Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 121 of 171
Found at i:38546768 original size:141 final size:142
Alignment explanation
Indices: 38546507--38546791 Score: 491
Period size: 141 Copynumber: 2.0 Consensus size: 142
38546497 CCGAAAACCC
* *
38546507 GAAAACAAAAAACCCTCAAAACGTAAACACTAAATTCTCCAAAAGTGTTAGGAGTTTTAAACTCT
1 GAAAACAAAAAACCCTCAAAACGTAAACACTAAATTCTCCAAAAGTGTTAGGAATTCTAAACTCT
* *
38546572 AATGGGTGTATTTTCTAAGGTTGTAAAAGAGTCTATTTATAGGCTAAATTCCAGGTCAATAATAA
66 AATGAGTGTATTTTCTAAGGTTGTAAAAGAGCCTATTTATAGGCTAAATTCCAGGTCAATAATAA
38546637 TAAAATAATCTA
131 TAAAATAATCTA
*
38546649 GAAAATAAAAAA-CCTCAAAACGTAAACACTAAATTCTCCAAAAGTGTTAGGAATTCTAAACTCT
1 GAAAACAAAAAACCCTCAAAACGTAAACACTAAATTCTCCAAAAGTGTTAGGAATTCTAAACTCT
* * *
38546713 AATGAGTTTATTTTTTAAGGTTGTAAAAGAGCCTATTTATAGGCTAAATTTCAGGTCAATAATAA
66 AATGAGTGTATTTTCTAAGGTTGTAAAAGAGCCTATTTATAGGCTAAATTCCAGGTCAATAATAA
38546778 TAAAATAATCTA
131 TAAAATAATCTA
38546790 GA
1 GA
38546792 CTAATAAGAG
Statistics
Matches: 135, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
141 124 0.92
142 11 0.08
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (142 bp):
GAAAACAAAAAACCCTCAAAACGTAAACACTAAATTCTCCAAAAGTGTTAGGAATTCTAAACTCT
AATGAGTGTATTTTCTAAGGTTGTAAAAGAGCCTATTTATAGGCTAAATTCCAGGTCAATAATAA
TAAAATAATCTA
Found at i:38546828 original size:24 final size:24
Alignment explanation
Indices: 38546810--38546860 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
38546800 AGTTTGACTT
38546810 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* *
38546834 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAAAGTTTAATTG
38546858 AAA
1 AAA
38546861 GATTATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTG
Found at i:38548792 original size:24 final size:24
Alignment explanation
Indices: 38548764--38548822 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
38548754 TAGACTAATA
*
38548764 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
38548788 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
38548812 AGAGTTTAACT
1 AGAGTTTAACT
38548823 AAAAGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:38552106 original size:21 final size:21
Alignment explanation
Indices: 38552075--38552129 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
38552065 TAAACGGAAC
38552075 TAACAGAAAGTACCAAAGTACT
1 TAACAG-AAGTACCAAAGTACT
38552097 T-ACTAGAAGTACCAAAGTACT
1 TAAC-AGAAGTACCAAAGTACT
38552118 TAACAGAAGTAC
1 TAACAGAAGTAC
38552130 ATAATTGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 26 0.84
22 5 0.16
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (21 bp):
TAACAGAAGTACCAAAGTACT
Found at i:38552172 original size:22 final size:22
Alignment explanation
Indices: 38552144--38552222 Score: 95
Period size: 22 Copynumber: 3.4 Consensus size: 22
38552134 TTGCTGGGGA
38552144 AACAGAAGCACACACAGTGCTG
1 AACAGAAGCACACACAGTGCTG
38552166 AACAGAAGCACACACAGTGCTGGGG
1 AACAGAAGCACACACAGTGCT---G
* *
38552191 AAACAAAAGCACACACAATGCTG
1 -AACAGAAGCACACACAGTGCTG
*
38552214 AACGGAAGC
1 AACAGAAGC
38552223 GCGCTAATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
22 28 0.57
23 1 0.02
25 1 0.02
26 19 0.39
ACGTcount: A:0.43, C:0.25, G:0.24, T:0.08
Consensus pattern (22 bp):
AACAGAAGCACACACAGTGCTG
Found at i:38552195 original size:26 final size:26
Alignment explanation
Indices: 38552135--38552213 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
38552125 AGTACATAAT
38552135 TGCTGGGGAAACAGAAGCACACACAG
1 TGCTGGGGAAACAGAAGCACACACAG
38552161 TGCT---G-AACAGAAGCACACACAG
1 TGCTGGGGAAACAGAAGCACACACAG
* *
38552183 TGCTGGGGAAACAAAAGCACACACAA
1 TGCTGGGGAAACAGAAGCACACACAG
38552209 TGCTG
1 TGCTG
38552214 AACGGAAGCG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
22 21 0.45
23 1 0.02
25 1 0.02
26 24 0.51
ACGTcount: A:0.39, C:0.24, G:0.27, T:0.10
Consensus pattern (26 bp):
TGCTGGGGAAACAGAAGCACACACAG
Found at i:38564105 original size:33 final size:36
Alignment explanation
Indices: 38564063--38564128 Score: 102
Period size: 33 Copynumber: 1.9 Consensus size: 36
38564053 TGTTTATGTG
*
38564063 AAATTGAAGAGAAA-GAGAAGAG-AG-GCAAGGATC
1 AAATTGAAGAGAAAGGAAAAGAGTAGAGCAAGGATC
38564096 AAATTGAAGAGAAAGGAAAAGAGTAGAGCAAGG
1 AAATTGAAGAGAAAGGAAAAGAGTAGAGCAAGG
38564129 GGTAAAAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 14 0.48
34 7 0.24
35 2 0.07
36 6 0.21
ACGTcount: A:0.53, C:0.05, G:0.33, T:0.09
Consensus pattern (36 bp):
AAATTGAAGAGAAAGGAAAAGAGTAGAGCAAGGATC
Found at i:38564938 original size:14 final size:16
Alignment explanation
Indices: 38564898--38564938 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
38564888 TTATATGATG
38564898 ATATATATGTGATGAA
1 ATATATATGTGATGAA
* *
38564914 AAATGTATGTG-TGAA
1 ATATATATGTGATGAA
38564929 ATAT-TATGTG
1 ATATATATGTG
38564939 GTTAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (16 bp):
ATATATATGTGATGAA
Found at i:38565181 original size:23 final size:23
Alignment explanation
Indices: 38565154--38565269 Score: 117
Period size: 23 Copynumber: 5.0 Consensus size: 23
38565144 CTAGCGCGCG
38565154 CTCTGATTAGCACTGTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
* *
38565177 CTCTGTTTAGCAC-GTCTCGTGCT
1 CTCTGATTAGCACTGTGT-GTGCT
38565200 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTG--ATTAGCACTGTGTGTGCT
* * * *
38565225 CTCTGATCAGTACTTTGTGTACT
1 CTCTGATTAGCACTGTGTGTGCT
* * *
38565248 CTCTGTTTCGCACTTTGTGTGC
1 CTCTGATTAGCACTGTGTGTGC
38565270 CTACTATTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
22 3 0.04
23 53 0.70
25 17 0.22
26 3 0.04
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.42
Consensus pattern (23 bp):
CTCTGATTAGCACTGTGTGTGCT
Found at i:38565279 original size:23 final size:23
Alignment explanation
Indices: 38565236--38565347 Score: 88
Period size: 23 Copynumber: 4.9 Consensus size: 23
38565226 TCTGATCAGT
* *
38565236 ACTTTGTGTACTCT-CTGTTTCGC
1 ACTTTGTGTGC-CTACTATTTCGC
38565259 ACTTTGTGTGCCTACTATTTCGC
1 ACTTTGTGTGCCTACTATTTCGC
*
38565282 ACTTCGTGTGCCTACTGATTT-GC
1 ACTTTGTGTGCCTACT-ATTTCGC
* * *
38565305 GCTATGTGCGCCTACTGA-TT-GC
1 ACTTTGTGTGCCTACT-ATTTCGC
* * *
38565327 ACTATGTGTGCTTACTGTTTC
1 ACTTTGTGTGCCTACTATTTC
38565348 CCCAGCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
22 21 0.28
23 49 0.66
24 4 0.05
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (23 bp):
ACTTTGTGTGCCTACTATTTCGC
Found at i:38565331 original size:22 final size:23
Alignment explanation
Indices: 38565257--38565343 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
38565247 TCTCTGTTTC
*
38565257 GCACTTTGTGTGCCTACT-ATTT
1 GCACTATGTGTGCCTACTGATTT
38565279 CGCACT-TCGTGTGCCTACTGATTT
1 -GCACTAT-GTGTGCCTACTGATTT
* *
38565303 GCGCTATGTGCGCCTACTGA-TT
1 GCACTATGTGTGCCTACTGATTT
*
38565325 GCACTATGTGTGCTTACTG
1 GCACTATGTGTGCCTACTG
38565344 TTTCCCCAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
22 19 0.34
23 32 0.57
24 5 0.09
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (23 bp):
GCACTATGTGTGCCTACTGATTT
Found at i:38573958 original size:25 final size:23
Alignment explanation
Indices: 38573915--38573960 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
38573905 CCAACTAGGG
38573915 AATTATTGTTTAGATTTAATTCT
1 AATTATTGTTTAGATTTAATTCT
*
38573938 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
38573961 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCT
Found at i:38579757 original size:27 final size:27
Alignment explanation
Indices: 38579716--38579775 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
38579706 AAACAACTAT
* * *
38579716 TGAATGGACTGCCTTTGTGGCGTACTC
1 TGAATGGACTACCTTTGTGACATACTC
38579743 TGAATGGACTACCTTTGTGACATACTC
1 TGAATGGACTACCTTTGTGACATACTC
38579770 T-AATGG
1 TGAATGG
38579776 GTTGTCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (27 bp):
TGAATGGACTACCTTTGTGACATACTC
Found at i:38580350 original size:205 final size:205
Alignment explanation
Indices: 38579998--38580407 Score: 748
Period size: 205 Copynumber: 2.0 Consensus size: 205
38579988 CATGATCAGT
*
38579998 CAGTTATCTGATATATTTGAATTTCTCAGAGTTAGAAAATTTTGAGGATGAAATTTTTTTAAAGG
1 CAGTTATCTGATATATTTGAATTTCTCAAAGTTAGAAAATTTTGAGGATGAAATTTTTTTAAAGG
* *
38580063 GAGGAGAGTTATGACAGCTCAAAATTTGGCGGGTCCTAAATTTAGACGTGTAATTCGAAAAATAA
66 GAGGAGAGTTATGACAACTCAAAATTTGGCGGGTCCTAAATTTAGACGTGTAATTCAAAAAATAA
38580128 TTTTTTTGATGTAGTTATATTCACCCAATTATCTCTTCTGGCGTATAGAATGGGCTTATATCAGA
131 TTTTTTTGATGTAGTTATATTCACCCAATTATCTCTTCTGGCGTATAGAATGGGCTTATATCAGA
38580193 TGCCAAGTTA
196 TGCCAAGTTA
* *
38580203 CAGTTATCTGATATATTTGAATTTCTCAAAGTTAGAAAATTTTGATGATGAAATTTTTTTAAGGG
1 CAGTTATCTGATATATTTGAATTTCTCAAAGTTAGAAAATTTTGAGGATGAAATTTTTTTAAAGG
* *
38580268 GAGGAGAGTTATGACAACTCAGAATTTGGCGGGTCCTAAATTTAGGCGTGTAATTCAAAAAATAA
66 GAGGAGAGTTATGACAACTCAAAATTTGGCGGGTCCTAAATTTAGACGTGTAATTCAAAAAATAA
38580333 TTTTTTTGATGTAGTTATATTCACCCAATTATCTCTTCTGGCGTATAGAATGGGCTTATATCAGA
131 TTTTTTTGATGTAGTTATATTCACCCAATTATCTCTTCTGGCGTATAGAATGGGCTTATATCAGA
*
38580398 TGTCAAGTTA
196 TGCCAAGTTA
38580408 TTAAGTTAGG
Statistics
Matches: 197, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
205 197 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (205 bp):
CAGTTATCTGATATATTTGAATTTCTCAAAGTTAGAAAATTTTGAGGATGAAATTTTTTTAAAGG
GAGGAGAGTTATGACAACTCAAAATTTGGCGGGTCCTAAATTTAGACGTGTAATTCAAAAAATAA
TTTTTTTGATGTAGTTATATTCACCCAATTATCTCTTCTGGCGTATAGAATGGGCTTATATCAGA
TGCCAAGTTA
Found at i:38586743 original size:27 final size:27
Alignment explanation
Indices: 38586691--38586743 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38586681 CTTTGTGGTG
**
38586691 TACTCTGAATGGATTACCTTTGTGACA
1 TACTCTGAATGGATTACCTTAATGACA
38586718 TACTCTGAATAGG-TTACCTTAATGAC
1 TACTCTGAAT-GGATTACCTTAATGAC
38586744 GGGTTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
TACTCTGAATGGATTACCTTAATGACA
Found at i:38594375 original size:31 final size:31
Alignment explanation
Indices: 38594338--38594439 Score: 141
Period size: 31 Copynumber: 3.3 Consensus size: 31
38594328 CAAGATCATC
* * *
38594338 AATCATTCATATTTGCATATTCACACCTTAT
1 AATCATTCACATTTGCATATTCAAACCCTAT
* *
38594369 AATCATTCACATTTGTATATTCATACCCTAT
1 AATCATTCACATTTGCATATTCAAACCCTAT
* *
38594400 AATCATTTACATTTGCATTTTCAAACCCTAT
1 AATCATTCACATTTGCATATTCAAACCCTAT
38594431 AATCATTCA
1 AATCATTCA
38594440 TATAAATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (31 bp):
AATCATTCACATTTGCATATTCAAACCCTAT
Found at i:38609000 original size:29 final size:29
Alignment explanation
Indices: 38608960--38609017 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
38608950 TACTAAAAAA
*
38608960 ATATCAACTTTTCCAGAAAATCAATCCAT
1 ATATAAACTTTTCCAGAAAATCAATCCAT
*
38608989 ATATAAACTTTTTCAGAAAATCAATCCAT
1 ATATAAACTTTTCCAGAAAATCAATCCAT
38609018 TTTTCAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (29 bp):
ATATAAACTTTTCCAGAAAATCAATCCAT
Found at i:38614779 original size:9 final size:9
Alignment explanation
Indices: 38614767--38614809 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
38614757 TACATGTTTC
38614767 GCATGAAAT
1 GCATGAAAT
**
38614776 GCATGAGTT
1 GCATGAAAT
* *
38614785 GCTTGGAAT
1 GCATGAAAT
38614794 GCATGAAAT
1 GCATGAAAT
38614803 GCATGAA
1 GCATGAA
38614810 GTGTTTGTCC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (9 bp):
GCATGAAAT
Found at i:38616213 original size:18 final size:17
Alignment explanation
Indices: 38616156--38616214 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
38616146 AACTCTTCTC
* *
38616156 TCTTTTTTCTCTCAAGT
1 TCTTTTTTCTCTCTATT
*
38616173 TC-TTTTTCTCTCATTTCT
1 TCTTTTTTCTCTC-TAT-T
38616191 TCTTTTCTTCTCTCTATT
1 TCTTTT-TTCTCTCTATT
38616209 TCTTTT
1 TCTTTT
38616215 ATTTTTCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 10 0.29
17 2 0.06
18 10 0.29
19 5 0.15
20 7 0.21
ACGTcount: A:0.07, C:0.25, G:0.02, T:0.66
Consensus pattern (17 bp):
TCTTTTTTCTCTCTATT
Found at i:38616230 original size:96 final size:97
Alignment explanation
Indices: 38616097--38616283 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 97
38616087 TAATTTTTTG
* * *
38616097 TTTCTTCCTCTCTAACTCTTTGAATTTTCTCTTATTTTCTCTTATCAACAACTCTTCTCTCTT-T
1 TTTCTTCCTCTCTAACTCTTTGAATTTTCGCTCATTTTCTCTCATCAACAACTCTTCTCT-TTCT
38616161 TTTCTCTCAAG-TTCTTTTTCTCTCATTTCTTCT
65 TTTCT-TCAAGCTTCTTTTTCTCTCATTTCTTCT
** * * * * *
38616194 TTTCTT-CTCTCTATTTCTTTTATTTTTCGCTCATTTTCTCTCATTATCAACTCTTGTCTTTCTT
1 TTTCTTCCTCTCTAACTCTTTGAATTTTCGCTCATTTTCTCTCATCAACAACTCTTCTCTTTCTT
**
38616258 TTCTTTTAGCTTCTTTTTCTCTCATT
66 TTCTTCAAGCTTCTTTTTCTCTCATT
38616284 CTTTCGTTAC
