Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 157 of 172
Found at i:45914967 original size:11 final size:11
Alignment explanation
Indices: 45914951--45914985 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
45914941 AAATAAGATT
45914951 TTTTTAATTTA
1 TTTTTAATTTA
45914962 TTTTTAATTTA
1 TTTTTAATTTA
*
45914973 TTTTCAATTTA
1 TTTTTAATTTA
45914984 TT
1 TT
45914986 GGGAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTAATTTA
Found at i:45915452 original size:13 final size:13
Alignment explanation
Indices: 45915434--45915458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45915424 TATTTTAATA
45915434 TTATTTTGTGTGT
1 TTATTTTGTGTGT
45915447 TTATTTTGTGTG
1 TTATTTTGTGTG
45915459 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:45917083 original size:41 final size:41
Alignment explanation
Indices: 45917034--45917137 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
45917024 GACTTTAAGT
*
45917034 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
45917075 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
45917116 TTACCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
45917138 ATATGTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:45917874 original size:20 final size:20
Alignment explanation
Indices: 45917851--45917895 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
45917841 ATGATCATAT
45917851 TGTTTAAATTGAGTTTTATG
1 TGTTTAAATTGAGTTTTATG
45917871 TGTTTAAATTGAGTTTTATG
1 TGTTTAAATTGAGTTTTATG
45917891 TGTTT
1 TGTTT
45917896 TCGAATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (20 bp):
TGTTTAAATTGAGTTTTATG
Found at i:45925107 original size:21 final size:21
Alignment explanation
Indices: 45925083--45925135 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45925073 CATTGTTTCT
* *
45925083 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAATAACC
*
45925104 AATCTCACCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
45925125 AATCTCACCGC
1 AATCTCACCGC
45925136 CACCGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.40, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:45926126 original size:22 final size:22
Alignment explanation
Indices: 45926078--45926126 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
45926068 GAAATGGGAG
*
45926078 GATTTAAATAAAATATAAGATT
1 GATTTAAATAAAATATAAAATT
*
45926100 GATTTAAATAAAATTTAAAATT
1 GATTTAAATAAAATATAAAATT
*
45926122 TATTT
1 GATTT
45926127 TTTATATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
GATTTAAATAAAATATAAAATT
Found at i:45926357 original size:28 final size:28
Alignment explanation
Indices: 45926311--45926373 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
45926301 AAAATATAAA
*
45926311 ATTATATTTAATACAATAAAATATTTATT
1 ATTAT-TTTAATACAATAAAACATTTATT
*
45926340 ATTATTTTAATATAATAAAACATTTATT
1 ATTATTTTAATACAATAAAACATTTATT
45926368 A-TATTT
1 ATTATTT
45926374 ATGGTGATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 5 0.16
28 22 0.69
29 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTATTTTAATACAATAAAACATTTATT
Found at i:45926505 original size:24 final size:26
Alignment explanation
Indices: 45926462--45926510 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
45926452 ATTATTTTAA
*
45926462 AAAAATTTATAAATAAAAATTAATCT
1 AAAAATTTATAAATAAAAATGAATCT
*
45926488 AAAAA-TT-TAAATATAAATGAATC
1 AAAAATTTATAAATAAAAATGAATC
45926511 AGGTCAGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 2 0.10
26 5 0.24
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAAATTTATAAATAAAAATGAATCT
Found at i:45928312 original size:14 final size:17
Alignment explanation
Indices: 45928281--45928317 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
45928271 TTTATAAAGG
45928281 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
45928298 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
45928312 ATATTA
1 ATATTA
45928318 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:45928493 original size:14 final size:14
Alignment explanation
Indices: 45928467--45928517 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
45928457 GAAAACAAAA
45928467 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
45928481 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
45928495 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
45928510 G-AATAAAA
1 GAAATAAAA
45928518 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:45928528 original size:17 final size:16
Alignment explanation
Indices: 45928506--45928539 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45928496 AAGTTAAAAT
45928506 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
45928523 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
45928539 A
1 A
45928540 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:45929443 original size:22 final size:22
Alignment explanation
Indices: 45929418--45929460 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45929408 GTGTGAATTT
*
45929418 GTGAAATAATTATTG-ATTGAAG
1 GTGAAA-AATGATTGAATTGAAG
45929440 GTGAAAAATGATTGAATTGAA
1 GTGAAAAATGATTGAATTGAA
45929461 AGTGTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (22 bp):
GTGAAAAATGATTGAATTGAAG
Found at i:45929689 original size:37 final size:39
Alignment explanation
Indices: 45929630--45929725 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
45929620 CGGATAGATT
* * * *
45929630 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
45929667 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
45929706 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
45929726 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:45942852 original size:18 final size:18
Alignment explanation
Indices: 45942826--45942868 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45942816 TTTCAAAATG
45942826 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
*
45942844 TATTTAATTAAATTTATT
1 TAATTAATTAAATTTATT
45942862 TAATTAA
1 TAATTAA
45942869 AAACCTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:45942861 original size:14 final size:14
Alignment explanation
Indices: 45942842--45942869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45942832 ATTTAAATTT
45942842 TTTATTTAATTAAA
1 TTTATTTAATTAAA
45942856 TTTATTTAATTAAA
1 TTTATTTAATTAAA
45942870 AACCTATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTTAATTAAA
Found at i:45951804 original size:2 final size:2
Alignment explanation
Indices: 45951797--45951823 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45951787 ACATGCACGA
45951797 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
45951824 AAGGACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45958384 original size:27 final size:28
Alignment explanation
Indices: 45958346--45958430 Score: 154
Period size: 28 Copynumber: 3.0 Consensus size: 28
45958336 ATTAAAATGT
45958346 TATAACTTTTTTTTATTTACCAAAATATA
1 TATAA-TTTTTTTTATTTACCAAAATATA
45958375 TATAATTTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
45958403 TATAA-TTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
45958430 T
1 T
45958431 CAAAAAAACT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
27 23 0.41
28 28 0.50
29 5 0.09
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (28 bp):
TATAATTTTTTTTATTTACCAAAATATA
Found at i:45958452 original size:16 final size:17
Alignment explanation
Indices: 45958431--45958467 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
45958421 CAAAATATAT
