Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 94 of 290
Found at i:28849320 original size:21 final size:21
Alignment explanation
Indices: 28849265--28849326 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
28849255 TCATACAACA
*
28849265 TAACCCTTAAACCCATAACCCC
1 TAACCCTTAAACCTA-AACCCC
28849287 TAACACC-TAAACCTTAAACCCC
1 TAAC-CCTTAAACC-TAAACCCC
28849309 -AACCCTTAAACCATAAAC
1 TAACCCTTAAACC-TAAAC
28849327 TATAAACCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
21 14 0.40
22 16 0.46
23 3 0.09
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (21 bp):
TAACCCTTAAACCTAAACCCC
Found at i:28849353 original size:22 final size:22
Alignment explanation
Indices: 28849319--28849370 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
28849309 AACCCTTAAA
*
28849319 CCATAAA-CTATAAACCATAAT
1 CCATAAACCCATAAACCATAAT
*
28849340 CCATAAACCCATAATCCATAAT
1 CCATAAACCCATAAACCATAAT
28849362 CCATAAACC
1 CCATAAACC
28849371 TTAAAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAAACCCATAAACCATAAT
Found at i:28849375 original size:7 final size:7
Alignment explanation
Indices: 28849244--28849375 Score: 70
Period size: 7 Copynumber: 18.6 Consensus size: 7
28849234 TTTTATCCCC
*
28849244 TAAACCT
1 TAAACCA
*
28849251 TAAATCA
1 TAAACCA
28849258 TACAA-CA
1 TA-AACCA
* *
28849265 TAACCCT
1 TAAACCA
28849272 TAAACCCA
1 TAAA-CCA
* *
28849280 TAACCCC
1 TAAACCA
28849287 TAACACC-
1 TAA-ACCA
*
28849294 TAAACCT
1 TAAACCA
*
28849301 TAAACCC
1 TAAACCA
* * *
28849308 CAACCCT
1 TAAACCA
28849315 TAAACCA
1 TAAACCA
*
28849322 TAAACTA
1 TAAACCA
28849329 TAAACCA
1 TAAACCA
*
28849336 TAATCCA
1 TAAACCA
28849343 TAAACCCA
1 TAAA-CCA
*
28849351 TAATCCA
1 TAAACCA
*
28849358 TAATCCA
1 TAAACCA
*
28849365 TAAACCT
1 TAAACCA
28849372 TAAA
1 TAAA
28849376 ATAGTAACTC
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
6 4 0.04
7 77 0.80
8 15 0.16
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:28850235 original size:17 final size:18
Alignment explanation
Indices: 28850210--28850243 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28850200 GGGTTATAGT
*
28850210 TTAGTATTTAAG-GTTTG
1 TTAGGATTTAAGAGTTTG
28850227 TTAGGATTTAAGAGTTT
1 TTAGGATTTAAGAGTTT
28850244 ACTATTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (18 bp):
TTAGGATTTAAGAGTTTG
Found at i:28850388 original size:41 final size:42
Alignment explanation
Indices: 28850312--28850491 Score: 208
Period size: 41 Copynumber: 4.4 Consensus size: 42
28850302 AGTTATATGA
*
28850312 CTTTTAGCGGCGTTTTGACCACAAA-CGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTAACCA-AAAGCGCCGCTAATGCTCTGT
*
28850354 CTTTTAGCGGCATTTT-ACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTAACCAAAAGCGCCGCTAATGCTCTGT
* * * *
28850395 CTTTTAGCGGCGTTTT-ACCAAAAGTGCCGCTATTTCTCTAT
1 CTTTTAGCGGCGTTTTAACCAAAAGCGCCGCTAATGCTCTGT
* * * * * *
28850436 -TTGTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTCAGT
1 CTTTTAGCGGCGTTTTAACCAAAAGCGCCGCTAATGCTCTGT
28850477 -TTTTAGCGGCGTTTT
1 CTTTTAGCGGCGTTTT
28850492 TGGTAAAACA
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
40 17 0.14
41 89 0.74
42 15 0.12
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (42 bp):
CTTTTAGCGGCGTTTTAACCAAAAGCGCCGCTAATGCTCTGT
Found at i:28851281 original size:10 final size:11
Alignment explanation
Indices: 28851262--28851298 Score: 60
Period size: 10 Copynumber: 3.5 Consensus size: 11
28851252 GTCTCCTCCT
28851262 TTTCTTCTTTC
1 TTTCTTCTTTC
28851273 TTT-TTCTTTC
1 TTTCTTCTTTC
28851283 TTTCTT-TTTC
1 TTTCTTCTTTC
28851293 TTTCTT
1 TTTCTT
28851299 AGTTTGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTCTTTC
Found at i:28851285 original size:14 final size:14
Alignment explanation
Indices: 28851261--28851298 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
28851251 TGTCTCCTCC
28851261 TTTTC-TTCTTTCT
1 TTTTCTTTCTTTCT
28851274 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
28851288 TTTTCTTTCTT
1 TTTTCTTTCTT
28851299 AGTTTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:28854875 original size:32 final size:32
Alignment explanation
Indices: 28854834--28854897 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
28854824 ACATGTCCAA
*
28854834 AGAAATCACAAATTAGCCCCTAACTTCCACCT
1 AGAAATCACAAATTAGCCCATAACTTCCACCT
28854866 AGAAATCACAAATTAGCCCATAACTTCCACCT
1 AGAAATCACAAATTAGCCCATAACTTCCACCT
28854898 TGATTGTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.22
Consensus pattern (32 bp):
AGAAATCACAAATTAGCCCATAACTTCCACCT
Found at i:28870572 original size:30 final size:29
Alignment explanation
Indices: 28870505--28870572 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
28870495 GGTTTCATTT
* *
28870505 CAGTCATCTAACTTTTGAAAAATAACAAAA
1 CAGTCA-CTAACGTTTAAAAAATAACAAAA
* * *
28870535 TAATCACTAACGTTTAAAAAAGTGACAAAA
1 CAGTCACTAACGTTTAAAAAA-TAACAAAA
28870565 CAGTCACT
1 CAGTCACT
28870573 GACTAACAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.25
Consensus pattern (29 bp):
CAGTCACTAACGTTTAAAAAATAACAAAA
Found at i:28870637 original size:21 final size:21
Alignment explanation
Indices: 28870607--28870646 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
28870597 TAACAGGACC
*
28870607 GCTGATGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
28870628 GCTGACGTGGCCAGTTAAC
1 GCTGACGTGGCAAGTTAAC
28870647 CTGCCACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:28871808 original size:9 final size:9
Alignment explanation
Indices: 28871794--28871825 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
28871784 GTACAAGCGG
28871794 CTTCTTTTT
1 CTTCTTTTT
28871803 CTTCTTTTT
1 CTTCTTTTT
*
28871812 CTTCTTCTT
1 CTTCTTTTT
28871821 CTTCT
1 CTTCT
28871826 CTGTTAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
CTTCTTTTT
Found at i:28873461 original size:15 final size:15
Alignment explanation
Indices: 28873441--28873473 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
28873431 TATTACATGA
28873441 TTTGATTATT-ATAAT
1 TTTGATT-TTGATAAT
28873456 TTTGATTTTGATAAT
1 TTTGATTTTGATAAT
28873471 TTT
1 TTT
28873474 TTTAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTGATTTTGATAAT
Found at i:28874945 original size:2 final size:2
Alignment explanation
Indices: 28874933--28874975 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
28874923 ATAATAAAGT
*
28874933 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
28874975 A
1 A
28874976 ATAACAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28879405 original size:11 final size:9
Alignment explanation
Indices: 28879377--28879413 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
28879367 GACAATTTAG
28879377 GAAGAAAAA
1 GAAGAAAAA
28879386 GAAGAAAAA
1 GAAGAAAAA
28879395 GAATCGAAAAA
1 GAA--GAAAAA
28879406 GAAGAAAA
1 GAAGAAAA
28879414 CGTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.03
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:28879422 original size:29 final size:29
Alignment explanation
Indices: 28879377--28879437 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
28879367 GACAATTTAG
*
28879377 GAAGAAAAAGAAGAAAAAGAATCGAAAAA
1 GAAGAAAAAGAAGAAAAAGAAACGAAAAA
* * *
28879406 GAAGAAAACGTAA-AAAATGAAAGGAAAAA
1 GAAGAAAAAG-AAGAAAAAGAAACGAAAAA
28879435 GAA
1 GAA
28879438 AATAGAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.05
Consensus pattern (29 bp):
GAAGAAAAAGAAGAAAAAGAAACGAAAAA
Found at i:28883862 original size:27 final size:27
Alignment explanation
Indices: 28883814--28883972 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
28883804 GCGAGGCTGC
* *
28883814 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
28883841 CAGATATTGTGGAAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
28883867 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
28883894 CAGATAATTGAGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
28883921 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
28883948 CAGATAATTGTGGCATAACCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
28883973 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:28883973 original size:54 final size:54
Alignment explanation
Indices: 28883832--28883975 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
28883822 GTGACGAAGT
* * *
28883832 CACCAGATACAGAT-ATTGTGGAAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
28883886 CACCAGATCAGATAATTGAGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
28883940 CACCAGATCAGATAATTGTGGCATAACCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
28883976 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:28885624 original size:26 final size:26
Alignment explanation
Indices: 28885593--28885700 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
28885583 TGAAATGCCC
28885593 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
28885619 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
28885645 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
28885671 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
28885697 ATCA
1 ATCA
28885701 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:28886317 original size:34 final size:34
Alignment explanation
Indices: 28886279--28886387 Score: 80
Period size: 34 Copynumber: 3.1 Consensus size: 34
28886269 GACTCGTTGA
28886279 ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
1 ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
* * * ** *
28886313 ACTAGCGTTAGGCATAA-TA--ATTTGTTGACTCGTTCA
1 ACTAGTGCTAGGCACAACTATCATCGGTT-A-TC---CG
* *
28886349 ACTAGTGCTGGGCACAACTATCTTCGGTTATCCG
1 ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
28886383 ACTAG
1 ACTAG
28886388 CACTGGGAAC
Statistics
Matches: 53, Mismatches: 14, Indels: 16
0.64 0.17 0.19
Matches are distributed among these distances:
31 5 0.09
32 1 0.02
33 4 0.08
34 20 0.38
36 14 0.26
37 4 0.08
38 1 0.02
39 4 0.08
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (34 bp):
ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
Found at i:28886333 original size:70 final size:70
Alignment explanation
Indices: 28886217--28886504 Score: 344
Period size: 70 Copynumber: 4.1 Consensus size: 70
28886207 TAATTCTTGG
* * ****
28886217 TGGGCACAACTATCATCGGTTATCCGACTAGCGTTTGGTGTGATAATTTGTTGACTCGTTGAACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGCTGGGCACAATAATTTGTTGACTCGTTGAACT
28886282 AGTGC
66 AGTGC
* * * * *
28886287 TAGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGCATAATAATTTGTTGACTCGTTCAACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGCTGGGCACAATAATTTGTTGACTCGTTGAACT
28886352 AGTGC
66 AGTGC
* * * * *
28886357 TGGGCACAACTATCTTCGGTTATCCGACTAGCACTGGGAACAATAATTTGTCGACTTGTTCG-AC
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGCTGGGCACAATAATTTGTTGACTCGTT-GAAC
28886421 TAGTGC
65 TAGTGC
* * * * ** **
28886427 TGGGCACAACAATCATCGGTTATCTGACTAGAGCTGGGCGCAATAATTTGTTGACTTTTTTTACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGCTGGGCACAATAATTTGTTGACTCGTTGAACT
28886492 AGTGC
66 AGTGC
28886497 TGGGCACA
1 TGGGCACA
28886505 CAAATAATCT
Statistics
Matches: 190, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
70 190 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (70 bp):
TGGGCACAACTATCATCGGTTATCCGACTAGCGCTGGGCACAATAATTTGTTGACTCGTTGAACT
AGTGC
Found at i:28886394 original size:34 final size:33
Alignment explanation
Indices: 28886356--28886465 Score: 78
Period size: 34 Copynumber: 3.2 Consensus size: 33
28886346 TCAACTAGTG
28886356 CTGGGCACAACTATCTTCGGTTATCCGACTAGCA
1 CTGGGCACAACTATCTTCGGTTATCCGACTAG-A
* * * * * *
28886390 CTGGGAACAA-TAATTTGTCGACTTGTTCGACTAGTG
1 CTGGGCACAACT-ATCT-TCG-GTTATCCGACTAG-A
