Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 137 of 160
Found at i:25680882 original size:22 final size:22
Alignment explanation
Indices: 25680853--25680905 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
25680843 CTTATATAAG
* *
25680853 AGTAAATTACTAATAATTTAGT
1 AGTAAATTAATAATAATTTAAT
*
25680875 TGTAAATTAATAATAATTTAAT
1 AGTAAATTAATAATAATTTAAT
25680897 AGTAAATTA
1 AGTAAATTA
25680906 GTTAATCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (22 bp):
AGTAAATTAATAATAATTTAAT
Found at i:25680964 original size:22 final size:22
Alignment explanation
Indices: 25680855--25680979 Score: 62
Period size: 22 Copynumber: 5.8 Consensus size: 22
25680845 TATATAAGAG
* * *
25680855 TAAATTACTAATAATTTAGTTG
1 TAAATTAATAATAAATTAGTTA
* *
25680877 TAAATTAATAATAATTTA-ATA
1 TAAATTAATAATAAATTAGTTA
* * *
25680898 GTAAATTAGT--T-AATCATTTA
1 -TAAATTAATAATAAATTAGTTA
* * * *
25680918 TAATTTTATAATAAA-TAATCAA
1 TAAATTAATAATAAATTAGT-TA
25680940 TAAATTAATAATAAATTAGTTA
1 TAAATTAATAATAAATTAGTTA
* * *
25680962 TAATTTTATAACAAATTA
1 TAAATTAATAATAAATTA
25680980 TTAGTAACTT
Statistics
Matches: 76, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
19 9 0.12
20 3 0.04
21 4 0.05
22 57 0.75
23 3 0.04
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAATTAATAATAAATTAGTTA
Found at i:25681031 original size:17 final size:17
Alignment explanation
Indices: 25681007--25681046 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
25680997 AAGTATCAAA
25681007 ATTT-TAGTAGTAAATC
1 ATTTATAGTAGTAAATC
* *
25681023 ATTTATAGTATTAAATT
1 ATTTATAGTAGTAAATC
25681040 ATTTATA
1 ATTTATA
25681047 AATTAGTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (17 bp):
ATTTATAGTAGTAAATC
Found at i:25681093 original size:22 final size:21
Alignment explanation
Indices: 25681009--25681101 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 21
25680999 GTATCAAAAT
25681009 TTTAGTAGTAAATCATT-T-A
1 TTTAGTAGTAAATCATTGTAA
* * *
25681028 --TAGTATTAAATTATTTATAA
1 TTTAGTAGTAAATCA-TTGTAA
* * *
25681048 ATTAGTGGTAAATCAATGTAAA
1 TTTAGTAGTAAATCATTGT-AA
25681070 TTTAGTAGTAAATCATTGATAA
1 TTTAGTAGTAAATCATTG-TAA
*
25681092 TTTAATAGTA
1 TTTAGTAGTA
25681102 TATAATTAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
17 11 0.20
18 2 0.04
19 1 0.02
20 1 0.02
21 2 0.04
22 38 0.68
23 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (21 bp):
TTTAGTAGTAAATCATTGTAA
Found at i:25681587 original size:27 final size:27
Alignment explanation
Indices: 25681549--25681602 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
25681539 ATTGAAGGTG
25681549 ATCAAAATTATATAAAAAATTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
* *
25681576 ATCAAAATTATATTAAAAGTTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
25681603 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (27 bp):
ATCAAAATTATATAAAAAATTATCAAA
Found at i:25683584 original size:11 final size:11
Alignment explanation
Indices: 25683570--25683609 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
25683560 GATGTTTACA
*
25683570 AATAATTTAAT
1 AATAAATTAAT
*
25683581 AATAAATCAAT
1 AATAAATTAAT
*
25683592 AATAACTTAAT
1 AATAAATTAAT
25683603 AATAAAT
1 AATAAAT
25683610 CAATTTCAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:25683623 original size:22 final size:22
Alignment explanation
Indices: 25683570--25683723 Score: 84
Period size: 22 Copynumber: 7.0 Consensus size: 22
25683560 GATGTTTACA
25683570 AATAATTTAATAATAAATCAAT
1 AATAATTTAATAATAAATCAAT
*
25683592 AATAACTTAATAATAAATCAAT
1 AATAATTTAATAATAAATCAAT
* * *
25683614 -TTCAATTTAATTAT-AATTAATT
1 AAT-AATTTAATAATAAATCAA-T
* * * *
25683636 GATAAATCTATTAGTAAATC-AT
1 AAT-AATTTAATAATAAATCAAT
* * *
25683658 AAATAATTTAGTAGTGAATCAAT
1 -AATAATTTAATAATAAATCAAT
* * *
25683681 AATAA-TTAGTAATTAATCATT
1 AATAATTTAATAATAAATCAAT
* *
25683702 GAA-ATTTTAAAAATAAATCAAT
1 -AATAATTTAATAATAAATCAAT
25683724 GTAACTCAAT
Statistics
Matches: 100, Mismatches: 24, Indels: 16
0.71 0.17 0.11
Matches are distributed among these distances:
21 20 0.20
22 64 0.64
23 13 0.13
24 3 0.03
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (22 bp):
AATAATTTAATAATAAATCAAT
Found at i:25683698 original size:21 final size:22
Alignment explanation
Indices: 25683659--25683699 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25683649 GTAAATCATA
*
25683659 AATAATTTAGTAGTGAATCAAT
1 AATAATTTAGTAATGAATCAAT
*
25683681 AATAA-TTAGTAATTAATCA
1 AATAATTTAGTAATGAATCA
25683700 TTGAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (22 bp):
AATAATTTAGTAATGAATCAAT
Found at i:25683784 original size:15 final size:16
Alignment explanation
Indices: 25683752--25683785 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25683742 ATTAATCATT
25683752 AATAACTTAATAGTTA
1 AATAACTTAATAGTTA
*
25683768 AATAATTTAATAG-TA
1 AATAACTTAATAGTTA
25683783 AAT
1 AAT
25683786 CAGTGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
AATAACTTAATAGTTA
Found at i:25683850 original size:22 final size:22
Alignment explanation
Indices: 25683825--25683883 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
25683815 AATTTAATAA
* **
25683825 TAAATCTTTGATAATTTTGTAG
1 TAAATCATTGATAATTAAGTAG
* * *
25683847 TAAATAATTAAAAATTAAGTAG
1 TAAATCATTGATAATTAAGTAG
25683869 TAAATCATTGATAAT
1 TAAATCATTGATAAT
25683884 GTAGATTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (22 bp):
TAAATCATTGATAATTAAGTAG
Found at i:25683931 original size:48 final size:44
Alignment explanation
Indices: 25683861--25683967 Score: 108
Period size: 48 Copynumber: 2.3 Consensus size: 44
25683851 TAATTAAAAA
* * * *
25683861 TTAAGTAGTAAATCATTGATAATGTAGATT-TAAATTATTGATAACTT
1 TTAA-TAGTAAATTACTAATAATGTAG-TTGTAAATTAATGATAA--T
*
25683908 ATATAATAGTAAATTACTAATAATTTAGTTGTAAATTAATGATAAT
1 -T-TAATAGTAAATTACTAATAATGTAGTTGTAAATTAATGATAAT
25683954 TTAATAGTAAATTA
1 TTAATAGTAAATTA
25683968 GTTAATCATT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
44 13 0.25
45 1 0.02
46 1 0.02
47 2 0.04
48 32 0.62
49 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (44 bp):
TTAATAGTAAATTACTAATAATGTAGTTGTAAATTAATGATAAT
Found at i:25683941 original size:22 final size:22
Alignment explanation
Indices: 25683911--25683967 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
25683901 ATAACTTATA
*
25683911 TAATAGTAAATTACTAATAATT
1 TAATAGTAAATTAATAATAATT
* * *
25683933 TAGTTGTAAATTAATGATAATT
1 TAATAGTAAATTAATAATAATT
25683955 TAATAGTAAATTA
1 TAATAGTAAATTA
25683968 GTTAATCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
TAATAGTAAATTAATAATAATT
Found at i:25684104 original size:22 final size:22
Alignment explanation
Indices: 25684078--25684201 Score: 81
Period size: 22 Copynumber: 5.6 Consensus size: 22
25684068 AATTTAATAG
*
25684078 TAAATCATTTATAACTTAGTAT
1 TAAATCATTGATAACTTAGTAT
* * * **
25684100 TAAATTATTCATAAATTAGTGG
1 TAAATCATTGATAACTTAGTAT
* *
25684122 TAAATCAATT-CTAATTTAGT-T
1 TAAATC-ATTGATAACTTAGTAT
* * *
25684143 ATAAATCATTGATAATTTAATAG
1 -TAAATCATTGATAACTTAGTAT
* * *
25684166 TATATAATTGATACCTTAGTAT
1 TAAATCATTGATAACTTAGTAT
*
25684188 TAAATCGTTGATAA
1 TAAATCATTGATAA
25684202 TATAACAACA
Statistics
Matches: 76, Mismatches: 22, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
21 3 0.04
22 70 0.92
23 3 0.04
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
TAAATCATTGATAACTTAGTAT
Found at i:25684126 original size:44 final size:44
Alignment explanation
Indices: 25684071--25684193 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
25684061 TATAAAAAAT
*
25684071 TTAATAGTAAATCATTTATAACTTAGTATTAAATTATTCATAAA
1 TTAATAGTAAATCATTTATAACTTAGTATTAAATCATTCATAAA
* * * * * * *
25684115 TTAGTGGTAAATCAATTCTAATTTAGT-TATAAATCATTGATAAT
1 TTAATAGTAAATCATTTATAACTTAGTAT-TAAATCATTCATAAA
* * * *
25684159 TTAATAGTATATAATTGATACCTTAGTATTAAATC
1 TTAATAGTAAATCATTTATAACTTAGTATTAAATC
25684194 GTTGATAATA
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
43 1 0.02
44 58 0.97
45 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.43
Consensus pattern (44 bp):
TTAATAGTAAATCATTTATAACTTAGTATTAAATCATTCATAAA
Found at i:25684639 original size:21 final size:21
Alignment explanation
