATGGGTTAC
37757494 AAATGA-TCGAATTACCCCCGAAAGGTA
1 AAATGACT-GAATTACCCCC-AAAGGTA
*
37757521 AAATGACTGAATTACCCCAAAAGAGTA
1 AAATGACTGAATTACCCCCAAAG-GTA
* ** * *
37757548 AAGTGACCAAATTACCCCTGAAGGGTA
1 AAATGACTGAATTACCCC-CAAAGGTA
* *
37757575 AAATGACTAAAATACCCCCAAAGGGTA
1 AAATGACTGAATTACCCCCAAA-GGTA
* *
37757602 AAATGACCGAATTACCCCCATAGGGTA
1 AAATGACTGAATTACCCCCA-AAGGTA
37757629 AAATGACTG
1 AAATGACTG
37757638 TTATACCCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.06
27 85 0.89
28 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AAATGACTGAATTACCCCCAAAGGTA
Found at i:37757575 original size:54 final size:53
Alignment explanation
Indices: 37757494--37757646 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 53
37757484 AATGGGTTAC
* * * *
37757494 AAATGATCGAATTACCCCCGAAAGGTAAAATGACTGAATTACCCCAAAAGAGTA
1 AAATGACCAAATTA-CCCCGAAGGGTAAAATGACTGAAATACCCCAAAAGAGTA
* * * *
37757548 AAGTGACCAAATTACCCCTGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTA
1 AAATGACCAAATTACCCC-GAAGGGTAAAATGACTGAAATACCCCAAAAGAGTA
* * **
37757602 AAATGACCGAATTACCCCCATAGGGTAAAATGACTGTTATACCCC
1 AAATGACCAAATTACCCCGA-AGGGTAAAATGACTGAAATACCCC
37757647 TAGGACTTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (53 bp):
AAATGACCAAATTACCCCGAAGGGTAAAATGACTGAAATACCCCAAAAGAGTA
Found at i:37764640 original size:21 final size:19
Alignment explanation
Indices: 37764606--37764644 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
37764596 ATAGATTTTA
37764606 GTAAAATTAAACATAAATT
1 GTAAAATTAAACATAAATT
37764625 GTAACAATTATAACATAAAT
1 GTAA-AATTA-AACATAAAT
37764645 AAACTAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (19 bp):
GTAAAATTAAACATAAATT
Found at i:37765897 original size:14 final size:14
Alignment explanation
Indices: 37765878--37765905 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37765868 CGAATTTATC
37765878 AATGAATTATTAAA
1 AATGAATTATTAAA
37765892 AATGAATTATTAAA
1 AATGAATTATTAAA
37765906 CATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:37770043 original size:20 final size:19
Alignment explanation
Indices: 37770020--37770084 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
37770010 AAGCTCAAAC
37770020 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
37770040 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
37770060 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
37770080 GAGCT
1 GAGCT
37770085 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:37779036 original size:20 final size:20
Alignment explanation
Indices: 37778922--37779048 Score: 110
Period size: 20 Copynumber: 6.3 Consensus size: 20
37778912 TTGTACGGGA
** *
37778922 TTTGCACTTTAGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
37778942 TTTGCACTTAGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
**
37778962 TTTGCACTTCGGTATCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
37778982 TTTGCACTACGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * ** *
37779002 CTTGTAGATCCGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
37779022 TATGCACTTTGGTGCCCCTG
1 TTTGCACTTCGGTGCCTCTG
37779042 TTATGCA
1 TT-TGCA
37779049 TCTATGATGC
Statistics
Matches: 82, Mismatches: 24, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
20 78 0.95
21 4 0.05
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:37781498 original size:30 final size:30
Alignment explanation
Indices: 37781455--37781531 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
37781445 TCGACACGGG
* *
37781455 ATGGCACATGCCCGTGTGGCTCACACTGGCTT
1 ATGGC-CA-GCCCGTGTGGCTCACACGGGCAT
37781487 ATGGCCAGCCCGTGTGGCTCACACGGGCAT
1 ATGGCCAGCCCGTGTGGCTCACACGGGCAT
* *
37781517 ATGGCTAGCCTGTGT
1 ATGGCCAGCCCGTGT
37781532 AGGAATGCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 34 0.83
31 2 0.05
32 5 0.12
ACGTcount: A:0.16, C:0.30, G:0.31, T:0.23
Consensus pattern (30 bp):
ATGGCCAGCCCGTGTGGCTCACACGGGCAT
Found at i:37783402 original size:17 final size:16
Alignment explanation
Indices: 37783364--37783407 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
37783354 ATAAGTCTAA
37783364 GAAAATAAAAAATAAAT
1 GAAAAT-AAAAATAAAT
37783381 GAAAACTAAAAATAAAAT
1 GAAAA-TAAAAAT-AAAT
37783399 -AAAATAAAA
1 GAAAATAAAA
37783408 TAGACTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
GAAAATAAAAATAAAT
Found at i:37803978 original size:35 final size:35
Alignment explanation
Indices: 37803936--37804008 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
37803926 TTGAAGTTAG
37803936 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
1 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
37803971 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
1 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
37804006 TTT
1 TTT
37804009 ATTTTGTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.53
Consensus pattern (35 bp):
TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
Found at i:37811904 original size:128 final size:128
Alignment explanation
Indices: 37811672--37812196 Score: 874
Period size: 128 Copynumber: 4.1 Consensus size: 128
37811662 CACGATTCAT
*
37811672 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTTTGAGTGTAAGTTTGCTC
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
* *
37811737 ATACTTATGTTTAAATTCTAAAATATGTGCTTATGTGTTGCAGAAATGAAAACTAAGATGTGA
66 ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
* *
37811800 TGCCTAAATTGGGTAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCCT-AGTGTAAGTTTGCT
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATT-CTGAGTGTAAGTTTGCT
