Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
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: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 3 of 17
Found at i:256815 original size:14 final size:14
Alignment explanation
Indices: 256778--256825 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
256768 TAAAATATTT
256778 TAATTT-TATTAAA
1 TAATTTATATTAAA
**
256791 TTTTATTATATTAAA
1 TAAT-TTATATTAAA
*
256806 TAATTTATATTATA
1 TAATTTATATTAAA
256820 TAATTT
1 TAATTT
256826 TTAATTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.07
14 17 0.61
15 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTTATATTAAA
Found at i:256833 original size:34 final size:34
Alignment explanation
Indices: 256741--256858 Score: 127
Period size: 34 Copynumber: 3.5 Consensus size: 34
256731 TAATATATGT
*
256741 ATTTATATTATAT--TTTATAATTATATTTAAAATA
1 ATTTATATTATATAATTTTTAATTATA-TT-AAATA
* * *
256775 TTTTA-ATTTTATTAAATTTT-ATTATATTAAATA
1 ATTTATATTATA-TAATTTTTAATTATATTAAATA
* *
256808 ATTTATATTATATAATTTTTAATTATATTTATTA
1 ATTTATATTATATAATTTTTAATTATATTAAATA
256842 ATTTATATTATATAATT
1 ATTTATATTATATAATT
256859 ATAACATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
33 21 0.30
34 40 0.57
35 6 0.09
36 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
ATTTATATTATATAATTTTTAATTATATTAAATA
Found at i:256835 original size:20 final size:19
Alignment explanation
Indices: 256782--256854 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 19
256772 ATATTTTAAT
256782 TTTATTAAATTT-TATTATA
1 TTTATT-AATTTATATTATA
* *
256801 TTAAATAATTTATATTATA
1 TTTATTAATTTATATTATA
*
256820 -TAATT--TTTA-ATTATA
1 TTTATTAATTTATATTATA
256835 TTTATTAATTTATATTATA
1 TTTATTAATTTATATTATA
256854 T
1 T
256855 AATTATAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
15 6 0.13
16 8 0.18
18 13 0.29
19 18 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATTAATTTATATTATA
Found at i:257315 original size:23 final size:23
Alignment explanation
Indices: 257267--257319 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
257257 TATTATTTTT
* *
257267 TTTATGAATTTAATTAATAAATA
1 TTTATTAATATAATTAATAAATA
257290 TTTATTAATATAATTAA-AAATAA
1 TTTATTAATATAATTAATAAAT-A
257313 TTT-TTAA
1 TTTATTAA
257320 AATTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATTAATATAATTAATAAATA
Found at i:257868 original size:16 final size:17
Alignment explanation
Indices: 257828--257870 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
257818 AAACCGATCG
257828 ATCTAAACCCAAAAATA
1 ATCTAAACCCAAAAATA
*
257845 AT-TCAAACTC-AAAATA
1 ATCT-AAACCCAAAAATA
257861 ATCTAAACCC
1 ATCTAAACCC
257871 GTAATGACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (17 bp):
ATCTAAACCCAAAAATA
Found at i:258721 original size:31 final size:31
Alignment explanation
Indices: 258658--258722 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
258648 CTAAATATTA
* * *
258658 AACCCAATTGACCCGAATCCAGAGTGACTCG
1 AACCCAATTAACCCGAATCCAAAATGACTCG
* * *
258689 AACCCGATTAACCCGAATCTAAAATGATTCG
1 AACCCAATTAACCCGAATCCAAAATGACTCG
258720 AAC
1 AAC
258723 TTGAAATGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.18
Consensus pattern (31 bp):
AACCCAATTAACCCGAATCCAAAATGACTCG
Found at i:258762 original size:17 final size:17
Alignment explanation
Indices: 258740--258786 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
258730 GATCAAACTC
*
258740 AAAATAA-TCAGAACATG
1 AAAATAACTCA-AACACG
258757 AAAATAACTCAAACACG
1 AAAATAACTCAAACACG
*
258774 AAAATTACTCAAA
1 AAAATAACTCAAA
258787 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 24 0.89
18 3 0.11
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAACTCAAACACG
Found at i:259463 original size:5 final size:5
Alignment explanation
Indices: 259453--259478 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
259443 TTTAAATTTA
259453 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
259479 GAGATTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:259859 original size:15 final size:15
Alignment explanation
Indices: 259832--259877 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
259822 ACTATAGCGC
*
259832 AATTTTCAAAAATAT
1 AATTTTTAAAAATAT
*
259847 -ATTTATTAAAAATTT
1 AATTT-TTAAAAATAT
259862 AATTTTTAAAAA-AT
1 AATTTTTAAAAATAT
259876 AA
1 AA
259878 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 15 0.58
16 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTTTAAAAATAT
Found at i:260327 original size:20 final size:19
Alignment explanation
Indices: 260290--260327 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
260280 TAATTAATTG
260290 TTTTATAATTTCTATGGGA
1 TTTTATAATTTCTATGGGA
260309 TTTTATGAATCTT-TATGGG
1 TTTTAT-AAT-TTCTATGGG
260328 TTATTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 9 0.53
21 2 0.12
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (19 bp):
TTTTATAATTTCTATGGGA
Found at i:262639 original size:30 final size:29
Alignment explanation
Indices: 262575--262687 Score: 90
Period size: 30 Copynumber: 3.8 Consensus size: 29
262565 AATTGCATCG
* *
262575 AAATAAATCTTTAATATTTAATTTATACTC
1 AAATAAATCCTTAA-CTTTAATTTATACTC
*
262605 AAATAAATCCTTAACCTTTAATTTAT-TTC
1 AAATAAATCCTTAA-CTTTAATTTATACTC
262634 AAAATAAAAT-CTTAGACTTTAATTTATAC-C
1 -AAAT-AAATCCTTA-ACTTTAATTTATACTC
* * *
262664 TTAATAAATTCTTAAC-ATAATTTA
1 -AAATAAATCCTTAACTTTAATTTA
262688 ATTTTTTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
28 7 0.10
29 8 0.11
30 50 0.71
31 5 0.07
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (29 bp):
AAATAAATCCTTAACTTTAATTTATACTC
Found at i:262741 original size:29 final size:29
Alignment explanation
Indices: 262709--262774 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
262699 AAAATAAGGG
262709 CTTACTT-GG-ATACAAAAAAAGTATAAAAA
1 CTTACTTAGGTATA-AAAAAAA-TATAAAAA
* *
262738 CTTATTTAGGTATAACAAAAATATAAAAA