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
95 5 0.07
96 65 0.86
97 6 0.08
ACGTcount: A:0.12, C:0.26, G:0.03, T:0.59
Consensus pattern (97 bp):
TTTCTTCCTCTCTAACTCTTTGAATTTTCGCTCATTTTCTCTCATCAACAACTCTTCTCTTTCTT
TTCTTCAAGCTTCTTTTTCTCTCATTTCTTCT
Found at i:38618382 original size:9 final size:9
Alignment explanation
Indices: 38618370--38618437 Score: 55
Period size: 9 Copynumber: 7.6 Consensus size: 9
38618360 TGCATGCTTC
38618370 GCATGAAAT
1 GCATGAAAT
**
38618379 GCATGAGTT
1 GCATGAAAT
* *
38618388 GCTTGGAAT
1 GCATGAAAT
*
38618397 GTATGAAAT
1 GCATGAAAT
*
38618406 GCAAGAAAT
1 GCATGAAAT
* *
38618415 GCTTGGAAT
1 GCATGAAAT
*
38618424 ACATGAAAT
1 GCATGAAAT
38618433 GCATG
1 GCATG
38618438 TACTGTTTGT
Statistics
Matches: 41, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (9 bp):
GCATGAAAT
Found at i:38618402 original size:27 final size:27
Alignment explanation
Indices: 38618371--38618437 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
38618361 GCATGCTTCG
** *
38618371 CATGAAATGCATGAGTTGCTTGGAATG
1 CATGAAATGCATGAAATGCTTGGAATA
* *
38618398 TATGAAATGCAAGAAATGCTTGGAATA
1 CATGAAATGCATGAAATGCTTGGAATA
38618425 CATGAAATGCATG
1 CATGAAATGCATG
38618438 TACTGTTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.27
Consensus pattern (27 bp):
CATGAAATGCATGAAATGCTTGGAATA
Found at i:38633191 original size:52 final size:52
Alignment explanation
Indices: 38633129--38633232 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
38633119 AATACCAAAT
*
38633129 AATATTCAAAAGACAAGCATAGGGTTGAGATTTACACAAAAAATTGATTAAG
1 AATATTCAAAAGACAAGCATAAGGTTGAGATTTACACAAAAAATTGATTAAG
38633181 AATATTCAAAAGACAAGCATAAGGTTGAGATTTACACAAAAAATTGATTAAG
1 AATATTCAAAAGACAAGCATAAGGTTGAGATTTACACAAAAAATTGATTAAG
38633233 TATTACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (52 bp):
AATATTCAAAAGACAAGCATAAGGTTGAGATTTACACAAAAAATTGATTAAG
Found at i:38634886 original size:29 final size:29
Alignment explanation
Indices: 38634809--38634946 Score: 142
Period size: 29 Copynumber: 4.9 Consensus size: 29
38634799 ATTATTTTAA
*
38634809 AAAAT-AGTGGCAAAGCTAT-AAATCTAG
1 AAAATCAGTGGCAAAACTATAAAATCTAG
* * *
38634836 AAAAT-AGTGGCTAAATTATAAAATGTAG
1 AAAATCAGTGGCAAAACTATAAAATCTAG
* *
38634864 AAAATCAGTGGCAAAACTGTAAAATCTGG
1 AAAATCAGTGGCAAAACTATAAAATCTAG
* *
38634893 AAAAATCGGTGGC-AAACTGTAAAATCTAG
1 -AAAATCAGTGGCAAAACTATAAAATCTAG
*
38634922 AAAA-CTAGTGGAAAAACTATAAAAT
1 AAAATC-AGTGGCAAAACTATAAAAT
38634947 AGTTGTAGTT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
27 17 0.18
28 20 0.22
29 44 0.48
30 11 0.12
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.22
Consensus pattern (29 bp):
AAAATCAGTGGCAAAACTATAAAATCTAG
Found at i:38637025 original size:21 final size:21
Alignment explanation
Indices: 38636999--38637057 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
38636989 GTAAATGAGA
38636999 ATGCATTCTCATTTACAAACT
1 ATGCATTCTCATTTACAAACT
38637020 ATGCATTCTCATTTACAAACT
1 ATGCATTCTCATTTACAAACT
38637041 ATGCATTCTCATTTACA
1 ATGCATTCTCATTTACA
38637058 TTACATACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (21 bp):
ATGCATTCTCATTTACAAACT
Found at i:38637678 original size:36 final size:36
Alignment explanation
Indices: 38637615--38637685 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
38637605 AAGCACATCA
* * * * *
38637615 TATAGCTTAATTAATTAGATAATATTTATCATATCG
1 TATAGCATAATCAATCAAATAACATTTATCATATCG
38637651 TATAGCATAATCAATCAAATAACATTTATCATATC
1 TATAGCATAATCAATCAAATAACATTTATCATATC
38637686 ATGCATATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (36 bp):
TATAGCATAATCAATCAAATAACATTTATCATATCG
Found at i:38637933 original size:45 final size:45
Alignment explanation
Indices: 38637883--38639022 Score: 945
Period size: 45 Copynumber: 26.3 Consensus size: 45
38637873 GTCATAAAGT
* *
38637883 ATAATCAATCAAATAATATTTACCATATCACGCATATCGTATAAC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
38637928 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38637973 ATAATCAATCAAATAATATTTATCATATCATGCATATCGTATAAC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * * * * ** *
38638018 ATACTTAATCAATTAATATTTATCATATCAT-AATTAATCAAATAGT
1 ATAATCAATCAAATAATATTTACCATATCATGCA-T-ATCGTATAGC
* * * * *
38638064 ATTTACCACATC--ATGAATATCGTATAGCATAATCAAT-CAAATAATATTTACCATATCATAC
1 A-TAATCA-ATCAAAT-AATAT--T-TACCAT-ATC-ATGC-----ATA--T--CGTAT-A-GC
* * * **
38638125 ATAATCAATCAAATAATATTTATCATGTCATGCATATCATATAAT
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638170 ATAATCAATCAAA-AATATTTACCATATCATACATATTGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * * * *
38638214 ATAATCAATCAAATAATATTTACCATATCATACATGTTGTACAAC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
*
38638259 ATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
*
38638304 ATAATCAATCAAATAATATTTATCATATCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638349 ATAATCAATCTAATAATATTTACCATGTCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
*
38638394 ATAATCAATCAAATAATATTTATCATATCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638439 ATAATCAATCTAATAATATTTACCATGTCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
*
38638484 ATAATCAATCAAATAATATTTATCATATCATGCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638529 ATAATAAATCAAATAATATTTACCATGTCATG-----C--ATA-C
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * * *
38638566 ATAATCAATCAAATAATATTTATCATGTCATGCATATTGTATAGA
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * * * ** *
38638611 ACACTTAATCAAATAATATTTACCACATTGTGCATACCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
*
38638656 ATAGTCAATCAAATAATATTTA-C----CATG----TCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638692 ATAAGCAATCAAATAACA-TT----TA-C---CATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * *
38638728 ATAATTAATCAAATAATATTTATCAT-T--T-C--AT-GCATA-C
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * * *
38638765 ATAATCAATCAAATAATATTTACAATGTCATGTATATCGTATAGA
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * * * *
38638810 ATACTTAATCAGATACTATTTACCATATCATGCATACCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * *
38638855 ATAGTTAATCAAATAATACTTACCATATC--G----T-G--TAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* * *
38638891 ATAATCAATCAAATAACA-TT----TA-C-TG--TACCGTCTAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638927 ATAATTAATCAAAT-A-A--TA--AT-T-A-CCATATCGTATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
* *
38638963 ATAATCAATCAAATAACATTTACCATATCATGCATATCATATAGC
1 ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
*
38639008 ATAATTAATCAAATA
1 ATAATCAATCAAATA
38639023 CTAACATATT
Statistics
Matches: 900, Mismatches: 120, Indels: 150
0.77 0.10 0.13
Matches are distributed among these distances:
30 1 0.00
31 3 0.00
33 1 0.00
34 2 0.00
35 7 0.01
36 105 0.12
37 58 0.06
38 10 0.01
39 2 0.00
40 6 0.01
41 2 0.00
42 2 0.00
43 4 0.00
44 47 0.05
45 576 0.64
46 9 0.01
47 12 0.01
48 3 0.00
49 2 0.00
50 5 0.01
51 6 0.01
52 2 0.00
55 3 0.00
56 4 0.00
57 7 0.01
58 1 0.00
59 7 0.01
60 10 0.01
61 3 0.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (45 bp):
ATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGC
Found at i:38638049 original size:29 final size:29
Alignment explanation
Indices: 38638017--38638077 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
38638007 TATCGTATAA
* * * *
38638017 CATACTTAATCAATTAATATTTATCATAT
1 CATAATTAATCAAATAATATTTACCACAT
*
38638046 CATAATTAATCAAATAGTATTTACCACAT
1 CATAATTAATCAAATAATATTTACCACAT
38638075 CAT
1 CAT
38638078 GAATATCGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (29 bp):
CATAATTAATCAAATAATATTTACCACAT
Found at i:38638102 original size:74 final size:73
Alignment explanation
Indices: 38637972--38638200 Score: 287
Period size: 74 Copynumber: 3.1 Consensus size: 73
38637962 TATCGTATAG
* * *
38637972 CATAATCAATCAAATAATATTTATCATATCATGCATATCGTATAACATACTTAATCAATTAATAT
1 CATAATTAATCAAATAATATTTATCATATCATGCATATCGTATAACATAATCAATCAA-TAATAT
*
38638037 TTATCATAT
65 TTACCATAT
* * * * *
38638046 CATAATTAATCAAATAGTATTTACCACATCATGAATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATTAATCAAATAATATTTATCATATCATGCATATCGTATAACATAATCAATC-AATAATAT
38638111 TTACCATAT
65 TTACCATAT
* * * *
38638120 CATACATAATCAATCAAATAATATTTATCATGTCATGCATATCATATAATATAATCAATCAAAAA
1 CATA-AT--T-AATCAAATAATATTTATCATATCATGCATATCGTATAACATAATCAATCAATAA
38638185 TATTTACCATAT
62 TATTTACCATAT
38638197 CATA
1 CATA
38638201 CATATTGTAT
Statistics
Matches: 132, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
74 66 0.50
75 4 0.03
77 21 0.16
78 41 0.31
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (73 bp):
CATAATTAATCAAATAATATTTATCATATCATGCATATCGTATAACATAATCAATCAATAATATT
TACCATAT
Found at i:38638174 original size:33 final size:33
Alignment explanation
Indices: 38638091--38638160 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
38638081 TATCGTATAG
38638091 CATAATCAATCAAATAATATTTACCATATCATA
1 CATAATCAATCAAATAATATTTACCATATCATA
* * *
38638124 CATAATCAATCAAATAATATTTATCATGTCATG
1 CATAATCAATCAAATAATATTTACCATATCATA
38638157 CATA
1 CATA
38638161 TCATATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (33 bp):
CATAATCAATCAAATAATATTTACCATATCATA
Found at i:38638564 original size:33 final size:36
Alignment explanation
Indices: 38638535--38638796 Score: 172
Period size: 36 Copynumber: 6.7 Consensus size: 36
38638525 TAGCATAATA
38638535 AATCAAATAATATTTACCATGTCATGCATACATAATC
1 AATCAAATAATATTTACCATGTCATGCATACATAA-C
* *
38638572 AATCAAATAATATTTATCATGTCATGCATATTGTATAGAACAC
1 AATCAAATAATATTTACCATGTCATGCATA---CAT---A-AC
* *
38638615 TTAATCAAATAATATTTACCACATTGTGCATACCGTATAGCATAGTC
1 --AATCAAATAATATTTA-C-CA-TGT-CAT---GCATA-CATA-AC
*
38638662 AATCAAATAATATTTACCATGTC--GTATAGCATAAGC
1 AATCAAATAATATTTACCATGTCATGCATA-CATAA-C
* * * *
38638698 AATCAAATAACATTTACCATATC--GTATAGCATAATT
1 AATCAAATAATATTTACCATGTCATGCATA-CATAA-C
* *
38638734 AATCAAATAATATTTATCATTTCATGCATACATAATC
1 AATCAAATAATATTTACCATGTCATGCATACATAA-C
*
38638771 AATCAAATAATATTTACAATGTCATG
1 AATCAAATAATATTTACCATGTCATG
38638797 TATATCGTAT
Statistics
Matches: 186, Mismatches: 20, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
36 63 0.34
37 58 0.31
38 4 0.02
40 2 0.01
41 1 0.01
42 3 0.02
43 4 0.02
44 2 0.01
45 32 0.17
47 4 0.02
48 3 0.02
49 3 0.02
50 3 0.02
52 4 0.02
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (36 bp):
AATCAAATAATATTTACCATGTCATGCATACATAAC
Found at i:38638738 original size:72 final size:73
Alignment explanation
Indices: 38638643--38638988 Score: 270
Period size: 72 Copynumber: 4.5 Consensus size: 73
38638633 CCACATTGTG
* *
38638643 CATACCGTATAGCATAGTCAATCAAATAATATTTACCATGT-CGTATAGCATAAGCAATCAAATA
1 CATATCGTATAGCATAATCAATCAAATAATATTTACCATGTACGTATAGCATAAGCAATCAAATA
*
38638707 ACATTTAC
66 ATATTTAC
* * * * * *
38638715 CATATCGTATAGCATAATTAATCAAATAATATTTATCATTTCATGCATA-CATAATCAATCAAAT
1 CATATCGTATAGCATAATCAATCAAATAATATTTACCATGT-ACGTATAGCATAAGCAATCAAAT
38638779 AATATTTAC
65 AATATTTAC
* * * * *
38638788 AATGTCATGTATATCGTATAGAATACTTAATCAGATACTATTTACCATATCATGCATACCGTATA
1 -----C----ATATCGTATAGCATAATCAATCAAATAATATTTA-C----CATG--TA-CGTATA
* *
38638853 GCAT-AGTTAATCAAATAATACTTAC
49 GCATAAG-CAATCAAATAATATTTAC
* * * **
38638878 CATATCGTGTAGCATAATCAATCAAATAACATTTA-C-TGTACCGTCTAGCATAATTAATCAAAT
1 CATATCGTATAGCATAATCAATCAAATAATATTTACCATGTA-CGTATAGCATAAGCAATCAAAT
*
38638941 AATAATTAC
65 AATATTTAC
*
38638950 CATATCGTATAGCATAATCAATCAAATAACATTTACCAT
1 CATATCGTATAGCATAATCAATCAAATAATATTTACCAT
38638989 ATCATGCATA
Statistics
Matches: 219, Mismatches: 31, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
72 99 0.45
73 24 0.11
74 7 0.03
75 1 0.00
78 1 0.00
81 27 0.12
82 30 0.14
85 1 0.00
87 3 0.01
88 1 0.00
89 6 0.03
90 19 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (73 bp):
CATATCGTATAGCATAATCAATCAAATAATATTTACCATGTACGTATAGCATAAGCAATCAAATA
ATATTTAC
Found at i:38638832 original size:199 final size:202
Alignment explanation
Indices: 38637926--38639022 Score: 975
Period size: 199 Copynumber: 5.3 Consensus size: 202
38637916 ATATCGTATA
* * *
38637926 ACATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAATA
1 ACATAATCAATCAAATAATATTTA-CATGTCATGCATATCGTATAGAATAATTAATCAAATAATA
* * * * * * *
38637991 TTTATCATATCATGCATATCGTATAACATACTTAATCAATTAATATTT-----A--TC--ATATC
65 TTTACCATATCATGCATACCGTATAGCATAATCAATCAAATAATATTTACCACATGTCGTATAGC
* ** *
38638047 ATAATTAATCAAATAGTATTTACCACATCATGAATATCGTATAGCATAATCAATCAAATAATATT