*
45958431 CAAAAAAACTA-AAAAA
1 CAAAAAAAATAGAAAAA
45958447 CAAAAAAAATAGAAAAA
1 CAAAAAAAATAGAAAAA
45958464 -AAAA
1 CAAAA
45958468 CTTGAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (17 bp):
CAAAAAAAATAGAAAAA
Found at i:45958642 original size:18 final size:18
Alignment explanation
Indices: 45958616--45958698 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
45958606 GGGAAGAAGG
*
45958616 AGAAGGGAAG-AAGAAGAA
1 AGAAAGGAAGAAAGAA-AA
45958634 AGAAAGGAAGAAAGAAAA
1 AGAAAGGAAGAAAGAAAA
*
45958652 AG-AAGG-A-AAAGCAAA
1 AGAAAGGAAGAAAGAAAA
* *
45958667 GGAGAGGAAAGAAAGAAAA
1 AGAAAGG-AAGAAAGAAAA
45958686 AG-AAGGAAAGAAA
1 AGAAAGG-AAGAAA
45958699 AGGAAAGGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 8 0.15
16 4 0.08
17 4 0.08
18 24 0.45
19 13 0.25
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGGAAGAAAGAAAA
Found at i:45958660 original size:14 final size:13
Alignment explanation
Indices: 45958626--45958699 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
45958616 AGAAGGGAAG
45958626 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
45958638 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
45958651 AAGAAGGAAAAGCAAA
1 AAGAA-G-AAAG-AAA
45958667 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
45958685 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
45958699 A
1 A
45958700 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 5 0.10
16 4 0.08
18 4 0.08
19 5 0.10
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:45958699 original size:38 final size:37
Alignment explanation
Indices: 45958616--45958732 Score: 129
Period size: 38 Copynumber: 3.2 Consensus size: 37
45958606 GGGAAGAAGG
* *
45958616 AGAAGGGAAGAAGAAGAAA-GAAAGG-AAGAAAGAAAA
1 AGAAGGAAAGAA-AAGAAAGGAGAGGAAAGAAAGAAAA
45958652 AGAA-G---GAAAAGCAAAGGAGAGGAAAGAAAGAAAA
1 AGAAGGAAAGAAAAG-AAAGGAGAGGAAAGAAAGAAAA
*
45958686 AGAAGGAAAGAAAAGGAAAGGGGAGGAAAGAAAGAAAA
1 AGAAGGAAAGAAAA-GAAAGGAGAGGAAAGAAAGAAAA
*
45958724 ATAAGGAAA
1 AGAAGGAAA
45958733 TGAGAAGAGA
Statistics
Matches: 70, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
31 3 0.04
32 6 0.09
33 5 0.07
34 15 0.21
35 2 0.03
36 4 0.06
38 34 0.49
39 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.01
Consensus pattern (37 bp):
AGAAGGAAAGAAAAGAAAGGAGAGGAAAGAAAGAAAA
Found at i:45958701 original size:10 final size:10
Alignment explanation
Indices: 45958643--45958705 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
45958633 AAGAAAGGAA
*
45958643 GAAAGAAAAA
1 GAAAGAAAAG
*
45958653 GAAGGAAAAG
1 GAAAGAAAAG
* * *
45958663 CAAAGGAGAG
1 GAAAGAAAAG
45958673 GAAAG-AAA-
1 GAAAGAAAAG
45958681 GAAA-AAGAAG
1 GAAAGAA-AAG
45958691 GAAAGAAAAG
1 GAAAGAAAAG
45958701 GAAAG
1 GAAAG
45958706 GGGAGGAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
8 5 0.12
9 4 0.10
10 30 0.73
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:45958745 original size:21 final size:18
Alignment explanation
Indices: 45958671--45958732 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
45958661 AGCAAAGGAG
*
45958671 AGGAAAGAAAGAAAAAGA
1 AGGAAAGAAAGAAAAATA
****
45958689 AGGAAAGAAAAGGAAAGGGG
1 AGGAAAG-AAA-GAAAAATA
45958709 AGGAAAGAAAGAAAAATA
1 AGGAAAGAAAGAAAAATA
45958727 AGGAAA
1 AGGAAA
45958733 TGAGAAGAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 17 0.49
19 6 0.17
20 12 0.34
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (18 bp):
AGGAAAGAAAGAAAAATA
Found at i:45959513 original size:19 final size:19
Alignment explanation
Indices: 45959466--45959502 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45959456 AAAATAGATA
**
45959466 TAATATTTTGGTATTTTTT
1 TAATATTTTAATATTTTTT
45959485 TAATATTTTAATATTTTT
1 TAATATTTTAATATTTTT
45959503 GTTATGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TAATATTTTAATATTTTTT
Found at i:45959603 original size:27 final size:27
Alignment explanation
Indices: 45959553--45959619 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
45959543 AAATAAAAAA
45959553 TTACCAAAATAT-TATAATTTTTTTAC
1 TTACCAAAATATATATAATTTTTTTAC
* *
45959579 TTACGAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAC
45959606 TTACCAAAATATAT
1 TTACCAAAATATAT
45959620 CAAAAAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 11 0.30
27 26 0.70
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAC
Found at i:45960964 original size:17 final size:17
Alignment explanation
Indices: 45960942--45960977 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45960932 ATGGGGTAAG
45960942 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
45960959 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
45960976 AT
1 AT
45960978 TACATCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:45964378 original size:18 final size:18
Alignment explanation
Indices: 45964352--45964389 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45964342 ATCCCAATGA
* *
45964352 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
45964370 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
45964388 TC
1 TC
45964390 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:45964396 original size:18 final size:18
Alignment explanation
Indices: 45964355--45964396 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45964345 CCAATGATCG
* *
45964355 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
45964373 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
45964391 CCACCA
1 CCACCA
45964397 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:45965579 original size:16 final size:16
Alignment explanation
Indices: 45965558--45965588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45965548 GTTCAGGTTT
45965558 TTTTTTCTATTTTTTA
1 TTTTTTCTATTTTTTA
*
45965574 TTTTTTTTATTTTTT
1 TTTTTTCTATTTTTT
45965589 GATATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCTATTTTTTA
Found at i:45965619 original size:26 final size:27
Alignment explanation
Indices: 45965590--45965651 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
45965580 TTATTTTTTG
*
45965590 ATATATTTTGATAAAT-AAAAAATTAT
1 ATATATTTTAATAAATAAAAAAATTAT
*
45965616 ATATTTTTTAATAAATAAAAAAATTAT
1 ATATATTTTAATAAATAAAAAAATTAT
*
45965643 A-ACATTTTA
1 ATATATTTTA
45965652 GTAATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATATTTTAATAAATAAAAAAATTAT
Found at i:45968304 original size:18 final size:17
Alignment explanation
Indices: 45968281--45968332 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
45968271 ACTAATTTTT
45968281 AAAATTATTATTTACATA
1 AAAATTATTATTTACA-A
*
45968299 AAAATTA-TATTTTCAA
1 AAAATTATTATTTACAA
* *
45968315 AAAGTTATTCTTTA-AA
1 AAAATTATTATTTACAA
45968331 AA
1 AA
45968333 TTATTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 11 0.38
17 11 0.38
18 7 0.24
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTATTATTTACAA
Found at i:45968897 original size:19 final size:19
Alignment explanation
Indices: 45968870--45968910 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45968860 TGTATAATTA
*
45968870 TATCAAATTAAAATTTATG
1 TATCAAATTAAAATTCATG
* *
45968889 TATCGAATTAAAGTTCATG
1 TATCAAATTAAAATTCATG
45968908 TAT
1 TAT
45968911 ACTTTTGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (19 bp):
TATCAAATTAAAATTCATG
Found at i:45974969 original size:19 final size:17
Alignment explanation
Indices: 45974937--45974971 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
45974927 CAATCGTCAT
45974937 TTTAAAATTTTTAAATA