* * *
28886426 CTGGGCACAACAATCATCGGTTATCTGACTAGA
1 CTGGGCACAACTATCTTCGGTTATCCGACTAGA
28886459 GCTGGGC
1 -CTGGGC
28886466 GCAATAATTT
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
33 1 0.02
34 27 0.49
35 6 0.11
36 21 0.38
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (33 bp):
CTGGGCACAACTATCTTCGGTTATCCGACTAGA
Found at i:28886430 original size:36 final size:36
Alignment explanation
Indices: 28886323--28886504 Score: 106
Period size: 36 Copynumber: 5.2 Consensus size: 36
28886313 ACTAGCGTTA
* * * *
28886323 GGCATAATAATTTGTTGACTCGTTCAACTAGTGCTG
1 GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
* * * * **
28886359 GGCACAACT-ATCT-TCG-GTTATCCGACTAGCACTG
1 GGCACAA-TAATTTGTCGACTTGTTCGACTAGTGCTG
*
28886393 GGAACAATAATTTGTCGACTTGTTCGACTAGTGCTG
1 GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
* ** * * *
28886429 GGCACAACAA-TCATCG-GTT-ATCTGACTAGAGCTG
1 GGCACAATAATTTGTCGACTTGTTC-GACTAGTGCTG
* * * **
28886463 GGCGCAATAATTTGTTGACTTTTTTTACTAGTGCTG
1 GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
28886499 GGCACA
1 GGCACA
28886505 CAAATAATCT
Statistics
Matches: 103, Mismatches: 35, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
33 3 0.03
34 40 0.39
35 12 0.12
36 46 0.45
37 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (36 bp):
GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
Found at i:28902614 original size:33 final size:33
Alignment explanation
Indices: 28902571--28902741 Score: 184
Period size: 33 Copynumber: 5.2 Consensus size: 33
28902561 GTGTACGTTT
* **
28902571 CTTTCCAAATGGTACACACAAAGTATACCTTTC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
* **
28902604 CTTTTCAAATGGTATACACAAAGTATACCTTTC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
*
28902637 CTTTTCAAATGGTATACACAAAGTATACCTAAC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
* * * ** *
28902670 ATTTCCAAGT-GTACACACAAAGTGCACATAAC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
* * *
28902702 CTTTTCAAGT-GTACACACAAAGTGTACATAAC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
28902734 CTTTTCAA
1 CTTTTCAA
28902742 GTGTACCATT
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 55 0.44
33 69 0.56
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTTTTCAAATGGTACACACAAAGTATACCTAAC
Found at i:28902711 original size:32 final size:32
Alignment explanation
Indices: 28902582--28902747 Score: 161
Period size: 32 Copynumber: 5.1 Consensus size: 32
28902572 TTTCCAAATG
* * ** *
28902582 GTACACACAAAGTATACCTTTCCTTTTCAAAT
1 GTACACACAAAGTGTACATAACCTTTTCAAGT
* * * ** *
28902614 GGTATACACAAAGTATACCTTTCCTTTTCAAAT
1 -GTACACACAAAGTGTACATAACCTTTTCAAGT
* * * * *
28902647 GGTATACACAAAGTATACCTAACATTTCCAAGT
1 -GTACACACAAAGTGTACATAACCTTTTCAAGT
*
28902680 GTACACACAAAGTGCACATAACCTTTTCAAGT
1 GTACACACAAAGTGTACATAACCTTTTCAAGT
28902712 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTGTACATAACCTTTTCAAGT
28902744 GTAC
1 GTAC
28902748 CATTTGGGTA
Statistics
Matches: 120, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
32 61 0.51
33 59 0.49
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (32 bp):
GTACACACAAAGTGTACATAACCTTTTCAAGT
Found at i:28914114 original size:17 final size:17
Alignment explanation
Indices: 28914075--28914121 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
28914065 TTCACCCCCA
* *
28914075 TCCTTTCTTTTCCACTTT
1 TCCTTTCTATT-CTCTTT
*
28914093 T-CTTTCTCTTCTCTTT
1 TCCTTTCTATTCTCTTT
28914109 TCCTTTCTATTCT
1 TCCTTTCTATTCT
28914122 ATTCTTCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (17 bp):
TCCTTTCTATTCTCTTT
Found at i:28920393 original size:17 final size:17
Alignment explanation
Indices: 28920368--28920403 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
28920358 TAGAATTGGG
* *
28920368 TTGAGAAAATTATTTAA
1 TTGACAAAATTAATTAA
28920385 TTGACAAAATTAATTAA
1 TTGACAAAATTAATTAA
28920402 TT
1 TT
28920404 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (17 bp):
TTGACAAAATTAATTAA
Found at i:28926786 original size:40 final size:40
Alignment explanation
Indices: 28926731--28926902 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
28926721 ACGCTTGGAC
* * * * *
28926731 AAAAAACGCCGCTATAGATTGAGTATTAGTGATGCTTTCT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
* * *
28926771 AAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
* *
28926811 GAAAAACGCCGCTATAGATCGAGCACTAGCGGTGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
* * * * *
28926851 CAAAAACACTGCTATAGATCGAGCTTTAGCGGTGCTTTGT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
*
28926891 AAAAAAAGCCGC
1 AAAAAACGCCGC
28926903 AAAAACATTT
Statistics
Matches: 109, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
Found at i:28927372 original size:15 final size:14
Alignment explanation
Indices: 28927335--28927373 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
28927325 GTAGTTAGGA
*
28927335 GTTAGGGGTTAAGG
1 GTTAGGGTTTAAGG
28927349 GTTATGGGTTTAAGG
1 GTTA-GGGTTTAAGG
28927364 GTTTAGGGTT
1 G-TTAGGGTT
28927374 ATATTTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
GTTAGGGTTTAAGG
Found at i:28932427 original size:69 final size:69
Alignment explanation
Indices: 28932354--28932499 Score: 168
Period size: 69 Copynumber: 2.1 Consensus size: 69
28932344 TTGTGAACCC
* * * * *
28932354 TAAAATGAT-GATTAAGAGCTTTTAACTCTCACTAATTGTTTGGGGCTACAGTGTTTAACCTGCA
1 TAAAATGATAG-TTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTACAGTGCTTAACCTGCA
28932418 AGCCA
65 AGCCA
* * * * ** *
28932423 TAAAATTATAGTTGATAGCTTTTAACTATCGCTAACTATTTGAGGCTGTAGTGCTTAACCTGCGA
1 TAAAATGATAGTTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTACAGTGCTTAACCTGCAA
28932488 GCCA
66 GCCA
28932492 TAAAATGA
1 TAAAATGA
28932500 CACTCGCTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
69 62 0.98
70 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (69 bp):
TAAAATGATAGTTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTACAGTGCTTAACCTGCAA
GCCA
Found at i:28932564 original size:121 final size:121
Alignment explanation
Indices: 28932385--28932622 Score: 291
Period size: 121 Copynumber: 2.0 Consensus size: 121
28932375 TTAACTCTCA
* * * *
28932385 CTAATTGTTTGGGGCTACAGTGTTTAACCTGCAAGCCATAAAATTATAGTTGATAGCTTTTAACT
1 CTAATTGTTTAGGGCTACACTGTTTAACCTGCAAGCCATAAAATTACAGTTGAGAGCTTTTAACT
* * * *
28932450 ATCGCTAACTATTTGAGGCTGTAGTGCTT-AACCTGCGAGCCATAAAATGACACTCG
66 ATCACTAACTATTTAAGGCTGCAGTG-TTCAACCTACGAGCCATAAAATGACACTCG
* * * *
28932506 CTAATTGTTTAGGGTTGCACTGTTTAACTTGCAAGTCATAAAATTACAGCTTG-GAGCTTTTAAC
1 CTAATTGTTTAGGGCTACACTGTTTAACCTGCAAGCCATAAAATTACAG-TTGAGAGCTTTTAAC
* * * * *
28932570 TCTCACTAATTATTTAAGGTTGCCGTGTTCAACCTACGAGTCATAAAATGACA
65 TATCACTAACTATTTAAGGCTGCAGTGTTCAACCTACGAGCCATAAAATGACA
28932623 GCTAGGAGCT
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
120 2 0.02
121 93 0.95
122 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (121 bp):
CTAATTGTTTAGGGCTACACTGTTTAACCTGCAAGCCATAAAATTACAGTTGAGAGCTTTTAACT
ATCACTAACTATTTAAGGCTGCAGTGTTCAACCTACGAGCCATAAAATGACACTCG
Found at i:28932624 original size:69 final size:69
Alignment explanation
Indices: 28932506--28932791 Score: 308
Period size: 69 Copynumber: 4.1 Consensus size: 69
28932496 ATGACACTCG
* * * *
28932506 CTAATTGTTTAGGGTTGCAC-TGTTTAACTTGCAAGTCATAAAATTACAGCTTGGAGCTTTTAAC
1 CTAATTGTTTAGGGTTGC-CGTGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAAC
28932570 TCTCA
65 TCTCA
* * * * * *
28932575 CTAATTATTTAAGGTTGCCGTGTTCAACCTACGAGTCATAAAATGACAGCTAGGAGCTTTTAACT
1 CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAACT
28932640 CTCA
66 CTCA
* * * * * *
28932644 CTAATTGTTTGGGGCTGCGGTGTTTAACCTGCAAGCCATGAAATGACAG-TTGAGAGTTTTTAAC
1 CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTTG-GAGCTTTTAAC
*
28932708 TATCA
65 TCTCA
* ** * *
28932713 CAAATTGTTTAGGGTTG-CGATGTTTAACCTTTAAGCCATAAAATGATAGCTTAGAGCTTTTAAC
1 CTAATTGTTTAGGGTTGCCG-TGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAAC
*
28932777 TCTCG
65 TCTCA
*
28932782 CTAACTGTTT
1 CTAATTGTTT
28932792 TGTTTTTTAA
Statistics
Matches: 178, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
68 4 0.02
69 172 0.97
70 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (69 bp):
CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAACT
CTCA
Found at i:28934820 original size:41 final size:40
Alignment explanation
Indices: 28934775--28934864 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
28934765 AAACAGGTTT
* *
28934775 TTAGCGGCGTTTGAACGAAAAACGCCACTATAGATCGAGCA
1 TTAGCGGCGTTT-AACGAAAAACGCCACTAAAGAACGAGCA
** **
28934816 TTAGCGGCGTTTTTCTTAAAACGCCACTAAAGAACGAGCA
1 TTAGCGGCGTTTAACGAAAAACGCCACTAAAGAACGAGCA
28934856 TTAGCGGCG
1 TTAGCGGCG
28934865 CTTTTTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 31 0.72
41 12 0.28
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTAACGAAAAACGCCACTAAAGAACGAGCA
Found at i:28934844 original size:40 final size:41
Alignment explanation
Indices: 28934793--28934870 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
28934783 GTTTGAACGA
* *
28934793 AAAACGCCACTATAGATCGAGCATTAGCGGCG-TTTTTCTT
1 AAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTCTT
28934833 AAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTT
1 AAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTT
28934871 AAAAAACGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 30 0.86
41 5 0.14
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
AAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTCTT
Found at i:28934877 original size:40 final size:40
Alignment explanation
Indices: 28934792--28934880 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
28934782 CGTTTGAACG
* * *
28934792 AAAAACGCCACTATAGATCGAGCATTAGCGGCGTTTTTCT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGTTTTTCA
*
28934832 TAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTT-A
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCG-TTTTTCA
28934872 AAAAACGCC
1 AAAAACGCC
28934881 GTTATAGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.88
41 5 0.12
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCGGCGTTTTTCA
Found at i:28935183 original size:39 final size:39
Alignment explanation
Indices: 28935089--28935188 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 39
28935079 TTTAGTGGCT
* * *
28935089 TTTAGTGGCGCTTTTTAAAAAATGCCGCTATAAATTCACC
1 TTTAGCGGCG-TTTTTAAAAAACGCCGCTATAAACTCACC
* *
28935129 TTTAGCTGTGC-TTTTTAAAAAACGCCGCTA-ATACTCAATC
1 TTTAGC-G-GCGTTTTTAAAAAACGCCGCTATAAACTC-ACC
28935169 TTTAGCGGCGTTTTTAAAAA
1 TTTAGCGGCGTTTTTAAAAA
28935189 CTCCACAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 2 0.04
39 15 0.29
40 31 0.61
41 1 0.02
42 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (39 bp):
TTTAGCGGCGTTTTTAAAAAACGCCGCTATAAACTCACC
Found at i:28939308 original size:22 final size:22
Alignment explanation
Indices: 28939281--28939324 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
28939271 GATTAATATT
*
28939281 TTATATTTAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
28939303 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
28939325 AAAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:28940586 original size:43 final size:43
Alignment explanation
Indices: 28940504--28940694 Score: 222
Period size: 43 Copynumber: 4.4 Consensus size: 43
28940494 TAAAAATTTT
* ** * *
28940504 ATGACCTTTAGCGGCGTTTTTAAGAGAAGCA-TTGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAG-AGCTGCTAAAGGTC
* * * *
28940547 ATGATCTTTAGCGGTGTTTGTGGGAAAAGTGCTGTTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGAGCTGCTAAAGGTC
