Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 68 of 322
Found at i:21697627 original size:33 final size:33
Alignment explanation
Indices: 21697574--21697680 Score: 189
Period size: 33 Copynumber: 3.2 Consensus size: 33
21697564 ATAAGGCTAG
21697574 GGCCCAGATTGTAC-AGATACTGAATAGGGCTTA
1 GGCCCAGATTGTACTA-ATACTGAATAGGGCTTA
*
21697607 GGCCTAGATTGTACTAATACTGAATAGGGCTTA
1 GGCCCAGATTGTACTAATACTGAATAGGGCTTA
21697640 GGCCCAGATTGTACTAATACTGAATAGGGCTTA
1 GGCCCAGATTGTACTAATACTGAATAGGGCTTA
21697673 GGCCCAGA
1 GGCCCAGA
21697681 CTATGTTATT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
33 70 0.99
34 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (33 bp):
GGCCCAGATTGTACTAATACTGAATAGGGCTTA
Found at i:21705730 original size:30 final size:30
Alignment explanation
Indices: 21705694--21705753 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
21705684 TTCCCGAGCC
*
21705694 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
21705724 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
21705754 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:21708755 original size:39 final size:39
Alignment explanation
Indices: 21708712--21708801 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
21708702 AATTAATATT
*
21708712 GTCCGCAGGCTATAAGCGAGAATTACATTCGGACTTCAA
1 GTCCGCAGGCTATAAGCGAGAATTACATCCGGACTTCAA
* * * *
21708751 GTCCGCAGGCTATATGCGAGAATTATATCCGGACTTTAG
1 GTCCGCAGGCTATAAGCGAGAATTACATCCGGACTTCAA
21708790 GTCCGCAGGCTA
1 GTCCGCAGGCTA
21708802 CGTGCTGGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
GTCCGCAGGCTATAAGCGAGAATTACATCCGGACTTCAA
Found at i:21715947 original size:39 final size:39
Alignment explanation
Indices: 21715893--21716003 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
21715883 TATATACGCA
*
21715893 AGAATTATATCCGGACTTCAGGTCCACAGGCTATAAGCG
1 AGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCG
* * * *
21715932 AGAATTATATCCGGACGTCATGTCCGCAGGCTATATGTG
1 AGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCG
* *
21715971 AGAATTATATCCAGACTTTAGGTCCGCAGGCTA
1 AGAATTATATCCGGACTTCAGGTCCGCAGGCTA
21716004 CGTGCTGGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (39 bp):
AGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCG
Found at i:21730331 original size:61 final size:61
Alignment explanation
Indices: 21730236--21730357 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
21730226 TCTTTAATAT
*
21730236 ATAATTATTGTTGTGAAATAATAAAGAAAGAATAAACTAAAATGTGATAGAAGAAAGAGTG
1 ATAATTATTGTTGTGAAATAATAAAGAAAGAATAAACTAAAATGTGATAGAAAAAAGAGTG
21730297 ATAATTATTGTTGTGAAATAATAAAGAAAGAATAAACTAAAATGTGATAGAAAAAAGAGTG
1 ATAATTATTGTTGTGAAATAATAAAGAAAGAATAAACTAAAATGTGATAGAAAAAAGAGTG
21730358 TAGAGAGAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (61 bp):
ATAATTATTGTTGTGAAATAATAAAGAAAGAATAAACTAAAATGTGATAGAAAAAAGAGTG
Found at i:21730533 original size:28 final size:28
Alignment explanation
Indices: 21730501--21730563 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
21730491 TCCCATATTA
*
21730501 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
21730529 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
21730557 ATGGGGT
1 ATGGGGT
21730564 TGATAATGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:21737311 original size:47 final size:47
Alignment explanation
Indices: 21737258--21737412 Score: 238
Period size: 47 Copynumber: 3.3 Consensus size: 47
21737248 AGGATTTAAG
*
21737258 GTGATGAATGTGAACCTGCATATATGAGATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAAT
* * *
21737305 GTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAAT
** *
21737352 GTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAAT
*
21737399 GTGATGAACGTGAA
1 GTGATGAATGTGAA
21737413 AGTGTATATA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.25
Consensus pattern (47 bp):
GTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAAT
Found at i:21737356 original size:22 final size:22
Alignment explanation
Indices: 21737329--21737403 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
21737319 CATGCATATG
*
21737329 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * *
21737351 TGTGATGAATG-TGAATGTGCATATA
1 TGTGAT-AAGGCAGAATG-GC-CA-A
*
21737376 TGAGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
21737398 TGTGAT
1 TGTGAT
21737404 GAACGTGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:21737436 original size:94 final size:94
Alignment explanation
Indices: 21737258--21737446 Score: 256
Period size: 94 Copynumber: 2.0 Consensus size: 94
21737248 AGGATTTAAG
* * *
21737258 GTGATGAATGTGAACCTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATG
1 GTGATGAATGTGAACCTGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAGAATG
* *
21737323 CATATGTGTGATAAGGCCGAATGGCCAAT
66 CATATATGTGAGAAGGCCGAATGGCCAAT
**
21737352 GTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGA-AAGT
1 GTGATGAATGTGAACCTGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAGAA-T
* * *
21737416 GTATATATGTGGCGAA-GCCGAATGGCTAAT
65 GCATATATGT-GAGAAGGCCGAATGGCCAAT
21737446 G
1 G
21737447 CGAAATGTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 1 0.01
94 79 0.95
95 3 0.04
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.25
Consensus pattern (94 bp):
GTGATGAATGTGAACCTGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAGAATG
CATATATGTGAGAAGGCCGAATGGCCAAT
Found at i:21737472 original size:46 final size:46
Alignment explanation
Indices: 21737420--21737508 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
21737410 GAAAGTGTAT
* * *
21737420 ATATGTGGCGAAGCCGAATGGCTAATGCGAAATGTGTATGAGACGG
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAATATGTATGAGACGG
* * *
21737466 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGA
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAATATGTATGAGA
21737509 TGTGTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGCAAAGCCAAATGGCTAATGCGAAATATGTATGAGACGG
Found at i:21739274 original size:61 final size:61
Alignment explanation
Indices: 21739200--21739331 Score: 237
Period size: 61 Copynumber: 2.2 Consensus size: 61
21739190 CATCTAGCCT
*
21739200 CTACACTCCATCTCCATCCAACCCTAAACTCCATGTGGGGATATAATCAACCCACCCATCC
1 CTACACTCCATCTCCATCCAACCCTAAACTCCATGTAGGGATATAATCAACCCACCCATCC
* *
21739261 CTACACTCCATCTCCATCCAACCCTACACTCTATGTAGGGATATAATCAACCCACCCATCC
1 CTACACTCCATCTCCATCCAACCCTAAACTCCATGTAGGGATATAATCAACCCACCCATCC
21739322 CTACACTCCA
1 CTACACTCCA
21739332 GAATCAGCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.30, C:0.42, G:0.07, T:0.22
Consensus pattern (61 bp):
CTACACTCCATCTCCATCCAACCCTAAACTCCATGTAGGGATATAATCAACCCACCCATCC
Found at i:21742884 original size:80 final size:80
Alignment explanation
Indices: 21742751--21742928 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
21742741 TGGATGATAA
* *
21742751 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTCG
*
21742816 TGCGAGTTA-CCATAT
66 AGCGAG-TAGCCATAT
* * * * *
21742831 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTATGTCCCGAAGGTATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTCG
*
21742896 AGCGAGTAGCTATAT
66 AGCGAGTAGCCATAT
* *
21742911 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21742929 TACTTGGCTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 16 0.19
80 70 0.81
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTCG
AGCGAGTAGCCATAT
Found at i:21742914 original size:40 final size:40
Alignment explanation
Indices: 21742751--21742889 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
21742741 TGGATGATAA
* * *
21742751 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
* *
21742791 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACCA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
21742831 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
21742871 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21742890 TATTCGAGCG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 87 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:21744984 original size:79 final size:80
Alignment explanation
Indices: 21744817--21744994 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
21744807 ACTTCAGAAT
** * *
21744817 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 TTAACCCGGATATAG-TAACTCGCACCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCA
21744880 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* * *
21744896 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTC-GGTCTTAGCCCGGA-ATTAGTAACTCGCA
1 TTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCA
21744959 CAAATGCCTTC-GGATC
65 CAAATGCCTTCGGGA-C
** *
21744975 TTAGTCCGGATATGGTAACT
1 TTAACCCGGATATAGTAACT
21744995 TAGCACAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 56 0.67
80 24 0.29
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
AAATGCCTTCGGGAC
Found at i:21745009 original size:79 final size:80
Alignment explanation
Indices: 21744846--21745024 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
21744836 CGTTCAAATG
* * * *
21744846 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGAACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* **
21744910 GTAACTCGCACCAATG
65 GTAACTAGCACCAAAA
* ** *
21744926 CCTTCGG-TCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGAACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATA
21744989 GTAACTTAGCA-CAAAA
65 GTAAC-TAGCACCAAAA
21745005 CCTTCGGAACTTAGCCCGGA
1 CCTTCGGAACTTAGCCCGGA
21745025 CATCATTCGA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 58 0.69
80 23 0.27
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGAACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTAGCACCAAAA
Found at i:21745024 original size:40 final size:40
Alignment explanation
Indices: 21744821--21745024 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
21744811 CAGAATTTAA
** * *
21744821 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGAACTTAGC
* * *
21744861 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGAACTTAGC
* * *
21744901 CCGGATTTAGTAACTCGCACCAATGCCTTCGG-TCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGAACTTAGC
* *
21744940 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGAACTTAGC
* * *
21744980 CCGGATATGGTAACTTAGCACAAA-ACCTTCGGAACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGAACTTAGC
21745020 CCGGA
1 CCGGA
21745025 CATCATTCGA
Statistics
Matches: 141, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 35 0.25
40 97 0.69
41 9 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGAACTTAGC
Found at i:21746296 original size:23 final size:23
Alignment explanation
Indices: 21746265--21746318 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
21746255 ATGGACACAT
*
21746265 TTTTTTTTCT-TTTGTTTTCATCC
1 TTTTCTTTCTCTTTGTTTTC-TCC
*
21746288 TTTTCTTTCTCTTTTTTTTCTCC
1 TTTTCTTTCTCTTTGTTTTCTCC
*
21746311 ATTTCTTT
1 TTTTCTTT
21746319 ATTACTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTCTCTTTGTTTTCTCC
Found at i:21752375 original size:51 final size:51
Alignment explanation
Indices: 21752314--21752416 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
21752304 CAAAGTATAT
* *
21752314 TTAAGTCATTTTCGCATGGCTATCCAAATTTATACAAAACCGAAGGGTACA
1 TTAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAACCGAAGGGTACA
21752365 TTAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAACCGAAGGGTACA
1 TTAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAACCGAAGGGTACA
21752416 T
1 T
21752417 GACCAACAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (51 bp):
TTAAGCCATTTTCGCATGGCTATCCAAATTTACACAAAACCGAAGGGTACA
Found at i:21758938 original size:46 final size:46
Alignment explanation
Indices: 21758888--21759062 Score: 287
Period size: 46 Copynumber: 3.8 Consensus size: 46
21758878 TGGTTGAGCA
21758888 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
21758934 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21758980 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21759026 CCCGAGCTCGTTGAGTTAAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21759063 GCGGGTTACA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21769371 original size:39 final size:40
Alignment explanation
Indices: 21769326--21769497 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
21769316 GCTCCTCGTT
* * *
21769326 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
21769366 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
21769405 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
21769445 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
21769485 CAAATGCCTTCGG
1 CAAATGCCTTCGG
21769498 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:21769426 original size:40 final size:39
Alignment explanation
Indices: 21769328--21769550 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
21769318 TCCTCGTTCA
* * * *
21769328 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
21769367 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21769406 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
21769446 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
21769486 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
21769527 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21769551 CAACATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:21769510 original size:80 final size:79
Alignment explanation
Indices: 21769326--21769550 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
21769316 GCTCCTCGTT
* * * * *
21769326 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
21769390 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
21769405 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
21769470 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
21769485 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
21769549 GA
63 GA
21769551 CAACATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:21769559 original size:41 final size:41
Alignment explanation
Indices: 21769482--21769559 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21769472 TTTGTATCTC
* * *
21769482 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
21769523 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGA-AACATTCA
21769560 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:21784031 original size:115 final size:113
Alignment explanation
Indices: 21783821--21784040 Score: 278
Period size: 115 Copynumber: 1.9 Consensus size: 113
21783811 TTCATGCATT
* * * *
21783821 GAAAATTTAAAAGGATATTTGGTTATTTGGTCAACAAAAAATCGAAATCCAACACGTTAGGGCAT
1 GAAAATTTAAAAGGATATTTGGTCATTTGGTCAACAAAAAATCGAAACCCAACACATTAGGGCAC
* * * *
21783886 GATTTCTCGAATTTCCAAATACGAAATATTGCCTTATTTTTTAATTTA
66 AATTTCTCGAATTGCCAAACACAAAATATTGCCTTATTTTTTAATTTA
* * * * *
21783934 GAAATTTTAGAAAGGGTATTTGGTCATTTGGTCAATCGAAAAATCGAAACCCAGCACATTAGGGT
1 GAAAATTTA-AAAGGATATTTGGTCATTTGGTCAA-CAAAAAATCGAAACCCAACACATTAGGGC
* * *
21783999 ACAATTTCTTGAATTGCCAGACACAAAATATTGCCTTGTTTT
64 ACAATTTCTCGAATTGCCAAACACAAAATATTGCCTTATTTT
21784041 GAGAAGTCTT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
113 8 0.09
114 23 0.26
115 58 0.65
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (113 bp):
GAAAATTTAAAAGGATATTTGGTCATTTGGTCAACAAAAAATCGAAACCCAACACATTAGGGCAC
AATTTCTCGAATTGCCAAACACAAAATATTGCCTTATTTTTTAATTTA
Found at i:21786617 original size:44 final size:44
Alignment explanation
Indices: 21786518--21786680 Score: 184
Period size: 44 Copynumber: 3.7 Consensus size: 44
21786508 ATAGCTTTGA
* * * * *
21786518 TCTGCTCTACTGCAACTTTAGAGAGATAAGATTCGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTA-CTTCAG
* * *
21786563 TTTGCTCCACTACAACTTCAGGGAGATAAGTCTCA-TAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACT-ACTTCAG
* * * *
21786607 TCTACTCCACTGCAACTTCAGGGAGATAAAACTTACTACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTACTTCAG
*
21786651 CCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
21786681 GTCTTCAATC
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 69 0.70
45 29 0.30
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTACTTCAG
Found at i:21792686 original size:40 final size:40
Alignment explanation
Indices: 21792627--21792808 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
21792617 ATATTCGATG
21792627 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21792667 ATAACCGGGCTAAGGCCCGAAGGCATTTGTCCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21792707 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21792747 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
** *
21792787 ATGTCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
21792809 TACTTGGTTG
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.13
40 112 0.87
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21800036 original size:49 final size:49
Alignment explanation
Indices: 21799964--21800060 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
21799954 ACAATTATAT
21799964 GTTAAATTAAGGTTTACTAAGCTAGCTATTAAGGTGAAGTGCAAATGTC
1 GTTAAATTAAGGTTTACTAAGCTAGCTATTAAGGTGAAGTGCAAATGTC
*
21800013 GTTAAATTAAGGTTTGCTAAGCTAGCTATTAAGGTGAAGTGCAAATGT
1 GTTAAATTAAGGTTTACTAAGCTAGCTATTAAGGTGAAGTGCAAATGT
21800061 TAGTATGTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (49 bp):
GTTAAATTAAGGTTTACTAAGCTAGCTATTAAGGTGAAGTGCAAATGTC
Found at i:21800879 original size:40 final size:40
Alignment explanation
Indices: 21800820--21800945 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
21800810 AATTAATACG
21800820 CCGAAGGCATTTGTC-CGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTG-CGCGAGTTACTATATCCGGGCTAAGTC
* *
21800860 CCGAAGGCGTTTGCGCGAGTTACTATAACCGGGCTAAGTC
1 CCGAAGGCATTTGCGCGAGTTACTATATCCGGGCTAAGTC
* * * *
21800900 CCGAAGGCATTTGAGCGAG-TAGCTATGTCC-GGCGAAATC
1 CCGAAGGCATTTGCGCGAGTTA-CTATATCCGGGCTAAGTC
21800939 CCGAAGG
1 CCGAAGG
21800946 TACTTGGTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 17 0.22
40 59 0.78
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTTGCGCGAGTTACTATATCCGGGCTAAGTC
Found at i:21806038 original size:61 final size:62
Alignment explanation
Indices: 21805932--21806057 Score: 218
Period size: 61 Copynumber: 2.0 Consensus size: 62
21805922 AAAATAAGTA
21805932 AAATAAATAATATACAAAAACAGTAATGTATAAATCAATTCTAAAACAAATATCAAAAGAAG
1 AAATAAATAATATACAAAAACAGTAATGTATAAATCAATTCTAAAACAAATATCAAAAGAAG
* * *
21805994 AAAT-AATAATATACAAAAATAGTAATGTATAAATGAATTTTAAAACAAATATCAAAAGAAG
1 AAATAAATAATATACAAAAACAGTAATGTATAAATCAATTCTAAAACAAATATCAAAAGAAG
21806055 AAA
1 AAA
21806058 ATTAAAGTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 57 0.93
62 4 0.07
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (62 bp):
AAATAAATAATATACAAAAACAGTAATGTATAAATCAATTCTAAAACAAATATCAAAAGAAG
Found at i:21806169 original size:30 final size:31
Alignment explanation
Indices: 21806114--21806184 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
21806104 TAATATACAC
*
21806114 AAAAAAATAATTAATATAAATAACATA-TATA
1 AAAAAAATAATTAATATAAACAACATACTA-A
*
21806145 AAAATAATAATGT-ATA-AAACAACATACTAA
1 AAAAAAATAAT-TAATATAAACAACATACTAA
*
21806175 AAAAACATAA
1 AAAAAAATAA
21806185 AAAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
30 18 0.53
31 15 0.44
32 1 0.03
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (31 bp):
AAAAAAATAATTAATATAAACAACATACTAA
Found at i:21806179 original size:31 final size:28
Alignment explanation
Indices: 21806114--21806179 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 28
21806104 TAATATACAC
*
21806114 AAAAAAATAATTAATATAAATAACATAT
1 AAAAAAATAATTAATATAAACAACATAT
*
21806142 ATAAAAATAA-TAATGTATAAAACAACATACT
1 AAAAAAATAATTAA--TAT-AAACAACATA-T
21806173 AAAAAAA
1 AAAAAAA
21806180 CATAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 9 0.29
29 3 0.10
30 9 0.29
31 7 0.23
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAAAAATAATTAATATAAACAACATAT
Found at i:21831142 original size:27 final size:27
Alignment explanation
Indices: 21831112--21831225 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
21831102 TAATTTACAA
*
21831112 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAG
*
21831139 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAG
*
21831166 AAATACTAAAATACCCTTGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAG
** * * * *
21831193 AATTACCGAGATACCCTTTTGGGGTAA
1 AATTACTAAAATACCCTTGTAGGGTAG
21831220 AATTAC
1 AATTAC
21831226 CATTTTGCCC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 72 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGTAGGGTAG
Found at i:21831154 original size:54 final size:52
Alignment explanation
Indices: 21831096--21831210 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 52