1 TTTAAAATTTTTAAATA
45974954 TTTAATAATATTTTAAAT
1 TTTAA-AAT-TTTTAAAT
45974972 GATGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAATTTTTAAATA
Found at i:45977149 original size:31 final size:30
Alignment explanation
Indices: 45977108--45977171 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
45977098 AGTCATAATT
*
45977108 AATAATTAAATCAAAAT-TTTAAAATCTAAAA
1 AATAAATAAATCAAAATCTTTAAAA--TAAAA
* *
45977139 AATAAATAAATTAAATTCTTTAAAATAAAA
1 AATAAATAAATCAAAATCTTTAAAATAAAA
45977169 AAT
1 AAT
45977172 TAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 14 0.48
32 7 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (30 bp):
AATAAATAAATCAAAATCTTTAAAATAAAA
Found at i:45977152 original size:23 final size:22
Alignment explanation
Indices: 45977126--45977176 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
45977116 AATCAAAATT
45977126 TTAAAATCTAAAAAATAAATAAA
1 TTAAAATCTAAAAAATAAA-AAA
* **
45977149 TTAAATTCTTTAAAATAAAAAA
1 TTAAAATCTAAAAAATAAAAAA
45977171 TTAAAA
1 TTAAAA
45977177 AAAAAAACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
TTAAAATCTAAAAAATAAAAAA
Found at i:45977587 original size:17 final size:17
Alignment explanation
Indices: 45977527--45977590 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
45977517 ATTAAATTAA
45977527 TTTTAATTTTTTGTAAT
1 TTTTAATTTTTTGTAAT
* *
45977544 TTTCAATATTTTTATATAT
1 TTTTAAT-TTTTTGTA-AT
* *
45977563 TCTT-ATTTTTTGGAAT
1 TTTTAATTTTTTGTAAT
45977579 TTTTAATTTTTT
1 TTTTAATTTTTT
45977591 AATTAATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
16 5 0.14
17 19 0.51
18 9 0.24
19 4 0.11
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTAATTTTTTGTAAT
Found at i:45980451 original size:29 final size:30
Alignment explanation
Indices: 45980417--45980483 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
45980407 TGAATATTTC
45980417 ATGTATAAAATTACACA-AAATTAAAGTTT
1 ATGTATAAAATTACACATAAATTAAAGTTT
* *
45980446 TTGTATAAAATTGCACATTAAATTAAAGTTT
1 ATGTATAAAATTACACA-TAAATTAAAGTTT
45980477 ATGTATA
1 ATGTATA
45980484 GTTTTGAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
31 18 0.55
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (30 bp):
ATGTATAAAATTACACATAAATTAAAGTTT
Found at i:45985881 original size:21 final size:21
Alignment explanation
Indices: 45985857--45985898 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45985847 CCATTTCTAT
* *
45985857 AACAATTTCATTTATTTATTA
1 AACAATTCCATTTATCTATTA
*
45985878 AACAATTCCGTTTATCTATTA
1 AACAATTCCATTTATCTATTA
45985899 GATTGGAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
AACAATTCCATTTATCTATTA
Found at i:45990800 original size:6 final size:6
Alignment explanation
Indices: 45990789--45990814 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
45990779 AAGCCGTTTG
45990789 ATTTCC ATTTCC ATTTCC ATTTCC AT
1 ATTTCC ATTTCC ATTTCC ATTTCC AT
45990815 CTCTCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTCC
Found at i:46004483 original size:3 final size:3
Alignment explanation
Indices: 46004475--46004499 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46004465 CTTTATACCT
46004475 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
46004500 ACAGAAACAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46006092 original size:22 final size:24
Alignment explanation
Indices: 46006049--46006092 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
46006039 TTATATAAAT
* *
46006049 TTAAATATATGTTTATAGTAACAA
1 TTAAATATATGATTATACTAACAA
46006073 TTAAATATAT-ATTAT-CTAAC
1 TTAAATATATGATTATACTAAC
46006093 TCAAACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 4 0.22
24 10 0.56
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (24 bp):
TTAAATATATGATTATACTAACAA
Found at i:46008710 original size:17 final size:16
Alignment explanation
Indices: 46008688--46008739 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
46008678 TCTTGTTCAA
*
46008688 TTATTTAAATATTTGAT
1 TTATTTAATTATTT-AT
*
46008705 TTATTTAATTATTTTT
1 TTATTTAATTATTTAT
46008721 TTATCTTAATTATTTAT
1 TTAT-TTAATTATTTAT
46008738 TT
1 TT
46008740 TAATTTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 5 0.16
17 26 0.84
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTAATTATTTAT
Found at i:46014804 original size:45 final size:45
Alignment explanation
Indices: 46014751--46014888 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 45
46014741 GACACATAGG
*
46014751 AAAATCTCGCAAATGGAATCTGCCTCTGGTTGTGGGTATACAACA
1 AAAATCTCGCAGATGGAATCTGCCTCTGGTTGTGGGTATACAACA
* * *
46014796 AAAATCTCGCAGATGAAATCTGCC-CTTGGCTGTGGAT-TGCACAACA
1 AAAATCTCGCAGATGGAATCTGCCTC-TGGTTGTGGGTAT--ACAACA
* * * *
46014842 ATTAAA--TCACAGATGGAATCTGCTTTTGGTTGTGGGTACACAACA
1 A--AAATCTCGCAGATGGAATCTGCCTCTGGTTGTGGGTATACAACA
46014887 AA
1 AA
46014889 TTTGCAATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 38 0.51
46 31 0.41
48 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
AAAATCTCGCAGATGGAATCTGCCTCTGGTTGTGGGTATACAACA
Found at i:46019320 original size:46 final size:46
Alignment explanation
Indices: 46019250--46019432 Score: 260
Period size: 46 Copynumber: 4.0 Consensus size: 46
46019240 ATGCTATAAT
* * * **
46019250 TCAGTATGGTTTCCTCCACTGAAATACCATACCTACTTTTCTTAAC
1 TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
* *
46019296 TCAGTATGGTTTTCTTTA-TCGAAATACCATACCTACTTTTCACAAC
1 TCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCACAAC
*
46019342 TCAGTATGGTTTTCCTCACTGAAACACCATACCTACTTTTCACAAC
1 TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
* *
46019388 TTAGTATGGTTTTCTTCACTGAAACACCATATCTACTTTTCACAA
1 TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
46019433 TTTGTCATGG
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 122 0.98
47 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (46 bp):
TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAC
Found at i:46028256 original size:31 final size:32
Alignment explanation
Indices: 46028221--46028292 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
46028211 TTTGGGTCAA
*
46028221 GACTAAAATTTTA-AAATTTGAAAAA-TACAGG
1 GACTAAAATTTGACAAATTT-AAAAAGTACAGG
*
46028252 GACTAAAA-TTGACCAATTTAAAAAGTACAGG
1 GACTAAAATTTGACAAATTTAAAAAGTACAGG
*
46028283 AACTAAAATT
1 GACTAAAATT
46028293 AATCAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 8 0.23
31 26 0.74
32 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.26
Consensus pattern (32 bp):
GACTAAAATTTGACAAATTTAAAAAGTACAGG
Found at i:46028304 original size:31 final size:30
Alignment explanation
Indices: 46028241--46028318 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 30
46028231 TTAAAATTTG
* * *
46028241 AAAAATACAGGGACTAAAATTGACCAATTT
1 AAAAATACAGGAACTAAAATTAACCAAATT
*
46028271 AAAAAGTACAGGAACTAAAATTAATCAAATT
1 AAAAA-TACAGGAACTAAAATTAACCAAATT
* *
46028302 AAAACTATAGGAACTAA
1 AAAAATACAGGAACTAA
46028319 TTCAACAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 16 0.39
31 25 0.61
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22
Consensus pattern (30 bp):
AAAAATACAGGAACTAAAATTAACCAAATT
Found at i:46031630 original size:7 final size:7
Alignment explanation
Indices: 46031618--46031646 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
46031608 CTGTCTTCTA
46031618 TTTTATT
1 TTTTATT
46031625 TTTTATT
1 TTTTATT
46031632 TTTTATT
1 TTTTATT
46031639 TTTTATT
1 TTTTATT
46031646 T
1 T
46031647 ATTTTCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:46032356 original size:29 final size:29
