Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 50 of 207
Found at i:14590528 original size:41 final size:40
Alignment explanation
Indices: 14590478--14590611 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 40
14590468 GCATGTATAT
* *
14590478 TGCCAGTGAATCAATTTAGGCTTAAAGCCTAGCAGGCTAAG
1 TGCCGGTGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAG
* *
14590519 TGCCGGTGAACTGAATCAGGC-TATAAGCCTAGCTGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
*
14590560 TGCCGGTG-ATCTAAATCAGGCTTTAAGCCTAGCAGGCTAAG
1 TGCCGGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAG
14590601 TGCCGGTGAAT
1 TGCCGGTGAAT
14590612 ATTTTTTAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 70 0.88
42 6 0.08
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TGCCGGTGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAG
Found at i:14593382 original size:101 final size:102
Alignment explanation
Indices: 14593267--14593449 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 102
14593257 AGTGATGGTA
* * *
14593267 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAT-GTCGCATGTGTAGTA
1 ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTACC-GAATAGTA-ATGGTCACATGTGTAGTA
14593329 CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
64 CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
* *
14593368 ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTATCGGATAGTAATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTACCGAATAGTAATGGTCACATGTGTAGTACT
14593433 ATGTGCAGGCTACTATG
66 ATGTGCAGGCTACTATG
14593450 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 3 0.04
101 37 0.50
102 34 0.46
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (102 bp):
ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTACCGAATAGTAATGGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
Found at i:14593408 original size:51 final size:49
Alignment explanation
Indices: 14593270--14593447 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 49
14593260 GATGGTAACG
* * *
14593270 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATATGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTCTACCGGATA-G-TATGTCACA
* *
14593320 TGTGTAGTACTATGTGCAGGCTACTATG-CGTACCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTC-TACCGGATAG-TAT-G-TCACA
* *
14593371 TGTGTAGTACTATGTGCAGGCTACCACGTCTATCGGATAGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTCTACCGGATAGT-AT-GTCACA
14593422 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
14593448 TGTGAACCGG
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
49 1 0.01
50 37 0.34
51 68 0.62
52 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTCTACCGGATAGTATGTCACA
Found at i:14593457 original size:102 final size:101
Alignment explanation
Indices: 14593267--14593457 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 101
14593257 AGTGATGGTA
* * *
14593267 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATATGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTACCAGAATGATATGTCACATGTGTAGTACTA
*
14593332 TGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
66 TGTGCAGGCTACTATGCGAACCGGATAGCTTCGATC
* *
14593368 ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTATC-GGAT-AGTAATGGTCACATGTGTAGTA
1 ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTACCAGAATGA-T-AT-GTCACATGTGTAGTA
*
14593431 CTATGTGCAGGCTACTATGTGAACCGG
63 CTATGTGCAGGCTACTATGCGAACCGG
14593458 TATCATTAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
99 1 0.01
100 4 0.05
101 36 0.45
102 39 0.49
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
ACGTGTGTAGTACTATGTGCAGGCTACCACGTCTACCAGAATGATATGTCACATGTGTAGTACTA
TGTGCAGGCTACTATGCGAACCGGATAGCTTCGATC
Found at i:14593534 original size:46 final size:43
Alignment explanation
Indices: 14593453--14593551 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 43
14593443 TACTATGTGA
*
14593453 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCGC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATC-C
*
14593496 ACCGGATATCATTAATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
14593542 ACCGTGTATC
1 ACCG-GTATC
14593552 TGTTATTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
43 5 0.10
44 12 0.24
45 2 0.04
46 26 0.53
47 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:14593696 original size:16 final size:16
Alignment explanation
Indices: 14593675--14593706 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14593665 TGATTGAGAG
*
14593675 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
14593691 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
14593707 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:14606955 original size:20 final size:21
Alignment explanation
Indices: 14606926--14606964 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14606916 ACAACATTAA
*
14606926 TTCATTAATTA-GTATATTTG
1 TTCATGAATTAGGTATATTTG
14606946 TTCATGAATTAGGTATATT
1 TTCATGAATTAGGTATATT
14606965 CATCCATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (21 bp):
TTCATGAATTAGGTATATTTG
Found at i:14607903 original size:115 final size:115
Alignment explanation
Indices: 14607641--14607892 Score: 504
Period size: 115 Copynumber: 2.2 Consensus size: 115
14607631 GCCCTAAATG
14607641 GGTCTGCTCACACAAGTTGACGGTCGGAATGTAGCTATACAATGCCGTTCTCACAAGTTGATGAG
1 GGTCTGCTCACACAAGTTGACGGTCGGAATGTAGCTATACAATGCCGTTCTCACAAGTTGATGAG
14607706 TATCCGTAAAAAATGTCTGGACTTAGCCATTGATAGGACATGGTAACCTA
66 TATCCGTAAAAAATGTCTGGACTTAGCCATTGATAGGACATGGTAACCTA
14607756 GGTCTGCTCACACAAGTTGACGGTCGGAATGTAGCTATACAATGCCGTTCTCACAAGTTGATGAG
1 GGTCTGCTCACACAAGTTGACGGTCGGAATGTAGCTATACAATGCCGTTCTCACAAGTTGATGAG
14607821 TATCCGTAAAAAATGTCTGGACTTAGCCATTGATAGGACATGGTAACCTA
66 TATCCGTAAAAAATGTCTGGACTTAGCCATTGATAGGACATGGTAACCTA
14607871 GGTCTGCTCACACAAGTTGACG
1 GGTCTGCTCACACAAGTTGACG
14607893 TTTAAAATGT
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 137 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (115 bp):
GGTCTGCTCACACAAGTTGACGGTCGGAATGTAGCTATACAATGCCGTTCTCACAAGTTGATGAG
TATCCGTAAAAAATGTCTGGACTTAGCCATTGATAGGACATGGTAACCTA
Found at i:14608892 original size:5 final size:5
Alignment explanation
Indices: 14608884--14608918 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
14608874 TTTGTTTTTT
14608884 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
14608919 TCAAATTACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:14611253 original size:40 final size:40
Alignment explanation
Indices: 14611195--14611347 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
14611185 GGTTTCAGTA
* *
14611195 CAATGCCATGTCTT-ACATGCTTACGGTACCATAATCAATT
1 CAATGGCATG-CTTAACATGCTTACGGTAACATAATCAATT
*
14611235 CAATGGCATGGTTAACATGCTTACGGTAACATAATCAATT
1 CAATGGCATGCTTAACATGCTTACGGTAACATAATCAATT
*
14611275 CAATGGCATGCTTAACATGCTTAAGGTAACATAATCAATT
1 CAATGGCATGCTTAACATGCTTACGGTAACATAATCAATT
* * * * * *
14611315 CAATTGAAAGCTTATCATACTTATGGTAACATA
1 CAATGGCATGCTTAACATGCTTACGGTAACATA
14611348 TTTAGTATAT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
39 2 0.02
40 99 0.98
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (40 bp):
CAATGGCATGCTTAACATGCTTACGGTAACATAATCAATT
Found at i:14619263 original size:47 final size:47
Alignment explanation
Indices: 14619204--14619743 Score: 837
Period size: 47 Copynumber: 11.3 Consensus size: 47
14619194 CTGCCAAGAG
14619204 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14619251 AGTGTATGTATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14619298 AGTGTATGTATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14619345 AGTGTATGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14619396 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14619447 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
14619494 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * *
14619541 AGGGTATATGTGTGATAAGGCCTAATAGCCGAGGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14619588 AGTGTATATATGTAATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14619635 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14619682 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14619729 AGTGTATATATGTGA
1 AGTGTATATATGTGA
14619744 CAGGGCCGAG
Statistics
Matches: 466, Mismatches: 19, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
47 380 0.82
49 4 0.01
51 73 0.16
53 5 0.01
55 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:14619969 original size:37 final size:37
Alignment explanation
Indices: 14619913--14619991 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
14619903 CCGAGCTCTA
* * *
14619913 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
14619950 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
14619987 AAGAC
1 AAGAC
14619992 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:14622172 original size:24 final size:24
Alignment explanation
Indices: 14622105--14622172 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
14622095 GTGATCATCT
* *
14622105 TCTTCATCTTCA-CTCCACCCTCG
1 TCTTCATCTTCATCTCCATCGTCG
*
14622128 TAC-TCATCTTCATCTCTATCGTCG
1 T-CTTCATCTTCATCTCCATCGTCG
*
14622152 TCTTCATCTTCATATCCATCG
1 TCTTCATCTTCATCTCCATCG
14622173 CTTTCCTCCG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 11 0.30
24 26 0.70
ACGTcount: A:0.16, C:0.38, G:0.06, T:0.40
Consensus pattern (24 bp):
TCTTCATCTTCATCTCCATCGTCG
Found at i:14623595 original size:10 final size:10
Alignment explanation
Indices: 14623580--14623621 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
14623570 TCGACAAGAA
14623580 AAAATATTTT
1 AAAATATTTT
14623590 AAAATATTTT
1 AAAATATTTT
14623600 AAAATA--TT
1 AAAATATTTT
14623608 -AAATATTTT
1 AAAATATTTT
14623617 AAAAT
1 AAAAT
14623622 TAACTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 5 0.17
8 2 0.07
9 2 0.07
10 20 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AAAATATTTT
Found at i:14625994 original size:11 final size:11
Alignment explanation
Indices: 14625980--14626061 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 11
14625970 GTTTTGCTAC