* *
28940590 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGAGCTGCTAAAGGTC
** * *
28940633 ATGACCTTTAGCAACATTTGTGGGAAAAGAGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGAGCTGCTAAAGGTC
*
28940676 ATGACCTTTAACGGCGTTT
1 ATGACCTTTAGCGGCGTTT
28940695 CCTATAGCGG
Statistics
Matches: 123, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAGAGCTGCTAAAGGTC
Found at i:28940604 original size:86 final size:86
Alignment explanation
Indices: 28940504--28940694 Score: 256
Period size: 86 Copynumber: 2.2 Consensus size: 86
28940494 TAAAAATTTT
* * * ****
28940504 ATGACCTTTAGCGGCGTTTTTAAGAGAAGCATTGCTAAAGGTCATGATCTTTAGCGGTGTTTGTG
1 ATGACCTTTAGCGGCGTTTGTAAGAAAAGCATTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
* * *
28940569 GGAAAAGTGCTGTTAAAGGTC
66 GGAAAAGAGCCGCTAAAGGTC
** *
28940590 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
1 ATGACCTTTAGCGGCGTTTGTAAGAAAAGCATTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
28940655 GGAAAAGAGCCGCTAAAGGTC
66 GGAAAAGAGCCGCTAAAGGTC
*
28940676 ATGACCTTTAACGGCGTTT
1 ATGACCTTTAGCGGCGTTT
28940695 CCTATAGCGG
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 91 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (86 bp):
ATGACCTTTAGCGGCGTTTGTAAGAAAAGCATTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
GGAAAAGAGCCGCTAAAGGTC
Found at i:28964191 original size:29 final size:29
Alignment explanation
Indices: 28964150--28964207 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
28964140 AAAGATATCC
28964150 TCCTCGAGGGATTGAAGCTTTATTATTGA
1 TCCTCGAGGGATTGAAGCTTTATTATTGA
28964179 TCCTCGAGGGATTGAAGCTTTATTATTGA
1 TCCTCGAGGGATTGAAGCTTTATTATTGA
28964208 AGGACTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (29 bp):
TCCTCGAGGGATTGAAGCTTTATTATTGA
Found at i:28965399 original size:5 final size:6
Alignment explanation
Indices: 28965382--28965406 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
28965372 AAGCTAGAAG
28965382 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
28965407 AGGTAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:28980975 original size:18 final size:19
Alignment explanation
Indices: 28980949--28980987 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
28980939 TTATATGTAT
28980949 TGACAATTTTTG-AAAGCA
1 TGACAATTTTTGTAAAGCA
*
28980967 TGACTATTTTTGTAAAGCA
1 TGACAATTTTTGTAAAGCA
28980986 TG
1 TG
28980988 TTTGACATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (19 bp):
TGACAATTTTTGTAAAGCA
Found at i:28984179 original size:42 final size:42
Alignment explanation
Indices: 28984120--28984260 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 42
28984110 AATACTCAAT
*
28984120 ATCTCGCACACTAAGTGCCAAAGCAT-GACTGAAGCTAT-TATA
1 ATCTCGCACACTAAGTGCCAAAGCATAG-CTGAAGCTATCT-CA
***
28984162 ATCTCGCACACTAAGTGCC-TTTCATAGCTGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATCTCA
* * * *
28984203 GTCTCGCACACTAAGTGCCATA-TATAGCTGAAGCTAT-TCCG
1 ATCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATCT-CA
*
28984244 AT-TCGTACACTAAGTGC
1 ATCTCGCACACTAAGTGC
28984261 TTTATATAGC
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
40 15 0.18
41 48 0.56
42 22 0.26
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATCTCA
Found at i:28984325 original size:40 final size:40
Alignment explanation
Indices: 28984165--28984340 Score: 187
Period size: 40 Copynumber: 4.4 Consensus size: 40
28984155 TATTATAATC
* *
28984165 TCGCACACTAAGTGCCTTT-CATAGCTGAAGCTATCTC-AGT
1 TCGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCGA-T
** *
28984205 CTCGCACACTAAGTGCCATATATAGCTGAAGCTAT-TCCGAT
1 -TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCT-CGAT
* *
28984246 TCGTACACTAAGTGCTTTATATAGCCGAAGCTATTTCGAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAT
* *
28984286 TTGCACACTAAGTGCTTTATATAGCCAAAGCTATCTCGAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAT
* * *
28984326 ACGCAAATTAAGTGC
1 TCGCACACTAAGTGC
28984341 CAAACATAAC
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
40 84 0.72
41 31 0.27
42 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (40 bp):
TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAT
Found at i:28985895 original size:14 final size:14
Alignment explanation
Indices: 28985876--28985916 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
28985866 AAAGAAAGAA
28985876 AAACAAATAGAAAG
1 AAACAAATAGAAAG
*
28985890 AAACAAA-AGCAA-
1 AAACAAATAGAAAG
28985902 AAACGAAATAGAAAG
1 AAAC-AAATAGAAAG
28985917 GGAAAGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.18
13 7 0.32
14 11 0.50
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.05
Consensus pattern (14 bp):
AAACAAATAGAAAG
Found at i:28986872 original size:41 final size:40
Alignment explanation
Indices: 28986828--28986962 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
28986818 GACTTCGAGT
*
28986828 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGATTAATC
* * * *
28986869 CGATAAGACATTGGGTGCCAA-T-TTACTTCGGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAATC
* * *
28986906 CGATGAGACACTGGGCGTCAATCTATTACTTTGAATT-ATC
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGATTAATC
* *
28986946 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
28986963 CCAAATTGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 17 0.23
38 13 0.17
39 3 0.04
40 24 0.32
41 18 0.24
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAATC
Found at i:28990179 original size:46 final size:46
Alignment explanation
Indices: 28990112--28990384 Score: 370
Period size: 46 Copynumber: 5.9 Consensus size: 46
28990102 GTGTGCTCTG
** *
28990112 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
**
28990158 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
28990204 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
* *
28990250 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
* * * *
28990296 TGACT-GGAAATGAATAAGACCATGGTTGAAAGATACCATGACAGCG
1 TGA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * *
28990342 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
28990385 TCATGTCAAA
Statistics
Matches: 208, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.00
46 206 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:29003156 original size:16 final size:17
Alignment explanation
Indices: 29003137--29003170 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
29003127 CTTCGAGAAG
29003137 CTCAAGCT-TGTTCTGA
1 CTCAAGCTCTGTTCTGA
29003153 CTCAAGCTCCTGTTCTGA
1 CTCAAGCT-CTGTTCTGA
29003171 TGCAGCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (17 bp):
CTCAAGCTCTGTTCTGA
Found at i:29005089 original size:30 final size:30
Alignment explanation
Indices: 29005054--29005110 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
29005044 TTTTAGGGGG
*
29005054 TAGAGTTATAACTCCCTGAATAATTTAGGT
1 TAGAGTTATAACACCCTGAATAATTTAGGT
29005084 TAGAGTTATAACACCCTGAATAATTTA
1 TAGAGTTATAACACCCTGAATAATTTA
29005111 TTCCTATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (30 bp):
TAGAGTTATAACACCCTGAATAATTTAGGT
Found at i:29006644 original size:12 final size:12
Alignment explanation
Indices: 29006623--29006656 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29006613 TATATATTTT
*
29006623 AAAATTATATAA
1 AAAATAATATAA
29006635 AAAATAATATAA
1 AAAATAATATAA
*
29006647 AAATTAATAT
1 AAAATAATAT
29006657 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:29008106 original size:21 final size:23
Alignment explanation
Indices: 29008082--29008124 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
29008072 ATAAATATTT
29008082 TATT-AATTAA-ATAAGATTTAA
1 TATTAAATTAATATAAGATTTAA
*
29008103 TATTAAATTAATATAATATTTA
1 TATTAAATTAATATAAGATTTA
29008125 TCAAGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAATTAATATAAGATTTAA
Found at i:29009537 original size:100 final size:100
Alignment explanation
Indices: 29009364--29009563 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
29009354 ATACTCATTT
29009364 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
1 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
29009429 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
66 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
*
29009464 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGTTGCAAAA
1 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
29009529 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
66 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
29009564 TCTAAAGCAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (100 bp):
AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
Found at i:29021290 original size:20 final size:20
Alignment explanation
Indices: 29021265--29021304 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29021255 ACTTTAAAAT
29021265 CAAGTTAAAATAATTTTAAC
1 CAAGTTAAAATAATTTTAAC
*
29021285 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATAATTTTAAC
29021305 GAATCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAATAATTTTAAC
Found at i:29023662 original size:27 final size:27
Alignment explanation
Indices: 29023614--29023665 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
29023604 AATAATGACA
* *
29023614 ATATTAATAATGAAAAATAATAATAAT
1 ATATTAATAATAAAAAAAAATAATAAT
29023641 ATATTAATAA-AAATAAAAAATAATA
1 ATATTAATAATAAA-AAAAAATAATA
29023666 CGTTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
ATATTAATAATAAAAAAAAATAATAAT
Found at i:29023675 original size:27 final size:25
Alignment explanation
Indices: 29023613--29023677 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
29023603 AAATAATGAC
*
29023613 AATATTAATAATGAAAAATAATAAT
1 AATATTAATAATGAAAAATAAAAAT
*
29023638 AATA-TATTAAT-AAAAATAAAAAAT
1 AATATTAATAATGAAAAAT-AAAAAT
29023662 AATACGTTAATAATGA
1 AATA--TTAATAATGA
29023678 TATTAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 4 0.12
27 6 0.19
28 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (25 bp):
AATATTAATAATGAAAAATAAAAAT
Found at i:29023739 original size:3 final size:3
Alignment explanation
Indices: 29023733--29024129 Score: 65
Period size: 3 Copynumber: 131.7 Consensus size: 3
29023723 AGTATGTAGG
* * * *
29023733 TAA TAA TAA TAA -AA TAA TAA TAG TAA TAA TAA TAG TAG TAA -ATG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* *
29023777 TAA AAA T-A TATA TATA TAA GGTAA TGAA -AA TAA TACA GAA TTAA TTAA
1 TAA TAA TAA TA-A TA-A TAA --TAA T-AA TAA TAA TA-A TAA -TAA -TAA
* * * ** *
29023825 T-T TAA TAA T-A TGA TAA TAA TAG TAA TAA TAA -AA TAA TGC TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * ** *
29023870 TAA TCA TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CGA CAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
29023915 CAA -AA TAGA -AGA TAA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA
1 TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
** * * * * * *
29023959 T-A TGC TAA TAA TAA AAA TAA AAA TAA AAA GTTAA TAA TGA TAG TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA
* * * * * * * *
29024005 TGA TAG TAC TGA T-A TGAA -AA AAA TAG TAA TGA TAA T-A TAT TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
29024048 TAA TAA TAG TAGA AAA TAA TAA TAAA TAA TAA TAA TGA CAG TTA TAA
1 TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* *
29024095 TGAA -CA TAA TAA TAC TAA TAA TAAA TAA T-A TAA TA
1 T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
29024130 GTAAATACAA
Statistics
Matches: 278, Mismatches: 81, Indels: 70
0.65 0.19 0.16
Matches are distributed among these distances:
2 29 0.10
3 212 0.76
4 32 0.12
5 5 0.02