130 ATAATCAATCAAATAACATTT-----ATCA--CATATCGTATAGCATAATCAATCAAATAATATT
38638112 TACCA--T-AT-CAT
188 TACCATTTCATGCAT
* *
38638123 ACATAATCAATCAAATAATATTTATCATGTCATGCATATCATATA-ATATAATCAATCAAA-AAT
1 ACATAATCAATCAAATAATATTTA-CATGTCATGCATATCGTATAGA-ATAATTAATCAAATAAT
* **
38638186 ATTTACCATATCATACATATTGTATAGCATAATCAATCAAATAATATTTACCATATCATACATGT
64 ATTTACCATATCATGCATACCGTATAGCATAATCAATCAAATAATATTTA-C----C--ACATGT
* * * *
38638251 TGTACAACATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAA
122 CGTATAGCATAATCAATCAAATAACATTT---A--TCA--CATATCGTATAGCATAATCAATCAA
* *
38638316 ATAATATTTATCATATCATGCATATCGTAT
180 ATAATATTTACCAT-T--T-C--AT-GCAT
* * *
38638346 AGCATAATCAATCTAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAAT
1 A-CATAATCAATCAAATAATATTTA-CATGTCATGCATATCGTATAGAATAATTAATCAAATAAT
* * *
38638411 ATTTATCATATCATGCATATCGTATAGCATAATCAATCTAATAATATTTACCATGTCATGCATAT
64 ATTTACCATATCATGCATACCGTATAGCATAATCAATCAAATAATATTTACCA---CATG----T
* *
38638476 CGTATAGCATAATCAATCAAATAATATTTATCATATCATGCATATCGTATAGCATAATAAATCAA
122 CGTATAGCATAATCAATCAAATAACA--T-T--TATCA--CATATCGTATAGCATAATCAATCAA
*
38638541 ATAATATTTACCATGTCATGCAT
180 ATAATATTTACCATTTCATGCAT
* * *
38638564 ACATAATCAATCAAATAATATTTATCATGTCATGCATATTGTATAGAACACTTAATCAAATAATA
1 ACATAATCAATCAAATAATATTTA-CATGTCATGCATATCGTATAGAATAATTAATCAAATAATA
* ** *
38638629 TTTACCACATTGTGCATACCGTATAGCATAGTCAATCAAATAATATTTA-C-CATGTCGTATAGC
65 TTTACCATATCATGCATACCGTATAGCATAATCAATCAAATAATATTTACCACATGTCGTATAGC
* * *
38638692 ATAAGCAATCAAATAACATTTA-C-CATATCGTATAGCATAATTAATCAAATAATATTTATCATT
130 ATAATCAATCAAATAACATTTATCACATATCGTATAGCATAATCAATCAAATAATATTTACCATT
38638755 TCATGCAT
195 TCATGCAT
* * * *
38638763 ACATAATCAATCAAATAATATTTACAATGTCATGTATATCGTATAGAATACTTAATCAGATACTA
1 ACATAATCAATCAAATAATATTTAC-ATGTCATGCATATCGTATAGAATAATTAATCAAATAATA
* * * * *
38638828 TTTACCATATCATGCATACCGTATAGCATAGTTAATCAAATAATACTTA-C-CATATCGTGTAGC
65 TTTACCATATCATGCATACCGTATAGCATAATCAATCAAATAATATTTACCACATGTCGTATAGC
** * * * * *
38638891 ATAATCAATCAAATAACATTTA-C-TGTACCGTCTAGCATAATTAATCAAATAATAATTACCATA
130 ATAATCAATCAAATAACATTTATCACATATCGTATAGCATAATCAATCAAATAATATTTACCATT
*
38638954 TC--GTAT
195 TCATGCAT
* * * *
38638960 AGCATAATCAATCAAATAACATTTACCATATCATGCATATCATATAGCATAATTAATCAAATA
1 A-CATAATCAATCAAATAATATTTA-CATGTCATGCATATCGTATAGAATAATTAATCAAATA
38639023 CTAACATATT
Statistics
Matches: 769, Mismatches: 83, Indels: 95
0.81 0.09 0.10
Matches are distributed among these distances:
196 45 0.06
197 59 0.08
198 53 0.07
199 217 0.28
202 1 0.00
203 2 0.00
205 1 0.00
206 1 0.00
208 26 0.03
210 3 0.00
212 67 0.09
216 1 0.00
217 100 0.13
218 5 0.01
219 2 0.00
220 1 0.00
221 7 0.01
222 1 0.00
223 3 0.00
224 55 0.07
225 115 0.15
227 2 0.00
228 1 0.00
230 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (202 bp):
ACATAATCAATCAAATAATATTTACATGTCATGCATATCGTATAGAATAATTAATCAAATAATAT
TTACCATATCATGCATACCGTATAGCATAATCAATCAAATAATATTTACCACATGTCGTATAGCA
TAATCAATCAAATAACATTTATCACATATCGTATAGCATAATCAATCAAATAATATTTACCATTT
CATGCAT
Found at i:38638991 original size:36 final size:36
Alignment explanation
Indices: 38638842--38638991 Score: 183
Period size: 36 Copynumber: 4.2 Consensus size: 36
38638832 CCATATCATG
* * * * *
38638842 CATACCGTATAGCATAGTTAATCAAATAATACTTAC
1 CATATCGTATAGCATAATCAATCAAATAACATTTAC
*
38638878 CATATCGTGTAGCATAATCAATCAAATAACATTTAC
1 CATATCGTATAGCATAATCAATCAAATAACATTTAC
** * * * * *
38638914 TGTACCGTCTAGCATAATTAATCAAATAATAATTAC
1 CATATCGTATAGCATAATCAATCAAATAACATTTAC
38638950 CATATCGTATAGCATAATCAATCAAATAACATTTAC
1 CATATCGTATAGCATAATCAATCAAATAACATTTAC
38638986 CATATC
1 CATATC
38638992 ATGCATATCA
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 94 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (36 bp):
CATATCGTATAGCATAATCAATCAAATAACATTTAC
Found at i:38639285 original size:57 final size:56
Alignment explanation
Indices: 38639222--38639412 Score: 240
Period size: 57 Copynumber: 3.3 Consensus size: 56
38639212 TTTGAAAATT
* *
38639222 AGTGGCAAAACTATAAAATCTGGTAAATTAGTGGCAAAACTATAAAATCTGCAAAA-C
1 AGTGGCAAAACTATAAAATCTGG-AAAATAGTGGCAAAACTGTAAAATCTG-AAAACC
* *
38639279 AGTGGCAAAATTGTAAAATCTGGAAAATAGTGGCAAAACTGTAAAATCTAGAAAACC
1 AGTGGCAAAACTATAAAATCTGGAAAATAGTGGCAAAACTGTAAAATCT-GAAAACC
* ** *
38639336 AGTGGCAAAACTGTAAAATCTAAAAAATAGTGGCAAAACTGTAAAATATGAAAAAACC
1 AGTGGCAAAACTATAAAATCTGGAAAATAGTGGCAAAACTGTAAAATCTG--AAAACC
* *
38639394 AATAGCAAAACTATAAAAT
1 AGTGGCAAAACTATAAAAT
38639413 AGTGGCAATT
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
56 29 0.24
57 68 0.57
58 22 0.18
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (56 bp):
AGTGGCAAAACTATAAAATCTGGAAAATAGTGGCAAAACTGTAAAATCTGAAAACC
Found at i:38639390 original size:28 final size:28
Alignment explanation
Indices: 38639214--38639390 Score: 219
Period size: 28 Copynumber: 6.2 Consensus size: 28
38639204 GTAATTTTTT
* *
38639214 TGAAAATTAGTGGCAAAACTATAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
* * *
38639242 TGGTAAATTAGTGGCAAAACTATAAAATC
1 T-GAAAAATAGTGGCAAAACTGTAAAATC
* * *
38639271 TGCAAAACAGTGGCAAAATTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
*
38639299 TGGAAAATAGTGGCAAAACTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
**
38639327 TAGAAAACCAGTGGCAAAACTGTAAAATC
1 T-GAAAAATAGTGGCAAAACTGTAAAATC
* *
38639356 TAAAAAATAGTGGCAAAACTGTAAAATA
1 TGAAAAATAGTGGCAAAACTGTAAAATC
38639384 TGAAAAA
1 TGAAAAA
38639391 ACCAATAGCA
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
28 78 0.60
29 52 0.40
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (28 bp):
TGAAAAATAGTGGCAAAACTGTAAAATC
Found at i:38639891 original size:3 final size:3
Alignment explanation
Indices: 38639885--38639922 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
38639875 GGAAAAAAAG
*
38639885 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38639923 ATATAATGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38647361 original size:39 final size:39
Alignment explanation
Indices: 38647307--38647385 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
38647297 TCATTGAAGT
38647307 TGTGCTTTGAAGATAGGCATGATTTGGGGATATATAAGC
1 TGTGCTTTGAAGATAGGCATGATTTGGGGATATATAAGC
*
38647346 TGTGCTTTTAAGATAGGCATGATTTGGGGATATATAAGC
1 TGTGCTTTGAAGATAGGCATGATTTGGGGATATATAAGC
38647385 T
1 T
38647386 CATCTTAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.29, T:0.35
Consensus pattern (39 bp):
TGTGCTTTGAAGATAGGCATGATTTGGGGATATATAAGC
Found at i:38657062 original size:37 final size:37
Alignment explanation
Indices: 38657021--38657266 Score: 312
Period size: 37 Copynumber: 6.6 Consensus size: 37
38657011 CCGGGACAAT
* * *
38657021 GCCTGCTAGGCACATAGCCCGAATACACCGGCATGAA
1 GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
* *
38657058 GCCTGCTAGGCACATAGCCCGAATACACCGGCACGAA
1 GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
* * * *
38657095 GCCTACTAGGCAAACAACCTGAATACATCGGCACGAA
1 GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
* * * **
38657132 GCCTGTTAGGCACATAGCCTGAATACACCGGTATAAA
1 GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
* *
38657169 GCCTGCTAGGCACACAGCCCGAATGCACCGGCACGAA
1 GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
* * *
38657206 GCTTGCTAGGCACACAGCCTGAATATACCGGCATGAA
1 GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
*
38657243 GCCTACTAGGCACACAGCCTGAAT
1 GCCTGCTAGGCACACAGCCTGAAT
38657267 TTGCAGATGT
Statistics
Matches: 179, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 179 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (37 bp):
GCCTGCTAGGCACACAGCCTGAATACACCGGCACGAA
Found at i:38657215 original size:111 final size:111
Alignment explanation
Indices: 38657021--38657266 Score: 357
Period size: 111 Copynumber: 2.2 Consensus size: 111
38657011 CCGGGACAAT
* * *
38657021 GCCTGCTAGGCACATAGCCCGAATACACCGGCATGAAGCCTGCTAGGCACATAGCCCGAATACAC
1 GCCTGCTAGGCACATAGCCTGAATACACCGGCATAAAGCCTGCTAGGCACACAGCCCGAATACAC
*
38657086 CGGCACGAAGCCTACTAGGCAAACAACCTGAATACATCGGCACGAA
66 CGGCACGAAGCCTACTAGGCAAACAACCTGAATACACCGGCACGAA
* * *
38657132 GCCTGTTAGGCACATAGCCTGAATACACCGGTATAAAGCCTGCTAGGCACACAGCCCGAATGCAC
1 GCCTGCTAGGCACATAGCCTGAATACACCGGCATAAAGCCTGCTAGGCACACAGCCCGAATACAC
* * * * * *
38657197 CGGCACGAAGCTTGCTAGGCACACAGCCTGAATATACCGGCATGAA
66 CGGCACGAAGCCTACTAGGCAAACAACCTGAATACACCGGCACGAA
* *
38657243 GCCTACTAGGCACACAGCCTGAAT
1 GCCTGCTAGGCACATAGCCTGAAT
38657267 TTGCAGATGT
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 119 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (111 bp):
GCCTGCTAGGCACATAGCCTGAATACACCGGCATAAAGCCTGCTAGGCACACAGCCCGAATACAC
CGGCACGAAGCCTACTAGGCAAACAACCTGAATACACCGGCACGAA
Found at i:38659293 original size:41 final size:41
Alignment explanation
Indices: 38659247--38659390 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 41
38659237 GGCAGAATGC
* *
38659247 GTCACAC-AGTCGTGTGGTAGGACGTGTGGCAGACCGTTTGG
1 GTCACACGA-TCGTGTGGTAGGACGTGTGGCAAACCGTGTGG
* **
38659288 GTCACACGATTGTGTGGTAGGTTGTGTGGCAAACCGTGTGG
1 GTCACACGATCGTGTGGTAGGACGTGTGGCAAACCGTGTGG
* * * **
38659329 GTCACACG-GCAG-GTTGGTAGGTCGTGTGGTAAGTCGTGTGG
1 GTCACACGATC-GTG-TGGTAGGACGTGTGGCAAACCGTGTGG
*
38659370 GTCACACGATCGTGTGATAGG
1 GTCACACGATCGTGTGGTAGG
38659391 CTATGTGAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 81 0.95
42 3 0.04
ACGTcount: A:0.17, C:0.17, G:0.40, T:0.26
Consensus pattern (41 bp):
GTCACACGATCGTGTGGTAGGACGTGTGGCAAACCGTGTGG
Found at i:38662045 original size:52 final size:52
Alignment explanation
Indices: 38661968--38662353 Score: 499
Period size: 52 Copynumber: 7.5 Consensus size: 52
38661958 AAAAAAGTGT
* * * **
38661968 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTACGATGTTT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
* * ** *
38662020 GATGACTATGTGTCATTGTGAGTATATGAATCTTTTACGGATTATAAGGTTC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
* * * *
38662072 GATGACTTTTTGTCATCATGAGTATATGAAT-CTTTACGGATTACGAGGTTC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
* *
38662123 GACGACTATGTGTCATCGTGAGTATATGAAT-CTTTACAGATTACGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
* *
38662174 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
* * * ** *
38662226 GATGACTATGTTTCATTGTGAGTATATGAATGCTTTAAAGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
* * *
38662278 GATGACTATGTGTCATCGTGAGTATATGAATCC-TTACGGATAAAGAGGTCT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
*
38662329 GATGACTATGTGTCATCCTGAGTAT
1 GATGACTATGTGTCATCGTGAGTAT
38662354 TAAATAAAAT
Statistics
Matches: 294, Mismatches: 39, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
51 129 0.44
52 165 0.56
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCC
Found at i:38662338 original size:206 final size:206
Alignment explanation
Indices: 38661968--38662353 Score: 560
Period size: 206 Copynumber: 1.9 Consensus size: 206
38661958 AAAAAAGTGT
* **
38661968 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTACGATGTTTGATGACTATGTGT
1 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGGTCCGATGACTATGTGT
** * * *
38662033 CATTGTGAGTATATGAATCTTTTACGGATTATAAGGTTCGATGACTTTTTGTCATCATGAGTATA
66 CATTGTGAGTATATGAATCTTTTAAAGATTATAAGGTCCGATGACTATGTGTCATCATGAGTATA
* * * *
38662098 TGAATCTTTACGGATTACGAGGTTCGACGACTATGTGTCATCGTGAGTATATGAATCTTTACAGA
131 TGAATCCTTACGGATAAAGAGGTTCGACGACTATGTGTCATCCTGAGTATATGAATCTTTACAGA
38662163 TTACGAGGTCC
196 TTACGAGGTCC
* ** * *
38662174 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGGTCCGATGACTATGTTT
1 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGGTCCGATGACTATGTGT
* *
38662239 CATTGTGAGTATATGAATGC-TTTAAAGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
66 CATTGTGAGTATATGAAT-CTTTTAAAGATTATAAGGTCCGATGACTATGTGTCATCATGAGTAT
*
38662303 ATGAATCCTTACGGATAAAGAGG-TCTGATGACTATGTGTCATCCTGAGTAT
130 ATGAATCCTTACGGATAAAGAGGTTC-GACGACTATGTGTCATCCTGAGTAT
38662354 TAAATAAAAT
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
205 2 0.01
206 155 0.98
207 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (206 bp):
GATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGGTCCGATGACTATGTGT
CATTGTGAGTATATGAATCTTTTAAAGATTATAAGGTCCGATGACTATGTGTCATCATGAGTATA
TGAATCCTTACGGATAAAGAGGTTCGACGACTATGTGTCATCCTGAGTATATGAATCTTTACAGA
TTACGAGGTCC
Found at i:38673240 original size:19 final size:20
Alignment explanation
Indices: 38673213--38673258 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
38673203 TTCGTTACAT