21831086 ATTATCGTTT
** *
21831096 TACCCTTAATTTACAAAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAA
1 TACCCTTAAGGTA-AAAA-TACTAAAATACCCCTGTAGGGTAGAATTACCGAAA
* * * *
21831150 TACCCTTGTAGGGTAGAAATACTAAAATACCCTTGTAGGGTAGAATTACCGAGA
1 TACCC-T-TAAGGTAAAAATACTAAAATACCCCTGTAGGGTAGAATTACCGAAA
21831204 TACCCTT
1 TACCCTT
21831211 TTGGGGTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.02
53 1 0.02
54 42 0.81
55 4 0.08
56 4 0.08
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TACCCTTAAGGTAAAAATACTAAAATACCCCTGTAGGGTAGAATTACCGAAA
Found at i:21831218 original size:54 final size:53
Alignment explanation
Indices: 21831110--21831222 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 53
21831100 CTTAATTTAC
*
21831110 AAAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGT
1 AAAA-TACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGT
* * * *
21831164 AGAAATACTAAAATACCCTTGTAGGGTAGAATTACCGAGATACCCTTTTGGGGT
1 A-AAATACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGT
21831218 AAAAT
1 AAAAT
21831223 TACCATTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 4 0.08
54 46 0.87
55 3 0.06
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (53 bp):
AAAATACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGT
Found at i:21831494 original size:27 final size:26
Alignment explanation
Indices: 21831422--21831531 Score: 112
Period size: 27 Copynumber: 4.1 Consensus size: 26
21831412 GGAGGAAGCA
* *
21831422 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGGTGACTATGCCAC-AATATCT-G
21831450 TTCTGGTGACTATGCCACAAATATCTG
1 TTCTGGTGACTATGCCAC-AATATCTG
* * * *
21831477 TTATGGTGGCTCTACCACAATATCTG
1 TTCTGGTGACTATGCCACAATATCTG
* *
21831503 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGACTATGCCACAATATCTG
21831530 TT
1 TT
21831532 TTGGCAATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
26 10 0.14
27 36 0.51
28 25 0.35
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
TTCTGGTGACTATGCCACAATATCTG
Found at i:21831511 original size:54 final size:54
Alignment explanation
Indices: 21831425--21831531 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
21831415 GGAAGCATTC
* *
21831425 TGGTGGCTATGCCACAAATATCTATTTCTGGTGACTATGCCACAAATATCTGTTA
1 TGGTGGCTATACCACAAATATCTATATCTGGTGACTATGCCAC-AATATCTGTTA
* * * *
21831480 TGGTGGCTCTACCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCTGTT
1 TGGTGGCTATACCACAAATATCTATATCTGGTGACTATGCCACAATATCTGTT
21831532 TTGGCAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 10 0.22
54 23 0.50
55 13 0.28
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATACCACAAATATCTATATCTGGTGACTATGCCACAATATCTGTTA
Found at i:21831737 original size:12 final size:12
Alignment explanation
Indices: 21831716--21831759 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
21831706 CTGTCACCTG
*
21831716 ATTCTAATTCTA
1 ATTCTGATTCTA
*
21831728 ATTCTGATTCTC
1 ATTCTGATTCTA
*
21831740 ATTTTGATTCTA
1 ATTCTGATTCTA
*
21831752 GTTCTGAT
1 ATTCTGAT
21831760 AATGTTTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:21834256 original size:27 final size:27
Alignment explanation
Indices: 21834218--21834282 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
21834208 AGCGTCCTGG
* *
21834218 TGGCTATGCCACA-ATTATTTGATCTGA
1 TGGCTCTGCCACATA-TATCTGATCTGA
* *
21834245 TGGCTCTGCCACATATATCTGTTCTGC
1 TGGCTCTGCCACATATATCTGATCTGA
21834272 TGGCTCTGCCA
1 TGGCTCTGCCA
21834283 TGATTACCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.35
Consensus pattern (27 bp):
TGGCTCTGCCACATATATCTGATCTGA
Found at i:21834293 original size:27 final size:27
Alignment explanation
Indices: 21834240--21834324 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
21834230 AATTATTTGA
*
21834240 TCTGATGGCTCTGCCACATATATCTGT
1 TCTGATGGCTCTGCCACATATACCTGT
* *
21834267 TCTGCTGGCTCTGCCATGAT-TACCTGT
1 TCTGATGGCTCTGCCA-CATATACCTGT
* * *
21834294 ATCT-AGTGACTCTGTCACAT-TATCTGT
1 -TCTGA-TGGCTCTGCCACATATACCTGT
21834321 TCTG
1 TCTG
21834325 GTAGCCATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
26 3 0.07
27 29 0.63
28 14 0.30
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (27 bp):
TCTGATGGCTCTGCCACATATACCTGT
Found at i:21835328 original size:17 final size:17
Alignment explanation
Indices: 21835288--21835331 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
21835278 GTGGAATGGG
* * *
21835288 TTTACAAAAACAAAGAT
1 TTTATAAAAATAAAAAT
21835305 TTT-TAAAAATAAAAAT
1 TTTATAAAAATAAAAAT
21835321 TTTATAAAAAT
1 TTTATAAAAAT
21835332 TGAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (17 bp):
TTTATAAAAATAAAAAT
Found at i:21837496 original size:33 final size:34
Alignment explanation
Indices: 21837423--21837498 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
21837413 GGCCATACTA
*
21837423 TTATCTGAATAAGGGGCTAAGGCCCAGTTTAATG
1 TTATCTGAATAAGGGGCTAAGGCCCAGTTCAATG
* ** *
21837457 TAATCTGAA-AA-GGGCTCTGGCCCAGTATCACTG
1 TTATCTGAATAAGGGGCTAAGGCCCAGT-TCAATG
21837490 TTATCTGAA
1 TTATCTGAA
21837499 CGGATTTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 13 0.37
33 14 0.40
34 8 0.23
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
TTATCTGAATAAGGGGCTAAGGCCCAGTTCAATG
Found at i:21842059 original size:40 final size:39
Alignment explanation
Indices: 21842014--21842126 Score: 172
Period size: 40 Copynumber: 2.8 Consensus size: 39
21842004 TATCACTACA
21842014 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT
* *
21842054 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACT
* *
21842094 AGCACAATTGCCTTCGGGTCTTAACCCGGATAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
21842127 CATTCAAATG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 61 0.92
41 4 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCACT
Found at i:21844937 original size:27 final size:27
Alignment explanation
Indices: 21844896--21844949 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21844886 TGTCATGTGA
* *
21844896 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTAATATTACATG
**
21844923 AATTGAATGTTAAATTAATATTACATG
1 AATTGAATGGCAAATTAATATTACATG
21844950 GGTTGTACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTAATATTACATG
Found at i:21850688 original size:46 final size:46
Alignment explanation
Indices: 21850638--21850807 Score: 130
Period size: 46 Copynumber: 3.7 Consensus size: 46
21850628 TTGAGCATCT
* * *
21850638 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGATC
* * * * * *
21850684 GAACTCGTTGAGTTAAATACGAGTTC-GTGA--GATGTAACTAGGCATC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--ACG-ATC
* * * * * **
21850730 TGAACTCGTTGACTTGAGTTCGATTTCATTTATGGATGTGAACGCCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGATC
*
21850777 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21850808 GGGGCGGGTT
Statistics
Matches: 93, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 51 0.55
47 22 0.24
48 4 0.04
50 6 0.06
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGATC
Found at i:21858640 original size:28 final size:27
Alignment explanation
Indices: 21858577--21858701 Score: 178
Period size: 28 Copynumber: 4.6 Consensus size: 27
21858567 ATATTAAGTC
* *
21858577 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
21858604 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
21858632 CGCACACTTAGTACTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
21858660 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
21858687 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21858702 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 39 0.43
28 52 0.57
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21858722 original size:56 final size:56
Alignment explanation
Indices: 21858577--21858698 Score: 158
Period size: 55 Copynumber: 2.2 Consensus size: 56
21858567 ATATTAAGTC
* * * * *
21858577 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTACTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
* * *
21858632 CGCACACTTAGTACTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTACTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
21858687 CGCACACTTAGT
1 CGCACACTTAGT
21858699 GCTGCACAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 34 0.57
56 26 0.43
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTACTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
Found at i:21862429 original size:40 final size:40
Alignment explanation
Indices: 21862392--21862614 Score: 333
Period size: 40 Copynumber: 5.6 Consensus size: 40
21862382 GCTACTCGCT
*
21862392 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
* *
21862432 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
* *
21862472 CAAATGCCTTCAGGACTTAGCCCAGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATA-TAGTAACTAGCA
* *
21862512 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
* *
21862552 CAAATGCCTTCAGGACTTAGCCCAGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATA-TAGTAACTAGCA
21862592 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
21862615 GGTTACCATC
Statistics
Matches: 165, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 162 0.98
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTAGCA
Found at i:21862491 original size:80 final size:80
Alignment explanation
Indices: 21862359--21862616 Score: 414
Period size: 80 Copynumber: 3.2 Consensus size: 80
21862349 AAACCAAGTA
* * * * *
21862359 CCTTCGGGATTTAG-TCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCAG-ATAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAAT-T
* *
21862421 AGTAACTCGCACAAATG
64 AGTCACTAGCACAAATG
21862438 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAATTAG
21862503 TCACTAGCACAAATG
66 TCACTAGCACAAATG
21862518 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAATTAG
21862583 TCACTAGCACAAATG
66 TCACTAGCACAAATG
21862598 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21862617 TTACCATCCG
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
79 14 0.08
80 153 0.91
81 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAATTAG
TCACTAGCACAAATG
Found at i:21862608 original size:120 final size:120
Alignment explanation
Indices: 21862392--21862614 Score: 367
Period size: 120 Copynumber: 1.9 Consensus size: 120
21862382 GCTACTCGCT
* *
21862392 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGA
*
