Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 93 of 147
Found at i:17173399 original size:25 final size:26
Alignment explanation
Indices: 17173362--17173410 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
17173352 TTCCTCAAAA
*
17173362 TATTATTTTAAATTTATTTATTTATT
1 TATTATTTTAAATTAATTTATTTATT
*
17173388 TATT-TTTTAAATTAATTTTTTTA
1 TATTATTTTAAATTAATTTATTTA
17173411 AAAAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTATTTTAAATTAATTTATTTATT
Found at i:17173481 original size:19 final size:19
Alignment explanation
Indices: 17173441--17173483 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17173431 ATAGCTAGCC
*
17173441 ATAAACATCAATAATTAAA
1 ATAAACATCAATAATAAAA
*
17173460 ATAAACATCTAT-ATAAACA
1 ATAAACATCAATAATAAA-A
17173479 ATAAA
1 ATAAA
17173484 TGCAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAACATCAATAATAAAA
Found at i:17174150 original size:17 final size:16
Alignment explanation
Indices: 17174121--17174168 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
17174111 ATTAAATTTA
*
17174121 TTATTATTCTTATTAT
1 TTATTATTTTTATTAT
17174137 TTATTTATTTTTATTAT
1 TTA-TTATTTTTATTAT
*
17174154 TTACTATTTTTATTA
1 TTATTATTTTTATTA
17174169 ATTAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTTTTATTAT
Found at i:17175738 original size:33 final size:34
Alignment explanation
Indices: 17175615--17175737 Score: 130
Period size: 34 Copynumber: 3.7 Consensus size: 34
17175605 TCATCCTATT
*
17175615 TGGCAT-CAATG-AAAATTTAAGCCCAGA-TTATC
1 TGGCATCCAATGAAAAATTTAAGCCCA-ACTTAAC
* *
17175647 TGGCACCCAATGAAAAATTTGAA-CCCAACTTAGC
1 TGGCATCCAATGAAAAATTT-AAGCCCAACTTAAC
* * *
17175681 TAGCATCCAACGAAAAATTTAAGCTCAACTTAAC
1 TGGCATCCAATGAAAAATTTAAGCCCAACTTAAC
*
17175715 TGGCATCTAATG-AAAATTTAAGC
1 TGGCATCCAATGAAAAATTTAAGC
17175738 TTAGTTTAGC
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
32 5 0.07
33 19 0.25
34 50 0.66
35 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (34 bp):
TGGCATCCAATGAAAAATTTAAGCCCAACTTAAC
Found at i:17176021 original size:126 final size:126
Alignment explanation
Indices: 17175789--17176030 Score: 279
Period size: 126 Copynumber: 1.9 Consensus size: 126
17175779 GCTAGCACCA
* * *
17175789 AAGTTTTAAGCCTAGTATTAGTTGGCATTAAGAAGTTTCTAGCACAATTTAGCTAGCATCTAATA
1 AAGTTTTAAGCCTAGTATTAGCTGGCATTAAGAAGTTTCTAGCACAATTTAGCTAGCACCCAATA
* * * * * *
17175854 AAATTTTAAGCCCAGTTTAATTGGCATTGATGAAGTCTTAAGTCTAGTTTAACTGACATCC
66 AAATTTTAAGCCCAGTTTAATTAGCACTAATAAAGTCTTAAGCCTAATTTAACTGACATCC
* * * * **
17175915 AAGTTTTAAGCCTAGTATTTGCTGGCATTGAGAAGTTT-TAAGCATATTTTAGCTATTACCCAAT
1 AAGTTTTAAGCCTAGTATTAGCTGGCATTAAGAAGTTTCT-AGCACAATTTAGCTAGCACCCAAT
* *** * *
17175979 GAAATTTTAAGTGTAGTTTAGTTAGCACTAATAAAGTTTTAAGCCTAATTTA
65 AAAATTTTAAGCCCAGTTTAATTAGCACTAATAAAGTCTTAAGCCTAATTTA
17176031 GCTAGTATTT
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
125 1 0.01
126 93 0.99
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (126 bp):
AAGTTTTAAGCCTAGTATTAGCTGGCATTAAGAAGTTTCTAGCACAATTTAGCTAGCACCCAATA
AAATTTTAAGCCCAGTTTAATTAGCACTAATAAAGTCTTAAGCCTAATTTAACTGACATCC
Found at i:17176519 original size:47 final size:47
Alignment explanation
Indices: 17176465--17176559 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
17176455 TTTGGGTCTA
*
17176465 TTACATAGTCTATTTTCAAATGCTTAAGGATGAGACTCAATGTGAGC
1 TTACATAGTCTATTTTCAAATGCTTAAGAATGAGACTCAATGTGAGC
17176512 TTACATAGTCTATTTTCAAATGCTTAAGAATGAGACTCAATGTGAGC
1 TTACATAGTCTATTTTCAAATGCTTAAGAATGAGACTCAATGTGAGC
17176559 T
1 T
17176560 CCATAGTGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (47 bp):
TTACATAGTCTATTTTCAAATGCTTAAGAATGAGACTCAATGTGAGC
Found at i:17176759 original size:36 final size:38
Alignment explanation
Indices: 17176719--17176800 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 38
17176709 AAAAATTAAT
*
17176719 TAAATTAAATTAA-AAA-ATTTAAAAATA-ATATAAAAA
1 TAAA-TAAACTAATAAATATTTAAAAATATATATAAAAA
* *
17176755 TAAATAAACTAATAAATTTTTAAATATATATATAAAAA
1 TAAATAAACTAATAAATATTTAAAAATATATATAAAAA
*
17176793 -AAAAAAAC
1 TAAATAAAC
17176801 AACAAAAGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
35 7 0.18
36 7 0.18
37 16 0.41
38 9 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (38 bp):
TAAATAAACTAATAAATATTTAAAAATATATATAAAAA
Found at i:17179031 original size:16 final size:16
Alignment explanation
Indices: 17178983--17179035 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
17178973 GAAATTATTA
17178983 AATAATAAAAGTAAAT
1 AATAATAAAAGTAAAT
*
17178999 AATAAGAAAAGTAAAT
1 AATAATAAAAGTAAAT
17179015 AAATAATAATAA-T-AAT
1 -AATAATAA-AAGTAAAT
17179031 AATAA
1 AATAA
17179036 ATTTAATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 5 0.15
16 18 0.55
17 8 0.24
18 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
AATAATAAAAGTAAAT
Found at i:17179219 original size:20 final size:19
Alignment explanation
Indices: 17179171--17179219 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
17179161 ATAAATTATT
* *
17179171 AAAACCCTAGGTGAAGCCC
1 AAAACCCTAAGTGAAACCC
* *
17179190 TAAACTCTAAGTGAAACTCC
1 AAAACCCTAAGTGAAAC-CC
17179210 AAAACCCTAA
1 AAAACCCTAA
17179220 AACAAAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.43, C:0.29, G:0.12, T:0.16
Consensus pattern (19 bp):
AAAACCCTAAGTGAAACCC
Found at i:17179718 original size:8 final size:8
Alignment explanation
Indices: 17179705--17179733 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17179695 TATGGTTAGC
17179705 TATTTAAT
1 TATTTAAT
17179713 TATTTAAT
1 TATTTAAT
17179721 TATTTAAT
1 TATTTAAT
17179729 TATTT
1 TATTT
17179734 TTAAAAAAAT
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:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTTAAT
Found at i:17182662 original size:26 final size:26
Alignment explanation
Indices: 17182599--17182662 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
17182589 AGAACACCTT
*
17182599 TAAACCTAAACCTAAACCCTTAGACCC
1 TAAACCTAAA-CTAAACCCTTAAACCC
* *
17182626 CAAACCAAAACTAAACCCTTAAACCC
1 TAAACCTAAACTAAACCCTTAAACCC
*
17182652 TAAACTTAAAC
1 TAAACCTAAAC
17182663 CCAAATCACA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (26 bp):
TAAACCTAAACTAAACCCTTAAACCC
Found at i:17182702 original size:8 final size:7
Alignment explanation
Indices: 17182689--17182765 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 7
17182679 CATCCCCAAA
17182689 CTAAACC
1 CTAAACC
17182696 TCTAAACC
1 -CTAAACC
17182704 CT-AA-C
1 CTAAACC
*
17182709 TTAAACC
1 CTAAACC
*
17182716 CTTAGACC
1 C-TAAACC
17182724 CTAAA-C
1 CTAAACC
*
17182730 TTAAACC
1 CTAAACC
17182737 CTAAA-C
1 CTAAACC
17182743 CTAAA-C
1 CTAAACC
17182749 C-AAA-C
1 CTAAACC
*
17182754 TTAAACC
1 CTAAACC
17182761 CTAAA
1 CTAAA
17182766 ATCGAACCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
5 6 0.11
6 20 0.36
7 16 0.29
8 13 0.24
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:17182715 original size:20 final size:20
Alignment explanation
Indices: 17182686--17182765 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
17182676 CTTCATCCCC
17182686 AAAC-TAAACCTCTAAACCCT
1 AAACTTAAACC-CTAAACCCT
*
17182706 -AACTTAAACCCTTAGACCCT
1 AAACTTAAACCC-TAAACCCT
17182726 AAACTTAAACCCTAAA-CCT
1 AAACTTAAACCCTAAACCCT
* *
17182745 AAAC-CAAA-CTTAAACCCT
1 AAACTTAAACCCTAAACCCT
17182763 AAA
1 AAA
17182766 ATCGAACCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.10
18 9 0.17
19 11 0.21
20 16 0.31
21 11 0.21
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (20 bp):
AAACTTAAACCCTAAACCCT
Found at i:17182737 original size:13 final size:13
Alignment explanation
Indices: 17182716--17182765 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
17182706 AACTTAAACC
*
17182716 CTTAGACCCTAAA
1 CTTAAACCCTAAA
17182729 CTTAAACCCTAAA
1 CTTAAACCCTAAA
*
17182742 CCTAAA-CC-AAA
1 CTTAAACCCTAAA
17182753 CTTAAACCCTAAA
1 CTTAAACCCTAAA
17182766 ATCGAACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 8 0.25
12 4 0.12
13 20 0.62
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (13 bp):
CTTAAACCCTAAA
Found at i:17182981 original size:12 final size:13
Alignment explanation
Indices: 17182957--17182995 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
17182947 AAGCCCCTAA
17182957 CCTAAACCTAAAC
1 CCTAAACCTAAAC
17182970 CCTAAACC-AAAC
1 CCTAAACCTAAAC
17182982 CCTAAAACCTAAAC
1 CCT-AAACCTAAAC
17182996 AAACCCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 13 0.54
14 4 0.17
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (13 bp):
CCTAAACCTAAAC
Found at i:17182985 original size:19 final size:19
Alignment explanation
Indices: 17182951--17183011 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
17182941 TGAGCCAAGC
17182951 CCCT-AACCTAAA-CCTAAA
1 CCCTAAACC-AAACCCTAAA
17182969 CCCTAAACCAAACCCTAAA
1 CCCTAAACCAAACCCTAAA
* *
17182988 ACCTAAA-CAAACCCCAAA
1 CCCTAAACCAAACCCTAAA
*
17183006 TCCTAA
1 CCCTAA
17183012 GCAAATTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 22 0.58
19 16 0.42