Indices: 25684570--25684643 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
25684560 TTTATTGATG
*
25684570 ATTAT-AAATATTATATCATAA
1 ATTATCAAA-ATTATATCAAAA
* * *
25684591 ATTATCAAACTAATATCGAAA
1 ATTATCAAAATTATATCAAAA
* * *
25684612 GTGATCAAAATTATATAAAAA
1 ATTATCAAAATTATATCAAAA
25684633 ATTATCAAAAT
1 ATTATCAAAAT
25684644 CAAAATTATA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 37 0.93
22 3 0.08
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (21 bp):
ATTATCAAAATTATATCAAAA
Found at i:25684648 original size:27 final size:27
Alignment explanation
Indices: 25684615--25684668 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
25684605 ATCGAAAGTG
25684615 ATCAAAATTATATAAAAAATTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
* *
25684642 ATCAAAATTATATCAAAAGTTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
25684669 TTTTACTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (27 bp):
ATCAAAATTATATAAAAAATTATCAAA
Found at i:25689357 original size:16 final size:17
Alignment explanation
Indices: 25689336--25689387 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
25689326 TTTAATATGA
25689336 TTATT-ATTTTTATTAT
1 TTATTAATTTTTATTAT
25689352 TTATTAATTTTT-TTAT
1 TTATTAATTTTTATTAT
*
25689368 TAATTTAATTTTTATT-T
1 TTA-TTAATTTTTATTAT
25689385 TTA
1 TTA
25689388 AAAGATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 11 0.35
17 18 0.58
18 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTAATTTTTATTAT
Found at i:25691596 original size:32 final size:31
Alignment explanation
Indices: 25691558--25691629 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 31
25691548 ATGAAAATCT
* *
25691558 AATTTAAATAGTATTAAAGACATAAATGATG
1 AATTTAAATAATATAAAAGACATAAATGATG
*
25691589 AATTTTAAATAATATAAAAGACATAAATTATG
1 AA-TTTAAATAATATAAAAGACATAAATGATG
25691621 AATTTAAAT
1 AATTTAAAT
25691630 TTAATTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (31 bp):
AATTTAAATAATATAAAAGACATAAATGATG
Found at i:25693841 original size:13 final size:14
Alignment explanation
Indices: 25693820--25693855 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
25693810 TAGTTTTTAA
25693820 AAATTTTAAAT-AT
1 AAATTTTAAATAAT
*
25693833 AATTTTTAAATAAT
1 AAATTTTAAATAAT
25693847 AAATTTTAA
1 AAATTTTAA
25693856 TTTAAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTTAAATAAT
Found at i:25694232 original size:16 final size:16
Alignment explanation
Indices: 25694201--25694243 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
25694191 AAAATAAGAT
25694201 AAATTAATTAATTTAAA
1 AAATTAATT-ATTTAAA
*
25694218 AAATTAATTATTTAAG
1 AAATTAATTATTTAAA
*
25694234 AGATTAATTA
1 AAATTAATTA
25694244 AATTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
AAATTAATTATTTAAA
Found at i:25694793 original size:16 final size:16
Alignment explanation
Indices: 25694772--25694802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25694762 ATTTTTAAAA
25694772 AATTATTTATAAATAG
1 AATTATTTATAAATAG
*
25694788 AATTATTTATCAATA
1 AATTATTTATAAATA
25694803 CTTTTAAGCA
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:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTATTTATAAATAG
Found at i:25694943 original size:19 final size:19
Alignment explanation
Indices: 25694898--25694943 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
25694888 TTATTTTAAG
*
25694898 TATTTTTATATTAATATAA
1 TATTTTAATATTAATATAA
*
25694917 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAATATAA
25694935 TATTATTAA
1 TATT-TTAA
25694944 AATAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTAATATTAATATAA
Found at i:25694984 original size:16 final size:16
Alignment explanation
Indices: 25694909--25694988 Score: 58
Period size: 16 Copynumber: 4.8 Consensus size: 16
25694899 ATTTTTATAT
25694909 TAATATAAT-ATTTTAA
1 TAATA-AATAATTTTAA
*
25694925 TATTAAATATTATTATTAA
1 TAATAAATA--ATT-TTAA
*
25694944 -AATAAATTAGTTTTGAA
1 TAATAAA-TAATTTT-AA
*
25694961 T-ATTAATAATTTTAA
1 TAATAAATAATTTTAA
25694976 TAATAAATAATTT
1 TAATAAATAATTT
25694989 CATTTTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
15 6 0.12
16 22 0.44
17 8 0.16
18 8 0.16
19 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TAATAAATAATTTTAA
Found at i:25698820 original size:29 final size:28
Alignment explanation
Indices: 25698764--25698825 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
25698754 TACTTTTCGA
* * *
25698764 ATTTTAAAAATTTAGTCCCTCTAATATT
1 ATTTTAAAAATTTAATCCATATAATATT
*
25698792 ATTTTAAAAAATTTAATCCATATAGTATT
1 ATTTT-AAAAATTTAATCCATATAATATT
25698821 ATTTT
1 ATTTT
25698826 TTAAGGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTTTAAAAATTTAATCCATATAATATT
Found at i:25698933 original size:29 final size:29
Alignment explanation
Indices: 25698874--25698933 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
25698864 CTAAATTAAC
* **
25698874 ATAATACTATAGGAGCTAAATTTATTTAA
1 ATAATACTATAGGAGCTAAATTCATAAAA
*
25698903 ATAATACTATAAGGA-CTAAATTCCTAAAA
1 ATAATACTAT-AGGAGCTAAATTCATAAAA
25698932 AT
1 AT
25698934 CAAATAGTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (29 bp):
ATAATACTATAGGAGCTAAATTCATAAAA
Found at i:25699151 original size:16 final size:16
Alignment explanation
Indices: 25699097--25699152 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
25699087 ATTTTTTTTG
* *
25699097 TTTTAATATATTCACTA
1 TTTT-ATATATTAATTA
*
25699114 TTTATATATATTAATGA
1 TTT-TATATATTAATTA
25699131 TTTTAT-TATTAATATA
1 TTTTATATATTAAT-TA
25699147 TTTTAT
1 TTTTAT
25699153 GAGTTGATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 7 0.21
16 10 0.30
17 15 0.45
18 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTATATATTAATTA
Found at i:25699640 original size:15 final size:17
Alignment explanation
Indices: 25699612--25699643 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25699602 GACCTAATGT
25699612 AAATTATTCTAAGTAAA
1 AAATTATTCTAAGTAAA
25699629 AAATTA-TC-AAGTAAA
1 AAATTATTCTAAGTAAA
25699644 GCAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
AAATTATTCTAAGTAAA
Found at i:25699872 original size:5 final size:5
Alignment explanation
Indices: 25699862--25699886 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25699852 CAAGGTTAGG
25699862 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
25699887 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:25702673 original size:8 final size:8
Alignment explanation
Indices: 25702660--25702694 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
25702650 TGAAAATATT
25702660 TATGTATA
1 TATGTATA
*
25702668 TATGTATG
1 TATGTATA
25702676 TATGTATA
1 TATGTATA
*
25702684 TATATATA
1 TATGTATA
25702692 TAT
1 TAT
25702695 ATGCACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (8 bp):
TATGTATA
Found at i:25702782 original size:23 final size:23
Alignment explanation
Indices: 25702752--25702799 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
25702742 ATTTGCCTTT
*
25702752 GTTTAGTTTTAATACTTACATTA
1 GTTTAGTTTCAATACTTACATTA
*
25702775 GTTTAGTTTCAATACTTATATTA
1 GTTTAGTTTCAATACTTACATTA
25702798 GT
1 GT
25702800 ATAAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.52
Consensus pattern (23 bp):
GTTTAGTTTCAATACTTACATTA
Found at i:25703317 original size:11 final size:11
Alignment explanation
Indices: 25703297--25703340 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
25703287 ATAACTTATA
*
25703297 AATAAATTAAT
1 AATAATTTAAT
*
25703308 AACAATTTAAT
1 AATAATTTAAT
*
25703319 AATAAATTAAT
1 AATAATTTAAT
25703330 AATAATTTAAT
1 AATAATTTAAT
25703341 GTTAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:25703322 original size:22 final size:22
Alignment explanation
Indices: 25703297--25703372 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
25703287 ATAACTTATA
25703297 AATAAATTAATAACAATTTAAT
1 AATAAATTAATAACAATTTAAT
*
25703319 AATAAATTAATAATAATTTAAT
1 AATAAATTAATAACAATTTAAT
** * ** *
25703341 GTTAAATCAATTTCAGTTTAAT
1 AATAAATTAATAACAATTTAAT
25703363 AAT-AATTAAT
1 AATAAATTAAT
25703373 TAATAGTGGT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 6 0.14
22 37 0.86
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (22 bp):
AATAAATTAATAACAATTTAAT