38673213 TTGTGTTATTTACTTTT-AG
1 TTGTGTTATTTACTTTTCAG
* *
38673232 TTGTTTTATTTATTTTTCAG
1 TTGTGTTATTTACTTTTCAG
*
38673252 TTCTGTT
1 TTGTGTT
38673259 TATTAGTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (20 bp):
TTGTGTTATTTACTTTTCAG
Found at i:38673486 original size:17 final size:17
Alignment explanation
Indices: 38673466--38673524 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
38673456 ATTGTCATCA
*
38673466 CATTTCTTTTGTCCCTG
1 CATTTCTTTTGTCACTG
38673483 CATTT-TTTATAGTCACTG
1 CATTTCTTT-T-GTCACTG
* *
38673501 CATCTTCATTTGTCATTG
1 CAT-TTCTTTTGTCACTG
38673519 CATTTC
1 CATTTC
38673525 CATATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.09
17 9 0.26
18 18 0.51
19 3 0.09
20 2 0.06
ACGTcount: A:0.15, C:0.24, G:0.10, T:0.51
Consensus pattern (17 bp):
CATTTCTTTTGTCACTG
Found at i:38673533 original size:2 final size:2
Alignment explanation
Indices: 38673526--38673550 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38673516 TTGCATTTCC
38673526 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38673551 ATTTTGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38674466 original size:20 final size:21
Alignment explanation
Indices: 38674441--38674480 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38674431 TCATTTTTTA
*
38674441 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
38674461 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
38674481 GCTCGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:38681851 original size:18 final size:19
Alignment explanation
Indices: 38681824--38681876 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
38681814 AGTTAATAAC
38681824 AAATTTGATTACGGTGAAA
1 AAATTTGATTACGGTGAAA
***
38681843 AAA-TTGATTATAATGAAA
1 AAATTTGATTACGGTGAAA
38681861 AAATTTGATTACGGTG
1 AAATTTGATTACGGTG
38681877 GGTGACAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (19 bp):
AAATTTGATTACGGTGAAA
Found at i:38684151 original size:15 final size:16
Alignment explanation
Indices: 38684110--38684155 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
38684100 TGTTCCTAAA
38684110 AAAATATTTTTCTTTTT
1 AAAA-ATTTTTCTTTTT
*
38684127 AAAAACTTTTCTTTTT
1 AAAAATTTTTCTTTTT
*
38684143 -AACATTTTTCTTT
1 AAAAATTTTTCTTT
38684156 CTTTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 11 0.42
16 11 0.42
17 4 0.15
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (16 bp):
AAAAATTTTTCTTTTT
Found at i:38697855 original size:24 final size:24
Alignment explanation
Indices: 38697826--38697873 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38697816 TTAAATAATG
*
38697826 TTAAATCAATCTATTAATTGAATA
1 TTAAATCAATATATTAATTGAATA
38697850 TTAAATCAATATATTAATTGAATA
1 TTAAATCAATATATTAATTGAATA
38697874 AAAAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAAATCAATATATTAATTGAATA
Found at i:38702908 original size:21 final size:21
Alignment explanation
Indices: 38702854--38702908 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 21
38702844 ACCTACAAAA
38702854 CATTATGTTTGTAACTCTCCT
1 CATTATGTTTGTAACTCTCCT
*
38702875 CATAATGGTTTGTAACTCTCCT
1 CATTAT-GTTTGTAACTCTCCT
38702897 CATTATGTTTGT
1 CATTATGTTTGT
38702909 TTTAAATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (21 bp):
CATTATGTTTGTAACTCTCCT
Found at i:38705932 original size:36 final size:36
Alignment explanation
Indices: 38705885--38705984 Score: 137
Period size: 36 Copynumber: 2.8 Consensus size: 36
38705875 GGTAACAGGC
* *
38705885 ATGACCTTTGGGTCAATAGGGAGTAAAATGAGTATA
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATA
* *
38705921 ATGACCTTTGGGTCAACAAGGAGTAAAATGAGCATC
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATA
* * *
38705957 ATGACATTTAGGTCAACAGGGATTAAAA
1 ATGACCTTTGGGTCAACAGGGAGTAAAA
38705985 CGAATAACGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (36 bp):
ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATA
Found at i:38709835 original size:5 final size:6
Alignment explanation
Indices: 38709817--38709841 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38709807 AACAAACTTG
38709817 AACAAA AACAAA AACAAA AACAAA A
1 AACAAA AACAAA AACAAA AACAAA A
38709842 TAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:38720322 original size:3 final size:3
Alignment explanation
Indices: 38720314--38720342 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38720304 AGGGATTCAT
38720314 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38720343 TGATTCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38723001 original size:28 final size:28
Alignment explanation
Indices: 38722957--38723016 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
38722947 ATATTTATAT
*
38722957 TATATTATTTTAATATTTAATAA-TTTTA
1 TATATTATTTTAATATTGAA-AATTTTTA
*
38722985 TATATT-TTTTATTTATTGAAAATTTTTA
1 TATATTATTTTA-ATATTGAAAATTTTTA
38723013 TATA
1 TATA
38723017 ATCATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TATATTATTTTAATATTGAAAATTTTTA
Found at i:38723014 original size:26 final size:27
Alignment explanation
Indices: 38722956--38723015 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
38722946 AATATTTATA
*
38722956 TTATATTATTTTAATATTTAATAATTT
1 TTATATTATTTTAATATTGAATAATTT
*
38722983 TATATATT-TTTTATTTATTGAA-AATTT
1 T-TATATTATTTTA-ATATTGAATAATTT
38723010 TTATAT
1 TTATAT
38723016 AATCATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 5 0.17
27 12 0.41
28 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATATTATTTTAATATTGAATAATTT
Found at i:38727143 original size:16 final size:16
Alignment explanation
Indices: 38727124--38727155 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38727114 AAAAAAAATA
38727124 AAAAGGATTAAATTTT
1 AAAAGGATTAAATTTT
38727140 AAAAGGATTAAATTTT
1 AAAAGGATTAAATTTT
38727156 TTAAAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (16 bp):
AAAAGGATTAAATTTT
Found at i:38728925 original size:101 final size:101
Alignment explanation
Indices: 38728787--38729142 Score: 439
Period size: 101 Copynumber: 3.5 Consensus size: 101
38728777 TAATGTAGTC
* * * * * * * * * *
38728787 TTAATCCAATCCACTACAACTTC-GAGGATATAGGATTTGATGTTGTAGCTTCATCTTGCTCCAC
1 TTAATCCGATCCACTGCAACTTCAG-GGGTATAAGATTTGGTTTTGTAGCTTCATCCTACTCTAT
38728851 TACAACTTCAGGGAGATAAAGATTTTCTTTCATGACT
65 TACAACTTCAGGGAGATAAAGATTTTCTTTCATGACT
*
38728888 TTAATCCGATCCACTGTAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCTACTCTATT
1 TTAATCCGATCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCTACTCTATT
38728953 ACAACTTCAGGGAGATAAAGATTTTCTTTCATGACT
66 ACAACTTCAGGGAGATAAAGATTTTCTTTCATGACT
* *
38728989 TTAATCTGACCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCTACTCTATT
1 TTAATCCGATCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCTACTCTATT
* * * * ** *
38729054 GCAACTTCAGAGAGATAAGGAATCGCCTT--TGTAGCT
66 ACAACTTCAGGGAGATAAAGATTTTCTTTCATG-A-CT
* * * * *
38729090 TCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTTTTGTAACTTCA
1 TTAATCCGATCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCA
38729143 CTCCATTACA
Statistics
Matches: 226, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
99 2 0.01
100 1 0.00
101 222 0.98
102 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (101 bp):
TTAATCCGATCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCTACTCTATT
ACAACTTCAGGGAGATAAAGATTTTCTTTCATGACT
Found at i:38728959 original size:50 final size:50
Alignment explanation
Indices: 38728796--38729142 Score: 200
Period size: 51 Copynumber: 6.9 Consensus size: 50
38728786 CTTAATCCAA
* * * * *
38728796 TCCACTACAACTTC-GAGGATATAGGATTTGATGTTGTAGCTTCATCTTG-C
1 TCCACTGCAACTTCAG-GGGTATAAGATTTGGTTTTGTAGCTTCATC-TGAC
* ** * *
38728846 TCCACTACAACTTCAGGGAG-ATAAAGATTTTCTTTCATG-A-CTTTAATCCGA-
1 TCCACTGCAACTTCAGGG-GTAT-AAGATTTGGTTT--TGTAGC-TTCATCTGAC
*
38728897 TCCACTGTAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCT-AC
1 TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCAT-CTGAC
* * * ** *
38728947 TCTATTACAACTTCAGGGAG-ATAAAGATTTTCTTTCATG-A-CTTTAATCTGAC
1 TCCACTGCAACTTCAGGG-GTAT-AAGATTTGGTTT--TGTAGC-TTCATCTGAC
38728999 -CCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCCT-AC
1 TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCAT-CTGAC
* * * * * **
38729048 TCTATTGCAACTTCAGAGAG-ATAAGGAATCGCCTTTGTAGCTTCAATCTGA-
1 TCCACTGCAACTTCAG-GGGTATAA-GATTTGGTTTTGTAGCTTC-ATCTGAC
* * *
38729099 TCCACTGCAACTTCAGGGATATAGGATTTGGTTTTGTAACTTCA
1 TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCA
38729143 CTCCATTACA
Statistics
Matches: 226, Mismatches: 43, Indels: 57
0.69 0.13 0.17
Matches are distributed among these distances:
48 4 0.02
49 14 0.06
50 93 0.41
51 95 0.42
52 16 0.07
53 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (50 bp):
TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAGCTTCATCTGAC
Found at i:38729366 original size:149 final size:148
Alignment explanation
Indices: 38729132--38729512 Score: 440
Period size: 149 Copynumber: 2.5 Consensus size: 148
38729122 GGATTTGGTT
* * * * * * *
38729132 TTGTAACTTCACTCCATTACACTACAACTTTAGTGGAGATCGAGGTCTGCTACTGTGAGTTTTAA
1 TTGTAACTTCGCTTCATTCCACTGCAACTTCA-TGGAGATTGAGGT-TGTTACT-T--GTTTTAA
* * *
38729197 TCCGCCCCTCTACAATTTTAGGGGTATAAGATTTGCTGCTATAGTTTCAATCTGTCCCTCTACAG
61 TCCGCCCCTCTACAACTTTAGAGGTATAAGATTTGCTGCTATAGTTTCAACCTGTCCCTCTACAG
*
38729262 CTTTAGAGGTATAAGATTCGAGG
126 CTCTAGAGGTATAAGATTCGAGG
38729285 TTGTAACTTCGCTTCATTCCACTGCAACTTCATGGAGATTGAGGTATGTTACTTGTTTTAATCCG
1 TTGTAACTTCGCTTCATTCCACTGCAACTTCATGGAGATTGAGGT-TGTTACTTGTTTTAATCCG
* * * *
38729350 CCCCTCTACAACTTTAGAGGTATAGGATTTGCTTCTGTAGTTTCAACCTGTCCCTTTACAGCTCT
65 CCCCTCTACAACTTTAGAGGTATAAGATTTGCTGCTATAGTTTCAACCTGTCCCTCTACAGCTCT
*
38729415 AGGGGTATAAGATTCGAGG
130 AGAGGTATAAGATTCGAGG
* * * * * * ** *
38729434 TTGTAACTTCG-TTACATTCTACTGTAACCTCAGGGACATTGAGATTCGTTACTCATTTTGATCC
1 TTGTAACTTCGCTT-CATTCCACTGCAACTTCATGGAGATTGAGGTT-GTTACTTGTTTTAATCC
**
38729498 GATCCTCTACAACTT
64 GCCCCTCTACAACTT
38729513 CAAGGATATA
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
148 3 0.02
149 149 0.75
151 1 0.01
152 18 0.09
153 27 0.14
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (148 bp):
TTGTAACTTCGCTTCATTCCACTGCAACTTCATGGAGATTGAGGTTGTTACTTGTTTTAATCCGC
CCCTCTACAACTTTAGAGGTATAAGATTTGCTGCTATAGTTTCAACCTGTCCCTCTACAGCTCTA
GAGGTATAAGATTCGAGG
Found at i:38729891 original size:49 final size:49
Alignment explanation
Indices: 38729808--38729977 Score: 175
Period size: 49 Copynumber: 3.5 Consensus size: 49
38729798 AGATTCGTCG
* *
38729808 TTGCGGCTTCAATTTTTCCCTTCATATCTCTAGGGTACAAGGTTCTCCA
1 TTGCAGCTTCAATCTTTCCCTTCATATCTCTAGGGTACAAGGTTCTCCA
* * * * * * *
38729857 TTACGGCTTCAATCTTTCCCTTCATGTCTTTAGGGTATAAAGTT-TGTCA
1 TTGCAGCTTCAATCTTTCCCTTCATATCTCTAGGGTACAAGGTTCT-CCA
* * * *
38729906 TTGCAGCTTCAACCTTTCCC-TCGATAACTCTAGGGTACAAGATTCGCCA
1 TTGCAGCTTCAATCTTTCCCTTC-ATATCTCTAGGGTACAAGGTTCTCCA
*
38729955 TTGCAACTT-AATCTTTCCCTTCA
1 TTGCAGCTTCAATCTTTCCCTTCA
38729978 CATATCTAAG
Statistics
Matches: 97, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
48 13 0.13
49 84 0.87
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (49 bp):
TTGCAGCTTCAATCTTTCCCTTCATATCTCTAGGGTACAAGGTTCTCCA
Found at i:38729924 original size:98 final size:97
Alignment explanation
Indices: 38729785--38729998 Score: 243
Period size: 98 Copynumber: 2.2 Consensus size: 97
38729775 CTTCTCCTCA
* * ** *
38729785 TCTTTAAGGTATAAGATTCGTCGTTGCGGCTTCAATTTTTCCCTTC-ATATCTCTAGGGTACAAG
1 TCTTTAAGGTATAAGATTCGTCATTGCAGCTTCAACCTTTCCC-TCGATAACTCTAGGGTACAAG
* * **
38729849 GTTCTCCATTACGGCTTCAATCTTTCCCTTCATG
65 ATTCGCCATTACAACTT-AATCTTTCCCTTCATG
* *
38729883 TCTTTAGGGTATAA-AGTTTGTCATTGCAGCTTCAACCTTTCCCTCGATAACTCTAGGGTACAAG
1 TCTTTAAGGTATAAGA-TTCGTCATTGCAGCTTCAACCTTTCCCTCGATAACTCTAGGGTACAAG
* **
38729947 ATTCGCCATTGCAACTTAATCTTTCCCTTCACA
65 ATTCGCCATTACAACTTAATCTTTCCCTTCATG
* *
38729980 TATCTAAGGTATAAGATTC
1 TCTTTAAGGTATAAGATTC
38729999 AACGTTTCCT
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
97 30 0.32
98 65 0.68
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (97 bp):
TCTTTAAGGTATAAGATTCGTCATTGCAGCTTCAACCTTTCCCTCGATAACTCTAGGGTACAAGA
TTCGCCATTACAACTTAATCTTTCCCTTCATG
Found at i:38730993 original size:13 final size:12
Alignment explanation
Indices: 38730977--38731015 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
38730967 TTCTCTTTCA
38730977 TTTTTCTTTTATT
1 TTTTTCTTTT-TT
*
38730990 TTTTTATTTTTT
1 TTTTTCTTTTTT
38731002 TTTTTGCTTTTTT
1 TTTTT-CTTTTTT
38731015 T
1 T