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (19 bp):
CCCTAAACCAAACCCTAAA
Found at i:17184214 original size:20 final size:20
Alignment explanation
Indices: 17184189--17184227 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17184179 ATAAAGGTGA
17184189 AAAAAATTCAAAAAATTTTT
1 AAAAAATTCAAAAAATTTTT
*
17184209 AAAAAATTGAAAAAATTTT
1 AAAAAATTCAAAAAATTTT
17184228 GTTTTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAAAATTTTT
Found at i:17186656 original size:26 final size:26
Alignment explanation
Indices: 17186602--17186671 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
17186592 GAAAGAATGA
* * *
17186602 GAAAATAAGAAAA-GGAAAAAAAAAT
1 GAAAAAAAGAAAATGAAAAAAAAAAG
**
17186627 GAAAAGGAGAAAATGAAAAAAAAAAG
1 GAAAAAAAGAAAATGAAAAAAAAAAG
17186653 GAAAAAAAGAAAATGAAAA
1 GAAAAAAAGAAAATGAAAA
17186672 TGAATGATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
25 11 0.29
26 27 0.71
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (26 bp):
GAAAAAAAGAAAATGAAAAAAAAAAG
Found at i:17186660 original size:13 final size:14
Alignment explanation
Indices: 17186602--17186671 Score: 51
Period size: 14 Copynumber: 5.4 Consensus size: 14
17186592 GAAAGAATGA
*
17186602 GAAAATAAGAAAAG
1 GAAAAAAAGAAAAG
*
17186616 G--AAAAA-AAAAT
1 GAAAAAAAGAAAAG
** *
17186627 GAAAAGGAGAAAAT
1 GAAAAAAAGAAAAG
17186641 G-AAAAAA-AAAAG
1 GAAAAAAAGAAAAG
*
17186653 GAAAAAAAGAAAAT
1 GAAAAAAAGAAAAG
17186667 GAAAA
1 GAAAA
17186672 TGAATGATCG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
11 5 0.12
12 9 0.21
13 13 0.30
14 16 0.37
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (14 bp):
GAAAAAAAGAAAAG
Found at i:17186671 original size:20 final size:20
Alignment explanation
Indices: 17186617--17186671 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
17186607 TAAGAAAAGG
*
17186617 AAAAA-AAAATGAAAAGGAG
1 AAAAAGAAAATGAAAAGGAA
* **
17186636 AAAATGAAAAAAAAAAGGAA
1 AAAAAGAAAATGAAAAGGAA
17186656 AAAAAGAAAATGAAAA
1 AAAAAGAAAATGAAAA
17186672 TGAATGATCG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAAAGAAAATGAAAAGGAA
Found at i:17187783 original size:24 final size:25
Alignment explanation
Indices: 17187745--17187818 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
17187735 AATTATTAAT
* *
17187745 AAAAATCATATTTTTTTTATTTTTT-
1 AAAAATTATA-TTTTTTAATTTTTTA
* **
17187770 TAAAATTATATTTTAAAATTTTTTA
1 AAAAATTATATTTTTTAATTTTTTA
*
17187795 AAAAATTA-ATTTTTTGATTTTTTA
1 AAAAATTATATTTTTTAATTTTTTA
17187819 TATTTTTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 24 0.62
25 15 0.38
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (25 bp):
AAAAATTATATTTTTTAATTTTTTA
Found at i:17189286 original size:24 final size:24
Alignment explanation
Indices: 17189237--17189286 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
17189227 TATTTTAATA
**
17189237 TTTTAATTTTTTAAAAATCATTTT
1 TTTTAATTTTTTAAAAATCAGATT
*
17189261 TTTTGAATTTTTT-AAAATTAGATT
1 TTTT-AATTTTTTAAAAATCAGATT
17189285 TT
1 TT
17189287 GTTTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTAATTTTTTAAAAATCAGATT
Found at i:17189722 original size:14 final size:15
Alignment explanation
Indices: 17189671--17189723 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
17189661 TATTCCAAAA
17189671 AAAATTAAAATTATT
1 AAAATTAAAATTATT
*
17189686 AAAATTAAAATTTTT
1 AAAATTAAAATTATT
* *
17189701 TAAA-TAAAA-TGTT
1 AAAATTAAAATTATT
17189714 AAAATTAAAA
1 AAAATTAAAA
17189724 AAATTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 6 0.18
14 10 0.30
15 17 0.52
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AAAATTAAAATTATT
Found at i:17189774 original size:16 final size:16
Alignment explanation
Indices: 17189712--17189777 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
17189702 AAATAAAATG
*
17189712 TTAAAAT-TAAAAAAA
1 TTAAAATATTAAAAAA
* * *
17189727 TTTAAAAAATTCATAAA
1 -TTAAAATATTAAAAAA
* *
17189744 TTAAATTTTTAAAAAA
1 TTAAAATATTAAAAAA
*
17189760 TTAAAATATTGAAAAA
1 TTAAAATATTAAAAAA
17189776 TT
1 TT
17189778 TTAAATTTAA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
16 32 0.86
17 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
TTAAAATATTAAAAAA
Found at i:17191809 original size:24 final size:23
Alignment explanation
Indices: 17191774--17191818 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17191764 GATATATTTT
*
17191774 TTATATTCATATAAATTATAACA
1 TTATATTCATATAAAATATAACA
*
17191797 TTATATTTTATATAAAATATAA
1 TTATA-TTCATATAAAATATAA
17191819 TATAAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATATTCATATAAAATATAACA
Found at i:17194872 original size:22 final size:22
Alignment explanation
Indices: 17194847--17194891 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17194837 GAAAAAGATA
* *
17194847 ATTTTAATATCTCAAAAACTAT
1 ATTTCAATATATCAAAAACTAT
*
17194869 ATTTCAATATATCAAAAAGTAT
1 ATTTCAATATATCAAAAACTAT
17194891 A
1 A
17194892 GAAATAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTTCAATATATCAAAAACTAT
Found at i:17195661 original size:23 final size:24
Alignment explanation
Indices: 17195626--17195679 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
17195616 TCATTTCATC
*
17195626 AATAAAATAATAT-CAATTTATTT
1 AATAAAATAATATAAAATTTATTT
*
17195649 AATAATAAT-ATATAAAATTTATAT
1 AATAA-AATAATATAAAATTTATTT
*
17195673 ACTAAAA
1 AATAAAA
17195680 ATGTATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
AATAAAATAATATAAAATTTATTT
Found at i:17195667 original size:24 final size:24
Alignment explanation
Indices: 17195640--17195690 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17195630 AAATAATATC
* *
17195640 AATTTATTTAATAATAATATATAA
1 AATTTATATAATAAAAATATATAA
* *
17195664 AATTTATATACTAAAAATGTATAA
1 AATTTATATAATAAAAATATATAA
17195688 AAT
1 AAT
17195691 ATAAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
AATTTATATAATAAAAATATATAA
Found at i:17196829 original size:31 final size:31
Alignment explanation
Indices: 17196794--17196862 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
17196784 TAAATGATCA
* * *
17196794 TTATACTCATACGAAATTTGAAATTTAGTTC
1 TTATACTCATACGAAATTTAAAAGTTAGTCC
* * *
17196825 TTATATTTATATGAAATTTAAAAGTTAGTCC
1 TTATACTCATACGAAATTTAAAAGTTAGTCC
17196856 TTATACT
1 TTATACT
17196863 AGCACAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (31 bp):
TTATACTCATACGAAATTTAAAAGTTAGTCC
Found at i:17197015 original size:14 final size:14
Alignment explanation
Indices: 17196969--17197019 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
17196959 TATCATTTAT
*
17196969 ATTAATCTATCATAA
1 ATTAATATATCA-AA
**
17196984 TATTAATA-ATTTAA
1 -ATTAATATATCAAA
17196998 ATTAATATATCAAA
1 ATTAATATATCAAA
17197012 ATTAATAT
1 ATTAATAT
17197020 TATTTTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 7 0.24
14 14 0.48
15 2 0.07
16 6 0.21
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAATATATCAAA
Found at i:17197024 original size:29 final size:29
Alignment explanation
Indices: 17196963--17197018 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
17196953 TTTTTTTATC
* *
17196963 ATTTATATTAATCTATCATAATATTAATA
1 ATTTAAATTAATATATCATAATATTAATA
17196992 ATTTAAATTAATATATCA-AA-ATTAATA
1 ATTTAAATTAATATATCATAATATTAATA
17197019 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 2 0.08
29 16 0.64
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (29 bp):
ATTTAAATTAATATATCATAATATTAATA
Found at i:17197044 original size:29 final size:28
Alignment explanation
Indices: 17196963--17197048 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 28
17196953 TTTTTTTATC
* *
17196963 ATTTATATTAATCTATCATAATATTAATA
1 ATTTAAATTAATATATCA-AATATTAATA
17196992 ATTTAAATTAATATATCAAA-ATTAATA
1 ATTTAAATTAATATATCAAATATTAATA
* * *
17197019 TTATTTTAATTAGTATA-GAAATATT-ATA
1 --ATTTAAATTAATATATCAAATATTAATA
17197047 AT
1 AT
17197049 AAGAACTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.04
27 7 0.14
28 8 0.16
29 32 0.65
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAAATTAATATATCAAATATTAATA
Found at i:17197177 original size:21 final size:21
Alignment explanation
Indices: 17197153--17197193 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17197143 AATTAATATA
17197153 TTAAAA-ATATAACAAAATAAG
1 TTAAAATATATAA-AAAATAAG
*
17197174 TTAAAATTTATAAAAAATAA
1 TTAAAATATATAAAAAATAA
17197194 TATAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TTAAAATATATAAAAAATAAG
Found at i:17197477 original size:13 final size:13
Alignment explanation
Indices: 17197448--17197494 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
17197438 ACCCAAGCTT
*
17197448 TAAACCT-AAACC
1 TAAACCTAAAATC
17197460 TTAAACCTAAAATC
1 -TAAACCTAAAATC
*
17197474 TAAACCCTAAACTC
1 TAAA-CCTAAAATC
17197488 TAAACCT
1 TAAACCT
17197495 TAAGCCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 14 0.47
14 16 0.53
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAACCTAAAATC
Found at i:17197478 original size:20 final size:21
Alignment explanation