Found at i:25703549 original size:22 final size:21
Alignment explanation
Indices: 25703480--25703563 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
25703470 GTAAATTAGT
* *
25703480 ATAACTTAATAGTAAATCATCA
1 ATAACTTAATAATAAATCAT-G
* * *
25703502 ATTACATAATAATTAATCAATG
1 ATAACTTAATAATAAATC-ATG
*
25703524 ATAACTTCATAATAAATCATG
1 ATAACTTAATAATAAATCATG
*
25703545 CATAATTTAAT-ATAAATCA
1 -ATAACTTAATAATAAATCA
25703564 ATAATAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 11 0.22
22 36 0.73
23 2 0.04
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATG
Found at i:25703675 original size:11 final size:10
Alignment explanation
Indices: 25703630--25703686 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
25703620 GTAAATAAAA
25703630 AATAAATAAAT
1 AATAAAT-AAT
*
25703641 AACAAATCAAT
1 AATAAAT-AAT
*
25703652 GATAACATAAT
1 AATAA-ATAAT
25703663 AATAAATACAT
1 AATAAATA-AT
25703674 AA-AAATAAT
1 AATAAATAAT
25703683 AATA
1 AATA
25703687 CATCATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 4 0.11
10 9 0.24
11 23 0.61
12 2 0.05
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.25
Consensus pattern (10 bp):
AATAAATAAT
Found at i:25703697 original size:17 final size:17
Alignment explanation
Indices: 25703658--25703699 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25703648 CAATGATAAC
25703658 ATAATAATAAATACATA
1 ATAATAATAAATACATA
*
25703675 AAAATAAT-AATACATCA
1 ATAATAATAAATACAT-A
*
25703692 TTAATAAT
1 ATAATAAT
25703700 TTAATAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAATAAATACATA
Found at i:25703850 original size:22 final size:22
Alignment explanation
Indices: 25703825--25703908 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
25703815 AATTTAATAG
*
25703825 AAATCATTCATAAATTAGAAGT
1 AAATCATTAATAAATTAGAAGT
* * * *
25703847 AAATTATTAATAATTTAGTATT
1 AAATCATTAATAAATTAGAAGT
* *
25703869 AAATCATTGATAACTTA-ATAGT
1 AAATCATTAATAAATTAGA-AGT
* * *
25703891 AAATAACTAATAACTTAG
1 AAATCATTAATAAATTAG
25703909 TTGTCATTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
AAATCATTAATAAATTAGAAGT
Found at i:25703892 original size:44 final size:44
Alignment explanation
Indices: 25703825--25703909 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
25703815 AATTTAATAG
* * *
25703825 AAATCATTCATAAATTAGAAGTAAATTATTAATAATTTAGTATT
1 AAATCATTCATAAATTAGAAGTAAATAACTAATAACTTAGTATT
* *
25703869 AAATCATTGATAACTTA-ATAGTAAATAACTAATAACTTAGT
1 AAATCATTCATAAATTAGA-AGTAAATAACTAATAACTTAGT
25703910 TGTCATTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (44 bp):
AAATCATTCATAAATTAGAAGTAAATAACTAATAACTTAGTATT
Found at i:25705246 original size:26 final size:27
Alignment explanation
Indices: 25705199--25705251 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
25705189 TTCTTATTAT
* *
25705199 TTATTCTTTTTTAAAATAAATA-AAAA
1 TTATTCTTCTTGAAAATAAATACAAAA
* *
25705225 TTATTCTTCTTGAAATTTAATACAAAA
1 TTATTCTTCTTGAAAATAAATACAAAA
25705252 CTTTTCATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (27 bp):
TTATTCTTCTTGAAAATAAATACAAAA
Found at i:25705510 original size:18 final size:17
Alignment explanation
Indices: 25705481--25705515 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25705471 CATGCAAATG
25705481 AAAATGAATAAACATAT
1 AAAATGAATAAACATAT
*
25705498 AAAATGTAATAAAGATAT
1 AAAATG-AATAAACATAT
25705516 GGGCCGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATGAATAAACATAT
Found at i:25705630 original size:48 final size:48
Alignment explanation
Indices: 25705551--25705647 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
25705541 AATATCAATA
* * * * *
25705551 TGCACCAAGTGGGCCATGCAACAAAGATATCATTCTTAAATGGCTTTG
1 TGCACCAAGTGGCCCATGAAACAAAGATATCATCCATAAAAGGCTTTG
*
25705599 TGCATCAAGTGGCCCATGAAACAAA-ACTATCATCCATAAAAGGCTTTG
1 TGCACCAAGTGGCCCATGAAACAAAGA-TATCATCCATAAAAGGCTTTG
25705647 T
1 T
25705648 TCTGCTTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCACCAAGTGGCCCATGAAACAAAGATATCATCCATAAAAGGCTTTG
Found at i:25706749 original size:11 final size:11
Alignment explanation
Indices: 25706690--25706749 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
25706680 GATGTTTACA
25706690 AATAATTTAAT
1 AATAATTTAAT
* *
25706701 AATGAA-TAAAA
1 AAT-AATTTAAT
25706712 AATAATTTAAT
1 AATAATTTAAT
* * *
25706723 AGTAAATTAGT
1 AATAATTTAAT
*
25706734 AATAACTTAAT
1 AATAATTTAAT
25706745 AATAA
1 AATAA
25706750 ATCAATTTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
10 2 0.05
11 33 0.89
12 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:25707104 original size:22 final size:21
Alignment explanation
Indices: 25707074--25707130 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
25707064 ATAACTTATA
25707074 TAATAGTAAATTACTAATAATT
1 TAATAGTAAATTA-TAATAATT
* * *
25707096 TAGTTGTAAATTGATGATAATT
1 TAATAGTAAATT-ATAATAATT
25707118 TAATAGTAAATTA
1 TAATAGTAAATTA
25707131 GTTAATCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (21 bp):
TAATAGTAAATTATAATAATT
Found at i:25707189 original size:22 final size:22
Alignment explanation
Indices: 25707164--25707292 Score: 61
Period size: 22 Copynumber: 5.9 Consensus size: 22
25707154 TAAATAATTG
25707164 ATAAATTAATAGTAAATTAGTT
1 ATAAATTAATAGTAAATTAGTT
* * *
25707186 ATAATTTTATAAG-AAATT-GTCA
1 ATAAATTAAT-AGTAAATTAGT-T
* * *
25707208 ATAACTTAATAGTAAAGTA-TC
1 ATAAATTAATAGTAAATTAGTT
* *
25707229 AAAAATTTAGTAGTAAATT-GTTT
1 ATAAA-TTAATAGTAAATTAG-TT
* * *
25707252 ATAACTTATTATTAAATTA-TT
1 ATAAATTAATAGTAAATTAGTT
* *
25707273 CATAAATTAGTGGTAAATTA
1 -ATAAATTAATAGTAAATTA
25707293 CTGCTAATTT
Statistics
Matches: 78, Mismatches: 20, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
21 9 0.12
22 63 0.81
23 6 0.08
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (22 bp):
ATAAATTAATAGTAAATTAGTT
Found at i:25707247 original size:44 final size:44
Alignment explanation
Indices: 25707199--25707291 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
25707189 ATTTTATAAG
25707199 AAATTGTCAATAACTTAATAGTAAAGTA-TCAAAAATTTAGTAGT
1 AAATTGTCAATAACTTAATAGTAAAGTATTCAAAAA-TTAGTAGT
** * * * * *
25707243 AAATTGTTTATAACTTATTATTAAATTATTCATAAATTAGTGGT
1 AAATTGTCAATAACTTAATAGTAAAGTATTCAAAAATTAGTAGT
25707287 AAATT
1 AAATT
25707292 ACTGCTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 35 0.85
45 6 0.15
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (44 bp):
AAATTGTCAATAACTTAATAGTAAAGTATTCAAAAATTAGTAGT
Found at i:25712604 original size:32 final size:31
Alignment explanation
Indices: 25712555--25712626 Score: 117
Period size: 32 Copynumber: 2.3 Consensus size: 31
25712545 GCTTGATTAA
25712555 ATTTCAAATTCATCATTTCTGTCTTTTATACC
1 ATTT-AAATTCATCATTTCTGTCTTTTATACC
*
25712587 ATTTAAAGTTCATCATTTCTGTCTTTTATACT
1 ATTTAAA-TTCATCATTTCTGTCTTTTATACC
25712619 ATTTAAAT
1 ATTTAAAT
25712627 AAGATTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (31 bp):
ATTTAAATTCATCATTTCTGTCTTTTATACC
Found at i:25712965 original size:15 final size:15
Alignment explanation
Indices: 25712945--25712974 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25712935 TTAGATTTTT
*
25712945 AATTTAAAATTATTA
1 AATTTAAAAATATTA
25712960 AATTTAAAAATATTA
1 AATTTAAAAATATTA
25712975 TAAAAATGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTAAAAATATTA
Found at i:25714085 original size:14 final size:14
Alignment explanation
Indices: 25714066--25714095 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25714056 ATAAAAGACA
25714066 TAAATTTATGAATT
1 TAAATTTATGAATT
*
25714080 TAAATTTATTAATT
1 TAAATTTATGAATT
25714094 TA
1 TA
25714096 TGTAATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TAAATTTATGAATT
Found at i:25714205 original size:3 final size:3
Alignment explanation
Indices: 25714199--25714223 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25714189 ATAATAATAA
25714199 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
25714224 TCAACAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25714367 original size:119 final size:124
Alignment explanation
Indices: 25714183--25714471 Score: 412
Period size: 119 Copynumber: 2.3 Consensus size: 124
25714173 AACTTTTAAT
* *
