Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 161 of 438
Found at i:48994901 original size:28 final size:27
Alignment explanation
Indices: 48994861--48994913 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
48994851 TAACCCTAAA
*
48994861 CCCTTAAACCATAAACCTTACATCCCAG
1 CCCTTAAACCATAAACCATA-ATCCCAG
48994889 CCCTTAAACCATAAACCATAATCCC
1 CCCTTAAACCATAAACCATAATCCC
48994914 TAAACTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.21
Consensus pattern (27 bp):
CCCTTAAACCATAAACCATAATCCCAG
Found at i:48994999 original size:37 final size:36
Alignment explanation
Indices: 48994958--48995050 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 36
48994948 CCTTAAAATA
*
48994958 TTAACTCA-TAAACCATAAACCCCTAACCCACGTCCCC
1 TTAAC-CATTAAACCATAAACCCCT-ACCCACATCCCC
* **
48994995 TTAACCATTAAACCACTTAACCCCTACCCTTATCCCC
1 TTAACCATTAAACCA-TAAACCCCTACCCACATCCCC
48995032 TTAACCATTAAACCCATAA
1 TTAACCATTAAA-CCATAA
48995051 TCCTTAACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
36 2 0.04
37 35 0.73
38 11 0.23
ACGTcount: A:0.35, C:0.40, G:0.01, T:0.24
Consensus pattern (36 bp):
TTAACCATTAAACCATAAACCCCTACCCACATCCCC
Found at i:48995079 original size:22 final size:22
Alignment explanation
Indices: 48995030--48995072 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48995020 ACCCTTATCC
48995030 CCTTAACCATTAAACCCATAAT
1 CCTTAACCATTAAACCCATAAT
*
48995052 CCTTAACCTTTAAACCCATAA
1 CCTTAACCATTAAACCCATAA
48995073 CCATTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (22 bp):
CCTTAACCATTAAACCCATAAT
Found at i:48995146 original size:15 final size:14
Alignment explanation
Indices: 48995100--48995151 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
48995090 CCCTACCCAC
*
48995100 TAATCCCTAAACTT
1 TAATCCCTAAACTA
* * *
48995114 TAAACCTTAAACCCA
1 TAATCCCTAAA-CTA
48995129 TAATCCCTAAACATA
1 TAATCCCTAAAC-TA
48995144 TAATCCCT
1 TAATCCCT
48995152 GAACCTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATCCCTAAACTA
Found at i:48995896 original size:40 final size:40
Alignment explanation
Indices: 48995852--48996025 Score: 165
Period size: 40 Copynumber: 4.3 Consensus size: 40
48995842 TAATTTTTTT
48995852 GCGGCGTTTTTCAAAAAGCGCCGCTAATACTCTATCTTTA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATACTCTATCTTTA
* * * ** * *
48995892 GCGGCGCTTTTTAAAAAAACGCCGCTAA-AGGTGAACCTATA
1 GCGGCG-TTTTTCAAAAAGCGCCGCTAATA-CTCTATCTTTA
* * * *
48995933 GCGGCGTTTTTTAGAAAGTGCCGCTAATGCTCGT-TCTTTA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATACTC-TATCTTTA
* * *
48995973 GCGGCGTTTTTGAAAAAGCGCCACTAATGCTC-ATTCTTTA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATACTCTA-TCTTTA
48996013 GCGGCGTTTTTCA
1 GCGGCGTTTTTCA
48996026 TTTAAATGCC
Statistics
Matches: 106, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
40 75 0.71
41 31 0.29
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATACTCTATCTTTA
Found at i:48996040 original size:81 final size:81
Alignment explanation
Indices: 48995852--48996023 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
48995842 TAATTTTTTT
* * * *
48995852 GCGGCGTTTTTCAAAAAGCGCCGCTAATACTCTATCTTTAGCGGCGCTTTTTAAAAAAACGCCGC
1 GCGGCGTTTTTTAGAAAGTGCCGCTAATACTCTATCTTTAGCGGCGCTTTTTAAAAAAACGCCAC
* *
48995917 TAAAGGTGAACCTATA
66 TAAAGCTCAACCTATA
* * *
48995933 GCGGCGTTTTTTAGAAAGTGCCGCTAATGCTCGT-TCTTTAGCGGCG-TTTTTGAAAAAGCGCCA
1 GCGGCGTTTTTTAGAAAGTGCCGCTAATACTC-TATCTTTAGCGGCGCTTTTTAAAAAAACGCCA
* ** *
48995996 CTAATGCTCATTCTTTA
65 CTAAAGCTCAACCTATA
48996013 GCGGCGTTTTT
1 GCGGCGTTTTT
48996024 CATTTAAATG
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 36 0.47
81 40 0.52
82 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (81 bp):
GCGGCGTTTTTTAGAAAGTGCCGCTAATACTCTATCTTTAGCGGCGCTTTTTAAAAAAACGCCAC
TAAAGCTCAACCTATA
Found at i:49001804 original size:15 final size:16
Alignment explanation
Indices: 49001780--49001817 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
49001770 TTCTCTTACT
*
49001780 TTTA-TTTCCATTTCA
1 TTTACTTTCCATTGCA
49001795 -TTACTTTCCATTGCA
1 TTTACTTTCCATTGCA
49001810 TTTACTTT
1 TTTACTTT
49001818 ATTTAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 7 0.35
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTACTTTCCATTGCA
Found at i:49002405 original size:21 final size:21
Alignment explanation
Indices: 49002379--49002422 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
49002369 CGGGATAGCT
* *
49002379 CACACAGAGTGTGCTAACTCA
1 CACACAAAGTGTACTAACTCA
49002400 CACACAAAGTGTACTAACTCA
1 CACACAAAGTGTACTAACTCA
49002421 CA
1 CA
49002423 TAATTGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (21 bp):
CACACAAAGTGTACTAACTCA
Found at i:49007123 original size:18 final size:18
Alignment explanation
Indices: 49007087--49007150 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
49007077 AAAAAATAAC
*
49007087 AAAAGCAAAAGAAGAGGA
1 AAAAGAAAAAGAAGAGGA
49007105 AAAAGAAAAGAGAAG-GGA
1 AAAAGAAAA-AGAAGAGGA
* * * * *
49007123 AAAGGAAGAGGAAAAAGA
1 AAAAGAAAAAGAAGAGGA
49007141 AAAAGAAAAA
1 AAAAGAAAAA
49007151 AGAACGTTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
17 3 0.09
18 27 0.77
19 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAGAGGA
Found at i:49013646 original size:42 final size:42
Alignment explanation
Indices: 49013541--49013682 Score: 137
Period size: 44 Copynumber: 3.3 Consensus size: 42
49013531 ATATGTGTCA
* * *
49013541 TCGTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATGTTT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGTA-TT-TGATT
*
49013584 TACGTATAAGACCATGTCTGGGACGTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATT
* *
49013627 TCGTGTAAGACCTTGTCTGGAAGA-G-TGGCATTGATATTTGATT
1 TCGTGTAAGACCATGTCTGG--GACGTTGGCATCG-TATTTGATT
* *
49013670 ACATGTAAGACCA
1 TCGTGTAAGACCA
49013683 CGTGTAATGC
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
42 24 0.29
43 26 0.31
44 33 0.39
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATT
Found at i:49015614 original size:30 final size:30
Alignment explanation
Indices: 49015579--49015638 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
49015569 CTTTAATACG
* *
49015579 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
49015609 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
49015639 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:49017061 original size:22 final size:23
Alignment explanation
Indices: 49017010--49017061 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
49017000 TTTAGCCATG
*
49017010 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
**
49017033 TTTTATGG-TTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
49017055 TGATATG
1 TGATATG
49017062 TGATGCAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:49022215 original size:12 final size:12
Alignment explanation
Indices: 49022194--49022222 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49022184 CATGCCATTT
49022194 GTTA-TTGTCTG
1 GTTATTTGTCTG
49022205 GTTATTTGTCTG
1 GTTATTTGTCTG
49022217 GTTATT
1 GTTATT
49022223 CTGACAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.59
Consensus pattern (12 bp):
GTTATTTGTCTG
Found at i:49022495 original size:17 final size:17
Alignment explanation
Indices: 49022461--49022493 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49022451 CACTTGTCCC
*
49022461 ATTTCTTTTATATATTT
1 ATTTATTTTATATATTT
49022478 ATTTATTTTA-ATATTT
1 ATTTATTTTATATATTT
49022494 TACTCTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTATTTTATATATTT
Found at i:49024422 original size:30 final size:33
Alignment explanation
Indices: 49024363--49024424 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
49024353 ATTAGGATTT
* *
49024363 AAATAATATAAATTTTTTTATTATAAATATATA
1 AAATAATACAAATTATTTTATTATAAATATATA
49024396 AAAT-ATACAAATTATTTT-TTAT-AATATAT
1 AAATAATACAAATTATTTTATTATAAATATAT
49024425 TTTCTAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 4 0.15
32 12 0.44
33 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
AAATAATACAAATTATTTTATTATAAATATATA
Found at i:49024458 original size:22 final size:21
Alignment explanation
Indices: 49024413--49024458 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
49024403 CAAATTATTT
** *
49024413 TTTATAATATATTTTCTAAGA
1 TTTATAATATATTTTAAAAAA
49024434 TTTATAATATAATTTTAAAAAA
1 TTTATAATAT-ATTTTAAAAAA
49024456 TTT
1 TTT
49024459 TGTCACAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTATAATATATTTTAAAAAA
Found at i:49025465 original size:14 final size:14
Alignment explanation
Indices: 49025448--49025476 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49025438 CAAAATTTAT
49025448 AAATAATATATTAC
1 AAATAATATATTAC