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:29024067 original size:13 final size:13
Alignment explanation
Indices: 29024036--29024083 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
29024026 AATAGTAATG
*
29024036 ATAATATATTAATA
1 ATAATA-ATAAATA
*
29024050 ATAATAGTAGAA-A
1 ATAATAATA-AATA
29024063 ATAATAATAAATA
1 ATAATAATAAATA
29024076 ATAATAAT
1 ATAATAAT
29024084 GACAGTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 2 0.07
13 19 0.66
14 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:29024128 original size:15 final size:16
Alignment explanation
Indices: 29024102--29024136 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
29024092 TAATGAACAT
29024102 AATAATACTAATAATA
1 AATAATACTAATAATA
*
29024118 AATAATA-TAATAGTA
1 AATAATACTAATAATA
29024133 AATA
1 AATA
29024137 CAAAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATACTAATAATA
Found at i:29024806 original size:22 final size:22
Alignment explanation
Indices: 29024760--29024806 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
29024750 GTTTATTACT
* *
29024760 AAAATATATAAAAAAAATAGTA
1 AAAATATATAAAAAAAAGAGCA
29024782 AAAATATA-AATAAAAAAGAGCA
1 AAAATATATAA-AAAAAAGAGCA
29024804 AAA
1 AAA
29024807 TGGAACACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (22 bp):
AAAATATATAAAAAAAAGAGCA
Found at i:29025728 original size:44 final size:43
Alignment explanation
Indices: 29025680--29026128 Score: 164
Period size: 44 Copynumber: 10.2 Consensus size: 43
29025670 TACCTTGGGA
29025680 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCA-CGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * *
29025724 AGATATGATCTGCA-ATTTTCAGCCTGCTCCACTGCTTCTCAAGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
29025768 AGATAAGACTAATGGCTTAAATTTGCTTCCCCACTAC--CTT-GGG
1 AGATAAGATTCACGTCTTCAATCTGC-T--CCACTACTGCTTAGGG
* *
29025811 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTC-ACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
29025856 AGATATGATCTGCA-ATCTTCAACCTGCTCCACTGCTGCTCAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
29025900 AGGTAAAATT-A-GTGGCTTAAATCTGCTTCTCTACTACCTCAGGA
1 AGATAAGATTCACGT--CTTCAATCTGCTCCACTACT-GCTTAGGG
* * * * *
29025944 AGATAAGATTCACCATCTTCGATCCGCTCCACCATTGCTTAGGG
1 AGATAAGATTCA-CGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * **
29025988 AGATAAGATCTGTA-ATCTTCAGTCTGCTCCACTGTTGCTTAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * * *
29026032 AGATAAGGCT-A-GTGGCTTAAATCTGCTTCC-CCACTACCTCGGAA
1 AGATAAGATTCACGT--CTTCAATCTGC-TCCACTACTGCTTAGG-G
** * *
29026076 AGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGG
1 AGATAAGA-TTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
29026120 AGATAAGAT
1 AGATAAGAT
29026129 CTGTGAATTC
Statistics
Matches: 286, Mismatches: 90, Indels: 59
0.66 0.21 0.14
Matches are distributed among these distances:
41 4 0.01
42 8 0.03
43 42 0.15
44 173 0.60
45 46 0.16
46 10 0.03
47 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
AGATAAGATTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:29026132 original size:132 final size:132
Alignment explanation
Indices: 29025548--29026132 Score: 706
Period size: 132 Copynumber: 4.4 Consensus size: 132
29025538 TGCTTCATGG
* * * * * *
29025548 AGATAAGATTCGCCATCTTTGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTATAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
* * * * * * * * *
29025613 GCTTGC-CCTACTGCTACTTAGGGAGATAAAGCTAGTGACTTAAATCTAC-GCCCCTGCTACCTT
66 GCCTGCTCC-ACTGCTGCTCAGGGAGATAAAACTAGTGGCTTAAATCTGCTTCCCC-ACTACCTC
29025676 GGGA
129 GGGA
* * * * *
29025680 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATTTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
* * * * * *
29025745 GCCTGCTCCACTGCTTCTCAAGGAGATAAGACTAATGGCTTAAATTTGCTTCCCCACTACCTTGG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAACTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
29025810 GA
131 GA
* *
29025812 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
* * * * * *
29025877 ACCTGCTCCACTGCTGCTCAGGGAGGTAAAATTAGTGGCTTAAATCTGCTTCTCTACTACCTCAG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAACTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
29025942 GA
131 GA
* * * * *
29025944 AGATAAGATTCACCATCTTCGATCCGCTCCACCATTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
* * * **
29026009 GTCTGCTCCACTGTTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAACTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
*
29026074 AA
131 GA
* * *
29026076 AGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
29026133 GAATTCACCG
Statistics
Matches: 386, Mismatches: 65, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
132 380 0.98
133 6 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
GCCTGCTCCACTGCTGCTCAGGGAGATAAAACTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
GA
Found at i:29034003 original size:23 final size:23
Alignment explanation
Indices: 29033977--29034021 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
29033967 TGGGTATGTG
*
29033977 ATGACTTTATCTT-ATAAATATGC
1 ATGAATTTATCTTGA-AAATATGC
29034000 ATGAATTTATCTTGAAAATATG
1 ATGAATTTATCTTGAAAATATG
29034022 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAATTTATCTTGAAAATATGC
Found at i:29037994 original size:15 final size:15
Alignment explanation
Indices: 29037965--29037994 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29037955 TTCTACTATA
29037965 ATTATATTTCTATTT
1 ATTATATTTCTATTT
*
29037980 ATTATATTTTTATTT
1 ATTATATTTCTATTT
29037995 CTATTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTATATTTCTATTT
Found at i:29038193 original size:25 final size:24
Alignment explanation
Indices: 29038132--29038193 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
29038122 TATAATGCTC
* *
29038132 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATGT
*
29038156 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTCATACATTATGT
29038181 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
29038194 TTCCACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATGT
Found at i:29046301 original size:46 final size:46
Alignment explanation
Indices: 29046251--29046423 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
29046241 TGGTTGAGCA
29046251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
29046297 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
29046342 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
29046390 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29046424 GGGGCAGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29046407 original size:93 final size:93
Alignment explanation
Indices: 29046248--29046418 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
29046238 GGATGGTTGA
* *
29046248 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29046313 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
29046341 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29046406 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29046419 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:29049391 original size:15 final size:15
Alignment explanation
Indices: 29049371--29049420 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
29049361 GTATCTTGGG
*
29049371 TTTCTTTATTCTGGA
1 TTTCTTTACTCTGGA
29049386 TTTCTTTACTCTGGA
1 TTTCTTTACTCTGGA
29049401 TTTCTTTACTCTGGA
1 TTTCTTTACTCTGGA
29049416 TTTCT
1 TTTCT
29049421 CTATTCGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTACTCTGGA
Found at i:29051843 original size:46 final size:46
Alignment explanation
Indices: 29051793--29051964 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
29051783 TGGTTGAGCA
29051793 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
29051839 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
29051883 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
29051931 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29051965 GGGGCGGTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 7 0.07
46 74 0.70
47 7 0.07
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29051947 original size:92 final size:93
Alignment explanation
Indices: 29051790--29051959 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
29051780 GGATGGTTGA
* *
29051790 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29051855 TGAGT-CGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
29051882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29051947 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29051960 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:29053585 original size:178 final size:178
Alignment explanation
Indices: 29053279--29053995 Score: 1076
Period size: 178 Copynumber: 4.0 Consensus size: 178
29053269 GGGGCATTAC
* * *
29053279 AAGCAGACTGAAAATTACAGATCTTATCTCTATATATCGGCTATAGAGCAGATCGAAAATGGCGA
1 AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGA
* *
29053344 GTCTTATCTCCATGTCTCGATTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
66 GTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
* * *
29053409 AAGAGAGCAAGTTGAAGATACAGGTATTATCTTCCTGAGGTAGCAAGG
131 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGG
* *
29053457 AAGTAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AGAAATGGCG
1 AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA-AAATGGCG
* * * **
29053521 AGTCTTATCCCCATGTATCGGCTATAGAGCAGATTTTAGCCATTAGCCTTATCTCTCTGAGGTAG
65 AGTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG
* *
29053586 CAAGAAAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAGGTAGCAAGG
130 CAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGG
* *
29053635 AAGCAGACTGAAAATTACAGATTTTATCTCTATGTATCGGCTATGGAGCAGATCGAAAATGGCGA
1 AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGA
* * *
29053700 GTCTTATCTCCATGTATCGGTTATGGAGTAGATTTTAGCCACTAGCTTTATCTCTCTGAGGTAGC
66 GTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
* ** * *
29053765 AAGAGAGTAGGTTGAAGATACAAGTCTTATCTTTTTAAGGTACCAAGG
131 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGG
* * * * * *
29053813 AAGCAGACTGAAAATTACAGATTTTATATCCATGTATAGGCTATGGAGTAGATCAAAAATGGCAA
1 AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGA
* * * *
29053878 GTCTTATCTCCATGTATCGGTAATGGAGCAAATTTTAGCCACCGGCCTTATATCTCTGAGGTAGC
66 GTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
*
29053943 AAGAGAGCAGGTCGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGG
131 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGG
29053991 AAGCA
1 AAGCA
29053996 AATTAAACAT
Statistics
Matches: 486, Mismatches: 51, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
177 1 0.00
178 484 1.00
179 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (178 bp):
AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGA
GTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGG
Found at i:29054059 original size:44 final size:44
Alignment explanation
Indices: 29054011--29054460 Score: 136
Period size: 44 Copynumber: 10.5 Consensus size: 44
29054001 AACATTTCAA
* *
29054011 ATCTTAACCCCCTAAGCAGTAG-GGTAACAGGTTAAAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGCGG-AACAGGTTAAAAATTACAG
** * * ***
29054055 ATCTTATCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGTA-AG
1 ATCTTATCTCCCTAAGCAGTAGCGGAACAGGT-TAA-AAATTACAG
* * * * **
29054100 -CCTTAACCCCCTAAGCAATAG-GGTAACAGGTTGCAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGCGG-AACAGGTTAAAAATTACAG
* * *
29054143 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-G------ATCGA-AG
1 ATCTTATCTCCCTAAGCAGTAGCGGAACAGGTTAAAAAT-TACAG