14625980 TATTTTCTTAT
1 TATTTTCTTAT
* *
14625991 TATTATTTTTAC
1 TATT-TTCTTAT
*
14626003 TGTTTTCTTAT
1 TATTTTCTTAT
*
14626014 T-GTTTCATTAT
1 TATTTTC-TTAT
* *
14626025 TGTTTTGTTAT
1 TATTTTCTTAT
14626036 TA-TTTCATTAT
1 TATTTTC-TTAT
* *
14626047 TATGTTATTAT
1 TATTTTCTTAT
14626058 TATT
1 TATT
14626062 ATTTTTTATT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
10 7 0.13
11 33 0.62
12 13 0.25
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.68
Consensus pattern (11 bp):
TATTTTCTTAT
Found at i:14626035 original size:22 final size:22
Alignment explanation
Indices: 14625982--14626061 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
14625972 TTTGCTACTA
** *
14625982 TTTTCTTATTATTATTTTTACTG
1 TTTTCTTATTATT-TCATTATTG
*
14626005 TTTTCTTATTGTTTCATTATTG
1 TTTTCTTATTATTTCATTATTG
* *
14626027 TTTTGTTATTATTTCATTATTA
1 TTTTCTTATTATTTCATTATTG
* *
14626049 TGTTATTATTATT
1 TTTTCTTATTATT
14626062 ATTTTTTATT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
22 36 0.75
23 12 0.25
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTCTTATTATTTCATTATTG
Found at i:14626272 original size:22 final size:21
Alignment explanation
Indices: 14626245--14626285 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14626235 CCGGCCCGAT
*
14626245 TTTTAATAAACACAAAAAAATA
1 TTTTAA-AAACAAAAAAAAATA
*
14626267 TTTTAAAAATAAAAAAAAA
1 TTTTAAAAACAAAAAAAAA
14626286 ATAAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
TTTTAAAAACAAAAAAAAATA
Found at i:14632804 original size:16 final size:16
Alignment explanation
Indices: 14632785--14632836 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
14632775 GCCCATAATG
* *
14632785 ATTTAATCTTGAAAAA
1 ATTTAAACTTAAAAAA
14632801 ATTTAAACTTAAAAAA
1 ATTTAAACTTAAAAAA
* ** *
14632817 ACTTAAGTTTAAGAAA
1 ATTTAAACTTAAAAAA
14632833 ATTT
1 ATTT
14632837 GATCCCAATC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTTAAACTTAAAAAA
Found at i:14633567 original size:18 final size:19
Alignment explanation
Indices: 14633546--14633587 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14633536 TTGTTTAGAG
14633546 TTTTACAATTT-TTA-ATAA
1 TTTTACAATTTGTTACA-AA
*
14633564 TTTTATAATTTGTTACAAA
1 TTTTACAATTTGTTACAAA
14633583 TTTTA
1 TTTTA
14633588 ATAATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 10 0.48
20 1 0.05
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTACAATTTGTTACAAA
Found at i:14633579 original size:28 final size:28
Alignment explanation
Indices: 14633547--14633618 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
14633537 TGTTTAGAGT
*
14633547 TTTACAATTTTTAATAATTTTATAATT-
1 TTTACAATTTTTAATAATTTTACAATTA
*
14633574 TGTTACAAATTTTAATAATTTTACAATTA
1 T-TTACAATTTTTAATAATTTTACAATTA
*
14633603 TTTATAATATTTTAAT
1 TTTACAAT-TTTTAAT
14633619 TACATCTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 29 0.76
29 8 0.21
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (28 bp):
TTTACAATTTTTAATAATTTTACAATTA
Found at i:14633609 original size:18 final size:19
Alignment explanation
Indices: 14633564--14633610 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
14633554 TTTTTAATAA
14633564 TTTTATAATTTGTTACAAAT
1 TTTTATAA-TTGTTACAAAT
*
14633584 TTTAATAATT-TTAC-AAT
1 TTTTATAATTGTTACAAAT
14633601 TATTTATAAT
1 T-TTTATAAT
14633611 ATTTTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 2 0.08
20 7 0.29
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTATAATTGTTACAAAT
Found at i:14645673 original size:102 final size:101
Alignment explanation
Indices: 14645529--14645727 Score: 290
Period size: 102 Copynumber: 2.0 Consensus size: 101
14645519 GCCTATCAAC
** * * **
14645529 TCTTTTAATATTTAGGATTCCAGGATATCACATTTTCTCCTACAAGTTGATAGAAGGATTGAGGA
1 TCTTTTAATATTTAGGATTCCAAAATATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAAA
* *
14645594 GAAACTCTAATTTGTCATAATTTATAACTCGATTTG
66 GAAACTCTAATTTGTCACAAATTATAACTCGATTTG
* *
14645630 TCTTTTAACTTTTTATGATTCCAAAATATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAA
1 TCTTTTAA-TATTTAGGATTCCAAAATATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAA
*
14645695 AGAAGCTCTAATTTGTCACAAATTATAACTCGA
65 AGAAACTCTAATTTGTCACAAATTATAACTCGA
14645728 CCTAATAAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 8 0.09
102 78 0.91
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (101 bp):
TCTTTTAATATTTAGGATTCCAAAATATCACATTTTCACCTACAAGTTGATAGAAAGATTGAAAA
GAAACTCTAATTTGTCACAAATTATAACTCGATTTG
Found at i:14647414 original size:26 final size:26
Alignment explanation
Indices: 14647360--14647408 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
14647350 TCATACCTTA
* *
14647360 TTTCACTATCTCAATTCCATTGATTT
1 TTTCACTATCTCAATTCCAATAATTT
14647386 TTTCAC-ATCTC-ATTCCAATAATT
1 TTTCACTATCTCAATTCCAATAATT
14647409 CATTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 5 0.24
26 6 0.29
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTCACTATCTCAATTCCAATAATTT
Found at i:14648808 original size:27 final size:26
Alignment explanation
Indices: 14648771--14648826 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
14648761 AATCCCAAAC
* *
14648771 TTTCTTTCTTTCCTTCCCT-TTTTCTT
1 TTTCTTTCTTT-CTCCCCTGTTTTCGT
14648797 TTTCTTTCCTTTCTCCCCTGTTTTCGT
1 TTTCTTT-CTTTCTCCCCTGTTTTCGT
14648824 TTT
1 TTT
14648827 GCTCTCTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTCTTTCTTTCTCCCCTGTTTTCGT
Found at i:14648890 original size:5 final size:5
Alignment explanation
Indices: 14648880--14648912 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
14648870 TTCTTTTATT
14648880 ATATA ATATA ATATA ATAT- ATATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
14648913 CTTAACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:14651301 original size:13 final size:13
Alignment explanation
Indices: 14651283--14651310 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14651273 GATAAAAAAA
14651283 CATATAGAATACC
1 CATATAGAATACC
14651296 CATATAGAATACC
1 CATATAGAATACC
14651309 CA
1 CA
14651311 AAAGAGATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:14653744 original size:28 final size:26
Alignment explanation
Indices: 14653687--14653744 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
14653677 AAATCCCAAA
*
14653687 TTTTCTTTCTTTCCGTCCCTTTTTTCT
1 TTTTCTTTCTTTCCG-CCCTGTTTTCT
*
14653714 TTTTCTTTCCTTTCTC-CCCTGTTTTCG
1 TTTTCTTT-CTTTC-CGCCCTGTTTTCT
14653741 TTTT
1 TTTT
14653745 GCTCTCTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 21 0.78
28 5 0.19
29 1 0.04
ACGTcount: A:0.00, C:0.29, G:0.05, T:0.66
Consensus pattern (26 bp):
TTTTCTTTCTTTCCGCCCTGTTTTCT
Found at i:14662132 original size:19 final size:19
Alignment explanation
Indices: 14662110--14662154 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
14662100 ATTATAAGAT
* *
14662110 AGTTTTTAAATTATTTGAA
1 AGTTTTTAAATCATTTCAA
14662129 AG-TTTTAAATCATTTCAA
1 AGTTTTTAAATCATTTCAA
*
14662147 AATTTTTA
1 AGTTTTTA
14662155 TTTAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (19 bp):
AGTTTTTAAATCATTTCAA
Found at i:14662169 original size:31 final size:30
Alignment explanation
Indices: 14662120--14662181 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
14662110 AGTTTTTAAA
14662120 TTATTTGAAAGTTTTAAATCATTTCAAAATTT
1 TTATTTGAAAGTTTTAAATCATTT--AAATTT
*
14662152 TTATTT-AAA-TTATTAAATTATTTAAATTT
1 TTATTTGAAAGTT-TTAAATCATTTAAATTT
14662181 T
1 T
14662182 AGTTCAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 7 0.25
30 2 0.07
31 13 0.46
32 6 0.21
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (30 bp):
TTATTTGAAAGTTTTAAATCATTTAAATTT
Found at i:14680750 original size:40 final size:38
Alignment explanation
Indices: 14680654--14680751 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 38
14680644 ATGACATATC
** *
14680654 AATATTTAATTAATT-TTTTAAAATTTAAAAAATTCAA
1 AATATTTAAAAAATTATTTTAAAAATTAAAAAATTCAA
* *
14680691 AATATATATAAAAACTATTTTAAAAATTAAAAATTATT-AA
1 AATATTTA-AAAAATTATTTTAAAAATTAAAAA--ATTCAA
14680731 AATTATTTAAAAAATTATTTT
1 AA-TATTTAAAAAATTATTTT
14680752 TAATATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
37 7 0.14
38 4 0.08
39 15 0.31
40 15 0.31
41 8 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (38 bp):
AATATTTAAAAAATTATTTTAAAAATTAAAAAATTCAA
Found at i:14688912 original size:50 final size:50
Alignment explanation
Indices: 14688787--14689071 Score: 256
Period size: 50 Copynumber: 5.8 Consensus size: 50
14688777 TGATAATAAC
*
14688787 ATGCCAAAT-CCATATCCCAGACATGGTCTTACATGGGATGTT-TC-T-T-G
1 ATGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCG
* *
14688834 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* * *
14688886 ATGCCCATGCCATGTCCCAGACATGGTCTTAC--GGGAGACCTCTCATCTCCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAG--TTCTCATAT-CG
* * *
14688937 -TGCCAA--CCATGTCCTAGACATGGTCTTACATGGGACCTT-TCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCG
* * * *
14688984 GTGCCTACGCCATGTCCCAGACATGGTCTTACATGGTCA-TAATCTCA-AT-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GAGT--TCTCATATCG
14689034 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14689072 TCTCTTCACC
Statistics
Matches: 200, Mismatches: 18, Indels: 37
0.78 0.07 0.15
Matches are distributed among these distances:
47 2 0.01
48 45 0.22
49 37 0.19
50 105 0.52
51 7 0.04
52 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:14694090 original size:17 final size:17
Alignment explanation
Indices: 14694063--14694108 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
14694053 AAAGTTTAGG
14694063 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
14694081 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
14694096 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
14694109 TAGGGGGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:14694223 original size:31 final size:30
Alignment explanation
Indices: 14694188--14694247 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14694178 GGAGGTGGGA
*
14694188 TGGGAAGTGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAG-GAATAAAAATTTTAGGGGAAAAG
* * *