25714183 AATATA-ATAATAATAATATTATTAT-TATTATTATTATTATTTCAACAAGTGAATATAATTGTT
1 AATATATATTATAACAATA-TA-TATGTATTATTATTATTATTTCAACAAGTGAATATAATTGTT
*
25714246 TGC-CA-TC-ATACATATATATATATATAT-AGTTTGAGAGAATATGTACTTCAACAAGTG
64 TGCTCACACAATACATATATATATATATATCAGTTTGAGAGAATATGTACTTCAACAAGTG
25714303 AATATATATTATAAC-ATATATATGTATTATTATTATTATTTCAACAAGTGAATATAATTGTTTG
1 AATATATATTATAACAATATATATGTATTATTATTATTATTTCAACAAGTGAATATAATTGTTTG
* *
25714367 CTATCACACATATATATATATATATATATATGCAGTTTGGGAGAATATGTACTTCAACAAGTG
66 C--TCACACA-ATACATATATATATATATAT-CAGTTTGAGAGAATATGTACTTCAACAAGTG
*
25714430 AATATGTATTATAACATATATATATGTATTATTATTATTATT
1 AATATATATTATAACA-ATATATATGTATTATTATTATTATT
25714472 ATTATTATTA
Statistics
Matches: 151, Mismatches: 6, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
118 3 0.02
119 43 0.28
120 9 0.06
121 6 0.04
122 2 0.01
123 1 0.01
125 19 0.13
127 43 0.28
129 25 0.17
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.43
Consensus pattern (124 bp):
AATATATATTATAACAATATATATGTATTATTATTATTATTTCAACAAGTGAATATAATTGTTTG
CTCACACAATACATATATATATATATATCAGTTTGAGAGAATATGTACTTCAACAAGTG
Found at i:25714464 original size:3 final size:3
Alignment explanation
Indices: 25714456--25714481 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25714446 TATATATATG
25714456 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
25714482 CATAAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25716195 original size:30 final size:30
Alignment explanation
Indices: 25716152--25716219 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
25716142 ATTAAAAAAA
25716152 TTATATTATTATAAATTAATAATATTTAATAT
1 TTATATTATTATAAATTAA-AATATTTAAT-T
25716184 TTAT-TTA-TATAAATTAAAATATTTAATT
1 TTATATTATTATAAATTAAAATATTTAATT
*
25716212 TTAAATTA
1 TTATATTA
25716220 AATAATTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.12
29 13 0.38
30 10 0.29
31 3 0.09
32 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATATTATTATAAATTAAAATATTTAATT
Found at i:25716216 original size:20 final size:22
Alignment explanation
Indices: 25716179--25716221 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25716169 AATAATATTT
*
25716179 AATATTTATTTATATAAATTAA
1 AATATTTAATTATATAAATTAA
25716201 AATATTTAATT-T-TAAATTAA
1 AATATTTAATTATATAAATTAA
25716221 A
1 A
25716222 TAATTAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTTAATTATATAAATTAA
Found at i:25716729 original size:163 final size:164
Alignment explanation
Indices: 25716425--25716752 Score: 613
Period size: 163 Copynumber: 2.0 Consensus size: 164
25716415 CTTTAAGAAG
25716425 ACATAAGCCTGGGGTTGACCGCAGCCTCTCCCTCCGTCTTAACGTAGGGTCTGCCACTTTAAAAC
1 ACATAAGCCTGGGGTTGACCGCAGCCTCTCCCTCCGTCTTAACGTAGGGTCTGCCACTTTAAAAC
25716490 CAAAAAAAAAAAAAATCATATTTATCATAAAATTTAAAATAAAATAATATAGATGAGATGACTGA
66 C-AAAAAAAAAAAAATCATATTTATCATAAAATTTAAAATAAAATAATATAGATGAGATGACTGA
* *
25716555 GAAGACCCGTCCACGTCAATTTTTTCTGGATTTTT
130 GAAGACCCGTCCACGTCAACTCTTTCTGGATTTTT
25716590 ACATAAGCCTGGGGTTGACCGCAGCCTCTCCCTCCGTCTTAACGTAGGGTCTGCCACTTTAAAAC
1 ACATAAGCCTGGGGTTGACCGCAGCCTCTCCCTCCGTCTTAACGTAGGGTCTGCCACTTTAAAAC
*
25716655 C-AAAAAAAGAAAATCATATTTATCATAAAATTTAAAATAAAATAATATAGATGAGATGACTGAG
66 CAAAAAAAAAAAAATCATATTTATCATAAAATTTAAAATAAAATAATATAGATGAGATGACTGAG
25716719 AAGACCCGTCCACGTCAACTCTTTCTGGATTTTT
131 AAGACCCGTCCACGTCAACTCTTTCTGGATTTTT
25716753 GTTCCCCGGG
Statistics
Matches: 160, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
163 94 0.59
165 66 0.41
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (164 bp):
ACATAAGCCTGGGGTTGACCGCAGCCTCTCCCTCCGTCTTAACGTAGGGTCTGCCACTTTAAAAC
CAAAAAAAAAAAAATCATATTTATCATAAAATTTAAAATAAAATAATATAGATGAGATGACTGAG
AAGACCCGTCCACGTCAACTCTTTCTGGATTTTT
Found at i:25718097 original size:15 final size:15
Alignment explanation
Indices: 25718074--25718110 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
25718064 ACTTATAAAT
*
25718074 AATATTATATTAATA
1 AATAATATATTAATA
25718089 AATAATATATTAATA
1 AATAATATATTAATA
*
25718104 TATAATA
1 AATAATA
25718111 AAAGAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:25722194 original size:30 final size:30
Alignment explanation
Indices: 25722137--25722228 Score: 105
Period size: 30 Copynumber: 3.0 Consensus size: 30
25722127 AACAATGCAC
*
25722137 GGGAATTAAATTTCTTAAAATATAATATTATA
1 GGGAA-TAAATTTATTAAAA-ATAATATTATA
*
25722169 GGGAATAAATTTATTAAAAATAATATTGTA
1 GGGAATAAATTTATTAAAAATAATATTATA
* * * *
25722199 AGGACTAAATTCATT-TAAATAATATTATA
1 GGGAATAAATTTATTAAAAATAATATTATA
25722228 G
1 G
25722229 AGACTAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
29 12 0.23
30 22 0.42
31 13 0.25
32 5 0.10
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (30 bp):
GGGAATAAATTTATTAAAAATAATATTATA
Found at i:25726135 original size:22 final size:21
Alignment explanation
Indices: 25726110--25726183 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 21
25726100 ATAGTAAATA
25726110 ATTAATAACTTAGCAATTAATC
1 ATTAATAACTTAG-AATTAATC
*
25726132 ATTAAAAACTTA-AATGTAATC
1 ATTAATAACTTAGAAT-TAATC
*
25726153 GA--CATAACTTAGTAA-TAATC
1 -ATTAATAACTTAG-AATTAATC
*
25726173 ATTGATAACTT
1 ATTAATAACTT
25726184 TGTAATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
19 1 0.02
20 15 0.36
21 12 0.29
22 14 0.33
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (21 bp):
ATTAATAACTTAGAATTAATC
Found at i:25726204 original size:22 final size:22
Alignment explanation
Indices: 25726177--25726231 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
25726167 ATAATCATTG
** *
25726177 ATAACTTTGTAATATATTAGTA
1 ATAACTTAATAATAAATTAGTA
*
25726199 ATAACTTAATAATAAATTAGTG
1 ATAACTTAATAATAAATTAGTA
*
25726221 ATAATTTAATA
1 ATAACTTAATA
25726232 GTCGATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
ATAACTTAATAATAAATTAGTA
Found at i:25726371 original size:22 final size:22
Alignment explanation
Indices: 25726345--25726489 Score: 114
Period size: 22 Copynumber: 6.6 Consensus size: 22
25726335 AACATAGTAC
*
25726345 TAAATTAAGGATAATTTAATAA
1 TAAATTAATGATAATTTAATAA
* * *
25726367 AAAATAAATGATAATTTAATAG
1 TAAATTAATGATAATTTAATAA
* * * *
25726389 TTAATTATTGATAACTTATTAA
1 TAAATTAATGATAATTTAATAA
* *
25726411 TAAATTAATGACAACTTAATAA
1 TAAATTAATGATAATTTAATAA
* * *
25726433 CAAATTAGTGATAATTTAATAG
1 TAAATTAATGATAATTTAATAA
* * *
25726455 TAAATCAAT-TTCAATTTAATAG
1 TAAATTAATGAT-AATTTAATAA
25726477 T-AATTAATTGATA
1 TAAATTAA-TGATA
25726490 GTAGTAAATC
Statistics
Matches: 94, Mismatches: 26, Indels: 6
0.75 0.21 0.05
Matches are distributed among these distances:
21 6 0.06
22 87 0.93
23 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAATTAATGATAATTTAATAA
Found at i:25726652 original size:22 final size:22
Alignment explanation
Indices: 25726580--25726676 Score: 62
Period size: 22 Copynumber: 4.5 Consensus size: 22
25726570 AAAACTTAAA
25726580 AATAAATCAAT-ATAAC-TTAGT
1 AATAAATCAATGATAACTTTA-T
* * * *
25726601 AATAAATC-ATCAATTACATAAT
1 AATAAATCAAT-GATAACTTTAT
* *
25726623 AGTTAATCAATGATAACTTTAT
1 AATAAATCAATGATAACTTTAT
25726645 AATAAATC-ATGCATAA-TTTA-
1 AATAAATCAATG-ATAACTTTAT
25726665 ATATAAATCAAT
1 A-ATAAATCAAT
25726677 AACAATTTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
20 3 0.05
21 22 0.37
22 30 0.51
23 4 0.07
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAAATCAATGATAACTTTAT
Found at i:25726667 original size:44 final size:42
Alignment explanation
Indices: 25726581--25726677 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 42
25726571 AAACTTAAAA
*
25726581 ATAAATCAATATAACTTAGTAATAAATCATCAATTACATAAT
1 ATAAATCAATATAACTTAGTAATAAATCATCAATAACATAAT
* **
25726623 AGTTAATCAATGATAACTTTA-TAATAAATCATGC-ATAATTTAAT
1 A-TAAATCAAT-ATAAC-TTAGTAATAAATCAT-CAATAACATAAT
25726667 ATAAATCAATA
1 ATAAATCAATA
25726678 ACAATTTGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.04
43 16 0.35
44 24 0.52
45 4 0.09
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (42 bp):
ATAAATCAATATAACTTAGTAATAAATCATCAATAACATAAT
Found at i:25726786 original size:11 final size:10
Alignment explanation
Indices: 25726732--25726801 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 10
25726722 AATTTTATAG
25726732 TAAATAATAA
1 TAAATAATAA
*