* * * * * *
29054180 A----A-CTCCCTAAGCAGAAGGGTAATAGGCTAGAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGCGGAACAGGTTAAAAATTACAG
* * * *
29054219 ATCTTATCTCTCTAAGCAGTAGCGGAATAGATCAAAAATGGTA-AG
1 ATCTTATCTCCCTAAGCAGTAGCGGAACAGGTTAAAAAT--TACAG
* * * * **
29054264 -CCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTGGAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGCGG-AACAGGTTAAAAATTACAG
* * ** *** *
29054307 ATCTTATCTCCCTAAGTAATAGCGGAACAAATTGAAGACGGT-GAG
1 ATCTTATCTCCCTAAGCAGTAGCGGAACAGGTT-AA-AAATTACAG
* * * * * **
29054352 -CCTTAACCCCCTAAGAAGTAG-GGTAACAGGCTGGAAATTACAG
1 ATCTTATCTCCCTAAGCAGTAGCGG-AACAGGTTAAAAATTACAG
* * * ** * *
29054395 ATCTTATCACCCTAAGCAGTAGTGGAGCAGACTGAAGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGCGGAACAGGTTAAAAATTACAG
29054439 ATCTTATCTCCCTAAGCAGTAG
1 ATCTTATCTCCCTAAGCAGTAG
29054461 TGGAGCAAAT
Statistics
Matches: 284, Mismatches: 89, Indels: 66
0.65 0.20 0.15
Matches are distributed among these distances:
32 17 0.06
33 2 0.01
37 5 0.02
38 2 0.01
39 5 0.02
42 7 0.02
43 14 0.05
44 209 0.74
45 16 0.06
46 7 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGCGGAACAGGTTAAAAATTACAG
Found at i:29054115 original size:88 final size:88
Alignment explanation
Indices: 29054013--29054180 Score: 291
Period size: 88 Copynumber: 1.9 Consensus size: 88
29054003 CATTTCAAAT
*
29054013 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
1 CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
*
29054078 GGAGTAGATCGAAGACGGTAAGC
66 GGAGCAGATCGAAGACGGTAAGC
** *
29054101 CTTAACCCCCTAAGCAATAGGGTAACAGGTTGCAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
29054166 GGAGCAGATCGAAGA
66 GGAGCAGATCGAAGA
29054181 ACTCCCTAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (88 bp):
CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
GGAGCAGATCGAAGACGGTAAGC
Found at i:29054251 original size:76 final size:76
Alignment explanation
Indices: 29054108--29054251 Score: 202
Period size: 76 Copynumber: 1.9 Consensus size: 76
29054098 AGCCTTAACC
* * *
29054108 CCCTAAGCAATAGGGTAACAGGTTGCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 CCCTAAGCAATAGGGTAACAGGTAGCAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
29054173 ATCGAAGAACT
66 ATCGAAGAACT
* * *
29054184 CCCTAAGCAGA-AGGGTAATAGGCTAG-AAATTACAGATCTTATCTCTCTAAGCAGTAGCGGAAT
1 CCCTAAGCA-ATAGGGTAACAGG-TAGCAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAAC
29054247 AGATC
64 AGATC
29054252 AAAAATGGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
76 57 0.95
77 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (76 bp):
CCCTAAGCAATAGGGTAACAGGTAGCAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
ATCGAAGAACT
Found at i:29054291 original size:164 final size:164
Alignment explanation
Indices: 29054020--29054322 Score: 498
Period size: 164 Copynumber: 1.8 Consensus size: 164
29054010 AATCTTAACC
* * *
29054020 CCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGTAG
1 CCCTAAGCAGAAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAATAG
* * *
29054085 ATCGAAGACGGTAAGCCTTAACCCCCTAAGCAATAGGGTAACAGGTTGCAAATTACAGATCTTAT
66 ATCAAAAACGGTAAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGCAAATTACAGATCTTAT
29054150 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGAACT
131 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGAACT
* * *
29054184 CCCTAAGCAGAAGGGTAATAGGCTAGAAATTACAGATCTTATCTCTCTAAGCAGTAGCGGAATAG
1 CCCTAAGCAGAAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAATAG
* * *
29054249 ATCAAAAATGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTAT
66 ATCAAAAACGGTAAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGCAAATTACAGATCTTAT
29054314 CTCCCTAAG
131 CTCCCTAAG
29054323 TAATAGCGGA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
164 127 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (164 bp):
CCCTAAGCAGAAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAATAG
ATCAAAAACGGTAAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGCAAATTACAGATCTTAT
CTCCCTAAGCAGTAGTGGAGCAGATCGAAGAACT
Found at i:29054431 original size:88 final size:87
Alignment explanation
Indices: 29054184--29054432 Score: 327
Period size: 88 Copynumber: 2.8 Consensus size: 87
29054174 TCGAAGAACT
* * * * *
29054184 CCCTAAGCAGAAGGGTAATAGGCTAGAAATTACAGATCTTATCTCTCTAAGCAGTAGCGGAATAG
1 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
* * *
29054249 ATCAAAAATGGTAAGCCTTAACC
66 AT-GAAGACGGTAAGCCTTAACC
* * *
29054272 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGTAATAGCGGAACAA
1 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
*
29054337 ATTGAAGACGGTGAGCCTTAACC
66 A-TGAAGACGGTAAGCCTTAACC
* * * *
29054360 CCCTAAGAAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCACCCTAAGCAGTAGTGGAGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
29054425 ACTGAAGA
66 A-TGAAGA
29054433 TTACAGATCT
Statistics
Matches: 140, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
88 139 0.99
89 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
ATGAAGACGGTAAGCCTTAACC
Found at i:29054452 original size:88 final size:85
Alignment explanation
Indices: 29054184--29054460 Score: 302
Period size: 88 Copynumber: 3.2 Consensus size: 85
29054174 TCGAAGAACT
* * * * *
29054184 CCCTAAGCAGAAGGGTAATAGGCTAGAAATTACAGATCTTATCTCTCTAAGCAGTAGCGGAATAG
1 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
* *
29054249 ATCAAAAATGGTAAGCCTTAACC
66 AT-GAAGAT--TAAGCCTTAACC
* * *
29054272 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGTAATAGCGGAACAA
1 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
* *
29054337 ATTGAAGACGGTGAGCCTTAACC
66 A-TGAAGA--TTAAGCCTTAACC
* * * *
29054360 CCCTAAGAAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCACCCTAAGCAGTAGTGGAGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
* * *
29054425 ACTGAAGATTACAGATCTTATCT
66 A-TGAAGATTA-AG-CCTTAACC
29054448 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
29054461 TGGAGCAAAT
Statistics
Matches: 158, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 154 0.97
89 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (85 bp):
CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAACAG
ATGAAGATTAAGCCTTAACC
Found at i:29054514 original size:132 final size:132
Alignment explanation
Indices: 29054272--29054525 Score: 370
Period size: 132 Copynumber: 1.9 Consensus size: 132
29054262 AGCCTTAACC
* *
29054272 CCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGTAATAGCGGAACAA
1 CCCTAAGCAGTAGGGTAACAGACTGGAAATTACAGATCTTATCTCCCTAAGCAATAGCGGAACAA
* * *
29054337 ATTGAAGACGGTGAGCCTTAACCCCCTAAGAAGTAGGGTAACAGGCTGGAA-ATTACAGATCTTA
66 ATCGAAGACAGTGAGCCCTAACCCCCTAAGAAGTAGGGTAACAGGCT-GAAGATTACAGATCTTA
29054401 TCA
130 TCA
* * * *
29054404 CCCTAAGCAGTAGTGG-AGCAGACT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 CCCTAAGCAGTAG-GGTAACAGACTGGAA-ATTACAGATCTTATCTCCCTAAGCAATAGCGGAAC
*
29054467 AAATCGAAGACAGTGAGCCCTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACA
64 AAATCGAAGACAGTGAGCCCTAACCCCCTAAGAAGTAGGGTAACAGGCTGAAGATTACA
29054526 AATTGTTGAA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
131 6 0.06
132 101 0.93
133 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (132 bp):
CCCTAAGCAGTAGGGTAACAGACTGGAAATTACAGATCTTATCTCCCTAAGCAATAGCGGAACAA
ATCGAAGACAGTGAGCCCTAACCCCCTAAGAAGTAGGGTAACAGGCTGAAGATTACAGATCTTAT
CA
Found at i:29055328 original size:21 final size:23
Alignment explanation
Indices: 29055281--29055334 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
29055271 CATTCAAGAT
**
29055281 AAAATAATATATAAAACTTTTTA
1 AAAATAATATATAAAACTAATTA
*
29055304 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
29055325 AAAAT-ATATA
1 AAAATAATATA
29055335 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:29055372 original size:25 final size:23
Alignment explanation
Indices: 29055344--29055405 Score: 54
Period size: 25 Copynumber: 2.5 Consensus size: 23
29055334 AATGTGTAAA
*
29055344 AAAAGTTTGAAATATATAATATAT
1 AAAA-TTTGAAATAAATAATATAT
*
29055368 GAAAATATT-AAAGTAAATAATGTAT
1 -AAAAT-TTGAAA-TAAATAATATAT
29055393 AAAAATTTGAAAT
1 -AAAATTTGAAAT
29055406 GAGCGTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (23 bp):
AAAATTTGAAATAAATAATATAT
Found at i:29055565 original size:15 final size:15
Alignment explanation
Indices: 29055541--29055586 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
29055531 ATATAAATAG
*
29055541 AAATAAAAATATAAT
1 AAATAGAAATATAAT
29055556 AAATAGAAATATAAT
1 AAATAGAAATATAAT
29055571 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
29055587 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:29055574 original size:29 final size:28
Alignment explanation
Indices: 29055506--29055604 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 28
29055496 TATATAAGAA
* * *
29055506 AAATAATAAT-GAAAATAATATTAGTATAT
1 AAATAATAATAG-AAA-AATATAAATAGAT
29055535 AAATAGA-AATA-AAAATATAATAAATAGA-
1 AAATA-ATAATAGAAAA-AT-ATAAATAGAT
*
29055563 AATATAATAATAGTAGAAATATAAATAGAT
1 AA-ATAATAATAG-AAAAATATAAATAGAT
29055593 AAATAATAATAG
1 AAATAATAATAG
29055605 TATTAGAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
27 1 0.02
28 8 0.14
29 40 0.70
30 5 0.09
31 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (28 bp):
AAATAATAATAGAAAAATATAAATAGAT
Found at i:29055586 original size:14 final size:15
Alignment explanation
Indices: 29055566--29055606 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
29055556 AAATAGAAAT
29055566 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
29055581 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
29055595 ATAATAATAGTA
1 ATAATAATAGTA
29055607 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:29055601 original size:15 final size:14
Alignment explanation
Indices: 29055541--29055601 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
29055531 ATATAAATAG
*
29055541 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
29055556 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
29055571 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
29055585 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
29055600 AA
1 AA
29055602 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:29059826 original size:85 final size:85
Alignment explanation
Indices: 29059640--29060247 Score: 815
Period size: 85 Copynumber: 7.1 Consensus size: 85
29059630 TTACCCTACT
* * * * * * * **
29059640 GTTAAGGCTCACTATCCTCGATCTACTCTATTACTGCTTAGGGAGATAAGATCTGTA-ACTCAGC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTCAGC
* *
29059704 CTGTTACCCTATTGTTTAGGGG
64 CTGTTACCCTACTGCTTAGGGG
* *
29059726 GTTAAGGCTCACTGTCTTCGATCTGCTCTACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
29059791 GTTACCCTACTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
* * *
29059811 GTTAAGGTTCGCTGTCTTCGATATGCTCCATTACTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCC
*
29059876 TGTTACCCTACTACTTA-GGG
65 TGTTACCCTACTGCTTAGGGG
** * *
29059896 GTTAAGGCTTACCGTCTTCGATCTGCTCCACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCC
*
29059961 TGTTACCCTACTGCTTAGAGG
65 TGTTACCCTACTGCTTAGGGG
* * * * * * *
29059982 GTTAAGGCTTGCTATCTTCAATCTGCTCCACTATTGTTTAGGGATAAGATCTATATTTCCATCCT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
29060047 GTTACCCTACTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
* * * * *
29060067 GTTAAGGCTCGTTGTCTTTGATCTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCTT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
*
29060132 GTTACCCTATTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