14694219 TGGGATGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGAATAAAAATTTTAGGGGAAAA
14694248 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (30 bp):
TGGGAAGGAATAAAAATTTTAGGGGAAAAG
Found at i:14694558 original size:9 final size:9
Alignment explanation
Indices: 14694541--14694571 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14694531 TCGAGTTGAT
14694541 TCGAATAAC
1 TCGAATAAC
*
14694550 TCGATTAAC
1 TCGAATAAC
14694559 TCGAATAAC
1 TCGAATAAC
14694568 TCGA
1 TCGA
14694572 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14695051 original size:187 final size:187
Alignment explanation
Indices: 14694734--14695105 Score: 699
Period size: 187 Copynumber: 2.0 Consensus size: 187
14694724 CAATACTTTG
*
14694734 TTTCTTTTTCTTTTTTTCGTCATCTTCATGTTCTTTTTCATTTCTCTACTCTTTTGTTGTCGTCC
1 TTTCTTTTTCTTTTTTTCATCATCTTCATGTTCTTTTTCATTTCTCTACTCTTTTGTTGTCGTCC
* *
14694799 AAGCTATTGAAGGGTGCTTTTTGTTCTCAATTTATTGTTTCCCTCTCCACTGTTGAGCTTGCTTG
66 AAGCTATTGAAGGGTGCTTTTTGTTCTCAATTTATTGTTTCCCTCTCCACTATTGAGCCTGCTTG
14694864 CTAAATCAATGCCAATTTGCTCTTGCTTCGTACTCTTTTGACTCTCTACTAATTCTT
131 CTAAATCAATGCCAATTTGCTCTTGCTTCGTACTCTTTTGACTCTCTACTAATTCTT
*
14694921 TTTCTTTTTCTTTTTTTCATCATCTTCATGTTCTTTTTCATTTCTCTACTCTTTTGTTGTTGTCC
1 TTTCTTTTTCTTTTTTTCATCATCTTCATGTTCTTTTTCATTTCTCTACTCTTTTGTTGTCGTCC
*
14694986 AAGCTATTGAAGGGTGCTTTTTGTTCTCAATTTATTGTTTCCCTCTCCATTATTGAGCCTGCTTG
66 AAGCTATTGAAGGGTGCTTTTTGTTCTCAATTTATTGTTTCCCTCTCCACTATTGAGCCTGCTTG
14695051 CTAAATCAATGCCAATTTGCTCTTGCTTCGTACTCTTTTGACTCTCTACTAATTC
131 CTAAATCAATGCCAATTTGCTCTTGCTTCGTACTCTTTTGACTCTCTACTAATTC
14695106 GTTTCGCTAG
Statistics
Matches: 180, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 180 1.00
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.51
Consensus pattern (187 bp):
TTTCTTTTTCTTTTTTTCATCATCTTCATGTTCTTTTTCATTTCTCTACTCTTTTGTTGTCGTCC
AAGCTATTGAAGGGTGCTTTTTGTTCTCAATTTATTGTTTCCCTCTCCACTATTGAGCCTGCTTG
CTAAATCAATGCCAATTTGCTCTTGCTTCGTACTCTTTTGACTCTCTACTAATTCTT
Found at i:14698153 original size:18 final size:18
Alignment explanation
Indices: 14698132--14698169 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
14698122 AATGACCTAG
14698132 TAAATATTAAATAATTAA
1 TAAATATTAAATAATTAA
14698150 TAAATATTAAATAATTAA
1 TAAATATTAAATAATTAA
14698168 TA
1 TA
14698170 TTTACGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATATTAAATAATTAA
Found at i:14704194 original size:31 final size:30
Alignment explanation
Indices: 14704156--14704225 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
14704146 TAGTGACTTA
* * *
14704156 AAAACTTTTGAATAGTTTAGTGACTTAAAT
1 AAAACTTTTAAATAGTTCAGTAACTTAAAT
14704186 GAAAACTTTTAAATAGTTCAGTAACTTAAAT
1 -AAAACTTTTAAATAGTTCAGTAACTTAAAT
*
14704217 AAAAATTTT
1 AAAACTTTT
14704226 CAGTTTAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (30 bp):
AAAACTTTTAAATAGTTCAGTAACTTAAAT
Found at i:14708578 original size:21 final size:22
Alignment explanation
Indices: 14708554--14708600 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14708544 TTTTTTTCTA
* *
14708554 GGTGAAAAGTT-TGATTTGATG
1 GGTGAAAAGTTAGGATGTGATG
*
14708575 GGTGAAAGGTTAGGATGTGATG
1 GGTGAAAAGTTAGGATGTGATG
14708597 GGTG
1 GGTG
14708601 TAAGGGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.32
Consensus pattern (22 bp):
GGTGAAAAGTTAGGATGTGATG
Found at i:14723815 original size:20 final size:20
Alignment explanation
Indices: 14723765--14723816 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
14723755 AAAATACAAA
*
14723765 AAAAAATCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
14723785 AAAAATTCAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
14723804 AAAAATTACAAAA
1 AAAAATT-CAAAA
14723817 CCTATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:14724151 original size:26 final size:26
Alignment explanation
Indices: 14724104--14724153 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
14724094 TAACTTGAAT
* *
14724104 AATTTCATTTGATTCAACTCGACTTG
1 AATTTCATTTCACTCAACTCGACTTG
* *
14724130 AATTTCATTTCACTCGATTCGACT
1 AATTTCATTTCACTCAACTCGACT
14724154 CGAAAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTTCATTTCACTCAACTCGACTTG
Found at i:14724583 original size:13 final size:13
Alignment explanation
Indices: 14724565--14724589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14724555 ATAACTTTTC
14724565 TTAAAAAAAATAT
1 TTAAAAAAAATAT
14724578 TTAAAAAAAATA
1 TTAAAAAAAATA
14724590 CAAGTAAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TTAAAAAAAATAT
Found at i:14730630 original size:49 final size:51
Alignment explanation
Indices: 14730564--14730700 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 51
14730554 GATAATAACA
* * *
14730564 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TC-T-TGTAC
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTCTCATAT-TAC
* * * **
14730613 TGCCAATGTCATATCCCAGATATGCTTTTACATGGGA-GTTCTCATATTGG
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTCTCATATTAC
* *
14730663 TGCCCATGCCATGTCCCAGATATGGTCTTACATGGGAT
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
14730701 CTCTTTACCC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 3 0.04
49 33 0.46
50 34 0.48
51 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (51 bp):
TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTCTCATATTAC
Found at i:14731999 original size:32 final size:31
Alignment explanation
Indices: 14731920--14731991 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
14731910 GATTTAGTAT
* *
14731920 AATTATGCACAT-AAAATTTAAATTTTTATTC
1 AATTATACACATAAAAATCT-AATTTTTATTC
*
14731951 AATTATATACATAAAAATCTAATTTTTATTC
1 AATTATACACATAAAAATCTAATTTTTATTC
14731982 AATTATACAC
1 AATTATACAC
14731992 GTTAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 30 0.83
32 6 0.17
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.43
Consensus pattern (31 bp):
AATTATACACATAAAAATCTAATTTTTATTC
Found at i:14736359 original size:3 final size:3
Alignment explanation
Indices: 14736351--14736387 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14736341 ACCAACATCC
14736351 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14736388 AGATAGTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14739909 original size:69 final size:69
Alignment explanation
Indices: 14739762--14740243 Score: 484
Period size: 69 Copynumber: 7.0 Consensus size: 69
14739752 AAAGATAACA
* * * * *
14739762 AGCTGAGAGTTTTGCTCTCGCTAACTGTCTTGGAGGTTGTGGCTCTTCGCCTGCA-AACTTTAAT
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTG-AGAACCTTAAT
* *
14739826 ATTAT
65 ATGAC
* * * * * * * * *
14739831 AGTTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTTGCTTGAGAACATTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGAGAACCTTAATA
*
14739896 TGAT
66 TGAC
* * * *
14739900 AGCTGGGAGCTTTGCTCTTGCTAACTGTTTTGGAGGTTGTGACTTTTTGCCT-ACGATCCTTAAT
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGA-GAACCTTAAT
14739964 ATGAC
65 ATGAC
* * * * ** * * *
14739969 AGTTGGGAGCTTTGCTCTTGCTAACTATTTTGAAGGTTGCAGCTCTTCGTCTGCGAACCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGAGAACCTTAATA
14740034 TGAC
66 TGAC
* * * *
14740038 AGCTGGGAGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGCGGCTCTTCGCCT-ACGAACCTTAAT
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGA-GAACCTTAAT
14740102 ATGAC
65 ATGAC
* * * * * *
14740107 AACTGAGAGCCTTGCTCTCGCTAACTATTTTAGAGGTTGTGGCTCTTTGCCTGCGAACCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGAGAACCTTAATA
14740172 TGAC
66 TGAC
* ** * * * * *
14740176 AGTTAAGAGCTTTGCTCTCACTAACTATTTTGGAGGTTGTGGCTCTTTACCTGCGAATCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGAGAACCTTAATA
14740241 TGA
66 TGA
14740244 AAAAAATGCT
Statistics
Matches: 342, Mismatches: 66, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
68 2 0.01
69 340 0.99
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (69 bp):
AGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTTGCCTGAGAACCTTAATA
TGAC
Found at i:14740014 original size:138 final size:138
Alignment explanation
Indices: 14739762--14740243 Score: 536
Period size: 138 Copynumber: 3.5 Consensus size: 138
14739752 AAAGATAACA
* * * * *
14739762 AGCTGAGAGTTTTGCTCTCGCTAACTGTCTTGGAGGTTGTGGCTCTTCGCCTGCAAACTTTAATA
1 AGCTGAGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCTACGAACCTTAATA
* * * * * * * * * * *
14739827 TTATAGTTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTTGCTTGAGAACATT
66 TGACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGAAGGTTGCGGCTCTTTGCTTGCGAACCTT
*
14739892 AATATGAT
131 AATATGAC
* * * * * *
14739900 AGCTGGGAGCTTTGCTCTTGCTAACTGTTTTGGAGGTTGTGACTTTTTGCCTACGATCCTTAATA
1 AGCTGAGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCTACGAACCTTAATA
* * *
14739965 TGACAGTTGGGAGCTTTGCTCTTGCTAACTATTTTGAAGGTTGCAGCTCTTCG-TCTGCGAACCT
66 TGACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGAAGGTTGCGGCTCTTTGCT-TGCGAACCT
14740029 TAATATGAC
130 TAATATGAC
* * * *
14740038 AGCTGGGAGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGCGGCTCTTCGCCTACGAACCTTAATA
1 AGCTGAGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCTACGAACCTTAATA
** * * * *
14740103 TGACAACTGAGAGCCTTGCTCTCGCTAACTATTTT-AGAGGTTGTGGCTCTTTGCCTGCGAACCT
66 TGACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGA-AGGTTGCGGCTCTTTGCTTGCGAACCT
14740167 TAATATGAC
130 TAATATGAC
* * * * ** * *
14740176 AGTTAAGAGCTTTGCTCTCACTAACTATTTTGGAGGTTGTGGCTCTTTACCTGCGAATCTTAATA
1 AGCTGAGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCTACGAACCTTAATA
14740241 TGA
66 TGA
14740244 AAAAAATGCT
Statistics
Matches: 286, Mismatches: 55, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
137 2 0.01
138 284 0.99
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (138 bp):
AGCTGAGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTTGTGGCTCTTCGCCTACGAACCTTAATA
TGACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGAAGGTTGCGGCTCTTTGCTTGCGAACCTT
AATATGAC
Found at i:14740132 original size:207 final size:207
Alignment explanation
Indices: 14739767--14740243 Score: 596
Period size: 207 Copynumber: 2.3 Consensus size: 207
