Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 68 of 133
Found at i:13464124 original size:14 final size:14
Alignment explanation
Indices: 13464073--13464151 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
13464063 TTTCAAATTA
*
13464073 TATTATATAAAAAT
1 TATTATATAATAAT
13464087 TATTAT-TAATAATT
1 TATTATATAATAA-T
*
13464101 TCTTATAT-ATAAT
1 TATTATATAATAAT
13464114 CTATTATATATATTAAT
1 -TATTATATA-A-TAAT
* *
13464131 CATTATAATAATAAA
1 TATTAT-ATAATAAT
13464146 TATTAT
1 TATTAT
13464152 TTATATAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
13 6 0.12
14 23 0.44
15 9 0.17
16 7 0.13
17 7 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTATATAATAAT
Found at i:13464125 original size:16 final size:16
Alignment explanation
Indices: 13464104--13464160 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
13464094 AATAATTTCT
13464104 TATATATAATCTATTA
1 TATATATAATCTATTA
13464120 TATATATTAATC-ATTA
1 TATATA-TAATCTATTA
*
13464136 TA-ATAATAA-ATATTA
1 TATAT-ATAATCTATTA
*
13464151 TTTATATAAT
1 TATATATAAT
13464161 ATAATCAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 14 0.41
16 15 0.44
17 5 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATAATCTATTA
Found at i:13464476 original size:25 final size:25
Alignment explanation
Indices: 13464430--13464479 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13464420 TTTAGAATCA
*
13464430 TAATTAAGTATCATAATAAAATTAT
1 TAATTAAATATCATAATAAAATTAT
*
13464455 TAATTAAAATATCA-AATTAAATTAT
1 TAATT-AAATATCATAATAAAATTAT
13464480 ATTTGATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
TAATTAAATATCATAATAAAATTAT
Found at i:13464630 original size:13 final size:13
Alignment explanation
Indices: 13464612--13464645 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13464602 GAATTAAATT
* *
13464612 TATATATTTATTA
1 TATATAATTATAA
13464625 TATATAATTATAA
1 TATATAATTATAA
13464638 TATATAAT
1 TATATAAT
13464646 AAATATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATATAATTATAA
Found at i:13464640 original size:22 final size:21
Alignment explanation
Indices: 13464611--13464654 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
13464601 TGAATTAAAT
* * *
13464611 TTATATATTTATTATATATAA
1 TTATATATATAATAAATATAA
13464632 TTATAATATATAATAAATATAA
1 TTAT-ATATATAATAAATATAA
13464654 T
1 T
13464655 ATCAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATATATATAATAAATATAA
Found at i:13464652 original size:16 final size:15
Alignment explanation
Indices: 13464623--13464656 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13464613 ATATATTTAT
*
13464623 TATATATAATTATAA
1 TATATATAAATATAA
13464638 TATATAATAAATATAA
1 TATAT-ATAAATATAA
13464654 TAT
1 TAT
13464657 CAATTAATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATATATAAATATAA
Found at i:13464750 original size:14 final size:14
Alignment explanation
Indices: 13464733--13464780 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
13464723 AGATTTATAA
13464733 TAATTATTTAATAT
1 TAATTATTTAATAT
13464747 TAATTA-TTAATATT
1 TAATTATTTAATA-T
*
13464761 TAATCTATTTTATAAT
1 TAAT-TATTTAAT-AT
13464777 TAAT
1 TAAT
13464781 AAATATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 2 0.07
16 9 0.31
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTATTTAATAT
Found at i:13464813 original size:40 final size:40
Alignment explanation
Indices: 13464732--13464813 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
13464722 AAGATTTATA
* * *
13464732 ATAATTATTTAATATTAATTATTAATATTTAATCTATTTT
1 ATAATTAATAAATATTAATTATTAATATTTAATCTAATTT
*
13464772 ATAATTAATAAATA-TAATTATTACTAGTTTATAT-TAATTT
1 ATAATTAATAAATATTAATTATTAATA-TTTA-ATCTAATTT
13464812 AT
1 AT
13464814 TTTATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 11 0.31
40 23 0.64
41 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (40 bp):
ATAATTAATAAATATTAATTATTAATATTTAATCTAATTT
Found at i:13464854 original size:279 final size:277
Alignment explanation
Indices: 13464478--13465033 Score: 995
Period size: 279 Copynumber: 2.0 Consensus size: 277
13464468 AAATTAAATT
* *
13464478 ATATTTGATCTATTTTATAATTAATAAATATAATTATTACCAGTTCATATTAATTGTTTTATTTT
1 ATATTTAATCTATTTTATAATTAATAAATATAATTATTACCAGTTCATATTAATTATTTTATTTT
13464543 GAATAAGATTATTATAAGGAAATATTATTCAAAATAATATACTAATAATAGATCTATTTGAATTA
66 GAATAAGATTATTATAAGGAAATATTATTCAAAATAATATACTAATAATAGATCTATTTGAATTA
*
13464608 AATTTATATATTTATTATATATAATTATAATATATAATAAATATAATATCAATTAATAATTGTAT
131 AATTTATATATTTATTATATATAATTATAATATATAACAAATATAATATCAATTAATAATTGTAT
*
13464673 AGACTTAGTAATTAGTAAAATAATAATATAATATTAATTAAACTAATAAAAGATTTATAATAATT
196 AGACTTAGTAATTAGTAAAACAATAATATAATATTAATTAAACTAATAAAAGATTTATAA-AATT
13464738 ATTTAATATTAATTATTA
260 ATTTAATATTAATTATTA
* *
13464756 ATATTTAATCTATTTTATAATTAATAAATATAATTATTACTAGTTTATATTAATTTATTTTATTT
1 ATATTTAATCTATTTTATAATTAATAAATATAATTATTACCAGTTCATATTAA-TTATTTTATTT
13464821 TGAATAAGATTATTATAAGGAAATATTATTCAAAATAATATACTAATAATAGATCTATTTGAATT
65 TGAATAAGATTATTATAAGGAAATATTATTCAAAATAATATACTAATAATAGATCTATTTGAATT
*
13464886 AAATTTATATATTTATTATATATAATTATAATATATAACAAATATAATATTAATTAATAATTGTA
130 AAATTTATATATTTATTATATATAATTATAATATATAACAAATATAATATCAATTAATAATTGTA
* * *
13464951 TAGATTTAGTAATTAGTAAAACAATAATATAATATTAATTAAACTAATACAATATTTATAAAATT
195 TAGACTTAGTAATTAGTAAAACAATAATATAATATTAATTAAACTAATAAAAGATTTATAAAATT
*
13465016 ATTTAATCTTAATTATTA
260 ATTTAATATTAATTATTA
13465034 TTAATAATTT
Statistics
Matches: 266, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
278 71 0.27
279 195 0.73
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (277 bp):
ATATTTAATCTATTTTATAATTAATAAATATAATTATTACCAGTTCATATTAATTATTTTATTTT
GAATAAGATTATTATAAGGAAATATTATTCAAAATAATATACTAATAATAGATCTATTTGAATTA
AATTTATATATTTATTATATATAATTATAATATATAACAAATATAATATCAATTAATAATTGTAT
AGACTTAGTAATTAGTAAAACAATAATATAATATTAATTAAACTAATAAAAGATTTATAAAATTA
TTTAATATTAATTATTA
Found at i:13465090 original size:14 final size:14
Alignment explanation
Indices: 13465065--13465099 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
13465055 TTATTAAAAT
13465065 ATTATATTATATAAA
1 ATTAT-TTATATAAA
*
13465080 ATTATTTATATAAT
1 ATTATTTATATAAA
13465094 ATTATT
1 ATTATT
13465100 AAATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATTTATATAAA
Found at i:13465095 original size:24 final size:24
Alignment explanation
Indices: 13465063--13465108 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13465053 ATTTATTAAA
*
13465063 ATATTATATTATATAAA-ATTATTT
1 ATATAATATTAT-TAAATATTATTT
13465087 ATATAATATTATTAAATATTAT
1 ATATAATATTATTAAATATTAT
13465109 AAGTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATAATATTATTAAATATTATTT
Found at i:13465604 original size:13 final size:14
Alignment explanation
Indices: 13465586--13465617 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13465576 AATTCTTATG
13465586 ATTTAAA-TATATA
1 ATTTAAATTATATA
13465599 ATTTAAATTATATA
1 ATTTAAATTATATA
13465613 ATTTA
1 ATTTA
13465618 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATTATATA
Found at i:13465698 original size:16 final size:16
Alignment explanation
Indices: 13465677--13465723 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
13465667 ATTTAAACAA
13465677 TAATTTTAAATAATTT
1 TAATTTTAAATAATTT
*
13465693 TAATTTTAATTAATTT
1 TAATTTTAAATAATTT
13465709 TAATTATATAAATAA
1 TAATT-T-TAAATAA
13465724 ATTAGATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 20 0.74
17 1 0.04
18 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTTTAAATAATTT
Found at i:13465796 original size:25 final size:23
Alignment explanation
Indices: 13465768--13465814 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13465758 AGTATTAAGT
13465768 ATAACTAGTAAAAATATATTTAATA
1 ATAACTA-T-AAAATATATTTAATA
* *
13465793 ATAATTATTAAATATATTTAAT
1 ATAACTATAAAATATATTTAAT
13465815 TAAATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAACTATAAAATATATTTAATA
Found at i:13465809 original size:23 final size:21
Alignment explanation
Indices: 13465779--13465889 Score: 88
Period size: 23 Copynumber: 5.3 Consensus size: 21
13465769 TAACTAGTAA
13465779 AAATATATTTAATAATAATTATT
1 AAATATATTTAAT--TAATTATT
*
13465802 AAATATATTTAATTAAATATT
1 AAATATATTTAATTAATTATT
*
13465823 -TATAT-TTTAATTAATTAATT
1 AAATATATTTAATTAATT-ATT
* *
13465843 AAATATGATTTAAATATTTATT
1 AAATAT-ATTTAATTAATTATT
* * *
13465865 ATATTTA-TGAATTAA-T-TT
1 AAATATATTTAATTAATTATT
13465883 AAATATA
1 AAATATA
13465890 AATTAAACTA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
18 7 0.10
19 11 0.15
20 12 0.17
21 12 0.17
22 7 0.10
23 22 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AAATATATTTAATTAATTATT
Found at i:13465821 original size:14 final size:14
Alignment explanation
Indices: 13465779--13465855 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 14
13465769 TAACTAGTAA
13465779 AAATATATTTAA-T
1 AAATATATTTAATT
13465792 -AATA-A-TT-ATT
1 AAATATATTTAATT
13465802 AAATATATTTAATT
1 AAATATATTTAATT
*
13465816 AAATAT-TTATATTT
1 AAATATATT-TAATT
* *
13465830 TAAT-TAATTAATT
1 AAATATATTTAATT
13465843 AAATATGATTTAA
1 AAATAT-ATTTAA
13465856 ATATTTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
9 1 0.02
10 3 0.06
11 5 0.10
12 5 0.10
13 12 0.24
14 18 0.37
15 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
AAATATATTTAATT
Found at i:13465828 original size:27 final size:27
Alignment explanation
Indices: 13465779--13465848 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
13465769 TAACTAGTAA
13465779 AAATATATTTAA-T-AATA-ATTA-TT
1 AAATATATTTAATTAAATATATTATTT
*
13465802 AAATATATTTAATTAAATATTTATATTT
1 AAATATATTTAATTAAATATAT-TATTT
* *
13465830 TAAT-TAATTAATTAAATAT
1 AAATATATTTAATTAAATAT
13465849 GATTTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 12 0.31
24 1 0.03
25 4 0.10
26 1 0.03
27 16 0.41
28 5 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATATATTTAATTAAATATATTATTT
Found at i:13467758 original size:20 final size:20
Alignment explanation
Indices: 13467709--13467758 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
13467699 ATATTAATTA
*
13467709 TAATTATTATTTAGATAAAT
1 TAATTATAATTTAGATAAAT
*
13467729 TATATAATAATTTA-ATAATAT
1 TA-ATTATAATTTAGATAA-AT
13467750 TAATTATAA
1 TAATTATAA
13467759 CTAATATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATTATAATTTAGATAAAT
Found at i:13468243 original size:16 final size:16
Alignment explanation
Indices: 13468200--13468245 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
13468190 ATAAACATTA
13468200 ATTAAATATAAATTA-T
1 ATTAAAT-TAAATTATT
*
13468216 A-TAAATT-TATTATT
1 ATTAAATTAAATTATT
13468230 ATTAAATTAAATTATT
1 ATTAAATTAAATTATT
13468246 CTTATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.16
14 3 0.12
15 11 0.44
16 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAATTAAATTATT
Found at i:13468338 original size:18 final size:18