Alignment explanation
Indices: 46032294--46032358 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
46032284 TAGTCCCTTT
*
46032294 TATTTTATTTTTCTTTCAATTTCACCCTA
1 TATTTTATTTTTATTTCAATTTCACCCTA
* *
46032323 CATTTTCATTTTTATTTCGATTT-AGCCC-A
1 TATTTT-ATTTTTATTTCAATTTCA-CCCTA
46032352 TATTTTA
1 TATTTTA
46032359 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 1 0.03
29 12 0.40
30 17 0.57
ACGTcount: A:0.22, C:0.18, G:0.03, T:0.57
Consensus pattern (29 bp):
TATTTTATTTTTATTTCAATTTCACCCTA
Found at i:46044983 original size:44 final size:44
Alignment explanation
Indices: 46044930--46045467 Score: 224
Period size: 44 Copynumber: 12.4 Consensus size: 44
46044920 TTTCAGATCT
*
46044930 TATCTCCCTGAGATTACTGCGGAGCAGATTGAAGAT-AGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAAG-AATCC
** * * *
46044974 TATCTCCCTGAGATTACAGCGGAGTGGATT-AAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-AAGAATCC
* ** * * * * *
46045018 TATCTCTCTGA-AGTTACAGTAGAGTAGATCG-TG-TCAG-ATCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGATAAGAATCC
*
46045059 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAAG-AATCC
* * * * *
46045103 TATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATGAAGGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-AAGAATCC
* * * * * * * *
46045147 TATCT--CTGA-AGTTACAGCAGAGTAAATCG-TG-TCAG-GTCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGATAAGAATCC
* * ** ** * *
46045186 TATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG-ATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-A--TAAGAATCC
46045232 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-AGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAAG-AATCC
* * * * * *
46045276 TATCTCCCTGATATTACAGTGGAGCGGATT-AAAACTAAGGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA-TAAGAATCC
* ** * * * ** * *
46045320 TATCTCTCTGA-AGTTACAGTAGAGTAGATCG--CACCAG-GTCT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGATAAGAATCC
* * ** * *
46045361 TATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATTTCAG-ATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-A--TAAGAATCC
* *
46045407 TATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAAG-AATCC
46045451 TATCTCCCTGAG-TTACA
1 TATCTCCCTGAGATTACA
46045468 ATGGAGTGGA
Statistics
Matches: 376, Mismatches: 83, Indels: 71
0.71 0.16 0.13
Matches are distributed among these distances:
39 7 0.02
40 2 0.01
41 74 0.20
42 30 0.08
43 22 0.06
44 164 0.44
45 7 0.02
46 70 0.19
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAAGAATCC
Found at i:46045132 original size:129 final size:127
Alignment explanation
Indices: 46044922--46045261 Score: 475
Period size: 129 Copynumber: 2.6 Consensus size: 127
46044912 CCGAAGAATT
*
46044922 TCAGATCTTATCTCCCTGAGATTACTGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * *
46044987 TTACAGCGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGCGGAGCGGATTAAAATAAAGGATCTTA--TCTCTGAAGTTACAGCAGAGTAAATCGTG
*
46045051 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
46045116 TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTGAAGTTACAGCAGAGTAAATCGTG
66 TTACAGCGGAGCGGATTAAAATAAAGGATCTTATCTCTGAAGTTACAGCAGAGTAAATCGTG
* * * ** ** * *
46045178 TCAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGA-ATTTCAGATCTTATCTCCCTG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATA-GT-A-ATCCTATCTCCCTG
*
46045242 AGATTACAGCGGAGCAGATT
63 AGATTACAGCGGAGCGGATT
46045262 GAAGATAGTA
Statistics
Matches: 189, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
126 1 0.01
127 63 0.33
128 1 0.01
129 124 0.66
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (127 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGCGGAGCGGATTAAAATAAAGGATCTTATCTCTGAAGTTACAGCAGAGTAAATCGTG
Found at i:46045438 original size:175 final size:173
Alignment explanation
Indices: 46045051--46045519 Score: 705
Period size: 175 Copynumber: 2.7 Consensus size: 173
46045041 GTAGATCGTG
46045051 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA-A
* * ***
46045116 TTACAGTGGAGCGGATTAAAATGAAGGATCTTA--TCTCTGAAGTTACAGCAGAGTAAATCGTGT
65 TTACAGTGGAGCGGATTAAAAT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* *
46045179 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
129 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
*
46045224 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA-A
46045289 TTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
65 TTACAGTGGAGCGGATTAAAA-TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* *
46045354 CAGGTCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATT
129 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
* *
46045399 TCAGATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAAT
* * ****
46045464 TACAATGGAGTGGATTAAAA-AA--AAAAGATCTCTCTGAAGTTACAGTAGAGTAGATC
66 TACAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
46045520 ACCTCAGATT
Statistics
Matches: 273, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
170 30 0.11
172 2 0.01
173 94 0.34
174 20 0.07
175 127 0.47
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (173 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAAT
TACAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCA
GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
Found at i:46050884 original size:22 final size:22
Alignment explanation
Indices: 46050859--46050902 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46050849 AGAAATAAGT
46050859 TGTTTGACATACTAAAAATTAA
1 TGTTTGACATACTAAAAATTAA
46050881 TGTTTGACATACTAAAAATTAA
1 TGTTTGACATACTAAAAATTAA
46050903 AGTGGACACT
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:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
TGTTTGACATACTAAAAATTAA
Found at i:46050910 original size:21 final size:22
Alignment explanation
Indices: 46050864--46050910 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
46050854 TAAGTTGTTT
* *
46050864 GACATACTAAAAATTAATGTTT
1 GACATACTAAAAATTAAAGTTG
46050886 GACATACTAAAAATTAAAG-TG
1 GACATACTAAAAATTAAAGTTG
46050907 GACA
1 GACA
46050911 CTTCGATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (22 bp):
GACATACTAAAAATTAAAGTTG
Found at i:46055078 original size:23 final size:23
Alignment explanation
Indices: 46055052--46055127 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
46055042 ATAAGTGCCA
46055052 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46055075 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46055098 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46055121 CACTGAT
1 CACTGAT
46055128 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46055227 original size:8 final size:8
Alignment explanation
Indices: 46055214--46055242 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
46055204 ACCCGGGACT
46055214 CACTGTAA
1 CACTGTAA
46055222 CACTGTAA
1 CACTGTAA
46055230 CACTGTAA
1 CACTGTAA
46055238 CACTG
1 CACTG
46055243 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:46055373 original size:18 final size:17
Alignment explanation
Indices: 46055347--46055385 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46055337 ATTTTCCTTC
46055347 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
46055364 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
46055382 CACA
1 CACA
46055386 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:46062413 original size:23 final size:23