37811864 CATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
65 CATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
* **
37811928 TGCTTAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCCAAGTGTAAGTTTGCTC
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
*
37811993 ATACTTATGTTTAAATTCTGAAATATATGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
66 ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
* * *
37812056 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTGTTCAAAATTTTGAGTGTAAGTTTGCTC
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
* *
37812121 ATACTTAGGTTTAAATTCTGAAATATGTGGTTATGTGTTGC-GAGAATGAAAACTAAGATGTGA
66 ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGA-AATGAAAACTAAGATGTGA
37812184 TGCTATGAAATTG
1 TGC-AT-AAATTG
37812197 TTATATGCTT
Statistics
Matches: 374, Mismatches: 18, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
127 3 0.01
128 362 0.97
129 3 0.01
130 6 0.02
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (128 bp):
TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
Found at i:37820523 original size:17 final size:17
Alignment explanation
Indices: 37820490--37820523 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37820480 GTTGTTGTAA
*
37820490 ATTATTTATTTTAAATT
1 ATTATTTACTTTAAATT
*
37820507 ATTATTTACTTTGAATT
1 ATTATTTACTTTAAATT
37820524 GATTTGCATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTATTTACTTTAAATT
Found at i:37845475 original size:25 final size:25
Alignment explanation
Indices: 37845415--37845475 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
37845405 TGTATGCCCT
* *
37845415 CACGAGCTGTAAATCAGAATGCTCA
1 CACGAGCTGTGAATCAGAATACTCA
*
37845440 CACGAGCTGTGAATTAGAATACTCA
1 CACGAGCTGTGAATCAGAATACTCA
*
37845465 CATGAGCTGTG
1 CACGAGCTGTG
37845476 GAGTATCCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
CACGAGCTGTGAATCAGAATACTCA
Found at i:37864281 original size:28 final size:30
Alignment explanation
Indices: 37864236--37864291 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
37864226 ATTTATATTA
* *
37864236 ATTTTAATTTTTATAAT-ATAAAAATAAAT
1 ATTTTAATATTTACAATAATAAAAATAAAT
37864265 ATTTT-ATATTTACAATAATAAAAATAA
1 ATTTTAATATTTACAATAATAAAAATAA
37864292 CTTAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTTAATATTTACAATAATAAAAATAAAT
Found at i:37866825 original size:13 final size:13
Alignment explanation
Indices: 37866807--37866831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37866797 GTTATAAAAA
37866807 TATATATATTAAT
1 TATATATATTAAT
37866820 TATATATATTAA
1 TATATATATTAA
37866832 ATAATTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATTAAT
Found at i:37869047 original size:31 final size:31
Alignment explanation
Indices: 37869009--37869070 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
37868999 TCATAGATTC
37869009 TTTTACGGTAAAGTTGACATGATTTTAACAG
1 TTTTACGGTAAAGTTGACATGATTTTAACAG
*
37869040 TTTTACGGTAAAGTTGTCATGATTTTAACAG
1 TTTTACGGTAAAGTTGACATGATTTTAACAG
37869071 AATCAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (31 bp):
TTTTACGGTAAAGTTGACATGATTTTAACAG
Found at i:37870862 original size:21 final size:22
Alignment explanation
Indices: 37870829--37870869 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37870819 TATATGTGTT
37870829 TTAAATTGTTAA-TTAATAAGA
1 TTAAATTGTTAATTTAATAAGA
37870850 TTAAACTTG-TAATTTAATAA
1 TTAAA-TTGTTAATTTAATAA
37870870 ATAACTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TTAAATTGTTAATTTAATAAGA
Found at i:37877775 original size:29 final size:29
Alignment explanation
Indices: 37877737--37877796 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
37877727 CAGATCAATT
37877737 ATATCATAAATAAAACCTTCCAATAATCA
1 ATATCATAAATAAAACCTTCCAATAATCA
37877766 ATATCATAAATAAAACCTTCCAATAATCA
1 ATATCATAAATAAAACCTTCCAATAATCA
37877795 AT
1 AT
37877797 CATGTCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (29 bp):
ATATCATAAATAAAACCTTCCAATAATCA
Found at i:37879667 original size:25 final size:25
Alignment explanation
Indices: 37879639--37879709 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
37879629 TAACTATAAT
37879639 TGCTCACACGAGCTATGAAAACAAA
1 TGCTCACACGAGCTATGAAAACAAA
* **
37879664 TGCTCACATGAGCTATGAAAGTAAA
1 TGCTCACACGAGCTATGAAAACAAA
* *
37879689 TGTTCACACGATCTATGAAAA
1 TGCTCACACGAGCTATGAAAA
37879710 TCAGTCTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (25 bp):
TGCTCACACGAGCTATGAAAACAAA
Found at i:37880804 original size:27 final size:28
Alignment explanation
Indices: 37880744--37880804 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
37880734 CCATAGATCA
37880744 CCACAAAGGCTTCCATTTCATAGATTGT
1 CCACAAAGGCTTCCATTTCATAGATTGT
** * *
37880772 -TGCAAAGTCTTCCATTTCTTAGATT-T
1 CCACAAAGGCTTCCATTTCATAGATTGT
37880798 CCACAAA
1 CCACAAA
37880805 TATTTCCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
CCACAAAGGCTTCCATTTCATAGATTGT
Found at i:37883767 original size:16 final size:16
Alignment explanation
Indices: 37883746--37883776 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37883736 AAAACTACTG
37883746 ACTTTAGGGTTAAACC
1 ACTTTAGGGTTAAACC
37883762 ACTTTAGGGTTAAAC
1 ACTTTAGGGTTAAAC
37883777 TGCCTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
ACTTTAGGGTTAAACC
Found at i:37888915 original size:35 final size:35
Alignment explanation
Indices: 37888851--37888917 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
37888841 GGAAATACCA
* *
37888851 TGTAAATGGTATATAGGTCATTCGAGGTGACATAG
1 TGTAAACGGTATATAGGTCACTCGAGGTGACATAG
*
37888886 TGTAAACGGTATATCGGTCACTC-AGGGTGACA