Alignment explanation
Indices: 13468309--13468351 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 18
13468299 CATATTATTG
13468309 TTAATATTATTATAAAATT
1 TTAAT-TTATTATAAAATT
13468328 TTAATTTATTATAAAATT
1 TTAATTTATTATAAAATT
13468346 TTAATT
1 TTAATT
13468352 ATAACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTTATTATAAAATT
Found at i:13468572 original size:18 final size:17
Alignment explanation
Indices: 13468517--13468572 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
13468507 TTAAAGATTG
*
13468517 TAGTATGAATAATTAACT
1 TAGTATAAATAATTAA-T
* *
13468535 TAATATAATTAATCTAAT
1 TAGTATAAATAAT-TAAT
13468553 TAGTATAAATAATTATAT
1 TAGTATAAATAATTA-AT
13468571 TA
1 TA
13468573 ATTATTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 26 0.84
19 3 0.10
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (17 bp):
TAGTATAAATAATTAAT
Found at i:13468584 original size:22 final size:21
Alignment explanation
Indices: 13468534--13468584 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
13468524 AATAATTAAC
*
13468534 TTAATATAATTAATCTAATTA
1 TTAAAATAATTAATCTAATTA
*
13468555 GTATAAATAATTATAT-TAATTA
1 TTA-AAATAATTA-ATCTAATTA
13468577 TTTAAAAT
1 -TTAAAAT
13468585 TAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAAAATAATTAATCTAATTA
Found at i:13468714 original size:13 final size:13
Alignment explanation
Indices: 13468692--13468737 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
13468682 GTAAATATTT
*
13468692 TATAATTTATTAA
1 TATAAATTATTAA
*
13468705 TATAAATTATAAA
1 TATAAATTATTAA
13468718 TATTAAATATATTAA
1 TA-TAAAT-TATTAA
13468733 TATAA
1 TATAA
13468738 TTTGGCTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATAAATTATTAA
Found at i:13469506 original size:28 final size:28
Alignment explanation
Indices: 13469475--13469530 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
13469465 TTAATTTGGT
13469475 AATAAATAATT-TATAATATAATAATAAA
1 AATAAATAATTAT-TAATATAATAATAAA
* **
13469503 AATATATAATTATTAATATTTTAATAAA
1 AATAAATAATTATTAATATAATAATAAA
13469531 TTAGGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AATAAATAATTATTAATATAATAATAAA
Found at i:13469645 original size:7 final size:8
Alignment explanation
Indices: 13469616--13469657 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
13469606 TTAAATTAAC
13469616 ATTATAAT
1 ATTATAAT
*
13469624 AATATAAT
1 ATTATAAT
13469632 ATTATAAT
1 ATTATAAT
13469640 -TTATAAT
1 ATTATAAT
*
13469647 AAT-TAAT
1 ATTATAAT
13469654 ATTA
1 ATTA
13469658 ATTATAAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 13 0.46
8 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTATAAT
Found at i:13470670 original size:14 final size:15
Alignment explanation
Indices: 13470648--13470687 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
13470638 TAAATTATTA
13470648 ATATTATAAT-ATAT
1 ATATTATAATAATAT
*
13470662 ATCTTATAATAGATAT
1 ATATTATAATA-ATAT
13470678 ATATTATAAT
1 ATATTATAAT
13470688 TATTTATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATTATAATAATAT
Found at i:13470801 original size:21 final size:21
Alignment explanation
Indices: 13470786--13470826 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13470776 AAATTTATTT
13470786 ATTTAATAAATAAATTATTAA
1 ATTTAATAAATAAATTATTAA
* *
13470807 ATTTAATAATTTAATTATTA
1 ATTTAATAAATAAATTATTA
13470827 TTACAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAATAAATAAATTATTAA
Found at i:13470947 original size:19 final size:20
Alignment explanation
Indices: 13470906--13470944 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13470896 AAACACATTT
*
13470906 ATTTTTTAAATCACTTATTA
1 ATTTTTGAAATCACTTATTA
13470926 ATTTTTGAAAT-AC-TATTA
1 ATTTTTGAAATCACTTATTA
13470944 A
1 A
13470945 ATTAGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTTGAAATCACTTATTA
Found at i:13471517 original size:18 final size:18
Alignment explanation
Indices: 13471496--13471542 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
13471486 TATTATAAGG
13471496 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
13471514 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
13471531 TTTTTAA-TATTA
1 ATTTTAATTATTA
13471543 TAATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:13471530 original size:12 final size:12
Alignment explanation
Indices: 13471499--13471625 Score: 52
Period size: 12 Copynumber: 10.5 Consensus size: 12
13471489 TATAAGGATT
13471499 TTAATTTTAA-TA
1 TTAA-TTTAATTA
13471511 TTAATTTAATTA
1 TTAATTTAATTA
*
13471523 TTAATTT-ATTT
1 TTAATTTAATTA
*
13471534 TTAATATT-ATAA
1 TTAAT-TTAATTA
13471546 TT--TTTATATTA
1 TTAATTTA-ATTA
*
13471557 GTAATATTAATTA
1 TTAAT-TTAATTA
* * *
13471570 CTAATTTTATAA
1 TTAATTTAATTA
* *
13471582 TTAA-ATAGTTA
1 TTAATTTAATTA
13471593 TTTAATATGTAATTA
1 -TTAAT-T-TAATTA
*
13471608 ATAATTATAATTA
1 TTAATT-TAATTA
13471621 -TAATT
1 TTAATT
13471626 AAGTAAGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
9 2 0.02
10 1 0.01
11 20 0.23
12 36 0.41
13 16 0.18
14 7 0.08
15 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (12 bp):
TTAATTTAATTA
Found at i:13471554 original size:14 final size:16
Alignment explanation
Indices: 13471530--13471561 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13471520 TTATTAATTT
13471530 ATTTTTAATATTA-TA
1 ATTTTTAATATTAGTA
13471545 ATTTTT-ATATTAGTA
1 ATTTTTAATATTAGTA
13471560 AT
1 AT
13471562 ATTAATTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTTTTAATATTAGTA
Found at i:13472587 original size:181 final size:182
Alignment explanation
Indices: 13472279--13473494 Score: 1026
Period size: 181 Copynumber: 6.7 Consensus size: 182
13472269 ATAAACAGAT
* * * *
13472279 AATCTCCTACTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTATTCT-AATTAGACTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAG-CTT
* * * **
13472343 GTATG--ATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCAAAATTATTTGAAATAGATAAT
65 TTATGAAATG--AAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAAT
* * * *
13472406 TGTTCAAATGGCCATAACTATTTGAA-TTGATTCAATAAAAT-GATTTATGTTTTA
128 TGTTTAAATAGTCATAACTATTTGAACTTG-TTCAATAAAATAAATTTATGTTTTA
** * * * *
13472460 AATCTCCAACTTCTTAATTTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * * *
13472525 TACGAAATGAAACAATTGTTTTATGATAAAACAAAAGGTTATAACGATTTTAAA-ATGATAATTG
66 TATGAAATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATA-GATAATTG
* * * *** * *
13472589 TTTAAATAGTCATAACTATCTAAACGTGTTTGGT-AAACAAATTTAT-TTTTT
130 TTTAAATAGTCATAACTATTTGAACTTGTTCAATAAAATAAATTTATGTTTTA
* * ** *
13472640 AAT-TACTTGCTTATTAATTTTTTG-AATATTAATAAAATAGTATTATTTTATTTCAAATAAGCA
1 AATCT-CTTACTTATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCT
* * * * * * *
13472703 TGTATGAACTG-AACAATTATTTTATGACAAAACAAAAAGGTTAAAATGATTTGAAATAGAAAAT
64 TTTATGAAATGAAACAATTGTTTTATGACAAAAC-AAAAGGTCATAACGATTTGAAATAGATAAT
* * * * * *
13472767 T-ATTATAATAGTCTTAACTATTTGAACTGGTTCAA-CAAATACATTTATTTTTTA
128 TGTTTA-AATAGTCATAACTATTTGAACTTGTTCAATAAAATAAATTTATGTTTTA
* * ** * * * *
13472821 AATCTCTTACTTGTTAATTTTT-AGAATATTATTAGTTTAGCAATATTTTACTCTGAATAAG-TT
1 AATCTCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * ** * *
13472884 TGTACGAACA-GAAACAATTGTTTTATGACAAAAC-AAAGATCATATTGATTTGAGATA-AAAAT
65 T-TATGAA-ATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAAT
* * * * *
13472946 TATTTAAATAGTCATAACTATTTGAA-TTGATCTGAT-AAATAGATATA-GTTTTTA
128 TGTTTAAATAGTCATAACTATTTGAACTTGTTC-AATAAAATAAATTTATG-TTTTA
** * *
13473000 AA--TC-T-CTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAAGAA-TTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * * * * *
13473060 GTATG-AATAGAAACAATTATTTTATTACAAAACAAAAGATCATAACAATTTAAAATAAATAATT
66 -TATGAAAT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATT
* * * ** *
13473124 ATTTAAATAGTCATAATTATTTGAACTTGCTCGGT-AAACAAATTTATTGTTTTA
129 GTTTAAATAGTCATAACTATTTGAACTTGTTCAATAAAATAAATTTA-TGTTTTA
* * * * *
13473178 AATATTTTACTTATTACTTTTTGAAATTTTAATAAATTAGTATTATTTTATTTCGAATAAGCTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* *
13473243 TATG-AATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAGATAATTG
66 TATGAAAT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTG
* * * *
13473307 TTTAAATGGTCATAATTATTTTGAACGTGTTTAA-AAAATAAATTTAT-TTTATA
130 TTTAAATAGTCATAACTA-TTTGAACTTGTTCAATAAAATAAATTTATGTTT-TA
* * * * *
13473360 TAT-TTTTACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTATTTTA-TTTGAAATAAGCT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTTG-AATAAGCT
* * * * *
13473422 TGTATGAACAT-AAATAATTGTTTTATGGCAAAACAAAATGTCATAACTATTTGAAATAGATAAT
64 TTTATGAA-ATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAAT
*
13473486 TGTTCAAAT
128 TGTTTAAAT
13473495 CTTGTACTTA
Statistics
Matches: 840, Mismatches: 151, Indels: 88
0.78 0.14 0.08
Matches are distributed among these distances:
173 1 0.00
174 1 0.00
175 68 0.08
176 20 0.02
177 41 0.05
178 16 0.02
179 67 0.08
180 147 0.17
181 295 0.35
182 156 0.19
183 28 0.03
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (182 bp):
AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
TATGAAATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGT
TTAAATAGTCATAACTATTTGAACTTGTTCAATAAAATAAATTTATGTTTTA
Found at i:13473049 original size:361 final size:360
Alignment explanation
Indices: 13472288--13473321 Score: 849
Period size: 361 Copynumber: 2.9 Consensus size: 360
13472278 TAATCTCCTA
* * * * *
13472288 CTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTATTCTAATTAGACTTGTATGATGAA
1 CTTATTAATTTTTAAAATATTAATAAA-TAGTATTATTTTATTTTAATTAGAATAGCATGATGAA
* * * * *
13472353 AAACAATTGTTTTATGACAAAACAAAAGTTCAAAATTATTTGAAATAGATAATTGTTCAAATGGC
65 AAACAATTATTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGAAAATTATTCAAATAGC
* * *
13472418 CATAACTATTTGAATTGATTCAATAAAATGATTTATGTTTTAAATCTCCAACTTCTTAATTTTTG
130 CATAACTATTTGAACTGATTCAACAAAATCATTTATGTTTTAAATCTCCAACTTCTTAATTTTTG
* * * * *
13472483 AAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTACGAAATGAAACAATTGTTTTA
195 AAATATTAATAAAGTAACAATATTTTACTCTGAATAAGCTTTTACGAAATGAAACAATTGTTTTA
* * * * * *
13472548 TGATAAAACAAAAGGTTATAACGATTTTAAAATGATAATTGTTTAAATAGTCATAACTATCTAAA
260 TGACAAAACAAAAGATCATAACGATTTTAAAATAAAAATTATTTAAATAGTCATAACTATCTAAA
* * * * *
13472613 CGTGTTTGGTAAACAAATTTATTTTTTAATTACTTG
325 CGTGTCTGATAAACAAATATAGTTTTTAAATACTTG
** * *
13472649 CTTATTAATTTTTTGAATATTAATAAAATAGTATTATTTTATTTCAA--A-TA-AGCATGTATGA
1 CTTATTAATTTTTAAAATATTAAT-AAATAGTATTATTTTATTTTAATTAGAATAGCATG-ATGA
*
13472710 ACTGAACAATTATTTTATGACAAAACAAAAAGGTT-AAAATGATTTGAAATAGAAAATTATT-AT
64 A--AAACAATTATTTTATGACAAAAC-AAAA-GTTCAAAATGATTTGAAATAGAAAATTATTCA-
* * * * ** *
13472773 AATAGTCTTAACTATTTGAACTGGTTCAAC-AAATACATTTATTTTTTAAATCTCTTACTTGTTA
124 AATAGCCATAACTATTTGAACTGATTCAACAAAAT-CATTTATGTTTTAAATCTCCAACTTCTTA
* *** *