38731016 CCTTTCTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:38735480 original size:19 final size:18
Alignment explanation
Indices: 38735458--38735498 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
38735448 AAAATGATCC
38735458 AAATTTACAAAA-AATTTAA
1 AAATTTA-AAAATAA-TTAA
38735477 AAATTTAAAAATAATTAA
1 AAATTTAAAAATAATTAA
38735495 AAAT
1 AAAT
38735499 ATATATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTTAAAAATAATTAA
Found at i:38736426 original size:20 final size:20
Alignment explanation
Indices: 38736401--38736439 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38736391 TATGTATTGG
* *
38736401 GTATTTGGGCTTCAAATTTT
1 GTATTTGGACTTAAAATTTT
38736421 GTATTTGGACTTAAAATTT
1 GTATTTGGACTTAAAATTT
38736440 ATTTTGGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.49
Consensus pattern (20 bp):
GTATTTGGACTTAAAATTTT
Found at i:38736469 original size:12 final size:13
Alignment explanation
Indices: 38736452--38736489 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
38736442 TTTGGGTGTT
38736452 TATTTTATTT-TA
1 TATTTTATTTATA
*
38736464 TATTTTATTTATT
1 TATTTTATTTATA
38736477 TATTTATATTTAT
1 TATTT-TATTTAT
38736490 CAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTTATTTATA
Found at i:38738188 original size:20 final size:20
Alignment explanation
Indices: 38738161--38738201 Score: 50
Period size: 19 Copynumber: 2.0 Consensus size: 20
38738151 TTTTCAAATA
38738161 TAAATTTGATTT-T-TTTTTT
1 TAAATTTG-TTTCTATTTTTT
38738180 TAAATTTTGTTTCTATTTTTT
1 TAAA-TTTGTTTCTATTTTTT
38738201 T
1 T
38738202 TGTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (20 bp):
TAAATTTGTTTCTATTTTTT
Found at i:38740637 original size:86 final size:86
Alignment explanation
Indices: 38740475--38740638 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 86
38740465 GCTACAAACG
* **
38740475 CCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACGTTGCTATAGAAAATGGTCTTTA
1 CCGCTATAGAACATGATCTTTAGTGGCGCTTTTCCCACAAACACTGCTATAGAAAATGGTCTTTA
* **
38740540 GCGGGGCTTTTCCAAGAAAAA
66 ACGACGCTTTTCCAAGAAAAA
* * * * *
38740561 CCGCTATAGAACATGATCTTTAGTGGGGTTTTTCCCACAAATACTGCTATAGAACATGTTCTTTA
1 CCGCTATAGAACATGATCTTTAGTGGCGCTTTTCCCACAAACACTGCTATAGAAAATGGTCTTTA
*
38740626 ACGACGTTTTTCC
66 ACGACGCTTTTCC
38740639 CACAAATGCC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (86 bp):
CCGCTATAGAACATGATCTTTAGTGGCGCTTTTCCCACAAACACTGCTATAGAAAATGGTCTTTA
ACGACGCTTTTCCAAGAAAAA
Found at i:38740645 original size:43 final size:43
Alignment explanation
Indices: 38740477--38740645 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
38740467 TACAAACGCC
* ***
38740477 GCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACGTT
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATACT
* * * * * *
38740520 GCTATAGAAAATGGTCTTTAGCGGGGCTTTTCCAAGAAAAACC
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATACT
* * * *
38740563 GCTATAGAACATGATCTTTAGTGGGGTTTTTCCCACAAATACT
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATACT
* * * *
38740606 GCTATAGAACATGTTCTTTAACGACGTTTTTCCCACAAAT
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAAT
38740646 GCCTCTAACA
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (43 bp):
GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATACT
Found at i:38741054 original size:66 final size:66
Alignment explanation
Indices: 38740918--38741055 Score: 177
Period size: 66 Copynumber: 2.1 Consensus size: 66
38740908 TCATATTTTG
* * * * * *
38740918 AAGTTGTAGTTGCAGTTCGTCATACTTTCTTTGAGACTCTGCTTCCCTCGCTGCTACCTTGGCTT
1 AAGTTGTAGCTGAAGTTCATCATACTTTCTTTAAGACTCTGCTTCCCTCGCTGCTACATTCGCTT
38740983 C
66 C
* * * *
38740984 AAGTTGTAGCTGAAGTTCATCATATTTTCTTTAAGCCTCTGCTTCTCTCGCTGCTGCATTCGCTT
1 AAGTTGTAGCTGAAGTTCATCATACTTTCTTTAAGACTCTGCTTCCCTCGCTGCTACATTCGCTT
*
38741049 T
66 C
38741050 AAGTTG
1 AAGTTG
38741056 AGCAATTTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (66 bp):
AAGTTGTAGCTGAAGTTCATCATACTTTCTTTAAGACTCTGCTTCCCTCGCTGCTACATTCGCTT
C
Found at i:38750283 original size:8 final size:8
Alignment explanation
Indices: 38750270--38750340 Score: 61
Period size: 8 Copynumber: 8.6 Consensus size: 8
38750260 ACATAGGTGC
38750270 AAATAATT
1 AAATAATT
38750278 AAATAATT
1 AAATAATT
38750286 AAATAATT
1 AAATAATT
*
38750294 AAATATTT
1 AAATAATT
** **
38750302 GATTTGTTTT
1 -AAAT-AATT
*
38750312 TAATAATT
1 AAATAATT
*
38750320 AACTAATT
1 AAATAATT
38750328 AAATAATT
1 AAATAATT
38750336 AAATA
1 AAATA
38750341 TTTGGGTTGT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
8 43 0.88
9 3 0.06
10 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (8 bp):
AAATAATT
Found at i:38750330 original size:42 final size:42
Alignment explanation
Indices: 38750271--38750381 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 42
38750261 CATAGGTGCA
*
38750271 AATAATTAAATAATTAAATAATTAAATATTTGATTTGTTTTT
1 AATAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTT
* *
38750313 AATAATTAACTAATTAAATAATTAAATATTTGGGTTGTTTTT
1 AATAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTT
* *
38750355 AATAATTAATTATTTAAATAATTAAAT
1 AATAATTAAATAATTAAATAATTAAAT
38750382 TTGTTAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (42 bp):
AATAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTT
Found at i:38753497 original size:22 final size:23
Alignment explanation
Indices: 38753448--38753497 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
38753438 TAAAGAAAAT
* *
38753448 TTTATAAAATAATTAGATATAAA
1 TTTAAAAAATAAATAGATATAAA
*
38753471 -ATAAAAAATAAATA-ATATAAA
1 TTTAAAAAATAAATAGATATAAA
38753492 TTTAAA
1 TTTAAA
38753498 CATGTAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
TTTAAAAAATAAATAGATATAAA
Found at i:38754394 original size:18 final size:17
Alignment explanation
Indices: 38754373--38754422 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
38754363 AAATAATTTA
38754373 AAAATTATAAAAATAGTC
1 AAAATTATAAAAATA-TC
* *
38754391 AAAATAATAATAAT-TC
1 AAAATTATAAAAATATC
38754407 AAAATTCA-AAAAATAT
1 AAAATT-ATAAAAATAT
38754423 TATAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 12 0.46
17 2 0.08
18 12 0.46
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATTATAAAAATATC
Found at i:38755127 original size:41 final size:42
Alignment explanation
Indices: 38755065--38755183 Score: 147
Period size: 41 Copynumber: 2.9 Consensus size: 42
38755055 TTAGCGGCGT
* *
38755065 TTTTCCCATAAACGC-TGCTAATGCTCTTACCTTTTGCT-ACG
1 TTTTCTCATAAACGCAT-CTAATGCTCTTACCTTTTGCTGACA
* * *
38755106 TTTTCTTATAAACATC-TCTAATGCTCTTACCTTTTG-TGGCA
1 TTTTCTCATAAAC-GCATCTAATGCTCTTACCTTTTGCTGACA
38755147 TTTTCTCATAAACGCATCTAATGCTCTTACCTTTTGC
1 TTTTCTCATAAACGCATCTAATGCTCTTACCTTTTGC
38755184 GAAAACGCCG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
40 2 0.03
41 63 0.94
42 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (42 bp):
TTTTCTCATAAACGCATCTAATGCTCTTACCTTTTGCTGACA
Found at i:38755239 original size:40 final size:40
Alignment explanation
Indices: 38755184--38755291 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
38755174 TACCTTTTGC
* * **
38755184 GAAAACGCCGCTATTGCTTTACCTTTTGTGGTATTTATGG
1 GAAAACGCCGCTATTGCTTTACCTTTTGAGGCATTTATAA
* *
38755224 GAAAACGCCGTTATTGCTTTACCTTTTGAGGCGTTTATAA
1 GAAAACGCCGCTATTGCTTTACCTTTTGAGGCATTTATAA
* *
38755264 AAAAACGCCGCTATTGCTTTACTTTTTG
1 GAAAACGCCGCTATTGCTTTACCTTTTG
38755292 CAACGTTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (40 bp):
GAAAACGCCGCTATTGCTTTACCTTTTGAGGCATTTATAA
Found at i:38755554 original size:47 final size:46
Alignment explanation
Indices: 38755495--38755599 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 46
38755485 AAGAAGTAGT
*
38755495 AGTTTATT-TGCAAAAGTG-GTGGTTTGTCCACAATATTACAAAGTGGC
1 AGTTT-TTCTGCAAAAGTGAGT-CTTT-TCCACAATATTACAAAGTGGC
* **
38755542 AGTTTTTCTGCAAAAGTGACGTCTTTTTCACAATATTATTAAGTGGC
1 AGTTTTTCTGCAAAAGTGA-GTCTTTTCCACAATATTACAAAGTGGC
*
38755589 AGTTTATCTGC
1 AGTTTTTCTGC
38755600 GTTATTGTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
46 2 0.04
47 43 0.86
48 3 0.06
49 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (46 bp):
AGTTTTTCTGCAAAAGTGAGTCTTTTCCACAATATTACAAAGTGGC
Found at i:38760842 original size:29 final size:30
Alignment explanation
Indices: 38760798--38760861 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
38760788 AAATACTTAT
* * *
38760798 TAAAAATTATATAAAATTTA-AAAAT-ATTC
1 TAAAAATAATAGAAAA-TTACAAAATGATTA
38760827 TAAAAATAATAGAAAATTACAAAATGATTA
1 TAAAAATAATAGAAAATTACAAAATGATTA
38760857 TAAAA
1 TAAAA
38760862 GAATATCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 3 0.10
29 19 0.63
30 8 0.27
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (30 bp):
TAAAAATAATAGAAAATTACAAAATGATTA
Found at i:38760917 original size:24 final size:24
Alignment explanation
Indices: 38760889--38760937 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38760879 TATACAATCA
*
38760889 CGATTGCCACTTGCCTTTACAACT
1 CGATTGCCACTTACCTTTACAACT
* *
38760913 CGATTGTCACTTATCTTTACAACT
1 CGATTGCCACTTACCTTTACAACT
38760937 C
1 C
38760938 ATTTTCCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.10, T:0.37
Consensus pattern (24 bp):
CGATTGCCACTTACCTTTACAACT
Found at i:38761366 original size:21 final size:23
Alignment explanation
Indices: 38761333--38761376 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
38761323 TTTTTATAAC
38761333 ATTTTATACTATTTTTA-AAATA
1 ATTTTATACTATTTTTACAAATA
*
38761355 ATTTTCTA-TATTTTTACAAATA
1 ATTTTATACTATTTTTACAAATA
38761377 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTATACTATTTTTACAAATA
Found at i:38761425 original size:19 final size:19
Alignment explanation
Indices: 38761382--38761427 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
38761372 AAATATTTAA
* *
38761382 TTTTTTGTAATTTATATAG
1 TTTTTTATAATTTAAATAG
*
38761401 TTTTTTATAATTTAAATAT
1 TTTTTTATAATTTAAATAG
38761420 TTTTTTAT
1 TTTTTTAT
38761428 TTTTAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTTATAATTTAAATAG
Found at i:38761439 original size:24 final size:26
Alignment explanation
Indices: 38761402--38761456 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
38761392 TTTATATAGT
* *
38761402 TTTTTATAATTTAAAT-ATTTTT-TTA
1 TTTTTATAAGTT-AATGATTTTTAATA
38761427 TTTTTA-AAGTTAATGATTTTTAATA
1 TTTTTATAAGTTAATGATTTTTAATA
38761452 TTTTT
1 TTTTT
38761457 GCAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 3 0.12
24 10 0.38
25 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTTTATAAGTTAATGATTTTTAATA
Found at i:38761479 original size:8 final size:8
Alignment explanation
Indices: 38761462--38761527 Score: 53
Period size: 8 Copynumber: 7.9 Consensus size: 8
38761452 TTTTTGCAAT
38761462 TTTTATTAA
1 TTTTA-TAA
38761471 TTTTATAA
1 TTTTATAA
38761479 -TTTATAA
1 TTTTATAA
* *
38761486 TTTTTTCCA
1 TTTTAT-AA
38761495 TTTATAATAA
1 TTT-T-ATAA
38761505 TTTTATAA
1 TTTTATAA
* *
38761513 TTTTCTAT
1 TTTTATAA
38761521 TTTTATA
1 TTTTATA
38761528 CTATTTTCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
7 7 0.15
8 23 0.50
9 10 0.22
10 5 0.11
11 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:38761489 original size:34 final size:34
Alignment explanation
Indices: 38761451--38761515 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
38761441 GATTTTTAAT
* *
38761451 ATTTTTGCAATTTTTATTAATTTTATAATTTATA
1 ATTTTTGCAATTTATAATAATTTTATAATTTATA
* *
38761485 ATTTTTTCCATTTATAATAATTTTATAATTT
1 ATTTTTGCAATTTATAATAATTTTATAATTT
38761516 TCTATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (34 bp):
ATTTTTGCAATTTATAATAATTTTATAATTTATA
Found at i:38761490 original size:16 final size:17
Alignment explanation
Indices: 38761379--38761515 Score: 59
Period size: 16 Copynumber: 7.9 Consensus size: 17
38761369 TACAAATATT
* *
38761379 TAATTTTTTGTAATTTA
1 TAATATTTTATAATTTA
*
38761396 TATAGTTTTTTATAATTTA
1 TA-A-TATTTTATAATTTA
* * *
38761415 -AATATTTTTTTATTTT
1 TAATATTTTATAATTTA
* * * *
38761431 TAA-AGTTAATGATTTT
1 TAATATTTTATAATTTA
*
38761447 TAATATTTT-TGCAATTTT
1 TAATATTTTAT--AATTTA
*
38761465 TATTAATTTTATAATTTA
1 TAAT-ATTTTATAATTTA
*
38761483 TAAT-TTTT-TCCATTTA
1 TAATATTTTAT-AATTTA
38761499 TAATAATTTTATAATTT
1 TAAT-ATTTTATAATTT
38761516 TCTATTTTTA
Statistics
Matches: 91, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
15 1 0.01
16 36 0.40
17 8 0.09
18 26 0.29
19 19 0.21
20 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TAATATTTTATAATTTA
Found at i:38761523 original size:34 final size:34
Alignment explanation
Indices: 38761445--38761524 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