1 TGTAAACGGTATATAGGTCACTCGA-GGTGACA
37888918 CCTTGAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (35 bp):
TGTAAACGGTATATAGGTCACTCGAGGTGACATAG
Found at i:37893594 original size:23 final size:22
Alignment explanation
Indices: 37893528--37893595 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
37893518 GATATTTGTG
* *
37893528 AAGCCTTTGTGGTGTATCTAGT
1 AAGCCTTTGTGGCGTATCTATT
*
37893550 AGAGCCTTTGTGGCATAATCTATT
1 A-AGCCTTTGTGGCGT-ATCTATT
37893574 AAGCCTTTGTGGCGTATTCTAT
1 AAGCCTTTGTGGCGTA-TCTAT
37893596 AACGCCTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 2 0.05
23 30 0.77
24 7 0.18
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (22 bp):
AAGCCTTTGTGGCGTATCTATT
Found at i:37895250 original size:7 final size:7
Alignment explanation
Indices: 37895220--37895253 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
37895210 AATATAATTG
37895220 AAATTTA
1 AAATTTA
*
37895227 AAGTTTA
1 AAATTTA
*
37895234 AAGTTTA
1 AAATTTA
37895241 AAATTTA
1 AAATTTA
37895248 AAATTT
1 AAATTT
37895254 GTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:37895878 original size:14 final size:14
Alignment explanation
Indices: 37895859--37895896 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
37895849 TGTTTTATAG
37895859 AAAATGACTTCTGA
1 AAAATGACTTCTGA
* *
37895873 AAAATGATTTCTGG
1 AAAATGACTTCTGA
37895887 AAAATGACTT
1 AAAATGACTT
37895897 ACTTTCCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (14 bp):
AAAATGACTTCTGA
Found at i:37898061 original size:21 final size:21
Alignment explanation
Indices: 37898037--37898087 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
37898027 TAAGTGTGCA
* *
37898037 ATTTCTCACTGCAGAGAAAGC
1 ATTTCTCACTACAGAAAAAGC
37898058 ATTTCTCACTACAGAAAAAGC
1 ATTTCTCACTACAGAAAAAGC
37898079 ATTT-TCACT
1 ATTTCTCACT
37898088 TAGATAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (21 bp):
ATTTCTCACTACAGAAAAAGC
Found at i:37898865 original size:38 final size:38
Alignment explanation
Indices: 37898814--37898886 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
37898804 TTTTTTAAAT
37898814 GAAAATAAAACATTCATTCATTAATATATTTGTATTAA
1 GAAAATAAAACATTCATTCATTAATATATTTGTATTAA
*
37898852 GAAAATAAAACATTCATTCATTAATATCTTTGTAT
1 GAAAATAAAACATTCATTCATTAATATATTTGTAT
37898887 ATTTAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (38 bp):
GAAAATAAAACATTCATTCATTAATATATTTGTATTAA
Found at i:37904218 original size:6 final size:6
Alignment explanation
Indices: 37904207--37904234 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37904197 TATCTTAACA
37904207 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
37904235 CTCTCTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:37904901 original size:17 final size:18
Alignment explanation
Indices: 37904876--37904910 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37904866 CAATTTTGGT
*
37904876 GTGTGGGCC-ACACGGGC
1 GTGTCGGCCAACACGGGC
37904893 GTGTCGGCCAACACGGGC
1 GTGTCGGCCAACACGGGC
37904911 ATGTGGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.31, G:0.43, T:0.11
Consensus pattern (18 bp):
GTGTCGGCCAACACGGGC
Found at i:37916806 original size:39 final size:39
Alignment explanation
Indices: 37916755--37916899 Score: 182
Period size: 39 Copynumber: 3.7 Consensus size: 39
37916745 GTCTATAAAA
*
37916755 TGATTATATGAGTATTGGGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * **
37916794 TGATCATATGAGTATTGTGATATGTGCTTGAACATTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * * * *
37916833 TAATTATATGAGTATTATGATATATGCTTAAATGCTAAG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* *
37916872 TGATTATATGTGTAATGTGATATATGCT
1 TGATTATATGAGTATTGTGATATATGCT
37916900 CAAAAGTGAA
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (39 bp):
TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
Found at i:37919574 original size:18 final size:17
Alignment explanation
Indices: 37919537--37919589 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
37919527 CCTTCTTTTC
* *
37919537 TTTTCTTTTTATTATAT
1 TTTTCATTTTATTATTT
37919554 TTTTCATTTTATTAATTT
1 TTTTCATTTTATT-ATTT
37919572 TTTTCA-TTTATTATTT
1 TTTTCATTTTATTATTT
37919588 TT
1 TT
37919590 ACTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 6 0.18
17 18 0.55
18 9 0.27
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTTTATTATTT
Found at i:37920813 original size:43 final size:43
Alignment explanation
Indices: 37920758--37921266 Score: 680
Period size: 43 Copynumber: 11.8 Consensus size: 43
37920748 TTTTTATAAT
37920758 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * *
37920801 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* **
37920844 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGTATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * *
37920887 AAACACCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* **
37920930 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGTATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * *
37920973 AAACACCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* ** * *
37921016 AAACGCCGCTATAGACCATGGTCTTTAGAGGATCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
37921059 AAACGCCGCTATAGACCATGGTCTTTAGAGGCGCTTACCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * * *
37921102 AAACGTCGCTATAGCCCATGGTCTTTAGCGGCGCTTACCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
37921145 AAACGCCGCTATAGACCATGATCTTTCGCGGCGCTTA-CCAATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCC-ATC
* * * * *
37921188 AAATGCCGCTATAGACCTTGGTCTTTAGCGGCGCTTAACAAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