25726742 AAAATTAAATAA
1 TAAA-T-AATAA
* *
25726754 CAAATCAATGA
1 TAAAT-AATAA
25726765 TAACATAATAA
1 TAA-ATAATAA
25726776 TAAATATATAA
1 TAAATA-ATAA
* *
25726787 AAAATAATAG
1 TAAATAATAA
25726797 TAAAT
1 TAAAT
25726802 TGTTGATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
10 13 0.28
11 24 0.51
12 10 0.21
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAATAATAA
Found at i:25726882 original size:22 final size:22
Alignment explanation
Indices: 25726826--25726886 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
25726816 TAACATATTG
**
25726826 ATAACTTAGCAATAAATCACTA
1 ATAACTTAGTTATAAATCACTA
* *
25726848 ATAA-TGTAATTATAAATTACTA
1 ATAACT-TAGTTATAAATCACTA
25726870 ATAACTTAGTTATAAAT
1 ATAACTTAGTTATAAAT
25726887 AAATGATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTTATAAATCACTA
Found at i:25726918 original size:30 final size:29
Alignment explanation
Indices: 25726879--25726949 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
25726869 AATAACTTAG
* *
25726879 TTATAAATAAATGATTATTTAATAGTAAA
1 TTATCAATAAATGATAATTTAATAGTAAA
* * **
25726908 TTAGTTAATAATTGATAATTTTTTAGTAAA
1 TTA-TCAATAAATGATAATTTAATAGTAAA
25726938 TTATCAATAAAT
1 TTATCAATAAAT
25726950 TAGTAGTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (29 bp):
TTATCAATAAATGATAATTTAATAGTAAA
Found at i:25726947 original size:22 final size:22
Alignment explanation
Indices: 25726922--25726991 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
25726912 TTAATAATTG
*
25726922 ATAATTTTTTAGTAAATTATCA
1 ATAATTTTATAGTAAATTATCA
* * *
25726944 ATAA-ATTAGTAGTAAATCAAT-T
1 ATAATTTTA-TAGTAAAT-TATCA
**
25726966 ATAATTTTATAACAAATTATCA
1 ATAATTTTATAGTAAATTATCA
25726988 ATAA
1 ATAA
25726992 CTTAGTGATA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 4 0.11
22 26 0.74
23 5 0.14
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (22 bp):
ATAATTTTATAGTAAATTATCA
Found at i:25726983 original size:44 final size:45
Alignment explanation
Indices: 25726909--25727006 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
25726899 AATAGTAAAT
* * **
25726909 TAGTTAAT-AATTGATAATTTTTTAGTAAATTATCAATAAATTAG
1 TAGTAAATCAATTGATAATTTTATAACAAATTATCAATAAATTAG
*
25726953 TAGTAAATCAATT-ATAATTTTATAACAAATTATCAATAACTTAG
1 TAGTAAATCAATTGATAATTTTATAACAAATTATCAATAAATTAG
25726997 T-GATAAATCA
1 TAG-TAAATCA
25727007 CCAACAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 42 0.89
45 4 0.09
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (45 bp):
TAGTAAATCAATTGATAATTTTATAACAAATTATCAATAAATTAG
Found at i:25727046 original size:22 final size:22
Alignment explanation
Indices: 25727012--25727106 Score: 86
Period size: 22 Copynumber: 4.3 Consensus size: 22
25727002 AATCACCAAC
* *
25727012 AATTAAATA-TAAATAATTCATA
1 AATT-AATAGTAAATTATTGATA
25727034 AATTAGA-AGTAAATTATTGATA
1 AATTA-ATAGTAAATTATTGATA
*
25727056 ATTTAATAGTAAATTATTGATA
1 AATTAATAGTAAATTATTGATA
* * * *
25727078 ATTTAATAATAAATAACTGATA
1 AATTAATAGTAAATTATTGATA
*
25727100 ACTTAAT
1 AATTAAT
25727107 TGTCATTTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
21 3 0.05
22 60 0.95
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (22 bp):
AATTAATAGTAAATTATTGATA
Found at i:25727604 original size:24 final size:23
Alignment explanation
Indices: 25727577--25727631 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
25727567 TTTCATTATC
* *
25727577 AAATTTAATTTATTCTTATTTCTA
1 AAATTT-ATTTATTATCATTTCTA
*
25727601 AAATTTATTTTTTATCATTTCTA
1 AAATTTATTTATTATCATTTCTA
*
25727624 AAACTTAT
1 AAATTTAT
25727632 CATTCCTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATTTATTTATTATCATTTCTA
Found at i:25728379 original size:48 final size:49
Alignment explanation
Indices: 25728304--25728396 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 49
25728294 TAATATGCCC
* *
25728304 CAAGTGGGCCCATGCAACAAAGATATCATTCATAAATGGCTTTGTGCAT
1 CAAGTGGGCCCATGAAACAAAGATATCATCCATAAATGGCTTTGTGCAT
*
25728353 CAAGT-GGCCCATGAAACAAA-ACTATCATCCATAATTGGCTTTGT
1 CAAGTGGGCCCATGAAACAAAGA-TATCATCCATAAATGGCTTTGT
25728397 TCTACCTGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 1 0.03
48 34 0.85
49 5 0.12
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (49 bp):
CAAGTGGGCCCATGAAACAAAGATATCATCCATAAATGGCTTTGTGCAT
Found at i:25729453 original size:11 final size:11
Alignment explanation
Indices: 25729439--25729500 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
25729429 AATGTTTATA
*
25729439 AATAATTTAAT
1 AATAAATTAAT
*
25729450 AATAAATCAAT
1 AATAAATTAAT
*
25729461 AATAACTTAAT
1 AATAAATTAAT
* *
25729472 AGTAAATTAGT
1 AATAAATTAAT
*
25729483 AATAATTTAAT
1 AATAAATTAAT
*
25729494 AGTAAAT
1 AATAAAT
25729501 CAATTTCAGT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:25729470 original size:22 final size:22
Alignment explanation
Indices: 25729439--25729504 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
25729429 AATGTTTATA
*
25729439 AATAATTTAATAATAAATCAAT
1 AATAATTTAATAGTAAATCAAT
* * *
25729461 AATAACTTAATAGTAAATTAGT
1 AATAATTTAATAGTAAATCAAT
25729483 AATAATTTAATAGTAAATCAAT
1 AATAATTTAATAGTAAATCAAT
25729505 TTCAGTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
AATAATTTAATAGTAAATCAAT
Found at i:25729675 original size:15 final size:15
Alignment explanation
Indices: 25729616--25729676 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
25729606 TAAATCAATC
* *
25729616 TAATTTAATAGTACA
1 TAATTTAATAATAAA
* *
25729631 TAA-TTAATCATTAA
1 TAATTTAATAATAAA
* *
25729645 TAACTTAATAGTTAAA
1 TAATTTAATA-ATAAA
25729661 TAATTTAATAATAAA
1 TAATTTAATAATAAA
25729676 T
1 T
25729677 CATGAAAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
14 10 0.29
15 13 0.37
16 12 0.34
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATTTAATAATAAA
Found at i:25729708 original size:22 final size:22
Alignment explanation
Indices: 25729660--25729709 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
25729650 TAATAGTTAA
*
25729660 ATAA-TTTAATAATAAATCATG
1 ATAATTTTAATAATAAATAATG
*
25729681 AAAATTTTAAT-ATAAATAAGTG
1 ATAATTTTAATAATAAATAA-TG
25729703 ATAATTT
1 ATAATTT
25729710 GATATTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAATTTTAATAATAAATAATG
Found at i:25729848 original size:22 final size:22
Alignment explanation
Indices: 25729820--25729879 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
25729810 TTGATAACTT
25729820 ATATAATAGTAAATTACTAATA
1 ATATAATAGTAAATTACTAATA
* ** *
25729842 ATATAATTGTAAATTGGTGATA
1 ATATAATAGTAAATTACTAATA
* *
25729864 ATTTAATAGTATATTA
1 ATATAATAGTAAATTA
25729880 ATTAATTATT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.42
Consensus pattern (22 bp):
ATATAATAGTAAATTACTAATA
Found at i:25730556 original size:21 final size:20
Alignment explanation
Indices: 25730506--25730562 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
25730496 CTCATATCAT
* *
25730506 AAGTTATCAAACTAATATCG
1 AAGTTATCAAAATAATATAG
* *
25730526 AAGATAATCAAAATTATATAAG
1 AAG-TTATCAAAATAATAT-AG
25730548 AAGTTATCAAAATAA
1 AAGTTATCAAAATAA
25730563 AAATTATATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (20 bp):
AAGTTATCAAAATAATATAG
Found at i:25734662 original size:17 final size:18
Alignment explanation
Indices: 25734636--25734684 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
25734626 AATTTGTTCA
*
25734636 GAAA-AAATATGAAATAC
1 GAAATAAATATAAAATAC
25734653 -AAATAAATATAAAATAC
1 GAAATAAATATAAAATAC
25734670 GAAATACAATA-AAAA
1 GAAATA-AATATAAAA
25734685 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 9 0.32
19 4 0.14
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (18 bp):
GAAATAAATATAAAATAC
Found at i:25734727 original size:19 final size:18
Alignment explanation
Indices: 25734682--25734736 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
25734672 AATACAATAA
* * *
25734682 AAAAATAAAAAATAATAC
1 AAAAACAAAAAAAAAAAC
25734700 AAAATACAAAAAAAAAAAC
1 AAAA-ACAAAAAAAAAAAC
25734719 ACAAAACAAAACAAAAAA
1 A-AAAACAAAA-AAAAAA
25734737 TTGAGGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 4 0.13
19 18 0.58
20 9 0.29
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAAACAAAAAAAAAAAC
Found at i:25735138 original size:20 final size:20