14739757 TAACAAGCTG
* * * * * * *
14739767 AGAGTTTTGCTCTCGCTAACTGTCTTGGAGGTTGTGGCTCTTCGCCTGCAAACTTTAATATTATA
1 AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGTGGCTCTTCGCCTGCGAACCTTAATATGACA
* * *
14739832 GTTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTTGCTTGAGAACATTAATAT
66 GCTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTCGCCTGAGAACATTAATAT
* * * * * * * * *
14739897 GATAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTGGAGGTTGTGACTTTTTGCCTACGATCCTTA
131 GACAACTGAGAGCCTTGCTCTCGCTAACTATTTTAGAGGTTGTGACTCTTTGCCTACGAACCTTA
*
14739962 ATATGACAGTTG
196 ATATGACAGTTA
* * * ** *
14739974 GGAGCTTTGCTCTTGCTAACTATTTTGAAGGTTGCAGCTCTTCGTCTGCGAACCTTAATATGACA
1 AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGTGGCTCTTCGCCTGCGAACCTTAATATGACA
* * ** * *
14740039 GCTGGGAGCTTTGCTCTCGTTAATTGTTTTGGAGGTTGCGGCTCTTCGCCT-ACGAACCTTAATA
66 GCTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTCGCCTGA-GAACATTAATA
* *
14740103 TGACAACTGAGAGCCTTGCTCTCGCTAACTATTTTAGAGGTTGTGGCTCTTTGCCTGCGAACCTT
130 TGACAACTGAGAGCCTTGCTCTCGCTAACTATTTTAGAGGTTGTGACTCTTTGCCTACGAACCTT
14740168 AATATGACAGTTA
195 AATATGACAGTTA
* ** *
14740181 AGAGCTTTGCTCTCACTAACTATTTTGGAGGTTGTGGCTCTTTACCTGCGAATCTTAATATGA
1 AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGTGGCTCTTCGCCTGCGAACCTTAATATGA
14740244 AAAAAATGCT
Statistics
Matches: 225, Mismatches: 44, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
206 1 0.00
207 224 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (207 bp):
AGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGTGGCTCTTCGCCTGCGAACCTTAATATGACA
GCTAGGAGCTTTGATCTCACTAATTGTTTTGGAGATTGCGGCTCTTCGCCTGAGAACATTAATAT
GACAACTGAGAGCCTTGCTCTCGCTAACTATTTTAGAGGTTGTGACTCTTTGCCTACGAACCTTA
ATATGACAGTTA
Found at i:14743860 original size:3 final size:3
Alignment explanation
Indices: 14743852--14743877 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14743842 TGGGGTGGAT
14743852 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
14743878 GTCGCATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:14745501 original size:22 final size:21
Alignment explanation
Indices: 14745474--14745516 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
14745464 AACTACCCAA
14745474 TTAACCCATC-AGCCCAACTAAC
1 TTAACCCA-CAAGCCCAA-TAAC
14745496 TTAACCCACAAGCCCAATAAC
1 TTAACCCACAAGCCCAATAAC
14745517 AATAGGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.40, G:0.05, T:0.16
Consensus pattern (21 bp):
TTAACCCACAAGCCCAATAAC
Found at i:14748716 original size:46 final size:46
Alignment explanation
Indices: 14748638--14748914 Score: 428
Period size: 46 Copynumber: 6.0 Consensus size: 46
14748628 CATGACAAAG
* * ** *
14748638 TGTGAAAAGTAGGTATGATGTTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
14748684 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
*
14748730 TGTGAAAAGTAGGTATGGTATTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
* *
14748776 TGTGAAAAGTAGGTATGGTGTTTCGGTAAAAAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
* * *
14748822 TGTAAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
** *
14748868 TGTGAAAAGTAGGTATGGTATTTCCATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
14748914 T
1 T
14748915 ATAGCATTGT
Statistics
Matches: 214, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 214 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
Found at i:14749594 original size:3 final size:3
Alignment explanation
Indices: 14749586--14749610 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14749576 TTAATAAATC
14749586 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
14749611 TATTTCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14755475 original size:24 final size:24
Alignment explanation
Indices: 14755448--14755499 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
14755438 TTAGTAAGTC
*
14755448 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * * *
14755472 AAATATATTGTACTCATAAATACT
1 AAATAAACTATACTAATAAATACT
14755496 AAAT
1 AAAT
14755500 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14757438 original size:24 final size:24
Alignment explanation
Indices: 14757411--14757462 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14757401 TTAGTAAGTC
*
14757411 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14757435 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14757459 AAAT
1 AAAT
14757463 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14758346 original size:19 final size:19
Alignment explanation
Indices: 14758312--14758356 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
14758302 AATGATAATT
*
14758312 AAATTAAAGTTAATTAAACC
1 AAATT-AAGGTAATTAAACC
*
14758332 AAATTAAGGTAATTAAACT
1 AAATTAAGGTAATTAAACC
14758351 AAATTA
1 AAATTA
14758357 CTTAGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATTAAGGTAATTAAACC
Found at i:14758508 original size:96 final size:96
Alignment explanation
Indices: 14758390--14758583 Score: 325
Period size: 96 Copynumber: 2.0 Consensus size: 96
14758380 AGCTTGAGAT
* * *
14758390 AATGGAAAATTCCATTATCTTCTTCTTCAAGCACCATCCGCCATTAATAAAACCAAAGAAAAATC
1 AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
* * *
14758455 CTTCCAAGCTTTGCAGCATTTGGCCAATGAG
66 CTTCCAAGCATTGCAGCATTCGGCCAAGGAG
*
14758486 AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCGTCCACCATTAATAAAACCAAAGAAAAACC
1 AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
14758551 CTTCCAAGCATTGCAGCATTCGGCCAAGGAG
66 CTTCCAAGCATTGCAGCATTCGGCCAAGGAG
14758582 AA
1 AA
14758584 ACTAAGGTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (96 bp):
AATGGAAAATTCCACTATCTTCTTCTTCAAGCACCATCCACCATTAATAAAACCAAAGAAAAACC
CTTCCAAGCATTGCAGCATTCGGCCAAGGAG
Found at i:14760217 original size:24 final size:24
Alignment explanation
Indices: 14760149--14760218 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
14760139 ATGTAACTTG
* *
14760149 CGAACCCCTATCACCAAACACATA
1 CGAACCCCTATCACCAAATACCTA
* * * * *
14760173 CGAATCCTTCTCACTAGATACCTA
1 CGAACCCCTATCACCAAATACCTA
*
14760197 TGAACCCCTATCACCAAATACC
1 CGAACCCCTATCACCAAATACC
14760219 CCCTATCATC
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.36, C:0.39, G:0.06, T:0.20
Consensus pattern (24 bp):
CGAACCCCTATCACCAAATACCTA
Found at i:14761240 original size:14 final size:14
Alignment explanation
Indices: 14761221--14761250 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14761211 TGATTATTTT
14761221 TAATCTAATTTAAC
1 TAATCTAATTTAAC
14761235 TAATCTAATTTAAC
1 TAATCTAATTTAAC
14761249 TA
1 TA
14761251 CGAACGCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:14764565 original size:5 final size:5
Alignment explanation
Indices: 14764555--14764590 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
14764545 TAAACAAATC
*
14764555 AATAA AATAA AATAA AGT-A AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
14764591 AAGAATGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 25 0.89
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:14764576 original size:14 final size:14
Alignment explanation
Indices: 14764559--14764589 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14764549 CAAATCAATA
*
14764559 AAATAAAATAAAGT
1 AAATAAAATAAAAT
14764573 AAATAAAATAAAAT
1 AAATAAAATAAAAT
14764587 AAA
1 AAA
14764590 AAAGAATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:14768015 original size:43 final size:42
Alignment explanation
Indices: 14767923--14768035 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
14767913 ATTGGCTACG
* * * ** *
14767923 TGTAAGACCATGTCTGAGACATTGGCATTGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATATATGATAACA
* * *
14767966 TATAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATATATGATAACA
* *
14768009 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
14768036 TGTATGAGCT
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 6 0.11
43 50 0.89
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATATGATAACA
Found at i:14774240 original size:31 final size:32
Alignment explanation
Indices: 14774183--14774243 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
14774173 AATTTTAATT
*
14774183 CTAATTATTTTAATATTTAATTTTAATTATCC
1 CTAATTATTTTAATATTTAATCTTAATTATCC
*
14774215 CTAATTA-TTTAATTTTCTAA-CTTAATTAT
1 CTAATTATTTTAATATT-TAATCTTAATTAT
14774244 AGTTCCTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (32 bp):
CTAATTATTTTAATATTTAATCTTAATTATCC
Found at i:14778406 original size:16 final size:16
Alignment explanation
Indices: 14778385--14778422 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14778375 CACAGTTGGC
*
14778385 TGTAATGGAATAAAGT
1 TGTAATGAAATAAAGT
14778401 TGTAATGAAATAAAGT
1 TGTAATGAAATAAAGT
*
14778417 TATAAT
1 TGTAAT
14778423 TAGTAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (16 bp):
TGTAATGAAATAAAGT
Found at i:14778727 original size:15 final size:15
Alignment explanation
Indices: 14778704--14778740 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
14778694 GATATATAAT
14778704 TTAATAATATGAATTA
1 TTAA-AATATGAATTA
14778720 TTAAAATATGAATTA
1 TTAAAATATGAATTA
*
14778735 ATAAAA
1 TTAAAA
14778741 ATTATAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
TTAAAATATGAATTA
Found at i:14778743 original size:25 final size:24
Alignment explanation
Indices: 14778664--14778745 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
14778654 TAATATAATT
14778664 ATTATTAAATATAATTTAATAAAAA
1 ATTATTAAATATAATTTAAT-AAAA
* * *
14778689 ATAATGATATATAATTTAATAATATGA
1 ATTATTAAATATAATTTAATAA-A--A
14778716 ATTATTAAAATATGAA-TTAATAAAA
1 ATTATT-AAATAT-AATTTAATAAAA
14778741 ATTAT
1 ATTAT
14778746 AACATAATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
24 2 0.04
25 24 0.52
27 6 0.13
28 12 0.26
29 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTATTAAATATAATTTAATAAAA
Found at i:14795790 original size:31 final size:29
Alignment explanation
Indices: 14795755--14795812 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
14795745 AATAGTATTT
*
14795755 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