21862457 ATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAGAATTAGTCACTAGCA
66 ATATAGTAACTAGCACAAATGCCTTCAGGACTTAGCCCAGAATTAGTCACTAGCA
* *
21862512 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCAG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCC-G
* *
21862577 AAT-TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
65 AATATAGTAACTAGCACAAATGCCTTCAGGACTTAGCCC
21862615 GGTTACCATC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 92 0.97
121 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGA
ATATAGTAACTAGCACAAATGCCTTCAGGACTTAGCCCAGAATTAGTCACTAGCA
Found at i:21867571 original size:27 final size:27
Alignment explanation
Indices: 21867530--21867583 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21867520 TGTAATGTGA
* *
21867530 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTAATATTACATG
**
21867557 AATTGAATGTTAAATTAATATTACATG
1 AATTGAATGGCAAATTAATATTACATG
21867584 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTAATATTACATG
Found at i:21871448 original size:47 final size:47
Alignment explanation
Indices: 21871380--21871484 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
21871370 CCCTTCGGGA
* * *
21871380 CTTATCACATTTATACACTTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
21871427 CTTATCACATATATACCCTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
21871474 CTTATCACATA
1 CTTATCACATA
21871485 ATTAATACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:21875291 original size:46 final size:46
Alignment explanation
Indices: 21875224--21875399 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
21875214 TATTTGGGCA
21875224 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
21875270 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * * *
21875315 CTTCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * * *
21875363 CCCGAGCCCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
21875400 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 60 0.57
47 27 0.25
48 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:21888368 original size:46 final size:46
Alignment explanation
Indices: 21888301--21888565 Score: 258
Period size: 46 Copynumber: 5.7 Consensus size: 46
21888291 TGTAACCCGC
21888301 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
* * * *
21888347 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGG--G-C--GTTCGCAT
* *
21888397 -C-TCA-CGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
* * * *
21888440 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGG--G-C--GTTCGCAT
* *
21888490 -C-TCA-CGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
* *
21888533 CCATAAGTGAACTCGGACTCAACTCAATGAGCT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCT
21888566 CGGATGCCTA
Statistics
Matches: 175, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 4 0.02
45 6 0.03
46 81 0.46
47 50 0.29
48 6 0.03
49 4 0.02
50 6 0.03
51 6 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
Found at i:21888419 original size:47 final size:47
Alignment explanation
Indices: 21888355--21888616 Score: 247
Period size: 47 Copynumber: 5.6 Consensus size: 47
21888345 ATCCATAAGT
* *
21888355 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
21888402 GAACTCAGACTCAACTCAACGAGCTTGG--G-C--GTTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
* *
21888448 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
21888495 GAACTCAGACTCAACTCAACGAGCTTGG--G-C--GTTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
* *
21888541 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
21888588 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGCTCGGA
21888617 ACTCAACCAT
Statistics
Matches: 170, Mismatches: 27, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
42 6 0.04
43 6 0.04
44 4 0.02
45 6 0.04
46 50 0.29
47 76 0.45
48 6 0.04
49 4 0.02
50 6 0.04
51 6 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:21888468 original size:93 final size:93
Alignment explanation
Indices: 21888309--21888610 Score: 604
Period size: 93 Copynumber: 3.2 Consensus size: 93
21888299 GCCCATAAGT
21888309 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21888374 TGAGCTCGGATGCCTAGTTACATCTCAC
66 TGAGCTCGGATGCCTAGTTACATCTCAC
21888402 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21888467 TGAGCTCGGATGCCTAGTTACATCTCAC
66 TGAGCTCGGATGCCTAGTTACATCTCAC
21888495 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21888560 TGAGCTCGGATGCCTAGTTACATCTCAC
66 TGAGCTCGGATGCCTAGTTACATCTCAC
21888588 GAACTCAGACTCAACTCAACGAG
1 GAACTCAGACTCAACTCAACGAG
21888611 TTCGGAACTC
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 209 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
TGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:21893107 original size:28 final size:28
Alignment explanation
Indices: 21893035--21893141 Score: 123
Period size: 27 Copynumber: 3.9 Consensus size: 28
21893025 CTGCCAGAAC
* * *
21893035 AGATA-TTGTGACAGAGTCACCAGATAT
1 AGATATTTGTGGCAGAGCCACCAGAAAT
*
21893062 AGATA-TTGTGGAAGAGCCACCAGAAAT
1 AGATATTTGTGGCAGAGCCACCAGAAAT
*
21893089 AAATATTTGTGGCAGAGCCACCAG--AT
1 AGATATTTGTGGCAGAGCCACCAGAAAT
*
21893115 CAGATATTTATGGCAGAGCCACCAGAA
1 -AGATATTTGTGGCAGAGCCACCAGAA
21893142 CGCTTCCTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGAAAT
Found at i:21896807 original size:41 final size:42
Alignment explanation
Indices: 21896746--21896832 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 42
21896736 CACACGAGCG
* * *
21896746 TGTGAGGCCATTTCGAGAGTTACATGACCTAGCATACGGGAA
1 TGTGAGGCCATTTCAAGAGTTACACGACCTAGCACACGGGAA
* *
21896788 TGTGA-GCCATTTCAAGAGTTACACGACCTGGCACACGGGCA
1 TGTGAGGCCATTTCAAGAGTTACACGACCTAGCACACGGGAA
21896829 TGTG
1 TGTG
21896833 GCTTGGTCGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 35 0.88
42 5 0.12
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (42 bp):
TGTGAGGCCATTTCAAGAGTTACACGACCTAGCACACGGGAA
Found at i:21898796 original size:94 final size:91
Alignment explanation
Indices: 21898635--21898853 Score: 239
Period size: 94 Copynumber: 2.4 Consensus size: 91
21898625 GATTTCTTGT
* * * *
21898635 GTGCCAGTGTAAGACATGCCTGGGACATGCATCAGCCACATTATGAGTGTCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCACCCACATGATGAGTGCCAGTGTAAGA-CATG
** * *
21898700 TCTGGGACATGGCATTGGC-ATAGAGTTGA
65 TCTAAGACAT-GCATCGGCTA-AGAG-TCA
* * *
21898729 GTGCCAATGTAAGACATGTCTGGGACATGCATCACCCTCGATGATGA-TAGCCAGTGTCAGA-AG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCACCCAC-ATGATGAGT-GCCAGTGTAAGACA-
21898792 TGTCTAAGACATGCATCGGCTAAGAGTCA
63 TGTCTAAGACATGCATCGGCTAAGAGTCA
*
21898821 -TGCGAGTGTAAGACATGTCTGGGACATGCATCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCA
21898854 GCATGTATAT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
91 31 0.29
92 2 0.02
93 12 0.11
94 47 0.44
95 16 0.15
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCACCCACATGATGAGTGCCAGTGTAAGACATGT
CTAAGACATGCATCGGCTAAGAGTCA
Found at i:21898847 original size:44 final size:45
Alignment explanation
Indices: 21898636--21898852 Score: 156
Period size: 47 Copynumber: 4.7 Consensus size: 45
21898626 ATTTCTTGTG
* * * **
21898636 TGCCAGTGTAAGACATGCCTGGGACATGCATCAGCCACA-TTATGA
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-AGAGATGA
* * *
21898681 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ATAGAGTTGA
1 -TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAGATGA
* ** *
21898729 GTGCCAATGTAAGACATGTCTGGGACATGCATCACCCT-CGATGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTAAGA-GATGA
* ** *
21898776 TAGCCAGTGTCAGA-AGTGTCTAAGACATGCATCGGCTAAGAG-TCA
1 T-GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGCTAAGAGATGA
*
21898821 TGCGAGTGTAAGACATGTCTGGGACATGCATC
1 TGCCAGTGTAAGACATGTCTGGGACATGCATC
21898853 AGCATGTATA
Statistics
Matches: 134, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
44 25 0.19
45 4 0.03
46 23 0.17
47 61 0.46
48 21 0.16
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGA
Found at i:21900617 original size:43 final size:42
Alignment explanation
Indices: 21900470--21900660 Score: 142
Period size: 43 Copynumber: 4.6 Consensus size: 42
21900460 TTTTATCAAA
* * * *
21900470 TCACCGGCATT-TAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAACTCAT
* * * * * *
21900510 TCACCGGCATGA-ATCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAACTCAT
* * *
21900551 TCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGA-ACTCA-T
* *
21900593 TCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA-TTAT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGA-ACTCAT
* * *
21900635 CTCATCGGCATTATAGTCTGTTAGGC
1 -TCACCGGCATTATAGCCTGCTAGGC
21900661 CCAAAGCCCG
Statistics
Matches: 121, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
40 31 0.26
41 30 0.25
42 13 0.11
43 47 0.39
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (42 bp):
TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAACTCAT
Found at i:21900661 original size:43 final size:43
Alignment explanation
Indices: 21900547--21900673 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
21900537 AAGTCTGAAC
* * * *
21900547 TCAT-TCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
*
21900588 TCATTTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
* * * * **
21900631 TTATCTCATCGGCATTATAGTCTGTTAGGCCCAAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
21900674 ATATTATTCA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 4 0.05
42 10 0.14
43 59 0.81
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
Found at i:21903458 original size:55 final size:55
Alignment explanation
Indices: 21903374--21903493 Score: 199
Period size: 55 Copynumber: 2.2 Consensus size: 55
21903364 GCACTTAAAA
* *
21903374 TTTT-AAGTCAGTTTAGTACACGGGTAGGCCACACGGGCGTGTGTCATGGTCGTG
1 TTTTAAAGTCAGTTTAGTACACGGGCAGGCCACACGGGCATGTGTCATGGTCGTG
21903428 TTTTAAAGTCAGTGTT-GTACACGGGCAGGCCACACGGGCATGTGTCATGGTCGTG
1 TTTTAAAGTCAGT-TTAGTACACGGGCAGGCCACACGGGCATGTGTCATGGTCGTG
21903483 TTTTAAAGTCA
1 TTTTAAAGTCA
21903494 ACGTTGCACA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
54 4 0.06
55 56 0.90
56 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (55 bp):
TTTTAAAGTCAGTTTAGTACACGGGCAGGCCACACGGGCATGTGTCATGGTCGTG
Found at i:21903519 original size:55 final size:54
Alignment explanation