1 CTTACTTAGGTATAAAAAAAATATAAAAA
*
262767 TTTACTTA
1 CTTACTTA
262775 AATAATGCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.65
30 8 0.26
31 3 0.10
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.32
Consensus pattern (29 bp):
CTTACTTAGGTATAAAAAAAATATAAAAA
Found at i:263422 original size:24 final size:25
Alignment explanation
Indices: 263394--263440 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
263384 AATAATAAAT
263394 ATAAAATATAATT-ATT-ATTAAAAA
1 ATAAAATA-AATTGATTAATTAAAAA
*
263418 ATAAATTAAATTGATTAATTAAA
1 ATAAAATAAATTGATTAATTAAA
263441 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAAAATAAATTGATTAATTAAAAA
Found at i:263570 original size:34 final size:34
Alignment explanation
Indices: 263523--263587 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
263513 ATTTTAAATT
263523 TTTTTAAAATTTA-TTATATAAAATAAA-ATTTAAA
1 TTTTTAAAATTTATTTA-AT-AAATAAATATTTAAA
**
263557 TTTTTAATTTTTATTTAATAAATAAATATTT
1 TTTTTAAAATTTATTTAATAAATAAATATTT
263588 TTATTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 7 0.26
34 17 0.63
35 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
TTTTTAAAATTTATTTAATAAATAAATATTTAAA
Found at i:263589 original size:21 final size:20
Alignment explanation
Indices: 263563--263607 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
263553 TAAATTTTTA
*
263563 ATTTTTATTTAATAAATAAAT
1 ATTTTTATTAAAT-AATAAAT
*
263584 ATTTTTATTAAATATTAAAT
1 ATTTTTATTAAATAATAAAT
263604 ATTT
1 ATTT
263608 AATTTGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTATTAAATAATAAAT
Found at i:263594 original size:20 final size:21
Alignment explanation
Indices: 263563--263607 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
263553 TAAATTTTTA
263563 ATTTTTATTT-AATAAATAAAT
1 ATTTTTATTTAAAT-AATAAAT
*
263584 ATTTTTA-TTAAATATTAAAT
1 ATTTTTATTTAAATAATAAAT
263604 ATTT
1 ATTT
263608 AATTTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTATTTAAATAATAAAT
Found at i:269060 original size:25 final size:24
Alignment explanation
Indices: 269016--269062 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
269006 AAAAATATCA
*
269016 TATTTAAATTATATTTTTATATTT
1 TATTTAAATTATATTATTATATTT
269040 TATTTAAAATTATCA-TATTATAT
1 TATTT-AAATTAT-ATTATTATAT
269063 ATGTTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 14 0.70
26 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTTAAATTATATTATTATATTT
Found at i:270409 original size:4 final size:4
Alignment explanation
Indices: 270402--270426 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
270392 TATGGTTTTC
270402 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
270427 TCTTCAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:270729 original size:15 final size:15
Alignment explanation
Indices: 270687--270734 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
270677 TTGATTTGTA
270687 AATTTA-TATATT-T
1 AATTTATTATATTAT
270700 ATATTATATT-T-TTAT
1 A-ATT-TATTATATTAT
270715 AATTTATTATATTAT
1 AATTTATTATATTAT
270730 AATTT
1 AATTT
270735 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 5 0.17
14 9 0.31
15 14 0.48
16 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTATTATATTAT
Found at i:270775 original size:52 final size:49
Alignment explanation
Indices: 270705--270825 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 49
270695 TATTTATATT
* * *
270705 ATATTTTTATAATT-TATTATATT-AT-AATTTTATT-TAAAATATTTT-
1 ATATTTATATAATTATAATATATTAATAAATTATATTATAAAA-ATTTTA
270750 ATATTTATATAAATTATAATATATTAATAAATTATATTATAAAAATTTTAAA
1 ATATTTATAT-AATTATAATATATTAATAAATTATATTATAAAAATTTT--A
* *
270802 ATATTTATATATTTATATTATATT
1 ATATTTATATAATTATAATATATT
270826 TATGTAATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
45 9 0.14
46 4 0.06
47 8 0.13
48 2 0.03
49 13 0.21
50 5 0.08
51 12 0.19
52 10 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (49 bp):
ATATTTATATAATTATAATATATTAATAAATTATATTATAAAAATTTTA
Found at i:270796 original size:32 final size:33
Alignment explanation
Indices: 270748--270823 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
270738 TTAAAATATT
* *
270748 TTATATTTATATAAATTATAATATATTAATA-AA
1 TTATA-TTATAAAAATTATAAAATATTAATATAA
* * *
270781 TTATATTATAAAAATTTTAAAATATTTATATAT
1 TTATATTATAAAAATTATAAAATATTAATATAA
270814 TTATATTATA
1 TTATATTATA
270824 TTTATGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 21 0.57
33 16 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TTATATTATAAAAATTATAAAATATTAATATAA
Found at i:271668 original size:8 final size:8
Alignment explanation
Indices: 271651--271710 Score: 52
Period size: 8 Copynumber: 7.8 Consensus size: 8
271641 TGAAATTTAT
271651 TAATAATA
1 TAATAATA
*
271659 TAATATTA
1 TAATAATA
* *
271667 TATTAATT
1 TAATAATA
271675 TAA-AA-A
1 TAATAATA
* *
271681 TATTAAAA
1 TAATAATA
271689 TAATAATA
1 TAATAATA
*
271697 TAATATTA
1 TAATAATA
271705 TAATAA
1 TAATAA
271711 AAATAGTTTG
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 33 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATAATA
Found at i:271709 original size:19 final size:19
Alignment explanation
Indices: 271651--271715 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
271641 TGAAATTTAT
*
271651 TAATAATATAATATTATAT
1 TAATAATATAATATTATAA
*
271670 TAATTTAA-A-AATATTAAAA
1 TAA--TAATATAATATTATAA
271689 TAATAATATAATATTATAA
1 TAATAATATAATATTATAA
*
271708 TAAAAATA
1 TAATAATA
271716 GTTTGTCACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 30 0.79
20 1 0.03
21 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAATATAATATTATAA
Found at i:271712 original size:33 final size:33
Alignment explanation
Indices: 271648--271715 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
271638 AATTGAAATT
* *
271648 TATTAATAATATAATATTATATTAATTTAAAAA
1 TATTAATAATATAATATAATATTAATATAAAAA
271681 TATTAA-AATAATAATATAATATT-ATAATAAAAA