Indices: 17197453--17197491 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17197443 AGCTTTAAAC
*
17197453 CTAAACCTTAAAC-CTAAAAT
1 CTAAACCCTAAACTCTAAAAT
17197473 CTAAACCCTAAACTCTAAA
1 CTAAACCCTAAACTCTAAA
17197492 CCTTAAGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAACCCTAAACTCTAAAAT
Found at i:17198656 original size:16 final size:14
Alignment explanation
Indices: 17198621--17198703 Score: 63
Period size: 13 Copynumber: 6.2 Consensus size: 14
17198611 AACTTTGATA
17198621 TATTAAT-TTAAAT
1 TATTAATATTAAAT
17198634 TATTAATATTATAAT
1 TATTAATATTA-AAT
17198649 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
* *
17198663 GA-TAATACT--AT
1 TATTAATATTAAAT
*
17198674 TATTAATA-TGAAT
1 TATTAATATTAAAT
17198687 TATTAATAATT-AAT
1 TATTAAT-ATTAAAT
17198701 TAT
1 TAT
17198704 ATATAATAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
11 4 0.07
12 10 0.17
13 18 0.31
14 13 0.22
15 7 0.12
16 7 0.12
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:17204492 original size:11 final size:10
Alignment explanation
Indices: 17204478--17204705 Score: 57
Period size: 10 Copynumber: 22.8 Consensus size: 10
17204468 ATAAAAAAAC
*
17204478 AAAAAGATTTT
1 AAAAA-ATTCT
17204489 AAAAAATTCT
1 AAAAAATTCT
*
17204499 -AAAAATTAT
1 AAAAAATTCT
17204508 AAAAAAATTTCT
1 -AAAAAA-TTCT
*
17204520 AGAAAAAAAT-T
1 --AAAAAATTCT
*
17204531 AAAAAATTCAA
1 AAAAAATTC-T
*
17204542 AACAAAAATCT
1 AA-AAAATTCT
17204553 AAAAAA--CT
1 AAAAAATTCT
*
17204561 AAAAAAATTTT
1 -AAAAAATTCT
**
17204572 TTAAAATT-T
1 AAAAAATTCT
*
17204581 GAAAAAATTTT
1 -AAAAAATTCT
**
17204592 AAAATCTT-T
1 AAAAAATTCT
*
17204601 TAAAAA-T-T
1 AAAAAATTCT
* *
17204609 ATAAAATTTT
1 AAAAAATTCT
* *
17204619 CACA-ATTCT
1 AAAAAATTCT
*
17204628 -AAAAATTCA
1 AAAAAATTCT
17204637 AAAATAATTCT
1 AAAA-AATTCT
* *
17204648 AAAACATTTT
1 AAAAAATTCT
*
17204658 AGAAAATTC-
1 AAAAAATTCT
*
17204667 AACAAAATTAT
1 AA-AAAATTCT
*
17204678 -AAAAATTTT
1 AAAAAATTCT
*
17204687 TAAAAATTCT
1 AAAAAATTCT
17204697 AAAAGAATT
1 AAAA-AATT
17204706 AAGGAAACAT
Statistics
Matches: 158, Mismatches: 38, Indels: 42
0.66 0.16 0.18
Matches are distributed among these distances:
8 10 0.06
9 43 0.27
10 59 0.37
11 30 0.19
12 10 0.06
13 6 0.04
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:17204502 original size:21 final size:20
Alignment explanation
Indices: 17204461--17204595 Score: 66
Period size: 20 Copynumber: 6.6 Consensus size: 20
17204451 AGTGTTTTTT
*
17204461 AAAATTTATAAAAAA-AC-AA
1 AAAATTT-TAAAAAATTCTAA
17204480 AAAGATTTTAAAAAATTCT-A
1 AAA-ATTTTAAAAAATTCTAA
*
17204500 AAAATTATAAAAAAATTTCTAGA
1 AAAATT-TTAAAAAA-TTCTA-A
** *
17204523 AAAAAATTAAAAAATTCAAAA
1 AAAATTTTAAAAAATTC-TAA
* *
17204544 CAAAAATCTAAAAAA--CTAAA
1 -AAAATTTTAAAAAATTCT-AA
**
17204564 AAAATTTTTTAAAATT-TGAA
1 AAAATTTTAAAAAATTCT-AA
17204584 AAAATTTTAAAA
1 AAAATTTTAAAA
17204596 TCTTTTAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
19 23 0.26
20 32 0.36
21 8 0.09
22 20 0.23
23 5 0.06
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATTTTAAAAAATTCTAA
Found at i:17204565 original size:22 final size:21
Alignment explanation
Indices: 17204524--17204565 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17204514 ATTTCTAGAA
* *
17204524 AAAAATTAAAAAATTCAAAAC
1 AAAAATTAAAAAACTAAAAAC
17204545 AAAAATCTAAAAAACTAAAAA
1 AAAAAT-TAAAAAACTAAAAA
17204566 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAATTAAAAAACTAAAAAC
Found at i:17204641 original size:8 final size:9
Alignment explanation
Indices: 17204622--17204700 Score: 59
Period size: 10 Copynumber: 8.1 Consensus size: 9
17204612 AAATTTTCAC
17204622 AATTCTAAA
1 AATTCTAAA
*
17204631 AATTCAAAAA
1 AATTC-TAAA
17204641 TAATTCTAAA
1 -AATTCTAAA
*
17204651 ACATTTTAGAA
1 A-ATTCTA-AA
*
17204662 AATTCAACAA
1 AATTCTA-AA
*
17204672 AATTATAAA
1 AATTCTAAA
*
17204681 AATTTTTAAA
1 AA-TTCTAAA
17204691 AATTCTAAA
1 AATTCTAAA
17204700 A
1 A
17204701 GAATTAAGGA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
9 17 0.31
10 30 0.55
11 8 0.15
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (9 bp):
AATTCTAAA
Found at i:17204688 original size:30 final size:30
Alignment explanation
Indices: 17204627--17204706 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
17204617 TTCACAATTC
*
17204627 TAAAAATTCAAAAATAATTCTAAAACATTT
1 TAAAAATTCAAAAATAATTATAAAACATTT
*
17204657 TAGAAAATTCAACAA-AATTATAAAA-ATTTT
1 TA-AAAATTCAAAAATAATTATAAAACA-TTT
* *
17204687 TAAAAATTCTAAAAGAATTA
1 TAAAAATTCAAAAATAATTA
17204707 AGGAAACATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 11 0.26
30 21 0.49
31 11 0.26
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (30 bp):
TAAAAATTCAAAAATAATTATAAAACATTT
Found at i:17204927 original size:28 final size:28
Alignment explanation
Indices: 17204895--17204951 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
17204885 AATTTTTAAA
*
17204895 AAAATTATT-AAATTTTTTCATATTTTTT
1 AAAA-TATTGAAATTTTTTAATATTTTTT
*
17204923 AAAATATTGAAATTTTTTAATTTTTTTT
1 AAAATATTGAAATTTTTTAATATTTTTT
17204951 A
1 A
17204952 TTTTTCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
AAAATATTGAAATTTTTTAATATTTTTT
Found at i:17204955 original size:16 final size:16
Alignment explanation
Indices: 17204936--17204980 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
17204926 ATATTGAAAT
*
17204936 TTTTTAATTTTTTTTA
1 TTTTTAATTTTTTTAA
*
17204952 TTTTTCATATTTTTTAA
1 TTTTTAAT-TTTTTTAA
*
17204969 TTTTAAATTTTT
1 TTTTTAATTTTT
17204981 GAAAGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTAATTTTTTTAA
Found at i:17205262 original size:20 final size:19
Alignment explanation
Indices: 17205239--17205283 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
17205229 TGTTTAGAAC
17205239 TTTTTAAGGTTTTAACAAAT
1 TTTTTAAGGTTTTAA-AAAT
* *
17205259 TTTTTGAGGTTTTTAAAAT
1 TTTTTAAGGTTTTAAAAAT
17205278 TTTTTA
1 TTTTTA
17205284 CAAAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTTTAAGGTTTTAAAAAT
Found at i:17205292 original size:20 final size:19
Alignment explanation
Indices: 17205269--17205311 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
17205259 TTTTTGAGGT
*
17205269 TTTTAAAATTTTTTACAAAA
1 TTTTAAAATTGTTTA-AAAA
17205289 TTTTAAAATTGTTTAAAAA
1 TTTTAAAATTGTTTAAAAA
17205308 TTTT
1 TTTT
17205312 GAAACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTAAAATTGTTTAAAAA
Found at i:17207043 original size:21 final size:21
Alignment explanation
Indices: 17207019--17207058 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17207009 ATTTTGATAA
17207019 GTTTAG-TGATGTATGTTTGTT
1 GTTTAGCTG-TGTATGTTTGTT
*
17207040 GTTTAGCTGTGTGTGTTTG
1 GTTTAGCTGTGTATGTTTG
17207059 GTTCCATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.55
Consensus pattern (21 bp):
GTTTAGCTGTGTATGTTTGTT
Found at i:17207381 original size:21 final size:20
Alignment explanation
Indices: 17207352--17207391 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17207342 TGAATAAAAA
17207352 GTTAGTTTAGTAGGTTGTTTG
1 GTTAGTTTAGT-GGTTGTTTG
* *
17207373 GTTATTTTAGTGTTTGTTT
1 GTTAGTTTAGTGGTTGTTT
17207392 CCATGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (20 bp):
GTTAGTTTAGTGGTTGTTTG
Found at i:17207672 original size:49 final size:49
Alignment explanation
Indices: 17207564--17207706 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 49
17207554 TGCATTTTTC
* * * ** * *
17207564 ATGCATCAATATTAACACTTCTACC-ATGGTGTTTTCATTATTTTTCCT
1 ATGCATCAATATTTACATTTCTACCAATAGCATTTTCATTATTTGTCCA
* **
17207612 ATGCATCAATATTTACATTTTTACCAAT-GACATTTTTGTTATTTGTCCA
1 ATGCATCAATATTTACATTTCTACCAATAG-CATTTTCATTATTTGTCCA
*
17207661 ATGCATCAATATTTACATTTCTACTAATAGCATTTTCATTATTTGT
1 ATGCATCAATATTTACATTTCTACCAATAGCATTTTCATTATTTGT
17207707 TTTTATCACA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
48 23 0.29
49 55 0.70
50 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (49 bp):
ATGCATCAATATTTACATTTCTACCAATAGCATTTTCATTATTTGTCCA
Found at i:17207881 original size:6 final size:6
Alignment explanation
Indices: 17207863--17208007 Score: 80
Period size: 7 Copynumber: 22.8 Consensus size: 6
17207853 ACCACATATG
* *
17207863 AAACCT AAA-CT AAACCT AAAACCT AACCCT AAACCCT AAATCAT AAACCCT
1 AAACCT AAACCT AAACCT -AAACCT AAACCT AAA-CCT AAA-CCT AAA-CCT
* * *
17207914 AAACCCT AAATCT TAACATT AAACCTT AAATCCT AAACC- AAACCTT AAACCCT
1 AAA-CCT AAACCT AAAC-CT AAACC-T AAA-CCT AAACCT AAACC-T AAA-CCT
* * * * *
17207967 AAACTT AATCCC AAACC- AAACCCT AAACCC AATCCT AAACC
1 AAACCT AAACCT AAACCT AAA-CCT AAACCT AAACCT AAACC
17208008 AAATTGTAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
5 13 0.12
6 39 0.36
7 51 0.48
8 4 0.04
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (6 bp):
AAACCT
Found at i:17207893 original size:13 final size:13
Alignment explanation
Indices: 17207863--17207970 Score: 55
Period size: 13 Copynumber: 8.3 Consensus size: 13
17207853 ACCACATATG
17207863 AAACCT-AAA-CT
1 AAACCTAAAACCT
17207874 AAACCTAAAACCT