Indices: 21903403--21903508 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 54
21903393 ACGGGTAGGC
* ** * *
21903403 CACACGGGCGTGTGTCATGGTCGTGTTTTAAAGTCAGTGTTGTACACGGGCAGG
1 CACACGGGCATGTGTCATGGTCGTGTTTTAAAGTCAACGTTGCACACGAGCAGG
*
21903457 CCACACGGGCATGTGTCATGGTCGTGTTTTAAAGTCAACGTTGCACATGAGC
1 -CACACGGGCATGTGTCATGGTCGTGTTTTAAAGTCAACGTTGCACACGAGC
21903509 TAAGGGCACG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (54 bp):
CACACGGGCATGTGTCATGGTCGTGTTTTAAAGTCAACGTTGCACACGAGCAGG
Found at i:21909275 original size:17 final size:17
Alignment explanation
Indices: 21909253--21909285 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21909243 TAAAACACAA
21909253 GGACTTGCATGTCAAAC
1 GGACTTGCATGTCAAAC
21909270 GGACTTGCATGTCAAA
1 GGACTTGCATGTCAAA
21909286 TTGACATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (17 bp):
GGACTTGCATGTCAAAC
Found at i:21910534 original size:2 final size:2
Alignment explanation
Indices: 21910527--21910553 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21910517 AAAGGAAAAT
21910527 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
21910554 CATATTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21911108 original size:39 final size:39
Alignment explanation
Indices: 21911022--21911322 Score: 410
Period size: 39 Copynumber: 7.7 Consensus size: 39
21911012 TAATTGAGGA
* * * *
21911022 TTATAACCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
* *
21911060 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
21911099 TTATATCCGGGCTAAGTCCCCAAGGTATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* **
21911138 TTATGTCCAAGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
21911177 TTATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
21911216 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
21911255 TTATATCCAGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
21911294 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
21911323 TGTGTTGGAA
Statistics
Matches: 235, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 25 0.11
39 209 0.89
40 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:21913709 original size:17 final size:17
Alignment explanation
Indices: 21913687--21913720 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21913677 TTTTCTTTCT
21913687 ATATTA-TTATATTATTA
1 ATATTATTTATA-TATTA
21913704 ATATTATTTATATATTA
1 ATATTATTTATATATTA
21913721 TTAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTATTTATATATTA
Found at i:21913717 original size:20 final size:20
Alignment explanation
Indices: 21913694--21913738 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
21913684 TCTATATTAT
21913694 TATATTATTAATATT-ATTTA
1 TATATTATTAAT-TTAATTTA
21913714 TATATTATTAATTTAATTTA
1 TATATTATTAATTTAATTTA
21913734 TATAT
1 TATAT
21913739 ATTTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTATTAATTTAATTTA
Found at i:21913742 original size:15 final size:15
Alignment explanation
Indices: 21913704--21913753 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
21913694 TATATTATTA
21913704 ATAT-TATTTATATATT
1 ATATATATTTA-AT-TT
21913720 AT-TA-ATTTAATTT
1 ATATATATTTAATTT
*
21913733 ATATATATTTAAATT
1 ATATATATTTAATTT
21913748 ATATAT
1 ATATAT
21913754 TGAAATGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 20 0.67
16 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATATTTAATTT
Found at i:21913744 original size:20 final size:20
Alignment explanation
Indices: 21913687--21913749 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
21913677 TTTTCTTTCT
21913687 ATATTA-TTATAT-TA-TTA
1 ATATTATTTATATATATTTA
21913704 ATATTATTTATATAT-TATTA
1 ATATTATTTATATATAT-TTA
21913724 AT-TTAATTTATATATATTTA
1 ATATT-ATTTATATATATTTA
21913744 A-ATTAT
1 ATATTAT
21913750 ATATTGAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
17 6 0.15
18 6 0.15
19 5 0.13
20 21 0.54
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTATTTATATATATTTA
Found at i:21913957 original size:21 final size:21
Alignment explanation
Indices: 21913917--21913955 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21913907 AAATCATGGA
21913917 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
21913938 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
21913956 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:21918909 original size:47 final size:47
Alignment explanation
Indices: 21918746--21919109 Score: 530
Period size: 49 Copynumber: 7.6 Consensus size: 47
21918736 TATTTGAATA
*
21918746 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21918795 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGCCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21918844 AATGTGAAAGTGTATATATGTGAGATAAGGCCTAATGCCCGATGTGATG
1 AATGTGAAAGTGTATATATGT--GATAAGGCCTAATGGCCGATGTGATG
*
21918893 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGG--CCGATGTGATG
* *
21918942 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
21918989 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
21919036 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
21919083 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
21919110 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 141 0.48
49 153 0.52
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:21918985 original size:96 final size:95
Alignment explanation
Indices: 21918746--21919109 Score: 552
Period size: 96 Copynumber: 3.8 Consensus size: 95
21918736 TATTTGAATA
*
21918746 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
21918811 TATATGTGATAAGGCCTAAT-GCCCGATGTGATG
62 TATATGTGATAAGGCCTAATGGCCCGATGTGATG
* * *
21918844 AATGTGAAAGTGTATATATGTGAGATAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATGT--GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
21918909 TATGTGATAAGGCCGAATGGCCCCGATGTGATG
64 TATGTGATAAGGCCTAATGG-CCCGATGTGATG
21918942 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
21919007 TGTGATAAGGCCTAATGG-CCGATGTGATG
66 TGTGATAAGGCCTAATGGCCCGATGTGATG
* * * * * *
21919036 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
21919101 TGTGATAAG
66 TGTGATAAG
21919110 TCCCGAAGGG
Statistics
Matches: 249, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
94 79 0.32
96 88 0.35
97 1 0.00
98 81 0.33
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCCGATGTGATG
Found at i:21924025 original size:27 final size:27
Alignment explanation
Indices: 21923995--21924171 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
21923985 AAATTGTACA
* *
21923995 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
21924022 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
21924049 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
21924076 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
21924104 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
21924131 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
21924158 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21924172 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:21924108 original size:82 final size:81
Alignment explanation
Indices: 21923995--21924150 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
21923985 AAATTGTACA
* * * *
21923995 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
21924059 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
21924076 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
21924141 TGCGAGTTGA
65 TGCGAATTGA
21924151 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21924162 original size:82 final size:81
Alignment explanation
Indices: 21923991--21924171 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
21923981 GATTAAATTG
* * * * *
21923991 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21924056 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21924072 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21924136 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21924154 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21924172 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21926209 original size:40 final size:40
Alignment explanation
Indices: 21926165--21926312 Score: 194
Period size: 40 Copynumber: 3.7 Consensus size: 40
21926155 CTCGATATAT
*
21926165 TATATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
21926205 TATATA-CCCGGTTAAATCCCACAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
21926244 TATATATCCGGGTTAAATCTCGCAGGCTTCATGCTGGT-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
21926283 -CTATATCCGGGCTTAAAGTTCCGCAGGCTT
1 TATATATCCGGG-TTAAA-TCCCGCAGGCTT
21926313 TGAGCTAGCG
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
38 10 0.11
39 42 0.44
40 43 0.45
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:21927817 original size:57 final size:57
Alignment explanation
Indices: 21927754--21927864 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
21927744 CATTGTCACT
*
21927754 TACTTATTTATAATTTGAGCTACAGAGCTCCAAATTAAGATCCGTAAATTTCCCCTG
1 TACTTATTTATAATGTGAGCTACAGAGCTCCAAATTAAGATCCGTAAATTTCCCCTG
*
21927811 TACTTATTTATAATGTGAGCTACAGAGCTCCAAATTAAGATCTGTAAATTTCCC
1 TACTTATTTATAATGTGAGCTACAGAGCTCCAAATTAAGATCCGTAAATTTCCC
21927865 TGAAACTAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (57 bp):
TACTTATTTATAATGTGAGCTACAGAGCTCCAAATTAAGATCCGTAAATTTCCCCTG
Found at i:21928777 original size:44 final size:44
Alignment explanation
Indices: 21928727--21928813 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
21928717 AATTTATCTC
*
21928727 GTAGCTCTCTTGTCTACATGTTGTCCTTCACCTGGAGCCACGCT
1 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAGCCACGCT
21928771 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAGCCACGC
1 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAGCCACGC
21928814 ATATGACCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.32
Consensus pattern (44 bp):
GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAGCCACGCT
Found at i:21938311 original size:27 final size:27
Alignment explanation
Indices: 21938280--21938457 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
21938270 TAAATTGTAC
21938280 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21938307 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
21938333 ATGCACTAAGTGTGTGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21938361 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21938389 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21938416 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21938443 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21938458 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21938448 original size:82 final size:81
Alignment explanation
Indices: 21938277--21938457 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
21938267 GATTAAATTG
* *
21938277 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
21938342 GTGTGTGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21938358 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21938422 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21938440 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21938458 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21938468 original size:27 final size:27
Alignment explanation
Indices: 21938362--21938468 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
21938352 TGACCATGCG
* * * *
21938362 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
21938390 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
21938417 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
21938444 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
21938469 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:21939983 original size:40 final size:40
Alignment explanation
Indices: 21939894--21940877 Score: 1791
Period size: 40 Copynumber: 24.6 Consensus size: 40
21939884 TTGAATGCTG
* * *
21939894 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
21939933 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21939973 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940012 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940052 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940132 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940172 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940212 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940252 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940292 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940332 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940372 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940412 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940452 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940492 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940532 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940572 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940652 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940692 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
21940772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21940812 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
21940853 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
21940878 AATGAGGAGC
Statistics
Matches: 926, Mismatches: 12, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
39 53 0.06
40 863 0.93
41 10 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21952868 original size:40 final size:40
Alignment explanation
Indices: 21952824--21952945 Score: 174
Period size: 40 Copynumber: 3.0 Consensus size: 40
21952814 CCGGATATAG
*
21952824 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACTT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
*
21952864 TACCAGCA-TGAAGCCTGCGGGAGTTAACCCGGATATACAT
1 TACCAGCACT-AAGCCTGCGGGATTTAACCCGGATATACAT
* * * *
21952904 TACTAGCACGATGCCTACGGGATTTAACCCGGATATACAT
1 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
21952944 TA
1 TA
21952946 TATTGAGAGC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
Found at i:21957705 original size:48 final size:48
Alignment explanation
Indices: 21957577--21957721 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 48
21957567 TCTCATATCG
*
21957577 ATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATAGGATCAC
1 ATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAC
* * * *
21957625 ATGTCGATGCCAATGTCATATCCCAAATATGGTCTTACATGGGATCAC
1 ATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAC
* * *
21957673 ATGCCAATGCCAATGCCATGTTCCAGACATGGTCTTGA-ATGGGATCAC
1 ATGCCAATGCCAATGCCATATCCCAGATATGGTCTT-ACATGGGATCAC
21957721 A
1 A
21957722 CATAACCCTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 83 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAC
Found at i:21962692 original size:37 final size:37
Alignment explanation
Indices: 21962642--21962720 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21962632 TTATTACGAA
* * *
21962642 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21962679 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21962716 GTCTT
1 GTCTT
21962721 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21962917 original size:47 final size:47
Alignment explanation
Indices: 21962839--21963085 Score: 422
Period size: 47 Copynumber: 5.3 Consensus size: 47
21962829 CCCTTCGGGA
* * * * * *
21962839 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21962886 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21962933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21962980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21963027 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21963074 CTTATCACATAT
1 CTTATCACATAT
21963086 TCAAAGTGTG
Statistics
Matches: 190, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21971075 original size:40 final size:40
Alignment explanation
Indices: 21970878--21971065 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
21970868 TTGATATATT
* * * *
21970878 GTATATCCGGGTTAAATCCCGTAGGCATCGTGCTGGTAAT
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
21970918 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
21970958 GTATATCCGGGTTAAATCCTGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
21970998 GTATATCCGGGTTAAATTCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
21971038 GTATATCCGGGTTAAATCCCACAGGCTT
1 GTATATCCGGGTTAAATCCCGCAGGCTT
21971066 AGTACTGGTA
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:21971104 original size:120 final size:119
Alignment explanation
Indices: 21970878--21971105 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 119
21970868 TTGATATATT
* * * *
21970878 GTATATCCGGGTTAAATCCCGTAGGCATCGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCCGCAGGCATCATGCTGGTAAAGTATATCCGGGTTAAATCCCACAGG
* * * *
21970943 CTTCATGCTGGTAAAGTATATCCGGGTTAAATCCTGCAGGCTTCATGCTGGTAAA
66 CTTCATACTGGT-AACTATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAA
* *
21970998 GTATATCCGGGTTAAATTCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCACAGG
1 GTATATCCGGGTTAAATCCCGCAGGCATCATGCTGGTAAAGTATATCCGGGTTAAATCCCACAGG
* *
21971063 CTT-AGTACTGGT-ACTATATTCGGGCCTAAAGTCCCGTAGGCTT
66 CTTCA-TACTGGTAACTATATCCGGG-CTAAA-TCCCGCAGGCTT
21971106 TGTGCTAGTA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 10 0.11
119 5 0.05
120 78 0.84
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (119 bp):
GTATATCCGGGTTAAATCCCGCAGGCATCATGCTGGTAAAGTATATCCGGGTTAAATCCCACAGG
CTTCATACTGGTAACTATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:21972931 original size:13 final size:13
Alignment explanation
Indices: 21972913--21972937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21972903 GATGTTATTG
21972913 TTATTATTATTTA
1 TTATTATTATTTA
21972926 TTATTATTATTT
1 TTATTATTATTT
21972938 CGTAGGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:21973956 original size:13 final size:13
Alignment explanation
Indices: 21973938--21973963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21973928 GTTTCTGAAA
21973938 ATTCTTTTCTCCT
1 ATTCTTTTCTCCT
21973951 ATTCTTTTCTCCT
1 ATTCTTTTCTCCT
21973964 CTCTTCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTCTTTTCTCCT
Found at i:21975164 original size:28 final size:28
Alignment explanation
Indices: 21975118--21975233 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
21975108 GGAGGAAGCA
*
21975118 TTCTGGTCGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
21975146 TTCTGGTGGCTGTGGCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
21975174 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
21975202 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
21975228 TTCTGG
1 TTCTGG
21975234 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
26 5 0.07
27 7 0.09
28 63 0.84
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:21976388 original size:10 final size:10
Alignment explanation
Indices: 21976373--21976399 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21976363 TAAGTATTAC
21976373 TCTGAATATT
1 TCTGAATATT
21976383 TCTGAATATT
1 TCTGAATATT
21976393 TCTGAAT
1 TCTGAAT
21976400 TATCAGCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (10 bp):
TCTGAATATT
Found at i:21978559 original size:50 final size:49
Alignment explanation
Indices: 21978444--21978619 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
21978434 TGAGGTCGCA
* * * * * *
21978444 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGT-GATCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
21978495 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
21978545 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
*
21978594 TGTGTAGTACTAAGTGCAGGTTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
21978620 TACGTACCAG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.28
50 41 0.39
51 30 0.28
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:21978624 original size:101 final size:101
Alignment explanation
Indices: 21978433--21978619 Score: 261
Period size: 101 Copynumber: 1.9 Consensus size: 101
21978423 ATGATCTATT
* * * *
21978433 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGTGATCGCGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAATTGTGATCGCATGT
*
21978498 GTAGTATTAAGTGCAGGCTACTACGTGTATTAGATG
66 GTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* * ***
21978534 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTG-G-TCGCATGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAATTGTGATCGCATGT
*
21978597 GTAGTACTAAGTGCAGGTTACTA
66 GTAGTACTAAGTGCAGGCTACTA
21978620 TACGTACCAG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 28 0.37
100 1 0.01
101 46 0.61