49025462 AAATAATATATTAC
1 AAATAATATATTAC
49025476 A
1 A
49025477 TAATTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAATATATTAC
Found at i:49026444 original size:6 final size:6
Alignment explanation
Indices: 49026433--49026479 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
49026423 TCACAAATGG
*
49026433 CTTCTC CTTCTC CTTCTC CTTCTT CTTCTC CTTCTC CTTCTC CTTCT
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCT
49026480 TATATGCGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
CTTCTC
Found at i:49026462 original size:24 final size:24
Alignment explanation
Indices: 49026433--49026480 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
49026423 TCACAAATGG
49026433 CTTCTCCTTCTCCTTCTCCTTCTT
1 CTTCTCCTTCTCCTTCTCCTTCTT
49026457 CTTCTCCTTCTCCTTCTCCTTCTT
1 CTTCTCCTTCTCCTTCTCCTTCTT
49026481 ATATGCGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (24 bp):
CTTCTCCTTCTCCTTCTCCTTCTT
Found at i:49028394 original size:14 final size:14
Alignment explanation
Indices: 49028375--49028403 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49028365 TTTCTAACAA
49028375 AGTTTTCAGAATTT
1 AGTTTTCAGAATTT
49028389 AGTTTTCAGAATTT
1 AGTTTTCAGAATTT
49028403 A
1 A
49028404 CTTATTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
AGTTTTCAGAATTT
Found at i:49030697 original size:5 final size:5
Alignment explanation
Indices: 49030687--49030715 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
49030677 ATCCGGAAGC
49030687 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
49030716 TTCACTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:49035349 original size:29 final size:29
Alignment explanation
Indices: 49035310--49035384 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
49035300 GGTTGAGAGA
* *
49035310 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
49035339 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
49035368 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
49035385 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:49054630 original size:18 final size:16
Alignment explanation
Indices: 49054593--49054625 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49054583 ACTATGAAGT
49054593 TTGATAAAAATAAATA
1 TTGATAAAAATAAATA
*
49054609 TTGATATAAATAAATA
1 TTGATAAAAATAAATA
49054625 T
1 T
49054626 ATTGAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TTGATAAAAATAAATA
Found at i:49055023 original size:30 final size:30
Alignment explanation
Indices: 49054989--49055051 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
49054979 ACTTAACAAG
*
49054989 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
* *
49055019 CAAATATCTTTAAAATAATAACAAAGTTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
49055049 CAA
1 CAA
49055052 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:49055501 original size:22 final size:21
Alignment explanation
Indices: 49055476--49055520 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
49055466 ATTTAAGTCT
*
49055476 TTTTATATTA-TTACAAGATCTA
1 TTTTAT-TTAGTTAAAAGA-CTA
49055498 TTTTATTTAGTTAAAAGACTA
1 TTTTATTTAGTTAAAAGACTA
49055519 TT
1 TT
49055521 ACAACTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTATTTAGTTAAAAGACTA
Found at i:49066552 original size:20 final size:21
Alignment explanation
Indices: 49066529--49066573 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
49066519 TTAATCTCAT
49066529 TTTTCT-ATATTTGTAAATAG
1 TTTTCTAATATTTGTAAATAG
*
49066549 TTTTTTAATATTTGTAAATAG
1 TTTTCTAATATTTGTAAATAG
49066570 TTTT
1 TTTT
49066574 TTAAGCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTTCTAATATTTGTAAATAG
Found at i:49066559 original size:21 final size:21
Alignment explanation
Indices: 49066535--49066577 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
49066525 TCATTTTTCT
49066535 ATATTTGTAAATAGTTTTTTA
1 ATATTTGTAAATAGTTTTTTA
49066556 ATATTTGTAAATAGTTTTTTA
1 ATATTTGTAAATAGTTTTTTA
49066577 A
1 A
49066578 GCATATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
ATATTTGTAAATAGTTTTTTA
Found at i:49067647 original size:22 final size:22
Alignment explanation
Indices: 49067622--49067665 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
49067612 CTATTCTATC
49067622 GAGCAAAGTTTTAATAGAGTTT
1 GAGCAAAGTTTTAATAGAGTTT
49067644 GAGCAAAGTTTTAATAGAGTTT
1 GAGCAAAGTTTTAATAGAGTTT
49067666 TTAGACTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (22 bp):
GAGCAAAGTTTTAATAGAGTTT
Found at i:49069778 original size:3 final size:3
Alignment explanation
Indices: 49069770--49069812 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
49069760 TTCAAAGATG
49069770 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
49069813 AAGTCCTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49075113 original size:10 final size:10
Alignment explanation
Indices: 49075098--49075128 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
49075088 CCTTGCTTTA
49075098 TTATATATAT
1 TTATATATAT
49075108 TTATATATAT
1 TTATATATAT
*
49075118 ATATATATAT
1 TTATATATAT
49075128 T
1 T
49075129 CTAGTCTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATATATAT
Found at i:49075560 original size:31 final size:29
Alignment explanation
Indices: 49075485--49075543 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
49075475 TTTTTATTTT
49075485 TCATAATTACATATAAAAATAAAATATTA
1 TCATAATTACATATAAAAATAAAATATTA
49075514 TCATAATTACATATAAAAA-AAAATATTA
1 TCATAATTACATATAAAAATAAAATATTA
49075542 TC
1 TC
49075544 GTTTAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TCATAATTACATATAAAAATAAAATATTA
Found at i:49077778 original size:46 final size:46
Alignment explanation
Indices: 49077692--49077817 Score: 114
Period size: 46 Copynumber: 2.7 Consensus size: 46
49077682 TTATGAGAGC
** * **
49077692 CAGTGTAAGACCATGTCTAGGACGTGGCATCAAC-ATTGAGACGAGT
1 CAGTGTAAGACCATGTCCGGGACATGGCATCGGCTA-TGAGACGAGT
** * *
49077738 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTATGAGATGTGT
1 -C-AGTGTAAGACCATGTCCGGGACATGGCATCGGCTATGAGACGAGT
*
49077784 CGGTGTAAGACCATGTCCGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCCGGGACATGGCATCGGC
49077818 ACAGATATGC
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
44 8 0.12
45 13 0.20
46 22 0.34
47 13 0.20
48 9 0.14
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCCGGGACATGGCATCGGCTATGAGACGAGT
Found at i:49078023 original size:20 final size:20
Alignment explanation
Indices: 49077998--49078042 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
49077988 TAATTGGTAT
*
49077998 GTATAAAATGTGAGCTCAAC
1 GTATAAAATGTGACCTCAAC
*
49078018 GTATAAAATGTGACCTCAAT
1 GTATAAAATGTGACCTCAAC
49078038 GTATA
1 GTATA
49078043 TGCTATGTGA
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:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
GTATAAAATGTGACCTCAAC
Found at i:49079835 original size:16 final size:18
Alignment explanation
Indices: 49079797--49079836 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49079787 TATTTGAATC
*
49079797 TTTATTCAACTACTATAA
1 TTTATTCAACTACAATAA
49079815 TTTATTCAACT-CAAT-A
1 TTTATTCAACTACAATAA
49079831 TTTATT
1 TTTATT
49079837 TTATATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 3 0.14
18 11 0.52
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATTCAACTACAATAA
Found at i:49080068 original size:13 final size:13
Alignment explanation
Indices: 49080050--49080078 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49080040 TTAATTAATT
49080050 AAGTAATAATTCA
1 AAGTAATAATTCA
49080063 AAGTAATAATTCA
1 AAGTAATAATTCA
49080076 AAG
1 AAG
49080079 AACTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (13 bp):
AAGTAATAATTCA
Found at i:49090927 original size:40 final size:40
Alignment explanation
Indices: 49090868--49091009 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
49090858 AAATTGAATG
* * *
49090868 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
49090908 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
49090948 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
49090988 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49091010 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49091033 original size:40 final size:39
Alignment explanation
Indices: 49090906--49091035 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
49090896 ATGCTGGAAA
* * *
49090906 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
49090947 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
49090985 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
49091026 TTATATCCGG
1 TTATATCCGG
49091036 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:49103852 original size:42 final size:42