Alignment explanation
Indices: 25735089--25735142 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
25735079 TCTTGCACGA
*
25735089 AGAAGAAAAAAAAAGAGGTC
1 AGAATAAAAAAAAAGAGGTC
**
25735109 AGTTTAAAAAAAAAG-GGTC
1 AGAATAAAAAAAAAGAGGTC
25735128 AGAATACAAAAAAAA
1 AGAATA-AAAAAAAA
25735143 TAGTTTCACC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.65, C:0.06, G:0.19, T:0.11
Consensus pattern (20 bp):
AGAATAAAAAAAAAGAGGTC
Found at i:25759319 original size:17 final size:18
Alignment explanation
Indices: 25759284--25759321 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25759274 CTATCTTGAT
*
25759284 AAAAAAGAAAGTGAGAAG
1 AAAAAAGAAAGGGAGAAG
*
25759302 AAAAAATAAAGGGA-AAG
1 AAAAAAGAAAGGGAGAAG
25759319 AAA
1 AAA
25759322 GTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (18 bp):
AAAAAAGAAAGGGAGAAG
Found at i:25764221 original size:115 final size:115
Alignment explanation
Indices: 25764033--25764258 Score: 416
Period size: 115 Copynumber: 2.0 Consensus size: 115
25764023 TAACCAAATC
*
25764033 TAAATTTTTTAGCTGAATGCAATTTCTTATTCTGCTTTTGTAATTCCCTGTTTATTGGAATAAGA
1 TAAATTTTTTAGCTGAAAGCAATTTCTTATTCTGCTTTTGTAATTCCCTGTTTATTGGAATAAGA
25764098 TATAATTAGCCCTTCAAAGAAAAAGTTTTAAAGCAAAATTTTATCAATGA
66 TATAATTAGCCCTTCAAAGAAAAAGTTTTAAAGCAAAATTTTATCAATGA
*
25764148 TAAATTTTTTAGCTGAAAGCTATTTCTTATTCTGCTTTTGTAATTCCCTGTTTATTGGAATAAGA
1 TAAATTTTTTAGCTGAAAGCAATTTCTTATTCTGCTTTTGTAATTCCCTGTTTATTGGAATAAGA
* *
25764213 TATAATTAGCCTTTCAAAGAAAAAGTTTTCAAGCAAAATTTTATCA
66 TATAATTAGCCCTTCAAAGAAAAAGTTTTAAAGCAAAATTTTATCA
25764259 GTAATACCAG
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 107 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (115 bp):
TAAATTTTTTAGCTGAAAGCAATTTCTTATTCTGCTTTTGTAATTCCCTGTTTATTGGAATAAGA
TATAATTAGCCCTTCAAAGAAAAAGTTTTAAAGCAAAATTTTATCAATGA
Found at i:25766531 original size:34 final size:35
Alignment explanation
Indices: 25766493--25766558 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
25766483 TTCGAAATCT
25766493 TACTTAAAAAAAAAATAAA-AAGAATTACCAGAAA
1 TACTTAAAAAAAAAATAAATAAGAATTACCAGAAA
* * *
25766527 TACTTTAAAGATAAATAAATAAGAATTACCAG
1 TACTTAAAAAAAAAATAAATAAGAATTACCAG
25766559 GAATTGTAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.23
Consensus pattern (35 bp):
TACTTAAAAAAAAAATAAATAAGAATTACCAGAAA
Found at i:25768580 original size:25 final size:25
Alignment explanation
Indices: 25768552--25768603 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
25768542 GCTATCTTAA
25768552 GAATAATTTTTTTTAATACCTTAGG
1 GAATAATTTTTTTTAATACCTTAGG
** *
25768577 GAATTTTTTTTTTTGATACCTTAGG
1 GAATAATTTTTTTTAATACCTTAGG
25768602 GA
1 GA
25768604 TAGTTAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (25 bp):
GAATAATTTTTTTTAATACCTTAGG
Found at i:25770969 original size:18 final size:18
Alignment explanation
Indices: 25770935--25770979 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
25770925 AATTCAAATC
25770935 AATATTT-ATATATTTTG
1 AATATTTAATATATTTTG
25770952 AATATTTAATATGA-TTTG
1 AATATTTAATAT-ATTTTG
*
25770970 ATTATTTAAT
1 AATATTTAAT
25770980 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 17 0.68
19 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (18 bp):
AATATTTAATATATTTTG
Found at i:25772177 original size:18 final size:16
Alignment explanation
Indices: 25772154--25772196 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
25772144 AAAAATAATG
25772154 AAATACAAGATTCAACA
1 AAATACAA-ATTCAACA
*
25772171 CAAATACACAATTCAATA
1 -AAATACA-AATTCAACA
25772189 AAATACAA
1 AAATACAA
25772197 TTTAATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 14 0.61
19 1 0.04
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (16 bp):
AAATACAAATTCAACA
Found at i:25773183 original size:21 final size:20
Alignment explanation
Indices: 25773159--25773197 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25773149 ATTCTAAACT
*
25773159 AAATACAATACAAAAAATATA
1 AAATAAAATA-AAAAAATATA
*
25773180 AAATAAAATAATAAAATA
1 AAATAAAATAAAAAAATA
25773198 ACATTCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAATAAAAAAATATA
Found at i:25773583 original size:22 final size:22
Alignment explanation
Indices: 25773539--25773613 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
25773529 ATCATGCCCT
* * *
25773539 AAGGTCTTAAAAAATCATACCTG
1 AAGGTCTT-GAAAATTATGCCTG
*
25773562 AAAGTCTTGAAAATTATGCCTG
1 AAGGTCTTGAAAATTATGCCTG
* * * *
25773584 GAGGTATTGAAGATTATGCCCG
1 AAGGTCTTGAAAATTATGCCTG
25773606 AAGGTCTT
1 AAGGTCTT
25773614 ACAAAAAAGT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
22 34 0.83
23 7 0.17
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (22 bp):
AAGGTCTTGAAAATTATGCCTG
Found at i:25773908 original size:22 final size:22
Alignment explanation
Indices: 25773878--25773933 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
25773868 TGCTCGAAGG
* *
25773878 CTTAGAAATCATGT-TCAGAGAT
1 CTTACAAATCATGTCT-AAAGAT
*
25773900 CTTACAAATTATGTCTAAAGAT
1 CTTACAAATCATGTCTAAAGAT
*
25773922 CTTATAAATCAT
1 CTTACAAATCAT
25773934 ACTCGAAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (22 bp):
CTTACAAATCATGTCTAAAGAT
Found at i:25773946 original size:22 final size:22
Alignment explanation
Indices: 25773921--25774012 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 22
25773911 TGTCTAAAGA
*
25773921 TCTTATAAATCATACTCGAAGG
1 TCTTACAAATCATACTCGAAGG
** * * * *
25773943 TCTTGGAGATTACACTTGAAGG
1 TCTTACAAATCATACTCGAAGG
* *
25773965 TCTTACAAATCATGA-TTGGAGG
1 TCTTACAAATCAT-ACTCGAAGG
*
25773987 TTTTACAAATCATAC-CGACAGG
1 TCTTACAAATCATACTCGA-AGG
25774009 TCTT
1 TCTT
25774013 GAAGATTACG
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
21 2 0.04
22 48 0.94
23 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (22 bp):
TCTTACAAATCATACTCGAAGG
Found at i:25774240 original size:18 final size:18
Alignment explanation
Indices: 25774217--25774277 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
25774207 ACTTTTGTCA
25774217 TGAAAATTTTTTCTCAAT
1 TGAAAATTTTTTCTCAAT
***
25774235 TGAAAATTGAAATCTCATACT
1 TGAAAATT-TTTTCTCA-A-T
*
25774256 CGAAAATTTTTTCTCAAT
1 TGAAAATTTTTTCTCAAT
25774274 TGAA
1 TGAA
25774278 GGTCAAAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 12 0.38
19 6 0.19
20 6 0.19
21 8 0.25
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (18 bp):
TGAAAATTTTTTCTCAAT
Found at i:25774292 original size:39 final size:39
Alignment explanation
Indices: 25774218--25774292 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
25774208 CTTTTGTCAT
** *
25774218 GAAAATTTTTTCTCAATTGAAAATTGAAATCTCATACTC
1 GAAAATTTTTTCTCAATTGAAAATCAAAATATCATACTC
**
25774257 GAAAATTTTTTCTCAATTGAAGGTCAAAATATCATA
1 GAAAATTTTTTCTCAATTGAAAATCAAAATATCATA
25774293 TTTTCAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37
Consensus pattern (39 bp):
GAAAATTTTTTCTCAATTGAAAATCAAAATATCATACTC
Found at i:25778439 original size:3 final size:3
Alignment explanation
Indices: 25778433--25778538 Score: 78
Period size: 3 Copynumber: 34.7 Consensus size: 3
25778423 CAAAAAAATG
* * *
25778433 ATA ATA ATA ATA ATA A-A A-A ATA ATG ATT CTA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
25778477 ATA ATA AAA ATAA ATA ATAA ATGA A-A A-A ATA ATA ATA ATA ATAA ATAA
1 ATA ATA ATA AT-A ATA AT-A AT-A ATA ATA ATA ATA ATA ATA AT-A AT-A
25778525 ATAA ATA A-A ATA AT
1 AT-A ATA ATA ATA AT
25778539 GTAGGCCCAT
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
2 10 0.11
3 56 0.64
4 22 0.25
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:25778478 original size:41 final size:39
Alignment explanation
Indices: 25778433--25778539 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 39
25778423 CAAAAAAATG
***
25778433 ATAATAATAATAATAAAAAATAATGATTCTAATAATAATAA
1 ATAATAATAATAATAAAAAATAATGA-AAAAATAATAAT-A
* *
25778474 ATAATAATAAAAATAAATAATAAATGAAAAAATAATAATA
1 ATAATAATAATAATAAAAAAT-AATGAAAAAATAATAATA
*
25778514 ATAATAAATAAATAA-ATAAAATAATG
1 ATAAT-AAT-AATAATAAAAAATAATG
25778540 TAGGCCCATC
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
40 10 0.18
41 36 0.65
42 9 0.16
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (39 bp):