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (101 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAATTGTGATCGCATGT
GTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:21981361 original size:18 final size:17
Alignment explanation
Indices: 21981340--21981386 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
21981330 ACAATTCTTT
21981340 TCTCTTCTTCT-TTTCTCC
1 TCTCTTCTTCTATTT-T-C
*
21981358 TCTCTTCATCTATTTTC
1 TCTCTTCTTCTATTTTC
21981375 TCTTCTTCTTCT
1 TC-TCTTCTTCT
21981387 CTTCCTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTATTTTC
Found at i:21982086 original size:8 final size:8
Alignment explanation
Indices: 21982073--21982102 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21982063 CTAGATCGGC
21982073 AAAAGCTG
1 AAAAGCTG
21982081 AAAAGCTG
1 AAAAGCTG
*
21982089 AAATGCTG
1 AAAAGCTG
21982097 AAAAGC
1 AAAAGC
21982103 CGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (8 bp):
AAAAGCTG
Found at i:21982381 original size:26 final size:25
Alignment explanation
Indices: 21982352--21982410 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
21982342 ATTTACTAAA
*
21982352 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
21982378 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
21982404 ATACCCT
1 ATACCCT
21982411 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:21982554 original size:28 final size:28
Alignment explanation
Indices: 21982517--21982608 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
21982507 GGAGGAAGTG
21982517 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
21982545 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
21982573 TTCAT-GTGGCCCTGCCACAATTATTTGT
1 TTC-TGGTGGCTCTGCCACAAATATCTGT
*
21982601 ATCTGGTG
1 TTCTGGTG
21982609 AGTCTGTCGC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.02
28 54 0.96
29 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:21990172 original size:43 final size:43
Alignment explanation
Indices: 21990088--21990245 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
21990078 TCTGAGATAT
** * * * *
21990088 CGTGTAAGACTGTGTCTGGGACATAGGCCTCGAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATCGACATCGATAT-TGATTTA
*
21990131 CGTATAAGACCATGTCTGGGACATCGACATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGACATCGATAT-TGATTTA
* * ** * *
21990173 CGTGTAAGACCCTGTTTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTCTGGGACATCGACATCGATATTGATTTA
* * **
21990216 CTTGTAAGACCACGTCTGGGATGTCGACAT
1 CGTGTAAGACCATGTCTGGGACATCGACAT
21990246 TGTACTTATT
Statistics
Matches: 88, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 32 0.36
43 56 0.64
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGACATCGATATTGATTTA
Found at i:21990224 original size:85 final size:85
Alignment explanation
Indices: 21990070--21990245 Score: 196
Period size: 85 Copynumber: 2.1 Consensus size: 85
21990060 AAGGTACGTT
** * *
21990070 GACATCTATCTGAGATATCGTGTAAGACTGTGTCTGGGACATAGGCCTCGATTGAGATTTACGTA
1 GACATCTATCT-AGATATCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATTGAGATTTACGTA
*
21990135 TAAGACCATGTCTGGGACATC
65 TAAGACCACGTCTGGGACATC
* * *
21990156 GACATCGTATCT-GATTTCGTGTAAGACCCTGTTTGGGACAGAGGCATCGATATTGA-A-TTACT
1 GACATC-TATCTAGATATCGTGTAAGACCCTGTCTGGGACAGAGGCATCG--ATTGAGATTTACG
* **
21990218 TGTAAGACCACGTCTGGGATGTC
63 TATAAGACCACGTCTGGGACATC
21990241 GACAT
1 GACAT
21990246 TGTACTTATT
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
85 59 0.78
86 7 0.09
87 10 0.13
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (85 bp):
GACATCTATCTAGATATCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATTGAGATTTACGTAT
AAGACCACGTCTGGGACATC
Found at i:21994325 original size:16 final size:16
Alignment explanation
Indices: 21994304--21994342 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21994294 GGAGATCGGC
21994304 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
21994320 AAAAGCTGAAATGTCG
1 AAAAGCCGAAATGCCG
21994336 AAAAGCC
1 AAAAGCC
21994343 AAAAGTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:21994601 original size:28 final size:28
Alignment explanation
Indices: 21994568--21994672 Score: 115
Period size: 28 Copynumber: 3.7 Consensus size: 28
21994558 GTAATGTAAT
* **
21994568 TTGGGCCGGATGGGTGATATAAATGAGA
1 TTGGGCCAGATGGGCCATATAAATGAGA
* *
21994596 TTGGGCCTA-ATGGGCCATATGAATGTGAA
1 TTGGGCC-AGATGGGCCATATAAATGAG-A
*
21994625 TTGGGCCAGATTGGCCATATAAATGAGA
1 TTGGGCCAGATGGGCCATATAAATGAGA
21994653 TTGGGCCTAG-TGGGCCATAT
1 TTGGGCC-AGATGGGCCATAT
21994673 GCATGTATGT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
28 39 0.61
29 25 0.39
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (28 bp):
TTGGGCCAGATGGGCCATATAAATGAGA
Found at i:22000289 original size:43 final size:43
Alignment explanation
Indices: 22000242--22000362 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
22000232 CCTCAATTGA
* *
22000242 GATTTACGTATAATACCATGTCTGGGACATCGACATC-ATATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGACATCGATAT-T
* * ** *
22000285 GATTT-CGTGTAAGACCCTGCCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGACATCGATATT
* * * *
22000327 GAATTACATGTAAGACCACGTCTGGGACGTCGACAT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGACAT
22000363 TGTACTTGTT
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATCGACATCGATATT
Found at i:22002753 original size:26 final size:26
Alignment explanation
Indices: 22002724--22002779 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
22002714 CCCGTGTGGA
*
22002724 CCCACGAGCCCATGGGACCCACACTG
1 CCCACGAGCCCATGGGACCCACACGG
* * *
22002750 CCCATGAGCTCGTGGGACCCACACGG
1 CCCACGAGCCCATGGGACCCACACGG
22002776 CCCA
1 CCCA
22002780 TTTTGGCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.45, G:0.25, T:0.09
Consensus pattern (26 bp):
CCCACGAGCCCATGGGACCCACACGG
Found at i:22015997 original size:38 final size:38
Alignment explanation
Indices: 22015946--22016140 Score: 291
Period size: 38 Copynumber: 5.1 Consensus size: 38
22015936 ATATTCGATG
* *
22015946 TATATCCGGGTTAAATCCTGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
22015984 TATATCCGGGTTAAATCCCACAGGCTTCGTGTTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
22016022 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
22016060 TATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
22016098 TATATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
22016136 TATAT
1 TATAT
22016141 TCGAGCCTTC
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 141 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:22016262 original size:43 final size:43
Alignment explanation
Indices: 22016138--22016249 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
22016128 GCTGGTATTA
*
22016138 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
* *
22016181 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
*
22016224 TATTTGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
22016250 GTAATGTCGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
Found at i:22021410 original size:27 final size:27
Alignment explanation
Indices: 22021379--22021833 Score: 534
Period size: 27 Copynumber: 16.9 Consensus size: 27
22021369 AACATTACTA
*
22021379 AAATACCCCTGCAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
22021406 AAATACCCCTGTAATGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** **
22021433 AAATACCCCTGTAAAGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
22021460 AAATACCCCTGTAGGGTAGAGTTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
22021487 AAATACCCCTCTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
22021514 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
22021541 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
22021568 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
22021595 AAATACCCCTGTAAGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
22021622 AAATACCTCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
22021649 AAATACCCCTATATGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
22021676 AAATAACCCTGTAGGATAGAA-TATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
22021702 AAATACCCCTGTAATGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
22021729 ACATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
22021756 AAATATCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
22021783 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
22021810 AAATACCCCTATAGGGTAGAATTA
1 AAATACCCCTGTAGGGTAGAATTA
22021834 TCAAGATACC
Statistics
Matches: 355, Mismatches: 72, Indels: 2
0.83 0.17 0.00
Matches are distributed among these distances:
26 21 0.06
27 334 0.94
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:22022220 original size:22 final size:22
Alignment explanation
Indices: 22022195--22022244 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
22022185 GATGGCTCTA
22022195 TGCCAACCTAAATATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
* * * *
22022217 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
22022239 TGCCAA
1 TGCCAA
22022245 ACATATTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:22022433 original size:27 final size:26
Alignment explanation
Indices: 22022403--22022508 Score: 86
Period size: 27 Copynumber: 4.0 Consensus size: 26
22022393 TTCTGTTAAG
* * *
22022403 TGGCTTTGCCATATTATCTGATTCTGA
1 TGGCTATGCCAAAATATCTG-TTCTGA
*
22022430 TGGCTATGCCACAAATATCTGTTCTGG
1 TGGCTATGCCA-AAATATCTGTTCTGA
* * *
22022457 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTATGCCAAAATATCTGT-TCTGA
* * * *
22022484 TGACTCTGTCACAATATCTGTTCTG
1 TGGCTATGCCAAAATATCTGTTCTG
22022509 GCAGCCATGC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.19
27 49 0.71
28 7 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
TGGCTATGCCAAAATATCTGTTCTGA
Found at i:22022460 original size:54 final size:53
Alignment explanation
Indices: 22022402--22022509 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
22022392 ATTCTGTTAA
* * * *
22022402 GTGGCTTTGCCATATTATCTG-ATTCTGATGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTGATGACTATGCCAC-AATATCTGTTCTG
* * *
22022456 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGATGACTATGCCACAATATCTGTTCTG
22022509 G
1 G
22022510 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 14 0.30
54 31 0.67
55 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGATGACTATGCCACAATATCTGTTCTG