Alignment explanation
Indices: 49103792--49103903 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
49103782 TGTGCTATCG
* *
49103792 TGTAAGACCACGTCTGGGA-TGTTGGCATCG-TACTTGATTTCA
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATA-TTGATTACA
** *
49103834 TGTAAGACCTTGTTTGGGACAGTGGCATCGATATTGATTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTGATTACA
*
49103876 TGTAAGACCACATCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
49103904 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 54 0.93
43 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTGATTACA
Found at i:49105653 original size:28 final size:28
Alignment explanation
Indices: 49105613--49105667 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
49105603 ACAAGGCTTC
49105613 TATCAAATGACGAATGATTGGTTCAGTT
1 TATCAAATGACGAATGATTGGTTCAGTT
49105641 TATCAAATGACGAATGATTGGTTCAGT
1 TATCAAATGACGAATGATTGGTTCAGT
49105668 CAATACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (28 bp):
TATCAAATGACGAATGATTGGTTCAGTT
Found at i:49108741 original size:40 final size:40
Alignment explanation
Indices: 49108696--49108863 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
49108686 CGGAATATAA
49108696 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * * *
49108736 CCGGATAGAATGTCTCGCACGAATGCCTTGGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49108776 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49108816 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49108856 CCGGATAT
1 CCGGATAT
49108864 CATTCAATTT
Statistics
Matches: 100, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 99 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49115949 original size:40 final size:40
Alignment explanation
Indices: 49115904--49116071 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
49115894 CGGAATATAA
49115904 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * * *
49115944 CCGGATAGAATGTCTCGCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49115984 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49116024 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49116064 CCGGATAT
1 CCGGATAT
49116072 CATTCAATTT
Statistics
Matches: 100, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 99 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49116051 original size:80 final size:80
Alignment explanation
Indices: 49115920--49116069 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
49115910 ATAACCACGT
* *
49115920 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGTCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGTCTTCGGGGCTTAGCC
49115985 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * *
49116000 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGTCTTCGGGGCTTAG
49116063 CCCGGAT
64 CCCGGAT
49116070 ATCATTCAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGTCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:49120400 original size:19 final size:19
Alignment explanation
Indices: 49120376--49120421 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
49120366 TTTTGTCTTT
49120376 GAAATTTTGA-TAAATTTGA
1 GAAATTTTGACTAAA-TTGA
*
49120395 GAAATTTGGACTAAATTGA
1 GAAATTTTGACTAAATTGA
49120414 GAAATTTT
1 GAAATTTT
49120422 TAAATTGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (19 bp):
GAAATTTTGACTAAATTGA
Found at i:49121061 original size:42 final size:42
Alignment explanation
Indices: 49120950--49121092 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
49120940 TGTGTTATCG
*
49120950 TGTAAGACCACATCTGGGACGTTGGCATC-A-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGG-CGTTGGCATCGATAC-T-TGATTT-CA
*
49120994 TGTAAGACCACGTCTGGGCGTTGGCATCG-TACTTGATTTCG
1 TGTAAGACCACGTCTGGGCGTTGGCATCGATACTTGATTTCA
** * *
49121035 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGG-C-GTTGGCATCGATACTTGATTTCA
49121078 TGTAAGACCACGTCT
1 TGTAAGACCACGTCT
49121093 AGTACGTTGG
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
41 17 0.20
42 15 0.18
43 34 0.40
44 19 0.22
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGCGTTGGCATCGATACTTGATTTCA
Found at i:49121084 original size:43 final size:41
Alignment explanation
Indices: 49120950--49121110 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
49120940 TGTGTTATCG
* *
49120950 TGTAAGACCACATCTGGGACGTTGGCATC-AACTTATGATTTACA
1 TGTAAGACCACGTCTGGG-CGTTGGCATCGTAC-T-TGA-TTACA
* *
49120994 TGTAAGACCACGTCTGGGCGTTGGCATCGTACTTGATTTCG
1 TGTAAGACCACGTCTGGGCGTTGGCATCGTACTTGATTACA
** *
49121035 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGG-C-GTTGGCATCG-TACTTGATTACA
** *
49121078 TGTAAGACCACGTCTAGTACGTTGGCATTGTAC
1 TGTAAGACCACGTCT-GGGCGTTGGCATCGTAC
49121111 GAGCTTTTTG
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 19 0.20
42 15 0.16
43 42 0.44
44 20 0.21
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGCGTTGGCATCGTACTTGATTACA
Found at i:49121101 original size:85 final size:85
Alignment explanation
Indices: 49120947--49121110 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
49120937 ATATGTGTTA
*
49120947 TCGTGTAAGACCACATCTGGGACGTTGGCATCAACTTATGATTTACATGTAAGACCACGTCTGGG
1 TCGTGTAAGACCACATCTGGGACGTTGGCATCAACTTATGATTTACATGTAAGACCACGTCTGGA
49121012 CGTTGGCATCGTACTTGATT
66 CGTTGGCATCGTACTTGATT
***
49121032 TCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATA-TT-TGA-TTACATGTAAGACCACGTCT
1 TCGTGTAAGACCACATCTGGGAC-GTTGGCATC-A-ACTTATGATTTACATGTAAGACCACGTCT
* *
49121093 AGTACGTTGGCATTGTAC
63 -GGACGTTGGCATCGTAC
49121111 GAGCTTTTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
84 20 0.29
85 44 0.64
86 4 0.06
87 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (85 bp):
TCGTGTAAGACCACATCTGGGACGTTGGCATCAACTTATGATTTACATGTAAGACCACGTCTGGA
CGTTGGCATCGTACTTGATT
Found at i:49123568 original size:18 final size:18
Alignment explanation
Indices: 49123520--49123570 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
49123510 GAAAGCTTTA
49123520 ATCATTTCTAATT-ATTTC
1 ATCATTTCT-ATTCATTTC
*
49123538 AT-ATTT-T-TCCATTTC
1 ATCATTTCTATTCATTTC
49123553 ATCATTTCTATTCATTTC
1 ATCATTTCTATTCATTTC
49123571 TGTTATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.04
15 7 0.26
16 5 0.19
17 5 0.19
18 9 0.33
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
ATCATTTCTATTCATTTC
Found at i:49125661 original size:69 final size:69
Alignment explanation
Indices: 49125582--49125723 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
49125572 AAAGGACATT
49125582 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAATCAAGTCAAAATTTTGTCCATCATCTTT
1 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAATCAAGTCAAAATTTTGTCCATCATCTTT
49125647 TACC
66 TACC
49125651 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAATCAAGTCAAAATTTTGTCCATCATCTTT
1 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAATCAAGTCAAAATTTTGTCCATCATCTTT
49125716 TACC
66 TACC
49125720 TTGG
1 TTGG
49125724 CCGAATTTCG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (69 bp):
TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAATCAAGTCAAAATTTTGTCCATCATCTTT
TACC
Found at i:49126517 original size:43 final size:41
Alignment explanation
Indices: 49126417--49126523 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 41
49126407 TAGGGTTAGT
* * *
49126417 TGAGATTACGTGTAAGACCATATCTGAGATATGGCATCGATA
1 TGAGATT-CATGTAAGACCATAGCTGAGATATGGCATCAATA
* * * * *
49126459 CGAGGCTTCACGTAAGACCATAGCTGGGCTATTGGCATCAATA
1 TGA-GATTCATGTAAGACCATAGCTGAGATA-TGGCATCAATA
49126502 TGAGATTCCATGTAAGACCATA
1 TGAGATT-CATGTAAGACCATA
49126524 TAGGGGATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
42 23 0.45
43 28 0.55
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATAGCTGAGATATGGCATCAATA
Found at i:49134157 original size:43 final size:42
Alignment explanation
Indices: 49134096--49134206 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
49134086 ACCATACCAA
** * *
49134096 TGCCATATCCCATTTATGGTCTTACATGAAATCTCGTATCAG
1 TGCCATATCCCAACTATGGTCTTACAAGAAATCTCATATCAG
*
49134138 TGCCAATATCCCAACTATGGTCTTACAAGAAGTCTCATATC-G
1 TGCC-ATATCCCAACTATGGTCTTACAAGAAATCTCATATCAG
**
49134180 ATGCCATAAGCCAGA-TATGGTCTTACA
1 -TGCCATATCCCA-ACTATGGTCTTACA
49134207 CGTAATCTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 23 0.39
43 36 0.61
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
TGCCATATCCCAACTATGGTCTTACAAGAAATCTCATATCAG
Found at i:49137767 original size:49 final size:49
Alignment explanation
Indices: 49137706--49137859 Score: 272
Period size: 49 Copynumber: 3.1 Consensus size: 49
49137696 ATGTATGAGA
*