Alignment explanation
Indices: 46062387--46062462 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
46062377 ATAAGTGCCA
46062387 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46062410 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46062433 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46062456 CACTGAT
1 CACTGAT
46062463 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46062562 original size:8 final size:8
Alignment explanation
Indices: 46062549--46062577 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
46062539 ACCCGGGACT
46062549 CACTGTAA
1 CACTGTAA
46062557 CACTGTAA
1 CACTGTAA
46062565 CACTGTAA
1 CACTGTAA
46062573 CACTG
1 CACTG
46062578 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:46062708 original size:18 final size:17
Alignment explanation
Indices: 46062682--46062720 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46062672 ATTTTCCTTC
46062682 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
46062699 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
46062717 CACA
1 CACA
46062721 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:46067743 original size:30 final size:30
Alignment explanation
Indices: 46067676--46067748 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
46067666 GAGAGGGATA
* **
46067676 TTTTATTTAATATTAATATAATTATTTTTAT
1 TTTTA-TTAATATTAATATAATAATTTAAAT
46067707 TTTTATTAATATTAATATAA-AATTTAAAT
1 TTTTATTAATATTAATATAATAATTTAAAT
46067736 TTATTATT-ATATT
1 TT-TTATTAATATT
46067749 TTTTGAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.34
30 20 0.53
31 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTATTAATATTAATATAATAATTTAAAT
Found at i:46068638 original size:21 final size:21
Alignment explanation
Indices: 46068612--46068651 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46068602 CATTATTTTT
46068612 ATTT-AATATTATTAATATAAA
1 ATTTAAAT-TTATTAATATAAA
*
46068633 ATTTAAATTTATTATTATA
1 ATTTAAATTTATTAATATA
46068652 TCTTTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAATTTATTAATATAAA
Found at i:46068989 original size:19 final size:21
Alignment explanation
Indices: 46068955--46068997 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
46068945 AACTATTTTA
46068955 ATTTCATAATGCTTTATT-TG
1 ATTTCATAATGCTTTATTCTG
*
46068975 ATTTC-TAATGTTTTATTCTG
1 ATTTCATAATGCTTTATTCTG
46068995 ATT
1 ATT
46068998 CCGTGGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (21 bp):
ATTTCATAATGCTTTATTCTG
Found at i:46081021 original size:16 final size:15
Alignment explanation
Indices: 46080992--46081020 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46080982 ATAAAAAAGC
46080992 ACAAAAAAATAAAAT
1 ACAAAAAAATAAAAT
46081007 ACAAAAAAATAAAA
1 ACAAAAAAATAAAA
46081021 AATATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
ACAAAAAAATAAAAT
Found at i:46088501 original size:30 final size:32
Alignment explanation
Indices: 46088437--46088502 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
46088427 GTTCTTCTCC
* * *
46088437 TATATTGTATGTACAATTTGTCTTTTACTAAT
1 TATATTGTATGTACAATTTGCCATGTACTAAT
*
46088469 TATATT-T-TGTACAATTTGCCATGTACTTAT
1 TATATTGTATGTACAATTTGCCATGTACTAAT
46088499 TATA
1 TATA
46088503 CCTTTGTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 23 0.77
31 1 0.03
32 6 0.20
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.52
Consensus pattern (32 bp):
TATATTGTATGTACAATTTGCCATGTACTAAT
Found at i:46094768 original size:13 final size:15
Alignment explanation
Indices: 46094734--46094770 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
46094724 TAATTACCAC
46094734 TTAATTAGTATTAGAT
1 TTAATTA-TATTAGAT
46094750 TTAATTATATTA-A-
1 TTAATTATATTAGAT
46094763 TTAATTAT
1 TTAATTAT
46094771 TATTTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 5 0.24
16 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TTAATTATATTAGAT
Found at i:46095533 original size:22 final size:21
Alignment explanation
Indices: 46095503--46095544 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46095493 ATAAAATAAA
*
46095503 TATACATTTGAGATTTTATATC
1 TATAAATTT-AGATTTTATATC
*
46095525 TATAAATTTATATTTTATAT
1 TATAAATTTAGATTTTATAT
46095545 TATTTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TATAAATTTAGATTTTATATC
Found at i:46095647 original size:18 final size:19
Alignment explanation
Indices: 46095619--46095655 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46095609 TTTAACAATC
46095619 GAAATTTATTTTATAATAA
1 GAAATTTATTTTATAATAA
*
46095638 GAAA-TTATTTTGTAATAA
1 GAAATTTATTTTATAATAA
46095656 TCAATGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
GAAATTTATTTTATAATAA
Found at i:46098118 original size:26 final size:26
Alignment explanation
Indices: 46098082--46098133 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46098072 CACCACTGAA
* *
46098082 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46098108 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46098134 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:46098210 original size:70 final size:71
Alignment explanation
Indices: 46098094--46098244 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
46098084 GGGGAATCAT
*
46098094 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
46098158 ATATCG
66 ATATCG
* ***
46098164 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
46098229 GATATCG
65 GATATCG
46098236 CACTTAGCA
1 CACTTAGCA
46098245 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:46098287 original size:104 final size:104
Alignment explanation
Indices: 46098163--46098386 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
46098153 AATGGATATC
46098163 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
46098228 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
46098267 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
46098332 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
46098371 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
46098387 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:46098748 original size:29 final size:29
Alignment explanation
Indices: 46098715--46098778 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46098705 TAATCCACCA
46098715 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46098744 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46098774 CCCAA
1 CCCAA
46098779 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46098752 original size:30 final size:30
Alignment explanation
Indices: 46098722--46098778 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46098712 CCACCCAACT
46098722 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46098751 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46098779 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46105813 original size:104 final size:104
Alignment explanation
Indices: 46105691--46105914 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
46105681 AATGGATATC
46105691 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
46105756 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
46105795 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
46105860 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
46105899 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
46105915 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:46106276 original size:29 final size:29
Alignment explanation