1 TATTAATAAT-ATAATATAATATTAAT-ATAAAAA
271714 TA
1 TA
271716 GTTTGTCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TATTAATAATATAATATAATATTAATATAAAAA
Found at i:273012 original size:17 final size:16
Alignment explanation
Indices: 272952--273012 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
272942 GTATTAATGC
*
272952 ATTTA-ATATATATTAT
1 ATTTATATATAAATT-T
*
272968 ATTTATATTTAAAGTTT
1 ATTTATATATAAA-TTT
* *
272985 ATATATTTATAAATTT
1 ATTTATATATAAATTT
273001 ATGTTATATATA
1 AT-TTATATATA
273013 TATATAACAC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 10 0.29
17 23 0.66
18 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTATATATAAATTT
Found at i:274332 original size:24 final size:24
Alignment explanation
Indices: 274282--274328 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
274272 AAATATTTTT
*
274282 TATTATTTATATCATATATAAATA
1 TATTATTTATATCATATAAAAATA
* *
274306 TATTCTTTATATGATA-AAAAATA
1 TATTATTTATATCATATAAAAATA
274329 ATATAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TATTATTTATATCATATAAAAATA
Found at i:279585 original size:18 final size:17
Alignment explanation
Indices: 279553--279587 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
279543 CAATAAATTT
279553 TTAAAAAATAAAAATAA
1 TTAAAAAATAAAAATAA
*
279570 TTAAAATATCAAAAATAA
1 TTAAAAAAT-AAAAATAA
279588 AAACATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAAAAATAAAAATAA
Found at i:281796 original size:42 final size:43
Alignment explanation
Indices: 281715--281797 Score: 100
Period size: 42 Copynumber: 1.9 Consensus size: 43
281705 ATATATTATT
*
281715 AATTAAATAATATTTTATTTAAATTTAATTATAAAAATATAAAA
1 AATTAAATAATA-TTTATTTAAATATAATTATAAAAATATAAAA
*
281759 AATTAATATAATA-TT-TTTAAATAT-ATTTTAAATAATATA
1 AATTAA-ATAATATTTATTTAAATATAATTATAAA-AATATA
281798 TTCATATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 7 0.20
42 14 0.40
43 2 0.06
44 6 0.17
45 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (43 bp):
AATTAAATAATATTTATTTAAATATAATTATAAAAATATAAAA
Found at i:282770 original size:20 final size:20
Alignment explanation
Indices: 282747--282877 Score: 51
Period size: 20 Copynumber: 6.5 Consensus size: 20
282737 GTTTATATAT
282747 TTTATTATATTATAATATTA
1 TTTATTATATTATAATATTA
**
282767 TTTAAAATATT-T--T-TTA
1 TTTATTATATTATAATATTA
* * *
282783 TTTATATAAATTTTATTA-TA
1 TTTAT-TATATTATAATATTA
* *
282803 TTTATAAT-TTATATTATTTA
1 TTTATTATATTATAATA-TTA
* *
282823 TATATTAAAATATTAATTCATATTA
1 TTTATT---ATATT-A-TAATATTA
*
282848 TTTTTTATATTATAATTATT-
1 TTTATTATATTATAA-TATTA
282868 TTTATTATAT
1 TTTATTATAT
282878 CTAACCTAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 28
0.65 0.13 0.22
Matches are distributed among these distances:
16 7 0.09
17 5 0.06
18 8 0.10
19 2 0.02
20 34 0.42
21 5 0.06
22 5 0.06
23 2 0.02
24 2 0.02
25 8 0.10
26 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTATATTATAATATTA
Found at i:282826 original size:18 final size:17
Alignment explanation
Indices: 282738--282826 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 17
282728 TTTCATGGTG
282738 TTTATAT-ATTTTATTA
1 TTTATATAATTTTATTA
*
282754 TAT-TATAA---TATTA
1 TTTATATAATTTTATTA
*
282767 TTTA-A-AATATTTTTTA
1 TTTATATAAT-TTTATTA
282783 TTTATATAAATTTTATTA
1 TTTATAT-AATTTTATTA
282801 TATT-TATAATTTATATTA
1 T-TTATATAATTT-TATTA
282819 TTTATATA
1 TTTATATA
282827 TTAAAATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 22
0.69 0.05 0.27
Matches are distributed among these distances:
12 2 0.04
13 8 0.14
15 3 0.05
16 11 0.19
17 8 0.14
18 20 0.35
19 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATAATTTTATTA
Found at i:283194 original size:14 final size:15
Alignment explanation
Indices: 283175--283207 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
283165 TATATTAAAA
283175 ATTATCAAAATAA-T
1 ATTATCAAAATAATT
283189 ATTATCAAAATAATT
1 ATTATCAAAATAATT
283204 ATTA
1 ATTA
283208 ATTATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTATCAAAATAATT
Found at i:283722 original size:22 final size:22
Alignment explanation
Indices: 283694--283739 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
283684 CACAGGTCAG
283694 GTGGTATATAGGTAGTCGACAA
1 GTGGTATATAGGTAGTCGACAA
*
283716 GTGGTATATAGGTAGTCGATAA
1 GTGGTATATAGGTAGTCGACAA
283738 GT
1 GT
283740 TTGACTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (22 bp):
GTGGTATATAGGTAGTCGACAA
Found at i:284338 original size:11 final size:11
Alignment explanation
Indices: 284322--284363 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
284312 TTTGGAGAAA
284322 GCTTTATGTTT
1 GCTTTATGTTT
284333 GCTTTATTGTGCTT
1 GCTTTA-TGT--TT
284347 -CTTTATGTTT
1 GCTTTATGTTT
284357 GCTTTAT
1 GCTTTAT
284364 TGTGCTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.07
11 12 0.44
12 6 0.22
13 5 0.19
14 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (11 bp):
GCTTTATGTTT
Found at i:284350 original size:24 final size:24
Alignment explanation
Indices: 284323--284372 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
284313 TTGGAGAAAG
284323 CTTTATGTTTGCTTTATTGTGCTT
1 CTTTATGTTTGCTTTATTGTGCTT
284347 CTTTATGTTTGCTTTATTGTGCTT
1 CTTTATGTTTGCTTTATTGTGCTT
284371 CT
1 CT
284373 CTGTCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.08, C:0.14, G:0.16, T:0.62
Consensus pattern (24 bp):
CTTTATGTTTGCTTTATTGTGCTT
Found at i:291764 original size:21 final size:22
Alignment explanation
Indices: 291751--291800 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
291741 ATAAATTTTT
291751 AAAAAA-TAAAAAT-AATTAAA
1 AAAAAATTAAAAATAAATTAAA
*
291771 AAAAAATTAAAAATAAAATAATA
1 AAAAAATTAAAAATAAATTAA-A
291794 AAAAAAT
1 AAAAAAT
291801 AAGGAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 7 0.27
22 5 0.19
23 8 0.31
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAAATTAAAAATAAATTAAA
Found at i:291772 original size:11 final size:11
Alignment explanation
Indices: 291758--291824 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 11
291748 TTTAAAAAAT
*
291758 AAAAATAATTA
1 AAAAAAAATTA
291769 AAAAAAAATTA
1 AAAAAAAATTA
291780 AAAATAAAA-TA
1 AAAA-AAAATTA
291791 ATAAAAAAA-TA
1 A-AAAAAAATTA
*
291802 AGGAAGAAAATTA
1 A--AAAAAAATTA
291815 AAAATAAAAT
1 AAAA-AAAAT
291825 AAATGGTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
11 26 0.55
12 18 0.38
13 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:291782 original size:9 final size:8
Alignment explanation
Indices: 291751--291802 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
291741 ATAAATTTTT
291751 AAAAAATA
1 AAAAAATA
291759 AAAATAATTA
1 AAAA-AA-TA
291769 AAAAAA-A
1 AAAAAATA
291776 ATTAAAAATA
1 A--AAAAATA
*
291786 AAATAATA
1 AAAAAATA
291794 AAAAAATA
1 AAAAAATA
291802 A
1 A
291803 GGAAGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 2 0.05
8 18 0.49
9 9 0.24
10 8 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAAAATA
Found at i:291796 original size:35 final size:34
Alignment explanation
Indices: 291750--291826 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 34
291740 AATAAATTTT
291750 TAAAA-AATAAAAATAATTAA-AAAAAAATTAAAAA
1 TAAAATAATAAAAA-AA-TAAGAAAAAAATTAAAAA
*
291784 TAAAATAATAAAAAAATAAGGAAGAAAATTAAAAA
1 TAAAATAATAAAAAAATAA-GAAAAAAATTAAAAA
291819 TAAAATAA
1 TAAAATAA
291827 ATGGTATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
33 3 0.08
34 7 0.18
35 29 0.74
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (34 bp):
TAAAATAATAAAAAAATAAGAAAAAAATTAAAAA
Found at i:293599 original size:14 final size:15
Alignment explanation
Indices: 293575--293607 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
293565 CTTAACATTA
*
293575 TTTTATTTTTCTTAT
1 TTTTATTTTTCTGAT
293590 TTTTA-TTTTCTGAT
1 TTTTATTTTTCTGAT
293604 TTTT
1 TTTT
293608 CTAACACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTCTGAT
Found at i:293946 original size:21 final size:21
Alignment explanation
Indices: 293922--293962 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
293912 TATTTTTATT
293922 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
293943 TAAATATTAATATAAAATAT
1 TAAATATTAATATAAAATAT
293963 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:294282 original size:22 final size:21
Alignment explanation
Indices: 294256--294318 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
294246 AAAAATTAAA
294256 TACTTATATTATATTAATATT
1 TACTTATATTATATTAATATT
*
294277 TAACTTATAATT-TATTATTTATT
1 T-ACTTAT-ATTATATTA-ATATT
* *
294300 TACTTA-ATTAAATTGATAT
1 TACTTATATTATATTAATAT
294319 AGACTCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 16 0.47
23 8 0.24
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TACTTATATTATATTAATATT
Found at i:295014 original size:20 final size:19
Alignment explanation
Indices: 294926--295024 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 19
294916 TTTATATCTA
294926 TATAAA-TTTATGTAT-TTT
1 TATAAATTTTAT-TATATTT
*
294944 TAT-CATATTTA-TATATTT
1 TATAAAT-TTTATTATATTT
*
294962 TATAATATTATAATTATA-TT
1 TATAA-ATT-TTATTATATTT
*
294982 TA-AAATATT-TTATATTT
1 TATAAATTTTATTATATTT
294999 ATATAAATTTTATTATATATT
1 -TATAAATTTTATTATAT-TT
295020 TATAA
1 TATAA
295025 TTCGTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
16 5 0.08
17 7 0.11
18 13 0.21
19 13 0.21
20 19 0.30
21 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
TATAAATTTTATTATATTT
Found at i:295018 original size:38 final size:38
Alignment explanation
Indices: 294915--295021 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
294905 ATCTCAATGC
* **
294915 TTTTATATCTATATAAA-TTTATGTAT-T-TTTATCATA
1 TTTTATATTTATATAAATTTTAT-TATATATTTAAAATA
* *
294951 TTTATATATTT-TAT-AATATTATAATTATATTTAAAATA
1 TTT-TATATTTATATAAATTTTATTA-TATATTTAAAATA
294989 TTTTATATTTATATAAATTTTATTATATATTTA
1 TTTTATATTTATATAAATTTTATTATATATTTA
295022 TAATTCGTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
35 3 0.05
36 11 0.19
37 14 0.25
38 21 0.37
39 8 0.14
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (38 bp):
TTTTATATTTATATAAATTTTATTATATATTTAAAATA
Found at i:295121 original size:22 final size:22
Alignment explanation
Indices: 295058--295128 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
295048 TATTAATAAA
*
295058 TTTATATCATA-TTTATATTTTT
1 TTTA-ATCATATTTTATATTATT
295080 TATTAATCATATTTTATATTATAT
1 T-TTAATCATATTTTATATTAT-T
* *
295104 TTTAATTAT-TTTTTTATTATT
1 TTTAATCATATTTTATATTATT
295125 TTTA
1 TTTA
295129 TCTTGTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.12
22 17 0.40
23 19 0.44
24 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTAATCATATTTTATATTATT
Found at i:296074 original size:23 final size:23
Alignment explanation
Indices: 296026--296086 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
296016 TAATAAAATA
* * *
296026 TAAATTTAAACT-TAAATTTATT
1 TAAATTTAAACTAAAAACTTATC
296048 TAAATTTAAACTAAAAACTTATC
1 TAAATTTAAACTAAAAACTTATC
* *
296071 TAAACTTAAATTAAAA
1 TAAATTTAAACTAAAA
296087 GTCTAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATTTAAACTAAAAACTTATC
Found at i:296272 original size:21 final size:21
Alignment explanation
Indices: 296248--296297 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
296238 CAATCAATTC
*
296248 TAATATTAAAATTAATTAAAT
1 TAATATTAAAATTAAATAAAT
* * *
296269 TAATTTTTAATTTAAATAAAT
1 TAATATTAAAATTAAATAAAT
296290 TAA-ATTAA
1 TAATATTAA
296298 CCAAACTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATTAAAATTAAATAAAT
Found at i:296449 original size:16 final size:16
Alignment explanation
Indices: 296423--296538 Score: 90
Period size: 16 Copynumber: 7.2 Consensus size: 16
296413 TTTCGAGTTG
296423 TTTTCGGGTTCGGGTCA
1 TTTT-GGGTTCGGGTCA
***
296440 TTTTGGGTTCAAATCA
1 TTTTGGGTTCGGGTCA
*