49137706 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49137755 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49137804 TGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGCGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49137853 TATATAT
1 TGTATAT
49137860 ATATGTGGCA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 101 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.31
Consensus pattern (49 bp):
TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:49137898 original size:98 final size:97
Alignment explanation
Indices: 49137706--49137889 Score: 242
Period size: 98 Copynumber: 1.9 Consensus size: 97
49137696 ATGTATGAGA
* * * * *
49137706 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGCGAAAGTGTATATATATGTGACAA
* * *
49137771 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 AGCCGAATGGCCAATGTGATG-ATGTGAAAGTG
* *
49137804 TGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGCGAAAGTGTATATATATATGTGGC
1 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGCGAAAGTG--TATATATATGTGAC
*
49137869 AAAGCCGAATGGCTAATGTGA
64 AAAGCCGAATGGCCAATGTGA
49137890 ATGTTGAAAC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
98 46 0.63
100 27 0.37
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (97 bp):
TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGCGAAAGTGTATATATATGTGACAA
AGCCGAATGGCCAATGTGATGATGTGAAAGTG
Found at i:49137985 original size:37 final size:36
Alignment explanation
Indices: 49137930--49138016 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
49137920 AACTTGGAAA
49137930 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
49137968 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
49138005 TATGTCCGGGTA
1 TATGTCCGGGTA
49138017 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:49146580 original size:40 final size:40
Alignment explanation
Indices: 49146506--49146581 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
49146496 ACTACATTTG
* *
49146506 ACACTAAATGTGCGATTTGAAATAACTTCGGCTATAAATA
1 ACACTAAATGTGCGAATTGAAATAACTTCAGCTATAAATA
* * *
49146546 ACACTAAGTGTGCGAATTGGAATAGCTTCAGCTATA
1 ACACTAAATGTGCGAATTGAAATAACTTCAGCTATA
49146582 TGAGGCACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (40 bp):
ACACTAAATGTGCGAATTGAAATAACTTCAGCTATAAATA
Found at i:49149295 original size:43 final size:43
Alignment explanation
Indices: 49149248--49149406 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
49149238 GATTGACAAG
* *
49149248 ATGTGTTTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * *
49149291 ATGTGATTACCTGTAAGACCATGTTTGGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* ** *
49149334 ATTTGATTTTGTGTAAGACCATAG-CTGGG-CTATCGGCATCGA-T
1 ATGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATC-ATT
* * *
49149377 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACGTGTAAGACCATGTCTGGGA
49149407 TATGGCAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 91 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:49153375 original size:20 final size:20
Alignment explanation
Indices: 49153337--49153375 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49153327 AACTTCTTCA
* *
49153337 CTTACTCACTTACTTAAATG
1 CTTACTCACTTAATCAAATG
*
49153357 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
49153376 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATG
Found at i:49153687 original size:58 final size:55
Alignment explanation
Indices: 49153623--49153762 Score: 154
Period size: 58 Copynumber: 2.5 Consensus size: 55
49153613 AACTTACCAT
* * * * * *
49153623 TGCCATGTCTTGACATGGACTTACATGGTATCTTCGCCTTATGAATTCACCAATGCCA
1 TGCCATGTCTTGACATGGTCTTACATGGGACCTTCGCCTTAT--AGTAACCAAT-CAA
* * * **
49153681 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGACCTTCGCCTTATAGTAACCAATCAA
49153736 TGCCATGTCTTGACATGGTCTTACATG
1 TGCCATGTCTTGACATGGTCTTACATG
49153763 ATTTCCTTGC
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
55 27 0.39
56 6 0.09
58 36 0.52
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (55 bp):
TGCCATGTCTTGACATGGTCTTACATGGGACCTTCGCCTTATAGTAACCAATCAA
Found at i:49153775 original size:113 final size:109
Alignment explanation
Indices: 49153613--49153817 Score: 281
Period size: 113 Copynumber: 1.8 Consensus size: 109
49153603 ATCCTTTTGA
* *
49153613 AACTTACCATTGCCATGTCTTGACATGGACTTACATGGTATCTTCGCCTTATG-AA-TTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGACTTACATGATATCTTCGCCTTA-GAAACTT-ACCAA
49153676 TGCCATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 T----TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
49153726 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTT-GCCTTAGAAACTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGACTTACATGATAT-CTTCGCCTTAGAAACTTACCAAT
49153790 TGCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
49153818 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
109 28 0.33
112 1 0.01
113 50 0.60
114 5 0.06
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGACTTACATGATATCTTCGCCTTAGAAACTTACCAATT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:49159422 original size:40 final size:40
Alignment explanation
Indices: 49159360--49159575 Score: 312
Period size: 40 Copynumber: 5.4 Consensus size: 40
49159350 AAACCAAGTA
* * * *
49159360 CCTTCGGGATTTA-ACCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
49159399 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49159439 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49159479 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
49159519 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
49159559 CCTTCAGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
49159576 CGTTATCATC
Statistics
Matches: 164, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 13 0.08
40 151 0.92
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49165274 original size:48 final size:48
Alignment explanation
Indices: 49165203--49165387 Score: 280
Period size: 48 Copynumber: 3.9 Consensus size: 48
49165193 CACCACGATT
* *
49165203 TATGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGTGTTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGA
*
49165251 TATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGA
*
49165299 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGA
* * * * * *
49165347 TATGTGTGCCAGTGTAAGACCATATTTGGGATATGGCATCG
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
49165388 ACCTCGGTAT
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGA
Found at i:49165399 original size:48 final size:49
Alignment explanation
Indices: 49165217--49165430 Score: 166
Period size: 48 Copynumber: 4.4 Consensus size: 49
49165207 AGAGCTAGTA
* * *** * * * *
49165217 TAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGAGA-GCTAATG
1 TAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGCCAGTG
* * ** * * *
49165265 TAAGACCATGTCTGGGACATGGCATCGGTATTGATATGAGA-GCTAGTG
1 TAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGCCAGTG
* * * *
49165313 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTG-TGCCAGTG
1 TAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGCCAGTG
* * * **
49165361 TAAGACCATATTTGGGATATGGCATCGACCTCGGTATGTGATTTC-GTG
1 TAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGCCAGTG
*
49165409 TAAGACCATATCTGTGATATGG
1 TAAGACCATATCTGGGATATGG
49165431 TGTTGATATG
Statistics
Matches: 148, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
48 146 0.99
49 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (49 bp):
TAAGACCATATCTGGGATATGGCATCGACATCGATATGTGATGCCAGTG
Found at i:49165410 original size:96 final size:96
Alignment explanation
Indices: 49165203--49165476 Score: 265
Period size: 96 Copynumber: 2.9 Consensus size: 96
49165193 CACCACGATT
* ** *
49165203 TATGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGAGAGCTAATGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAATGTAA
* ** *
49165268 GACCATGTCTGGGACATGGCATCGGTATTGA
66 GACCATATCTGGGACATGGCATCGACATCGA
* * *
49165299 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAATGTAA
* * * *
49165364 GACCATATTTGGGATATGGCATCGACCTCGG
66 GACCATATCTGGGACATGGCATCGACATCGA
* ** * * * * **
49165395 TATGTGATTTCGTGTAAGACCATATCTGTGATATGG--T--G--TTGATATGAGATTTC-ATGTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGA-GCCAATGTA
*
49165453 AGACCATGTCTGGGACATGGCATC
65 AGACCATATCTGGGACATGGCATC
49165477 AATATGAGGT
Statistics
Matches: 147, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
90 34 0.23
91 1 0.01
92 1 0.01
94 1 0.01
96 110 0.75
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (96 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAATGTAA
GACCATATCTGGGACATGGCATCGACATCGA