38761435 GTTAATGATT
* * *
38761445 TTTAATATTTTTGCAATTTTTATTAATTTTATAA
1 TTTATTATTTTTGCAATTTATAATAATTTTATAA
* * *
38761479 TTTATAATTTTTTCCATTTATAATAATTTTATAA
1 TTTATTATTTTTGCAATTTATAATAATTTTATAA
38761513 TTT-TCTATTTTT
1 TTTAT-TATTTTT
38761525 ATACTATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (34 bp):
TTTATTATTTTTGCAATTTATAATAATTTTATAA
Found at i:38761533 original size:18 final size:17
Alignment explanation
Indices: 38761505--38761560 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
38761495 TTTATAATAA
38761505 TTTTATA-ATTTTCTAT
1 TTTTATATATTTTCTAT
38761521 TTTTATACTATTTTC-ACT
1 TTTTATA-TATTTTCTA-T
*
38761539 TTTTCTATATTTTCTGAT
1 TTTTATATATTTTCT-AT
38761557 TTTT
1 TTTT
38761561 GTAATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 7 0.21
17 8 0.24
18 18 0.53
19 1 0.03
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTATATATTTTCTAT
Found at i:38761652 original size:12 final size:10
Alignment explanation
Indices: 38761602--38761646 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
38761592 CATTTTTTTT
38761602 ATTTTTATAT-
1 ATTTTTA-ATG
38761612 ATTTTT-ATG
1 ATTTTTAATG
38761621 -TTCTTTAATG
1 ATT-TTTAATG
38761631 ATTTTTAATG
1 ATTTTTAATG
38761641 ATTTTT
1 ATTTTT
38761647 TAAATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.13
9 3 0.10
10 22 0.71
11 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (10 bp):
ATTTTTAATG
Found at i:38763534 original size:31 final size:31
Alignment explanation
Indices: 38763484--38763565 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
38763474 AAAAAGTTTA
* * *
38763484 AGTACCAACTTAAAAAAAAAGTGTGAAGTATAG
1 AGTACCAAATT-AAGAAAAAGTGTCAAGT-TAG
* * *
38763517 -GTACTAAATTAGGAAAAAGTGTCAAGTTTG
1 AGTACCAAATTAAGAAAAAGTGTCAAGTTAG
38763547 AGTACCAAATTAAGAAAAA
1 AGTACCAAATTAAGAAAAA
38763566 ATATTAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 2 0.05
31 30 0.75
32 8 0.20
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (31 bp):
AGTACCAAATTAAGAAAAAGTGTCAAGTTAG
Found at i:38766540 original size:19 final size:19
Alignment explanation
Indices: 38766507--38766543 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38766497 ATTAAAAATT
**
38766507 AATTTTTAATTTTTTTTAG
1 AATTTTTAAAATTTTTTAG
38766526 AATTTTTAAAATTTTTTA
1 AATTTTTAAAATTTTTTA
38766544 AAATACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
AATTTTTAAAATTTTTTAG
Found at i:38769576 original size:3 final size:3
Alignment explanation
Indices: 38769564--38769615 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
38769554 CATCATCATC
*
38769564 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38769612 ATT A
1 ATT A
38769616 GGATTTCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:38770259 original size:148 final size:149
Alignment explanation
Indices: 38770048--38770547 Score: 652
Period size: 148 Copynumber: 3.4 Consensus size: 149
38770038 AAGTTTTGTT
* * *
38770048 TTTTTTAAACAATTTCGAAATAAAAGTTTAAATTTTTAAGTAAAATAGTGATTTT-CTTAAAAAA
1 TTTTTTAAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTTATTTAAAAAA
* * *
38770112 AAGAGAGTTTATATTTTTAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGAAAAAATTTAAAA
66 AAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAATTTAAAT
* *
38770177 TTTAAAATAAAATTTTGAAA
131 TTTTAAACAAAATTTTG-AA
* * *
38770197 TATTTT-AACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTTTTTAAAAAA
1 TTTTTTAAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTTATTTAAAAAA
* * *
38770261 GAGAAAGTTTATA-TTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAATTTTAAAT
66 AAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAATTTAAAT
* *
38770325 TTTTAAACAAAGTTTCG-A
131 TTTTAAACAAAATTTTGAA
* * *
38770343 TTTTTT-AACTATTTCGAAATAAAAATTTGAATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAA
1 TTTTTTAAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTT-ATTTAAAAA
* * * *
38770407 AAAGAAAGTTTAAATTTTTAAAAAATAAAAATCTGTTTTTTAGTGATTCTAAAGAAAAAGTTTAA
65 AAAGAAAGTTTATATTTTT-AAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAATTTAA
* *
38770472 ATTTTTAAACAAAATTGTGAT
129 ATTTTTAAACAAAATTTTGAA
* * * * *
38770493 TTTTTTAAACTTTTTTGAAATAAAAGTTTTG-ATTTTGAAGTAAAGTAGTTATTTT
1 TTTTTTAAACTATTTCGAAATAAAAG-TTTGAATTTTTAAGTAAAATAGTGATTTT
38770548 GTTTTAATCA
Statistics
Matches: 308, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
146 51 0.17
147 19 0.06
148 109 0.35
149 81 0.26
150 6 0.02
151 38 0.12
152 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (149 bp):
TTTTTTAAACTATTTCGAAATAAAAGTTTGAATTTTTAAGTAAAATAGTGATTTTATTTAAAAAA
AAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAATTTAAAT
TTTTAAACAAAATTTTGAA
Found at i:38782681 original size:562 final size:562
Alignment explanation
Indices: 38781618--38782742 Score: 2223
Period size: 562 Copynumber: 2.0 Consensus size: 562
38781608 CTTGCGGACC
38781618 TTGCCCCCTTGAACTTTTTCGGTTTGGGAGCGTCAACCTTATGTCTTGGTGTTCCACCCAACACC
1 TTGCCCCCTTGAACTTTTTCGGTTTGGGAGCGTCAACCTTATGTCTTGGTGTTCCACCCAACACC
38781683 CCTTTTCCCACAACAGCTCGGTACAAAGAAAGCTCCCCCTCGAGCTCCTCAACTCTTGTGCTTAA
66 CCTTTTCCCACAACAGCTCGGTACAAAGAAAGCTCCCCCTCGAGCTCCTCAACTCTTGTGCTTAA
38781748 AGCCCTTATTATGGCCATTGTTTCCTCTTTCAAAGCCATTGCCATGGCCTCGAGAGCATCATCTC
131 AGCCCTTATTATGGCCATTGTTTCCTCTTTCAAAGCCATTGCCATGGCCTCGAGAGCATCATCTC
*
38781813 TCTCCGTCAACTTCCCCACAGTGGTGTTGAGGAGAGCTTACACTTCATCCAAATTGGAACTAAGA
196 TCTCCGTCAACTTCCCCACAGTGGTGTTGAGGAGAGCTTACACTTCATCCAAACTGGAACTAAGA
38781878 GCCTCATCCATTTGTTCCTTGAGCTGCTTCTTTCTAAGCCAAGCTACTAAATGCGCGTCCTCCCA
261 GCCTCATCCATTTGTTCCTTGAGCTGCTTCTTTCTAAGCCAAGCTACTAAATGCGCGTCCTCCCA
*
38781943 CTATCTCAAGAGTGTCCTTTATTTCCCCCATGGACTCCTCGTGACTGATCACTCGGTTTTCCAAA
326 CTATCTCAAGAGTGTCCTTTATTTCCCCCATGGACTCCTCATGACTGATCACTCGGTTTTCCAAA
38782008 GCTGACAACATGTCCCTCGATCGACTCTATTTTCTGGCCCTCCCATGGGTCTCCCTTGGCTCATT
391 GCTGACAACATGTCCCTCGATCGACTCTATTTTCTGGCCCTCCCATGGGTCTCCCTTGGCTCATT
38782073 CTGATCGGAAACTTCTTTCAACATCACGATGATGCCTTCGTAACCTTTATAGCTTGGATACCAAC
456 CTGATCGGAAACTTCTTTCAACATCACGATGATGCCTTCGTAACCTTTATAGCTTGGATACCAAC
38782138 TGTCACGGGGCTAAATCTTTAATCTCACGTTTCATGCAGCCT
521 TGTCACGGGGCTAAATCTTTAATCTCACGTTTCATGCAGCCT
38782180 TTGCCCCCTTGAACTTTTTCGGTTTGGGAGCGTCAACCTTATGTCTTGGTGTTCCACCCAACACC
1 TTGCCCCCTTGAACTTTTTCGGTTTGGGAGCGTCAACCTTATGTCTTGGTGTTCCACCCAACACC
38782245 CCTTTTCCCACAACAGCTCGGTACAAAGAAAGCTCCCCCTCGAGCTCCTCAACTCTTGTGCTTAA
66 CCTTTTCCCACAACAGCTCGGTACAAAGAAAGCTCCCCCTCGAGCTCCTCAACTCTTGTGCTTAA
38782310 AGCCCTTATTATGGCCATTGTTTCCTCTTTCAAAGCCATTGCCATGGCCTCGAGAGCATCATCTC
131 AGCCCTTATTATGGCCATTGTTTCCTCTTTCAAAGCCATTGCCATGGCCTCGAGAGCATCATCTC
*
38782375 TCTCCGTCAACTTCCCCACATTGGTGTTGAGGAGAGCTTACACTTCATCCAAACTGGAACTAAGA
196 TCTCCGTCAACTTCCCCACAGTGGTGTTGAGGAGAGCTTACACTTCATCCAAACTGGAACTAAGA
38782440 GCCTCATCCATTTGTTCCTTGAGCTGCTTCTTTCTAAGCCAAGCTACTAAATGCGCGTCCTCCCA
261 GCCTCATCCATTTGTTCCTTGAGCTGCTTCTTTCTAAGCCAAGCTACTAAATGCGCGTCCTCCCA
38782505 CTATCTCAAGAGTGTCCTTTATTTCCCCCATGGACTCCTCATGACTGATCACTCGGTTTTCCAAA
326 CTATCTCAAGAGTGTCCTTTATTTCCCCCATGGACTCCTCATGACTGATCACTCGGTTTTCCAAA
38782570 GCTGACAACATGTCCCTCGATCGACTCTATTTTCTGGCCCTCCCATGGGTCTCCCTTGGCTCATT
391 GCTGACAACATGTCCCTCGATCGACTCTATTTTCTGGCCCTCCCATGGGTCTCCCTTGGCTCATT
38782635 CTGATCGGAAACTTCTTTCAACATCACGATGATGCCTTCGTAACCTTTATAGCTTGGATACCAAC
456 CTGATCGGAAACTTCTTTCAACATCACGATGATGCCTTCGTAACCTTTATAGCTTGGATACCAAC
38782700 TGTCACGGGGCTAAATCTTTAATCTCACGTTTCATGCAGCCT
521 TGTCACGGGGCTAAATCTTTAATCTCACGTTTCATGCAGCCT
38782742 T
1 T
38782743 AGGTGATCCT
Statistics
Matches: 560, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
562 560 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (562 bp):
TTGCCCCCTTGAACTTTTTCGGTTTGGGAGCGTCAACCTTATGTCTTGGTGTTCCACCCAACACC
CCTTTTCCCACAACAGCTCGGTACAAAGAAAGCTCCCCCTCGAGCTCCTCAACTCTTGTGCTTAA
AGCCCTTATTATGGCCATTGTTTCCTCTTTCAAAGCCATTGCCATGGCCTCGAGAGCATCATCTC
TCTCCGTCAACTTCCCCACAGTGGTGTTGAGGAGAGCTTACACTTCATCCAAACTGGAACTAAGA
GCCTCATCCATTTGTTCCTTGAGCTGCTTCTTTCTAAGCCAAGCTACTAAATGCGCGTCCTCCCA
CTATCTCAAGAGTGTCCTTTATTTCCCCCATGGACTCCTCATGACTGATCACTCGGTTTTCCAAA
GCTGACAACATGTCCCTCGATCGACTCTATTTTCTGGCCCTCCCATGGGTCTCCCTTGGCTCATT
CTGATCGGAAACTTCTTTCAACATCACGATGATGCCTTCGTAACCTTTATAGCTTGGATACCAAC
TGTCACGGGGCTAAATCTTTAATCTCACGTTTCATGCAGCCT
Found at i:38795306 original size:16 final size:16
Alignment explanation
Indices: 38795287--38795317 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38795277 AGGAGGTCAA
38795287 AAAAAAGAAAAAGAAT
1 AAAAAAGAAAAAGAAT
38795303 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
38795318 AAAGGGTCGA
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:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAT
Found at i:38796065 original size:33 final size:32
Alignment explanation
Indices: 38796012--38796087 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 32
38796002 TCACCCATAA
38796012 AAAAGAAAAAAAAAGAAAGAAAAAAGAAAAAG
1 AAAAGAAAAAAAAAGAAAGAAAAAAGAAAAAG
* * *
38796044 AAGAGAAAAAAAGAA-ATAAGAAAGAAGAAAAGG
1 AAAAGAAAAAAA-AAGA-AAGAAAAAAGAAAAAG
38796077 AAAAGAAAAAA
1 AAAAGAAAAAA
38796088 GAGTGGTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 12 0.32
33 26 0.68
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (32 bp):
AAAAGAAAAAAAAAGAAAGAAAAAAGAAAAAG
Found at i:38796079 original size:20 final size:17
Alignment explanation
Indices: 38796017--38796084 Score: 84
Period size: 19 Copynumber: 3.8 Consensus size: 17
38796007 CATAAAAAAG
38796017 AAAA-AAAAAGAAAGAA
1 AAAAGAAAAAGAAAGAA
38796033 AAAAGAAAAAGAAGAGAAA
1 AAAAGAAAAAGAA-AG-AA
38796052 AAAAGAAATAAGAAAGAA
1 AAAAGAAA-AAGAAAGAA
*
38796070 GAAAAGGAAAAGAAA
1 -AAAAGAAAAAGAAA
38796085 AAAGAGTGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
16 4 0.09
17 8 0.17
18 10 0.22
19 19 0.41
20 5 0.11
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (17 bp):
AAAAGAAAAAGAAAGAA
Found at i:38796089 original size:7 final size:7
Alignment explanation
Indices: 38796010--38796074 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
38796000 TTTCACCCAT
38796010 AAAAAAG
1 AAAAAAG
38796017 AAAAAA-
1 AAAAAAG
38796023 AAAGAAAG
1 AAA-AAAG
38796031 AAAAAAG
1 AAAAAAG
38796038 -AAAAAG
1 AAAAAAG
* *
38796044 AAGAGA-
1 AAAAAAG
38796050 AAAAAAG
1 AAAAAAG
*
38796057 AAATAAG
1 AAAAAAG
*
38796064 AAAGAAG
1 AAAAAAG
38796071 AAAA
1 AAAA
38796075 GGAAAAGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
6 13 0.28
7 31 0.66
8 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:38797041 original size:49 final size:49
Alignment explanation
Indices: 38796947--38797286 Score: 283
Period size: 49 Copynumber: 7.0 Consensus size: 49
38796937 ATAAAAGACA
* * * * *
38796947 TGAAGTGAAAGATTAAAGTCGTAATGACGAATC---TACCCTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
* * *
38796993 TGGAGGGAAATATTGAAGACGCAACGACGAATCTTATACCCTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
* * * * * * * *
38797042 TGAAGGGAAAGATTAAAGTCTCAACGGCAAATCTTATACCTTAAAGATA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
* ** * * * * *
38797091 T-AGAGGGAAATATTGAAGCCATAATGGCGAATCTTGTACCCTGGAGATA
1 TGA-AGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
* * * * * * *
38797140 TGGAGGGAAAGGTTGAAACTGCAACAATGAACCTTATACCCTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
* * * * * *
38797189 TGAAGGGAAAGGTTGAAGCCGTAATGACTAACCTTATACCTTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
* * *
38797238 TGAAGGGAAAGATTGAAGCCGCAATGATGAATCTTATACCCTAAAGATG
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
38797287 AAGAGAAGCA
Statistics
Matches: 230, Mismatches: 59, Indels: 7
0.78 0.20 0.02
Matches are distributed among these distances:
46 26 0.11
48 1 0.00
49 203 0.88
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (49 bp):
TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAGAGATG
Found at i:38797247 original size:147 final size:147
Alignment explanation
Indices: 38796980--38797285 Score: 357
Period size: 147 Copynumber: 2.1 Consensus size: 147
38796970 ATGACGAATC
* * * *
38796980 TACCCTAGAGATGTGGAGGGAAATATTGAAGACGCAACGACGAATCTTATACCCTAGAGATGTGA
1 TACCCTAGAGATATGGAGGGAAAGATTGAAGACGCAACAACGAACCTTATACCCTAGAGATGTGA
* * * *
38797045 AGGGAAAGATTAAAGTCTCAACGGCAAATCTTATACCTTAAAGATATAGAGGGAAATATTGAAGC
66 AGGGAAAGATTAAAGCCTCAACGACAAACCTTATACCTTAAAGATATAGAGGGAAAGATTGAAGC
38797110 CATAATGGCGAATCTTG
131 CATAATGGCGAATCTTG
* * *
38797127 TACCCTGGAGATATGGAGGGAAAGGTTGAA-ACTGCAACAATGAACCTTATACCCTAGAGATGTG
1 TACCCTAGAGATATGGAGGGAAAGATTGAAGAC-GCAACAACGAACCTTATACCCTAGAGATGTG