13472837 ATTTTT-AGAATATTATTAGTTTAGCAATATTTTACTCTGAATAAG-TTTGTACGAACA-GAAAC
188 ATTTTTGA-AATATTAATAAAGTAACAATATTTTACTCTGAATAAGCTTT-TACGAA-ATGAAAC
** * *
13472899 AATTGTTTTATGACAAAAC-AAAGATCATATTGA-TTTGAGATAAAAATTATTTAAATAGTCATA
250 AATTGTTTTATGACAAAACAAAAGATCATAACGATTTTAAAATAAAAATTATTTAAATAGTCATA
* * * * *
13472962 ACTATTTGAA-TTGATCTGATAAATAGATATAGTTTTTAAAT-C-T-
315 ACTATCTAAACGTG-TCTGATAAACAAATATAGTTTTTAAATACTTG
* * * *
13473005 CTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGA--AGAATTTTGTATGAAT
1 CTTATTAATTTTTAAAATATTAATAAA-TAGTATTATTTTATTTTAATTAGAA--TAGCATG-AT
* * * * ** * *
13473068 -AGAAACAATTATTTTATTACAAAACAAAAGATCATAACAATTTAAAATA-AATAATTATTTAAA
62 GAAAAACAATTATTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGAA-AATTATTCAAA
* * * *** * * *** *
13473131 TAGTCATAATTATTTGAACTTG-CTCGGTAAACA-AATTTATTGTTTTAAATATTTTACTTATTA
126 TAGCCATAACTATTTGAAC-TGATTCAACAAA-ATCATTTA-TGTTTTAAATCTCCAACTTCTTA
* * * ** * * *
13473194 CTTTTTGAAATTTTAATAAATTAGTATTATTTTA-TTTCGAATAAGCTTTTATG-AATAGAAACA
188 ATTTTTGAAATATTAATAAAGTAACAATATTTTACTCT-GAATAAGCTTTTACGAAAT-GAAACA
* * * * *
13473257 ATTGGTTTATGACAAAACAAAAGGTCATAACGA-TTTAAAATAGATAATTGTTTAAATGGTCATA
251 ATTGTTTTATGACAAAACAAAAGATCATAACGATTTTAAAATA-AAAATTATTTAAATAGTCATA
13473321 A
315 A
13473322 TTATTTTGAA
Statistics
Matches: 542, Mismatches: 100, Indels: 64
0.77 0.14 0.09
Matches are distributed among these distances:
355 8 0.01
356 91 0.17
357 109 0.20
358 31 0.06
359 74 0.14
360 46 0.08
361 176 0.32
362 7 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (360 bp):
CTTATTAATTTTTAAAATATTAATAAATAGTATTATTTTATTTTAATTAGAATAGCATGATGAAA
AACAATTATTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGAAAATTATTCAAATAGCC
ATAACTATTTGAACTGATTCAACAAAATCATTTATGTTTTAAATCTCCAACTTCTTAATTTTTGA
AATATTAATAAAGTAACAATATTTTACTCTGAATAAGCTTTTACGAAATGAAACAATTGTTTTAT
GACAAAACAAAAGATCATAACGATTTTAAAATAAAAATTATTTAAATAGTCATAACTATCTAAAC
GTGTCTGATAAACAAATATAGTTTTTAAATACTTG
Found at i:13473701 original size:18 final size:19
Alignment explanation
Indices: 13473678--13473738 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
13473668 TAATAGTTAA
13473678 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
13473696 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
13473713 TAAATTATAATAATTAATAAG-
1 TAAATTA-AAT-A-TAATAAGT
13473734 TAAAT
1 TAAAT
13473739 GTTTATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 6 0.16
20 2 0.05
21 6 0.16
22 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:13473779 original size:17 final size:17
Alignment explanation
Indices: 13473759--13473852 Score: 66
Period size: 17 Copynumber: 5.2 Consensus size: 17
13473749 ATAATATATT
13473759 TAATTTATTTAATTATA
1 TAATTTATTTAATTATA
*
13473776 TAATATTATATAA-TATTA
1 TAAT-TTATTTAATTA-TA
*
13473794 AATATTTATTATAA-TATAA
1 TA-ATTTATT-TAATTAT-A
*
13473813 TAAATATTATATAATTATA
1 T-AAT-TTATTTAATTATA
* *
13473832 TTATTAATTTAATTATA
1 TAATTTATTTAATTATA
13473849 TAAT
1 TAAT
13473853 AATAATAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
17 20 0.33
18 17 0.28
19 15 0.25
20 8 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTTATTTAATTATA
Found at i:13473785 original size:10 final size:10
Alignment explanation
Indices: 13473770--13473827 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
13473760 AATTTATTTA
13473770 ATTATATAAT
1 ATTATATAAT
13473780 ATTATATAAT
1 ATTATATAAT
*
13473790 ATTAAAT-AT
1 ATTATATAAT
13473799 -TTATTATAAT
1 ATTA-TATAAT
*
13473809 ATAATA-AAT
1 ATTATATAAT
13473818 ATTATATAAT
1 ATTATATAAT
13473828 TATATTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 3 0.08
9 12 0.30
10 23 0.57
11 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTATATAAT
Found at i:13473788 original size:36 final size:36
Alignment explanation
Indices: 13473748--13473861 Score: 112
Period size: 36 Copynumber: 3.2 Consensus size: 36
13473738 TGTTTATCAT
13473748 TATAATATATTTAATTTATTTAATTATATAATATTA
1 TATAATATATTTAATTTATTTAATTATATAATATTA
**
13473784 TATAATAT-TAAATATTTATTATAA-TATAATAAATATTA
1 TATAATATATTTA-ATTTATT-TAATTAT-AT-AATATTA
* *
13473822 TATAAT-TATATT-ATTAATTTAATTATATAATAATA
1 TATAATATAT-TTAATTTATTTAATTATATAATATTA
13473857 -ATAAT
1 TATAAT
13473862 TTTATTAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
34 5 0.08
35 8 0.12
36 23 0.35
37 15 0.23
38 14 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
TATAATATATTTAATTTATTTAATTATATAATATTA
Found at i:13473808 original size:19 final size:20
Alignment explanation
Indices: 13473784--13473834 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
13473774 TATAATATTA
13473784 TATAATATTAAATATT-TAT
1 TATAATATTAAATATTATAT
13473803 TATAATATAATAAATATTATAT
1 TATAATAT--TAAATATTATAT
* *
13473825 AATTATATTA
1 TATAATATTA
13473835 TTAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 2 0.07
21 8 0.30
22 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATATTAAATATTATAT
Found at i:13473861 original size:17 final size:17
Alignment explanation
Indices: 13473775--13473862 Score: 50
Period size: 17 Copynumber: 5.5 Consensus size: 17
13473765 ATTTAATTAT
13473775 ATAAT-ATTATATAATA
1 ATAATAATTATATAATA
* *
13473791 TTAAATATTTATTATAAT-
1 AT-AATAATTA-TATAATA
13473809 ATAATAA--ATAT--T-
1 ATAATAATTATATAATA
*
13473821 AT-ATAATTATATTATTA
1 ATAATAATTATA-TAATA
*
13473838 AT-TTAATTATATAATA
1 ATAATAATTATATAATA
13473854 ATAATAATT
1 ATAATAATT
13473863 TTATTAAACA
Statistics
Matches: 55, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
11 4 0.07
12 3 0.05
13 3 0.05
14 4 0.07
15 1 0.02
16 8 0.15
17 22 0.40
18 4 0.07
19 6 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATAATTATATAATA
Found at i:13473934 original size:13 final size:14
Alignment explanation
Indices: 13473916--13473964 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
13473906 AATATTTAGA
13473916 TAATTAA-TAATAT
1 TAATTAATTAATAT
13473929 TAATTAATTAATAT
1 TAATTAATTAATAT
*
13473943 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
13473957 TAATTAAT
1 TAATTAAT
13473965 AAGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:13474566 original size:16 final size:15
Alignment explanation
Indices: 13474538--13474572 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13474528 TATAACTTAA
*
13474538 TAATATTATTATTACT
1 TAATAATATTATTA-T
13474554 TAATAATATTATTAT
1 TAATAATATTATTAT
13474569 TAAT
1 TAAT
13474573 TAGTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATAATATTATTAT
Found at i:13474569 original size:19 final size:19
Alignment explanation
Indices: 13474523--13474570 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
13474513 TAAAATAGAG
*
13474523 ATTATTATAACTTAATAAT
1 ATTATTATTACTTAATAAT
13474542 ATTATTATTACTTAATAAT
1 ATTATTATTACTTAATAAT
13474561 ATTATTATTA
1 ATTATTATTA
13474571 ATTAGTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATTATTACTTAATAAT
Found at i:13474594 original size:13 final size:13
Alignment explanation
Indices: 13474576--13474600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13474566 TATTAATTAG
13474576 TAGTTTAATTAAA
1 TAGTTTAATTAAA
13474589 TAGTTTAATTAA
1 TAGTTTAATTAA
13474601 TATTTTATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAGTTTAATTAAA
Found at i:13474602 original size:12 final size:12
Alignment explanation
Indices: 13474568--13474607 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
13474558 AATATTATTA
*
13474568 TTAATTAGTAGT
1 TTAATTAATAGT
13474580 TTAATTAAATAGT
1 TTAATT-AATAGT
*
13474593 TTAATTAATATT
1 TTAATTAATAGT
13474605 TTA
1 TTA
13474608 TGAGTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
TTAATTAATAGT
Found at i:13474710 original size:27 final size:27
Alignment explanation
Indices: 13474637--13474726 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 27
13474627 ATAAATAACT
* *
13474637 TATTTAATAATAATTT---TAAT-CTT
1 TATTTAATAATAATTTAAATAATAATA
*
13474660 TATTTAA-ATTAATTTAAATAATAATA
1 TATTTAATAATAATTTAAATAATAATA
*
13474686 TGATTTAATAATAATTTAAGT-ATAATA
1 T-ATTTAATAATAATTTAAATAATAATA
*
13474713 TAATTAATAA-AATT
1 TATTTAATAATAATT
13474727 ATATTATATT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
22 7 0.13
23 7 0.13
25 8 0.15
26 10 0.18
27 13 0.24
28 10 0.18
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
TATTTAATAATAATTTAAATAATAATA
Found at i:13474729 original size:20 final size:20
Alignment explanation
Indices: 13474706--13474748 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13474696 ATAATTTAAG
13474706 TATAATATAATTA-ATAAAAT
1 TATAATAT-ATTAGATAAAAT
* *
13474726 TATATTATATTAGATAATAT
1 TATAATATATTAGATAAAAT
13474746 TAT
1 TAT
13474749 TATCTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAATATATTAGATAAAAT
Found at i:13475330 original size:11 final size:11
Alignment explanation
Indices: 13475328--13475368 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
13475318 AAATTTATTA
13475328 TAATTATAAAT
1 TAATTATAAAT
*
13475339 AAATTATAAAT
1 TAATTATAAAT
*
13475350 TTATTATAAAT
1 TAATTATAAAT
13475361 TAAATTAT
1 T-AATTAT
13475369 TTTATGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:13475344 original size:17 final size:17
Alignment explanation
Indices: 13475314--13475368 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
13475304 TTATTAATTC
**
13475314 TTATAAATTTATTATAA
1 TTATAAATAAATTATAA
13475331 TTATAAATAAATTATAAA
1 TTATAAATAAATTAT-AA
*
13475349 TT-TATTATAAATTA-AA
1 TTATA-AATAAATTATAA
13475365 TTAT
1 TTAT
13475369 TTTATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.12
17 16 0.50
18 12 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATAAATAAATTATAA
Found at i:13475449 original size:29 final size:29
Alignment explanation
Indices: 13475377--13475450 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 29
13475367 ATTTTATGAA
13475377 AAACTAATTGTTATTAAATTATAACAATT
1 AAACTAATTGTTATTAAATTATAACAATT
* *
13475406 AAA--AA-T-AT-TTGAATTATAAC-ATT
1 AAACTAATTGTTATTAAATTATAACAATT
13475429 ATAACTAATTGTTATTAAATTA
1 A-AACTAATTGTTATTAAATTA
13475451 AATTGTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
23 4 0.11
24 13 0.37
25 1 0.03
26 3 0.09
27 3 0.09
28 1 0.03
29 10 0.29
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (29 bp):
AAACTAATTGTTATTAAATTATAACAATT
Found at i:13475509 original size:15 final size:16
Alignment explanation
Indices: 13475466--13475511 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
13475456 TTATAACCAA
*
13475466 ATATTTAATATTTAATT
1 ATATTTAAT-TTAAATT
*
13475483 ATATGTAA-TTAAATT
1 ATATTTAATTTAAATT
13475498 AT-TTTAATTTAAAT
1 ATATTTAATTTAAAT
13475512 AATCATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 14 0.56
17 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATATTTAATTTAAATT
Found at i:13475725 original size:33 final size:33
Alignment explanation
Indices: 13475688--13475766 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 33