296456 TTTTGGGTTTGGGTCA
1 TTTTGGGTTCGGGTCA
* * * *
296472 CTTTGGATTTGGGTTA
1 TTTTGGGTTCGGGTCA
* **
296488 TTTCGGGTTCAAGTCA
1 TTTTGGGTTCGGGTCA
**
296504 TTTTGGGTTCGGGTTG
1 TTTTGGGTTCGGGTCA
*
296520 TTTTGGGTTC-AGTCA
1 TTTTGGGTTCGGGTCA
296535 TTTT
1 TTTT
296539 AAGTTCTGGT
Statistics
Matches: 74, Mismatches: 25, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
15 6 0.08
16 64 0.86
17 4 0.05
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.47
Consensus pattern (16 bp):
TTTTGGGTTCGGGTCA
Found at i:296525 original size:48 final size:48
Alignment explanation
Indices: 296414--296525 Score: 125
Period size: 48 Copynumber: 2.3 Consensus size: 48
296404 ATAAAATTTT
* * *
296414 TTCGAGTTGTTTTCGGGTTCGGGTCATTTTGGGTTCAAATCATTTTGGG
1 TTCGGGTTGTTTT-GGATTCGGGTCATTTCGGGTTCAAATCATTTTGGG
* *** * * *
296463 TTTGGGTCACTTTGGATTTGGGTTATTTCGGGTTCAAGTCATTTTGGG
1 TTCGGGTTGTTTTGGATTCGGGTCATTTCGGGTTCAAATCATTTTGGG
296511 TTCGGGTTGTTTTGG
1 TTCGGGTTGTTTTGG
296526 GTTCAGTCAT
Statistics
Matches: 49, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
48 41 0.84
49 8 0.16
ACGTcount: A:0.11, C:0.11, G:0.32, T:0.46
Consensus pattern (48 bp):
TTCGGGTTGTTTTGGATTCGGGTCATTTCGGGTTCAAATCATTTTGGG
Found at i:297599 original size:16 final size:16
Alignment explanation
Indices: 297578--297647 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
297568 TATTCAGGTA
297578 ATTTTAGGTTCGAATC
1 ATTTTAGGTTCGAATC
*
297594 ATTTTATGTTCGAATC
1 ATTTTAGGTTCGAATC
* *
297610 ATTTCAGATTC-AGATC
1 ATTTTAGGTTCGA-ATC
* *
297626 ATTTTAGGTTCGGATT
1 ATTTTAGGTTCGAATC
297642 ATTTTA
1 ATTTTA
297648 AATTTAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.02
16 43 0.98
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (16 bp):
ATTTTAGGTTCGAATC
Found at i:297658 original size:16 final size:16
Alignment explanation
Indices: 297639--297729 Score: 111
Period size: 16 Copynumber: 6.0 Consensus size: 16
297629 TTAGGTTCGG
297639 ATTATTTTAAATTTAA
1 ATTATTTTAAATTTAA
297655 ATTATTTTAAATTTAA
1 ATTATTTTAAATTTAA
* *
297671 ATTATTTCAAATTCAA
1 ATTATTTTAAATTTAA
*
297687 ATCA-TTTAAATTTAA
1 ATTATTTTAAATTTAA
*
297702 ATTA-ATT-AA-TTAA
1 ATTATTTTAAATTTAA
297715 ATT-TTTTAAATTTAA
1 ATTATTTTAAATTTAA
297730 GTCAAAATTG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
13 9 0.14
14 4 0.06
15 18 0.28
16 33 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:298382 original size:34 final size:35
Alignment explanation
Indices: 298339--298407 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
298329 ACTCATTGTT
*
298339 TCAACATGCAATTAAGATATAAGATAAAGA-TGTA
1 TCAACATGCAATTAAGACATAAGATAAAGACTGTA
* * *
298373 TCAACATGCATTTAATACATAAGTTAAAGACTGTA
1 TCAACATGCAATTAAGACATAAGATAAAGACTGTA
298408 GCCTCTCCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (35 bp):
TCAACATGCAATTAAGACATAAGATAAAGACTGTA
Found at i:302369 original size:23 final size:23
Alignment explanation
Indices: 302338--302394 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
302328 ATTTTATATC
*
302338 AAATTTTAAAAAAAA-TATTATTT
1 AAATCTTAAAAAAAATTATT-TTT
302361 AAATCTTAAAAAAAATTATTTTT
1 AAATCTTAAAAAAAATTATTTTT
302384 AAATC-TAAAAA
1 AAATCTTAAAAA
302395 TTATAATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 6 0.19
23 22 0.69
24 4 0.12
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATCTTAAAAAAAATTATTTTT
Found at i:302373 original size:21 final size:21
Alignment explanation
Indices: 302346--302394 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
302336 TCAAATTTTA
302346 AAAAAAATATTA-TTTAAATCTT
1 AAAAAAA-ATTATTTTAAATC-T
302368 AAAAAAAATTATTTTTAAATCT
1 AAAAAAAATTA-TTTTAAATCT
302390 AAAAA
1 AAAAA
302395 TTATAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.16
22 13 0.52
23 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAAAATTATTTTAAATCT
Found at i:302751 original size:40 final size:39
Alignment explanation
Indices: 302706--302787 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
302696 TAATAAAAAA
* ** *
302706 TAATTTTATATTT-TTTAAATAATGATATAAAATTTTAAAT
1 TAATTTAAT-TTTATTTAAATAAAAATA-AAAAATTTAAAT
302746 TAATTTAATTTTAATTTAAATAAAAATAAAAAATTTAAAT
1 TAATTTAATTTT-ATTTAAATAAAAATAAAAAATTTAAAT
302786 TA
1 TA
302788 TAATCAATCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.08
40 21 0.58
41 12 0.33
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (39 bp):
TAATTTAATTTTATTTAAATAAAAATAAAAAATTTAAAT
Found at i:303158 original size:2 final size:2
Alignment explanation
Indices: 303151--303176 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
303141 TCATGATCAG
303151 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
303177 CATGAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:303297 original size:33 final size:31
Alignment explanation
Indices: 303193--303306 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 31
303183 TTATAAAATA
303193 AAATTATATTTAAAATATTTTTATTTATA-T
1 AAATTATATTTAAAATATTTTTATTTATATT
* * *
303223 AAATTATGATATATTAATA--ATTA--TATATT
1 AAATTAT-ATTTA-AAATATTTTTATTTATATT
*
303252 AAA-TAAATTTTAAAATATTTATTTATTTATATT
1 AAATTATA-TTTAAAATA-TT-TTTATTTATATT
*
303285 AAATTATATTTAAATTATTTTT
1 AAATTATATTTAAAATATTTTT
303307 TATTATTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
27 5 0.08
28 9 0.14
29 4 0.06
30 10 0.16
31 10 0.16
32 6 0.09
33 17 0.27
34 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
AAATTATATTTAAAATATTTTTATTTATATT
Found at i:306669 original size:98 final size:96
Alignment explanation
Indices: 306491--306681 Score: 267
Period size: 98 Copynumber: 2.0 Consensus size: 96
306481 CAACACTGCA
* *
306491 GTTTATGAATGCTGGCGGAAAATATTGCATTTCATAAAACCAAGGGCAACTTAGAATGGGCATAA
1 GTTTATGAATGCTGGCGGAAAATATTGCAGTTCATAAAACCAAGAGCAACTTAGAATGGGCATAA
306556 ATGAACAAGAGGAAACATAGAAAACAGTAAG
66 ATGAACAAGAGGAAACATAGAAAACAGTAAG
* *
306587 GTTTATGAATGCTTGAG-GGAAAATATTGCAGGTTCATAAAACCTAGAGTAACTTAGAATGGGCA