*
37921231 AAACGCCGCTATAG-CTCATGGTTTTTAGCGGCGCTT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
37921267 TTAGAAAAAC
Statistics
Matches: 413, Mismatches: 50, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
42 3 0.01
43 409 0.99
44 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
Found at i:37921699 original size:21 final size:21
Alignment explanation
Indices: 37921675--37921741 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
37921665 TTGAACCTCA
* *
37921675 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCAGCATCT
37921696 GCTTCTCTCGCTGCAGCATCT
1 GCTTCTCTCGCTGCAGCATCT
37921717 GCTTCTCTCGCTGCAGCATCT
1 GCTTCTCTCGCTGCAGCATCT
37921738 GCTT
1 GCTT
37921742 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.36
Consensus pattern (21 bp):
GCTTCTCTCGCTGCAGCATCT
Found at i:37921777 original size:108 final size:108
Alignment explanation
Indices: 37921585--37921802 Score: 332
Period size: 108 Copynumber: 2.0 Consensus size: 108
37921575 TTTAAGCTGT
* * *
37921585 TCTGCTTCCCTCGCTGCAGCCTCTGCTTCTCTTGCTGTCGCATCTGCTTTAAGTTGTTGCTGGAG
1 TCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGTTGTAGCTGGAG
* *
37921650 TTGTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCC
66 TTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCC
*
37921693 TCTGCTTCTCTCGCTGCAGCATCTGCTTCTCTCGCTG-CAGCATCTGCTTTAAGTTGTAGCTGGA
1 TCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGCTGTC-GCATCTGCTTTAAGTTGTAGCTGGA
* *
37921757 GTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCC
65 GTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCC
37921801 TC
1 TC
37921803 CACTTTAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 95 0.95
109 4 0.04
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.39
Consensus pattern (108 bp):
TCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGTTGTAGCTGGAG
TTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCC
Found at i:37925190 original size:14 final size:14
Alignment explanation
Indices: 37925171--37925208 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
37925161 GTGTTTAAAA
37925171 TTAAAATTTAATGT
1 TTAAAATTTAATGT
37925185 TTAAAATTTAATGT
1 TTAAAATTTAATGT
37925199 TTAAAATTTA
1 TTAAAATTTA
37925209 TTTGGTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
TTAAAATTTAATGT
Found at i:37926771 original size:16 final size:16
Alignment explanation
Indices: 37926750--37926780 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37926740 GTAAATGGAG
37926750 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
37926766 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
37926781 AAGGAAAAAT
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:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:37928354 original size:23 final size:23
Alignment explanation
Indices: 37928311--37928355 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37928301 TACTTTTGTA
*
37928311 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
37928334 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
37928356 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:37928738 original size:792 final size:791
Alignment explanation
Indices: 37927196--37928999 Score: 2954
Period size: 792 Copynumber: 2.2 Consensus size: 791
37927186 AATAAACGCC
37927196 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
1 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
* *
37927261 GTCTTTATTTATAAGTTTAATGATTTTTAATAGA-TTTTT-TTTTGATAATTGTTATGATATTAT
66 GTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
* *
37927324 TTTAAATTGATACATTAATATGCATTTATAAAATTATTTCAATTTTATGCAGTATATATAATATA
131 TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
37927389 TAACATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTCACTTATAATCC
196 TAACATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTCACTTATAATCC
* *
37927454 TATATATTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAATTTAAAAATTTTTTTTTGCTTTTG
261 TATATACTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAATTTAAAAATTTTTTTTTACTTTTG
37927519 TACCCTAAAACCCGAAGCTATTAATCCCTTATAACCCGTAAACATTAAAATTAAAGGCTCAAACC
326 TACCCTAAAACCCGAAGCTATTAATCCCTTATAACCCGTAAACATTAAAATTAAAGGCTCAAACC
* *
37927584 TAGCTAACTCGTATTCTTCATGCAAATCCGAACGCAAAAACCAAGCATTGTAACATTCAAATCAA
391 TAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAA
* *
37927649 TAAGGGTGAACCATAAACCATAAACATCAAGCCGTAAAACAGTAAATTTGATCATTACATCTTAT
456 TAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTACATCTTAT
* *
37927714 AAGCCGTAAACCTCGCATTAAACCTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCCA
521 AAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCCA
37927779 TAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCGA
586 TAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCGA
* *
37927844 ACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCTAATACCCTAAAATACATA
651 ACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATA
* * *
37927909 ACTTTCATTTGCGGCGTTTTTACAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGT
716 ACTCTCATTTACGACGTTTTTACAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGT
37927974 CGTTTCGGTT-
781 CGTTTCGGTTA
*
37927984 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTATTTTATTT
1 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
*
37928049 GTCTTTATTTATAAGTCTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
66 GTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
37928114 TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