* * * *
29060152 GTTAAGGCTCGCTGTCTTCGATCTGTTCCACTGCTGTTTAGGGATAAGATCTATATTTTTAGCCT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
29060217 GTTACCCTACTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
29060237 GTTAAGGCTCG
1 GTTAAGGCTCG
29060248 TATCTTCAGC
Statistics
Matches: 468, Mismatches: 51, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
84 13 0.03
85 344 0.74
86 111 0.24
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (85 bp):
GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
GTTACCCTACTGCTTAGGGG
Found at i:29059895 original size:42 final size:42
Alignment explanation
Indices: 29059756--29060235 Score: 138
Period size: 42 Copynumber: 11.3 Consensus size: 42
29059746 ATCTGCTCTA
*
29059756 CTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCTGTTACC
1 CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
* * * * * ** *
29059797 CTACTGCTTAGGGGGTTAAGGT-TCGCTGTCTTCGA-TATGCT-CC
1 CTACTGCTTA--GGGATAAGATCT-G-TATTTTCCAGCCTGTTACC
* *
29059840 ATTACTGTTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
1 -CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
* * * * * * *
29059883 CTACTACTTAGGGGTTAAG-GCT-TACCGTCTTCGA-TCTGCT-CC
1 CTACTGCTTA-GGGATAAGATCTGTA---TTTTCCAGCCTGTTACC
* *
29059925 ACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
1 -CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
* * * ** *
29059968 CTACTGCTTAGAGGGTTAAG-GCTTGCTATCTT-CAATCTGCT-CC
1 CTACTGCTT--AGGGATAAGATC-TG-TATTTTCCAGCCTGTTACC
* * * *
29060011 ACTATTGTTTAGGGATAAGATCTATA-TTTCCATCCTGTTACC
1 -CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
* * ** *
29060053 CTACTGCTTAGGGGGTTAAG-GCTCGT-TGTCTTTGA-TCTGTT-CC
1 CTACTGCTTA--GGGATAAGATCT-GTAT-T-TTCCAGCCTGTTACC
* * *
29060096 ACTACTGTTTAGGGATAAGATCTGTATTTT-TAGCTTGTTACC
1 -CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
* * * * * * *
29060138 CTATTGCTTAGGGGGTTAAG-GCTCGCTGTCTTCGA-TCTGTT-CC
1 CTACTGCTTA--GGGATAAGATCT-G-TATTTTCCAGCCTGTTACC
* * * *
29060181 ACTGCTGTTTAGGGATAAGATCTATATTTT-TAGCCTGTTACC
1 -CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
29060223 CTACTGCTTAGGG
1 CTACTGCTTAGGG
29060236 GGTTAAGGCT
Statistics
Matches: 304, Mismatches: 89, Indels: 92
0.63 0.18 0.19
Matches are distributed among these distances:
40 4 0.01
41 72 0.24
42 78 0.26
43 65 0.21
44 75 0.25
45 10 0.03
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (42 bp):
CTACTGCTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
Found at i:29060101 original size:44 final size:44
Alignment explanation
Indices: 29060045--29060248 Score: 128
Period size: 41 Copynumber: 4.8 Consensus size: 44
29060035 TATTTCCATC
29060045 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTTGAT
* * * *
29060089 CTGTT-CCACTACTGTTTA--GGGATAA-GATCTGTAT-T-TTT-AG
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCTC-GT-TGTCTTTGAT
* * *
29060129 CTTGTTACCCTATTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTTGAT
* * * * * * *
29060174 CTGTT-CCACTGCTGTTTA--GGGATAA-GATC-TATAT-TTTTAGC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCTCGT-TGTCTTTGA-T
29060215 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGT
29060249 ATCTTCAGCT
Statistics
Matches: 116, Mismatches: 25, Indels: 37
0.65 0.14 0.21
Matches are distributed among these distances:
40 5 0.04
41 36 0.31
42 20 0.17
43 19 0.16
44 33 0.28
45 3 0.03
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.39
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTTGAT
Found at i:29060104 original size:256 final size:255
Alignment explanation
Indices: 29059640--29060255 Score: 824
Period size: 256 Copynumber: 2.4 Consensus size: 255
29059630 TTACCCTACT
** * * * * * **
29059640 GTTAAGGCTCACTATCCTCGATCTACTCTATTACTGCTTAGGGAGATAAGATCTGTA-ACTCAGC
1 GTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTCAGC
* * * * * *
29059704 CTGTTACCCTATTGTTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCTACTACTGTTTAGGG
64 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTATCTTCAATCTGCTCCACTACTGTTTAGGG
* * *
29059769 ATAAGATCTGTATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTTCGCTGTCTTCGATA
129 ATAAGATCTATATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGATA
*
29059834 TGCTCCATTACTGTTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTA-GGG
194 TGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCTGTTACCCTACTACTTAGGGG
* *
29059896 GTTAAGGCTTACCGTCTTCGATCTGCTCCACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCC
* * *
29059961 TGTTACCCTACTGCTTAGAGGGTTAAGGCTTGCTATCTTCAATCTGCTCCACTATTGTTTAGGGA
65 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTATCTTCAATCTGCTCCACTACTGTTTAGGGA
* * * *
29060026 TAAGATCTATATTTCCATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTTGATCT
130 TAAGATCTATATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGATAT
* * * * *
29060091 GTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCTTGTTACCCTATTGCTTAGGGG
195 GCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTGTTACCCTACTACTTAGGGG
* * * * * *
29060152 GTTAAGGCTCGCTGTCTTCGATCTGTTCCACTGCTGTTTAGGGATAAGATCTATATTTTTAGCCT
1 GTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
29060217 GTTACCCTACTGCTTAGGGGGTTAAGGCTCG-TATCTTCA
66 GTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTATCTTCA
29060256 GCTTGCTCCC
Statistics
Matches: 314, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
254 21 0.07
255 55 0.18
256 238 0.76
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (255 bp):
GTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
GTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTATCTTCAATCTGCTCCACTACTGTTTAGGGAT
AAGATCTATATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGATATG
CTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTGTTACCCTACTACTTAGGGG
Found at i:29060234 original size:41 final size:41
Alignment explanation
Indices: 29060019--29060235 Score: 102
Period size: 41 Copynumber: 5.1 Consensus size: 41
29060009 CCACTATTGT
** *
29060019 TTAGGGATAAGATCTATATTTCCATCCTGTTACCCTACTGC
1 TTAGGGATAAGATCTATATTTTTAGCCTGTTACCCTACTGC
* * * * * *
29060060 TTAGGGGGTTAAGGCTCGT-TGTCTTT-GATCTGTT-CCACTACTGT
1 TTA--GGGATAA-GATC-TATATTTTTAG-CCTGTTACC-CTACTGC
* * *
29060104 TTAGGGATAAGATCTGTATTTTTAGCTTGTTACCCTATTGC
1 TTAGGGATAAGATCTATATTTTTAGCCTGTTACCCTACTGC
* * ** * * * * * *
29060145 TTAGGGGGTTAAGGCTCGCT-GTCTTCGATCTGTT-CCACTGCTGT
1 TTA--GGGATAA-GATCTATATTTTTAG-CCTGTTACC-CTACTGC
29060189 TTAGGGATAAGATCTATATTTTTAGCCTGTTACCCTACTGC
1 TTAGGGATAAGATCTATATTTTTAGCCTGTTACCCTACTGC
29060230 TTAGGG
1 TTAGGG
29060236 GGTTAAGGCT
Statistics
Matches: 121, Mismatches: 39, Indels: 32
0.63 0.20 0.17
Matches are distributed among these distances:
40 1 0.01
41 43 0.36
42 21 0.17
43 20 0.17
44 35 0.29
45 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (41 bp):
TTAGGGATAAGATCTATATTTTTAGCCTGTTACCCTACTGC
Found at i:29060680 original size:33 final size:33
Alignment explanation
Indices: 29060642--29060707 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
29060632 AATGTCATGA
29060642 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
1 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
29060675 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
1 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
29060708 CGTTATCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
GAATGATTTTTAAAATCTTAAAGTGTCATCACT
Found at i:29066749 original size:21 final size:23
Alignment explanation
Indices: 29066702--29066755 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
29066692 CATTCAAGAT
**
29066702 AAAATAATATATAAAACTTTTTA
1 AAAATAATATATAAAACTAATTA
*
29066725 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
29066746 AAAAT-ATATA
1 AAAATAATATA
29066756 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:29066974 original size:14 final size:14
Alignment explanation
Indices: 29066957--29067033 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
29066947 ATTAGTATAT
29066957 AAATAGATAAATAA
1 AAATAGATAAATAA
*
29066971 AAATTAGACAAATAA
1 AAA-TAGATAAATAA
*
29066986 TAATAGTATTAGAATAA
1 AAATAG-A-TA-AATAA
* *
29067003 CAA-A-ATAAATAT
1 AAATAGATAAATAA
29067015 AAATAGA-AACATAA
1 AAATAGATAA-ATAA
29067029 AAATA
1 AAATA
29067034 ATAGCAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
12 6 0.12
13 5 0.10
14 16 0.33
15 13 0.27
16 2 0.04
17 7 0.14
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (14 bp):
AAATAGATAAATAA
Found at i:29068096 original size:19 final size:20
Alignment explanation
Indices: 29068072--29068118 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
29068062 TTGTAAAATT
* *
29068072 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGAGATG
29068091 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
29068111 -AATGCAAA
1 TAATGCAAA
29068119 ACTAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:29071919 original size:3 final size:3
Alignment explanation
Indices: 29071913--29072267 Score: 73
Period size: 3 Copynumber: 119.7 Consensus size: 3
29071903 AGTATGTAGG
* ** *
29071913 TAA TAA TAA TAA -AA TAA TAA TAG TAA TAA TAA TCG TAG TAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
29071957 TAA AAA GAA -AA TATA TAA GGTAA TGAA -AA TAA TACA GAA TTAA TTAA
1 TAA TAA TAA TAA TA-A TAA --TAA T-AA TAA TAA TA-A TAA -TAA -TAA
* * ** *
29072004 T-T TAA TAA T-A TAA TAA TAG TAA TAA TAA -AA TAA TGC TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * * *
29072049 TCA TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CAA CAA -AA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
29072093 TAGA -AGA TAA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA T-A TGC
1 TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * *** * * * *
29072137 TAA TAA TAA AAA TAA AAA TAA -AA GGT TAA TAA TGA TAG TAC TGA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
29072183 TAGA -AA AAA TAG TAA TCA TAA T-A TAT TAA TAA TAA TAA TTA CAG
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
29072227 TTA TAA TGAA -AA TAA TAA TAC TAA TAA TAAA TAA T-A TAA TA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
29072268 GTAAATACAA
Statistics
Matches: 250, Mismatches: 70, Indels: 64
0.65 0.18 0.17
Matches are distributed among these distances:
2 31 0.12
3 192 0.77
4 24 0.10
5 3 0.01
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:29072266 original size:15 final size:16
Alignment explanation
Indices: 29072240--29072274 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
29072230 TAATGAAAAT
29072240 AATAATACTAATAATA
1 AATAATACTAATAATA
*
29072256 AATAATA-TAATAGTA
1 AATAATACTAATAATA
29072271 AATA
1 AATA
29072275 CAAAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATACTAATAATA
Found at i:29076410 original size:13 final size:13
Alignment explanation
Indices: 29076371--29076415 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
29076361 AGTTCTTAAT
29076371 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
29076384 TGCTGTGGAAAAG
1 TGCTTTTGAGAAG
*
29076397 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
29076410 TGCTTT
1 TGCTTT
29076416 GAAAAAATTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:29081875 original size:29 final size:31
Alignment explanation
Indices: 29081827--29081889 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
29081817 CGGCTTAACC
*
29081827 AAAATTCAATTTAAAATAT-AAAAATATTTT
1 AAAATTCAAATTAAAATATAAAAAATATTTT
*
29081857 AAAATT-AAATTAAATTATAAAAAATATTTT
1 AAAATTCAAATTAAAATATAAAAAATATTTT
29081887 AAA
1 AAA
29081890 TATTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAATTCAAATTAAAATATAAAAAATATTTT