1 GTTTATGAATGC-TG-GCGGAAAATATTGCA-GTTCATAAAACCAAGAGCAACTTAGAATGGGCA
* ** * *
306651 TAAATTAACTGGATGAAACATAGAAATCAGT
63 TAAATGAACAAGAGGAAACATAGAAAACAGT
306682 TTTCAGGGGC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
96 12 0.14
97 15 0.18
98 56 0.67
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (96 bp):
GTTTATGAATGCTGGCGGAAAATATTGCAGTTCATAAAACCAAGAGCAACTTAGAATGGGCATAA
ATGAACAAGAGGAAACATAGAAAACAGTAAG
Found at i:312283 original size:18 final size:18
Alignment explanation
Indices: 312260--312308 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
312250 ATGATAGAAA
312260 TATTTTTAATTTTTTATT
1 TATTTTTAATTTTTTATT
*
312278 TA-TTTTAATAATTTTATT
1 TATTTTTAAT-TTTTTATT
312296 TAAATTTTTAATT
1 T--ATTTTTAATT
312309 AAATTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 7 0.28
18 10 0.40
20 1 0.04
21 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTTAATTTTTTATT
Found at i:312304 original size:30 final size:31
Alignment explanation
Indices: 312264--312328 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
312254 TAGAAATATT
* * **
312264 TTTAATTTTTTATTTATTTTAATA-ATTTTA
1 TTTAAATTTTTAATTAAATTAATACATTTTA
312294 TTTAAATTTTTAATTAAATTAATATCATTTTA
1 TTTAAATTTTTAATTAAATTAATA-CATTTTA
312326 TTT
1 TTT
312329 TAATATCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 20 0.69
32 9 0.31
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTAAATTTTTAATTAAATTAATACATTTTA
Found at i:313296 original size:21 final size:20
Alignment explanation
Indices: 313252--313335 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 20
313242 TCAGTAAGAT
*
313252 TAAAAATAATAA-TT-ATGA
1 TAAAATTAATAATTTAATGA
*
313270 TGAAATTAATTAATTTAATGA
1 TAAAATTAA-TAATTTAATGA
313291 TAAAATTAAGT-ATTATAAT-A
1 TAAAATTAA-TAATT-TAATGA
313311 GTAAAATTAA-AA-TTAATGA
1 -TAAAATTAATAATTTAATGA
313330 TAAAAT
1 TAAAAT
313336 ATACATTTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
18 17 0.31
19 5 0.09
20 7 0.13
21 26 0.47
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
TAAAATTAATAATTTAATGA
Found at i:314863 original size:33 final size:33
Alignment explanation
Indices: 314826--314891 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
314816 GTATTGAAAA
314826 ATTACAAATAATACCTTTTTGGAAAAGGAATTT
1 ATTACAAATAATACCTTTTTGGAAAAGGAATTT
314859 ATTACAAATAATACCTTTTTGGAAAAGGAATTT
1 ATTACAAATAATACCTTTTTGGAAAAGGAATTT
314892 CATGATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTACAAATAATACCTTTTTGGAAAAGGAATTT
Found at i:316621 original size:21 final size:21
Alignment explanation
Indices: 316577--316638 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
316567 AAATTCCTAG
**
316577 ATGTATCGATACAAAGAT-CA
1 ATGTATCGATACATCGATACA
*
316597 ATGTATCGATACATCGTTACA
1 ATGTATCGATACATCGATACA
316618 ATGTATCGATACATCGATACA
1 ATGTATCGATACATCGATACA
316639 TTGAGTAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATCGATACA
Found at i:316723 original size:32 final size:32
Alignment explanation
Indices: 316682--316746 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
316672 AGCTTTGTAG
*
316682 CGATACATTGTATCGATACAACGCTTATATAT
1 CGATACATTGTATCGATACAACACTTATATAT
*
316714 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATATAT
316746 C
1 C
316747 AATATAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATATAT
Found at i:316746 original size:19 final size:19
Alignment explanation
Indices: 316690--316746 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
316680 AGCGATACAT
*
316690 TGTATCGATACAACGCTTA
1 TGTATCGATACAACACTTA
*
316709 TATATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
316722 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
316741 TGTATC
1 TGTATC
316747 AATATAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
13 8 0.28
14 1 0.03
16 5 0.17
18 1 0.03
19 14 0.48
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:317497 original size:49 final size:49
Alignment explanation
Indices: 317420--318125 Score: 618
Period size: 48 Copynumber: 15.0 Consensus size: 49
317410 AAGAGTGATA
*
317420 AAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
317469 AAGGTGCCAATGTGCTAATTCAAAGCCAGCGACATTGGACTTAAAGATAACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---G
* * * *
317521 AATGCGCCAATATGCTAATTCAAGGCAAGCGATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
317570 AAGGTGCCAAATGTGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATG
1 AAGGTGCC-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
317620 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
317669 -ATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G
* * * * * * * *
317718 TTGAGGTGCCGATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATA
1 --AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
317769 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATACTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
317811 ---GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
317856 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
317904 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
317946 -A--TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
317991 AACGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
** * * * *
318033 -A--TGCCAATGCGCTGATTCAAGGCTAGCGATATTGGTCTTAGAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
318078 AACGTGCCAATATACTGATTCAAGGCCAGCAATATTGGGCTTAGAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
318126 AGATGCCACC
Statistics
Matches: 547, Mismatches: 69, Indels: 82
0.78 0.10 0.12
Matches are distributed among these distances:
39 95 0.17
40 3 0.01
41 2 0.00
43 1 0.00
46 2 0.00
47 2 0.00
48 189 0.35
49 125 0.23
50 45 0.08
52 83 0.15
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:317558 original size:101 final size:98
Alignment explanation