1 AAACCTAAAACCT
* *
17207887 AACCCTAAACCCT
1 AAACCTAAAACCT
* *
17207900 AAATCATAAACCCT
1 AAA-CCTAAAACCT
*
17207914 AAACCCT-AAATCT
1 AAA-CCTAAAACCT
* * *
17207927 TAACATTAAACCTT
1 AAACCTAAAACC-T
17207941 AAATCCT-AAACC-
1 AAA-CCTAAAACCT
*
17207953 AAACCTTAAACCCT
1 AAACC-TAAAACCT
17207967 AAAC
1 AAAC
17207971 TTAATCCCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
11 8 0.11
12 9 0.12
13 29 0.39
14 26 0.35
15 2 0.03
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACCTAAAACCT
Found at i:17207936 original size:27 final size:26
Alignment explanation
Indices: 17207866--17207970 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
17207856 ACATATGAAA
* * *
17207866 CCTAAACTAAAC-CTAAAACCT-AAC
1 CCTAAACCAAACATTAAACCCTAAAC
17207890 CCTAAACCCTAAATCA-TAAACCCTAAAC
1 CCTAAA-CC-AAA-CATTAAACCCTAAAC
** * *
17207918 CCTAAATCTTAACATTAAACCTTAAAT
1 CCTAAA-CCAAACATTAAACCCTAAAC
*
17207945 CCTAAACCAAACCTTAAACCCTAAAC
1 CCTAAACCAAACATTAAACCCTAAAC
17207971 TTAATCCCAA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
24 6 0.10
25 1 0.02
26 20 0.32
27 26 0.41
28 10 0.16
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (26 bp):
CCTAAACCAAACATTAAACCCTAAAC
Found at i:17207983 original size:31 final size:33
Alignment explanation
Indices: 17207881--17207996 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 33
17207871 ACTAAACCTA
* * *
17207881 AAACCTAACCCTAAACCCTAAATCATAAA-CCC
1 AAACCAAACCCTAAACCCTAAACCTTAAATCCC
* * ** *
17207913 TAAACCCTAAA-TCTTAACATTAAACCTTAAATCCT
1 -AAA-CC-AAACCCTAAACCCTAAACCTTAAATCCC
*
17207948 AAACCAAACCTTAAACCCTAAA-CTT-AATCCC
1 AAACCAAACCCTAAACCCTAAACCTTAAATCCC
17207979 AAACCAAACCCTAAACCC
1 AAACCAAACCCTAAACCC
17207997 AATCCTAAAC
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
31 22 0.34
32 6 0.09
33 13 0.20
34 19 0.30
35 4 0.06
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (33 bp):
AAACCAAACCCTAAACCCTAAACCTTAAATCCC
Found at i:17207992 original size:24 final size:24
Alignment explanation
Indices: 17207951--17208010 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
17207941 AAATCCTAAA
**
17207951 CCAAACCTTAAACCCTAAACTTAATC
1 CCAAACC--AAACCCTAAACCCAATC
17207977 CCAAACCAAACCCTAAACCCAATC
1 CCAAACCAAACCCTAAACCCAATC
*
17208001 CTAAACCAAA
1 CCAAACCAAA
17208011 TTGTAAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 24 0.77
26 7 0.23
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (24 bp):
CCAAACCAAACCCTAAACCCAATC
Found at i:17207994 original size:12 final size:12
Alignment explanation
Indices: 17207960--17208010 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
17207950 ACCAAACCTT
*
17207960 AAACCCTAAACTT
1 AAACCCTAAAC-C
*
17207973 AATCCC-AAACC
1 AAACCCTAAACC
17207984 AAACCCTAAACC
1 AAACCCTAAACC
* *
17207996 CAATCCTAAACC
1 AAACCCTAAACC
17208008 AAA
1 AAA
17208011 TTGTAAACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 5 0.16
12 21 0.68
13 5 0.16
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:17209073 original size:8 final size:8
Alignment explanation
Indices: 17209062--17209125 Score: 74
Period size: 8 Copynumber: 7.6 Consensus size: 8
17209052 TTTTCTTAAG
17209062 AAATCAAAA
1 AAAT-AAAA
*
17209071 AATTAAAA
1 AAATAAAA
*
17209079 AAATCAAA
1 AAATAAAA
17209087 AAATAAAAA
1 AAAT-AAAA
17209096 AAATAAAA
1 AAATAAAA
17209104 AAATAAAAA
1 AAAT-AAAA
*
17209113 AAATGAAA
1 AAATAAAA
17209121 AAATA
1 AAATA
17209126 GTTTTGATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
8 29 0.62
9 18 0.38
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:17209081 original size:9 final size:9
Alignment explanation
Indices: 17209067--17209123 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
17209057 TTAAGAAATC
17209067 AAAAAATTA
1 AAAAAATTA
*
17209076 AAAAAA-TC
1 AAAAAATTA
17209084 AAAAAA-TA
1 AAAAAATTA
*
17209092 AAAAAAATA
1 AAAAAATTA
*
17209101 AAAAAATAA
1 AAAAAATTA
*
17209110 AAAAAATGA
1 AAAAAATTA
17209119 AAAAA
1 AAAAA
17209124 TAGTTTTGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
8 14 0.33
9 28 0.67
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAAATTA
Found at i:17209084 original size:17 final size:17
Alignment explanation
Indices: 17209062--17209125 Score: 101
Period size: 17 Copynumber: 3.8 Consensus size: 17
17209052 TTTTCTTAAG
*
17209062 AAATCAAAAAATTAAAA
1 AAATCAAAAAATAAAAA
17209079 AAATCAAAAAATAAAAA
1 AAATCAAAAAATAAAAA
*
17209096 AAATAAAAAAATAAAAA
1 AAATCAAAAAATAAAAA
*
17209113 AAATGAAAAAATA
1 AAATCAAAAAATA
17209126 GTTTTGATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.14
Consensus pattern (17 bp):
AAATCAAAAAATAAAAA
Found at i:17209807 original size:10 final size:10
Alignment explanation
Indices: 17209794--17209848 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
17209784 ATAAAAACAC
17209794 AAAAATGACA
1 AAAAATGACA
17209804 AAAAAT--CA
1 AAAAATGACA
17209812 AAAAATTGACA
1 AAAAA-TGACA
* *
17209823 AAAACTGTAAA
1 AAAAATG-ACA
17209834 AAAAATGACA
1 AAAAATGACA
17209844 AAAAA
1 AAAAA
17209849 AAGATAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 7 0.19
9 1 0.03
10 15 0.41
11 14 0.38
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (10 bp):
AAAAATGACA
Found at i:17209808 original size:19 final size:18
Alignment explanation
Indices: 17209766--17209849 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 18
17209756 ACAGAACATG
*
17209766 AAAAAAAGAATAAAATGA-
1 AAAAAAACAA-AAAATGAC
*
17209784 ATAAAAACACAAAAATGAC
1 AAAAAAACA-AAAAATGAC
*
17209803 AAAAAATCAAAAAATTGAC
1 AAAAAAACAAAAAA-TGAC
17209822 AAAAACTGTAA-AAAAAATGAC
1 AAAAA----AACAAAAAATGAC
17209843 AAAAAAA
1 AAAAAAA
17209850 AGATAAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
17 2 0.04
18 19 0.35
19 17 0.31
21 9 0.17
22 6 0.11
23 1 0.02
ACGTcount: A:0.73, C:0.08, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAACAAAAAATGAC
Found at i:17211742 original size:26 final size:25
Alignment explanation
Indices: 17211692--17211747 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
17211682 TGTTCAATTT
**
17211692 AAAATAAGTAAAATAATAATTAAAG
1 AAAATAAGTAAAATAATAACAAAAG
17211717 ATAAATAA-TAATAATAATAACAAAAG
1 A-AAATAAGTAA-AATAATAACAAAAG
17211743 AAAAT
1 AAAAT
17211748 CTAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (25 bp):
AAAATAAGTAAAATAATAACAAAAG
Found at i:17211770 original size:23 final size:23
Alignment explanation
Indices: 17211750--17211800 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
17211740 AAGAAAATCT
17211750 AAAA-ATAAAATAAATAAAAATG
1 AAAATATAAAATAAATAAAAATG
*
17211772 AAAATATAAAATAAAATGAAAAAAG
1 AAAATATAAAAT-AAAT-AAAAATG
17211797 AAAA
1 AAAA
17211801 AGGAAATCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 4 0.16
25 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (23 bp):
AAAATATAAAATAAATAAAAATG
Found at i:17211794 original size:12 final size:11
Alignment explanation
Indices: 17211700--17211794 Score: 50
Period size: 12 Copynumber: 8.0 Consensus size: 11
17211690 TTAAAATAAG
*
17211700 TAAAATAATAAT
1 TAAAATAA-AAA
17211712 TAAAGATAAATAA
1 TAAA-ATAAA-AA
*
17211725 TAATAATAATAA
1 TAA-AATAAAAA
* * *
17211737 CAAAAGAAAATC
1 TAAAATAAAA-A
17211749 TAAAA-ATAAAA
1 TAAAATA-AAAA
17211760 T-AAATAAAAA
1 TAAAATAAAAA
17211770 TGAAAATATAAAA
1 T-AAAATA-AAAA
17211783 TAAAATGAAAAA
1 TAAAAT-AAAAA
17211795 AGAAAAAGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
10 8 0.12
11 8 0.12
12 30 0.46
13 18 0.28
14 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:17211800 original size:18 final size:19
Alignment explanation
Indices: 17211761--17211800 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
17211751 AAAATAAAAT
* *
17211761 AAATAAAAATGAAAATATA
1 AAATAAAAATGAAAAAAGA
17211780 AAAT-AAAATGAAAAAAGA
1 AAATAAAAATGAAAAAAGA
17211798 AAA
1 AAA
17211801 AGGAAATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (19 bp):
AAATAAAAATGAAAAAAGA
Found at i:17212611 original size:3 final size:3
Alignment explanation
Indices: 17212593--17212625 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
17212583 AACAAACACT
*
17212593 ATA A-A ATA ATA GTA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17212626 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17212997 original size:42 final size:42
Alignment explanation
Indices: 17212878--17213027 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 42
17212868 TTCTAAATAG
* * **
17212878 AGGCTAGACAACTTTAAAATAGGAAATAGGCTTTTCTATTCAA
1 AGGCTAAACAACTTTAAAATAGAAAAT-GGCTCCTCTATTCAA
* * * ** *
17212921 AGGTTGAACAACTTTAAAATAAGGAACGGGCTCCTCTATT-AG
1 AGGCTAAACAACTTTAAAAT-AGAAAATGGCTCCTCTATTCAA
* *
17212963 AGGCTAAACAAATTTAAAATAGAAAATGGACTCCTTTATTCAA
1 AGGCTAAACAACTTTAAAATAGAAAATGG-CTCCTCTATTCAA
*
17213006 AGGCTAAGCAACTTTAAAATAG
1 AGGCTAAACAACTTTAAAATAG
17213028 CCTTCTAACC
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
41 6 0.07
42 27 0.31
43 48 0.56
44 5 0.06
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (42 bp):
AGGCTAAACAACTTTAAAATAGAAAATGGCTCCTCTATTCAA