Found at i:49165482 original size:42 final size:43
Alignment explanation
Indices: 49165217--49165519 Score: 148
Period size: 48 Copynumber: 6.6 Consensus size: 43
49165207 AGAGCTAGTA
* * *
49165217 TAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGAGAGCTAATG
1 TAAGACCATGTCTGGGACATGGCATC---G--AATATGAGATCTCATG
*
49165265 TAAGACCATGTCTGGGACATGGCATCGGTATTGATATGAGAGCT-AGTG
1 TAAGACCATGTCTGGGACATGGCATC-G-A---ATATGAGATCTCA-TG
*
49165313 TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTG-TGC-CAGTG
1 TAAGACCATGTCTGGGACATGGCATC-G-A---ATATGAGAT-CTCA-TG
* * * * * * *
49165361 TAAGACCATATTTGGGATATGGCATCGACCTCGGTATGTGATTTCGTG
1 TAAGACCATGTCTGGGACATGGCATCGA-----ATATGAGATCTCATG
* * * ** * *
49165409 TAAGACCATATCTGTGATATGGTGTTG-ATATGAGATTTCATG
1 TAAGACCATGTCTGGGACATGGCATCGAATATGAGATCTCATG
* * *
49165451 TAAGACCATGTCTGGGACATGGCATC-AATATGAGGTCCCATA
1 TAAGACCATGTCTGGGACATGGCATCGAATATGAGATCTCATG
* *
49165493 TAAGACCAAGCCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
49165520 GCACCGACAT
Statistics
Matches: 211, Mismatches: 32, Indels: 29
0.78 0.12 0.11
Matches are distributed among these distances:
42 67 0.32
45 1 0.00
46 2 0.01
47 2 0.01
48 137 0.65
49 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATGGCATCGAATATGAGATCTCATG
Found at i:49168383 original size:46 final size:46
Alignment explanation
Indices: 49168333--49168508 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49168323 TGGTTGAGCA
49168333 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49168379 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49168424 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49168472 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49168509 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49168489 original size:93 final size:93
Alignment explanation
Indices: 49168330--49168501 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49168320 GGATGGTTGA
* *
49168330 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49168395 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49168423 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49168488 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49168502 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49177478 original size:25 final size:25
Alignment explanation
Indices: 49177450--49177526 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
49177440 AATGGCCAAA
49177450 GTGATGAATGTGAACATGCATATAT
1 GTGATGAATGTGAACATGCATATAT
* * *
49177475 GTGAT-AAGGCCG-A-ATGGC-CA-AT
1 GTGATGAATG-TGAACAT-GCATATAT
49177497 GTGATGAATGTGAACATGCATATAT
1 GTGATGAATGTGAACATGCATATAT
49177522 GTGAT
1 GTGAT
49177527 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 8 0.21
23 9 0.23
24 9 0.23
25 13 0.33
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
GTGATGAATGTGAACATGCATATAT
Found at i:49177491 original size:47 final size:47
Alignment explanation
Indices: 49177422--49177641 Score: 350
Period size: 47 Copynumber: 4.7 Consensus size: 47
49177412 TTGAATGTGT
* *
49177422 ATATATGAGATAAGGCCGAATGGCCAAAGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
49177469 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
49177516 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * * *
49177563 ATATGTGTGATAAGGCCAAATGGCCAATGTGGTGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
49177610 ATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
49177642 AATGTGTATG
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 159 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:49177499 original size:22 final size:22
Alignment explanation
Indices: 49177473--49177548 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
49177463 ACATGCATAT
49177473 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
49177495 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
49177519 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
49177542 ATGTGAT
1 ATGTGAT
49177549 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:49177768 original size:98 final size:96
Alignment explanation
Indices: 49177612--49177795 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
49177602 GAACATGCAT
* *
49177612 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
49177677 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
49177708 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
49177772 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
49177796 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 52 0.63
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:49177811 original size:50 final size:48
Alignment explanation
Indices: 49177611--49177795 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
49177601 TGAACATGCA
*
49177611 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
49177659 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
49177707 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
49177757 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
49177796 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:49178048 original size:37 final size:37
Alignment explanation
Indices: 49177940--49178048 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
49177930 AGAAATATAT
*
49177940 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
49177977 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
49178014 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
49178049 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:49179373 original size:40 final size:40
Alignment explanation
Indices: 49179318--49179464 Score: 285
Period size: 40 Copynumber: 3.7 Consensus size: 40
49179308 GAGAATTGAG
49179318 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
49179358 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
49179398 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49179438 AGTGATATATCCGGACTAAGTCCCGAA
1 AGTGATATATCCGGGCTAAGTCCCGAA
49179465 ATGTGACAGC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:49181201 original size:40 final size:40
Alignment explanation
Indices: 49181142--49181293 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
49181132 AAATTGAATG
* *
49181142 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTAGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTAGAAATT
* ****
49181182 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAATT
* * *
49181222 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGAAATT
* *
49181262 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
49181294 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 86 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAATT
Found at i:49181277 original size:80 final size:80
Alignment explanation
Indices: 49181144--49181293 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
49181134 ATTGAATGAT
* *
49181144 ATCCGGGCTAAATCCCGAAGACAATTATGCTAGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAATCCCGAAGACAATTATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
49181209 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
49181224 ATCCGGGCTAAGA-CCCGAAGGC-ATTCGTGCGAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAA-ATCCCGAAGACAATT-ATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
49181287 TTTGTGC
64 ATTGTGC
49181294 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (80 bp):
ATCCGGGCTAAATCCCGAAGACAATTATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Found at i:49181307 original size:40 final size:40
Alignment explanation
Indices: 49181180--49181309 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
49181170 ATGCTAGAAA
* * * *
49181180 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
49181220 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
49181260 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
49181300 TTATATCCGG
1 TTATATCCGG
49181310 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:49181308 original size:80 final size:80
Alignment explanation
Indices: 49181142--49181309 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
49181132 AAATTGAATG
* *
49181142 ATATCCGGGCTAAATCCCGAAGACAATTATGCTAGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAATCCCGAAGACAATTATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
49181207 ATTGTGCTAGTGGCT
66 ATTGTGCTAATGGCT
* * * * *
49181222 ACATCCGGGCTAAGA-CCCGAAGGC-ATTCGTGCGAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAA-ATCCCGAAGACAATT-ATGCGAGAAATTATATCCGGGCTAAGACCCGAAGG
* *
49181285 CATTTGTGC-ACATGGTT
64 CAATTGTGCTA-ATGGCT
49181302 ATATCCGG
1 ATATCCGG