131 TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
*
37928179 TAACATATATGCATAGATATATATCGTGGCATAT-TATATATATATAACCCTGTCTCTTATAATC
196 TAACATATATGCATAGATATATATCGTGGCATATAT-TATATATATAACCCTGTCACTTATAATC
* * **
37928243 CTATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTTACTTTT
260 CTATATACTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAATTTAAAAATTTTTTTTTACTTTT
37928308 GTACCCTAAAACCCGAAGCTATTAATCCC-TATAACCCGTAAACATTAAAATTAAAGGCT-AAAC
325 GTACCCTAAAACCCGAAGCTATTAATCCCTTATAACCCGTAAACATTAAAATTAAAGGCTCAAA-
37928371 CCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATC
389 CCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATC
*
37928436 AATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTAATATAT
454 AATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCA-T--TACAT
*
37928501 CTTATAAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACTCCATTCCTCA
516 CTTATAAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCA
* *
37928566 AGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTGTAATCCTAAATTAATAAACATTATGT
581 AGCCATAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGT
*
37928631 ATTGAACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAAT
646 ATCGAACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAAT
37928696 ACATAACTCTCATTTACGACGTTTTTACAAAAAACGCCGCTAATACCAATAAACAGTATAAAAAC
711 ACATAACTCTCATTTACGACGTTTTTACAAAAAACGCCGCTAATACCAATAAACAGTATAAAAAC
37928761 GAAGTCGTTTCGGTTACA
776 GAAGTCGTTTCGGTT--A
37928779 CATTTTGCGGCATTTTTGCAATAAACGCCACAAAGCTTGTTCTATAGCGGCGTTTTCTGTATAAG
1 -A--------CA-------AAT-------------CTTGTTCTATAGCGGCGTTTTCTGTATAAG
* *
37928844 CGCCGCTAATTTTTTAATTTATTTTATTTGTCTTTATTTATAAGTTTAATGAGTTTTAGTAGATT
37 CGCCGCTAATTTTTCAATTTATTTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATT
37928909 TTTTATTTTGATAATTGTTATGACATTATTTTAAATTGATACATTAATATGAATTTATAAAATTA
102 TTTTATTTTGATAATTGTTATGACATTATTTTAAATTGATACATTAATATGAATTTATAAAATTA
*
37928974 TTTCAATTTTATGCAGAATGTATAAT
167 TTTCAATTTTATGCAGTATGTATAAT
37929000 TTAAATATAA
Statistics
Matches: 943, Mismatches: 34, Indels: 42
0.93 0.03 0.04
Matches are distributed among these distances:
788 99 0.10
789 153 0.16
790 236 0.25
792 268 0.28
796 1 0.00
804 2 0.00
811 3 0.00
824 181 0.19
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (791 bp):
ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
GTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
TAACATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTCACTTATAATCC
TATATACTAGTGACATAATAAGAAGTAAAAAGAAGAAAGAATTTAAAAATTTTTTTTTACTTTTG
TACCCTAAAACCCGAAGCTATTAATCCCTTATAACCCGTAAACATTAAAATTAAAGGCTCAAACC
TAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAA
TAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTACATCTTAT
AAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCCA
TAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCGA
ACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATA
ACTCTCATTTACGACGTTTTTACAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGT
CGTTTCGGTTA
Found at i:37929298 original size:41 final size:41
Alignment explanation
Indices: 37929253--37929410 Score: 131
Period size: 41 Copynumber: 3.9 Consensus size: 41
37929243 TAGATTTTCT
* *
37929253 AATTAGCGGCGTTTTTACACAAACGCTGCTATAGACCGAAG
1 AATTAGCGGCGATTTTACACAAACGCCGCTATAGACCGAAG
* * * *
37929294 AATTACCGACGCTGTTACACAAACGCCGCTATAGACCGGAA-
1 AATTAGCGGCGATTTTACACAAACGCCGCTATAGACC-GAAG
* * * * * * *
37929335 CATTAGCGGCGATTCTCCATAAACGCCGCTTTAGAGCGGAG
1 AATTAGCGGCGATTTTACACAAACGCCGCTATAGACCGAAG
* * * *
37929376 CATTAGCGGCGGTTTGTA-AAAAATGCCGCTATAGA
1 AATTAGCGGCGATTT-TACACAAACGCCGCTATAGA
37929411 TCGGATTATT
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 2 0.02
41 86 0.93
42 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
AATTAGCGGCGATTTTACACAAACGCCGCTATAGACCGAAG
Found at i:37929720 original size:40 final size:38
Alignment explanation
Indices: 37929615--37929747 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 38
37929605 TGTTACTCTA
*
37929615 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTT
1 TTGCGGCG-TTTTTGTAAAACGCCGCTAATGCTTGATTT
* * *
37929654 TCGCGGCGTTTTTTTATGTAACGCCGCTAATGCTTGATATT
1 TTGCGGCGTTTTTGTA--AAACGCCGCTAATGCTTGAT-TT
* *
37929695 TTGCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGATTT
1 TTGCGGCGTTTTT-GTAAAACGCCGCTAATGCTTGATTT
*
37929734 TTAGTGGCGTTTTT
1 TT-GCGGCGTTTTT
37929748 TATCCAAACA
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
38 7 0.09
39 11 0.14
40 45 0.57
41 14 0.18
42 2 0.03
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (38 bp):
TTGCGGCGTTTTTGTAAAACGCCGCTAATGCTTGATTT
Found at i:37931139 original size:19 final size:19
Alignment explanation
Indices: 37931115--37931165 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
37931105 TCACATTAAC
37931115 AATTAATTATTTAAAAAAA
1 AATTAATTATTTAAAAAAA
*
37931134 AATTAA-AATATT-AAAAAA
1 AATTAATTAT-TTAAAAAAA
37931152 AATT-ATT-TTTAAAA
1 AATTAATTATTTAAAA
37931166 TAATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 2 0.07
17 5 0.19
18 12 0.44
19 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTAATTATTTAAAAAAA
Found at i:37931196 original size:20 final size:20
Alignment explanation
Indices: 37931169--37931212 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37931159 TTTAAAATAA
37931169 TTTTAATAAGTTTTA-AATT
1 TTTTAATAAGTTTTATAATT
*
37931188 TTTTAAATAATTTTTATAATT
1 TTTT-AATAAGTTTTATAATT
37931209 TTTT
1 TTTT
37931213 GAATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAATAAGTTTTATAATT
Found at i:37931219 original size:29 final size:28
Alignment explanation
Indices: 37931156--37931226 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
37931146 AAAAAAAATT
37931156 ATTTTTAAAATAATTTTAATAAGTTTTAA
1 ATTTTT-AAATAATTTTAATAAGTTTTAA
* * *
37931185 ATTTTTTAAATAATTTTTATAATTTTTTGA
1 A-TTTTTAAATAATTTTAATAA-GTTTTAA
37931215 A-TTTTAAATAAT
1 ATTTTTAAATAAT
37931227 AAATTAATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.30
29 15 0.41
30 11 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTTTAAATAATTTTAATAAGTTTTAA
Found at i:37931219 original size:30 final size:29
Alignment explanation
Indices: 37931156--37931211 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
37931146 AAAAAAAATT
*
37931156 ATTTTTAAAATAATTTTAATAAGTTTTAA
1 ATTTTTTAAATAATTTTAATAAGTTTTAA
* *
37931185 ATTTTTTAAATAATTTTTATAATTTTT
1 ATTTTTTAAATAATTTTAATAAGTTTT
37931212 TGAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTTTTAAATAATTTTAATAAGTTTTAA
Found at i:37939201 original size:172 final size:171
Alignment explanation
Indices: 37938879--37939209 Score: 454
Period size: 172 Copynumber: 1.9 Consensus size: 171
37938869 GACTAACGGA
* *
37938879 AAATGAAAACACTCTAAAATCTAATATAGTTTAGTGACTAGAATAATATAAATTTGAATAATTAA
1 AAATGAAAACACTCTAAAATCTAATATAGTTTAGTGACTAGAATAATACAAAATTGAATAATTAA
* * * * * *
37938944 ATGATTATATTGTAAATTTTCATAATTGAATGATAAAATAATTATGATTGAATGACTACTAATAT
66 ATAATCATATTGTAAATTTTCATAATTGAATGATAAAAAAATCATGATTAAATAACTACTAATAT
37939009 AATCTAGTTTTTTTCATAATCTTATCATAGCATGTTATATAG
131 AATCTA-TTTTTTTCATAATCTTATCATAGCATGTTATATAG
* * * * *
37939051 AAATGGAAGCACTCTAAAATTTAATATAG-TTACGTGGCTAGAATAATACAAAATTGAATAGTTA
1 AAATGAAAACACTCTAAAATCTAATATAGTTTA-GTGACTAGAATAATACAAAATTGAATAATTA
*
37939115 AATAATCATATTGTAACTTTTCATAATTTG-ATGATAAAAAAAACTCATGATTAAATAACTACTA
65 AATAATCATATTGTAAATTTTCATAA-TTGAATGAT-AAAAAAA-TCATGATTAAATAACTACTA
37939179 ATATAAT-T-TTTTTTTGCATAATCTTATCATA
127 ATATAATCTATTTTTTT-CATAATCTTATCATA
37939210 CCTTGTTTTA
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
171 10 0.07
172 96 0.69
173 10 0.07
174 24 0.17
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (171 bp):
AAATGAAAACACTCTAAAATCTAATATAGTTTAGTGACTAGAATAATACAAAATTGAATAATTAA
ATAATCATATTGTAAATTTTCATAATTGAATGATAAAAAAATCATGATTAAATAACTACTAATAT
AATCTATTTTTTTCATAATCTTATCATAGCATGTTATATAG
Found at i:37948676 original size:24 final size:24
Alignment explanation
Indices: 37948649--37948695 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
37948639 TTACACGATC
*
37948649 TAGCACACGGCCTGCGACACGGTT
1 TAGCACACGACCTGCGACACGGTT
*
37948673 TAGCACACGACCTGCGATACGGT
1 TAGCACACGACCTGCGACACGGT
37948696 CGTGTGACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (24 bp):
TAGCACACGACCTGCGACACGGTT
Found at i:37948755 original size:54 final size:54
Alignment explanation
Indices: 37948665--37948777 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
37948655 ACGGCCTGCG
* * * * *
37948665 ACACGGTTTAGCACACGACCTGCGATACGGTCGTGTGACACAAGTCAGAGAGTT
1 ACACGGTCTAGCACACGACCTACAACACGATCGTGTGACACAAGTCAGAGAGTT
* * * *
37948719 ACACGGTCTGGCACACGACCTACAACACGATTGTGTGACCCAAGTCAGTGAGTT
1 ACACGGTCTAGCACACGACCTACAACACGATCGTGTGACACAAGTCAGAGAGTT
37948773 ACACG
1 ACACG
37948778 ATTTAGGACA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (54 bp):
ACACGGTCTAGCACACGACCTACAACACGATCGTGTGACACAAGTCAGAGAGTT
Found at i:37958697 original size:30 final size:29
Alignment explanation
Indices: 37958644--37958856 Score: 324
Period size: 30 Copynumber: 7.2 Consensus size: 29
37958634 GAATAAACCC
*
37958644 AATACAGTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
37958675 AATACACTACATATAATTTTTTATTTTTAA
1 AATACACTACATAT-ATTTTTTATTTTTAA
*
37958705 AATACACTACATATA--TATT-TTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
37958731 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
37958760 AATACACTACATATATATTTTTATTTTTAA
1 AATACACTACATATAT-TTTTTATTTTTAA
37958790 AATACACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTT-TTTATTTTTAA
*
37958820 AATACATTACATATATATTTTTATTTTTAA
1 AATACACTACATATAT-TTTTTATTTTTAA
37958850 AATACAC
1 AATACAC
37958857 AAATACAATG
Statistics
Matches: 170, Mismatches: 5, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
26 22 0.13
27 3 0.02
28 3 0.02
29 26 0.15
30 100 0.59
31 15 0.09
32 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.50
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:37958789 original size:85 final size:88
Alignment explanation
Indices: 37958644--37958856 Score: 326
Period size: 85 Copynumber: 2.4 Consensus size: 88
37958634 GAATAAACCC
*
37958644 AATACAGTACATATATTTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATA
1 AATACACTACATATA--TTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATA
37958709 CACTACATATA-T-ATT-TTTTTAA
64 CACTACATATATTCATTATTTTTAA
37958731 AATACACTACATATATTTTTTATTTTTAAAATACACTACATAT-ATATTTTTATTTTTAAAATAC
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATAAT-TTTTTATTTTTAAAATAC
*
37958795 ACTACATATATTTCTTTATTTTTAA
65 ACTACATATA-TTCATTATTTTTAA
*
37958820 AATACATTACATATATATTTTTATTTTTAAAATACAC
1 AATACACTACATATAT-TTTTTATTTTTAAAATACAC
37958857 AAATACAATG
Statistics
Matches: 117, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
84 2 0.02
85 56 0.48
87 15 0.13
88 2 0.02
89 22 0.19
90 20 0.17
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.50
Consensus pattern (88 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACA
CTACATATATTCATTATTTTTAA
Found at i:37958949 original size:43 final size:43
Alignment explanation