14795786 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
14795813 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:14795885 original size:20 final size:21
Alignment explanation
Indices: 14795846--14795886 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14795836 AATAAGATTT
14795846 AATATTAAATTTAATCTAATA
1 AATATTAAATTTAATCTAATA
* *
14795867 AATATTATA-TTAATTTAATA
1 AATATTAAATTTAATCTAATA
14795887 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTTAATCTAATA
Found at i:14796030 original size:31 final size:31
Alignment explanation
Indices: 14795995--14796056 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14795985 TGTAGAGAGA
*
14795995 AAATTATCTAAAGAGATTATTTTAGAAAATT
1 AAATTATCTAAAGAGATTATTCTAGAAAATT
* *
14796026 AAATTCTTTAAAGAGATTATTCTAGAAAATT
1 AAATTATCTAAAGAGATTATTCTAGAAAATT
14796057 TGTAGAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (31 bp):
AAATTATCTAAAGAGATTATTCTAGAAAATT
Found at i:14798546 original size:14 final size:14
Alignment explanation
Indices: 14798529--14798558 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14798519 TCTTGTAGTC
14798529 ATAGAACCTTCGTT
1 ATAGAACCTTCGTT
14798543 ATAGAACCTTCGTT
1 ATAGAACCTTCGTT
14798557 AT
1 AT
14798559 TTATTGAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
ATAGAACCTTCGTT
Found at i:14799066 original size:73 final size:72
Alignment explanation
Indices: 14798915--14799091 Score: 210
Period size: 73 Copynumber: 2.4 Consensus size: 72
14798905 CGCTGAAAAT
* ** * * *
14798915 AAGAATTAGCGGCGTTTTCCAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCTGTTTACCGA
1 AAGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCAA
14798980 GCTTTCG
66 GCTTTCG
* * * *
14798987 AAGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTA
1 AAGATTTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACCA
*
14799052 AGCTTTTG
65 AGCTTTCG
** * *
14799060 GGGATTTAACAGCGTTTTTAAGAAAGCGCCGC
1 AAGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
14799092 TAATGCTCAG
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
72 28 0.31
73 61 0.69
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (72 bp):
AAGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCAA
GCTTTCG
Found at i:14799188 original size:113 final size:114
Alignment explanation
Indices: 14798989--14799196 Score: 319
Period size: 113 Copynumber: 1.8 Consensus size: 114
14798979 AGCTTTCGAA
* *
14798989 GATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTAAG
1 GATTTAGCGGCGTTTTTGAGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAG
* *
14799054 CTTTTGGGGATTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGG
66 CTTTCGGAGATTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGG
* * *
14799103 GATTTAGCGGCGTTTTTGAGAAAACGCCGC-AAAAAACCTAAGCCCAACGATGCTGTTTTCTGAG
1 GATTTAGCGGCGTTTTTGAGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAG
* * *
14799167 CTTTCGGAGATTTAGCGGCGTTTTTTAGAA
66 CTTTCGGAGATTTAACAGCGTTTTTAAGAA
14799197 TGCGGATGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 55 0.65
114 29 0.35
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (114 bp):
GATTTAGCGGCGTTTTTGAGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAG
CTTTCGGAGATTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGG
Found at i:14800036 original size:192 final size:191
Alignment explanation
Indices: 14799778--14800151 Score: 486
Period size: 192 Copynumber: 2.0 Consensus size: 191
14799768 GTAATCTATA
* * **
14799778 ATGGGTTTAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACTATTATTACTTGAATGGA
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACAACAATTACTTGAATGGA
* * * * * * * *
14799843 AATGTATTTGCATTTGT-GTATCCTGCAATGCTT-TTTAATTGAACTTTGGGGTTGGAATTGTTA
66 AATGCACTTGCATTT-TCATATCCTGCAAAGCTTCTTT-AGTCAACTTTGGAGTTGAAATTGTTA
* * *
14799906 TTAGGAAGTAATTGATG-TTTTTATGTTGATGTTAATGAATACAATAGACTAAGTTGAATTTTTT
129 TTAGGAAGTAATTGATGATTTTT-T-ATGATGTTAATGAACACAATAGACCAAGTTGAATTTTTT
*
14799970 ATGGGTTCAAGTCATGGTTTTCATTTGGA-CTTTGTGATTACAACACAACAATTTACTTGAATGG
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACAACAA-TTACTTGAATGG
** *
14800034 AAATGCACTTGTGTTTTCATATCCTGCAAAGCTTCTTTAGTCAATTTTGGAGTTGAAATTGTTAT
65 AAATGCACTTGCATTTTCATATCCTGCAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTGTTAT
* *
14800099 TAGGATGTAATTGATGATTTTTTATGATGTTAATGAACATAATAGACCAAGTT
130 TAGGAAGTAATTGATGATTTTTTATGATGTTAATGAACACAATAGACCAAGTT
14800152 TGGGACATTT
Statistics
Matches: 157, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
191 45 0.29
192 104 0.66
193 8 0.05
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (191 bp):
ATGGGTTCAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACAACAATTACTTGAATGGA
AATGCACTTGCATTTTCATATCCTGCAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTGTTATT
AGGAAGTAATTGATGATTTTTTATGATGTTAATGAACACAATAGACCAAGTTGAATTTTTT
Found at i:14801288 original size:42 final size:42
Alignment explanation
Indices: 14801130--14801432 Score: 338
Period size: 43 Copynumber: 7.1 Consensus size: 42
14801120 GCTAGTGGCA
* * * *
14801130 TTTGTGATAAAAGCGCCGCTAAAGGTAATGGTTTTTAGCGACG
1 TTTGTGAT-AAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
* * * *
14801173 TTTGTGATAAAAGTGCCGCTAAAGGTAATGGTCTTTAGCGGTG
1 TTTGTGAT-AAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
* *
14801216 TTTGTGAGTAAAAGCGCCGCTAAAGGTCATGTTCTTTCA-TGGCG
1 TTTGTGA-T-AAAGCGCCGCTAAAGGTCATGATCTTT-AGCGGCG
* **
14801260 TTTGTGATAAAGCGTCGCTAAAATTCATGATCTTTAGCGGCG
1 TTTGTGATAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
* * *
14801302 TTTGTGGGTAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCG
1 TTTGT-GATAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
14801345 TTTGTGATAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
1 TTTGTGATAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
* * * * * *
14801387 TTTGTGGGTGAAGTGCCACTAAAGGTCATGTTCTATAGCGGCG
1 TTTGT-GATAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
14801430 TTT
1 TTT
14801433 TTTCTCATAA
Statistics
Matches: 228, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 71 0.31
43 119 0.52
44 36 0.16
45 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (42 bp):
TTTGTGATAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
Found at i:14801349 original size:85 final size:85
Alignment explanation
Indices: 14801139--14801432 Score: 376
Period size: 85 Copynumber: 3.4 Consensus size: 85
14801129 ATTTGTGATA
* * * * *
14801139 AAAGCGCCGCTAAAGGTAATGGTT-TTTAGCGACGTTTGTGATAAAAGTGCCGCTAAAGGTAATG
1 AAAGCGCCGCTAAAGGTCAT-GTTCTATAGCGGCGTTTGTGAT-AAAGCGCCGCTAAAGGTCATG
* * *
14801203 GTCTTTAGCGGTGTTTGTGAGT
64 ATCTTTAGCGGCGTTTGTGGGT
* * * **
14801225 AAAAGCGCCGCTAAAGGTCATGTTCTTTCA-TGGCGTTTGTGATAAAGCGTCGCTAAAATTCATG
1 -AAAGCGCCGCTAAAGGTCATGTTCTAT-AGCGGCGTTTGTGATAAAGCGCCGCTAAAGGTCATG
14801289 ATCTTTAGCGGCGTTTGTGGGT
64 ATCTTTAGCGGCGTTTGTGGGT
* *
14801311 AAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGATAAAGCGCCGCTAAAGGTCATGAT
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAGCGCCGCTAAAGGTCATGAT
14801376 CTTTAGCGGCGTTTGTGGGT
66 CTTTAGCGGCGTTTGTGGGT
* * *
14801396 GAAGTGCCACTAAAGGTCATGTTCTATAGCGGCGTTT
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
14801433 TTTCTCATAA
Statistics
Matches: 181, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 108 0.60
86 38 0.21
87 33 0.18
88 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAGCGCCGCTAAAGGTCATGAT
CTTTAGCGGCGTTTGTGGGT
Found at i:14802847 original size:14 final size:15
Alignment explanation
Indices: 14802813--14802851 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
14802803 ATAATTATTA
*
14802813 ATTTAATATTATAACT
1 ATTTAA-ATAATAACT
14802829 ATTTAAATAATAA-T
1 ATTTAAATAATAACT
14802843 ATTTAAATA
1 ATTTAAATA
14802852 GTTATAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 6 0.27
16 6 0.27
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAAATAATAACT
Found at i:14802860 original size:23 final size:23
Alignment explanation
Indices: 14802816--14802860 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14802806 ATTATTAATT
* *
14802816 TAATATTATAACTATTTAAATAA
1 TAATATTATAAATAGTTAAATAA
14802839 TAATATT-TAAATAGTTATAATA
1 TAATATTATAAATAGTTA-AATA
14802861 CCTTTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATATTATAAATAGTTAAATAA
Found at i:14807930 original size:29 final size:28
Alignment explanation
Indices: 14807894--14807971 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
14807884 TCATGAGATT
14807894 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
14807924 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
14807951 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
14807972 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:14808234 original size:173 final size:174
Alignment explanation
Indices: 14807925--14808250 Score: 546
Period size: 173 Copynumber: 1.9 Consensus size: 174
14807915 AATTGTACAG
* * *
14807925 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
* *
14807990 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
14808055 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
* * * *
14808099 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATGC
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
*
14808164 GTGC-AACCCTATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
*
14808228 TTTGGACAGCGGAAAATGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
14808251 ACCTTGAGTT
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 79 0.56
174 62 0.44
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (174 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
Found at i:14820060 original size:36 final size:36
Alignment explanation
Indices: 14820013--14820083 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
14820003 ACAACTCATG
*
14820013 TAAATATAGATTCCTAATCTCTTATGATGACCCATA
1 TAAATATAGATTCCCAATCTCTTATGATGACCCATA
14820049 TAAATATAGATTCCCAATCTCTTATGATGACCCAT
1 TAAATATAGATTCCCAATCTCTTATGATGACCCAT