Found at i:17224590 original size:38 final size:38
Alignment explanation
Indices: 17224548--17224630 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
17224538 AATTCATAAA
*
17224548 AAATTTAAATTCATGAAAGATCTTCTAATAATTTGATC
1 AAATTCAAATTCATGAAAGATCTTCTAATAATTTGATC
17224586 AAATTCAAATTCATGAAAGATCTTCTAATAATTTGATC
1 AAATTCAAATTCATGAAAGATCTTCTAATAATTTGATC
17224624 AAATTCA
1 AAATTCA
17224631 TGAATTTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (38 bp):
AAATTCAAATTCATGAAAGATCTTCTAATAATTTGATC
Found at i:17224618 original size:22 final size:22
Alignment explanation
Indices: 17224555--17224618 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
17224545 AAAAAATTTA
17224555 AATTCATGAAAGATCTTCTAAT
1 AATTCATGAAAGATCTTCTAAT
17224577 AATT--TGATCAA-A--TTC--A-
1 AATTCATGA--AAGATCTTCTAAT
17224593 AATTCATGAAAGATCTTCTAAT
1 AATTCATGAAAGATCTTCTAAT
17224615 AATT
1 AATT
17224619 TGATCAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 20
0.62 0.00 0.38
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 3 0.09
19 6 0.19
20 3 0.09
21 2 0.06
22 10 0.31
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (22 bp):
AATTCATGAAAGATCTTCTAAT
Found at i:17224715 original size:3 final size:3
Alignment explanation
Indices: 17224707--17224748 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
17224697 TAAAGGCAAT
17224707 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GTAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
17224749 AAGAAAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:17224768 original size:23 final size:21
Alignment explanation
Indices: 17224708--17224800 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 21
17224698 AAAGGCAATT
* *
17224708 AATAATAATAATAATAATAATAAT
1 AATAA-AA-AATAA-AATAAAAAA
* *
17224732 AATAATAAGTAAAATAAAAGAA
1 AATAAAAAATAAAATAAAA-AA
*
17224754 AATCTAAAAATAAAATAAATAAA
1 AAT-AAAAAATAAAATAAA-AAA
17224777 AATAAAAAATAAAATGAAAAAA
1 AATAAAAAATAAAAT-AAAAAA
17224799 AA
1 AA
17224801 AAAGGAAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
21 6 0.11
22 24 0.42
23 21 0.37
24 6 0.11
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (21 bp):
AATAAAAAATAAAATAAAAAA
Found at i:17224778 original size:15 final size:15
Alignment explanation
Indices: 17224708--17224783 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 15
17224698 AAAGGCAATT
*
17224708 AATAATAATAATAAT-
1 AATAAAAATAA-AATA
*
17224723 AATAATAATAATAATA
1 AATAAAAATAA-AATA
* *
17224739 AGT-AAAATAAAAGAA
1 AATAAAAATAAAA-TA
17224754 AATCTAAAAATAAAATA
1 AA--TAAAAATAAAATA
17224771 AATAAAAATAAAA
1 AATAAAAATAAAA
17224784 AATAAAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.04
15 34 0.67
16 2 0.04
17 4 0.08
18 9 0.18
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAAAAATAAAATA
Found at i:17224785 original size:17 final size:18
Alignment explanation
Indices: 17224759--17224803 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17224749 AAGAAAATCT
*
17224759 AAAAATAAAAT-AAAT-A
1 AAAAAAAAAATAAAATGA
17224775 AAAATAAAAAATAAAATGA
1 AAAA-AAAAAATAAAATGA
17224794 AAAAAAAAAA
1 AAAAAAAAAA
17224804 GGAAAACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 4 0.16
17 6 0.24
18 10 0.40
19 5 0.20
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAAAAAAATAAAATGA
Found at i:17224802 original size:12 final size:11
Alignment explanation
Indices: 17224742--17224802 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 11
17224732 AATAATAAGT
17224742 AAAATAAAAGAA
1 AAAATAAAA-AA
** *
17224754 AATCTAAAAAT
1 AAAATAAAAAA
*
17224765 AAAAT-AAATA
1 AAAATAAAAAA
17224775 AAAATAAAAAA
1 AAAATAAAAAA
17224786 TAAAATGAAAAAA
1 -AAAAT-AAAAAA
17224799 AAAA
1 AAAA
17224803 AGGAAAACCT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 8 0.21
11 8 0.21
12 16 0.42
13 6 0.16
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:17225640 original size:4 final size:4
Alignment explanation
Indices: 17225622--17225659 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
17225612 TAATAATAAT
17225622 AATA AATA TATATA AATA AATA AATA AATA AATA AATA
1 AATA AATA -A-ATA AATA AATA AATA AATA AATA AATA
17225660 TTGAGCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 27 0.84
5 2 0.06
6 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:17228913 original size:21 final size:21
Alignment explanation
Indices: 17228880--17228934 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
17228870 TGTTACACCG
17228880 CTTTGAGTCTTTGACTTTTAAT
1 CTTTGA-TCTTTGACTTTTAAT
17228902 CTTTGATCTTTGACTTTTAAT
1 CTTTGATCTTTGACTTTTAAT
*
17228923 -GTTGA-CTTTGAC
1 CTTTGATCTTTGAC
17228935 CTTGAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 7 0.22
20 4 0.12
21 15 0.47
22 6 0.19
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (21 bp):
CTTTGATCTTTGACTTTTAAT
Found at i:17232302 original size:18 final size:19
Alignment explanation
Indices: 17232261--17232303 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
17232251 ATAGATTAAC
*
17232261 TTAAGAAAGTTGTTTTACA
1 TTAAAAAAGTTGTTTTACA
* *
17232280 ATAAAAAAGTT-TTTTAGA
1 TTAAAAAAGTTGTTTTACA
17232298 TTAAAA
1 TTAAAA
17232304 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (19 bp):
TTAAAAAAGTTGTTTTACA
Found at i:17238757 original size:21 final size:20
Alignment explanation
Indices: 17238729--17238783 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
17238719 CATTTCTATA
17238729 GAAAAGGTAGATCATTAGGT
1 GAAAAGGTAGATCATTAGGT
* *
17238749 GGAAGAGGTAGATCATTGGGT
1 -GAAAAGGTAGATCATTAGGT
17238770 GAAAAGAGTAGATC
1 GAAAAG-GTAGATC
17238784 GTTGAGTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (20 bp):
GAAAAGGTAGATCATTAGGT
Found at i:17240543 original size:22 final size:22
Alignment explanation
Indices: 17240501--17240541 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17240491 TCAAAAAGTA
*
17240501 AAGTTTATGGTTGATGGAAAGC
1 AAGTTTATGGTTGATGAAAAGC
*
17240523 AAGTTTGT-GTTGATGAAAA
1 AAGTTTATGGTTGATGAAAA
17240542 AGAAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (22 bp):
AAGTTTATGGTTGATGAAAAGC
Found at i:17241297 original size:21 final size:21
Alignment explanation
Indices: 17241273--17241316 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17241263 CTTTTTACAT
*
17241273 TCTTTTATTCATGT-CAATATA
1 TCTTTCATTCATGTCCAA-ATA
*
17241294 TCTTTCATTCTTGTCCAAATA
1 TCTTTCATTCATGTCCAAATA
17241315 TC
1 TC
17241317 CACTTGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (21 bp):
TCTTTCATTCATGTCCAAATA
Found at i:17242385 original size:7 final size:7
Alignment explanation
Indices: 17242375--17242441 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
17242365 CCAAAACGTA
17242375 AAATAAT
1 AAATAAT
*
17242382 AAATAAA
1 AAATAAT
*
17242389 AAATAAA
1 AAATAAT
17242396 AAATAAT
1 AAATAAT
17242403 AACATTAA-
1 AA-A-TAAT
17242411 AAATAAT
1 AAATAAT
*
17242418 AGAT-A-
1 AAATAAT
*
17242423 AAATAAA
1 AAATAAT
17242430 AAATAATT
1 AAATAA-T
17242438 AAAT
1 AAAT
17242442 TAAAAATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
5 3 0.06
6 5 0.10
7 31 0.63
8 7 0.14
9 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:17242431 original size:34 final size:35
Alignment explanation
Indices: 17242374--17242448 Score: 109
Period size: 34 Copynumber: 2.1 Consensus size: 35
17242364 CCCAAAACGT
17242374 AAAATAATAAATAAAAAATAAAAAATAA-TAACATTA
1 AAAATAATAAAT-AAAAATAAAAAATAATTAA-ATTA
*
17242410 AAAATAATAGAT-AAAATAAAAAATAATTAAATTA
1 AAAATAATAAATAAAAATAAAAAATAATTAAATTA
17242444 AAAAT
1 AAAAT
17242449 TATTTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 23 0.62
35 3 0.08
36 11 0.30
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (35 bp):
AAAATAATAAATAAAAATAAAAAATAATTAAATTA
Found at i:17242446 original size:15 final size:15
Alignment explanation
Indices: 17242375--17242461 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 15
17242365 CCAAAACGTA
* *
17242375 AAATAATAAATAA-A
1 AAATAAAAAATAATT
17242389 AAATAAAAAATAA-T
1 AAATAAAAAATAATT
*
17242403 AACATTAAAAATAATAGATA
1 AA-A-T-AAAA-AATA-ATT
17242423 AAATAAAAAATAATT
1 AAATAAAAAATAATT
* *
17242438 AAATTAAAAATTATT
1 AAATAAAAAATAATT
*
17242453 TAA-AAAAAA
1 AAATAAAAAA
17242462 GAAAAAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
14 19 0.32
15 18 0.31
16 5 0.08
17 8 0.14
18 5 0.08
19 2 0.03
20 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (15 bp):
AAATAAAAAATAATT
Found at i:17242455 original size:16 final size:16
Alignment explanation
Indices: 17242373--17242461 Score: 69
Period size: 16 Copynumber: 5.6 Consensus size: 16
17242363 GCCCAAAACG
*
17242373 TAAAATAATAAATAA-
1 TAAAATAAAAAATAAT
17242388 -AAAATAAAAAATAA-
1 TAAAATAAAAAATAAT
* *
17242402 TAACATTAAAAATAAT
1 TAAAATAAAAAATAAT
17242418 AGATAAAATAAAAAATAAT
1 ---TAAAATAAAAAATAAT
* * *
17242437 TAAATTAAAAATTATT
1 TAAAATAAAAAATAAT
17242453 TAAAA-AAAA
1 TAAAATAAAA
17242462 GAAAAAAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