13475678 ATTAATATAG
13475688 ATTTAAA-ATA-AAATATATAAATTATTGATAATA
1 ATTTAAATATATAAATA-A-AAATTATTGATAATA
* * *
13475721 ATTTAAATATATCAATAAATATTATTGATTATA
1 ATTTAAATATATAAATAAAAATTATTGATAATA
13475754 ATTTTATAATATA
1 A-TTTA-AATATA
13475767 AATTTTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
33 21 0.54
34 8 0.21
35 10 0.26
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (33 bp):
ATTTAAATATATAAATAAAAATTATTGATAATA
Found at i:13476338 original size:17 final size:16
Alignment explanation
Indices: 13476313--13476357 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
13476303 TATAAATAAA
13476313 TAATT-ATTATATTTAT
1 TAATTAATTATA-TTAT
13476329 TAATTAATTATATTAT
1 TAATTAATTATATTAT
*
13476345 AATATTAATTATA
1 TA-ATTAATTATA
13476358 AATAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTAATTATATTAT
Found at i:13476725 original size:7 final size:7
Alignment explanation
Indices: 13476704--13476750 Score: 58
Period size: 7 Copynumber: 6.3 Consensus size: 7
13476694 TATATAATTA
*
13476704 TAAATTT
1 TAAATAT
13476711 TAATATAT
1 TAA-ATAT
13476719 TAAATAT
1 TAAATAT
13476726 TAAATAT
1 TAAATAT
13476733 ATAATATAT
1 -TAA-ATAT
13476742 TAAATAT
1 TAAATAT
13476749 TA
1 TA
13476751 GGTTATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 20 0.56
8 12 0.33
9 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATAT
Found at i:13476733 original size:16 final size:16
Alignment explanation
Indices: 13476712--13476748 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13476702 TATAAATTTT
13476712 AATATATTAA-ATATTA
1 AATATA-TAATATATTA
13476728 AATATATAATATATTA
1 AATATATAATATATTA
13476744 AATAT
1 AATAT
13476749 TAGGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATAATATATTA
Found at i:13476870 original size:25 final size:24
Alignment explanation
Indices: 13476841--13476929 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 24
13476831 GATTTATATT
13476841 TTAATATAAATTATTATAATATTAA
1 TTAATATAAATTATTATAAT-TTAA
*
13476866 TT-A-ATAAA-TGTTATAATTATAA
1 TTAATATAAATTATTATAATT-TAA
13476888 -TAA-ATAAGTATTATCTA-AATTTAA
1 TTAATATAA--ATTAT-TATAATTTAA
13476912 -TAATAT-AATTATTATAAT
1 TTAATATAAATTATTATAAT
13476930 AATTATTAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
21 4 0.07
22 24 0.44
23 5 0.09
24 9 0.17
25 10 0.19
26 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (24 bp):
TTAATATAAATTATTATAATTTAA
Found at i:13476901 original size:22 final size:22
Alignment explanation
Indices: 13476846--13476963 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
13476836 ATATTTTAAT
*
13476846 ATAAATTATTATAA-TATTAATTA
1 ATAAA-TATTATAATTA-TAATAA
*
13476869 ATAAATGTTATAATTATAATAA
1 ATAAATATTATAATTATAATAA
*
13476891 ATAAGTATTATCTAAATT-TAATAA
1 ATAAATATTA--T-AATTATAATAA
* * * *
13476915 TATAATTATTATAATAATTATTA
1 -ATAAATATTATAATTATAATAA
*
13476938 AT-AAT-TAATAATTAT-ATAA
1 ATAAATATTATAATTATAATAA
13476957 TATAAAT
1 -ATAAAT
13476964 TTAACAAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
19 3 0.04
20 10 0.13
21 5 0.07
22 25 0.33
23 12 0.16
24 7 0.09
25 13 0.17
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAAATATTATAATTATAATAA
Found at i:13476956 original size:25 final size:25
Alignment explanation
Indices: 13476863--13476957 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
13476853 ATTATAATAT
13476863 TAATTAATAAATGT-TATAATTA-TAA
1 TAATTAAT-AAT-TATATAATTATTAA
* * *
13476888 TAAATAAGT-ATTATCTAAAT-TTAA
1 TAATTAA-TAATTATATAATTATTAA
*
13476912 TAATATAATTATTATAATAATTATTAA
1 TAAT-TAATAATTAT-ATAATTATTAA
13476939 TAATTAATAATTATATAAT
1 TAATTAATAATTATATAAT
13476958 ATAAATTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
23 1 0.02
24 14 0.25
25 19 0.34
26 14 0.25
27 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (25 bp):
TAATTAATAATTATATAATTATTAA
Found at i:13477056 original size:20 final size:21
Alignment explanation
Indices: 13477004--13477065 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 21
13476994 GATACTCATA
13477004 AATTAATTATTAATT-TTATAT
1 AATTAA-TATTAATTATTATAT
* *
13477025 AA--AAAATAAATTATT-TAT
1 AATTAATATTAATTATTATAT
13477043 AATTAATATTAATTATTAATAT
1 AATTAATATTAATTATT-ATAT
13477065 A
1 A
13477066 CATTTGATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
18 11 0.34
19 4 0.12
20 11 0.34
21 2 0.06
22 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTAATATTAATTATTATAT
Found at i:13477368 original size:26 final size:25
Alignment explanation
Indices: 13477339--13477393 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
13477329 GACACAAATT
*
13477339 TATAAATTATAATTCATTAG-TAATAA
1 TATAAACTATAATT-ATT-GTTAATAA
*
13477365 TATATACTATAATTATTGTTAATAA
1 TATAAACTATAATTATTGTTAATAA
13477390 -ATAA
1 TATAA
13477394 TATTTATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 4 0.16
25 9 0.36
26 12 0.48
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
TATAAACTATAATTATTGTTAATAA
Found at i:13477507 original size:19 final size:19
Alignment explanation
Indices: 13477465--13477507 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13477455 TTATTATACT
* *
13477465 AATAATATATATAATTGTT
1 AATAATATATATAATTATA
13477484 AATAATATATA-AATTATA
1 AATAATATATATAATTATA
13477502 ACATAA
1 A-ATAA
13477508 AATTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AATAATATATATAATTATA
Found at i:13477718 original size:16 final size:17
Alignment explanation
Indices: 13477697--13477732 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
13477687 ATTTTATAAG
13477697 TATTCTAATT-TTAACT
1 TATTCTAATTGTTAACT
*
13477713 TATTCTAATTGTTAATT
1 TATTCTAATTGTTAACT
13477730 TAT
1 TAT
13477733 AGAATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTCTAATTGTTAACT
Found at i:13477896 original size:22 final size:22
Alignment explanation
Indices: 13477826--13477897 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
13477816 AATGCAGACT
*
13477826 TAATA-TAATTTAAATAATATA
1 TAATATTAATTTATATAATATA
*
13477847 TTAATAGTTTAA--TAT-TAAAATA
1 -TAATA--TTAATTTATATAATATA
13477869 T-A-ATTAATTTATATAATATA
1 TAATATTAATTTATATAATATA
13477889 TAATATTAA
1 TAATATTAA
13477898 CTAATTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
17 4 0.10
19 4 0.10
20 8 0.21
21 2 0.05
22 16 0.41
23 2 0.05
25 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATATTAATTTATATAATATA
Found at i:13478032 original size:14 final size:14
Alignment explanation
Indices: 13478013--13478039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13478003 AGTATTTAGT
13478013 AATAATTTGATCAC
1 AATAATTTGATCAC
13478027 AATAATTTGATCA
1 AATAATTTGATCA
13478040 ATAAGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
AATAATTTGATCAC
Found at i:13478312 original size:22 final size:22
Alignment explanation
Indices: 13478230--13478328 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
13478220 AAGAATTTTT
13478230 TTATATTAAATTATAATTAT-AA
1 TTATA-TAAATTATAATTATAAA
* *
13478252 -TAGAT-AATTAT-TTTA-ATAA
1 TTATATAAATTATAATTATA-AA
* **
13478271 TTAATACAAATTATTCTTATAAA
1 TT-ATATAAATTATAATTATAAA
*
13478294 TTATATAAATTATAATTATACA
1 TTATATAAATTATAATTATAAA
*
13478316 TTA-ATATATTATA
1 TTATATAAATTATA
13478329 TATAATTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
18 3 0.05
19 8 0.13
20 2 0.03
21 14 0.23
22 25 0.42
23 7 0.12
24 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (22 bp):
TTATATAAATTATAATTATAAA
Found at i:13478342 original size:15 final size:15
Alignment explanation
Indices: 13478293--13478348 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
13478283 ATTCTTATAA
13478293 ATTATATA-AATTAT
1 ATTATATATAATTAT
*
13478307 AATTATACATTAA-TAT
1 -ATTATATA-TAATTAT
13478323 ATTATATATAATTAT
1 ATTATATATAATTAT
*
13478338 TTTATAATATA
1 ATTAT-ATATA
13478349 TTTAGATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 3 0.09
15 21 0.62
16 8 0.24
17 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATATATAATTAT
Found at i:13478930 original size:14 final size:14
Alignment explanation
Indices: 13478893--13478919 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13478883 TAATAATTTT
13478893 AAATATTTAAATTA
1 AAATATTTAAATTA
13478907 AAATATTTAAATT
1 AAATATTTAAATT
13478920 TTATTATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTTAAATTA
Found at i:13479006 original size:16 final size:15
Alignment explanation
Indices: 13478977--13479010 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13478967 ACTATTCACA
13478977 TATACATTTAATTAT
1 TATACATTTAATTAT
*
13478992 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
13479008 TAT
1 TAT
13479011 GAAATTATTA
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:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:13479385 original size:18 final size:18
Alignment explanation
Indices: 13479364--13479429 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
13479354 ACACTAATTT
* * *
13479364 ATTAAATTATTTTGTTTA
1 ATTAAATTATTATATTAA
13479382 ATTAAAATTATTATATTAA
1 ATT-AAATTATTATATTAA
13479401 ATTAAA-TATTA-ATT-A
1 ATTAAATTATTATATTAA
13479416 ATTATATATTATTA
1 ATTA-A-ATTATTA
13479430 ATTTACTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.12
16 4 0.10
17 6 0.15
18 11 0.27
19 15 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTAAATTATTATATTAA
Found at i:13479430 original size:18 final size:16
Alignment explanation
Indices: 13479379--13479432 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
13479369 ATTATTTTGT
13479379 TTAATTAAAATTATTATA
1 TTAATT-AAATTATTA-A
13479397 TTAAATTAAA-TATTAA
1 TT-AATTAAATTATTAA
13479413 TTAATTATATATTATTAA
1 TTAATTA-A-ATTATTAA
13479431 TT
1 TT
13479433 TACTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 6 0.19
18 13 0.41
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTAAATTATTAA
Found at i:13479462 original size:22 final size:22
Alignment explanation
Indices: 13479437--13479571 Score: 75
Period size: 22 Copynumber: 5.9 Consensus size: 22
13479427 TTAATTTACT
*
13479437 AATTAATAAATGTTAATTAATA
1 AATTAATAAATATTAATTAATA
13479459 AATTAACT-AATATTAATTAATA
1 AATTAA-TAAATATTAATTAATA
* *
13479481 ACAATAATAAAATATTTA-TAATA
1 A-ATTAAT-AAATATTAATTAATA
*
13479504 ATTTCTAAT-AATATTAATT-AT-
1 A-AT-TAATAAATATTAATTAATA
*
13479525 -ATTATATAATTAGTTAATATAATA
1 AATTA-ATAAATA-TTAAT-TAATA
*
13479549 ACATTAAATAATATATAAATTAA
1 A-ATT-AATAA-ATATTAATTAA
13479572 ATAATCATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
18 2 0.02
19 3 0.03
20 3 0.03
21 5 0.06
22 31 0.36
23 14 0.16
24 11 0.13
25 3 0.03
26 11 0.13
27 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (22 bp):
AATTAATAAATATTAATTAATA
Found at i:13479654 original size:20 final size:20
Alignment explanation
Indices: 13479597--13479660 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
13479587 ACAATATTAT
* *
13479597 ATAATAATTAATCTTATTATA
1 ATAATAATTTAT-TTATAATA
* **