Found at i:29083734 original size:14 final size:14
Alignment explanation
Indices: 29083717--29083744 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29083707 TTTTTTAAAT
29083717 TACACATGAAAAAC
1 TACACATGAAAAAC
29083731 TACACATGAAAAAC
1 TACACATGAAAAAC
29083745 CTTAACTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
TACACATGAAAAAC
Found at i:29084401 original size:57 final size:56
Alignment explanation
Indices: 29084224--29084421 Score: 175
Period size: 58 Copynumber: 3.4 Consensus size: 56
29084214 TGGAAGATGT
* * * ***
29084224 TAGATATGTTGCTATATATTATAAATTTTATTATCCCTATAAAATATTATTATATAAA
1 TAGATATGTTG-T-TATAATATAGATTTTAGTATTTGTATAAAATATTATTATATAAA
* * * * *
29084282 TTGATATGTTGGTATATATTATAGATTTTAGTATTTGTATAAAATATTCTCATATAAG
1 TAGATATGTT-GT-TATAATATAGATTTTAGTATTTGTATAAAATATTATTATATAAA
* * *
29084340 TAGATATGTTGTTATAATA-AGATTTTGGTAGTTAT-TATAAAAATGTTGTTATATAAA
1 TAGATATGTTGTTATAATATAGATTTTAGTA-TT-TGTAT-AAAATATTATTATATAAA
*
29084397 TAGATATGTTGTTATATATTTAGAT
1 TAGATATGTTGTTATA-ATATAGAT
29084422 ATGTTATATA
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
55 10 0.09
56 11 0.09
57 33 0.28
58 58 0.50
59 5 0.04
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.47
Consensus pattern (56 bp):
TAGATATGTTGTTATAATATAGATTTTAGTATTTGTATAAAATATTATTATATAAA
Found at i:29084407 original size:20 final size:20
Alignment explanation
Indices: 29084382--29084426 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
29084372 TATTATAAAA
29084382 ATGTTGTTATATAAATAGAT
1 ATGTTGTTATATAAATAGAT
**
29084402 ATGTTGTTATATATTTAGAT
1 ATGTTGTTATATAAATAGAT
29084422 ATGTT
1 ATGTT
29084427 ATATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (20 bp):
ATGTTGTTATATAAATAGAT
Found at i:29084444 original size:24 final size:23
Alignment explanation
Indices: 29084388--29084445 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
29084378 AAAAATGTTG
*
29084388 TTATATAAATAGATATGTTGTTA
1 TTATATAAATAGATATGTTATTA
*
29084411 -TATAT--TTAGATATGTTATATA
1 TTATATAAATAGATATGTTAT-TA
29084432 TTATATAAATAGAT
1 TTATATAAATAGAT
29084446 TTCGGAACCG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 10 0.36
24 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (23 bp):
TTATATAAATAGATATGTTATTA
Found at i:29084630 original size:40 final size:42
Alignment explanation
Indices: 29084534--29084635 Score: 138
Period size: 40 Copynumber: 2.5 Consensus size: 42
29084524 TATTGAAATT
*
29084534 CCAACTTTGTAACCAAATACTTTGTAATTGTGCGTAGGTGTAC
1 CCAACTTTGTAACCAAATACTTTGTAATTATGCGTA-GTGTAC
* *
29084577 CCAACTTTATAACCAAATAC-TTGT-TTATATGCGT-GTGTAC
1 CCAACTTTGTAACCAAATACTTTGTAAT-TATGCGTAGTGTAC
29084617 CCAACTTTGTAACCAAATA
1 CCAACTTTGTAACCAAATA
29084636 TTAAAATTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 24 0.44
41 1 0.02
42 10 0.19
43 19 0.35
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (42 bp):
CCAACTTTGTAACCAAATACTTTGTAATTATGCGTAGTGTAC
Found at i:29086408 original size:18 final size:17
Alignment explanation
Indices: 29086387--29086420 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
29086377 ACAAGTTGTG
29086387 ATAATTATACATTTAAAA
1 ATAATTATA-ATTTAAAA
29086405 ATAATTATAATTTAAA
1 ATAATTATAATTTAAA
29086421 TTTACAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTATAATTTAAAA
Found at i:29086809 original size:18 final size:19
Alignment explanation
Indices: 29086788--29086823 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29086778 TATATTTAAA
29086788 ATTTT-AAATAAAAATATT
1 ATTTTAAAATAAAAATATT
*
29086806 ATTTTAAAATTAAAATAT
1 ATTTTAAAATAAAAATAT
29086824 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAAAATAAAAATATT
Found at i:29091971 original size:14 final size:16
Alignment explanation
Indices: 29091952--29091983 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29091942 CATAAAGTAC
29091952 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
29091966 AATAAATCCAACAATT
1 AATAAATCCAACAATT
29091982 AA
1 AA
29091984 GTACCACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:29094844 original size:176 final size:174
Alignment explanation
Indices: 29094554--29095123 Score: 788
Period size: 176 Copynumber: 3.2 Consensus size: 174
29094544 CTTGGGGCTT
* * * * *
29094554 AAATATGCTCCATTGCTGATATATATGGAGATAAGATTCGCC-TCTTTCGATCTGCTCCGCTACT
1 AAATCTGCTCCATTGCTG--ATACATGGAGATAAGATTCACCATC-TTCGATCTGCTCCGCTGCA
* * * *
29094618 GCTT-AGGGAAATAAGATCTTCAATCTTTAGTCTGC-TTCATTGCTACCTCAGGAAGATAAGACT
63 ACTTCAGGGAGATAAGATCTTCAATCATTAGTCTGCTTTC-TTGCTACCTCAGAAAGATAAGACT
* * * *
29094681 TATGCTTCAACTATTCTCTTGCTACCTCAGAGAAATAAGGCTGGTGGCTT
127 CATTCTTCAACT-TTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TA
*
29094731 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTCGATTTGCTCCGCTGCAACT
1 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAACT
* * *
29094796 TCAGGGAGATAAAATCTTCAATCCTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATT
66 TCAGGGAGATAAGATCTTCAATCATTAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATT
29094861 CTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTA
131 CTTCAACTT--TCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTA
*
29094907 AAATCTGCTCCATTG-TCGATACATGGAGATAAGATTCACCATCTTCAATCTGCTCCGCTGCAAC
1 AAATCTGCTCCATTGCT-GATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAAC
* *
29094971 TTCAGGGAGATAAGATCTTCAATCATTAGTCTACTTTCTTGCTACCTCAGAAAGTTAAGACTCAT
65 TTCAGGGAGATAAGATCTTCAATCATTAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAT
* * * *
29095036 TCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTAGTA
130 TCTTCAA-CT-TTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTA
*
29095083 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
1 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCA
29095124 ATCTACTAAT
Statistics
Matches: 356, Mismatches: 28, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
175 41 0.12
176 261 0.73
177 54 0.15
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (174 bp):
AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAACT
TCAGGGAGATAAGATCTTCAATCATTAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATT
CTTCAACTTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTA
Found at i:29094961 original size:88 final size:86
Alignment explanation
Indices: 29094857--29095123 Score: 190
Period size: 88 Copynumber: 3.0 Consensus size: 86
29094847 AGATAAGACT
29094857 CATTCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTG
1 CATTCTTCAAC-TGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GT-GTAAAATCTGCTCCATTG
29094922 TCGATACATGGAGATAAGATTCAC
63 TCGATACATGGAGATAAGATTCAC
* * * * * * * * *
29094946 CA-TCTTCAATCTGCTC-CGCTGCAACTTCAGGGAGATAA-GATCT-T-CAATCATTAGTCTACT
1 CATTCTTCAA-CTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTGTGTAAAATC--T-G-CTCCA
* * * * * *
29095006 TTCTTGCTACCT-CAGA-AAG-TTAAGAC
60 TTGTCGATACATGGAGATAAGATT--CAC
*
29095032 TCATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTAGTAAAATCTGCTCCATT
1 -CATTCTTCAA-CTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GT-GTAAAATCTGCTCCATT
*
29095097 GCCGATACATGGAGATAAGATTCAC
62 GTCGATACATGGAGATAAGATTCAC
29095122 CA
1 CA
29095124 ATCTACTAAT
Statistics
Matches: 126, Mismatches: 33, Indels: 38
0.64 0.17 0.19
Matches are distributed among these distances:
83 4 0.03
84 3 0.02
85 4 0.03
86 7 0.06
87 16 0.13
88 56 0.44
89 18 0.14
90 7 0.06
91 4 0.03
92 3 0.02
93 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (86 bp):
CATTCTTCAACTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGTGTAAAATCTGCTCCATTGTCG
ATACATGGAGATAAGATTCAC
Found at i:29096267 original size:5 final size:6
Alignment explanation
Indices: 29096252--29096277 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
29096242 TTTTCTCCTT
29096252 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
29096278 GAGTCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:29096723 original size:12 final size:12
Alignment explanation
Indices: 29096706--29096730 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29096696 GTATCCATTC
29096706 TGCTTCATCTAA
1 TGCTTCATCTAA
29096718 TGCTTCATCTAA
1 TGCTTCATCTAA
29096730 T
1 T
29096731 TTTAATTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TGCTTCATCTAA
Found at i:29102055 original size:40 final size:40
Alignment explanation
Indices: 29102000--29102079 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
29101990 TGGTTCTTTT
29102000 TCCAATACCCCTATATCACATTTACCCCACTATCAACATG
1 TCCAATACCCCTATATCACATTTACCCCACTATCAACATG
29102040 TCCAATACCCCTATATCACATTTACCCCACTATCAACATG
1 TCCAATACCCCTATATCACATTTACCCCACTATCAACATG
29102080 ACTAGGTAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (40 bp):
TCCAATACCCCTATATCACATTTACCCCACTATCAACATG
Found at i:29102056 original size:23 final size:22
Alignment explanation
Indices: 29101999--29102061 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 22
29101989 TTGGTTCTTT
29101999 TTCCAATACCCCTATATC-ACA
1 TTCCAATACCCCTATATCAACA
29102020 TT----TACCCC-ACTATCAACA
1 TTCCAATACCCCTA-TATCAACA
29102038 TGTCCAATACCCCTATATC-ACA
1 T-TCCAATACCCCTATATCAACA
29102060 TT
1 TT
29102062 TACCCCACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
16 1 0.03
17 10 0.29
18 4 0.12
19 1 0.03
21 3 0.09
22 4 0.12
23 10 0.29
24 1 0.03
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.30
Consensus pattern (22 bp):
TTCCAATACCCCTATATCAACA
Found at i:29102073 original size:17 final size:17
Alignment explanation
Indices: 29102013--29102074 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 17
29102003 AATACCCCTA
29102013 TATCACATTTACCCCAC
1 TATCACATTTACCCCAC
29102030 TATCAACATGTCCAATACCCCTA-
1 TATC-ACAT-T----TACCCC-AC
29102053 TATCACATTTACCCCAC
1 TATCACATTTACCCCAC
29102070 TATCA
1 TATCA
29102075 ACATGACTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
16 1 0.03
17 15 0.41
18 4 0.11
19 1 0.03
21 1 0.03
22 4 0.11
23 10 0.27
24 1 0.03
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (17 bp):
TATCACATTTACCCCAC
Found at i:29111783 original size:24 final size:24
Alignment explanation
Indices: 29111756--29111803 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
29111746 CTTTATAGAA
29111756 AATATAAAAAAAATAATTAAATAT
1 AATATAAAAAAAATAATTAAATAT
***
29111780 AATATTTTAAAAATAATTAAATAT
1 AATATAAAAAAAATAATTAAATAT
29111804 TAAACAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATATAAAAAAAATAATTAAATAT
Found at i:29112139 original size:22 final size:24
Alignment explanation
Indices: 29112103--29112148 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
29112093 TTTTTTTAAT
29112103 TTTTAATTAAATAAATATAATTTA
1 TTTTAATTAAATAAATATAATTTA
*
29112127 TTTT-ATT-AATAAATATATTTTA
1 TTTTAATTAAATAAATATAATTTA
29112149 AAAATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 3 0.14
24 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTAATTAAATAAATATAATTTA
Found at i:29124359 original size:16 final size:16
Alignment explanation
Indices: 29124340--29124378 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
29124330 GTTTGGTTCA
*
29124340 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
29124356 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
29124372 TTGTAAT
1 CTGTAAT
29124379 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:29124413 original size:46 final size:44
Alignment explanation
Indices: 29124360--29124453 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
29124350 ATAGAGCTGT
** *
29124360 AATGGAATAGAGTTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTATAAT-AGT-ATTCAACTGTTTGGTTGAATGG