14 13 0.22
15 16 0.27
16 17 0.28
19 14 0.23
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAATAAT
Found at i:17244553 original size:12 final size:12
Alignment explanation
Indices: 17244532--17244649 Score: 64
Period size: 12 Copynumber: 9.9 Consensus size: 12
17244522 ACCTTAAAAT
*
17244532 TAAAATCCTAAA
1 TAAAACCCTAAA
17244544 TAAAACCCTAAA
1 TAAAACCCTAAA
* **
17244556 TGAAACTTTAAA
1 TAAAACCCTAAA
* *
17244568 -ATTAACCCTGAA
1 TA-AAACCCTAAA
*
17244580 TAAAACCATTAAA
1 TAAAACC-CTAAA
* *
17244593 TTAAATCCCTTAA
1 -TAAAACCCTAAA
17244606 TAAAACCCTAAA
1 TAAAACCCTAAA
*
17244618 TGAAA-CC--AA
1 TAAAACCCTAAA
* * *
17244627 TGAAACCTTAAG
1 TAAAACCCTAAA
17244639 TAAAACCCTAA
1 TAAAACCCTAA
17244650 GTGAGACCCT
Statistics
Matches: 77, Mismatches: 22, Indels: 14
0.68 0.19 0.12
Matches are distributed among these distances:
9 7 0.09
10 1 0.01
11 2 0.03
12 54 0.70
13 7 0.09
14 6 0.08
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.24
Consensus pattern (12 bp):
TAAAACCCTAAA
Found at i:17244665 original size:32 final size:33
Alignment explanation
Indices: 17244600--17244671 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
17244590 AAATTAAATC
*
17244600 CCTTAA-TAAAACCCTAAATGAAACCAATGAAA
1 CCTTAAGTAAAACCCTAAATGAAACCAATAAAA
* * *
17244632 CCTTAAGTAAAACCCTAAGTGAGACC-CTAAAA
1 CCTTAAGTAAAACCCTAAATGAAACCAATAAAA
*
17244664 CCCTAAGT
1 CCTTAAGT
17244672 GATAACCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 17 0.50
33 17 0.50
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.19
Consensus pattern (33 bp):
CCTTAAGTAAAACCCTAAATGAAACCAATAAAA
Found at i:17248407 original size:25 final size:25
Alignment explanation
Indices: 17248379--17248472 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
17248369 ATAATGAAGG
17248379 TTTATTTGCATGATTTTTTATGATA
1 TTTATTTGCATGATTTTTTATGATA
* *
17248404 TTTAATTGCATTATTTTATTATGA-A
1 TTTATTTGCATGATTTT-TTATGATA
* * ** *
17248429 ATT-TTTGCATGAATGATTATAATA
1 TTTATTTGCATGATTTTTTATGATA
*
17248453 TATATTTGCATGATATTTTT
1 TTTATTTGCATGAT-TTTTT
17248473 GCATGAATGA
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
23 5 0.10
24 10 0.20
25 27 0.53
26 9 0.18
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (25 bp):
TTTATTTGCATGATTTTTTATGATA
Found at i:17248505 original size:36 final size:38
Alignment explanation
Indices: 17248424--17248533 Score: 130
Period size: 38 Copynumber: 3.1 Consensus size: 38
17248414 TTATTTTATT
*
17248424 ATGAAATTTTTGCATGAATGATTATAATATATATTTGC
1 ATGATATTTTTGCATGAATGATTATAATATATATTTGC
*
17248462 ATGATATTTTTGCATGAATGATTAT-A-ATATGTTTGC
1 ATGATATTTTTGCATGAATGATTATAATATATATTTGC
*
17248498 ATTATA-TTTTGCATG---GATT-TAAT-T-TATTTGC
1 ATGATATTTTTGCATGAATGATTATAATATATATTTGC
17248529 ATGAT
1 ATGAT
17248534 TTATTACATA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
31 11 0.17
32 6 0.09
35 9 0.14
36 14 0.22
37 1 0.02
38 24 0.37
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (38 bp):
ATGATATTTTTGCATGAATGATTATAATATATATTTGC
Found at i:17248537 original size:13 final size:13
Alignment explanation
Indices: 17248519--17248636 Score: 52
Period size: 13 Copynumber: 9.3 Consensus size: 13
17248509 CATGGATTTA
17248519 ATTTATTTGCATG
1 ATTTATTTGCATG
* *
17248532 ATTTA-TTACATA
1 ATTTATTTGCATG
*
17248544 ATAT-TTTGCATGG
1 ATTTATTTGCAT-G
*
17248557 ATTT-TATTACAATG
1 ATTTAT-TTGC-ATG
* *
17248571 ATTTACTTGCATA
1 ATTTATTTGCATG
17248584 ATATT-TTTGCATG
1 AT-TTATTTGCATG
**
17248597 ATTT-TTTTTAT-
1 ATTTATTTGCATG
*
17248608 ACTTA-TTGCATG
1 ATTTATTTGCATG
* *
17248620 ATATATTTTCATG
1 ATTTATTTGCATG
17248633 ATTT
1 ATTT
17248637 TTTTTATGAT
Statistics
Matches: 75, Mismatches: 21, Indels: 18
0.66 0.18 0.16
Matches are distributed among these distances:
11 7 0.09
12 23 0.31
13 30 0.40
14 13 0.17
15 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (13 bp):
ATTTATTTGCATG
Found at i:17248675 original size:36 final size:34
Alignment explanation
Indices: 17248593--17248675 Score: 80
Period size: 36 Copynumber: 2.3 Consensus size: 34
17248583 AATATTTTTG
17248593 CATGATTTTTTTTATACTTATTGCATGATATATTTT-
1 CATGATTTTTTTTATACTTATT-CAT-A-ATATTTTG
*
17248629 CATGATTTTTTTTATGATTTTTATT-ATAATATTTTGG
1 CATGATTTTTTTTAT-A--CTTATTCATAATATTTT-G
17248666 CATGATTTTT
1 CATGATTTTT
17248676 ATATTTACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
35 7 0.17
36 16 0.39
37 13 0.32
39 5 0.12
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.60
Consensus pattern (34 bp):
CATGATTTTTTTTATACTTATTCATAATATTTTG
Found at i:17252691 original size:23 final size:25
Alignment explanation
Indices: 17252636--17252694 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
17252626 AAAGGGTTCG
* * *
17252636 ACAATGAAGGCCTAAATAGGATTCG
1 ACAATGAAGGCCTAAAAAAGATTCA
17252661 ACAATGAAGGCCTAAAAAAG-TT-A
1 ACAATGAAGGCCTAAAAAAGATTCA
17252684 ACAATGAAGGC
1 ACAATGAAGGC
17252695 TGAAAATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 11 0.35
24 2 0.06
25 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (25 bp):
ACAATGAAGGCCTAAAAAAGATTCA
Found at i:17253457 original size:61 final size:61
Alignment explanation
Indices: 17253385--17253516 Score: 158
Period size: 61 Copynumber: 2.2 Consensus size: 61
17253375 ATGGGGAGAT
* * * * * *
17253385 TTATTAAAGGTGT-TTTTGGTAGAAAACGCCTTCAATAAGCACCTCTATTTTTTTCAAAAGA
1 TTATTAAAGGTGTAGTTT-GTAAAAAACACCTTCAATAAGCACATCAATTTTTTACAAAAGA
* * *
17253446 TTATTAAAGGTGTAGTTTGTAAAAAACACCTTCAATAATCACATCAATTTTTTAGAAAGGA
1 TTATTAAAGGTGTAGTTTGTAAAAAACACCTTCAATAAGCACATCAATTTTTTACAAAAGA
*
17253507 TTATTCAAGG
1 TTATTAAAGG
17253517 CATTTTAGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 57 0.95
62 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (61 bp):
TTATTAAAGGTGTAGTTTGTAAAAAACACCTTCAATAAGCACATCAATTTTTTACAAAAGA
Found at i:17254571 original size:12 final size:13
Alignment explanation
Indices: 17254546--17254614 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
17254536 TTTTTTTCTA
*
17254546 TTTATAT-TTGTT
1 TTTATATATTATT
17254558 TTTA-ATATTATTT
1 TTTATATATTA-TT
*
17254571 TTTATATCTTATAT
1 TTTATATATTAT-T
17254585 TTTATATTATTATT
1 TTTATA-TATTATT
*
17254599 ATTATA-ATTTATT
1 TTTATATA-TTATT
17254612 TTT
1 TTT
17254615 TTATGTGGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
11 2 0.04
12 7 0.15
13 14 0.30
14 18 0.39
15 5 0.11
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (13 bp):
TTTATATATTATT
Found at i:17254599 original size:32 final size:31
Alignment explanation
Indices: 17254532--17254601 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
17254522 TCTTACATTT
* *
17254532 TTATT-TTTTTTCTATTTATATTTGTTTTTA
1 TTATTATTTTTTATATTTATATTTGTTATTA
*
17254562 ATATTATTTTTTATATCTTATATTT-TATATTA
1 TTATTATTTTTTATAT-TTATATTTGT-TATTA
17254594 TTATTATT
1 TTATTATT
17254602 ATAATTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.12
31 10 0.30
32 19 0.58
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (31 bp):
TTATTATTTTTTATATTTATATTTGTTATTA
Found at i:17254611 original size:26 final size:27
Alignment explanation
Indices: 17254557--17254613 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
17254547 TTATATTTGT
*
17254557 TTTTAATATTATTTTTTATATCTTATA
1 TTTTAATATTATTTTTTATATATTATA
17254584 TTTT-ATATTATTATTATTATA-ATT-TA
1 TTTTAATATTATT-TT-TTATATATTATA
17254610 TTTT
1 TTTT
17254614 TTTATGTGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 14 0.52
27 8 0.30
28 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTAATATTATTTTTTATATATTATA
Found at i:17254618 original size:21 final size:22
Alignment explanation
Indices: 17254560--17254618 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
17254550 TATTTGTTTT
*
17254560 TAATATTA-TTTTTTATATCTTA
1 TAAT-TTATTTTTTTATATATTA
* * *
17254582 TATTTTATATTATTAT-TATTA
1 TAATTTATTTTTTTATATATTA
17254603 TAATTTATTTTTTTAT
1 TAATTTATTTTTTTAT
17254619 GTGGCTTTCT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TAATTTATTTTTTTATATATTA
Found at i:17255499 original size:26 final size:27
Alignment explanation
Indices: 17255469--17255521 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17255459 TTAAACTGGG
*
17255469 CTTAAAT-TTTCATTGGTGCCAACTAA
1 CTTAAATCTTTCATTGATGCCAACTAA
*
17255495 CTTAAATCTTTCATTGATGCTAACTAA
1 CTTAAATCTTTCATTGATGCCAACTAA
17255522 ACTAGGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (27 bp):
CTTAAATCTTTCATTGATGCCAACTAA
Found at i:17255530 original size:59 final size:62
Alignment explanation
Indices: 17255379--17255534 Score: 176
Period size: 59 Copynumber: 2.5 Consensus size: 62
17255369 GCTTCAATCG
*
17255379 TCATTGGTGCTAGCTAAACTAGGCTTAAATATTTCATTGGATGCCAACTAAACTGGGCTTAAAAC
1 TCATTGGTGCTAACTAAACTAGGCTTAAATATTTCATTGGATGCCAACTAAA----GCTTAAAAC
17255444 T
62 T
* * * *
17255445 TCATTGGGTGCCAATTAAACTGGGCTTAAAT-TTTCATTGG-TGCCAACT-AA-CTTAAATCTT
1 TCATT-GGTGCTAACTAAACTAGGCTTAAATATTTCATTGGATGCCAACTAAAGCTTAAAAC-T
*
17255505 TCATTGATGCTAACTAAACTAGGCTTAAAT
1 TCATTGGTGCTAACTAAACTAGGCTTAAAT