13479618 ATAATAAGTTAAATATAATA
1 ATAATAATTTATTTATAATA
*
13479638 ATAATAATTTATTTATATTA
1 ATAATAATTTATTTATAATA
13479658 ATA
1 ATA
13479661 TGTTATTAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
20 25 0.74
21 9 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTTATTTATAATA
Found at i:13479776 original size:9 final size:9
Alignment explanation
Indices: 13479764--13479835 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
13479754 CATAAAACTA
13479764 ATAATAATT
1 ATAATAATT
13479773 ATAATAATT
1 ATAATAATT
13479782 AT--TAATT
1 ATAATAATT
*
13479789 A-AATATTT
1 ATAATAATT
*
13479797 TTAATTATATT
1 ATAA-TA-ATT
*
13479808 ATTAATAATC
1 A-TAATAATT
13479818 ATAATATATT
1 ATAATA-ATT
*
13479828 ATATTAAT
1 ATAATAAT
13479836 ATTTATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
7 6 0.12
8 4 0.08
9 20 0.41
10 12 0.24
11 4 0.08
12 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (9 bp):
ATAATAATT
Found at i:13479777 original size:12 final size:12
Alignment explanation
Indices: 13479762--13479890 Score: 60
Period size: 12 Copynumber: 11.1 Consensus size: 12
13479752 TTCATAAAAC
13479762 TAATAATAATTA
1 TAATAATAATTA
*
13479774 TAATAATTATTA
1 TAATAATAATTA
* * *
13479786 -ATTAAATATTTT
1 TAAT-AATAATTA
*
13479798 TAATTAT-ATTA
1 TAATAATAATTA
*
13479809 T--TAATAATCA
1 TAATAATAATTA
13479819 TAAT-AT-ATTA
1 TAATAATAATTA
* *
13479829 TATTAATATTTA
1 TAATAATAATTA
13479841 TAAT-ATAAATTA
1 TAATAAT-AATTA
*
13479853 TAA-ATTAATTA
1 TAATAATAATTA
*
13479864 TAAATATTAATTA
1 T-AATAATAATTA
13479877 -ATATAATTAATTA
1 TA-ATAA-TAATTA
13479890 T
1 T
13479891 TATCATAATA
Statistics
Matches: 85, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
9 3 0.04
10 10 0.12
11 18 0.21
12 38 0.45
13 16 0.19
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:13479802 original size:14 final size:16
Alignment explanation
Indices: 13479768--13479911 Score: 62
Period size: 16 Copynumber: 9.4 Consensus size: 16
13479758 AAACTAATAA
13479768 TAATTATAATAATTAT
1 TAATTATAATAATTAT
*
13479784 TAATTA-AAT-ATTTT
1 TAATTATAATAATTAT
* *
13479798 TAATTAT-ATTATTAA
1 TAATTATAATAATTAT
*
13479813 TAATCATAAT-A-TAT
1 TAATTATAATAATTAT
*
13479827 T-A-TATTAATATTTA-
1 TAATTA-TAATAATTAT
13479841 TAA-TAT-A-AATTAT
1 TAATTATAATAATTAT
* * *
13479854 AAATTAATTATAAATAT
1 TAATT-ATAATAATTAT
13479871 TAATTA-ATATAATTAAT
1 TAATTATA-ATAATT-AT
*
13479888 T-ATTATCATAATATAT
1 TAATTATAATAAT-TAT
13479904 TATATTAT
1 TA-ATTAT
13479912 TCTAGTCATA
Statistics
Matches: 96, Mismatches: 14, Indels: 34
0.67 0.10 0.24
Matches are distributed among these distances:
12 5 0.05
13 8 0.08
14 18 0.19
15 20 0.21
16 27 0.28
17 13 0.14
18 5 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATAATAATTAT
Found at i:13479837 original size:13 final size:13
Alignment explanation
Indices: 13479819--13479910 Score: 61
Period size: 13 Copynumber: 7.2 Consensus size: 13
13479809 TTAATAATCA
13479819 TAATATATTATAT
1 TAATATATTATAT
*
13479832 TAATAT-TTATAA
1 TAATATATTATAT
*
13479844 T-ATAAATTATAAAT
1 TAATATATTAT--AT
*
13479858 TAAT-TATAAATAT
1 TAATATAT-TATAT
*
13479871 TAAT-TAATATAAT
1 TAATATATTAT-AT
13479884 TAAT-TATTATCA-
1 TAATATATTAT-AT
13479896 TAATATATTATAT
1 TAATATATTATAT
13479909 TA
1 TA
13479911 TTCTAGTCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
11 3 0.05
12 17 0.27
13 34 0.55
14 4 0.06
15 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATATTATAT
Found at i:13479844 original size:67 final size:75
Alignment explanation
Indices: 13479765--13479910 Score: 173
Period size: 77 Copynumber: 2.0 Consensus size: 75
13479755 ATAAAACTAA
* * * *
13479765 TAATAATTAT-A-AT-AATTATTAATTAA-AT-ATTTTTAATT-ATATTATTAA-TA-ATCATAA
1 TAATAATTATAATATAAATTATAAATTAATATAAATATTAATTAATATAATTAATTATATCATAA
13479822 TATATTATAT
66 TATATTATAT
*
13479832 TAATATTTATAATATAAATTATAAATTAATTATAAATATTAATTAATATAATTAATTATTATCAT
1 TAATAATTATAATATAAATTATAAATTAA-TATAAATATTAATTAATATAATTAATTA-TATCAT
13479897 AATATATTATAT
64 AATATATTATAT
13479909 TA
1 TA
13479911 TTCTAGTCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
67 9 0.14
68 1 0.02
69 2 0.03
70 12 0.19
72 2 0.03
73 8 0.12
74 9 0.14
75 2 0.03
77 19 0.30
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (75 bp):
TAATAATTATAATATAAATTATAAATTAATATAAATATTAATTAATATAATTAATTATATCATAA
TATATTATAT
Found at i:13479877 original size:43 final size:41
Alignment explanation
Indices: 13479776--13479880 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 41
13479766 AATAATTATA
* * * *
13479776 ATAATTATTAATTAAATATTTTTAATTATATTATTAATAATC
1 ATAAATATTAATT-AATATTTATAATTAAATTATAAATAATC
*
13479818 ATAATATATTATATTAATATTTATAATATAAATTATAAATTAATT
1 ATAA-ATATTA-ATTAATATTTATAAT-TAAATTATAAA-TAATC
13479863 ATAAATATTAATTAATAT
1 ATAAATATTAATTAATAT
13479881 AATTAATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
42 4 0.07
43 24 0.44
44 18 0.33
45 8 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (41 bp):
ATAAATATTAATTAATATTTATAATTAAATTATAAATAATC
Found at i:13479889 original size:17 final size:16
Alignment explanation
Indices: 13479776--13479885 Score: 66
Period size: 17 Copynumber: 7.4 Consensus size: 16
13479766 AATAATTATA
13479776 ATAATTATTAATTAA-
1 ATAATTATTAATTAAT
*
13479791 AT-ATTTTTAA-T--T
1 ATAATTATTAATTAAT
13479803 AT-ATTATTAA-TAAT
1 ATAATTATTAATTAAT
13479817 CATAATATATTATATTAAT
1 -ATAAT-TATTA-ATTAAT
13479836 AT--TTA-TAA-T-AT
1 ATAATTATTAATTAAT
*
13479847 A-AATTATAAATTAATT
1 ATAATTATTAATTAA-T
*
13479863 ATAAATATTAATTAAT
1 ATAATTATTAATTAAT
13479879 ATAATTA
1 ATAATTA
13479886 ATTATTATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 29
0.68 0.06 0.27
Matches are distributed among these distances:
11 3 0.04
12 14 0.19
13 4 0.05
14 11 0.15
15 7 0.09
16 12 0.16
17 16 0.22
18 3 0.04
19 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATTATTAATTAAT
Found at i:13480095 original size:21 final size:20
Alignment explanation
Indices: 13480069--13480151 Score: 60
Period size: 23 Copynumber: 3.9 Consensus size: 20
13480059 TTATTTAAAA
13480069 TTAATATTATAATATAATTAT
1 TTAATATTATAATAT-ATTAT
*
13480090 TTAATAAATATAATAT-TTAT
1 TTAAT-ATTATAATATATTAT
* *
13480110 TTATTTATATATAATATATAAT
1 TTA-ATAT-TATAATATATTAT
*
13480132 TATATATATAGATAATATAT
1 T-TA-ATAT-TATAATATAT
13480152 ATTATAGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 8 0.16
21 14 0.27
22 13 0.25
23 16 0.31
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
TTAATATTATAATATATTAT
Found at i:13480141 original size:23 final size:23
Alignment explanation
Indices: 13480080--13480157 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
13480070 TAATATTATA
* *
13480080 ATATAATTATTTAATAAATATAAT
1 ATATAATTATAT-ATATATATAAT
* *
13480104 AT-TTATT-TATTTATATATAAT
1 ATATAATTATATATATATATAAT
*
13480125 ATATAATTATATATATAGATAAT
1 ATATAATTATATATATATATAAT
13480148 ATAT-ATTATA
1 ATATAATTATA
13480158 GTAAATAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 11 0.24
22 12 0.27
23 20 0.44
24 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
ATATAATTATATATATATATAAT
Found at i:13480298 original size:13 final size:13
Alignment explanation
Indices: 13480273--13480307 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13480263 AACAATTGTG
13480273 TTAATTAATATATA
1 TTAATT-ATATATA
13480287 TTAATTATATATA
1 TTAATTATATATA
*
13480300 TAAATTAT
1 TTAATTAT
13480308 TAACTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAATTATATATA
Found at i:13480443 original size:26 final size:26
Alignment explanation
Indices: 13480377--13480456 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 26
13480367 TAGATAAAAT
*
13480377 TTAATACATTTATAATTAATAAATTATA
1 TTAATACA-TT-TAATTATTAAATTATA
*
13480405 -TAGTATA-AATTAATTATTAAATTATA
1 TTA--ATACATTTAATTATTAAATTATA
13480431 TTAATACATTTAA-TATTAAAATTATA
1 TTAATACATTTAATTATT-AAATTATA
13480457 AATATTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 7 0.16
26 28 0.64
27 5 0.11
28 1 0.02
29 3 0.07
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
TTAATACATTTAATTATTAAATTATA
Found at i:13480448 original size:15 final size:15
Alignment explanation
Indices: 13480428--13480477 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
13480418 TTATTAAATT
13480428 ATATTAATACATTTA
1 ATATTAATACATTTA
13480443 ATATTAA-A-ATTATAA
1 ATATTAATACATT-T-A
13480458 ATATTAATTACATATTA
1 ATATTAA-TACAT-TTA
13480475 ATA
1 ATA
13480478 ACAATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.10
14 2 0.07
15 15 0.52
17 5 0.17
18 3 0.10
19 1 0.03
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTAATACATTTA
Found at i:13480567 original size:27 final size:26
Alignment explanation
Indices: 13480521--13480596 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
13480511 TAAATAATTT
* *
13480521 AATAATTATTAGTAACTAATTATTAT-
1 AATAATAAATAGTAA-TAATTATTATC
* *
13480547 AATTAATTAAGTAGTATTAATATATTATC
1 AA-TAA-TAAATAGTAATAAT-TATTATC
13480576 AATAATAAATAGTAATAATTA
1 AATAATAAATAGTAATAATTA
13480597 AATAAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 4 0.10
27 19 0.46
28 16 0.39
29 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (26 bp):
AATAATAAATAGTAATAATTATTATC
Found at i:13482349 original size:496 final size:498
Alignment explanation
Indices: 13481596--13483539 Score: 3054
Period size: 496 Copynumber: 3.9 Consensus size: 498
13481586 TGAGCGTAAA
* * * ** * * *
13481596 AATTTTTAATTGTGACATAAAAACCATTTTTGCATGATTTTAATTTTTTGTTATGTTTTATATTT
1 AATTTTAAATTTTGA-ATAAAAAGCAAATTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTT
* * * * * *
13481661 ATTTGCTTTTAAATACATTTTTAGGTGCTCTAAGGAACTTGTGAGATTACATATGAATGATCTTG
65 ATTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTG
* * * *
13481726 ATATTTGAATTTTTTTGTGAAGTTGTTACTAGCGCTCGATGTGATTAATTGTGTGCTAACTTGTT
130 ATATTTGGATTTTTTTGTGAAGTTGTTACTAGCGCTTGATGTGATTAATTATGTGCTAACTTATT
*
13481791 TTAGCAGTTTATAGGGGGACCACTCGAAGCCTAATGCTTTTGAAATTTTAT-TGTTGCTTTGAAA
195 TTAGCAGTTTATAAGGGGACCACTCGAAGCCTAATGCTTTTGAAATTTTATGTGTTGCTTTGAAA
13481855 ATGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATTGTTTTAGAAGG-TTTTAAATGAAA
260 ATGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTTTAAATGAAA
*
13481919 ATGAATTTGAATATCTT-CATCCCAAAGTTTTAAACACACTCGAACAAAGAAACATTGTAAAACT
325 ATGAATTTGAATATCTTAAAT-CCAAAGTTTTAAACACACTCGAACAAAGAAACATTGTAAAACT
13481983 TGCGTTTGTTTTAATTTTTCACAGTATTAAGTGTAAGTTATAAAGGATTTTGGAGCTTAAAACAT
389 TGCGTTTGTTTTAATTTTTCACAGTATTAAGTGTAAGTTATAAAGGATTTTGGAGCTTAAAACAT
13482048 CAGACTTTATTTTTGAACAATTTTGGGCAAAAAAACAATTTGCAC
454 CAGACTTTATTTTTGAACAATTTTGGGCAAAAAAACAATTTGCAC
*
13482093 AATTTTAAATTTTGAATAAAAAGCAATTTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTTA
1 AATTTTAAATTTTGAATAAAAAGCAAATTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTTA
13482158 TTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTGA
66 TTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTGA
13482223 TATTTGGATTTTTTTGTGAAGTTGTTA-TAGCGCTTGATGTGATTAATTATGT-CTAACGTTATT
131 TATTTGGATTTTTTTGTGAAGTTGTTACTAGCGCTTGATGTGATTAATTATGTGCTAAC-TTATT
13482286 TTAGCAGTTTATAAAGGGGACCACTCGAAGGCCTAATGCTTTTGAAA-TTTAT-TGTTGCTTTG-
195 TTAGCAGTTTAT-AAGGGGACCACTCGAA-GCCTAATGCTTTTGAAATTTTATGTGTTGCTTTGA
*
13482348 AAATGATTTTCACTAGAGTCGAGTTTTAAAATATGAAAGCATTGGTTTTAGAAGGTTTTTAAAAG
258 AAATGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATT-GTTTTAGAAGGTTTTT-AAA-
13482413 TGAAAATGAATTTGAATATCTTAAATCCAAAGTTTT-AAC-CACTCGAACAAAGAATACATTGTA
320 TGAAAATGAATTTGAATATCTTAAATCCAAAGTTTTAAACACACTCGAACAAAGAA-ACATTGTA
13482476 AAACTTGCGTTTGTTTCTAATTTTTCACGAGGTATTAAGTGTAAGTTATAAAGGATTTTGGAGGC
384 AAACTTGCGTTTGTTT-TAATTTTTCAC-A-GTATTAAGTGTAAGTTATAAAGGATTTTGGA-GC
* *
13482541 TTAAAACATCAGACTTTATTTTTGAACAATTTTAGGCAAAAAAACAATTTACAC
445 TTAAAACATCAGACTTTATTTTTGAACAATTTTGGGCAAAAAAACAATTTGCAC
13482595 AATTTTAAATTTTGAATAAAAAGCAAATTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTTA
1 AATTTTAAATTTTGAATAAAAAGCAAATTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTTA
* *
13482660 TTTGTTTTTAGATACATTTTTAGGTGCTATAAAAAACTCATGGGATTACATATGAATGATCTTGA
66 TTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTGA
*
13482725 TATTTGGATTTTTTTTGTGAAGTTGTTATTAGCGCTTGATGTGATTAATTATGTGCTAACTTATT
131 TATTTGGA-TTTTTTTGTGAAGTTGTTACTAGCGCTTGATGTGATTAATTATGTGCTAACTTATT
* * *
13482790 TTAGCAGTTTATAGGGGGACCACTCCAAGCCTAATGCTTTTGAAATTTTATGTGTTGCTTTAAAA
195 TTAGCAGTTTATAAGGGGACCACTCGAAGCCTAATGCTTTTGAAATTTTATGTGTTGCTTTGAAA
*
13482855 ATGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATTGTTTTAGAAGGGTTTTAAATGAAA
260 ATGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTTTAAATGAAA
*
13482920 ATGAATTTGAATATCTTCAATCCAAAGTTTTAAACACACTCGAACAAAGAAACATTGTAAAACTT
325 ATGAATTTGAATATCTTAAATCCAAAGTTTTAAACACACTCGAACAAAGAAACATTGTAAAACTT
13482985 GCGTTTGTTTTAATTTTTCACAGTATTAAGTGTAAGTTATAAAGGATTTTGGAGCTTAAAACATC
390 GCGTTTGTTTTAATTTTTCACAGTATTAAGTGTAAGTTATAAAGGATTTTGGAGCTTAAAACATC
* *
13483050 AGACTTTATTTTTGAACAATTTTGGGCATAAAAACAGTTTGCAC
455 AGACTTTATTTTTGAACAATTTTGGGCAAAAAAACAATTTGCAC
*
13483094 AATTTTAAATTTTGAATAAAAAGCAAATTTGCCTGATTTTAATTTTTTGTTATGTTTTATACTTA
1 AATTTTAAATTTTGAATAAAAAGCAAATTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTTA
13483159 TTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTGA
66 TTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTGA
* * * * * *
13483224 TATTTGGATTTTTTTGTTAAGTTGATA-TGGGCGGCTTGAAGTGA-TAATTGTGTGCTAACTTGT
131 TATTTGGATTTTTTTGTGAAGTTGTTACT-AGC-GCTTGATGTGATTAATTATGTGCTAACTTAT
* * *
13483287 TTTAGCAGTTTAT-AGGGGAGCACTCGAAGCCTAATGCTTTTGCAATTTTATGTTTTGCTTTGAA
194 TTTAGCAGTTTATAAGGGGACCACTCGAAGCCTAATGCTTTTGAAATTTTATGTGTTGCTTTGAA
* * ** *
13483351 AATGATTTTCGCTGGAATCTTGTTTTAAAATATGAAAGCATTGTTTTAGTAGGTTTTTAAAT-AG
259 AATGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTTTAAATGA-
* * * * *** * *
13483415 AAATGAATTTAAAT-TTTTGAATCCAATGTTTTAAACTTGCTCGAACAAAGAAACATGGTAAATC
323 AAATGAATTTGAATATCTTAAATCCAAAGTTTTAAACACACTCGAACAAAGAAACATTGTAAAAC
* * * * * *
13483479 TTGTGTTGGTTTTAATTTTTCACAGTGTTAAGTGTAAGTTATAAATGATTTTAGTGCTTAA
388 TTGCGTTTGTTTTAATTTTTCACAGTATTAAGTGTAAGTTATAAAGGATTTTGGAGCTTAA
13483540 GGAAGTTGTG
Statistics
Matches: 1352, Mismatches: 71, Indels: 49
0.92 0.05 0.03
Matches are distributed among these distances:
494 5 0.00
495 81 0.06
496 269 0.20
497 164 0.12
498 79 0.06
499 240 0.18
500 34 0.03
501 32 0.02
502 252 0.19
503 68 0.05
504 81 0.06
505 47 0.03
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (498 bp):
AATTTTAAATTTTGAATAAAAAGCAAATTTGCCTGATTTTAATTTTTCGTTATGTTTTATACTTA
TTTGTTTTTAGATACATTTTTAGGTGCTATAAAGAACTCGTGGGATTACATATGAATGATCTTGA
TATTTGGATTTTTTTGTGAAGTTGTTACTAGCGCTTGATGTGATTAATTATGTGCTAACTTATTT
TAGCAGTTTATAAGGGGACCACTCGAAGCCTAATGCTTTTGAAATTTTATGTGTTGCTTTGAAAA
TGATTTTCGCTAGAGTCGAGTTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTTTAAATGAAAA
TGAATTTGAATATCTTAAATCCAAAGTTTTAAACACACTCGAACAAAGAAACATTGTAAAACTTG
CGTTTGTTTTAATTTTTCACAGTATTAAGTGTAAGTTATAAAGGATTTTGGAGCTTAAAACATCA
GACTTTATTTTTGAACAATTTTGGGCAAAAAAACAATTTGCAC
Found at i:13484427 original size:476 final size:473
Alignment explanation
Indices: 13483527--13484820 Score: 1796
Period size: 475 Copynumber: 2.7 Consensus size: 473
13483517 TTATAAATGA
* * * * *
13483527 TTTTAGTGCT-TAAGGAAGTTGTGAGATTACATATTATTA-ATCTTGATATTTGGATATTATTTG
1 TTTTAGTGCTCTAAGGAACTTATGAGATTACATATGA-AAGATCTAGATATTT-GATATTATTTG
* ** * * * * * *
13483590 TGATGTTGTTATTGG-TGTTTGATGTGATTAATTGTGTGCTAACTGGTTTTAGCAATTTATAGAG
64 TGAAGTTGTTATTGGCACTTTGATGTTATAAATTATGTGCTAACTTGTTTTAACAGTTTATA-AG
* * * ** * *
13483654 GG-AGCACTTGAAGCCTAATGCTTTGGAGGTTTTATGTTTTGCTTTGAAAATGATTGTTGCTGAA
128 GGTAGCACTTGAAGCGTAATACTTTTGAAATTTTATGTTTTGCTTTGAAAATGATTTTTACTG-A
* * * *
13483718 GTCAAGCTTTAAAATATGAAAGCATTGTTTTAGTAGGTTTTTAAATGGATATGACTTTGCATATC
192 GTCAAGCTTTAAAATATGAAAGCATTGTTTTAGCAGGTTTTTAAATGGAAATGAATTTGAATATC
** * * * * * *
13483783 TT-GTATCCAAGGTTTTAAACTTCCTCAAACAAAGAAATAT-GATAAAACTTGCATTGGTTTTAA
257 TTCAAATCCAACGTTTTAAACGTGCTCGAACAAAGAAACATAG-TAAAACTTGCATTTGTTTTAA
* *
13483846 TTTTTCACAGTGTTAAGTGTAAGTTGTAAAAGATTTTGGAGCTTAAAACATTAGACTTTGTTTTT
321 TTTTTCACAGTGTTAAGTGTAAGTTGTAAAAGATTTTGGAGCTTAAAACATCAGACGTTGTTTTT
* *
13483911 GAACAATCTGGCATAAAAACCACTCACACAATTTTTGCACGATTTTAATTTTTCAATATGTTTCA
386 GAACAATCTAGCATAAAAACCACTCACACAATTTTTGCACGATTTTAAATTTTCAATATGTTTCA
*
13483976 TACTTATTTGCTTTTAGATACAT
451 TACTTATTTACTTTTAGATACAT
13483999 TTTTAGGTGCTCTAAGGAACTTATGAGATTACATATGAAAGATCTAGATATTTAGATATTATTTG
1 TTTTA-GTGCTCTAAGGAACTTATGAGATTACATATGAAAGATCTAGATATTT-GATATTATTTG
* *
13484064 TGAAGTTGTTATTGGCACTTTGATGTTATAAATTTTGTGCTAACTTGTTTTAATAGTTTATAAGG
64 TGAAGTTGTTATTGGCACTTTGATGTTATAAATTATGTGCTAACTTGTTTTAACAGTTTATAAGG
* * *
13484129 GTAGCCCTCGAAGTGTAATACTTTTGAAATTTTATGTTTTGCTTTGAAAATGATTTTTACTAGAG
129 GTAGCACTTGAAGCGTAATACTTTTGAAATTTTATGTTTTGCTTTGAAAATGATTTTTACT-GAG
* *
13484194 TCGAGCTTTAAAATATGAAATCATTGTTTTAGCAGGTTTTTAAATGGAAATGAATTTGAATATCT
193 TCAAGCTTTAAAATATGAAAGCATTGTTTTAGCAGGTTTTTAAATGGAAATGAATTTGAATATCT
* * *
13484259 TCAAATCCAATGTTTTAAACGTGCTTGAACAAAGAAACATAGTAAAACCTGCATTTGTTTTAATT
258 TCAAATCCAACGTTTTAAACGTGCTCGAACAAAGAAACATAGTAAAACTTGCATTTGTTTTAATT
*
13484324 TTTCACAGTGTTAAGTGTAAGTTGTAAAGGATTTTGGAGCTTAAAACATCAGACGTTGTTTTTGA
323 TTTCACAGTGTTAAGTGTAAGTTGTAAAAGATTTTGGAGCTTAAAACATCAGACGTTGTTTTTGA
* * * *
13484389 ACAATCTAGCATAAAAACCACTCGCCCAATTTTTGCACGATTTTAAATTTTCAGTGTGTTTCATA
388 ACAATCTAGCATAAAAACCACTCACACAATTTTTGCACGATTTTAAATTTTCAATATGTTTCATA
13484454 CTTATTTACTTTTAGATACAT
453 CTTATTTACTTTTAGATACAT
* *
13484475 TTTTAAGTTCTCTAAGGAACTTATGAGATTACATATGAAAGATATAGATATTTGTATATTATTTG
1 TTTT-AGTGCTCTAAGGAACTTATGAGATTACATATGAAAGATCTAGATATTTG-ATATTATTTG
*
13484540 TGAAGTTGTTATTGGCGC-TTGATGTTATAAATTATGTGCTAACTTGTTTTAACAGTTTAT-AGG
64 TGAAGTTGTTATTGGCACTTTGATGTTATAAATTATGTGCTAACTTGTTTTAACAGTTTATAAGG
** * * * *
13484603 GATAGCTGTTGAAGCGTAATACTTTTAAAATTTTTTGTTTTGCTTTGAAAATTATTTTCACTGGA
129 G-TAGCACTTGAAGCGTAATACTTTTGAAATTTTATGTTTTGCTTTGAAAATGATTTTTACT-GA
* *
13484668 GTCAAGCTTTAAAATATGAAAGCATTGTTTTAGCAGGTTTTTAAATGCAAAAGAATTTGAATATC
192 GTCAAGCTTTAAAATATGAAAGCATTGTTTTAGCAGGTTTTTAAATGGAAATGAATTTGAATATC
* * *
13484733 TTCAATTCCAACGTTTTAAACGTGCTCGAA-AAATAAACATAGTAAAACTTGCGTTTGTTTTAAT
257 TTCAAATCCAACGTTTTAAACGTGCTCGAACAAAGAAACATAGTAAAACTTGCATTTGTTTTAAT
* *
13484797 TTTTGACAGTTTTAAGTGTAAGTT
322 TTTTCACAGTGTTAAGTGTAAGTT
13484821 AGGTAAAACT
Statistics
Matches: 733, Mismatches: 78, Indels: 20
0.88 0.09 0.02
Matches are distributed among these distances:
472 5 0.01
473 6 0.01
474 120 0.16
475 331 0.45
476 269 0.37
477 2 0.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (473 bp):
TTTTAGTGCTCTAAGGAACTTATGAGATTACATATGAAAGATCTAGATATTTGATATTATTTGTG
AAGTTGTTATTGGCACTTTGATGTTATAAATTATGTGCTAACTTGTTTTAACAGTTTATAAGGGT
AGCACTTGAAGCGTAATACTTTTGAAATTTTATGTTTTGCTTTGAAAATGATTTTTACTGAGTCA
AGCTTTAAAATATGAAAGCATTGTTTTAGCAGGTTTTTAAATGGAAATGAATTTGAATATCTTCA
AATCCAACGTTTTAAACGTGCTCGAACAAAGAAACATAGTAAAACTTGCATTTGTTTTAATTTTT
CACAGTGTTAAGTGTAAGTTGTAAAAGATTTTGGAGCTTAAAACATCAGACGTTGTTTTTGAACA
ATCTAGCATAAAAACCACTCACACAATTTTTGCACGATTTTAAATTTTCAATATGTTTCATACTT
ATTTACTTTTAGATACAT
Found at i:13485089 original size:124 final size:124
Alignment explanation
Indices: 13484846--13485105 Score: 315
Period size: 124 Copynumber: 2.1 Consensus size: 124
13484836 TGGTTTTTAA
* * *
13484846 TTTTTCACAGTGTTAAGCGTAACTTAGAAAGTATTTTGAAGCTCAAAATATCAGACTTTATTTTC
1 TTTTTCATAGTGTTAAGCGTAACTTAGAAAGGATTTTGAAGCTCAAAACATCAGACTTTATTTTC
* * **** *
13484911 GAACAATTCTGGCATAAAAAACATTAGAACAATTTTCGTGTGATTTTAATTTTTTGTTG
66 GAACAATTATGGCATAAAAAACATTAGAACAATTATCGCACAATTTTAATTTTTTGCTG
* * * * * *
13484970 TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTTGAAGTTTAAAACATCAGACTTTGGTTTT
1 TTTTTCATAGTGTTAAGCGTAACTTAGAAAGGATTTTGAAGCTCAAAACATCAGACTTT-ATTTT
* * *
13485035 -GAACAATTATGGGCATAAAAACCATTCGCACAATTATCGCACAATTTTAATTTTTTGCTG
65 CGAACAATTAT-GGCATAAAAAACATTAGAACAATTATCGCACAATTTTAATTTTTTGCTG
*
13485095 TGTTTCATAGT
1 TTTTTCATAGT
13485106 TATTTGCTTT
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
124 60 0.53
125 54 0.47
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (124 bp):
TTTTTCATAGTGTTAAGCGTAACTTAGAAAGGATTTTGAAGCTCAAAACATCAGACTTTATTTTC
GAACAATTATGGCATAAAAAACATTAGAACAATTATCGCACAATTTTAATTTTTTGCTG
Found at i:13485630 original size:476 final size:467
Alignment explanation
Indices: 13484970--13486475 Score: 1915
Period size: 454 Copynumber: 3.2 Consensus size: 467
13484960 TTTTTTGTTG
*
13484970 TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTTGAAGTTTAAAACATCAGACTTTGGTTTT
1 TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTTGAA-CTTAAAACATCAGACTTT-GTTTT
* *
13485035 GAACAATTATGGGCATAAAAACCATTCGCACAATTATCGCACAATTTTAATTTT-TTGCTGTGTT
64 GAACAATTCTGGGCATAAAAACCATTCGCACAATTATTGCACAATTTTAATTTTCTT--TGTGTT
*
13485099 TCATAGTTATTTGCTTTTAGATACATTTTTAGGTGCTCTAAGGAT-TTTGAGGAATTACATATGA
127 TCATACTTATTTGCTTTTAGATACATTTTTAGGTGCTCTAAGGATGTTT-AGGAATTACATATGA
*
13485163 ATGATCTTCATATTTGGATATTATTTATGAAGTTGTTATTGGTGCTTAATGTGAATAATTATGTG
191 ATGATCTTCATATTTGGATATTATTTGTGAAGTTGTTATTGG-GCTT-ATGTG-AT-ATTATGTG
13485228 CTAAATTGTTTTAGCAGTTTATAGGGGGAGCACTAAAAGCCTAATGCTTTTGAAATTTTATGTTT
252 C--AATTGTTTTAGCAGTTTATAGGGGGAGCACTAAAAGCCTAATGCTTTTGAAATTTTATGTTT
* * *
13485293 TCCTTTGAAAATGATTTTCACTGGAGTCAAGATTTAAAATATGAAAGCATTGTTTTAGCAGGTTT
315 TCCTTTGAAAATGATTTTCACTAGAGTCAAGCTTTAAAATATGAAAGCATTGTTTTAGAAGGTTT
* * *
13485358 TTAAATGAAAATGAATTTGAATATCTTGAATCCAATGTTTTAAACTCACTCAAACAAAGAAACTT
380 TTAAATGGAAATGAATTTGAATATCTTGAATCCAATGTTTTAAACTCGCTCAAACAAAGAAACAT
*
13485423 GGTAAAACTTGCGTTGGTTTTAA
445 GGTAAAACTTGCATTGGTTTTAA
*