ATAATAATAATAATAAAAAATAATGAAAAAATAATAATA
Found at i:25778510 original size:31 final size:31
Alignment explanation
Indices: 25778466--25778534 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
25778456 TGATTCTAAT
*
25778466 AATAATAAATAATAATAAAAATAAAT-AATA
1 AATAAAAAATAATAATAAAAATAAATAAATA
*
25778496 AATGAAAAAATAATAATAATAATAAATAAATA
1 AAT-AAAAAATAATAATAAAAATAAATAAATA
25778528 AATAAAA
1 AATAAAA
25778535 TAATGTAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 3 0.09
31 25 0.71
32 7 0.20
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (31 bp):
AATAAAAAATAATAATAAAAATAAATAAATA
Found at i:25781533 original size:12 final size:12
Alignment explanation
Indices: 25781503--25781527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25781493 TTCTTATTAT
25781503 TTGTTAATTTAA
1 TTGTTAATTTAA
25781515 TTGTTAATTTAA
1 TTGTTAATTTAA
25781527 T
1 T
25781528 ATTTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTGTTAATTTAA
Found at i:25782731 original size:3 final size:3
Alignment explanation
Indices: 25782723--25782751 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25782713 TAGAATGTCT
25782723 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25782752 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25782756 original size:3 final size:3
Alignment explanation
Indices: 25782750--25782780 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25782740 AATAATAATA
25782750 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
25782781 AAAAATCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:25783222 original size:20 final size:20
Alignment explanation
Indices: 25783183--25783222 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25783173 AATTGATGTT
*
25783183 GCTTGGTAACTTTCTATTTG
1 GCTTGGTAACTTACTATTTG
* *
25783203 GCTTGGTAGCTTACTTTTTG
1 GCTTGGTAACTTACTATTTG
25783223 ATAGCTTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (20 bp):
GCTTGGTAACTTACTATTTG
Found at i:25789295 original size:2 final size:2
Alignment explanation
Indices: 25789288--25789312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25789278 GAAGTAGTGA
25789288 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 A
25789313 AACAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25789680 original size:29 final size:29
Alignment explanation
Indices: 25789624--25789681 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25789614 ATTAAATCGA
* *
25789624 AATAAAAAATTAAAAACTTGATTAATTAT
1 AATAAAAAATTAAAAACTTAAATAATTAT
* *
25789653 AATAAAATATTAAAAACTTAAATGATTAT
1 AATAAAAAATTAAAAACTTAAATAATTAT
25789682 TAAATTATAA
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:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
AATAAAAAATTAAAAACTTAAATAATTAT
Found at i:25790784 original size:22 final size:22
Alignment explanation
Indices: 25790759--25790800 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
25790749 TGAAAAGATT
*
25790759 ATTTATTAAATTTTAATTTTAA
1 ATTTATTAAATGTTAATTTTAA
25790781 ATTTATTAAATGTTAATTTT
1 ATTTATTAAATGTTAATTTT
25790801 TAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTATTAAATGTTAATTTTAA
Found at i:25795469 original size:49 final size:49
Alignment explanation
Indices: 25795397--25795496 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
25795387 TTTTTACCCA
25795397 TTTATTCATTTTATGTATCAAGATGGAGGGAAGAAATTGAAATAAAAGT
1 TTTATTCATTTTATGTATCAAGATGGAGGGAAGAAATTGAAATAAAAGT
*
25795446 TTTATTCATTTTATGTATCAAGATGGAGTGAAGAAATTGAAATAAAAGT
1 TTTATTCATTTTATGTATCAAGATGGAGGGAAGAAATTGAAATAAAAGT
25795495 TT
1 TT
25795497 CTTCTTGCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (49 bp):
TTTATTCATTTTATGTATCAAGATGGAGGGAAGAAATTGAAATAAAAGT
Found at i:25802061 original size:22 final size:22
Alignment explanation
Indices: 25802034--25802077 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25802024 TTTCTAATTG
25802034 TACAAAATACAAGCCTAAATCA
1 TACAAAATACAAGCCTAAATCA
25802056 TACAAAATACAAGCCTAAATCA
1 TACAAAATACAAGCCTAAATCA
25802078 GGGACGGCAA
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:0.55, C:0.23, G:0.05, T:0.18
Consensus pattern (22 bp):
TACAAAATACAAGCCTAAATCA
Found at i:25802309 original size:16 final size:16
Alignment explanation
Indices: 25802290--25802338 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
25802280 AATTAATTAA
25802290 TTATATATATTTATAT
1 TTATATATATTTATAT
*
25802306 TTATATA-A-TGATAT
1 TTATATATATTTATAT
* *
25802320 TTTTAAATATTTATAT
1 TTATATATATTTATAT
25802336 TTA
1 TTA
25802339 AAAAATAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 10 0.38
15 2 0.08
16 14 0.54
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATATATATTTATAT
Found at i:25802330 original size:30 final size:30
Alignment explanation
Indices: 25802296--25802352 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
25802286 TTAATTATAT
* * *
25802296 ATATTTATATTTATATAATGATATTTTTAA
1 ATATTTATATTTAAAAAATAATATTTTTAA
25802326 ATATTTATATTTAAAAAATAATATTTT
1 ATATTTATATTTAAAAAATAATATTTT
25802353 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
ATATTTATATTTAAAAAATAATATTTTTAA
Found at i:25802355 original size:21 final size:21
Alignment explanation
Indices: 25802325--25802375 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
25802315 GATATTTTTA
25802325 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
25802345 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
25802366 AATATTTTAT
1 AATATTTTAT
25802376 TAATTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:25802396 original size:10 final size:10
Alignment explanation
Indices: 25802381--25802406 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25802371 TTTATTAATT
25802381 TCGGATCGAA
1 TCGGATCGAA
25802391 TCGGATCGAA
1 TCGGATCGAA
25802401 TCGGAT
1 TCGGAT
25802407 ACGGTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (10 bp):
TCGGATCGAA
Found at i:25806250 original size:2 final size:2
Alignment explanation
Indices: 25806243--25806275 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25806233 TTTTGCGTGA
25806243 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25806276 AAGTAAGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25812799 original size:13 final size:13
Alignment explanation
Indices: 25812772--25812806 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
25812762 TTATTAATTT
25812772 AAAATTATTTATA
1 AAAATTATTTATA
25812785 AAAATATATTT-TA
1 AAAAT-TATTTATA
25812798 AAAATTATT
1 AAAATTATT
25812807 AAAGTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 12 0.57
14 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTATTTATA
Found at i:25813555 original size:253 final size:252
Alignment explanation
Indices: 25813104--25813578 Score: 724
Period size: 251 Copynumber: 1.9 Consensus size: 252
25813094 ATTTCTCGTA
* * * *
25813104 TACATCACCTCATCTCAATTTAAAACTAATTTTAAAGTAATTTATTTTTTTAATTTATTTTCAGT
1 TACATCACCTCATCTCAATTTAAAACTAATTTTAAAATAATTTATTTTTCTAATTTATCTGCAGT
*
25813169 TAATAGGAATATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTCTTT
66 TAACAGGAATATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTCTTT
* *
25813234 TATAAATAATCATTACATTATATTCAGTTTTTAAATATATTTCATAAAGAAAATGTGAAAAAATA
131 TATAAATAATCATTACATTATATTCAGCTTTTAAATATATTTCACAAAGAAAATGTGAAAAAATA
* *
25813299 TATATAAATACCAAAATAACTTTAGGAAAGTCTTTCATGTACATCAAGTTTTTATTG
196 TATATAAATACCAAAACAACTTCAGGAAAGTCTTTCATGTACATCAAGTTTTTATTG
* * *
25813356 TACATCATCTTATCTCAATTTAAAATTAATTTTAAAATAATTTATCTTTTCTAATTTATCTGCAG
1 TACATCACCTCATCTCAATTTAAAACTAATTTTAAAATAATTTAT-TTTTCTAATTTATCTGCAG
* * *
25813421 TTAACA-TAAGTATTTAAGTTTATCATAATTTTTAAAAATATTATTTAATATCTTTAATA-TT-T
65 TTAACAGGAA-TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTCT
* * *
25813483 TTTATAAATAATCTTTACATTATCTTCGGCTTTTAAATATATTTCACAAATG-AAATGTGAAAAA
129 TTTATAAATAATCATTACATTATATTCAGCTTTTAAATATATTTCACAAA-GAAAATGTGAAAAA
*
25813547 ATATATATAAATATCAAAACAACTTCAGGAAA
193 ATATATATAAATACCAAAACAACTTCAGGAAA
25813579 ACCCTCATTG
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
251 87 0.43
252 46 0.23
253 68 0.34
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (252 bp):