17255535 CTTTTCATGA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
59 28 0.35
60 6 0.08
64 2 0.03
65 8 0.10
66 14 0.18
67 21 0.27
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (62 bp):
TCATTGGTGCTAACTAAACTAGGCTTAAATATTTCATTGGATGCCAACTAAAGCTTAAAACT
Found at i:17255541 original size:34 final size:33
Alignment explanation
Indices: 17255365--17256068 Score: 205
Period size: 33 Copynumber: 21.5 Consensus size: 33
17255355 AGCAGATAAT
* * * *
17255365 CTAGGCTTCAATC-GTCATTGGTGCTAGCTAAA
1 CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
* *
17255397 CTAGGCTTAAATATTTCATTGGATGCCAACTAAA
1 CTAGGCTTAAATCTTTCATT-GATGCTAACTAAA
* * * * *
17255431 CTGGGCTTAAAAC-TTCATTGGGTGCCAATTAAA
1 CTAGGCTTAAATCTTTCATT-GATGCTAACTAAA
* *
17255464 CTGGGCTTAAAT-TTTCATTGGTGC---C--AA
1 CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
*
17255491 CTA-ACTTAAATCTTTCATTGATGCTAACTAAA
1 CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
17255523 CTAGGCTTAAATCTTTTCA-TGAATGCTAGA-TAAA
1 CTAGGCTTAAATC-TTTCATTG-ATGCTA-ACTAAA
*
17255557 CTAGGCTTAAAAC-TTCATT-AGTGCCCTCTTAAACTAAA
1 CTAGGCTTAAATCTTTCATTGA-TG----C-T-AACTAAA
* * * * * * * ** *
17255595 TTGGGCCTAAAAC-TTCATTGGGTACCAGTTATA
1 CTAGGCTTAAATCTTTCATT-GATGCTAACTAAA
17255628 CTAGGCTTAAAT-TTTCATT-AGTG-T---T--A
1 CTAGGCTTAAATCTTTCATTGA-TGCTAACTAAA
* * *
17255654 GTTGGCTTAAATCTTTCATTGATGCTAGCT-AA
1 CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
* *
17255686 CCAGGCTTAAATCTTTTCA-TGAGTGTTAGA-TAAA
1 CTAGGCTTAAATC-TTTCATTGA-TGCTA-ACTAAA
* *
17255720 CT-GAGCTTAAAAC-TTCATT-AGTGCTCACTAAA
1 CTAG-GCTTAAATCTTTCATTGA-TGCTAACTAAA
* * *
17255752 TTAGGCTTAGAA-C-TTCATTAGGTGCTAACTAAG
1 CTAGGCTTA-AATCTTTCATT-GATGCTAACTAAA
* * * *
17255785 CTAGGCTTAAA--TTTCATTGGTGCCAAATAAT
1 CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
* * *
17255816 TTAGGCTTAAACTTTTTCATAAGTGCTAAGTGCTAGCTAAA
1 CTAGGCTTAAA-TCTTTCAT---TG---A-TGCTAACTAAA
* * * *
17255857 CTGGGCTTAAA--TTTCATAGATGCCAGCTAAA
1 CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
* *
17255888 CTATGCTTAAATCTTTTCA-TGAGTGCTAGCTAAA
1 CTAGGCTTAAATC-TTTCATTGA-TGCTAACTAAA
* * * * *
17255922 TTGGGTTTAAATCTTTCATTAATG-TCAGCTAAA
1 CTAGGCTTAAATCTTTCATTGATGCT-AACTAAA
*
17255955 CTGGGCTTAAATCTTTTCA-TGAGTGCTAGA-TAAA
1 CTAGGCTTAAATC-TTTCATTGA-TGCTA-ACTAAA
* * * *
17255989 TTGGGCTGAAA-ATTTCATTAGATGCTAACTAAA
1 CTAGGCTTAAATCTTTCATT-GATGCTAACTAAA
* * **
17256022 CT-GAGCTCAAAT-ATTCATT-AGTGCTAGTTAAA
1 CTAG-GCTTAAATCTTTCATTGA-TGCTAACTAAA
*
17256054 CTAGGTTTAAATCTT
1 CTAGGCTTAAATCTT
17256069 GTGTAGAATT
Statistics
Matches: 512, Mismatches: 87, Indels: 145
0.69 0.12 0.19
Matches are distributed among these distances:
26 18 0.04
27 24 0.05
28 3 0.01
30 1 0.00
31 43 0.08
32 102 0.20
33 155 0.30
34 113 0.22
35 4 0.01
36 1 0.00
37 4 0.01
38 27 0.05
39 1 0.00
41 16 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (33 bp):
CTAGGCTTAAATCTTTCATTGATGCTAACTAAA
Found at i:17255564 original size:93 final size:93
Alignment explanation
Indices: 17255402--17255581 Score: 213
Period size: 93 Copynumber: 1.9 Consensus size: 93
17255392 CTAAACTAGG
* ** *
17255402 CTTAAATATTTCATTGGATGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAATTAAACTG
1 CTTAAATATTTCATTGGATGCCAACTAAACTAGGCTTAAAACTTCATTGAATGCCAATTAAACTA
** *
17255467 GGCTTAAATTTTCATTGGTGCCAACTAA
66 GGCTTAAAACTTCATTAGTGCCAACTAA
* * * *
17255495 CTTAAATCTTTCATT-GATGCTAACTAAACTAGGCTTAAATCTTTTCA-TGAATGCTAGA-TAAA
1 CTTAAATATTTCATTGGATGCCAACTAAACTAGGCTTAAAAC--TTCATTGAATGCCA-ATTAAA
17255557 CTAGGCTTAAAACTTCATTAGTGCC
63 CTAGGCTTAAAACTTCATTAGTGCC
17255582 CTCTTAAACT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
92 23 0.32
93 45 0.62
94 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (93 bp):
CTTAAATATTTCATTGGATGCCAACTAAACTAGGCTTAAAACTTCATTGAATGCCAATTAAACTA
GGCTTAAAACTTCATTAGTGCCAACTAA
Found at i:17255609 original size:164 final size:158
Alignment explanation
Indices: 17255386--17255810 Score: 491
Period size: 164 Copynumber: 2.7 Consensus size: 158
17255376 TCGTCATTGG
* * * *
17255386 TGCTAGCTAAACT-AGGCTTAAATATTTCATTGGATGC-CAACTAAACTGGGCTTAAAACTTCAT
1 TGCTAGATAAACTGA-GCTTAAA-ACTTCATTAG-TGCTCAACTAAATTGGGCTTAAAACTTCAT
*
17255449 TGGGTGCCAATTAAACTGGGCTTAAATTTTCATTGGTGCCAACTAACTTAAATCTTTCATTGATG
63 TGGGTGCCAATTAAACTAGGCTTAAATTTTCATTGGTGCCAACTAACTTAAATCTTTCATTGATG
*
17255514 CTAACTAAACTAGGCTTAAATCTTTTCATGAA
128 CTAACT-AACCAGGCTTAAATCTTTTCATGAA
*
17255546 TGCTAGATAAACT-AGGCTTAAAACTTCATTAGTGCCCTCTTAAACTAAATTGGGCCTAAAACTT
1 TGCTAGATAAACTGA-GCTTAAAACTTCATTAGTG--CTC---AACTAAATTGGGCTTAAAACTT
* * * * ** ** **
17255610 CATTGGGTACCAGTTATACTAGGCTTAAATTTTCATTAGTGTTAGTTGGCTTAAATCTTTCATTG
60 CATTGGGTGCCAATTAAACTAGGCTTAAATTTTCATTGGTGCCAACTAACTTAAATCTTTCATTG
* *
17255675 ATGCTAGCTAACCAGGCTTAAATCTTTTCATGAG
125 ATGCTAACTAACCAGGCTTAAATCTTTTCATGAA
* * * *
17255709 TGTTAGATAAACTGAGCTTAAAACTTCATTAGTGCTC-ACTAAATTAGGCTTAGAACTTCATTAG
1 TGCTAGATAAACTGAGCTTAAAACTTCATTAGTGCTCAACTAAATTGGGCTTAAAACTTCATTGG
* * *
17255773 GTGCTAACTAAGCTAGGCTTAAA-TTTCATTGGTGCCAA
66 GTGCCAATTAAACTAGGCTTAAATTTTCATTGGTGCCAA
17255811 ATAATTTAGG
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
156 11 0.05
157 40 0.18
158 2 0.01
159 8 0.04
160 22 0.10
161 4 0.02
163 54 0.24
164 83 0.37
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (158 bp):
TGCTAGATAAACTGAGCTTAAAACTTCATTAGTGCTCAACTAAATTGGGCTTAAAACTTCATTGG
GTGCCAATTAAACTAGGCTTAAATTTTCATTGGTGCCAACTAACTTAAATCTTTCATTGATGCTA
ACTAACCAGGCTTAAATCTTTTCATGAA
Found at i:17255760 original size:32 final size:32
Alignment explanation
Indices: 17255724--17255826 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
17255714 GATAAACTGA
17255724 GCTTAAAACTTCATTAGTGCTCACTAAATTAG
1 GCTTAAAACTTCATTAGTGCTCACTAAATTAG
* * **
17255756 GCTTAGAACTTCATTAGGTGCTAACTAAGCTAG
1 GCTTAAAACTTCATTA-GTGCTCACTAAATTAG
* * * *
17255789 GCTT-AAATTTCATTGGTGC-CAAATAATTTAG
1 GCTTAAAACTTCATTAGTGCTC-ACTAAATTAG
17255820 GCTTAAA
1 GCTTAAA
17255827 CTTTTTCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
31 15 0.26
32 25 0.44
33 17 0.30
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (32 bp):
GCTTAAAACTTCATTAGTGCTCACTAAATTAG
Found at i:17255821 original size:31 final size:32
Alignment explanation
Indices: 17255724--17255829 Score: 101
Period size: 31 Copynumber: 3.3 Consensus size: 32
17255714 GATAAACTGA
* *
17255724 GCTTAAAACTTCATTA-GTGCTC-ACTAAATTAG
1 GCTT-AAACTTCATTAGGTGC-CAAATAAGTTAG
* * *
17255756 GCTTAGAACTTCATTAGGTGCTAACTAAGCTAG
1 GCTTA-AACTTCATTAGGTGCCAAATAAGTTAG
* *
17255789 GCTTAAATTTCATT-GGTGCCAAATAATTTAG
1 GCTTAAACTTCATTAGGTGCCAAATAAGTTAG
17255820 GCTTAAACTT
1 GCTTAAACTT
17255830 TTTCATAAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
31 23 0.37
32 22 0.35
33 17 0.27
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (32 bp):
GCTTAAACTTCATTAGGTGCCAAATAAGTTAG
Found at i:17255896 original size:72 final size:72
Alignment explanation
Indices: 17255773--17255915 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 72
17255763 ACTTCATTAG
* * * **
17255773 GTGCTAACTAAGCTAGGCTTAAATTTCATTGGTGCCAAATAATTTAGGCTTAAA-CTTTTTCATA
1 GTGCTAACTAAACTAGGCTTAAATTTCATAGATGCCAAATAAACTAGGCTTAAATC-TTTTCATA
17255837 AGTGCTAA
65 AGTGCTAA
* * ** * *
17255845 GTGCTAGCTAAACTGGGCTTAAATTTCATAGATGCCAGCTAAACTATGCTTAAATCTTTTCATGA
1 GTGCTAACTAAACTAGGCTTAAATTTCATAGATGCCAAATAAACTAGGCTTAAATCTTTTCATAA
17255910 GTGCTA
66 GTGCTA
17255916 GCTAAATTGG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 58 0.98
73 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (72 bp):
GTGCTAACTAAACTAGGCTTAAATTTCATAGATGCCAAATAAACTAGGCTTAAATCTTTTCATAA
GTGCTAA
Found at i:17255963 original size:67 final size:66
Alignment explanation
Indices: 17255844--17256064 Score: 229
Period size: 67 Copynumber: 3.4 Consensus size: 66
17255834 ATAAGTGCTA
17255844 AGTGCTAGCTAAACTGGGCTTAAA-TTTCA-TAGATGCCAGCTAAACT-ATGCTTAAATCTTTTC
1 AGTGCTAGCTAAACTGGGCTTAAACTTTCATTAGATG-CAGCTAAACTGA-GCTTAAATCTTTTC
17255906 ATG
64 ATG
* * *
17255909 AGTGCTAGCTAAATTGGGTTTAAATCTTTCATTA-ATGTCAGCTAAACTGGGCTTAAATCTTTTC
1 AGTGCTAGCTAAACTGGGCTTAAA-CTTTCATTAGATG-CAGCTAAACTGAGCTTAAATCTTTTC
17255973 ATG
64 ATG
* * * * * * *
17255976 AGTGCTAGATAAATTGGGCTGAAAATTTCATTAGATGCTAACTAAACTGAGCTCAAA--TATTCA
1 AGTGCTAGCTAAACTGGGCTTAAACTTTCATTAGATGC-AGCTAAACTGAGCTTAAATCTTTTCA
*
17256039 TT
65 TG
* * *
17256041 AGTGCTAGTTAAACTAGGTTTAAA
1 AGTGCTAGCTAAACTGGGCTTAAA
17256065 TCTTGTGTAG
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
65 47 0.36
66 9 0.07
67 74 0.56
68 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (66 bp):
AGTGCTAGCTAAACTGGGCTTAAACTTTCATTAGATGCAGCTAAACTGAGCTTAAATCTTTTCAT
G
Found at i:17256054 original size:32 final size:32
Alignment explanation
Indices: 17255969--17256055 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 32
17255959 GCTTAAATCT
* * * *
17255969 TTTCATGAGTGCTAGATAAATTGGGCTGAAAA