13485446 TTTTTCATAGTGTTAAGTGGAAGTTATAAAGGATTTTGCAACTTAAAACATCAGA-TTATGTTTC
1 TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTTG-AACTTAAAACATCAGACTT-TGTTT-
* **
13485510 TGAACAATTCTGGGCATAAAAACCATTTGCACAATTATTGCATGATTTTAATATTTCTTTGTGTT
63 TGAACAATTCTGGGCATAAAAACCATTCGCACAATTATTGCACAATTTTAAT-TTTCTTTGTGTT
*
13485575 TCATACTTATTTGCTTTTAGATACATTTTTAGGTGCTTTAAGGATGTTTAGGAATTACATATGAA
127 TCATACTTATTTGCTTTTAGATACATTTTTAGGTGCTCTAAGGATGTTTAGGAATTACATATGAA
* ** *
13485640 TTAAATTCATATTTGGATATTATTTGTGAA---G---TT-GG-ATAT-TG---TTATGTGC---T
192 TGATCTTCATATTTGGATATTATTTGTGAAGTTGTTATTGGGCTTATGTGATATTATGTGCAATT
* * ** *
13485690 -TTCTACCAGTTTATAGGGGGAGCACTCGAAGCCTAATGCTTTTGAAATTTTATGTTTTGCTTTG
257 GTTTTAGCAGTTTATAGGGGGAGCACTAAAAGCCTAATGCTTTTGAAATTTTATGTTTTCCTTTG
* *
13485754 AAAATGATTTTCACTAGAGTAAAGCTTTAAAATAAGAAAGCATTGTTTTAGAAGGTTTTTAAATG
322 AAAATGATTTTCACTAGAGTCAAGCTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTTTAAATG
* * * * *
13485819 GAAACGAATTTGAAAATCCTGAATCCAATGTTTCAAAC-CTGCTCAAACAAAGAAACAT-ATAAA
387 GAAATGAATTTGAATATCTTGAATCCAATGTTTTAAACTC-GCTCAAACAAAGAAACATGGT-AA
*
13485882 AACTTCCATTGGTTTTAA
450 AACTTGCATTGGTTTTAA
* * *
13485900 TTTTTCATAGTGTTAAGTGTAAGTTATAGAGGATTTTGGAGCTTAAAACATCAGACTTTTCTTTC
1 TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTT-GAACTTAAAACATCAGAC-TTTGTTT-
* * *
13485965 TGAACGATTTTGGGCATAAAAACCATTCGCACAATTATTGCACAATTTTAATTTTTCATTGTG-T
63 TGAACAATTCTGGGCATAAAAACCATTCGCACAATTATTGCACAATTTTAA-TTTTCTTTGTGTT
* * ** * *
13486029 TCATACTTATTTTCTTTTAGATGCAAATTTAGGCGCTCTAAGGA-GTTGAGGAATTACATATGAA
127 TCATACTTATTTGCTTTTAGATACATTTTTAGGTGCTCTAAGGATGTTTAGGAATTACATATGAA
* *
13486093 TGATCTTGATATTTGGATATTATTTGTGAAGTTGTTATTGGCGCTTGATGTGATTAGTTATCTGC
192 TGATCTTCATATTTGGATATTATTTGTGAAGTTGTTATTGG-GCTT-ATGTGA-TA-TTATGTGC
**
13486158 GAACTTGTTTTAGCAGTTTATAGAAGGAGCACTAAAAGCCTAATGCTTTTGAAATTTTATGTTTT
253 -AA-TTGTTTTAGCAGTTTATAGGGGGAGCACTAAAAGCCTAATGCTTTTGAAATTTTATGTTTT
* * * * * * * * * *
13486223 TCTTCGAATATGATTTTCTCTATAGTCCAGCTTAAAAACATGAAAGAATTGTTTTAGAAGGGTTT
316 CCTTTGAAAATGATTTTCACTAGAGTCAAGCTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTT
* * * * *
13486288 TAAATGGAAATGAATTTGAATATATTGAATCGAATGTTTTAAACTTGCTCAAACAATGAAACAAG
381 TAAATGGAAATGAATTTGAATATCTTGAATCCAATGTTTTAAACTCGCTCAAACAAAGAAACATG
*
13486353 GTAAAACTAGCATTGGTTTTTAA
446 GTAAAACTTGCATTGG-TTTTAA
* * * * *
13486376 TTTTTCATAGTGTTAAGCGTAACTTAGAAAGGATTTTGAAGTTCAAAATATCAGACTTTGTTTTC
1 TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTTGAACTT-AAAACATCAGACTTTGTTTT-
* * *
13486441 AAACAATTCTGGGCATAAAAAACATTCGAACAATT
64 GAACAATTCTGGGCATAAAAACCATTCGCACAATT
13486476 TTCGTGTGAT
Statistics
Matches: 891, Mismatches: 100, Indels: 79
0.83 0.09 0.07
Matches are distributed among these distances:
453 47 0.05
454 275 0.31
455 62 0.07
456 4 0.00
459 2 0.00
460 9 0.01
461 1 0.00
462 1 0.00
463 2 0.00
464 2 0.00
465 2 0.00
466 2 0.00
467 1 0.00
468 1 0.00
469 8 0.01
470 2 0.00
473 1 0.00
474 2 0.00
475 217 0.24
476 240 0.27
477 8 0.01
478 2 0.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (467 bp):
TTTTTCATAGTGTTAAGTGTAAGTTATAAAGGATTTTGAACTTAAAACATCAGACTTTGTTTTGA
ACAATTCTGGGCATAAAAACCATTCGCACAATTATTGCACAATTTTAATTTTCTTTGTGTTTCAT
ACTTATTTGCTTTTAGATACATTTTTAGGTGCTCTAAGGATGTTTAGGAATTACATATGAATGAT
CTTCATATTTGGATATTATTTGTGAAGTTGTTATTGGGCTTATGTGATATTATGTGCAATTGTTT
TAGCAGTTTATAGGGGGAGCACTAAAAGCCTAATGCTTTTGAAATTTTATGTTTTCCTTTGAAAA
TGATTTTCACTAGAGTCAAGCTTTAAAATATGAAAGCATTGTTTTAGAAGGTTTTTAAATGGAAA
TGAATTTGAATATCTTGAATCCAATGTTTTAAACTCGCTCAAACAAAGAAACATGGTAAAACTTG
CATTGGTTTTAA
Found at i:13486559 original size:127 final size:125
Alignment explanation
Indices: 13486376--13486622 Score: 343
Period size: 127 Copynumber: 2.0 Consensus size: 125
13486366 TGGTTTTTAA
* *
13486376 TTTTTCATAGTGTTAAGCGTAACTTAGAAAGGATTTTGAAGTTCAAAATATCAGACTTT-GTTTT
1 TTTTTCATAGTGTTAAGCGTAACTTACAAAGGATTTTGAAGTTCAAAACATCAGACTTTGGTTTT
* ***
13486440 CAAACAATTCTGGGCATAAAAAACATTCGAACAATTTTCGTGTGATTTTAATTTTTTGTTG
66 -AAACAATTCTGGGCATAAAAAACATTCGAACAATTATCGCACGATTTTAATTTTTTGTTG
* * * *
13486501 TTTTTCATAGTGTTAAGTGTAAGTTATACAAAGGATTTTGAAGTTTACAACATCAGACTTTGGTT
1 TTTTTCATAGTGTTAAGCGTAA-CT-TACAAAGGATTTTGAAGTTCAAAACATCAGACTTTGGTT
* * *
13486566 TTGAACAATTCTGGGCATAAAAACCATTCGCACAATTATCGCACGATTTTAATTTTT
64 TTAAACAATTCTGGGCATAAAAAACATTCGAACAATTATCGCACGATTTTAATTTTT
13486623 CACTGTGTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
125 21 0.20
126 1 0.01
127 79 0.75
128 5 0.05
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (125 bp):
TTTTTCATAGTGTTAAGCGTAACTTACAAAGGATTTTGAAGTTCAAAACATCAGACTTTGGTTTT
AAACAATTCTGGGCATAAAAAACATTCGAACAATTATCGCACGATTTTAATTTTTTGTTG
Found at i:13487577 original size:6 final size:6
Alignment explanation
Indices: 13487551--13487632 Score: 73
Period size: 6 Copynumber: 13.7 Consensus size: 6
13487541 TAGGTAAGTC
*
13487551 TATTTT TTTTCTT TA-TTT TATTTT TATTTT TATTTT T-TTTGT T-TTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTT-T TATTTT
* *
13487598 ACATTTT TA-TTT TATTTT TATTTAT TATTAT TATT
1 -TATTTT TATTTT TATTTT TATTT-T TATTTT TATT
13487633 GTTTTATATA
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.20
6 39 0.61
7 12 0.19
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:13487587 original size:30 final size:29
Alignment explanation
Indices: 13487551--13487616 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
13487541 TAGGTAAGTC
*
13487551 TATTTTTTTTCTTTATTT-TATTTTTATTTT
1 TATTTTTTTTCTTT-TTTACATTTTTA-TTT
*
13487581 TATTTTTTTTGTTTTTTACATTTTTATTT
1 TATTTTTTTTCTTTTTTACATTTTTATTT
13487610 TATTTTT
1 TATTTTT
13487617 ATTTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.82
Consensus pattern (29 bp):
TATTTTTTTTCTTTTTTACATTTTTATTT
Found at i:13487590 original size:21 final size:21
Alignment explanation
Indices: 13487556--13487666 Score: 71
Period size: 21 Copynumber: 5.0 Consensus size: 21
13487546 AAGTCTATTT
* *
13487556 TTTTTCTTTATTTTATTTTTA
1 TTTTTATTTTTTTTATTTTTA
*
13487577 TTTTTATTTTTTTTGTTTTTTACA
1 TTTTTATTTTTTTT-ATTTTT--A
13487601 TTTTTATTTTATTTTTATTTATTA
1 TTTTTA-TTT-TTTTTATTT-TTA
* * * *
13487625 TTATTA-TTGTTTTATATATA
1 TTTTTATTTTTTTTATTTTTA
* * *
13487645 TATATATTTCTTTTATTTTTA
1 TTTTTATTTTTTTTATTTTTA
13487666 T
1 T
13487667 CTTAGGTATT
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
20 5 0.07
21 31 0.45
22 7 0.10
24 13 0.19
25 6 0.09
26 7 0.10
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTTA
Found at i:13487799 original size:22 final size:21
Alignment explanation
Indices: 13487774--13487867 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 21
13487764 TTATATGTTA
13487774 TAATTTATCTGTT-ATTTAATTT
1 TAATTTATCTGTTAATTT--TTT
13487796 TAATTTATCTGTTAATTTTTT
1 TAATTTATCTGTTAATTTTTT
* *
13487817 TGATTTATCTGATTTATTTTCATT
1 TAATTTATCTG-TTAATTTT--TT
*
13487841 TGATTT-T-T-TTAATTTTTT
1 TAATTTATCTGTTAATTTTTT
*
13487859 TTATTTATC
1 TAATTTATC
13487868 CGGTTGGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
18 7 0.11
19 1 0.02
20 7 0.11
21 13 0.21
22 21 0.34
23 5 0.08
24 8 0.13
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
TAATTTATCTGTTAATTTTTT
Found at i:13487812 original size:12 final size:12
Alignment explanation
Indices: 13487774--13487813 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
13487764 TTATATGTTA
13487774 TAATTTATCTGT
1 TAATTTATCTGT
13487786 T-ATTTAAT-T-T
1 TAATTT-ATCTGT
13487796 TAATTTATCTGT
1 TAATTTATCTGT
13487808 TAATTT
1 TAATTT
13487814 TTTTGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATTTATCTGT
Found at i:13488623 original size:12 final size:13
Alignment explanation
Indices: 13488599--13488627 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13488589 CCGACGTCCT
13488599 GAGCCGCTTCTCC
1 GAGCCGCTTCTCC
13488612 GAGCCG-TTCTCC
1 GAGCCGCTTCTCC
13488624 GAGC
1 GAGC
13488628 TTCTTCAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.10, C:0.41, G:0.28, T:0.21
Consensus pattern (13 bp):
GAGCCGCTTCTCC
Found at i:13488701 original size:5 final size:5
Alignment explanation
Indices: 13488670--13488784 Score: 63
Period size: 5 Copynumber: 21.6 Consensus size: 5
13488660 TTAGATTAGG
* * * *
13488670 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* * * *
13488719 TTTCT TTATTT CTTTAT TTTTT TATTTT TTTAT TTTCACT TTTAT TTTAT
1 TTTAT TT-TAT -TTTAT TTTAT T-TTAT TTTAT TTT-A-T TTTAT TTTAT
13488769 TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT
13488785 CTTTAAATAA
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
3 3 0.03
5 48 0.55
6 30 0.34
7 6 0.07
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:13488715 original size:11 final size:11
Alignment explanation
Indices: 13488684--13488784 Score: 75
Period size: 11 Copynumber: 8.8 Consensus size: 11
13488674 TTTAATATTC
*
13488684 TTTTATCTTTA
1 TTTTATTTTTA
13488695 TTTTATTTTTA
1 TTTTATTTTTA
13488706 TTTT-TGTTTTA
1 TTTTAT-TTTTA
*
13488717 CTTTTCTTTATT-
1 -TTTTATTT-TTA
13488729 TCTTTATTTTT-
1 T-TTTATTTTTA
13488740 TTATT-TTTTTA
1 TT-TTATTTTTA
*
13488751 TTTTCACTTTTA
1 TTTT-ATTTTTA
13488763 TTTTATTTTATTA
1 TTTTA-TTT-TTA
13488776 TTTTATTTT
1 TTTTATTTT
13488785 CTTTAAATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.12
11 29 0.39
12 26 0.35
13 11 0.15
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13488754 original size:8 final size:8
Alignment explanation
Indices: 13488695--13488754 Score: 68
Period size: 8 Copynumber: 7.1 Consensus size: 8
13488685 TTTATCTTTA
13488695 TTTTATTT
1 TTTTATTT
13488703 TTATT-TTT
1 TT-TTATTT
13488711 GTTTTACTTT
1 -TTTTA-TTT
13488721 TCTTTATTT
1 T-TTTATTT
*
13488730 CTTTATTT
1 TTTTATTT
13488738 TTTTATTT
1 TTTTATTT
13488746 TTTTATTT
1 TTTTATTT
13488754 T
1 T
13488755 CACTTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 30 0.67
9 8 0.18
10 7 0.16
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:13488763 original size:12 final size:10
Alignment explanation
Indices: 13488670--13488784 Score: 63
Period size: 11 Copynumber: 10.8 Consensus size: 10
13488660 TTAGATTAGG
*
13488670 TTTATTTAAT
1 TTTATTTTAT
* *
13488680 ATTCTTTTAT
1 TTTATTTTAT
13488690 CTTTATTTTATT
1 -TTTATTTTA-T
*
13488702 TTTATTTTTGT
1 TTTA-TTTTAT
*
13488713 TTTACTTTTCT
1 TTTA-TTTTAT
*
13488724 TTATTTCTTTAT
1 TT-TAT-TTTAT
* *
13488736 TTTTTTATTTT
1 TTTATT-TTAT
13488747 TTTATTTTCACT
1 TTTATTTT-A-T
13488759 TTTATTTTAT
1 TTTATTTTAT
13488769 TTTA--TTAT
1 TTTATTTTAT
13488777 TTTATTTT
1 TTTATTTT
13488785 CTTTAAATAA
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
8 8 0.10
10 17 0.21
11 36 0.44
12 21 0.26
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.77
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:13488859 original size:58 final size:58
Alignment explanation
Indices: 13488800--13489062 Score: 393
Period size: 58 Copynumber: 4.6 Consensus size: 58