Found at i:22024582 original size:27 final size:26
Alignment explanation
Indices: 22024564--22025791 Score: 1691
Period size: 27 Copynumber: 45.5 Consensus size: 26
22024554 GTAGGCTAGC
*
22024564 ATTACTGAAATACCCCTGTAGGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22024591 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22024618 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22024645 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
* * *
22024672 ATTACCGAAATACCCCTGTAGGGCAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22024699 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
* *
22024726 ATTATCGAAATACCCCTATATGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
22024753 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
* *
22024780 ATTATCGAAATACCCTTGTAGGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
* *
22024807 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
*
22024834 ATTACTGAAATACCCCTGTAGGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
*
22024861 ATTACTAAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
*
22024888 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22024915 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22024942 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22024969 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22024996 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025023 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025050 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025077 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025104 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025131 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025158 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025185 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025212 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025239 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025266 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025293 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025320 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025347 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025374 ATCATTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025401 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
* * *
22025428 ATTACCGAAATACCCCTGTAGGGCAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025455 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025482 ATTATCGAAATACCCCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
* * *
22025509 ATTACCGAAATACCCCTGTAGGGCAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
22025536 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
* *
22025563 ATTATCGAAATACCCCTATATGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
22025590 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
* *
22025617 ATTATCGAAATACCCTTGTAGGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
* *
22025644 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
*
22025671 ATTACTGAAATACCCCTGTAGGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
*
22025698 ATTACTAAAATACCCCTGTAAGGTAGA
1 ATTA-TGAAATACCCCTGTAAGGTAGA
*
22025725 ATTATCGAAATACCCCTGTAGGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
*
22025752 ATTATCGAAATACCTCTGTAAGGTAGA
1 ATTAT-GAAATACCCCTGTAAGGTAGA
22025779 ATTACTGAAATAC
1 ATTA-TGAAATAC
22025792 ACACTGTTTC
Statistics
Matches: 1096, Mismatches: 69, Indels: 72
0.89 0.06 0.06
Matches are distributed among these distances:
26 18 0.02
27 1065 0.97
28 13 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
ATTATGAAATACCCCTGTAAGGTAGA
Found at i:22024634 original size:54 final size:54
Alignment explanation
Indices: 22024569--22025791 Score: 1900
Period size: 54 Copynumber: 22.6 Consensus size: 54
22024559 CTAGCATTAC
*
22024569 TGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* *
22024623 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* * * *
22024677 CGAAATACCCCTGTAGGGCAGAATTA-CTGAAATACCCCTGTAAGGTAGAATTAT
1 TGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAAGGTAGAATCAT
* * * *
22024731 CGAAATACCCCTATATGGTAGAATTA-CTGAAATACCCCTGTAAGGTAGAATTAT
1 TGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAAGGTAGAATCAT
* * * * * * *
22024785 CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* *
22024839 TGAAATACCCCTGTAGGGTAGAATTA-CTAAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAAGGTAGAATCAT
22024893 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22024947 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025001 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025055 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025109 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025163 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025217 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025271 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
22025325 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* *
22025379 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* * * *
22025433 CGAAATACCCCTGTAGGGCAGAATTA-CTGAAATACCCCTGTAAGGTAGAATTAT
1 TGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAAGGTAGAATCAT
* * * * * *
22025487 CGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGCAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* * * *
22025541 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTATATGGTAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* * * *
22025595 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* * * * *
22025649 CGAAATACCCCTGTAGGGTAGAATTA-CTGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAAGGTAGAATCAT
* * *
22025703 TAAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTAT
1 TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
* *
22025757 CGAAATACCTCTGTAAGGTAGAATTA-CTGAAATAC
1 TGAAATACCCCTGTAAGGTAGAATTATC-GAAATAC
22025792 ACACTGTTTC
Statistics
Matches: 1108, Mismatches: 52, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
53 5 0.00
54 1099 0.99
55 4 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
TGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAAGGTAGAATCAT
Found at i:22033199 original size:40 final size:40
Alignment explanation
Indices: 22033144--22033330 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
22033134 ATTTGAATGA
22033144 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
22033184 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
22033224 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * * *
22033264 TATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTT
* *
22033304 TATCCGGGCTAAGACCTGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
22033331 GTGCGAGTTG
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 136 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:22033331 original size:40 final size:40
Alignment explanation
Indices: 22033143--22033394 Score: 285
Period size: 40 Copynumber: 6.3 Consensus size: 40
22033133 CATTTGAATG
*
22033143 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* *
22033183 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* *
22033223 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * * *
22033263 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * *
22033303 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * ** * *
22033343 ATACCCGGGTTAAGACCCGAAGGCAATTGGGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
22033383 ATATCC-GGCTAA
1 ATATCCGGGCTAA
22033395 ATTCCGAAGA
Statistics
Matches: 191, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
39 7 0.04
40 181 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:22055445 original size:27 final size:27
Alignment explanation
Indices: 22055414--22055591 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22055404 TAAATTGTAC
22055414 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22055441 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22055467 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22055495 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22055523 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22055550 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22055577 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22055592 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22055528 original size:82 final size:81
Alignment explanation
Indices: 22055415--22055570 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22055405 AAATTGTACA
* *
22055415 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22055479 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22055496 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22055561 TGCGAGTTGA
65 TGCGAATTGA
22055571 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22055582 original size:82 final size:81
Alignment explanation
Indices: 22055411--22055591 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22055401 GATTAAATTG
* *
22055411 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22055476 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22055492 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22055556 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22055574 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22055592 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22061233 original size:16 final size:17
Alignment explanation
Indices: 22061212--22061245 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22061202 GTGTAACGCC
22061212 CCAAAAAA-CCCAAAAT
1 CCAAAAAACCCCAAAAT
22061228 CCAAAAAACCCCAAAAT
1 CCAAAAAACCCCAAAAT
22061245 C
1 C
22061246 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.06
Consensus pattern (17 bp):
CCAAAAAACCCCAAAAT
Found at i:22062474 original size:24 final size:24
Alignment explanation
Indices: 22062442--22062496 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
22062432 ATGAATCAAC
* *
22062442 AAAAGCCAAAATGCCGAAATGCCG
1 AAAAGCCAAAAAGCCGAAATACCG
**
22062466 AAAAGCCAAAAAGTTGAAATACCG
1 AAAAGCCAAAAAGCCGAAATACCG
22062490 AAAAGCC
1 AAAAGCC
22062497 GAAGTTGGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.18, T:0.09
Consensus pattern (24 bp):
AAAAGCCAAAAAGCCGAAATACCG
Done.