1 TTTCATTAGTGCTAGATAAACTGAGCTCAAAA
17256001 TTTCATTAGATGCTA-ACTAAACTGAGCTC-AAA
1 TTTCATTAG-TGCTAGA-TAAACTGAGCTCAAAA
*
17256033 TATTCATTAGTGCTAGTTAAACT
1 T-TTCATTAGTGCTAGATAAACT
17256056 AGGTTTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
32 24 0.52
33 22 0.48
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
TTTCATTAGTGCTAGATAAACTGAGCTCAAAA
Found at i:17256289 original size:22 final size:22
Alignment explanation
Indices: 17256232--17256289 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
17256222 ACTTTTTCAA
17256232 CTAATCTAGGCTTA-GTGCTAG
1 CTAATCTAGGCTTATGTGCTAG
*
17256253 -TAAATCTGGGCTTATGTGCTAG
1 CT-AATCTAGGCTTATGTGCTAG
*
17256275 CTAATCTAGACTTAT
1 CTAATCTAGGCTTAT
17256290 ATCTTAGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 18 0.58
23 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (22 bp):
CTAATCTAGGCTTATGTGCTAG
Found at i:17256300 original size:29 final size:29
Alignment explanation
Indices: 17256263--17256320 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
17256253 TAAATCTGGG
*
17256263 CTTATGTGCTAGCTAATCTAGACTTATAT
1 CTTAGGTGCTAGCTAATCTAGACTTATAT
* * *
17256292 CTTAGGTGCTAGTTAATTTAGGCTTATAT
1 CTTAGGTGCTAGCTAATCTAGACTTATAT
17256321 GCTAGCTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (29 bp):
CTTAGGTGCTAGCTAATCTAGACTTATAT
Found at i:17256337 original size:22 final size:21
Alignment explanation
Indices: 17256298--17256372 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
17256288 ATATCTTAGG
* *
17256298 TGCTAGTTAATTTAGGCTTATA
1 TGCTAGCTAA-TTAGGCTTACA
*
17256320 TGCTAGCTAATTAGGGCTTGCA
1 TGCTAGCTAATTA-GGCTTACA
* * *
17256342 TGCTAGCTAATCTGGGTTTGCA
1 TGCTAGCTAAT-TAGGCTTACA
17256364 TGCTAGCTA
1 TGCTAGCTA
17256373 GACTGGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 3 0.07
22 42 0.91
23 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (21 bp):
TGCTAGCTAATTAGGCTTACA
Found at i:17256378 original size:22 final size:21
Alignment explanation
Indices: 17256319--17256378 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
17256309 TTAGGCTTAT
*
17256319 ATGCTAGCTAATTAGGGCTTGC
1 ATGCTAGCTAACT-GGGCTTGC
*
17256341 ATGCTAGCTAATCTGGGTTTGC
1 ATGCTAGCTAA-CTGGGCTTGC
17256363 ATGCTAGCTAGACTGG
1 ATGCTAGCTA-ACTGG
17256379 ATTTAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (21 bp):
ATGCTAGCTAACTGGGCTTGC
Found at i:17258692 original size:1 final size:1
Alignment explanation
Indices: 17258686--17258728 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
17258676 AAACTTTCCC
* * * *
17258686 TTTTTTTCTTTTTTTTTTTTCTTTTTTTTTTCTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17258729 CATTAAGGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:17258702 original size:11 final size:11
Alignment explanation
Indices: 17258685--17258729 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
17258675 AAAACTTTCC
*
17258685 CTTTTTTTCTT
1 CTTTTTTTTTT
17258696 -TTTTTTTTTT
1 CTTTTTTTTTT
17258706 CTTTTTTTTTT
1 CTTTTTTTTTT
17258717 CTTTCTTTTTTT
1 CTTT-TTTTTTT
17258729 C
1 C
17258730 ATTAAGGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 9 0.29
11 14 0.45
12 8 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:17258704 original size:13 final size:13
Alignment explanation
Indices: 17258686--17258728 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
17258676 AAACTTTCCC
17258686 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
17258699 TTTTTTTCTTTTTT
1 TTTTTTTC-TTTTT
17258713 TTTTCTTTCTTTTT
1 TTTT-TTTCTTTTT
17258727 TT
1 TT
17258729 CATTAAGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.29
14 16 0.57
15 4 0.14
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:17263305 original size:18 final size:19
Alignment explanation
Indices: 17263262--17263305 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
17263252 AAATTTATTT
17263262 TTATTTTATTTAATCTTCA
1 TTATTTTATTTAATCTTCA
* *
17263281 TT-CTTTATTTAAT-TTTA
1 TTATTTTATTTAATCTTCA
17263298 TTATTTTA
1 TTATTTTA
17263306 AAATATGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTATTTAATCTTCA
Found at i:17263527 original size:12 final size:12
Alignment explanation
Indices: 17263509--17263609 Score: 76
Period size: 12 Copynumber: 7.9 Consensus size: 12
17263499 TTTATCTAGG
17263509 ATTTAGGGTTTC
1 ATTTAGGGTTTC
* *
17263521 GTTTAGGGTTTTA
1 ATTTAGGG-TTTC
**
17263534 ATTTTAATGTTTC
1 A-TTTAGGGTTTC
17263547 ATTTAGGGTTTC
1 ATTTAGGGTTTC
* *
17263559 GATTTTAAGGTTTT
1 -A-TTTAGGGTTTC
17263573 ATTTAGGGTTTC
1 ATTTAGGGTTTC
*
17263585 GATCTTAAGGTTTC
1 -AT-TTAGGGTTTC
*
17263599 ACTTAGGGTTT
1 ATTTAGGGTTT
17263610 TAGCAATTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
12 33 0.49
13 12 0.18
14 23 0.34
ACGTcount: A:0.19, C:0.07, G:0.23, T:0.51
Consensus pattern (12 bp):
ATTTAGGGTTTC
Found at i:17263539 original size:26 final size:26
Alignment explanation
Indices: 17263510--17263609 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
17263500 TTATCTAGGA
* * *
17263510 TTTAGGGTTTCGTTTAGGGTTTTAAT
1 TTTAAGGTTTCATTTAGGGTTTCAAT
* *
17263536 TTTAATGTTTCATTTAGGGTTTCGAT
1 TTTAAGGTTTCATTTAGGGTTTCAAT
* *
17263562 TTTAAGGTTTTATTTAGGGTTTCGAT
1 TTTAAGGTTTCATTTAGGGTTTCAAT
* *
17263588 CTTAAGGTTTCACTTAGGGTTT
1 TTTAAGGTTTCATTTAGGGTTT
17263610 TAGCAATTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.18, C:0.07, G:0.23, T:0.52
Consensus pattern (26 bp):
TTTAAGGTTTCATTTAGGGTTTCAAT
Found at i:17264156 original size:3 final size:3
Alignment explanation
Indices: 17264150--17264178 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17264140 AAAAGTTTTT
17264150 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17264179 TCTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17265394 original size:100 final size:100
Alignment explanation
Indices: 17265282--17265462 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 100
17265272 TCTCTCTCTT
** * * * *
17265282 CTTTGCTACAAATTCTACTACATTTTTAACTCCT-TTTTTTTGTTTGCTGCTGATTCGCTTCTCT
1 CTTTGCTACAAATTCTACTACACCTTTAACGCCTCCTTTTTTATTTGCCGCTGATTCGCTTCTC-
17265346 TTTTCCCTTCACAAGCTTTCACGTTAAGCCTCCCTC
65 TTTTCCCTTCACAAGCTTTCACGTTAAGCCTCCCTC
* * * * *
17265382 CTTTGCTGCAAATTCTGCTACACCTTTCACGCCTCCTTTTTTATTTGCCGCTGGTTTGCTTCTCT
1 CTTTGCTACAAATTCTACTACACCTTTAACGCCTCCTTTTTTATTTGCCGCTGATTCGCTTCTCT
*
17265447 TTTCCCTTCACTAGCT
66 TTTCCCTTCACAAGCT
17265463 GCACTACCCA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 44 0.65
101 24 0.35
ACGTcount: A:0.14, C:0.30, G:0.10, T:0.45
Consensus pattern (100 bp):
CTTTGCTACAAATTCTACTACACCTTTAACGCCTCCTTTTTTATTTGCCGCTGATTCGCTTCTCT
TTTCCCTTCACAAGCTTTCACGTTAAGCCTCCCTC
Found at i:17266264 original size:34 final size:33
Alignment explanation
Indices: 17266218--17266286 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
17266208 TTTTATTTCC
*
17266218 TTTTATATTTATA-TTTATTTTTAATATTATTAT
1 TTTTATATTTATATTTTA-TATTAATATTATTAT
* *
17266251 TTTTATCTCTTATATTTTATATTATTATTATTAT
1 TTTTATAT-TTATATTTTATATTAATATTATTAT
17266285 TT
1 TT
17266287 ATTTATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 7 0.23
34 20 0.65
35 4 0.13
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (33 bp):
TTTTATATTTATATTTTATATTAATATTATTAT
Found at i:17271705 original size:61 final size:61
Alignment explanation
Indices: 17271636--17271758 Score: 183
Period size: 61 Copynumber: 2.0 Consensus size: 61
17271626 TAATTTTGAT
* *
17271636 ATCATGAACAAACAAACAAACCTCTAACCTGCATAAGCTATATTGACAAGGCTTTTGTACC
1 ATCATGAACAAACAAACAAACCTCTAACCTGCATAAGCTATATTAACAAGGCTCTTGTACC
* * * * *
17271697 ATCATGAACAAATAAACAAACTTCTAACTTGTATAAGCTATATTAATAAGGCTCTTGTACC
1 ATCATGAACAAACAAACAAACCTCTAACCTGCATAAGCTATATTAACAAGGCTCTTGTACC
17271758 A
1 A
17271759 CTTGAAAGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (61 bp):
ATCATGAACAAACAAACAAACCTCTAACCTGCATAAGCTATATTAACAAGGCTCTTGTACC
Found at i:17274847 original size:25 final size:23
Alignment explanation
Indices: 17274818--17274872 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
17274808 AATCAAAAGT
*
17274818 GAAAAGAAAATATGAAGGAAAGATA
1 GAAAAGAAAA-ATGAAGAAAAGA-A
*
17274843 GAAAAAGATAAATGAAGAAAAGAA
1 G-AAAAGAAAAATGAAGAAAAGAA
17274867 -AAAAGA
1 GAAAAGA
17274873 GAAAGACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.22
24 1 0.04
25 12 0.44
26 8 0.30
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (23 bp):
GAAAAGAAAAATGAAGAAAAGAA
Found at i:17275713 original size:37 final size:38
Alignment explanation
Indices: 17275672--17275747 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
17275662 TTTAAACTCA
*
17275672 TAGCCACGTTGAATTTGATCAGTGTTTGC-TTGATATG
1 TAGCCACGTTGAATTTCATCAGTGTTTGCTTTGATATG
*
17275709 TAGCCATGTTGAATTTCATCAGTGTTTGCTTTGATATG
1 TAGCCACGTTGAATTTCATCAGTGTTTGCTTTGATATG
17275747 T
1 T
17275748 GCTTAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 27 0.75
38 9 0.25
ACGTcount: A:0.21, C:0.13, G:0.22, T:0.43
Consensus pattern (38 bp):
TAGCCACGTTGAATTTCATCAGTGTTTGCTTTGATATG
Done.