13488790 AATAAAATCA
13488800 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*** *
13488857 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
13488915 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** * ** * *
13488973 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
13489031 AAAAGAATATTTTTGGAGAAAAGTTGAAAGTA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTA
13489063 NNNNNNNNNN
Statistics
Matches: 183, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 0.27
58 134 0.73
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:13489007 original size:116 final size:115
Alignment explanation
Indices: 13488800--13489062 Score: 438
Period size: 116 Copynumber: 2.3 Consensus size: 115
13488790 AATAAAATCA
* *
13488800 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAGG
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAG
* *
13488865 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
66 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
13488915 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCAAAAAAA
* *
13488980 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
65 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
*
13489031 AAAAGAATATTTTT-GGAGAAAAGTTGAAAGTA
1 AAAAAAATATTTTTGGGA-AAAAGTTGAAAGTA
13489063 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
115 55 0.40
116 84 0.60
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (115 bp):
AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAG
GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
Found at i:13490539 original size:15 final size:17
Alignment explanation
Indices: 13490503--13490539 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13490493 AATATAACTT
*
13490503 ATATAAAAGATAAGATA
1 ATATAAAAGATAACATA
13490520 ATATAAAA-ATAACA-A
1 ATATAAAAGATAACATA
13490535 ATATA
1 ATATA
13490540 TCTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (17 bp):
ATATAAAAGATAACATA
Found at i:13490743 original size:17 final size:15
Alignment explanation
Indices: 13490711--13490750 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
13490701 AAATTATTAT
*
13490711 TTAATAATTAATATA
1 TTAATTATTAATATA
13490726 TTAAATTATTATATATA
1 TT-AATTATTA-ATATA
13490743 TTAATTAT
1 TTAATTAT
13490751 AAATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 13 0.59
17 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTATTAATATA
Found at i:13490749 original size:13 final size:13
Alignment explanation
Indices: 13490705--13490775 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
13490695 TAAATTAAAT
*
13490705 TATTATTTA-ATA
1 TATTAATTATATA
13490717 -ATTAA-TATATTA
1 TATTAATTATA-TA
*
13490729 AATT-ATTATATA
1 TATTAATTATATA
13490741 TATTAATTATA-A
1 TATTAATTATATA
13490753 -ATTAATTATATA
1 TATTAATTATATA
13490765 T-TTAGATTATA
1 TATTA-ATTATA
13490776 AAAGTATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
10 2 0.04
11 15 0.31
12 13 0.27
13 19 0.39
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (13 bp):
TATTAATTATATA
Found at i:13490764 original size:24 final size:23
Alignment explanation
Indices: 13490700--13490777 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 23
13490690 TTAAATAAAT
*
13490700 TAAATTATTATTTAATAATTAATATA
1 TAAATTATTATAT-AT-ATTAAT-TA
13490726 TTAAATTATTATATATATTAATTA
1 -TAAATTATTATATATATTAATTA
13490750 TAAATTAATTATATAT-TTAGATTA
1 TAAATT-ATTATATATATTA-ATTA
13490774 TAAA
1 TAAA
13490778 AGTATATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
23 9 0.19
24 19 0.40
25 6 0.12
26 2 0.04
27 12 0.25
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
TAAATTATTATATATATTAATTA
Found at i:13490767 original size:55 final size:53
Alignment explanation
Indices: 13490649--13490768 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 53
13490639 ATTTGAATAC
*
13490649 AATTATATTATGT-ATAATTATATAATAATATTTTATAATATTTAAATAAATTA
1 AATTATA-TATTTAATAATTATATAATAATATTTTATAATATTTAAATAAATTA
*
13490702 AATTAT-TATTTAATAATTAATATATTAA-ATTATTAT-ATATATTAATTATAAATT-
1 AATTATATATTTAATAATT-ATATAATAATATT-TTATAATAT-TTAA--ATAAATTA
13490756 AATTATATATTTA
1 AATTATATATTTA
13490769 GATTATAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
51 4 0.07
52 13 0.22
53 22 0.38
54 6 0.10
55 13 0.22
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (53 bp):
AATTATATATTTAATAATTATATAATAATATTTTATAATATTTAAATAAATTA
Found at i:13491037 original size:16 final size:15
Alignment explanation
Indices: 13491016--13491050 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13491006 TTAATAATTT
13491016 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
13491032 TATAATAATTAAATG
1 TATAATAATCAAATG
13491047 TATA
1 TATA
13491051 CGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:13491215 original size:13 final size:13
Alignment explanation
Indices: 13491197--13491221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13491187 ATAACAAAAA
13491197 TTAAATATTTAAT
1 TTAAATATTTAAT
13491210 TTAAATATTTAA
1 TTAAATATTTAA
13491222 AATTTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATATTTAAT
Found at i:13491253 original size:23 final size:24
Alignment explanation
Indices: 13491209--13491253 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
13491199 AAATATTTAA
*
13491209 TTTAAATATTTAAAATTTAAAATT
1 TTTAAATATTTAAAATTCAAAATT
* *
13491233 TTTAATTA-TTAACATTCAAAA
1 TTTAAATATTTAAAATTCAAAA
13491254 AATTAATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAAATATTTAAAATTCAAAATT
Found at i:13492146 original size:19 final size:21
Alignment explanation
Indices: 13492100--13492147 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
13492090 AATTATTAAT
*
13492100 TTTAAATAAATTATATATTAA
1 TTTAAATAAATTATATATAAA
*
13492121 TTATAAATAGA-TATA-ATAAA
1 TT-TAAATAAATTATATATAAA
13492141 TTTAAAT
1 TTTAAAT
13492148 CTTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 6 0.25
22 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAATAAATTATATATAAA
Found at i:13492186 original size:24 final size:24
Alignment explanation
Indices: 13492131--13492186 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
13492121 TTATAAATAG
* *
13492131 ATATAATAAATTTAAATCTTATTA
1 ATATATTAAATTTAAATATTATTA
*
13492155 ATAT-TTAAATTTTAATATT-TTGA
1 ATATATTAAATTTAAATATTATT-A
13492178 ATATATTAA
1 ATATATTAA
13492187 TATATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.07
23 17 0.63
24 8 0.30
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATATTAAATTTAAATATTATTA
Found at i:13493665 original size:20 final size:19
Alignment explanation
Indices: 13493631--13493688 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
13493621 ATATTATTTA
*
13493631 ATAAT-TTAATATAATAAT
1 ATAATATTATTATAATAAT
13493649 ACTAATATTATTATAATTAAT
1 A-TAATATTATTATAA-TAAT
* *
13493670 ATATTCTTATTATAA-AAT
1 ATAATATTATTATAATAAT
13493688 A
1 A
13493689 AGAATAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 20 0.59
21 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATATTATTATAATAAT
Found at i:13493835 original size:20 final size:22
Alignment explanation
Indices: 13493798--13493837 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13493788 CATACCAGAT
*
13493798 TATTTATATAAACTTTAAATAA
1 TATTTATATAAACATTAAATAA
13493820 TATTTATA-AAA-ATTAAAT
1 TATTTATATAAACATTAAAT
13493838 GAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTTATATAAACATTAAATAA
Found at i:13494250 original size:21 final size:21
Alignment explanation
Indices: 13494218--13494270 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
13494208 TTAATTTACT
13494218 ATTATATTAAAACAAAATATTTG
1 ATTATA-TAAAAC-AAATATTTG
* *
13494241 ATT-TATAAAACAAGTATTTT
1 ATTATATAAAACAAATATTTG
13494261 ATTATATAAA
1 ATTATATAAA
13494271 TTAAACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 2 0.07
23 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
ATTATATAAAACAAATATTTG
Found at i:13494953 original size:21 final size:21
Alignment explanation
Indices: 13494929--13494988 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
13494919 TAATTATACC
*
13494929 TAATATTGATATTATTATTTG
1 TAATATTGATATTATTATTTA
*
13494950 TAATA-TGTATATTAATTAGTTA
1 TAATATTG-ATATT-ATTATTTA
*
13494972 TAATATT-ATTTTATTAT
1 TAATATTGATATTATTAT
13494989 AATATAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 6 0.19
21 14 0.44
22 11 0.34
23 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TAATATTGATATTATTATTTA
Found at i:13495568 original size:22 final size:23
Alignment explanation
Indices: 13495518--13495576 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
13495508 TTAAGACTAT
* * *
13495518 TAATAAATAAAATAACTATATAA
1 TAATTAATAAATTAAATATATAA
* *
13495541 TTATT-ATAAATTAAATATATTA
1 TAATTAATAAATTAAATATATAA
13495563 TAATTAATAAATTA
1 TAATTAATAAATTA
13495577 GTTAATACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTAATAAATTAAATATATAA
Found at i:13495642 original size:15 final size:15
Alignment explanation
Indices: 13495610--13495646 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
13495600 TTTGATTATT
13495610 TAATA-TTTTTATAC
1 TAATATTTTTTATAC
13495624 TAATATTTTTTGATA-
1 TAATATTTTTT-ATAC
13495639 TAATATTT
1 TAATATTT
13495647 GATACATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 13 0.62
16 3 0.14
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TAATATTTTTTATAC
Found at i:13495839 original size:23 final size:21
Alignment explanation
Indices: 13495813--13495856 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
13495803 TTAGTTTAAT
13495813 ATTATAACATTAATATAATATAA
1 ATTATAACATTAAT-T-ATATAA
* *
13495836 ATTATTATATTAATTATATAA
1 ATTATAACATTAATTATATAA
13495857 TTAATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTATAACATTAATTATATAA
Found at i:13495864 original size:23 final size:23
Alignment explanation
Indices: 13495808--13495866 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
13495798 TATTATTAGT
13495808 TTAATATTATAACATTAATATAA
1 TTAATATTATAACATTAATATAA
13495831 TATAAATTATTATATTA-ATT-ATATAA
1 T-T-AA-TATTATA--ACATTAATATAA
13495857 TTAATATTAT
1 TTAATATTAT
13495867 TTGATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 3 0.10
26 14 0.45
27 3 0.10
28 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATATTATAACATTAATATAA
Found at i:13495911 original size:29 final size:30
Alignment explanation
Indices: 13495879--13495954 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 30
13495869 GATAAATTAT
*
13495879 AATTTAAT-ATAATT-ATAAATTCTTAATAA
1 AATTTAATAATAATTAATAAATACTTAAT-A
*
13495908 AATTTCATAATTAATTAAATAAATACTTAATA
1 AATTTAATAA-TAATT-AATAAATACTTAATA
*
13495940 ATTTTAATAATAATT
1 AATTTAATAATAATT
13495955 TGTAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 7 0.18
30 1 0.03
31 10 0.26
32 9 0.23
33 12 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTTAATAATAATTAATAAATACTTAATA
Done.