* * * * * *
38797191 AAGGGAAAGGTTGAAGCCGT-AATGACTAACCTTATACCTTAGAGATGT-GAAGGGAAAGATTGA
65 AAGGGAAAGATTAAAGCC-TCAACGACAAACCTTATACCTTAAAGATATAG-AGGGAAAGATTGA
** ** *
38797254 AGCCGCAATGATGAATCTTA
128 AGCCATAATGGCGAATCTTG
*
38797274 TACCCTAAAGAT
1 TACCCTAGAGAT
38797286 GAAGAGAAGC
Statistics
Matches: 132, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
146 3 0.02
147 128 0.97
148 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (147 bp):
TACCCTAGAGATATGGAGGGAAAGATTGAAGACGCAACAACGAACCTTATACCCTAGAGATGTGA
AGGGAAAGATTAAAGCCTCAACGACAAACCTTATACCTTAAAGATATAGAGGGAAAGATTGAAGC
CATAATGGCGAATCTTG
Found at i:38797268 original size:98 final size:98
Alignment explanation
Indices: 38796980--38797286 Score: 319
Period size: 98 Copynumber: 3.1 Consensus size: 98
38796970 ATGACGAATC
* * * * *
38796980 TACCCTAGAGATGTGGAGGGAAATATTGAAGACGCAACGACGAATCTTATACCCTAGAGATGTGA
1 TACCCTAAAGATGTGAAGGGAAATATTGAAGCCGTAATGACGAATCTTATACCCTAGAGATGTGA
* * * ***
38797045 AGGGAAAGATTAAAGTCTCAACGGCAAATCTTA
66 AGGGAAAGATTGAAGCCGCAACGATGAATCTTA
* * * * * * *
38797078 TACCTTAAAGATAT-AGAGGGAAATATTGAAGCCATAATGGCGAATCTTGTACCCTGGAGATATG
1 TACCCTAAAGATGTGA-AGGGAAATATTGAAGCCGTAATGACGAATCTTATACCCTAGAGATGTG
* * * * * *
38797142 GAGGGAAAGGTTGAAACTGCAACAATGAACCTTA
65 AAGGGAAAGATTGAAGCCGCAACGATGAATCTTA
* ** * * *
38797176 TACCCTAGAGATGTGAAGGGAAAGGTTGAAGCCGTAATGACTAACCTTATACCTTAGAGATGTGA
1 TACCCTAAAGATGTGAAGGGAAATATTGAAGCCGTAATGACGAATCTTATACCCTAGAGATGTGA
*
38797241 AGGGAAAGATTGAAGCCGCAATGATGAATCTTA
66 AGGGAAAGATTGAAGCCGCAACGATGAATCTTA
38797274 TACCCTAAAGATG
1 TACCCTAAAGATG
38797287 AAGAGAAGCA
Statistics
Matches: 162, Mismatches: 45, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
98 161 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (98 bp):
TACCCTAAAGATGTGAAGGGAAATATTGAAGCCGTAATGACGAATCTTATACCCTAGAGATGTGA
AGGGAAAGATTGAAGCCGCAACGATGAATCTTA
Found at i:38797371 original size:42 final size:42
Alignment explanation
Indices: 38797288--38797403 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
38797278 CTAAAGATGA
* *
38797288 AGAGAAGCAGATTGAAGC--CACAAGGTAAATCTCAAGACTGT
1 AGAGAAGTAGATTGAAGCTGCA-AAGGTGAATCTCAAGACTGT
38797329 AGAGAAGTAGATTGAAGCTGCAAAGGTGAATCTCAA-AGCTGT
1 AGAGAAGTAGATTGAAGCTGCAAAGGTGAATCTCAAGA-CTGT
*
38797371 A-A-AAGACTAGATTGAAGTTGCAAAGGTGAATCT
1 AGAGAAG--TAGATTGAAGCTGCAAAGGTGAATCT
38797404 TACGTCCCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
40 3 0.04
41 19 0.28
42 43 0.64
43 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (42 bp):
AGAGAAGTAGATTGAAGCTGCAAAGGTGAATCTCAAGACTGT
Found at i:38797618 original size:93 final size:92
Alignment explanation
Indices: 38797512--38797985 Score: 294
Period size: 99 Copynumber: 5.0 Consensus size: 92
38797502 ATAATATCCC
* * *
38797512 TGAGGTTATAGTGGAATGGAGTGAAACACCAGATCTTATATCCTTAAAGTTACAGTGGATCGGAT
1 TGAGGTTACAGTGGAATGGAGTGAAACACCAGATCCTATATCCTT-AAGTTGCAGTGGATCGGAT
*
38797577 CAAAATGAGCAACGGATCTCAAAGTCCT
65 CAAAATGAGCAACGGATCTCAATGTCCT
* * * * *
38797605 TGAGGTTACAGTGGAATGGAGAGAAGTTACAACATCAAATCCCATACCCTTGAGTTGCAGTAGG-
1 TGAGGTTACAGTGGAATGGAGTGAA---AC-AC--CAGATCCTATATCCTTAAGTTGCAGT-GGA
* * *
38797669 TCGGATTAAAAT-AACAAAGCAGATCTCAATGTCCT
59 TCGGATCAAAATGAGC-AA-CGGATCTCAATGTCCT
* * * * * * *
38797704 TGAGGTTATAGTGGAAT-GATGTGAAGCATCAGATCCTACATCCCTGAAGTTGTAGTGGATTGGA
1 TGAGGTTACAGTGGAATGGA-GTGAAACACCAGATCCTATAT-CCTTAAGTTGCAGTGGATCGGA
* * *
38797768 TCAAAATGAGTAATGGATTTCAATGTCCT
64 TCAAAATGAGCAACGGATCTCAATGTCCT
* * * * * * *
38797797 TGAGGTTACAATGGAATGGAGAGAAGTTACAACATCAAATCCCATACCCCTGAGTTGCAGTGGGA
1 TGAGGTTACAGTGGAATGGAGTGAA---AC-AC--CAGATCCTATATCCTTAAGTTGCAGT-GGA
* * * * *
38797862 -CAGATTAAAA-CAACGAA-GTAGATCTTAATGTCCT
59 TCGGATCAAAATGAGC-AACG--GATCTCAATGTCCT
* * ** * * * *
38797896 TAAGGTTACAGTAGAATGGAGTGAAGTACAAGATCCTATATCCCTGAAGTTGCAATGGATTGGAT
1 TGAGGTTACAGTGGAATGGAGTGAAACACCAGATCCTATAT-CCTTAAGTTGCAGTGGATCGGAT
* * *
38797961 CAAAATGAGTAATGGATTTCAATGT
65 CAAAATGAGCAACGGATCTCAATGT
38797986 TCCTAAGTTA
Statistics
Matches: 280, Mismatches: 73, Indels: 56
0.68 0.18 0.14
Matches are distributed among these distances:
93 85 0.30
94 44 0.16
95 6 0.02
96 4 0.01
97 7 0.03
98 42 0.15
99 92 0.33
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (92 bp):
TGAGGTTACAGTGGAATGGAGTGAAACACCAGATCCTATATCCTTAAGTTGCAGTGGATCGGATC
AAAATGAGCAACGGATCTCAATGTCCT
Found at i:38797705 original size:99 final size:95
Alignment explanation
Indices: 38797559--38797926 Score: 313
Period size: 99 Copynumber: 3.8 Consensus size: 95
38797549 ATATCCTTAA
* * * * *
38797559 AGTTACAGTGGATCGGATCAAAATGAGCAACG-GATCTCAAAGTCCTTGAGGTTACAGTGGAATG
1 AGTTGCAGTGG-TCGGATTAAAAT-AACAAAGAGATCTCAATGTCCTTGAGGTTACAGTGGAATG
38797623 GAGAGAAGTTACAACATCAAATCCCATACCCTTG
64 GAGAGAAG-TACAACATCAAATCCCATACCC-TG
*
38797657 AGTTGCAGTAGGTCGGATTAAAATAACAAAGCAGATCTCAATGTCCTTGAGGTTATAGTGGAAT-
1 AGTTGCAGT-GGTCGGATTAAAATAACAAAG-AGATCTCAATGTCCTTGAGGTTACAGTGGAATG
* *
38797721 GATGTGAAG-----CATCAGATCCTACAT-CCCTG
64 GA-GAGAAGTACAACATCAAATCC--CATACCCTG
* * * ** * * *
38797750 AAGTTGTAGTGGATTGGATCAAAATGAGTAATG-GATTTCAATGTCCTTGAGGTTACAATGGAAT
1 -AGTTGCAGTGG-TCGGATTAAAAT-AACAAAGAGATCTCAATGTCCTTGAGGTTACAGTGGAAT
38797814 GGAGAGAAGTTACAACATCAAATCCCATACCCCTG
63 GGAGAGAAG-TACAACATCAAATCCCATA-CCCTG
* * * * * * *
38797849 AGTTGCAGTGGGACAGATTAAAACAACGAAGTAGATCTTAATGTCCTTAAGGTTACAGTAGAATG
1 AGTTGCAGT-GGTCGGATTAAAATAACAAAG-AGATCTCAATGTCCTTGAGGTTACAGTGGAATG
*
38797914 GAGTGAAGTACAA
64 GAGAGAAGTACAA
38797927 GATCCTATAT
Statistics
Matches: 214, Mismatches: 35, Indels: 42
0.74 0.12 0.14
Matches are distributed among these distances:
93 46 0.21
94 23 0.11
95 7 0.03
97 11 0.05
98 41 0.19
99 86 0.40
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (95 bp):
AGTTGCAGTGGTCGGATTAAAATAACAAAGAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGA
GAGAAGTACAACATCAAATCCCATACCCTG
Found at i:38797839 original size:192 final size:191
Alignment explanation
Indices: 38797512--38797985 Score: 671
Period size: 192 Copynumber: 2.5 Consensus size: 191
38797502 ATAATATCCC
* * * * * *
38797512 TGAGGTTATAGTGGAATGGAGTGAAACACCAGATCTTATATCCTTAAAGTTACAGTGGATCGGAT
1 TGAGGTTATAGTGGAATGGAGTGAAGCA-CAGATCCTATATCCCTGAAGTTGCAGTGGATTGGAT
* * * * *
38797577 CAAAATGAGCAACGGATCTCAAAGTCCTTGAGGTTACAGTGGAATGGAGAGAAGTTACAACATCA
65 CAAAATGAGTAATGGATTTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAGTTACAACATCA
* * * *
38797642 AATCCCATACCCTTGAGTTGCAGTAGGTCGGATTAAAATAACAAAGCAGATCTCAATGTCCT
130 AATCCCATACCCCTGAGTTGCAGTAGGACAGATTAAAACAACAAAGCAGATCTCAATGTCCT
* *
38797704 TGAGGTTATAGTGGAAT-GATGTGAAGCATCAGATCCTACATCCCTGAAGTTGTAGTGGATTGGA
1 TGAGGTTATAGTGGAATGGA-GTGAAGCA-CAGATCCTATATCCCTGAAGTTGCAGTGGATTGGA
38797768 TCAAAATGAGTAATGGATTTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAGTTACAACATC
64 TCAAAATGAGTAATGGATTTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAGTTACAACATC
* * * *
38797833 AAATCCCATACCCCTGAGTTGCAGTGGGACAGATTAAAACAACGAAGTAGATCTTAATGTCCT
129 AAATCCCATACCCCTGAGTTGCAGTAGGACAGATTAAAACAACAAAGCAGATCTCAATGTCCT
* * * * *
38797896 TAAGGTTACAGTAGAATGGAGTGAAGTACAAGATCCTATATCCCTGAAGTTGCAATGGATTGGAT
1 TGAGGTTATAGTGGAATGGAGTGAAGCAC-AGATCCTATATCCCTGAAGTTGCAGTGGATTGGAT
38797961 CAAAATGAGTAATGGATTTCAATGT
65 CAAAATGAGTAATGGATTTCAATGT
38797986 TCCTAAGTTA
Statistics
Matches: 250, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
191 3 0.01
192 245 0.98
193 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (191 bp):
TGAGGTTATAGTGGAATGGAGTGAAGCACAGATCCTATATCCCTGAAGTTGCAGTGGATTGGATC
AAAATGAGTAATGGATTTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAGTTACAACATCAA
ATCCCATACCCCTGAGTTGCAGTAGGACAGATTAAAACAACAAAGCAGATCTCAATGTCCT
Found at i:38798074 original size:170 final size:170
Alignment explanation
Indices: 38797820--38798142 Score: 436
Period size: 170 Copynumber: 1.9 Consensus size: 170
38797810 GAATGGAGAG
* * * * **
38797820 AAGTTACAACATCAAATCCCATACCCCTGAGTTGCAGTGGGACAGATTAAAACAACGAAGTAGAT
1 AAGTTAAAACATCAAATCCCATACCCCTGAGTTACAATAGGACAGATTAAAACAACGAAACAGAT
* * *
38797885 CTTAATGTCCTTAAGGTTACAGTAGAATGGAGTGAAGT-A-CAAGATCCTATATCCCTGAAGTTG
66 CTCAATGTCCTTAAGGTTACAGTAGAATGGACTGAA-TCACCAA-ATCCTATATCCCTGAAGTAG
*
38797948 CAATGGATTGGATCAAAATGAGTAATGGATTTCAATGTTCCT
129 CAATGGATCGGATCAAAATGAGTAATGGATTTCAATGTTCCT
* * *
38797990 AAGTTAAAACATCAAATCCCATACCCTTGAGTTACAATAGGTCAGATTAAAACAATGAAACAGAT
1 AAGTTAAAACATCAAATCCCATACCCCTGAGTTACAATAGGACAGATTAAAACAACGAAACAGAT
* * * *
38798055 CTCAATGT-CTCTGAGGTTACAGTGGAATGGACTGAATCACCAAATCCTATATCCCTTAAGTAGT
66 CTCAATGTCCT-TAAGGTTACAGTAGAATGGACTGAATCACCAAATCCTATATCCCTGAAGTAGC
*
38798119 AGTGGATCGGATCAAAATGAGTAA
130 AATGGATCGGATCAAAATGAGTAA
38798143 CAAGTCTCAA
Statistics
Matches: 132, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
169 3 0.02
170 126 0.95
171 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (170 bp):
AAGTTAAAACATCAAATCCCATACCCCTGAGTTACAATAGGACAGATTAAAACAACGAAACAGAT
CTCAATGTCCTTAAGGTTACAGTAGAATGGACTGAATCACCAAATCCTATATCCCTGAAGTAGCA
ATGGATCGGATCAAAATGAGTAATGGATTTCAATGTTCCT
Found at i:38798347 original size:362 final size:362
Alignment explanation
Indices: 38797628--38798347 Score: 923
Period size: 362 Copynumber: 2.0 Consensus size: 362
38797618 GAATGGAGAG
* * * * *
38797628 AAGTTACAACATCAAATCCCATACCCTTGAGTTGCAGTAGGTCGGATTAAAATAACAAAGCAGAT
1 AAGTTAAAACATCAAATCCCATACCCTTGAGTTACAATAGGTCAGATTAAAACAACAAAGCAGAT
* * * * *
38797693 CTCAATGTCCTTGAGGTTATAGTGGAATGATGTGAAGCATCAGATCCTACATCCCTGAAGTTGTA
66 CTCAATGTCCTTGAGGTTACAGTGGAATGATCTGAAGCACCAAATCCTACATCCCTGAAGTAGTA
* ** *
38797758 GTGGATTGGATCAAAATGAGTAATGGATTTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAG
131 GTGGATCGGATCAAAATGAGTAAAAGATCTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAG
* * *
38797823 TTACAACATCAAATCCCATACCCCTGAGTTGCAGTGGGACAGATTAAAACAACGAAGTAGATCTT
196 TTACAACATCAAATCCCATACCCATGAGTTACAGTGGGACAGATTAAAACAACGAAGCAGATCTT
* * * *
38797888 AATGTCCTTAAGGTTACAGTAGAATGGAGTGAAGTACAAGATCCTATATCCCTGAAGTTGCAATG
261 AATGTCCTTAAGGTTACAGTAGAATGGAGTGAACTACAAGAGCCTATATCCCTGAAGTTACAATA
* * * * *
38797953 GATTGGATCAAAATGAGTAATGGATTTCAATGTTCCT
326 AATTGGATCAAAATCAATAAAGGATCTCAATGTTCCT
*
38797990 AAGTTAAAACATCAAATCCCATACCCTTGAGTTACAATAGGTCAGATTAAAACAATGAAA-CAGA
1 AAGTTAAAACATCAAATCCCATACCCTTGAGTTACAATAGGTCAGATTAAAACAA-CAAAGCAGA
* * *
38798054 TCTCAATGT-CTCTGAGGTTACAGTGGAATGGA-CTGAATCACCAAATCCTATATCCCTTAAGTA
65 TCTCAATGTCCT-TGAGGTTACAGTGGAAT-GATCTGAAGCACCAAATCCTACATCCCTGAAGTA
* *
38798117 GTAGTGGATCGGATCAAAATGAGTAACAAG-TCTCAATGTCCTTGAGGTTATAGTGGAATGGAGA
128 GTAGTGGATCGGATCAAAATGAGTAA-AAGATCTCAATGTCCTTGAGGTTACAATGGAATGGAGA
* ***
38798181 GAAGTTACAACGTCAAATCCCATACCCATGAGTTACAGTGGGTTGGATTAAAACAACGAAGCAGA
192 GAAGTTACAACATCAAATCCCATACCCATGAGTTACAGTGGGACAGATTAAAACAACGAAGCAGA
* * * ** * * *
38798246 TCTTAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAACTTGAA-AGCCTATCTTCCTGAGGTTA
257 TCTTAATGTCCTTAAGGTTACAGTAGAATGGAGTG-AACTACAAGAGCCTATATCCCTGAAGTTA
*
38798310 CAATAAATT-GATTAAAA-CAATAAAGCAGATCTCAATGT
321 CAATAAATTGGATCAAAATCAATAAAG--GATCTCAATGT
38798348 CCCTGAGGTT
Statistics
Matches: 306, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
360 5 0.02
361 9 0.03
362 281 0.92
363 11 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (362 bp):
AAGTTAAAACATCAAATCCCATACCCTTGAGTTACAATAGGTCAGATTAAAACAACAAAGCAGAT
CTCAATGTCCTTGAGGTTACAGTGGAATGATCTGAAGCACCAAATCCTACATCCCTGAAGTAGTA
GTGGATCGGATCAAAATGAGTAAAAGATCTCAATGTCCTTGAGGTTACAATGGAATGGAGAGAAG
TTACAACATCAAATCCCATACCCATGAGTTACAGTGGGACAGATTAAAACAACGAAGCAGATCTT
AATGTCCTTAAGGTTACAGTAGAATGGAGTGAACTACAAGAGCCTATATCCCTGAAGTTACAATA
AATTGGATCAAAATCAATAAAGGATCTCAATGTTCCT
Found at i:38798355 original size:93 final size:92
Alignment explanation
Indices: 38798226--38798564 Score: 297
Period size: 93 Copynumber: 3.6 Consensus size: 92
38798216 CAGTGGGTTG
** * * * *
38798226 GATTAAAACAACGAAGCAGATCTTAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAACTTGAAA
1 GATTAAAACAATAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAACTTCAAA
* *
38798291 GCCTATCTTCCTGAGGTTACAATAAATT
66 ACCTATC-TCCTGAGGTTACAGTAAATT
* *
38798319 GATTAAAACAATAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATAGACTGAAACTTCAAA
1 GATTAAAACAATAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAACTTCAAA
* * *
38798384 ACCTATCCTCCTGAGGCTACGGTAAAGTG
66 ACCTAT-CTCCTGAGGTTACAGTAAA-TT
* * * * * *
38798413 GATCAAAATACGT-AA-TAGATCTTAATGTCCCTGAGGTTATAGTGGAATGG-GTTGAAGTATAG