49181310 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 4 0.05
80 69 0.93
81 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAATCCCGAAGACAATTATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAATGGCT
Found at i:49182971 original size:40 final size:40
Alignment explanation
Indices: 49182671--49182959 Score: 452
Period size: 40 Copynumber: 7.2 Consensus size: 40
49182661 GGGTGTTACA
* * *
49182671 CGAAAAGCATTCGTGCTAGTGATATATTCGGGCTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
* *
49182711 CGAAGAGCGTTCGTGCTAGTGATGTATCCGGACTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
*
49182751 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
49182791 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
* *
49182831 CGAAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
*
49182871 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
* * * * *
49182911 CGAAGAGCATTCATGCTGGTGTTATATCCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
49182951 CGAAGAGCA
1 CGAAGAGCA
49182960 ATCATGCTGG
Statistics
Matches: 231, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCC
Found at i:49186829 original size:29 final size:29
Alignment explanation
Indices: 49186776--49186840 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
49186766 CAAAGTTGTC
*
49186776 CACACGGGTAGACACATAGGCGTGTGTGA
1 CACACGGGTAGACACACAGGCGTGTGTGA
* * * *
49186805 CGCACGGGTAGACGCACGGGTGTGTGTGA
1 CACACGGGTAGACACACAGGCGTGTGTGA
49186834 CACACGG
1 CACACGG
49186841 CCAGCCCTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.15
Consensus pattern (29 bp):
CACACGGGTAGACACACAGGCGTGTGTGA
Found at i:49189557 original size:48 final size:46
Alignment explanation
Indices: 49189484--49189608 Score: 184
Period size: 48 Copynumber: 2.7 Consensus size: 46
49189474 GGGTGTAATA
*
49189484 CTGATGCCATGTCCCAGACATGGTCTTACACTGACACCTATATACGTTT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGACA-C-AT-TACGTTG
*
49189533 C-GATGCCATGTCCCAGACATGGTCTTACACTGACACATTTCGTTG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGACACATTACGTTG
49189578 CTGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTG
49189609 GCTTACATCG
Statistics
Matches: 73, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
44 11 0.15
45 20 0.27
46 6 0.08
47 1 0.01
48 34 0.47
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
CTGATGCCATGTCCCAGACATGGTCTTACACTGACACATTACGTTG
Found at i:49196682 original size:27 final size:28
Alignment explanation
Indices: 49196652--49196721 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
49196642 ATAGTGAATC
*
49196652 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
49196679 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
49196707 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49196722 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:49196793 original size:42 final size:42
Alignment explanation
Indices: 49196729--49196835 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
49196719 GCTGTACAAT
* *
49196729 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
49196771 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
49196813 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
49196836 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:49201184 original size:27 final size:28
Alignment explanation
Indices: 49201154--49201223 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
49201144 ATAGTGAATC
*
49201154 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
49201181 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
49201209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49201224 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:49201295 original size:42 final size:42
Alignment explanation
Indices: 49201231--49201337 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
49201221 GCTGTACAAT
* *
49201231 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
49201273 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
49201315 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
49201338 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:49224804 original size:43 final size:42
Alignment explanation
Indices: 49224737--49224847 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
49224727 AACAGGTACA
* * ** * *
49224737 ATGCCGATGTCTCGGACGTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAGACAAGGTCTTACACG-AAATCAGATAT-G
** *
49224780 ATGCCTCTGTCCCAGACAAGGTCTTGCACGAAATCAGATATG
1 ATGCCGATGTCCCAGACAAGGTCTTACACGAAATCAGATATG
*
49224822 ATGCCGATGTCCCAGACATGGTCTTA
1 ATGCCGATGTCCCAGACAAGGTCTTA
49224848 TACATAAATC
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACAAGGTCTTACACGAAATCAGATATG
Found at i:49230144 original size:40 final size:40
Alignment explanation
Indices: 49230096--49230300 Score: 290
Period size: 40 Copynumber: 5.2 Consensus size: 40
49230086 GGACTAAGAT
*
49230096 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
49230136 CCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
49230176 CCGAAGGCATTTGTGCTAATGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
49230216 CCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGCC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
49230256 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
49230295 TCGAAG
1 CCGAAG
49230301 ATACTTGGGT
Statistics
Matches: 149, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 133 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:49230223 original size:80 final size:80
Alignment explanation
Indices: 49230096--49230291 Score: 324
Period size: 80 Copynumber: 2.5 Consensus size: 80
49230086 GGACTAAGAT
* *
49230096 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA
1 CCGAAGGCATTTGTGCGAGATGCTATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTA
*
49230161 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGCC
*
49230176 CCGAAGGCATTTGTGCTA-ATGACTATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
1 CCGAAGGCATTTGTGCGAGATG-CTATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
49230240 ATATCCGGGCTAAGCC
65 ATATCCGGGCTAAGCC
*
49230256 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCGAGATGCTATATCCGGGCTAA
49230292 ATCTCGAAGA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
79 8 0.07
80 98 0.91
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATGCTATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTA
TATCCGGGCTAAGCC
Found at i:49231825 original size:48 final size:48
Alignment explanation
Indices: 49231754--49232029 Score: 237
Period size: 48 Copynumber: 5.9 Consensus size: 48
49231744 CACCACGATT
* * *
49231754 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGATGTTGA
1 TATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACGTTGA
* * * *
49231802 TATGAGAGCCAGAGAAAGACCATGTCTGGGACATGGTATCGACGTTGA
1 TATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACGTTGA
* * * * *
49231850 TATGAGAGCAAGTGTAAGACCATATCTAGGACATGGCATTGGCATTGA
1 TATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACGTTGA
* * * * * *
49231898 TATGTGTGCCAGTGTAAGACCATATCTGGGATATGGCATC-AGCCTCGG
1 TATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGA-CGTTGA
* ** *
49231946 TATGTGATTTCA-TGTAAGACCATATCTGGG--AT---AT-GGCGTTGA
1 TATGAGA-GCCAGTGTAAGACCATATCTGGGACATGGCATCGACGTTGA
** *
49231988 TATGAGATTTC-GTGTAAGACCATGTCTGGGACATGGCATCGA
1 TATGAGA-GCCAGTGTAAGACCATATCTGGGACATGGCATCGA
49232030 TATAAAGTTC
Statistics
Matches: 184, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
42 30 0.16
43 2 0.01
44 2 0.01
46 2 0.01
47 2 0.01
48 144 0.78
49 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACGTTGA
Found at i:49232010 original size:42 final size:44
Alignment explanation
Indices: 49231909--49232115 Score: 136
Period size: 42 Copynumber: 4.6 Consensus size: 44
49231899 ATGTGTGCCA
* *
49231909 GTGTAAGACCATATCTGGGATATGGCATCAGCCTCGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGG---CAG-CTCGATATGAGATTTC
* *
49231957 ATGTAAGACCATATCTGGGATATGGC-G-TTGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCAGCTCGATATGAGATTTC
* * * *
49231999 GTGTAAGACCATGTCTGGGACATGGCA--TCGATAT-AAAGTTCC
1 GTGTAAGACCATATCTGGGATATGGCAGCTCGATATGAGA-TTTC
* * * * * * *
49232041 GTATAAGATCATGTTTGGGACATGGCATTGGCATCGACATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCA---GC-TCGATATGAGATTTC
* * *
49232089 GTATAAGACGATATTTGGGATATGGCA
1 GTGTAAGACCATATCTGGGATATGGCA
49232116 TCAGTATGTA
Statistics
Matches: 129, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 68 0.53
44 1 0.01
45 1 0.01
48 55 0.43
49 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCATATCTGGGATATGGCAGCTCGATATGAGATTTC