Indices: 317420--317946 Score: 560
Period size: 101 Copynumber: 5.4 Consensus size: 98
317410 AAGAGTGATA
* * * *
317420 AAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGGTGCCAATATGCTGATTCAAGGCAAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* * *
317485 AATTCAAAGCCAGCGACATTGGACTTAAAGATAACG
66 GATTCAAGGCCAGCGATATTGGACTTAAAGAT---G
* * * * *
317521 AATGCGCCAATATGCTAATTCAAGGCAAGCGATATTGGACTTAAAGATGAAGGTGCCAAATGTGC
1 AAGGTGCCAATATGCTGATTCAAGGCAAGCGACATTGGACTTAAAGATGAAGGTGCC-AATATGC
*
317586 TGATTCAAGGTCAGCGATATTGGACTTAAAGATG
65 TGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
317620 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-ATGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCAAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
317684 GATTCAAGGCCAGCGATATTGGGCTTAAAGATGG
66 GATTCAAGGCCAGCGATATTGGACTTAAAGAT-G
* * * * * *
317718 TTGAGGTGCCGATGTGCTGATTCAAGGCCAA-CGACATCGGTCTTAAAGATAAAGGTGCCAATAT
1 --AAGGTGCCAATATGCTGATTCAAGG-CAAGCGACATTGGACTTAAAGATGAAGGTGCCAATAT
* *
317782 GCTGATTCAAGGCCAGCGATACTGGGC-T-----T-
63 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
317811 ---GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCAAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* * *
317872 GATTCAAGGCCAGCGACATTGGTCTTAAAGA-C
66 GATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
317904 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 AAGGTGCCAATATGCTGATTCAAGGCAAGCGACATTGGACTTA
317947 TGCCAATGTG
Statistics
Matches: 370, Mismatches: 39, Indels: 39
0.83 0.09 0.09
Matches are distributed among these distances:
87 39 0.11
88 38 0.10
95 1 0.00
96 36 0.10
97 37 0.10
98 7 0.02
99 44 0.12
100 41 0.11
101 91 0.25
102 36 0.10
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
AAGGTGCCAATATGCTGATTCAAGGCAAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:317944 original size:135 final size:136
Alignment explanation
Indices: 317670--318033 Score: 514
Period size: 135 Copynumber: 2.7 Consensus size: 136
317660 TTAAAGATGA
* * * ** * *
317670 TGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGCCGATGTGC
1 TGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA----CAAGGTGCCAATATGC
* *
317735 TGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
62 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
317800 ATACTGGGCT
127 ATACTGGGCT
*
317810 TGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
1 TGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
* *
317875 TCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
66 TCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAC
317939 TGGGCT
131 TGGGCT
* * * *
317945 TATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAACGTGCCAATATGCTGAT
1 TGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
* * *
318010 TCAAGACCAGCGATATTGGGCTTA
66 TCAAGGCCAGCGACATTGGTCTTA
318034 TGCCAATGCG
Statistics
Matches: 204, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
135 121 0.59
136 42 0.21
140 41 0.20
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (136 bp):
TGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAC
TGGGCT
Found at i:317951 original size:87 final size:87
Alignment explanation
Indices: 317860--318120 Score: 432
Period size: 87 Copynumber: 3.0 Consensus size: 87
317850 AAAGACAAGG
* * *
317860 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAACGTGCCAATATGCTGATTC
317925 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
*
317947 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAACGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAACGTGCCAATATGCTGATTC
*
318012 AAGACCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * * *
318034 TGCCAATGCGCTGATTCAAGGCTAGCGATATTGGTCTTAGAGACAACGTGCCAATATACTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAACGTGCCAATATGCTGATTC
*
318099 AAGGCCAGCAATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
318121 GAAGAAGATG
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 162 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAACGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:317962 original size:39 final size:39
Alignment explanation
Indices: 317908--318072 Score: 168
Period size: 39 Copynumber: 4.0 Consensus size: 39
317898 AAAGACAAGG
317908 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * *
317947 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
*
317993 CGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
** * *
318034 TGCCAATGCGCTGATTCAAGGCTAGCGATATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
318073 GAGACAACGT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
39 68 0.66
41 1 0.01
46 1 0.01
48 33 0.32
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:318235 original size:33 final size:33
Alignment explanation
Indices: 318188--318346 Score: 201
Period size: 33 Copynumber: 4.8 Consensus size: 33
318178 TTTTGAAGGT
* * * *
318188 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
318221 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
*
318254 TGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGA
1 TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGA
* *
318288 TACCACAGAGTTGTGGACGTAAAAGGAAAAAGA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
* *
318321 TGCCACGGAGCTGTGGACTTAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGG
318347 GTGCCATGGA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 79 0.73
34 29 0.27
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (33 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:318287 original size:67 final size:65
Alignment explanation
Indices: 318183--318374 Score: 196
Period size: 67 Copynumber: 3.0 Consensus size: 65
318173 TGTGCTTTTG
* * * *
318183 AAGGTTGCCACTGACTTGTGGGCTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