1 GATTAAAACA-ATAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAG-TG-A--A-A-
* * * * * * *
38798475 CATCAAATCCTATACCCCTGAAGTTGCAGTGAGTT
59 CTTCAAAACCTAT-CTCCTGAGGTTACAGTAAATT
*
38798510 AGATTAAAACAACAAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAG
1 -GATTAAAACAA-TAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAG
38798565 AGAAGCTTTA
Statistics
Matches: 193, Mismatches: 39, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
93 110 0.57
94 13 0.07
95 1 0.01
96 1 0.01
97 2 0.01
98 31 0.16
99 2 0.01
100 32 0.17
101 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (92 bp):
GATTAAAACAATAAAGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAACTTCAAA
ACCTATCTCCTGAGGTTACAGTAAATT
Found at i:38804248 original size:16 final size:16
Alignment explanation
Indices: 38804216--38804265 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
38804206 TAAATAAAAA
*
38804216 ATATATAT-AT-GTGT
1 ATATATATAATAGTAT
38804230 ATATATATAATAGTAT
1 ATATATATAATAGTAT
* * *
38804246 ATATGTATAAAAATAT
1 ATATATATAATAGTAT
38804262 ATAT
1 ATAT
38804266 GTAGAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 8 0.27
15 2 0.07
16 20 0.67
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (16 bp):
ATATATATAATAGTAT
Found at i:38804266 original size:16 final size:16
Alignment explanation
Indices: 38804229--38804277 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
38804219 TATATATGTG
* * *
38804229 TATATATATAATAGTA
1 TATATGTATAAAAATA
38804245 TATATGTATAAAAATA
1 TATATGTATAAAAATA
*
38804261 TATATGTA-GAAAATA
1 TATATGTATAAAAATA
38804276 TA
1 TA
38804278 CAATTTGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (16 bp):
TATATGTATAAAAATA
Found at i:38813710 original size:13 final size:13
Alignment explanation
Indices: 38813692--38813719 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38813682 TTTCCATCTT
38813692 CACTCCCAGATTC
1 CACTCCCAGATTC
38813705 CACTCCCAGATTC
1 CACTCCCAGATTC
38813718 CA
1 CA
38813720 GATGAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.46, G:0.07, T:0.21
Consensus pattern (13 bp):
CACTCCCAGATTC
Found at i:38818264 original size:24 final size:24
Alignment explanation
Indices: 38818232--38818286 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
38818222 TGTATGAGTA
38818232 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
38818256 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
38818280 TCCTCTT
1 TCTTCTT
38818287 AAGAACTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.05, C:0.20, G:0.04, T:0.71
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:38822484 original size:24 final size:24
Alignment explanation
Indices: 38822456--38822527 Score: 144
Period size: 24 Copynumber: 3.0 Consensus size: 24
38822446 ATAGGACAAC
38822456 GTAATATCATTCCTCAATCGAGCA
1 GTAATATCATTCCTCAATCGAGCA
38822480 GTAATATCATTCCTCAATCGAGCA
1 GTAATATCATTCCTCAATCGAGCA
38822504 GTAATATCATTCCTCAATCGAGCA
1 GTAATATCATTCCTCAATCGAGCA
38822528 TTCATCGTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (24 bp):
GTAATATCATTCCTCAATCGAGCA
Found at i:38836438 original size:29 final size:30
Alignment explanation
Indices: 38836368--38836439 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
38836358 TCTACCTCAT
* *
38836368 CACC-GCTGACACCATCACGCTTCTGCCAC
1 CACCAGCTGACACCACCACGCCTCTGCCAC
*
38836397 CACCA-CTAACACCACCACGCCTCTGCCAC
1 CACCAGCTGACACCACCACGCCTCTGCCAC
*
38836426 CA-CAGCTGCCACCA
1 CACCAGCTGACACCA
38836440 TGTGCTACCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.06
29 34 0.94
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.12
Consensus pattern (30 bp):
CACCAGCTGACACCACCACGCCTCTGCCAC
Found at i:38837803 original size:18 final size:17
Alignment explanation
Indices: 38837761--38837808 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
38837751 AACTTATCCC
38837761 TTTAGTTTCA-TTTTTTT
1 TTTA-TTTCATTTTTTTT
* *
38837778 GTTCTTTCATTTTGTTTT
1 TTTATTTCATTTT-TTTT
38837796 TTTATTTCATTTT
1 TTTATTTCATTTT
38837809 AAAAAATCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 5 0.20
17 5 0.20
18 15 0.60
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTATTTCATTTTTTTT
Found at i:38842247 original size:16 final size:17
Alignment explanation
Indices: 38842234--38842265 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38842224 ATAAAAAAGG
38842234 AAAAAGG-AAAAAAACA
1 AAAAAGGTAAAAAAACA
38842250 AAAAAGGTAAAAAAAC
1 AAAAAGGTAAAAAAAC
38842266 TGCAAAAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.06, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAGGTAAAAAAACA
Found at i:38844262 original size:49 final size:49
Alignment explanation
Indices: 38844190--38844752 Score: 346
Period size: 49 Copynumber: 11.6 Consensus size: 49
38844180 CAGGTTTCAT
* * *
38844190 TACCACGAAGACATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCTAG
1 TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * * * * *
38844239 TACCACAAAGATATGGAGGGAAAGGTTTAAGTCGCTACGGTGAACCTTG
1 TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * *
38844288 TACCTA-AGAA-ACATGAAGGGAAAGATTTAAGCTGCAACGGTGAATCTAG
1 TACC-ACA-AAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * * *
38844337 TACCACGAAGATATGGAGGGAAA-AGTTTAAGTCGCAACGGCGAACCTTG
1 TACCACAAAGACATGGAGGGAAAGA-TTTAAGCCGCAACGGCGAATCTAG
* * * * *
38844386 TGCCACAAAAACATGAAGGGAATGATTTAAGCCGTAACGGCGAATC---
1 TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * * * *
38844432 TA--ACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTG
1 TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * *
38844479 TACCTCAGAA-ACATGGAGGGAAAGATTTAAGCC-CAACGACAAATCTAG
1 TACCACA-AAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * * ** * * * * *
38844527 CACCACGAAGATATGGAGGGAAAGGTTTAATTCGCAATGACAAACCTTG
1 TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * *
38844576 TAACTCAGAA-ACATGAAGGGAAAGATTTAA-CCTGCAACGGCGAATCTAG
1 TACCACA-AAGACATGGAGGGAAAGATTTAAGCC-GCAACGGCGAATCTAG
** * * * * ** *
38844625 TACCATGAAGATATAGAGGGAAAGGTTTAAGTCGCAACGGAAAACCTTA-
1 TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATC-TAG
* * * * * * * *
38844674 TACCTC-AGGAACTTGAAGGGAAAG-TTGAAGCCGCAGCGGCAAATCTGG
1 TACCACAAAG-ACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * *
38844722 TACCACGAAGATATGTAGGGAAAGGTTTAAG
1 TACCACAAAGACATGGAGGGAAAGATTTAAG
38844753 TTGCGATGGC
Statistics
Matches: 385, Mismatches: 106, Indels: 46
0.72 0.20 0.09
Matches are distributed among these distances:
44 33 0.09
46 1 0.00
47 5 0.01
48 75 0.19
49 260 0.68
50 11 0.03
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.19
Consensus pattern (49 bp):
TACCACAAAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
Found at i:38844369 original size:98 final size:98
Alignment explanation
Indices: 38844200--38844816 Score: 725
Period size: 98 Copynumber: 6.4 Consensus size: 98
38844190 TACCACGAAG
* *
38844200 ACATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCTAGTACCACAAAGATATGGAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGT
* *
38844265 TTAAGTCGCTACGGTGAACCTTGTACCTAAGAA
66 TTAAGTCGCAACGGCGAACCTTGTACCTAAGAA
* * *
38844298 ACATGAAGGGAAAGATTTAAGCTGCAACGGTGAATCTAGTACCACGAAGATATGGAGGGAAAAGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGT
* *
38844363 TTAAGTCGCAACGGCGAACCTTGTGCC-ACAAAA
66 TTAAGTCGCAACGGCGAACCTTGTACCTA-AGAA
* *
38844396 ACATGAAGGGAATGATTTAAGCCGTAACGGCGAATC---TA--ACGAAGATATGGAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGT
*
38844456 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAA
66 TTAAGTCGCAACGGCGAACCTTGTACCTAAGAA
* * * *
38844489 ACATGGAGGGAAAGATTTAAGCC-CAACGACAAATCTAGCACCACGAAGATATGGAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGT
* * * * * *
38844553 TTAATTCGCAATGACAAACCTTGTAACTCAGAA
66 TTAAGTCGCAACGGCGAACCTTGTACCTAAGAA
* *
38844586 ACATGAAGGGAAAGATTTAA-CCTGCAACGGCGAATCTAGTACCATGAAGATATAGAGGGAAAGG
1 ACATGAAGGGAAAGATTTAAGCC-GCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGG
** * * *
38844650 TTTAAGTCGCAACGGAAAACCTTATACCTCAGGA
65 TTTAAGTCGCAACGGCGAACCTTGTACCTAAGAA
* * * * * *
38844684 ACTTGAAGGGAAAG-TTGAAGCCGCAGCGGCAAATCTGGTACCACGAAGATATGTAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGT
* * * *
38844748 TTAAGTTGCGATGGCGAACTTTGTACCTCAA-AA
66 TTAAGTCGCAACGGCGAACCTTGTACCT-AAGAA
** * * *
38844781 ACATGCTGGGAAGGA-TTAAGGCCACAACAGCGAATC
1 ACATGAAGGGAAAGATTTAA-GCCGCAACGGCGAATC
38844817 CGATACCATG
Statistics
Matches: 441, Mismatches: 65, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
92 9 0.02
93 71 0.16
95 3 0.01
96 2 0.00
97 145 0.33
98 211 0.48
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (98 bp):
ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGT
TTAAGTCGCAACGGCGAACCTTGTACCTAAGAA
Found at i:38844816 original size:195 final size:196
Alignment explanation
Indices: 38844200--38844846 Score: 778
Period size: 195 Copynumber: 3.3 Consensus size: 196
38844190 TACCACGAAG
* ** *
38844200 ACATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCTAGTACCACAAAGATATGGAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCATGAAGATATAGAGGGAAAGGT
* * * * **
38844265 TTAAGTCGCTACGGTGAACCTTGTACCTAAGAAACATGAAGGGAAAGATTTAAGCTGCAACGGTG
66 TTAAGTCGCAACGGAGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGCAACGGCA
* * * * *
38844330 AATCTAGTACCACGAAGATATGGAGGGAAAAGTTTAAGTCGCAACGGCGAACCTTGTGCCACAAA
131 AATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTGTACCTCAAA
38844395 A
196 A
* * *
38844396 ACATGAAGGGAATGATTTAAGCCGTAACGGCGAATCTA--A-C--GAAGATATGGAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCATGAAGATATAGAGGGAAAGGT
* * *
38844456 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGGAGGGAAAGATTTAAGCC-CAACGACA
66 TTAAGTCGCAACGGAGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGCAACGGCA
* * * * *
38844520 AATCTAGCACCACGAAGATATGGAGGGAAAGGTTTAA-TTCGCAATGACAAACCTTGTAACTCAG
131 AATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTT-GCAATGGCGAACCTTGTACCTCAA
38844584 AA
195 AA
38844586 ACATGAAGGGAAAGATTTAA-CCTGCAACGGCGAATCTAGTACCATGAAGATATAGAGGGAAAGG
1 ACATGAAGGGAAAGATTTAAGCC-GCAACGGCGAATCTAGTACCATGAAGATATAGAGGGAAAGG
* * * * * *
38844650 TTTAAGTCGCAACGGAAAACCTTATACCTCAGGAACTTGAAGGGAAAG-TTGAAGCCGCAGCGGC
65 TTTAAGTCGCAACGGAGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGCAACGGC
* * * *
38844714 AAATCTGGTACCACGAAGATATGTAGGGAAAGGTTTAAGTTGCGATGGCGAACTTTGTACCTCAA
130 AAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTGTACCTCAA
38844779 AA
195 AA
** * * * * *
38844781 ACATGCTGGGAAGGA-TTAAGGCCACAACAGCGAATC-CGATACCATGAAGATGTA-ATGGGAAA
1 ACATGAAGGGAAAGATTTAA-GCCGCAACGGCGAATCTAG-TACCATGAAGATATAGA-GGGAAA
38844843 GGTT
63 GGTT
38844847 GAGGCCATAA
Statistics
Matches: 388, Mismatches: 50, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
189 3 0.01
190 92 0.24
191 70 0.18
192 1 0.00
193 2 0.01
194 14 0.04
195 167 0.43
196 39 0.10
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.19
Consensus pattern (196 bp):
ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCATGAAGATATAGAGGGAAAGGT
TTAAGTCGCAACGGAGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGCAACGGCA
AATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTGTACCTCAAA
A
Found at i:38844840 original size:49 final size:48
Alignment explanation
Indices: 38844787--38844895 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 48
38844777 AAAAACATGC
* *
38844787 TGGGAAGGATTAAGGCCACAACAGCGAATCCGATACCATGAAGATGTAA
1 TGGGAAGG-TTAAGGCCACAACAGCAAACCCGATACCATGAAGATGTAA
* * * * * *
38844836 TGGGAAAGGTTGAGGCCATAACGGTAAACCCGGTACCATGAAGATTTAA
1 TGGG-AAGGTTAAGGCCACAACAGCAAACCCGATACCATGAAGATGTAA
*
38844885 AGGGAAAGGTT
1 TGGG-AAGGTT
38844896 GAGACCGCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 46 0.92
50 4 0.08
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (48 bp):
TGGGAAGGTTAAGGCCACAACAGCAAACCCGATACCATGAAGATGTAA
Found at i:38844914 original size:49 final size:49
Alignment explanation
Indices: 38844802--38844916 Score: 131
Period size: 49 Copynumber: 2.3 Consensus size: 49
38844792 AGGATTAAGG
* * * * * *
38844802 CCACAACAGCGAATCCGATACCATGAAGATGTAATGGGAAAGGTTGAGG
1 CCACAACGGCAAACCCGGTACCATGAAGATGTAAAGGGAAAGGTTGAGA
* * *
38844851 CCATAACGGTAAACCCGGTACCATGAAGATTTAAAGGGAAAGGTTGAGA
1 CCACAACGGCAAACCCGGTACCATGAAGATGTAAAGGGAAAGGTTGAGA
* *
38844900 CCGCAATGGCAAACCCG
1 CCACAACGGCAAACCCG
38844917 ACACTTTAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.16
Consensus pattern (49 bp):
CCACAACGGCAAACCCGGTACCATGAAGATGTAAAGGGAAAGGTTGAGA
Done.