Indices: 37958902--37958988 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
37958892 TTTCCATCGA
*
37958902 TTCCCCTCTTCCACCATGCCTTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCATGCCCTCCTCCCATTTCCCATTCCCAT
*
37958945 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCATGCCCTCCTCCCATTTCCCATTCCCAT
37958988 T
1 T
37958989 CCCATTTCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.10, C:0.52, G:0.03, T:0.34
Consensus pattern (43 bp):
TTCCCCTCTTCCACCATGCCCTCCTCCCATTTCCCATTCCCAT
Found at i:37958986 original size:6 final size:6
Alignment explanation
Indices: 37958969--37959007 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
37958959 CGTGCCCTCC
37958969 TCCCATT TCCCAT TCCCAT TCCCATT TCCCAT TCCCAT T
1 TCCCA-T TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT T
37959008 TACGGTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCAT
Found at i:37958987 original size:13 final size:13
Alignment explanation
Indices: 37958969--37959008 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
37958959 CGTGCCCTCC
37958969 TCCCATTTCCCA-T
1 TCCCA-TTCCCATT
37958982 TCCCATTCCCATT
1 TCCCATTCCCATT
37958995 TCCCATTCCCATT
1 TCCCATTCCCATT
37959008 T
1 T
37959009 ACGGTTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.15, C:0.45, G:0.00, T:0.40
Consensus pattern (13 bp):
TCCCATTCCCATT
Found at i:37958993 original size:19 final size:19
Alignment explanation
Indices: 37958969--37959007 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37958959 CGTGCCCTCC
37958969 TCCCATTTCCCATTCCCAT
1 TCCCATTTCCCATTCCCAT
37958988 TCCCATTTCCCATTCCCAT
1 TCCCATTTCCCATTCCCAT
37959007 T
1 T
37959008 TACGGTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (19 bp):
TCCCATTTCCCATTCCCAT
Found at i:37960547 original size:217 final size:218
Alignment explanation
Indices: 37960124--37960547 Score: 665
Period size: 217 Copynumber: 1.9 Consensus size: 218
37960114 TCATATAATG
* **
37960124 GTCTTCGCATATATTCCCCGACAGGCTTCCTTATTCATGGCTTCGATGAACTTCATTTTTGCCAT
1 GTCTTCGCATATATTCCCCGACAGGCTTCCTTATTCATGGCTCCGACAAACTTCATTTTTGCCAT
* *
37960189 AAGGCGTACCTATCCTCCACTGGATCATGCCATAGTTTGCTATGGACTTTTTACTCAGAGAAGTC
66 AAGACGTACCTATCCTCCACTGGATCATGCCATAGTTTGCCATGGACTTTTTACTCAGAGAAGTC
* * *
37960254 AGTGAACCTCTTTCGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACATGGTGTCACTCTGTA
131 AGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTCACTCTGTA
37960319 GAACCTGTAGACTGTTTCCTCAA
196 GAACCTGTAGACTGTTTCCTCAA
* * * *
37960342 GTCTTCTCATATATTCCCCGAC-GGCTT-CTCTATTTATTGCTCCGACAAACTTCATTTTTTCCA
1 GTCTTCGCATATATTCCCCGACAGGCTTCCT-TATTCATGGCTCCGACAAACTTCATTTTTGCCA
* *
37960405 TAAGACGTACCTATCCTCCACTGGATCATGCCATGGTTTGCCATGGACTTTTTACTTC-GAGGAG
65 TAAGACGTACCTATCCTCCACTGGATCATGCCATAGTTTGCCATGGACTTTTTAC-TCAGAGAAG
**
37960469 TCAGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTTGCTCTG
129 TCAGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTCACTCTG
37960534 TAGAACCTGTAGAC
194 TAGAACCTGTAGAC
37960548 CATTTCCATG
Statistics
Matches: 188, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
216 2 0.01
217 163 0.87
218 23 0.12
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (218 bp):
GTCTTCGCATATATTCCCCGACAGGCTTCCTTATTCATGGCTCCGACAAACTTCATTTTTGCCAT
AAGACGTACCTATCCTCCACTGGATCATGCCATAGTTTGCCATGGACTTTTTACTCAGAGAAGTC
AGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTCACTCTGTA
GAACCTGTAGACTGTTTCCTCAA
Found at i:37960585 original size:35 final size:35
Alignment explanation
Indices: 37960503--37960588 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
37960493 GCTTTGAAGT
**
37960503 GCCTATAAACCATTTACACGGTGTTGCTCTGTAGA
1 GCCTATAAACCATTTACACGGTGTTGCTCCATAGA
* * * * *
37960538 ACCTGTAGACCATTTCCATGGTGTTGCTCCATAGA
1 GCCTATAAACCATTTACACGGTGTTGCTCCATAGA
37960573 GCCTATAAACCATTTA
1 GCCTATAAACCATTTA
37960589 TCTTGCTAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (35 bp):
GCCTATAAACCATTTACACGGTGTTGCTCCATAGA
Found at i:37964031 original size:24 final size:24
Alignment explanation
Indices: 37964004--37964054 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
37963994 GTATAACTAG
37964004 CATTTTGTGGAGCACTTTTCAAAA
1 CATTTTGTGGAGCACTTTTCAAAA
37964028 CATTTTGTGGAGCACTTTTCAAAA
1 CATTTTGTGGAGCACTTTTCAAAA
37964052 CAT
1 CAT
37964055 CTTCAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (24 bp):
CATTTTGTGGAGCACTTTTCAAAA
Found at i:37972364 original size:50 final size:50
Alignment explanation
Indices: 37972253--37972431 Score: 139
Period size: 50 Copynumber: 3.6 Consensus size: 50
37972243 TTATGAAAGG
*** * **
37972253 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCAGGGGCACCAAGATGAGAAC
*** *
37972303 TCCCCCATAAGACCATGTTTGGGACATGGCAGGGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTTTGGGACATGGCAGGGGCACCAAGATGAGAAC
* * * * * * * ***
37972353 TCTCATGTAAGACCATATCTGGGATATGACTGTGGCTGTACA-A-GA-AAC
1 TCCCATGTAAGACCATGTTTGGGACATGGCAGGGGCACCA-AGATGAGAAC
37972401 ATCCCATGTAAGACCATGTTTGGGACATGGC
1 -TCCCATGTAAGACCATGTTTGGGACATGGC
37972432 TTTGGCATGT
Statistics
Matches: 99, Mismatches: 28, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
48 3 0.03
49 27 0.27
50 68 0.69
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCAGGGGCACCAAGATGAGAAC
Found at i:37973177 original size:18 final size:18
Alignment explanation
Indices: 37973154--37973190 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37973144 TTTGAGAGTG
*
37973154 AATGATATATAGAATTAA
1 AATGATATATAAAATTAA
37973172 AATGATATATAAAATTAA
1 AATGATATATAAAATTAA
37973190 A
1 A
37973191 TCTTATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AATGATATATAAAATTAA