***
29124406 AATGGAATAGAACTATAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTATAATAGTATTCAACTGTTTGGTTGAATGG
29124450 AATG
1 AATG
29124454 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 23 0.55
45 3 0.07
46 16 0.38
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTATAATAGTATTCAACTGTTTGGTTGAATGG
Found at i:29129403 original size:11 final size:12
Alignment explanation
Indices: 29129389--29129426 Score: 62
Period size: 11 Copynumber: 3.3 Consensus size: 12
29129379 AAGAAAAAAA
29129389 GAAGAGAG-AGG
1 GAAGAGAGAAGG
29129400 GAAGAGAGAAGG
1 GAAGAGAGAAGG
29129412 G-AGAGAGAAGG
1 GAAGAGAGAAGG
29129423 GAAG
1 GAAG
29129427 GGGAAGGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:29129416 original size:22 final size:22
Alignment explanation
Indices: 29129391--29129434 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29129381 GAAAAAAAGA
29129391 AGAGAG-AGGGAAGAGAGAAGGG
1 AGAGAGAAGGGAAG-GAGAAGGG
*
29129413 AGAGAGAAGGGAAGGGGAAGGG
1 AGAGAGAAGGGAAGGAGAAGGG
29129435 GAATCCGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (22 bp):
AGAGAGAAGGGAAGGAGAAGGG
Found at i:29129967 original size:35 final size:35
Alignment explanation
Indices: 29129922--29129990 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
29129912 GGGTGTGTGA
29129922 TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGAG
*
29129957 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGA
29129991 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.49, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGAG
Found at i:29130935 original size:72 final size:72
Alignment explanation
Indices: 29130695--29131819 Score: 618
Period size: 74 Copynumber: 14.8 Consensus size: 72
29130685 ACATGTGAAC
* *
29130695 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
29130759 CAGCGTGTCC
63 CAACGTGTCT
** *
29130769 CAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
29130834 ACGTGTCT
65 ACGTGTCT
*
29130842 TGAGGCTCAACTCATTCCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
29130907 TGTGTCT
66 CGTGTCT
* * * * * ** ** *
29130914 TGGGGCTCAACTTATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAACGAAAACAGAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTT-GAAAACAGAA-ATTG-AAA-TTAC
* * ** **
29130979 ATGAAAAATACCT
61 CT-CAACGTGTCT
* * * * ** * ** ** * * **
29130992 CAGCATGTCCTGAGGCTCAACTCAC-CTCT-TGCAACATGAGTTGATTTAGAAAACAGACATAAA
1 -TG-A-G-GCTCA-ACTCATTTCTCGCAATATG--AGTTGA----ATTTTGAAAACAGAAAT-TG
** ** * * *
29131055 AACAGAAATTGAAAGTGACTCAACACG
54 AA-ATTACCTCAACGTG--T-----CT
* ** *
29131082 TGA-GC-CAAGGCTCAACTCACCTT-TCGCAATATGAGTTGATTTTTTTTTGAAAGTAGAATTTG
1 TGAGGCTCAA--CTC-A-T----TTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTG
* ** * *
29131144 AAAATACCTCGGCGTGCCC
54 AAATTACCTCAACGTGTCT
* * ** *
29131163 CGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTC
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG--AAAACAGAAATTGAAATTACCTC
*
29131228 AGCGTGTCT
64 AACGTGTCT
** *
29131237 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTG
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAAC----A--G---A--AATTG
*
29131302 AAAATACCTCAACGTGTCT
54 AAATTACCTCAACGTGTCT
** * *
29131321 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCT
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT-TTGAAAA-CAGAAATTGAAATTACCT
*
29131386 CAATGTGTCT
63 CAACGTGTCT
** *
29131396 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAATTACCT
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT-TTGAAAA-CAGAAATTGAAATTACCT
* *
29131461 CAGCGTGTCC
63 CAACGTGTCT
* ** * *
29131471 TGAGGCCCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATTGAAATTACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCA
* *
29131535 GCGTGTCC
65 ACGTGTCT
* *
29131543 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACC
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAATTACC
* * *
29131608 TCAGCGTCTCA
62 TCAACGTGTCT
**
29131619 TGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAAACA-AAATTGAAATTACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCA
* *
29131682 GCGTGTCC
65 ACGTGTCT
*
29131690 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTATTGACAAA-AG-AATTGAAATTACC
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATT-TTGA-AAACAGAAATTGAAATTACC
* *
29131753 TCAGCGTGTCC
62 TCAACGTGTCT
** * *
29131764 TGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATTGAAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAA
29131820 AAGGCTTAAC
Statistics
Matches: 843, Mismatches: 135, Indels: 148
0.75 0.12 0.13
Matches are distributed among these distances:
70 6 0.01
71 63 0.07
72 144 0.17
73 84 0.10
74 157 0.19
75 134 0.16
76 78 0.09
77 9 0.01
78 5 0.01
79 2 0.00
80 2 0.00
81 9 0.01
82 9 0.01
83 17 0.02
84 63 0.07
85 19 0.02
86 7 0.01
87 1 0.00
88 7 0.01
89 3 0.00
90 19 0.02
91 3 0.00
92 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:29131033 original size:233 final size:222
Alignment explanation
Indices: 29130695--29131994 Score: 1036
Period size: 233 Copynumber: 5.8 Consensus size: 222
29130685 ACATGTGAAC
* * * *
29130695 TGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTT-TT-TGACAACAGAAATTGAAATTACC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAGAAAACAGAAATTGAAATTACC
** **
29130758 TCAGCGTGTCCCAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAAG-CAGAAAT
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAAAGACAGAAAT
*
29130821 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTCCTCGCAATATGAGTTGA-ATTTTGAAA
130 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TCCTCGCAATATGAGTTGATTTTTTGAAA
* *
29130885 ACAGAAATTGAAATTACCTCAATGTGTCT
194 ACAGAAATTGAAAATACCTCAACGTGTCT
* * **
29130914 TGGGGCTCAACTTATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAACGAAAACAGAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT------C-T--TAA-GAAAACAGAA
* * * * *
29130979 A-TGAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAACATGAGTTGATTTAGAA
54 ATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
* * **
29131043 AACAGACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGC-CAAGGCTCAACTCA-CCTT
118 AA-AG--------ACAGAAATTGAAAAT-ACCTC-A-ACGTG-TCTTGAGGCTCAACTCATCC--
** * ** * *
29131105 TCGCAATATGAGTTGATTTTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCC
168 TCGCAATATGAGTTGA---TTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCT
* * *
29131163 CGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAA-AAAACAGAAATTGAAATTACC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAGAAAACAGAAATTGAAATTACC
*
29131226 TCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTG
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG----A-A-AAA--G
* *
29131291 AACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
122 -ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATC-CTCGCAATATGAGTTGAT
*
29131356 TTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCT
185 TTT-TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCT
29131396 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT--GAAAAGCAGAAATTGAAATTAC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAGAAAA-CAGAAATTGAAATTAC
* * *
29131459 CTCAGCGTGTCCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA-ACAAAAAT
65 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGACAGAAAT
* * * *
29131522 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTG
130 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TCCTCGCAATATGAGTTGA---TTTTTTG
* * * * *
29131587 ACAACAGAAATTGAAATTACCTCAGCGTCTCA
191 AAAACAGAAATTGAAAATACCTCAACGTGTCT
*
29131619 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-TTGA-AAAACA-AAATTGAAATTACC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAGAAAACAGAAATTGAAATTACC
** * *
29131679 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTATTGACAA-A-AG-A
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA---AAAAGACAGAA
* * *
29131741 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CCTCTAGCAATATGAGTTGA--TTTTG
128 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCCTC--GCAATATGAGTTGATTTTTTG
*
29131803 AAAAACAAAAATTG--AA-A----AA-G-G-C-
191 -AAAACAGAAATTGAAAATACCTCAACGTGTCT
* * * * * *
29131825 T-----T-AACTCACCTCTCGCAATATGAG-TCA--AT-TT---AAAACATAAACTAAAAATACC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAGAAAACAGAAATTGAAATTACC
* * * * ***
29131877 TCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT--TTTA-A-A-AAATT
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGACAGAAATT
*
29131937 AAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
131 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATC-CTCGCAATATGAGTTGATTTT
29131995 CCTTGGAAAG
Statistics
Matches: 904, Mismatches: 103, Indels: 172
0.77 0.09 0.15
Matches are distributed among these distances:
193 51 0.06
194 1 0.00
195 5 0.01
197 6 0.01
198 56 0.06
199 5 0.01
200 22 0.02
201 1 0.00
206 1 0.00
207 1 0.00
209 1 0.00
210 1 0.00
214 1 0.00
215 1 0.00
216 5 0.01
217 11 0.01
219 92 0.10
220 5 0.01
221 61 0.07
222 56 0.06
223 61 0.07
224 6 0.01
225 4 0.00
226 3 0.00
227 1 0.00
229 1 0.00
231 5 0.01
232 13 0.01
233 124 0.14
234 95 0.11
235 61 0.07
236 24 0.03
237 2 0.00
239 1 0.00
240 1 0.00
241 2 0.00
242 2 0.00
243 19 0.02
244 2 0.00
245 33 0.04
246 1 0.00
247 3 0.00
248 1 0.00
249 56 0.06
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (222 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAGAAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGACAGAAATT
GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCCTCGCAATATGAGTTGATTTTTTGAAAAC
AGAAATTGAAAATACCTCAACGTGTCT
Found at i:29131245 original size:74 final size:73
Alignment explanation
Indices: 29131089--29131819 Score: 875
Period size: 75 Copynumber: 9.8 Consensus size: 73
29131079 ACGTGAGCCA
* ** * *
29131089 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTTG-AAAGTAGAATTTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTGAAATTACCT
* * *
29131153 CGGCGTGCCCCG
62 CAGCGTGTCCTG
*
29131165 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAATTACCTCAG
*
29131230 CGTGTCTTG
65 CGTGTCCTG
29131239 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAA
* * *
29131304 AATACCTCAACGTGTCTTG
55 ATTACCTCAGCGTGTCCTG
* *
29131323 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCA
** *
29131388 ATGTGTCTTG
64 GCGTGTCCTG
*
29131398 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCA
29131463 GCGTGTCCTG
64 GCGTGTCCTG
* * *
29131473 AGGCCCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
29131537 GTGTCCTG
66 GTGTCCTG
** *
29131545 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTG-ACAACAGAAATTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTGAAATTACCT
* *
29131609 CAGCGTCTCATG
62 CAGCGTGTCCTG
29131621 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACA-AAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
29131684 GTGTCCTG
66 GTGTCCTG
** *
29131692 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTATTGACAAA-AG-AATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-TTGAAAAACAGAAATTGAAATTACCTC
29131755 AGCGTGTCCTG
63 AGCGTGTCCTG
* *
29131766 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
29131820 AAGGCTTAAC
Statistics
Matches: 583, Mismatches: 44, Indels: 60
0.85 0.06 0.09
Matches are distributed among these distances:
70 7 0.01
71 63 0.11
72 83 0.14
73 8 0.01
74 121 0.21
75 133 0.23
76 90 0.15
77 7 0.01
79 1 0.00
80 1 0.00
82 2 0.00
84 56 0.10
85 3 0.01
86 8 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
GTGTCCTG
Done.