14820084 CTTTGTGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (36 bp):
TAAATATAGATTCCCAATCTCTTATGATGACCCATA
Found at i:14827636 original size:27 final size:26
Alignment explanation
Indices: 14827610--14827684 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 26
14827600 ACACTTCATA
14827610 CATAGAACTTTACATAATTAGTACAT
1 CATAGAACTTTACATAATTAGTACAT
* ** * *
14827636 -ATA-TACTTTGTATAAATAGTTCAT
1 CATAGAACTTTACATAATTAGTACAT
*
14827660 GCATAGAACTTTACATAATCAGTAC
1 -CATAGAACTTTACATAATTAGTAC
14827685 GCACATACTT
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
24 16 0.46
25 3 0.09
26 3 0.09
27 13 0.37
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (26 bp):
CATAGAACTTTACATAATTAGTACAT
Found at i:14827710 original size:153 final size:153
Alignment explanation
Indices: 14827305--14827710 Score: 542
Period size: 153 Copynumber: 2.7 Consensus size: 153
14827295 TAGTTCGCAT
* * * *
14827305 ATAGTACTTTACATAATCAGTACGCATATACTTTGCATAGACATTTCACACATATAACTTTACGT
1 ATAGAACTTTACATAATCAGTACGCATATACTTTGCATAGACAGTTCACACATAGAACTTTACAT
* * * * * *
14827370 GATTAGTACGCACACACTTTGTATAGACAGTTCACATATAGAACTTTACATAATCAGTATGCACA
66 AATCAGTACGCACATACTTTGAATAGACAGTTCATACATAGAACTTTACATAATCAGTATGCACA
*
14827435 TACTTTGCATAGACAATTCATAC
131 TACTTTGCATACACAATTCATAC
* * * *
14827458 ATAAAACTTTACATAATCAGTACGCATACACTTTCCATAGACAGTTCACACAAAGAACTTTACAT
1 ATAGAACTTTACATAATCAGTACGCATATACTTTGCATAGACAGTTCACACATAGAACTTTACAT
* * * *
14827523 AATCAATACGCATATACTTTGAATAGATAGTTCATACATAGAACTTTACATAATGAGTATGCACA
66 AATCAGTACGCACATACTTTGAATAGACAGTTCATACATAGAACTTTACATAATCAGTATGCACA
*
14827588 TACTTTGCATACACACTTCATAC
131 TACTTTGCATACACAATTCATAC
* ** * * * **
14827611 ATAGAACTTTACATAATTAGTACATATATACTTTGTATAAATAGTTCATGCATAGAACTTTACAT
1 ATAGAACTTTACATAATCAGTACGCATATACTTTGCATAGACAGTTCACACATAGAACTTTACAT
* *
14827676 AATCAGTACGCACATACTTTGCATAGCCAGTTCAT
66 AATCAGTACGCACATACTTTGAATAGACAGTTCAT
14827711 GGACCCTTCC
Statistics
Matches: 216, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
153 216 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (153 bp):
ATAGAACTTTACATAATCAGTACGCATATACTTTGCATAGACAGTTCACACATAGAACTTTACAT
AATCAGTACGCACATACTTTGAATAGACAGTTCATACATAGAACTTTACATAATCAGTATGCACA
TACTTTGCATACACAATTCATAC
Found at i:14827711 original size:51 final size:51
Alignment explanation
Indices: 14827305--14827710 Score: 479
Period size: 51 Copynumber: 8.0 Consensus size: 51
14827295 TAGTTCGCAT
* * * *
14827305 ATAGTACTTTACATAATCAGTACGCATATACTTTGCATAGACATTTCACAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * * * * *
14827356 ATATAACTTTACGTGATTAGTACGCACACACTTTGTATAGACAGTTCACAT
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* *
14827407 ATAGAACTTTACATAATCAGTATGCACATACTTTGCATAGACAATTCATAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * *
14827458 ATAAAACTTTACATAATCAGTACGCATACACTTTCCATAGACAGTTCACAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * *
14827509 AAAGAACTTTACATAATCAATACGCATATACTTTGAATAGATAGTTCATAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * *
14827560 ATAGAACTTTACATAATGAGTATGCACATACTTTGCATACACACTTCATAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* ** * * * * *
14827611 ATAGAACTTTACATAATTAGTACATATATACTTTGTATAAATAGTTCATGC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
*
14827662 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGCCAGTTCAT
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCAT
14827711 GGACCCTTCC
Statistics
Matches: 293, Mismatches: 62, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 293 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (51 bp):
ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
Found at i:14839150 original size:40 final size:40
Alignment explanation
Indices: 14839101--14839240 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
14839091 AACACACCAG
* *
14839101 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
14839141 TTTGACACCCAGTGTCTCATCAGTTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * *
14839179 -TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAA
* *
14839219 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
14839241 ACTCGAAGTC
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 18 0.22
38 12 0.15
39 1 0.01
40 31 0.38
41 19 0.23
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:14839228 original size:41 final size:41
Alignment explanation
Indices: 14839106--14839241 Score: 156
Period size: 41 Copynumber: 3.4 Consensus size: 41
14839096 ACCAGTTTGG
* * * *
14839106 CACCCAGTGCCTCATCGGA-TAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
* * * *
14839146 CACCCAGTGTCTCATC-AGTTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
14839183 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
*
14839224 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
14839242 CTCGAAGTCG
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 22 0.28
38 8 0.10
39 2 0.03
40 20 0.26
41 26 0.33
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
Found at i:14844010 original size:9 final size:9
Alignment explanation
Indices: 14843996--14844022 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
14843986 ATTTAATTTT
14843996 AATCCAACC
1 AATCCAACC
14844005 AATCCAACC
1 AATCCAACC
14844014 AATCCAACC
1 AATCCAACC
14844023 CTTTTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (9 bp):
AATCCAACC
Found at i:14844638 original size:44 final size:43
Alignment explanation
Indices: 14844508--14844630 Score: 194
Period size: 44 Copynumber: 2.8 Consensus size: 43
14844498 AGGGTAAATC
*
14844508 CAACAACTCAAGATTATCATCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACTCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
*
14844551 CAACAA-TCTAAGATTATCTTCTCCTCTTTTTTAAGTTCTTTTTT
1 CAACAACTC-AAGATTATCTTCTCCTC-TTTTTAAATTCTTTTTT
*
14844595 CAACAACTCAAGATTATCTTCTCCTCTTTTCAAATT
1 CAACAACTCAAGATTATCTTCTCCTCTTTTTAAATT
14844631 TATTTTTTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
42 2 0.03
43 30 0.41
44 39 0.53
45 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (43 bp):
CAACAACTCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:14845104 original size:5 final size:5
Alignment explanation
Indices: 14845092--14845154 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
14845082 TAAAATAAAT
* *
14845092 AAAA- AAAAG AAAA- AAAAG -AAAG ACAAG CAAAACG AAACAG AAAGG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAA-G AAA-AG AAAAG
14845137 AAAAG -AAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAA
14845155 AGGGAAAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
4 16 0.33
5 20 0.42
6 10 0.21
7 2 0.04
ACGTcount: A:0.76, C:0.06, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14848618 original size:3 final size:3
Alignment explanation
Indices: 14848603--14848637 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14848593 AAAGTGTGAA
*
14848603 AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
14848638 ATAGTAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:14851427 original size:5 final size:5
Alignment explanation
Indices: 14851394--14851457 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
14851384 ACAAATAAAT
* *
14851394 AAAAG AAAA- AAAAG -AAAG ACAAAC AAAACG AAACAG AAAGG AAAAG
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAA-G AAA-AG AAAAG AAAAG
14851440 -AAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAA
14851458 AGGGAAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 12 0.24
5 25 0.51
6 11 0.22
7 1 0.02
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14851459 original size:26 final size:26
Alignment explanation
Indices: 14851430--14851481 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
14851420 AACGAAACAG
14851430 AAAGGAAAAGAAAGAAAAGA-AAAGAA
1 AAAGGAAAAGAAA-AAAAGAGAAAGAA
* *
14851456 AAAGGGAAAGAAAAAAGGAGAAAGAA
1 AAAGGAAAAGAAAAAAAGAGAAAGAA
14851482 GGAGACGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (26 bp):
AAAGGAAAAGAAAAAAAGAGAAAGAA
Found at i:14851465 original size:32 final size:32
Alignment explanation
Indices: 14851394--14851470 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
14851384 ACAAATAAAT
14851394 AAAAGAAA-AAAAAGAAAGACAAACAAAACGA
1 AAAAGAAAGAAAAAGAAAGACAAACAAAACGA
* * *
14851425 AACAGAAAGGAAAAGAAAGA-AAAGAAAA-GA
1 AAAAGAAAGAAAAAGAAAGACAAACAAAACGA
14851455 AAAAGGGAAAGAAAAA
1 AAAA--GAAAGAAAAA
14851471 AGGAGAAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
30 5 0.13
31 14 0.37
32 19 0.50
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.00
Consensus pattern (32 bp):
AAAAGAAAGAAAAAGAAAGACAAACAAAACGA
Found at i:14851467 original size:12 final size:13
Alignment explanation
Indices: 14851438--14851481 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
14851428 AGAAAGGAAA
14851438 AGAAAG-AAAA-G
1 AGAAAGAAAAAGG
14851449 A-AAAGAAAAAGG
1 AGAAAGAAAAAGG
14851461 -GAAAGAAAAAAGG
1 AGAAAG-AAAAAGG
14851474 AGAAAGAA
1 AGAAAGAA
14851482 GGAGACGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.14
11 5 0.18
12 5 0.18
13 9 0.32
14 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAGG
Found at i:14851471 original size:14 final size:14
Alignment explanation
Indices: 14851430--14851481 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
14851420 AACGAAACAG
14851430 AAAGGA-AAAGAAA
1 AAAGGAGAAAGAAA
*
14851443 GAAAAGA-AAAG-AA
1 -AAAGGAGAAAGAAA
14851456 AAAGG-GAAAGAAA
1 AAAGGAGAAAGAAA
14851469 AAAGGAGAAAGAA
1 AAAGGAGAAAGAA
14851482 GGAGACGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 8 0.24
13 9 0.27
14 16 0.48
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAAGGAGAAAGAAA
Found at i:14851477 original size:22 final size:23
Alignment explanation
Indices: 14851394--14851483 Score: 58
Period size: 22 Copynumber: 3.8 Consensus size: 23
14851384 ACAAATAAAT
* ** *
14851394 AAAAGAAAAAAAAGAAAGACAAAC
1 AAAAGAAAAGAAAG-AAGGGAAAG
**
14851418 AAAACGAAACAGAAAGGAAAAGAAAG
1 AAAA-GAAA-AGAAA-GAAGGGAAAG
14851444 AAAAGAAAAGAAA-AAGGGAAAG
1 AAAAGAAAAGAAAGAAGGGAAAG
*
14851466 AAAA-AAGGAGAAAGAAGG
1 AAAAGAA-AAGAAAGAAGG