Found at i:37979865 original size:50 final size:50
Alignment explanation
Indices: 37979790--37979913 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
37979780 CATTGAGGTT
* * * *
37979790 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAG
** *
37979840 ATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAG
**
37979890 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
37979914 ATATGGGATA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAG
Found at i:37982437 original size:48 final size:48
Alignment explanation
Indices: 37982381--37982475 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
37982371 GTTTATATGG
*
37982381 TAAGTTTTATTAATTCAACCGTTGAACTTACTAGGCTCTATTAAAGCA
1 TAAGTTTTATTAATTCAACCGTTGAACTTACTAAGCTCTATTAAAGCA
*
37982429 TAAGTTTTATTGATTCAACCGTTGAACTTACTAAGCTCTATTAAAGC
1 TAAGTTTTATTAATTCAACCGTTGAACTTACTAAGCTCTATTAAAGC
37982476 TTACTCATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (48 bp):
TAAGTTTTATTAATTCAACCGTTGAACTTACTAAGCTCTATTAAAGCA
Found at i:37984948 original size:20 final size:20
Alignment explanation
Indices: 37984923--37984961 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37984913 TGAGTTATTT
37984923 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
37984943 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
37984962 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:37991477 original size:41 final size:42
Alignment explanation
Indices: 37991427--37991510 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
37991417 AAATAGAATA
* * * *
37991427 ACAACAGATCACTGAGCCAGAGATTGAATAATAATAGATTCC
1 ACAACAGATCACTAAACCAGAGATTGAACAACAATAGATTCC
* * *
37991469 ACAA-AGATCATTAAACCAGATATTGAACAACAATATATTCC
1 ACAACAGATCACTAAACCAGAGATTGAACAACAATAGATTCC
37991510 A
1 A
37991511 TAATTTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
41 31 0.89
42 4 0.11
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (42 bp):
ACAACAGATCACTAAACCAGAGATTGAACAACAATAGATTCC
Found at i:37994928 original size:156 final size:156
Alignment explanation
Indices: 37994644--37994956 Score: 599
Period size: 156 Copynumber: 2.0 Consensus size: 156
37994634 CATCACTAAT
*
37994644 CCACTGACGAAGCCTCTGACGCAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
1 CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
37994709 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
66 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
*
37994774 TGATTGTAATCACATATTTGTTTTAC
131 TGATTGTAATCACATATTCGTTTTAC
37994800 CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
1 CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
*
37994865 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGTCCAAAGACCAATCATGATA
66 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
37994930 TGATTGTAATCACATATTCGTTTTAC
131 TGATTGTAATCACATATTCGTTTTAC
37994956 C
1 C
37994957 TTGTTTGTTA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (156 bp):
CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
TGATTGTAATCACATATTCGTTTTAC
Found at i:38003224 original size:13 final size:13
Alignment explanation
Indices: 38003206--38003241 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38003196 CGCTTCTCGC
38003206 CTTTTTCTTCTTT
1 CTTTTTCTTCTTT
38003219 CTTTTTCTTTCTTT
1 CTTTTTC-TTCTTT
38003233 -TTTTTCTTC
1 CTTTTTCTTC
38003242 AATTTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 13 0.59
14 6 0.27
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTTTCTTCTTT
Found at i:38003954 original size:19 final size:19
Alignment explanation
Indices: 38003930--38003966 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38003920 ACATTTTTAA
*
38003930 TTTTAATTTTGAAAATAAT
1 TTTTAATTTTAAAAATAAT
38003949 TTTTAATTTTAAAAATAA
1 TTTTAATTTTAAAAATAA
38003967 CATATATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTAATTTTAAAAATAAT
Found at i:38006053 original size:52 final size:53
Alignment explanation
Indices: 38005931--38006125 Score: 156
Period size: 51 Copynumber: 3.8 Consensus size: 53
38005921 TTATTGTTTA
* * *
38005931 TTTATTTATTTTAAAATCTTTTCATATATTACTTATTTTTAACTATTTTATTAC
1 TTTA-TTATTTTAAATTTTTTTCATATATTACTTATTTTAAACTATTTTATTAC
*
38005985 --TACTTATTTTACATTTTTTTCATATATTA-TTATTTTAAACTATTTTA-TAC
1 TTTA-TTATTTTAAATTTTTTTCATATATTACTTATTTTAAACTATTTTATTAC
* ** * * *
38006035 TTTATTAATGTTAAA-TTTTTT-ATATGGTA-TTCATTTCAAACTGTTTTATT-G
1 TTTATT-ATTTTAAATTTTTTTCATATATTACTT-ATTTTAAACTATTTTATTAC
* * * * *
38006086 TATATTATTTTAAACTATTAT-ATATATTATTTATTTTAAA
1 TTTATTATTTTAAATTTTTTTCATATATTACTTATTTTAAA
38006126 TTGCTTTATA
Statistics
Matches: 115, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
50 18 0.16
51 61 0.53
52 36 0.31
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (53 bp):
TTTATTATTTTAAATTTTTTTCATATATTACTTATTTTAAACTATTTTATTAC
Found at i:38006101 original size:25 final size:25
Alignment explanation
Indices: 38006012--38006125 Score: 74
Period size: 25 Copynumber: 4.5 Consensus size: 25
38006002 TTTCATATAT
** *
38006012 TATTATTTTAAACTATTTTATACTT
1 TATTATTTTAAACTATTTTATTGTA
* *
38006037 TATTAATGTTAAA-TTTTTTATATGGTA
1 TATT-ATTTTAAACTATTTTAT-T-GTA
* * *
38006064 T-TCATTTCAAACTGTTTTATTGTA
1 TATTATTTTAAACTATTTTATTGTA
38006088 TATTATTTTAAACTATTATATATAT-TA
1 TATTATTTTAAACTATT-T-TAT-TGTA
38006115 T-TTATTTTAAA
1 TATTATTTTAAA
38006126 TTGCTTTATA
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
24 4 0.06
25 30 0.43
26 26 0.38
27 8 0.12
28 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATTTTAAACTATTTTATTGTA
Done.