TACATCACCTCATCTCAATTTAAAACTAATTTTAAAATAATTTATTTTTCTAATTTATCTGCAGT
TAACAGGAATATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTCTTT
TATAAATAATCATTACATTATATTCAGCTTTTAAATATATTTCACAAAGAAAATGTGAAAAAATA
TATATAAATACCAAAACAACTTCAGGAAAGTCTTTCATGTACATCAAGTTTTTATTG
Found at i:25829696 original size:26 final size:25
Alignment explanation
Indices: 25829652--25829713 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
25829642 TAGATATAAA
25829652 AATTTTAT-TTTTAATTATTTATTT
1 AATTTTATATTTTAATTATTTATTT
25829676 AATTTTATATATTT-ATATATTTATTT
1 AATTTTATAT-TTTAAT-TATTTATTT
25829702 AATTTTATATTT
1 AATTTTATATTT
25829714 GTATTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.23
25 5 0.14
26 22 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
AATTTTATATTTTAATTATTTATTT
Found at i:25849055 original size:6 final size:6
Alignment explanation
Indices: 25849024--25849097 Score: 77
Period size: 6 Copynumber: 13.0 Consensus size: 6
25849014 GGTAAATCCA
* *
25849024 TTTT-T TTTTA- TTGTAT TTTATAT TTTTA- TTTTA- TTTTAT TTCTAT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT
*
25849069 TTTTAT TTTTA- TTTTAT TTTTAT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
25849098 ATATATTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
5 23 0.39
6 30 0.51
7 6 0.10
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:25849055 original size:23 final size:22
Alignment explanation
Indices: 25849023--25849107 Score: 100
Period size: 23 Copynumber: 3.8 Consensus size: 22
25849013 GGGTAAATCC
*
25849023 ATTTTT-TTTTATTGTATTTTAT
1 ATTTTTATTTTATTTTATTTT-T
*
25849045 ATTTTTATTTTATTTTATTTCT
1 ATTTTTATTTTATTTTATTTTT
25849067 ATTTTTATTTTTATTTTATTTTT
1 ATTTTTA-TTTTATTTTATTTTT
* *
25849090 ATTATTATATATATTTTA
1 ATTTTTAT-TTTATTTTA
25849108 GGTATTTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.27
23 40 0.73
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (22 bp):
ATTTTTATTTTATTTTATTTTT
Found at i:25849063 original size:28 final size:28
Alignment explanation
Indices: 25849023--25849088 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
25849013 GGGTAAATCC
* *
25849023 ATTTTTTTTTA-TTGTATTTTATATTTTT
1 ATTTTATTTTATTTCTATTTT-TATTTTT
25849051 ATTTTATTTTATTTCTATTTTTATTTTT
1 ATTTTATTTTATTTCTATTTTTATTTTT
25849079 ATTTTATTTT
1 ATTTTATTTT
25849089 TATTATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 27 0.77
29 8 0.23
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (28 bp):
ATTTTATTTTATTTCTATTTTTATTTTT
Found at i:25849074 original size:17 final size:16
Alignment explanation
Indices: 25849023--25849107 Score: 75
Period size: 17 Copynumber: 5.1 Consensus size: 16
25849013 GGGTAAATCC
*
25849023 ATTTTT-TTTTATTGT
1 ATTTTTATTTTATTTT
25849038 ATTTTATATTTTTATTTT
1 ATTTT-TA-TTTTATTTT
25849056 A-TTTTATTTCTATTTTT
1 ATTTTTATTT-TA-TTTT
25849073 ATTTTTATTTTATTTTT
1 ATTTTTATTTTA-TTTT
* *
25849090 ATTATTATATATATTTT
1 ATTTTTAT-TTTATTTT
25849107 A
1 A
25849108 GGTATTTATG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
15 8 0.13
16 5 0.08
17 27 0.45
18 20 0.33
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:25849106 original size:28 final size:29
Alignment explanation
Indices: 25849023--25849153 Score: 83
Period size: 28 Copynumber: 4.4 Consensus size: 29
25849013 GGGTAAATCC
* *
25849023 ATTTT-TTTTTATTGTAT-TTTATATTTTT
1 ATTTTATTTTTATTATATATATATA-TTTT
* * *
25849051 ATTTTA-TTTTATT-TCTATTTTTATTTTT
1 ATTTTATTTTTATTATATATATATA-TTTT
25849079 ATTTTATTTTTATTAT-TATATATATTTT
1 ATTTTATTTTTATTATATATATATATTTT
*
25849107 AGGTATTTATGTATTTATTAATATATAGATATCTTT
1 A--T-TTTAT-T-TTTATT-ATATATATATAT-TTT
*
25849143 ATTTTTTTTTT
1 ATTTTATTTTT
25849154 TTCTTTTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
27 2 0.02
28 33 0.39
29 13 0.15
30 2 0.02
31 8 0.09
32 2 0.02
33 10 0.12
34 3 0.04
35 8 0.09
36 4 0.05
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (29 bp):
ATTTTATTTTTATTATATATATATATTTT
Found at i:25849281 original size:10 final size:9
Alignment explanation
Indices: 25849253--25849287 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
25849243 ATTTATTTTC
25849253 TTTTG-ATT
1 TTTTGTATT
25849261 TTTTGTATT
1 TTTTGTATT
25849270 TTTTGTATT
1 TTTTGTATT
25849279 TTTT-TATT
1 TTTTGTATT
25849287 T
1 T
25849288 CTTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 10 0.38
9 16 0.62
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (9 bp):
TTTTGTATT
Found at i:25850045 original size:4 final size:4
Alignment explanation
Indices: 25850038--25850092 Score: 64
Period size: 4 Copynumber: 14.5 Consensus size: 4
25850028 CCAGGTTTTT
*
25850038 TTTA TTTA TTTTA TTTA -TTA TTT- GTT- TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
25850084 -TTA TTTA TT
1 TTTA TTTA TT
25850093 AGATTAGGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
3 10 0.22
4 31 0.69
5 4 0.09
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:25850060 original size:7 final size:7
Alignment explanation
Indices: 25850048--25850093 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
25850038 TTTATTTATT
25850048 TTATTTA
1 TTATTTA
*
25850055 TTATTTG
1 TTATTTA
25850062 TT-TTTA
1 TTATTTA
25850068 TTTATTTA
1 -TTATTTA
25850076 TTTATTTA
1 -TTATTTA
25850084 TTATTTA
1 TTATTTA
25850091 TTA
1 TTA
25850094 GATTAGGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 3 0.09
7 20 0.57
8 12 0.34
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:25850068 original size:22 final size:24
Alignment explanation
Indices: 25850037--25850089 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
25850027 TCCAGGTTTT
*
25850037 TTTTATTTATTTTATTTATTATTTGT
1 TTTTATTTA-TTTATTTATTATTT-A
25850063 TTTTATTTATTTATTTATT-TATTA
1 TTTTATTTATTTATTTATTAT-TTA
25850087 TTT
1 TTT
25850090 ATTAGATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 12 0.48
26 9 0.36
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTATTTATTTATTTATTATTTA
Found at i:25850079 original size:29 final size:29
Alignment explanation
Indices: 25850032--25850089 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
25850022 GCCGCTCCAG
25850032 GTTTTTTTTATTTATTTTATTTATTATTT
1 GTTTTTTTTATTTATTTTATTTATTATTT
25850061 GTTTTTATTTATTTA-TTTATTTATTATTT
1 GTTTTT-TTTATTTATTTTATTTATTATTT
25850090 ATTAGATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (29 bp):
GTTTTTTTTATTTATTTTATTTATTATTT
Found at i:25850390 original size:59 final size:57
Alignment explanation
Indices: 25850191--25850761 Score: 619
Period size: 59 Copynumber: 9.7 Consensus size: 57
25850181 ATAAAAATAA
*
25850191 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
**
25850249 -AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTTAAAATTTTTC
1 AAAAAAAT-TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAA-TTTTC
* * *
25850309 AAAAAAATATTTTTG-GGAAAAAGTTGGAAGTATAAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAT-TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
25850367 AAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAAA--TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
* *
25850428 AAAAAATATTTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTCAAAATTTTTC
1 AAAAAA-ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAA-TTTTC
* * * * * * ** *
25850488 AAAAATATATTTTTGGGGTAAAGTTGGAAGTGTTAATTTTTTTTAAAAATAAATTTTT
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
25850546 AAAAAAAGGTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC
1 AAAAAAA--TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* *
25850606 CAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** * *
25850664 AAAAAATAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 -AAAAA-AATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
25850723 AAAAGAATATTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
25850762 TCCTACACAA
Statistics
Matches: 438, Mismatches: 54, Indels: 43
0.82 0.10 0.08
Matches are distributed among these distances:
56 3 0.01
57 70 0.16
58 38 0.09
59 197 0.45
60 54 0.12
61 75 0.17
62 1 0.00
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.37
Consensus pattern (57 bp):
AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Done.