14851484 AGACGAAGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.04
22 16 0.30
23 4 0.07
24 9 0.17
25 8 0.15
26 14 0.26
27 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAGAAAGAAGGGAAAG
Found at i:14852467 original size:40 final size:40
Alignment explanation
Indices: 14852345--14852522 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
14852335 ACTTCAAGTC
* * * * *
14852345 GATGAGACATTGGGTGTCAATTTACTACTTCGGATTAGT-T
1 GATGAGGCACTGGGTGTCAATCTATTACTTCGAATTA-TCT
* * ** * *
14852385 CGATGAGGCACTGGGTGCCAA--T-TTACTTTGGTTTAGCC
1 -GATGAGGCACTGGGTGTCAATCTATTACTTCGAATTATCT
* *
14852423 GATGAGACACTGAGTGTCAATCTATTACTTCGAATTATCT
1 GATGAGGCACTGGGTGTCAATCTATTACTTCGAATTATCT
*
14852463 GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTATCT
1 GATGAGGCACTGGGTGTCAATCTATTACTTCGAATTATCT
14852503 GATGAGGCACTGGGTGTCAA
1 GATGAGGCACTGGGTGTCAA
14852523 ATTGGTGTGT
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
37 17 0.15
38 10 0.09
39 2 0.02
40 68 0.60
41 17 0.15
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
GATGAGGCACTGGGTGTCAATCTATTACTTCGAATTATCT
Found at i:14858156 original size:235 final size:225
Alignment explanation
Indices: 14857621--14858385 Score: 662
Period size: 235 Copynumber: 3.4 Consensus size: 225
14857611 TATATTAATT
* ** ** *
14857621 ATTATCATATATTATTGTTTATTA-TAT--TGGTTGAAATATTTTCTAAGCCCCTATACTTTTCT
1 ATTAT-ATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTTCCTATACTTTTCG
* * * * * *
14857683 TACATTTAAAAGTTAGCCCTCCTAATATATTATATAATGTTATATCATATCATAT-ATTAAT-AG
65 TACATTTGAAAGTTAACCCTCATACTATACTATATAATGCTATATCATATCATATCA-T-ATCA-
* * * * * * * *
14857746 CTTATGTATATGCATCATTGATTAAACA-CTATAATATCATATAATACTATATCTTTTATTATAT
127 -TAATATATATGAATAAATGATTAAACATC-ATAATAT-ATGTAACACTATATCTTTTATTATAA
** * * * * *
14857810 TTTATAATATAATAGTAG-TACAT-TATATATTAAT-T
189 TCCATAATATAATAATAGTTATATATA-ATAGTAGTAC
* * * * * *
14857845 ATTAACATATATTATTGTTTATTATTATACTGGTTGAAATATACTTTAAGTGCCTATACTTTTTG
1 ATT-ATATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTTCCTATACTTTTCG
* *
14857910 TACACTTGAAAGTTAACCCTCATACTATACTATATAATGTTATATCATATCATATCATAT-ATAA
65 TACATTTGAAAGTTAACCCTCATACTATACTATATAATGCTATATCATATCATATCATATCATAA
** * * * *
14857974 TATAT-T-AATAGTTTA-TATATATGCATCAATGAT-TG-AACATTATATCTTTTTATTATAATC
130 TATATATGAATAAATGATTAAACAT-CAT-AAT-ATATGTAACACTATATC-TTTTATTATAATC
*
14858034 TATAATATAATAATAGTTATATATAATAGTAGTACACAC
191 CATAATATAATAATAGTTATATATAATAGTAGT----AC
* *
14858073 ATATATATATATTACATATTATTGTTTATTGTTATAGTAGTTGAAATATGCTCTAAGTTCCTATA
1 ----AT-TATA-T--ATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTTCCTATA
* * * * * *
14858138 CTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATGATGCTATATCATATTATATCAT
58 CTTTTCGTACATTTGAAAGTTAACCCTCATACTATACTATATAATGCTATATCATATCATATCAT
* * *
14858203 ATCATAATATATATGCATAAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTAT
123 ATCATAATATATATGAATAAATGATTAAACATCATAATAT-ATGTAACACTATATCTTTTATTAT
*
14858268 AATCCATATTATAATAATAGTTATATATAATAGTAGTAC
187 AATCCATAATATAATAATAGTTATATATAATAGTAGTAC
* * *
14858307 ATTATATATATTATTGTTTATTATTATATTAGTTGGAATATGCTCTAA-ATCCTCATACTTTTCG
1 ATTATATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTTCCT-ATACTTTTCG
14858371 TACATTTGAAAGTTA
65 TACATTTGAAAGTTA
14858386 GCCTCCTATA
Statistics
Matches: 445, Mismatches: 63, Indels: 64
0.78 0.11 0.11
Matches are distributed among these distances:
221 13 0.03
222 34 0.08
223 15 0.03
224 31 0.07
225 8 0.02
226 66 0.15
227 78 0.18
228 2 0.00
229 4 0.01
230 2 0.00
232 4 0.01
233 2 0.00
234 2 0.00
235 102 0.23
236 11 0.02
237 4 0.01
238 53 0.12
239 14 0.03
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (225 bp):
ATTATATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTTCCTATACTTTTCGT
ACATTTGAAAGTTAACCCTCATACTATACTATATAATGCTATATCATATCATATCATATCATAAT
ATATATGAATAAATGATTAAACATCATAATATATGTAACACTATATCTTTTATTATAATCCATAA
TATAATAATAGTTATATATAATAGTAGTAC
Found at i:14859683 original size:14 final size:11
Alignment explanation
Indices: 14859654--14859693 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
14859644 AGAAAAAAAA
14859654 TTGTTGTTTTC
1 TTGTTGTTTTC
14859665 TTGTTGTTTTC
1 TTGTTGTTTTC
* *
14859676 CTGCTGTTTTC
1 TTGTTGTTTTC
*
14859687 TTATTGT
1 TTGTTGT
14859694 CTTGTTGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.03, C:0.12, G:0.17, T:0.68
Consensus pattern (11 bp):
TTGTTGTTTTC
Found at i:14860267 original size:12 final size:12
Alignment explanation
Indices: 14860237--14860279 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
14860227 ACAATGCCGG
14860237 GAAAAATAAAACAA
1 GAAAAA-AAAA-AA
*
14860251 CAAAAAAAAAAA
1 GAAAAAAAAAAA
*
14860263 GAAAAAAAAAAG
1 GAAAAAAAAAAA
14860275 GAAAA
1 GAAAA
14860280 GAGATACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 17 0.65
13 4 0.15
14 5 0.19
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:14868002 original size:22 final size:22
Alignment explanation
Indices: 14867977--14868039 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
14867967 TGGTCATAAT
14867977 TAATTAAATAGTTAGTGAATTC
1 TAATTAAATAGTTAGTGAATTC
14867999 TAATCT-AAT-G---GTG-A-T-
1 TAAT-TAAATAGTTAGTGAATTC
14868014 TAATTAAATAGTTAGTGAATTC
1 TAATTAAATAGTTAGTGAATTC
14868036 TAAT
1 TAAT
14868040 CTAATGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 18
0.64 0.00 0.36
Matches are distributed among these distances:
14 1 0.03
15 7 0.22
16 2 0.06
17 1 0.03
18 3 0.09
19 3 0.09
20 1 0.03
21 2 0.06
22 11 0.34
23 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (22 bp):
TAATTAAATAGTTAGTGAATTC
Found at i:14868016 original size:37 final size:37
Alignment explanation
Indices: 14867975--14868046 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
14867965 GCTGGTCATA
14867975 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
1 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
14868012 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
1 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
14868047 AAAAAATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (37 bp):
ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
Found at i:14869699 original size:35 final size:36
Alignment explanation
Indices: 14869651--14869727 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
14869641 ATTTGTTAGA
*
14869651 TATTGATTATGTTTTAACCTTATTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTATTGGATATTGAAAT
* *
14869687 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAACCTTATTGGATATTGAAAT
14869722 TATTGA
1 TATTGA
14869728 CAATGACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTATTGGATATTGAAAT
Found at i:14871103 original size:14 final size:14
Alignment explanation
Indices: 14871080--14871117 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
14871070 ACAGAAAAGT
14871080 AAAACATTTTCCAG
1 AAAACATTTTCCAG
*
14871094 AAATCATTTTCCAG
1 AAAACATTTTCCAG
14871108 AAAACATTTT
1 AAAACATTTT
14871118 ACTGCCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (14 bp):
AAAACATTTTCCAG
Found at i:14871109 original size:34 final size:35
Alignment explanation
Indices: 14871045--14871111 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
14871035 CAAACACCAA
* * *
14871045 AAAATATTTTCTAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
14871080 AAAACATTTTCCAG-AAATCATTTTCCAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
14871112 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14872462 original size:43 final size:43
Alignment explanation
Indices: 14872412--14872695 Score: 320
Period size: 43 Copynumber: 6.7 Consensus size: 43
14872402 CTAAAAATAG
* *
14872412 ACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTTCCAAAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
* * * * * *
14872455 ACACCGCTATAGGTCAGGACCTTTAGTGGCGC-TTTTGCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
* * * * * *
14872497 ACGCCACTAAAGCTCAGGACCTTTAGCGGCGCTTTTCCCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
* * *
14872540 ATGCTGCTATAGATCAAGACCTTTAGCGGCACTTTTCCCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
* *
14872583 ACGCTGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
* ** * * *
14872626 GCATCGCTATAAATCAAGACCTTTAGTGGCACTTTTTTCACAA
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
*
14872669 ACGCCGCTATAGACCAA-ACCTTTAGCG
1 ACGCCGCTATAGATCAAGACCTTTAGCG
14872696 ACGCTTCTCG
Statistics
Matches: 203, Mismatches: 37, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
42 44 0.22
43 159 0.78
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTTCCACAA
Found at i:14872575 original size:128 final size:128
Alignment explanation
Indices: 14872412--14872695 Score: 342
Period size: 128 Copynumber: 2.2 Consensus size: 128
14872402 CTAAAAATAG
* * * *
14872412 ACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTTCCAAAAACACCGCTATAGGTCAGGACCT
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTCCCAAAAACACCGCTATAGATCAAGACCT
* * * *
14872477 TTAGTGGCGC-TTTTGCACAA-A-CGCCACTAAAGCTCAGGACCTTTAGCGGCGCTTTTCCCACA
66 TTAGCGGCGCTTTTTCCACAACATCGCCA-TAAA--TCAAGACCTTTAGCGGCACTTTTCCCACA
14872539 A
128 A
* * * * *
14872540 ATGCTGCTATAGATCAAGACCTTTAGCGGCACTTTTCCCACAAACGCTGCTATAGATCAAGACCT
1 ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTCCCAAAAACACCGCTATAGATCAAGACCT
* * **
14872605 TTAGCGGCGCTTTTTCCACAAGCATCGCTATAAATCAAGACCTTTAGTGGCACTTTTTTCACAA
66 TTAGCGGCGCTTTTTCCACAA-CATCGCCATAAATCAAGACCTTTAGCGGCACTTTTCCCACAA
*
14872669 ACGCCGCTATAGACCAA-ACCTTTAGCG
1 ACGCCGCTATAGATCAAGACCTTTAGCG
14872696 ACGCTTCTCG
Statistics
Matches: 132, Mismatches: 20, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
128 75 0.57
129 48 0.36
131 5 0.04
132 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (128 bp):
ACGCCGCTATAGATCAAGACCTTTAGCGGCACTTTTCCCAAAAACACCGCTATAGATCAAGACCT
TTAGCGGCGCTTTTTCCACAACATCGCCATAAATCAAGACCTTTAGCGGCACTTTTCCCACAA
Found at i:14873285 original size:36 final size:36
Alignment explanation
Indices: 14873238--14873317 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