Indices: 46106243--46106306 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46106233 TAATCCACCA
46106243 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46106272 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46106302 CCCAA
1 CCCAA
46106307 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46106280 original size:30 final size:30
Alignment explanation
Indices: 46106250--46106306 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46106240 CCACCCAACT
46106250 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46106279 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46106307 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46107726 original size:18 final size:18
Alignment explanation
Indices: 46107686--46107726 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46107676 TTAATCTTTG
46107686 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
46107703 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
46107722 -TTTAT
1 ATTTAT
46107727 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:46113708 original size:24 final size:24
Alignment explanation
Indices: 46113681--46113732 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46113671 TTAGTAAGTC
*
46113681 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
46113705 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46113729 AAAT
1 AAAT
46113733 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:46121230 original size:79 final size:80
Alignment explanation
Indices: 46121140--46121300 Score: 270
Period size: 80 Copynumber: 2.0 Consensus size: 80
46121130 AATTCAAAAA
*
46121140 AATAATTAATTACTT-AAATGACCTATTTTTTATAAAATACAAAAATAACTCAAAATCTACCGTA
1 AATAATTAATTACTTAAAATGACCTATTTTTTATAAAATACAAAAATAACTCAAAATCTACAGTA
46121204 AAAGTTGGTGGAGCC
66 AAAGTTGGTGGAGCC
* ** *
46121219 AATAATTAATTACTTAAAATGACCTTTTTTTTATAAAATATGAAAATAATTCAAAATCTACAGTA
1 AATAATTAATTACTTAAAATGACCTATTTTTTATAAAATACAAAAATAACTCAAAATCTACAGTA
46121284 AAAGTTGGTGGAGCC
66 AAAGTTGGTGGAGCC
46121299 AA
1 AA
46121301 AGTGTTTGGC
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 15 0.20
80 61 0.80
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (80 bp):
AATAATTAATTACTTAAAATGACCTATTTTTTATAAAATACAAAAATAACTCAAAATCTACAGTA
AAAGTTGGTGGAGCC
Found at i:46121736 original size:22 final size:22
Alignment explanation
Indices: 46121692--46121756 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
46121682 ACTTGAAATG
*
46121692 TATATTTTA--AATTTTTTATAA
1 TATATTTTATTAATATTTTA-AA
46121713 TATTATTTTATTAA-ATTTTAAA
1 TA-TATTTTATTAATATTTTAAA
* *
46121735 TATATTTTTTTAATATTATAAA
1 TATATTTTATTAATATTTTAAA
46121757 ACCTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 12 0.32
22 18 0.49
23 5 0.14
24 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTTTATTAATATTTTAAA
Found at i:46121739 original size:24 final size:25
Alignment explanation
Indices: 46121698--46121746 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
46121688 AATGTATATT
**
46121698 TTAAATTTTTTATAATATTATTTTA
1 TTAAATTTTAAATAATATTATTTTA
*
46121723 TTAAATTTTAAAT-ATATTTTTTTA
1 TTAAATTTTAAATAATATTATTTTA
46121747 ATATTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTAAATTTTAAATAATATTATTTTA
Found at i:46121840 original size:19 final size:19
Alignment explanation
Indices: 46121818--46121854 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46121808 GTTTTATAAT
*
46121818 ATTTTAAATATTATTTTTA
1 ATTTTAAATATAATTTTTA
46121837 ATTTTAAATATAATTTTT
1 ATTTTAAATATAATTTTT
46121855 TCAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTAAATATAATTTTTA
Found at i:46121876 original size:16 final size:14
Alignment explanation
Indices: 46121838--46121876 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
46121828 TTATTTTTAA
46121838 TTTTAAATATAATT
1 TTTTAAATATAATT
46121852 TTTTCAAATGATTAATT
1 TTTT-AAAT-A-TAATT
46121869 TTTTAAAT
1 TTTTAAAT
46121877 TTTTTTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 5 0.23
17 9 0.41
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTAAATATAATT
Found at i:46123337 original size:26 final size:27
Alignment explanation
Indices: 46123308--46123377 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 27
46123298 AATAAAAAAG
46123308 ATATAAATAAGTAAATAATA-ATATT-A
1 ATATAAATAAGTAAATAATATAT-TTAA
46123334 ATATATAATAAG-AAA-AATATATTTAAA
1 ATATA-AATAAGTAAATAATATATTT-AA
*
46123361 ATTTAAATAAGTAAATA
1 ATATAAATAAGTAAATA
46123378 GAAATAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
25 6 0.16
26 16 0.43
27 14 0.38
28 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (27 bp):
ATATAAATAAGTAAATAATATATTTAA
Found at i:46125485 original size:42 final size:43
Alignment explanation
Indices: 46125424--46125541 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
46125414 GATTTGAGAT
* *
46125424 TTACATGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATCGTTATATGA
* * *
46125466 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATCGTTATATGA
*
46125509 TTACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TTACATGTAAGACC-CTGTCTGGGACATTGGCAT
46125542 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 31 0.47
43 34 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGGACATTGGCATCGTTATATGA
Found at i:46127791 original size:21 final size:20
Alignment explanation
Indices: 46127736--46127808 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
46127726 ATTTTAAATG
*
46127736 TTTTATATTATTAAAAATATATA
1 TTTTAAATT-TTAAAAA-ATA-A
46127759 TGTTTAAAATTTTAAAAAATAA
1 T-TTT-AAATTTTAAAAAATAA
* *
46127781 TATTTAAATTTAAAAAAATAG
1 T-TTTAAATTTTAAAAAATAA
46127802 TTTTAAA
1 TTTTAAA
46127809 AAATACATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.14
21 15 0.34
22 5 0.11
23 4 0.09
24 10 0.23
25 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTTAAATTTTAAAAAATAA
Found at i:46127824 original size:34 final size:34
Alignment explanation
Indices: 46127768--46127834 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
46127758 ATGTTTAAAA
*
46127768 TTTTAAAAAATAATATTTAAATTTAAAAAAATAG
1 TTTTAAAAAATAATATTAAAATTTAAAAAAATAG
**
46127802 TTTTAAAAAATACAT-TTAAAATTTTTAAAAATA
1 TTTTAAAAAATA-ATATTAAAATTTAAAAAAATA
46127835 ATATTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
TTTTAAAAAATAATATTAAAATTTAAAAAAATAG
Found at i:46127961 original size:24 final size:24
Alignment explanation
Indices: 46127909--46127962 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
46127899 AAGGGTAAAT
*
46127909 AAAAAAACTTAAAAAGTAATAAAA
1 AAAAAAACTTAAAAAGTAAAAAAA
* *
46127933 GAAAAAACTTAAAAAG-AAAAATA
1 AAAAAAACTTAAAAAGTAAAAAAA
46127956 AAAAAAA
1 AAAAAAA
46127963 GGACAAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.13
Consensus pattern (24 bp):
AAAAAAACTTAAAAAGTAAAAAAA
Found at i:46130622 original size:28 final size:26
Alignment explanation
Indices: 46130561--46130623 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
46130551 ATTAACGCAC
*
46130561 ATACGAATATTTATATATGTATAATA
1 ATACTAATATTTATATATGTATAATA
* *
46130587 ACATTAATATTTA-ATATGATAATAAATA
1 ATACTAATATTTATATATG-T-AT-AATA
46130615 ATACTAATA
1 ATACTAATA
46130624 AAAAAACAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.17
26 11 0.38
27 2 0.07
28 11 0.38
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (26 bp):
ATACTAATATTTATATATGTATAATA
Found at i:46130639 original size:17 final size:17
Alignment explanation