Found at i:49232077 original size:48 final size:48
Alignment explanation
Indices: 49232021--49232116 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
49232011 GTCTGGGACA
* * *
49232021 TGGCATCGATAT-AAAGTTCCGTATAAGATC-ATGTTTGGGACATGGCAT
1 TGGCATCGACATGAAACTT-CGTATAAGA-CGATATTTGGGACATGGCAT
* *
49232069 TGGCATCGACATGAGACTTCGTATAAGACGATATTTGGGATATGGCAT
1 TGGCATCGACATGAAACTTCGTATAAGACGATATTTGGGACATGGCAT
49232117 CAGTATGTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.02
48 36 0.88
49 4 0.10
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (48 bp):
TGGCATCGACATGAAACTTCGTATAAGACGATATTTGGGACATGGCAT
Found at i:49233745 original size:41 final size:41
Alignment explanation
Indices: 49233700--49233817 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
49233690 TGAAAGATAA
49233700 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
49233741 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
49233771 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
49233812 ATGTAG
1 ATGTAG
49233818 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:49233756 original size:71 final size:71
Alignment explanation
Indices: 49233668--49233831 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
49233658 GAGATGTATC
49233668 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
49233733 AGGACA
66 AGGACA
49233739 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
49233804 AGGACA
66 AGGACA
49233810 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
49233832 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:49243444 original size:19 final size:19
Alignment explanation
Indices: 49243420--49243456 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
49243410 GACACACGGC
49243420 CAGCCCCATGGGCGTGTTT
1 CAGCCCCATGGGCGTGTTT
49243439 CAGCCCCATGGGCGTGTT
1 CAGCCCCATGGGCGTGTT
49243457 GTCCAGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.24
Consensus pattern (19 bp):
CAGCCCCATGGGCGTGTTT
Found at i:49249939 original size:48 final size:48
Alignment explanation
Indices: 49249868--49250039 Score: 227
Period size: 48 Copynumber: 3.6 Consensus size: 48
49249858 CACCACGATT
* *
49249868 TATGAGAACCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * **
49249916 TATGAGACCCAGTGTAAGACCATGTTTGGGACATGGCATCAACATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * *
49249964 TATGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCACCGGCATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
* * * *
49250012 TATGTGTGCCAATGTAAGACCATATCTG
1 TATGAGAGCCAGTGTAAGACCATGTCTG
49250040 AGATATAGCA
Statistics
Matches: 106, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 106 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
Found at i:49250124 original size:42 final size:42
Alignment explanation
Indices: 49250060--49250149 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
49250050 TCGACCTCGG
* * * * *
49250060 TATGTGATTTCATGTAAGACCATATTTGGGATATGGCGTGGA
1 TATGAGATTTCATGTAAGACCATATCTGGGAAATGGCATCGA
* *
49250102 TATGAGATTTCGTGTAAGACCATGTCTGGGAAATGGCATCGA
1 TATGAGATTTCATGTAAGACCATATCTGGGAAATGGCATCGA
49250144 TATGAG
1 TATGAG
49250150 GTCCCGTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.11, G:0.29, T:0.32
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGAAATGGCATCGA
Found at i:49255393 original size:30 final size:30
Alignment explanation
Indices: 49255358--49255417 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49255348 GGTGTAGGGG
* *
49255358 ACACAC-GACTGGATCACACGCCCCTGTGTC
1 ACACACGGACTAGA-CACACACCCCTGTGTC
*
49255388 ACACACGGCCTAGACACACACCCCTGTGTC
1 ACACACGGACTAGACACACACCCCTGTGTC
49255418 TACCCATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.25, C:0.42, G:0.18, T:0.15
Consensus pattern (30 bp):
ACACACGGACTAGACACACACCCCTGTGTC
Found at i:49263144 original size:25 final size:23
Alignment explanation
Indices: 49263115--49263179 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
49263105 AAATAAAAAC
*
49263115 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
49263140 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
49263161 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
49263180 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:49263174 original size:19 final size:20
Alignment explanation
Indices: 49263141--49263179 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
49263131 TCAAATACAT
49263141 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
49263161 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
49263180 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:49275613 original size:20 final size:20
Alignment explanation
Indices: 49275588--49275629 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49275578 AGTCATGGCT
49275588 AGCTATTTACTCTTGCTTTA
1 AGCTATTTACTCTTGCTTTA
49275608 AGCTATTTACTCTTGCTTTA
1 AGCTATTTACTCTTGCTTTA
49275628 AG
1 AG
49275630 ATATATGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (20 bp):
AGCTATTTACTCTTGCTTTA
Found at i:49280265 original size:20 final size:20
Alignment explanation
Indices: 49280219--49280266 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
49280209 CATTGCTTGT
* * *
49280219 AGTATCAACACTTTTCTCAA
1 AGTATCGACACATTTATCAA
49280239 AGTATCGACACATTTATCAA
1 AGTATCGACACATTTATCAA
49280259 AGTATCGA
1 AGTATCGA
49280267 TATCTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
AGTATCGACACATTTATCAA
Found at i:49280274 original size:20 final size:20
Alignment explanation
Indices: 49280235--49280310 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
49280225 AACACTTTTC
*
49280235 TCAAAGTATCGACA-CATTTA
1 TCAAAGTATCGATATC-TTTA
49280255 TCAAAGTATCGATATCTTTA
1 TCAAAGTATCGATATCTTTA
* * * *
49280275 TTATAGTATCGAAACCTTTA
1 TCAAAGTATCGATATCTTTA
***
49280295 TCTTGGTATCGATATC
1 TCAAAGTATCGATATC
49280311 GTTTTACGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 44 0.98
21 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
TCAAAGTATCGATATCTTTA
Found at i:49282818 original size:23 final size:23
Alignment explanation
Indices: 49282788--49282834 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
49282778 TAAGAGTAAA
49282788 AAGGGTTCTTCTAGGCTTAAGAT
1 AAGGGTTCTTCTAGGCTTAAGAT
49282811 AAGGGTTCTTCTAGGCTTAAGAT
1 AAGGGTTCTTCTAGGCTTAAGAT
49282834 A
1 A
49282835 TGAAGAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (23 bp):
AAGGGTTCTTCTAGGCTTAAGAT
Found at i:49283322 original size:47 final size:45
Alignment explanation
Indices: 49283257--49283517 Score: 205
Period size: 47 Copynumber: 5.7 Consensus size: 45
49283247 TTCGTGTGCT
* *
49283257 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GAC-TATGATGAGAGCC
* * * *
49283303 AGTGTAAGACCATGTCTGGGACATGGCATTGCATTGA-GACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG-ACT-ATGATGAGAGCC
* * * *
49283350 AGTGTAAGACATGTCTGAGACATGG-ATTGGCCTCGA-GATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGGCA-TCGACT--ATGATG-AGAGCC
* * * *
49283396 AGTGTAAGACATGTCTGGGACAT-GCATCGACTA-CAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACTATGATGA-GAGCC
49283440 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTATGAT-GA-GAGCC
*
49283487 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
49283518 GCATCATACC
Statistics
Matches: 177, Mismatches: 24, Indels: 27
0.78 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 10 0.06
45 21 0.12
46 68 0.38
47 69 0.39
48 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACTATGATGAGAGCC
Found at i:49283461 original size:45 final size:47
Alignment explanation
Indices: 49283257--49283517 Score: 197
Period size: 46 Copynumber: 5.7 Consensus size: 47
49283247 TTCGTGTGCT
* *
49283257 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATA-TTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GAC-TACATA-GATGAGCC
* * * * *
49283303 AGTGTAAGACCATGTCTGGGACATGGCATTGCATTGAGA-CGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-ACT-ACATAGATGAGCC
* * * * *
49283350 AGTGTAAGA-CATGTCTGAGACATGG-ATTGGCCT-C-GAGATGTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGACTACATAGATG--AGCC
* *
49283396 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACA-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATAGATGAGCC
** *
49283440 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATAGATGAGCC
*
49283487 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
49283518 GCATCATACC
Statistics
Matches: 175, Mismatches: 24, Indels: 31
0.76 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 11 0.06
45 21 0.12
46 69 0.39
47 67 0.38
48 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATAGATGAGCC
Found at i:49284708 original size:21 final size:20
Alignment explanation
Indices: 49284684--49284723 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
49284674 ATGTTCAAGT
*
49284684 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCATG-TGCCCA
49284705 TCCACACGGGCATGTGCCC
1 TCCACACGGGCATGTGCCC
49284724 TGTTTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.40, G:0.28, T:0.17
Consensus pattern (20 bp):
TCCACACGGGCATGTGCCCA
Found at i:49297275 original size:25 final size:25
Alignment explanation
Indices: 49297206--49297274 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
49297196 GAAAATATAA
49297206 TAAATTATCTAAATAATTTTATTTC
1 TAAATTATCTAAATAATTTTATTTC
49297231 TAAATTATCTAAATAATTTTATTTC
1 TAAATTATCTAAATAATTTTATTTC
49297256 TAAATTATCT-AATAATTTT
1 TAAATTATCTAAATAATTTT
49297275 TTTGATTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 9 0.20
25 35 0.80
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAATTATCTAAATAATTTTATTTC
Found at i:49304348 original size:51 final size:49
Alignment explanation
Indices: 49304220--49304358 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 49
49304210 TATTGTGAGG
* * * ** * *
49304220 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAATTGA
* *
49304269 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTATGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAA-T-TGA
* *
49304320 TCACGTGTGTAGTACTGAGTGCAGGCTACTATGCCTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
49304359 AGATAGCTTC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
49 37 0.49
50 1 0.01
51 37 0.49
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAATTGA
Found at i:49307785 original size:29 final size:29
Alignment explanation
Indices: 49307753--49307855 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
49307743 GTGACGAGAT
* *
49307753 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
49307782 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
49307811 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
49307840 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49307856 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:49315712 original size:29 final size:29
Alignment explanation
Indices: 49315680--49315782 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
49315670 GTGACGAGAT
* *
49315680 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
49315709 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
49315738 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
49315767 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49315783 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:49317891 original size:21 final size:21
Alignment explanation
Indices: 49317865--49317909 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
49317855 CGATACATGA
49317865 AACACATTATGGATCCTTTCT
1 AACACATTATGGATCCTTTCT
*
49317886 AACACATTGTGGATCCTTTCT
1 AACACATTATGGATCCTTTCT
49317907 AAC
1 AAC
49317910 TCTATTGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (21 bp):
AACACATTATGGATCCTTTCT
Found at i:49323927 original size:42 final size:42
Alignment explanation
Indices: 49323871--49323993 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
49323861 ATGAAGGTTA
* *
49323871 ATGAGACTATGTGTAAGACCATATATGGGATATGACATTAAC
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGACATTAAC
* * * * * *
49323913 ATGAGACTACGTGTAAGACTACATCTGAGATATGGCATCAAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGACATTAAC
* * *
49323955 ATGAAACTTCGTGTAATACCATATCTGGGATATGACATT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGACATT
49323994 GGTACGATAC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGACATTAAC
Found at i:49333610 original size:25 final size:25
Alignment explanation
Indices: 49333571--49333636 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
49333561 TTCCCCAATG
* *
49333571 TCTGCTGCATTGCCGTCGACAGTCC
1 TCTGCTGCATCGCCGTCAACAGTCC
* *
49333596 TCTGCTACATCGCCGTCAATAGTCC
1 TCTGCTGCATCGCCGTCAACAGTCC
*
49333621 TCTGCTGCGTCGCCGT
1 TCTGCTGCATCGCCGT
49333637 GTAAGTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.12, C:0.36, G:0.23, T:0.29
Consensus pattern (25 bp):
TCTGCTGCATCGCCGTCAACAGTCC
Found at i:49339128 original size:8 final size:8
Alignment explanation
Indices: 49339101--49339151 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
49339091 ATGTATCGGC
*
49339101 AAAAGTCG
1 AAAAGCCG
*
49339109 AAATGCCG
1 AAAAGCCG
*
49339117 AAAAGCCA
1 AAAAGCCG
49339125 AAAAGCCG
1 AAAAGCCG
*
49339133 AAATGCCG
1 AAAAGCCG
*
49339141 AAAAGCTG
1 AAAAGCCG
49339149 AAA
1 AAA
49339152 GTTTGGCTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.51, C:0.20, G:0.22, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:49339134 original size:24 final size:24
Alignment explanation
Indices: 49339101--49339146 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
49339091 ATGTATCGGC
*
49339101 AAAAGTCGAAATGCCGAAAAGCCA
1 AAAAGCCGAAATGCCGAAAAGCCA
49339125 AAAAGCCGAAATGCCGAAAAGC
1 AAAAGCCGAAATGCCGAAAAGC
49339147 TGAAAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.07
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCA
Found at i:49339388 original size:29 final size:28
Alignment explanation
Indices: 49339332--49339446 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
49339322 ATGAGCATGA
* **
49339332 ATATGAATGTGATTGGGCCTAACAGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
49339360 ATATAAATGTGACTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
49339389 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
49339418 ATATGAATATGATTGGACTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
49339446 A
1 A
49339447 GAGACAGGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 26 0.35
29 48 0.65
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:49339454 original size:57 final size:57
Alignment explanation
Indices: 49339340--49339455 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 57
49339330 GAATATGAAT
* * * *
49339340 GTGATTGGGCCTAACAGGCCATATAAATGTGACTTGGGCCTAATGGGCCATATACAG
1 GTGATTGGGCCTAACAGGCCATATAAATATGACTTGGACCTAATGGGCCAGAGACAG
** * *
49339397 GTGATTTGGGCCTAATGGGCCATATGAATATGA-TTGGACTTAATGGGCCAGAGACAG
1 GTGA-TTGGGCCTAACAGGCCATATAAATATGACTTGGACCTAATGGGCCAGAGACAG
49339454 GT
1 GT
49339456 ATGTGAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
57 26 0.52
58 24 0.48
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (57 bp):
GTGATTGGGCCTAACAGGCCATATAAATATGACTTGGACCTAATGGGCCAGAGACAG
Found at i:49343582 original size:26 final size:23
Alignment explanation
Indices: 49343553--49343600 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
49343543 ACATACATTC
49343553 TTCATGTCATATAATCACAAACCAAT
1 TTCATGT-ATAT-ATC-CAAACCAAT
*
49343579 TTCATGTTTATATCCAAACCAA
1 TTCATGTATATATCCAAACCAA
49343601 AACATACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 3 0.14
26 7 0.33
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (23 bp):
TTCATGTATATATCCAAACCAAT
Found at i:49345284 original size:20 final size:20
Alignment explanation
Indices: 49345259--49345304 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49345249 ATTGTGCCTT
49345259 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
49345279 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
49345298 GCCCATA
1 GCCCATA
49345305 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:49351039 original size:5 final size:5
Alignment explanation
Indices: 49351029--49351065 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
49351019 ATGAAGAGAG
* *
49351029 AAGAA AAGAA AAGAA AAGAA AAGAA AATAG AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
49351066 AAACTGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:49353616 original size:20 final size:20
Alignment explanation
Indices: 49353591--49353636 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49353581 ATTGGGCCTT
49353591 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
49353611 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
49353630 GCCCATA
1 GCCCATA
49353637 ACAAAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:49356277 original size:42 final size:43
Alignment explanation
Indices: 49356208--49356289 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
49356198 TCTTACATGT
49356208 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACAAAA
1 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACAAAA
* *
49356251 AATCAAATA-CGATGCCGA-TGTCCCAGACATGGTCTTACA
1 AATCAAATATCGATGCC-ACTATCCCAGACAGGGTCTTACA
49356290 CATAATTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACAAAA
Done.