14873228 AAGTGAAAGA
*
14873238 AAACAGAAATTTATGCGTGTAAATACAAAATGCTTC
1 AAACACAAATTTATGCGTGTAAATACAAAATGCTTC
14873274 AAACACAAATTTATGCGTGTAAATACAAAATGCTTC
1 AAACACAAATTTATGCGTGTAAATACAAAATGCTTC
*
14873310 AAAGACAA
1 AAACACAA
14873318 CCTAATTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (36 bp):
AAACACAAATTTATGCGTGTAAATACAAAATGCTTC
Found at i:14874909 original size:39 final size:39
Alignment explanation
Indices: 14874866--14874943 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
14874856 CATTAAAGTA
14874866 CCTTTAGCCTCCTTAATATATATAGAATCCATCTACATT
1 CCTTTAGCCTCCTTAATATATATAGAATCCATCTACATT
14874905 CCTTTAGCCTCCTTAATATATATAGAATCCATCTACATT
1 CCTTTAGCCTCCTTAATATATATAGAATCCATCTACATT
14874944 GTAGTTGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (39 bp):
CCTTTAGCCTCCTTAATATATATAGAATCCATCTACATT
Found at i:14876954 original size:21 final size:21
Alignment explanation
Indices: 14876938--14876983 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14876928 CACTAACTCT
*
14876938 TAACCTCTAACATCTAACCCC
1 TAACCCCTAACATCTAACCCC
**
14876959 TAACCCCTAACCCCTAACCCC
1 TAACCCCTAACATCTAACCCC
14876980 TAAC
1 TAAC
14876984 TACTAACCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACCCCTAACATCTAACCCC
Found at i:14876961 original size:7 final size:7
Alignment explanation
Indices: 14876951--14876996 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
14876941 CCTCTAACAT
14876951 CTAACCC
1 CTAACCC
14876958 CTAACCC
1 CTAACCC
14876965 CTAACCC
1 CTAACCC
14876972 CTAACCC
1 CTAACCC
**
14876979 CTAACTA
1 CTAACCC
14876986 CTAACCC
1 CTAACCC
14876993 CTAA
1 CTAA
14876997 ACCTTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAACCC
Found at i:14877104 original size:61 final size:63
Alignment explanation
Indices: 14876986--14877107 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 63
14876976 CCCCTAACTA
*
14876986 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATTTAAACCCTAAAAC
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAAC
* ***
14877049 CTAACCCCTAAACCTTATTT-A-ATATAAATTAAAACATGTTAATTAATCTAAACCCTAAA
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAA
14877108 TTAATCCCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 33 0.61
62 1 0.02
63 20 0.37
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (63 bp):
CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAAC
Found at i:14877182 original size:14 final size:15
Alignment explanation
Indices: 14877165--14877197 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14877155 CCTTAAACAG
14877165 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
14877179 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
14877194 AATC
1 AATC
14877198 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:14877591 original size:20 final size:19
Alignment explanation
Indices: 14877550--14877593 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
14877540 AATTTTAATT
*
14877550 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
14877569 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
14877589 AATAT
1 AATAT
14877594 TTTTTTGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:14877832 original size:66 final size:65
Alignment explanation
Indices: 14877751--14877908 Score: 221
Period size: 65 Copynumber: 2.4 Consensus size: 65
14877741 CTGAGCATTA
* * *
14877751 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAAAGGTC-AAAACGTTGGTCTTAGGTTTTTT
1 GCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCTGAAAAGTCAAAAACGTTAGTCTTAGG-TTTTT
14877815 T
65 T
* *
14877816 GTGGCGCTTTTTCC-AAAACGCTGCTAAAGCCCTGAAAAGTCAAAAACGTTAGTCTTTGGTTTTT
1 GCGGCGC-TTTTCCAAAAACGCTGCTAAAGCCCTGAAAAGTCAAAAACGTTAGTCTTAGGTTTTT
14877880 T
65 T
**
14877881 GCGGCGCTTTTGAAAAAACGCTGCTAAA
1 GCGGCGCTTTTCCAAAAACGCTGCTAAA
14877909 TCCCAAGCAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
64 4 0.05
65 57 0.70
66 21 0.26
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (65 bp):
GCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCTGAAAAGTCAAAAACGTTAGTCTTAGGTTTTTT
Found at i:14878072 original size:113 final size:113
Alignment explanation
Indices: 14877821--14878244 Score: 496
Period size: 113 Copynumber: 3.8 Consensus size: 113
14877811 TTTTTGTGGC
* * * *
14877821 GCTTTTTCCAAAACG-CTGCTAAAGCCCTGAAAAGTCAAAAACG-T-TAG-T---CTTTGGTTTT
1 GCTTTTTCAAAAACGCCT-CTAAAGCCCTGAAAGGTCAAAAACGATGTCGTTGGGCTTAGGTTTT
* * * * *
14877879 TTGCGGCGCTTTT-GAAAAAACGCTGCTAAATCCCA-AGCATTAGCGGC
65 TTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCTCAGAGCATTAGCGGT
* * * *
14877926 GCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAACGATGTCGTTGAGCTTCGTTTTTT
1 GCTTTTTCAAAAACGCCTCTAAAGCCCTGAAAGGTCAAAAACGATGTCGTTGGGCTTAGGTTTTT
* *
14877991 TGTGGCGCTTTTCCAAAAAACGCCGCTAAAGGTCAGAGCATTAGCGGT
66 TGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCTCAGAGCATTAGCGGT
* * * *
14878039 GCTTTGTT-AAAAATGCCTCTAAAGCCCTAAAAGGTCGAAAACGATGTCGTTGGGCGTAGGTTTT
1 GCTTT-TTCAAAAACGCCTCTAAAGCCCTGAAAGGTCAAAAACGATGTCGTTGGGCTTAGGTTTT
* * **
14878103 TTGCGGCGCTTTTCC-AAAATCGCCTCTAAAGCTTTGAGCATTAGCGGT
65 TTGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCTCAGAGCATTAGCGGT
*
14878151 GCTTTTTCAAAAACG-CTGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTCGGGCTTAGGTTT
1 GCTTTTTCAAAAACGCCT-CTAAAGCCCTGAAAGGTC-AAAAACGATGTCGTTGGGCTTAGGTTT
*
14878215 TTTGCGGCGC-TTTCCAAAAAACGCCACTAA
64 TTTGCGGCGCTTTTCCAAAAAACGCCGCTAA
14878245 TACTTGTTTT
Statistics
Matches: 271, Mismatches: 34, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
105 38 0.14
106 2 0.01
107 2 0.01
108 1 0.00
111 24 0.09
112 78 0.29
113 124 0.46
114 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (113 bp):
GCTTTTTCAAAAACGCCTCTAAAGCCCTGAAAGGTCAAAAACGATGTCGTTGGGCTTAGGTTTTT
TGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCTCAGAGCATTAGCGGT
Found at i:14880945 original size:17 final size:17
Alignment explanation
Indices: 14880886--14880947 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
14880876 AATATTTAAT
*
14880886 TTAAAATTTTAAAATAA
1 TTAAAATTTAAAAATAA
* * ** *
14880903 ATAAAAATT-ATGATTA
1 TTAAAATTTAAAAATAA
14880919 TTATAAATTTAAAAATAA
1 TTA-AAATTTAAAAATAA
14880937 TTAAAATTTAA
1 TTAAAATTTAA
14880948 GTTACAATTG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 6 0.18
17 20 0.61
18 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAAATTTAAAAATAA
Found at i:14890693 original size:21 final size:22
Alignment explanation
Indices: 14890669--14890715 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
14890659 TAATAGGAAT
* *
14890669 ACATGA-TTGTGTGACTGAGGC
1 ACATGACTCGTGTGACTAAGGC
*
14890690 ACAT-ACTCGTGTGACTAAGGG
1 ACATGACTCGTGTGACTAAGGC
14890711 ACATG
1 ACATG
14890716 GCCGTGCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (22 bp):
ACATGACTCGTGTGACTAAGGC
Found at i:14893951 original size:13 final size:13
Alignment explanation
Indices: 14893933--14893986 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
14893923 ATGGCACAAA
14893933 ATATAACCATTTC
1 ATATAACCATTTC
*
14893946 ATATAATCATTTC
1 ATATAACCATTTC
14893959 ATATAACCATTTC
1 ATATAACCATTTC
*
14893972 ATCTGAA-CATTTC
1 ATAT-AACCATTTC
14893985 AT
1 AT
14893987 TTGATCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 35 0.95
14 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (13 bp):
ATATAACCATTTC
Found at i:14893999 original size:26 final size:26
Alignment explanation
Indices: 14893933--14893986 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
14893923 ATGGCACAAA
14893933 ATATAACCATTTCATATAATCATTTC
1 ATATAACCATTTCATATAATCATTTC
*
14893959 ATATAACCATTTCATCTGAA-CATTTC
1 ATATAACCATTTCATAT-AATCATTTC
14893985 AT
1 AT
14893987 TTGATCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAACCATTTCATATAATCATTTC
Found at i:14894000 original size:13 final size:13
Alignment explanation
Indices: 14893933--14893999 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
14893923 ATGGCACAAA
*
14893933 ATATAACCATTTC
1 ATATAATCATTTC
14893946 ATATAATCATTTC
1 ATATAATCATTTC
*
14893959 ATATAACCATTTC
1 ATATAATCATTTC
*
14893972 ATCTGAA-CATTTC
1 ATAT-AATCATTTC
* *
14893985 ATTTGATCATTTC
1 ATATAATCATTTC
14893998 AT
1 AT
14894000 TCACACATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
12 1 0.02
13 44 0.94
14 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.43
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:14897373 original size:21 final size:21
Alignment explanation
Indices: 14897349--14897394 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
14897339 ATAATTAGGC
14897349 TCAAGTGGCAAATCATTAAAG
1 TCAAGTGGCAAATCATTAAAG
*
14897370 TCAAGTGGTAAATCATTAAAG
1 TCAAGTGGCAAATCATTAAAG
14897391 TCAA
1 TCAA
14897395 ATGATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (21 bp):
TCAAGTGGCAAATCATTAAAG
Found at i:14909332 original size:44 final size:44
Alignment explanation
Indices: 14909236--14909520 Score: 165
Period size: 44 Copynumber: 6.5 Consensus size: 44
14909226 AAGATGGCAA
* * ***
14909236 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAGTAATAG
* *
14909280 ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAATAG
* * * * *
14909324 ATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CG-CATCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAAT-AG
* ** * ** * *
14909365 GTCTTATC-CGCCTGAAGTCACAGTGGGGCAGG-CCAAAG-AAGCAA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAGC-GGATTAAAGTAA-TAG
* * * ** * **
14909409 ATCTTATCTCCATGAGGTTGCGGTGGAGTAGATTGAAGTCGGTA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGT-AATAG
* * *
14909453 ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAGTAATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAATAG
*
14909497 ATCTTATCTCTCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
14909521 AGAACAGATC
Statistics
Matches: 173, Mismatches: 55, Indels: 26
0.68 0.22 0.10
Matches are distributed among these distances:
40 3 0.02
41 23 0.13
42 2 0.01
43 10 0.06
44 133 0.77
45 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAATAG
Done.