Indices: 46130614--46130665 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
46130604 GATAATAAAT
*
46130614 AATACTAATAAAAAAAC
1 AATAATAATAAAAAAAC
*
46130631 AATAATAATAACAATTTAAC
1 AATAATAATAA-AA--AAAC
*
46130651 AATATTAATAAAAAA
1 AATAATAATAAAAAA
46130666 TAATGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 11 0.39
18 2 0.07
19 2 0.07
20 13 0.46
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAATAAAAAAAC
Found at i:46135101 original size:24 final size:24
Alignment explanation
Indices: 46135051--46135102 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
46135041 AATTAAAGTA
* **
46135051 AAATATATTATGTTAATAAATGTT
1 AAATATATTATCTTAATAAATACT
46135075 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-CTTAATAAATACT
46135099 AAAT
1 AAAT
46135103 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATCTTAATAAATACT
Found at i:46138089 original size:23 final size:23
Alignment explanation
Indices: 46138063--46138161 Score: 180
Period size: 23 Copynumber: 4.3 Consensus size: 23
46138053 AGTGTTATTG
46138063 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46138086 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
46138109 TTCAGTGGTTGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46138132 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46138155 ATCAGTG
1 ATCAGTG
46138162 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46138333 original size:38 final size:37
Alignment explanation
Indices: 46138291--46138363 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
46138281 ATGTGTGGAA
* *
46138291 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
46138329 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
46138364 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:46140372 original size:47 final size:49
Alignment explanation
Indices: 46140319--46140445 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
46140309 TTATGAAATC
*
46140319 TCCGTGTAAGACCATATCTGGAATATGGCATC-AT-TGTGATATGTGAT
1 TCCGTGTAAGACCATATCTGGACTATGGCATCGATATGTGATATGTGAT
* * *
46140366 TCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGAT
1 TCCGTGTAAGACCATATCTGGACTATGGCATCGATATGTGATATGTGAT
* *
46140415 TACATGTAAGACCATAGT-TGGACTATGGCAT
1 TCCGTGTAAGACCATA-TCTGGACTATGGCAT
46140446 GTGAAAACGA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 29 0.42
48 1 0.01
49 39 0.57
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
TCCGTGTAAGACCATATCTGGACTATGGCATCGATATGTGATATGTGAT
Found at i:46142929 original size:50 final size:48
Alignment explanation
Indices: 46142870--46143055 Score: 248
Period size: 50 Copynumber: 3.8 Consensus size: 48
46142860 GGCAGTGAGT
46142870 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-CGAGGA
* *
46142920 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACATAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAC-GAGGA
* * *
46142970 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGA-GATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
* ** *
46143017 GGGCCAAAGTAAGACCATGTCTGGGACATGACATCGGCA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
46143056 TCGATATGTG
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
47 37 0.30
49 3 0.02
50 82 0.67
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
Found at i:46143658 original size:45 final size:44
Alignment explanation
Indices: 46143526--46143664 Score: 140
Period size: 45 Copynumber: 3.1 Consensus size: 44
46143516 ATTAATGAAA
* *
46143526 ATAAAGGTGATTGCTATGTGCTGATTTCACTGGATACCAATG-GTT
1 ATAAAAGTGATTGCTATGTGCTGATTTCACTGG-TACCATTGAG-T
* * *
46143571 ATATAAGTGATTGCTATGTGTTGAATTCACCCT-GTACCATTGAGT
1 ATAAAAGTGATTGCTATGTGCTGATTTCA--CTGGTACCATTGAGT
* *
46143616 ATAAAAGT-AGTTGCTATGTGCTGATTTCACTGAGTACTATTGATT
1 ATAAAAGTGA-TTGCTATGTGCTGATTTCACTG-GTACCATTGAGT
46143661 ATAA
1 ATAA
46143665 GGGTGGTGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 71 0.91
46 2 0.03
47 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (44 bp):
ATAAAAGTGATTGCTATGTGCTGATTTCACTGGTACCATTGAGT
Found at i:46144552 original size:33 final size:33
Alignment explanation
Indices: 46144483--46144580 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
46144473 CTATACCCAT
* * *
46144483 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
46144520 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
46144553 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
46144581 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:46144979 original size:41 final size:41
Alignment explanation
Indices: 46144795--46144991 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
46144785 ACCGGCTCTT
*
46144795 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46144836 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
46144877 AGCCTGCTAGACTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
46144918 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
46144959 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
46144992 TAACGATAAA
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 136 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:46152229 original size:33 final size:33
Alignment explanation
Indices: 46152160--46152257 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
46152150 CTATACCCAT
* * *
46152160 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
46152197 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
46152230 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
46152258 ATACATATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:46152519 original size:41 final size:41
Alignment explanation
Indices: 46152474--46152670 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
46152464 ACCGGCTCTT
*
46152474 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46152515 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46152556 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
46152597 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
46152638 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
46152671 TAACGATAAA
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 138 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:46155531 original size:16 final size:16
Alignment explanation
Indices: 46155510--46155545 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
46155500 CTGTTCCGGC
46155510 ATTGGATATGGTAATT
1 ATTGGATATGGTAATT
46155526 ATTGGATATGGTAATT
1 ATTGGATATGGTAATT
46155542 ATTG
1 ATTG
46155546 ATGAAGACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
ATTGGATATGGTAATT
Found at i:46157091 original size:23 final size:23
Alignment explanation
Indices: 46157064--46157139 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
46157054 AGTGTTATTG
*
46157064 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46157087 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46157110 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46157133 ATCAGTG
1 ATCAGTG
46157140 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46157337 original size:37 final size:38
Alignment explanation
Indices: 46157269--46157341 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
46157259 ATGTGTGGAA
* *
46157269 TTGAATTGAATATTGACTTAAAAATGGAAAAGTGAATT
1 TTGAATTGAATAGTGACTTAAAAATGAAAAAGTGAATT
* *
46157307 TTGAATTTAATAGTGA-TTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTAAAAATGAAAAAGTGAA
46157342 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.47, C:0.01, G:0.19, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTAAAAATGAAAAAGTGAATT
Found at i:46167619 original size:5 final size:5
Alignment explanation
Indices: 46167609--46167646 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
46167599 AAACTCTCAA
46167609 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
46167647 CTATTGTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:46168724 original size:26 final size:26
Alignment explanation
Indices: 46168672--46168724 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46168662 TTGAAGTTTT
* * *
46168672 TTCGAATCGAGTCGAGTGAGATGGAA
1 TTCGAATCGAATCGAATGAGATAGAA
46168698 TTCGAATCGAATCGAATCGA-ATAGAA
1 TTCGAATCGAATCGAAT-GAGATAGAA
46168724 T
1 T
46168725 ATATTTGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (26 bp):
TTCGAATCGAATCGAATGAGATAGAA
Found at i:46169727 original size:9 final size:9
Alignment explanation
Indices: 46169713--46169745 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
46169703 TCGAGTTGAT
46169713 TCGATTAAC
1 TCGATTAAC
46169722 TCGATTAAC
1 TCGATTAAC
*
46169731 TCGAATAAC
1 TCGATTAAC
46169740 TCGATT
1 TCGATT
46169746 CGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:46175911 original size:7 final size:7
Alignment explanation
Indices: 46175899--46175923 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46175889 TTTTAAAATA
46175899 CATTTCC
1 CATTTCC
46175906 CATTTCC
1 CATTTCC
46175913 CATTTCC
1 CATTTCC
46175920 CATT
1 CATT
46175924 AGACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.44
Consensus pattern (7 bp):
CATTTCC
Found at i:46175956 original size:13 final size:13
Alignment explanation
Indices: 46175938--46175964 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46175928 ATTTAATATT
46175938 TATATAATAAATA
1 TATATAATAAATA
46175951 TATATAATAAATA
1 TATATAATAAATA
46175964 T
1 T
46175965 TTATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:46181145 original size:23 final size:22
Alignment explanation
Indices: 46181119--46181161 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46181109 TATTAAATCT
*
46181119 ATAATATATAACCTTTATAAAAA
1 ATAATATATAA-ATTTATAAAAA
*
46181142 ATAATTTATAAATTTATAAA
1 ATAATATATAAATTTATAAA
46181162 TTATACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATATATAAATTTATAAAAA
Found at i:46182696 original size:44 final size:45
Alignment explanation
Indices: 46182633--46182721 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
46182623 TTCCATTCAC
*
46182633 TTGTATTTTATCCGTTTTC-ATGCAGATTCAAATTCAAATAATAT
1 TTGTATTTTAACCGTTTTCAATGCAGATTCAAATTCAAATAATAT
*
46182677 TTGTA-TTTAACCTGTTTTCAATGTAGATTCAAATTCAAATAATAT
1 TTGTATTTTAACC-GTTTTCAATGCAGATTCAAATTCAAATAATAT
46182722 AAACAATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 6 0.15
44 11 0.27
45 24 0.59
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (45 bp):
TTGTATTTTAACCGTTTTCAATGCAGATTCAAATTCAAATAATAT
Found at i:46186442 original size:15 final size:15
Alignment explanation
Indices: 46186424--46186472 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
46186414 AGTACTTACA
*
46186424 TTTTCAATACTTAAT
1 TTTTCAACACTTAAT
* *
46186439 TTTTAAACACTTATT
1 TTTTCAACACTTAAT
* *
46186454 TTTTCCACCCTTAAT
1 TTTTCAACACTTAAT
46186469 TTTT
1 TTTT
46186473 TTAATTTATC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTCAACACTTAAT
Found at i:46189993 original size:16 final size:16
Alignment explanation
Indices: 46189974--46190004 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46189964 AGAATGTTCG
46189974 TTTGAGTGAATAAATC
1 TTTGAGTGAATAAATC
*
46189990 TTTGGGTGAATAAAT
1 TTTGAGTGAATAAAT
46190005 TTGATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (16 bp):
TTTGAGTGAATAAATC
Found at i:46200190 original size:24 final size:25
Alignment explanation
Indices: 46200140--46200190 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
46200130 ATTTTACTAT
* *
46200140 TTTAAAATATAAAAAATATTTTGTA
1 TTTAAAATATAAAAAAAATTATGTA
46200165 TTTAAAAGTA-AAAAAAAATTAT-TA
1 TTTAAAA-TATAAAAAAAATTATGTA
46200189 TT
1 TT
46200191 AGGTAGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 17 0.74
26 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTAAAATATAAAAAAAATTATGTA
Found at i:46217582 original size:16 final size:16
Alignment explanation
Indices: 46217561--46217601 Score: 73
Period size: 16 Copynumber: 2.5 Consensus size: 16
46217551 GTGGTTATAT
46217561 TATATATAAATATCTA
1 TATATATAAATATCTA
46217577 TATATATAAATATCTA
1 TATATATAAATATCTA
46217593 TATTATATA
1 TA-TATATA
46217602 CATGAAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
TATATATAAATATCTA
Found at i:46222806 original size:12 final size:13
Alignment explanation
Indices: 46222784--46222808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46222774 ATGTACTCCA
46222784 TTTTAATTTTTTT
1 TTTTAATTTTTTT
46222797 TTTTAATTTTTT
1 TTTTAATTTTTT
46222809 ATTATTTGAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTAATTTTTTT
Found at i:46232009 original size:14 final size:15
Alignment explanation
Indices: 46231983--46232012 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
46231973 GATTTTAAAA
46231983 TAATAATAATATTTT
1 TAATAATAATATTTT
46231998 TAATAA-AATATTTT
1 TAATAATAATATTTT
46232012 T
1 T
46232013 CGTTATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATAATAATATTTT
Found at i:46232261 original size:23 final size:23
Alignment explanation
Indices: 46232234--46232294 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
46232224 TGATTTAAAC
46232234 AAATATTCATAGTTATATAAT-TA
1 AAATATTCATA-TTATATAATATA
* * *
46232257 AAATATTTATATTTTATACTATA
1 AAATATTCATATTATATAATATA
46232280 AAATATT--TATTATAT
1 AAATATTCATATTATAT
46232295 TTATAATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 7 0.21
23 19 0.58
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATATTCATATTATATAATATA
Found at i:46232401 original size:13 final size:13
Alignment explanation
Indices: 46232383--46232408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46232373 ATTTAAAATT
46232383 ATTATTGTTAAAA
1 ATTATTGTTAAAA
46232396 ATTATTGTTAAAA
1 ATTATTGTTAAAA
46232409 TAAAATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTATTGTTAAAA
Found at i:46238556 original size:21 final size:21
Alignment explanation
Indices: 46238530--46238570 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46238520 AGACGAGCAA
* *
46238530 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
46238551 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
46238571 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:46257665 original size:4 final size:4
Alignment explanation
Indices: 46257656--46257686 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
46257646 CAAAAGAAAA
46257656 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
46257687 AACAGTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:46270878 original size:8 final size:8
Alignment explanation
Indices: 46270867--46270913 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
46270857 TTAAAATTAA
46270867 AAAAATAT
1 AAAAATAT
46270875 AAAAATATTT
1 AAAAATA--T
*
46270885 AAAATGTAT
1 AAAA-ATAT
46270894 AAAAATAT
1 AAAAATAT
46270902 AAAAAT-T
1 AAAAATAT
46270909 AAAAA
1 AAAAA
46270914 ATTAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 6 0.18
8 16 0.47
9 5 0.15
10 5 0.15
11 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (8 bp):
AAAAATAT
Done.