1 AAGG-TGCCACAGAGTTGTGGACTTAAAAAGA-AAAGATGCCACGGAGTTGTGGACTTAAAAGGA
*
318248 AC
64 AA
* * *
318250 AAGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGATACCACAGAGTTGTGGACGTAAAAGGA
1 AAGGTGCCACAGAGTTGTGGAC-TTAAAAAG-AAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
318315 AA
64 AA
* * * * *
318317 AAGATGCCACGGAGCTGTGGACTT-AAAAG----GGTGCCATGGAGTTGTGGACTTAAAAGGA
1 AAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
318375 TGCCACGAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
60 24 0.22
65 5 0.05
66 17 0.16
67 60 0.56
68 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.20
Consensus pattern (65 bp):
AAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAA
Found at i:318352 original size:27 final size:27
Alignment explanation
Indices: 318321--318456 Score: 159
Period size: 27 Copynumber: 5.1 Consensus size: 27
318311 AGGAAAAAGA
* *
318321 TGCCACGGAGCTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * *
318348 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
318375 TGCCACGAAATTGTGG--TTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
318400 TGCCACGAAGTTGTGGGCTTTAAAAGAG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* *
318428 TGCTACGAAGTTGTAGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
318455 TG
1 TG
318457 TTACAGAGTT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
25 23 0.25
27 47 0.51
28 23 0.25
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:318404 original size:52 final size:55
Alignment explanation
Indices: 318336--318456 Score: 151
Period size: 52 Copynumber: 2.3 Consensus size: 55
318326 CGGAGCTGTG
* *
318336 GACTTAAAAGGGTGCCATGGAGTTGTGGAC-TTAAAAG-GATGCCACGAAATTGT-
1 GACTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGAG-TGCCACGAAATTGTA
* * * *
318389 G-GTTAAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCTACGAAGTTGTA
1 GACTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGAAATTGTA
318443 GACTTAAAAGGGTG
1 GACTTAAAAGGGTG
318457 TTACAGAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
52 24 0.42
53 20 0.35
54 2 0.04
55 11 0.19
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (55 bp):
GACTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGAAATTGTA
Found at i:318498 original size:34 final size:34
Alignment explanation
Indices: 318459--318537 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
318449 AAAGGGTGTT
318459 ACAGAGTTGTGAAATTTGAAAAGAAAAAGGTGCC
1 ACAGAGTTGTGAAATTTGAAAAGAAAAAGGTGCC
* *** *
318493 ACAGAGTGGTGGGCTTTGAAAAGAAAAATGTGCC
1 ACAGAGTTGTGAAATTTGAAAAGAAAAAGGTGCC
*
318527 ACGGAGTTGTG
1 ACAGAGTTGTG
318538 GGCTTTGAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.32, T:0.22
Consensus pattern (34 bp):
ACAGAGTTGTGAAATTTGAAAAGAAAAAGGTGCC
Found at i:318539 original size:34 final size:34
Alignment explanation
Indices: 318473--318581 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
318463 AGTTGTGAAA
318473 TTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGGC
1 TTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGGC
* * *
318507 TTTGAAAAGAAAAATGTGCCACGGAGTTGTGGGC
1 TTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGGC
* * *
318541 TTTG--AAG-AAAAGATGCCACTA-AGTCGTGGAC
1 TTTGAAAAGAAAAAGGTGCCAC-AGAGTGGTGGGC
318572 TTTGAAAAGA
1 TTTGAAAAGA
318582 GATTGCCACT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
31 22 0.35
32 3 0.05
33 3 0.05
34 35 0.56
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (34 bp):
TTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGGC
Found at i:318575 original size:31 final size:30
Alignment explanation
Indices: 318523--318732 Score: 219
Period size: 31 Copynumber: 6.9 Consensus size: 30
318513 AAGAAAAATG
* * *
318523 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAGA
*
318554 TGCCACTAAGTCGTGGACTTTGA-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-AGA
* *
318584 TTGCCACTGAGTTGTGGACTTTGGAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTT-GAGAAAAGA
*
318616 TGCCACTGAGTCGTGGACTTTGGGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAGA
*
318646 TGCCACTGAGTCGTGGACTTTGGGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAGA
* * * *
318676 TGCCACTAAGTCATGGGCTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGA
*
318706 TTGCCACTGAGTCGTGGACTTTAAGAA
1 -TGCCACTGAGTCGTGGACTTTGAGAA
318733 GGTATTTGAA
Statistics
Matches: 154, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
29 5 0.03
30 60 0.39
31 82 0.53
32 4 0.03
33 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGA
Found at i:318575 original size:65 final size:62
Alignment explanation
Indices: 318483--318732 Score: 224
Period size: 62 Copynumber: 4.0 Consensus size: 62
318473 TTTGAAAAGA
* * * *
318483 AAAAGGTGCCAC-AGAGTGGTGGGCTTTGAAAAGAAAAATGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAGATGCCACTA-AGTCGTGGACTTTGAAAAG--AAAT-TGCCACGGAGTTGTGGACTTTGAA
318547 G
62 G
* * *
318548 AAAAGATGCCACTAAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAG
1 AAAAGATGCCACTAAGTCGTGGACTTTGAAAAGAAATTGCCACGGAGTTGTGGACTTTGAAG
* * * * * * *
318610 AAAAAATGCCACTGAGTCGTGGACTTTGGGACA-AAA-TGCCACTGAGTCGTGGACTTTG-GG
1 AAAAGATGCCACTAAGTCGTGGACTTT-GAAAAGAAATTGCCACGGAGTTGTGGACTTTGAAG
* * * * * *
318670 ACAAA-ATGCCACTAAGTCATGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTT-AAG
1 A-AAAGATGCCACTAAGTCGTGGACTTTGAAAAGAAATTGCCACGGAGTTGTGGACTTTGAAG
318731 AA
1 AA
318733 GGTATTTGAA
Statistics
Matches: 157, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
59 2 0.01
60 24 0.15
61 47 0.30
62 49 0.31
63 6 0.04
65 28 0.18
66 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.24
Consensus pattern (62 bp):
AAAAGATGCCACTAAGTCGTGGACTTTGAAAAGAAATTGCCACGGAGTTGTGGACTTTGAAG
Found at i:320003 original size:32 final size:31
Alignment explanation
Indices: 319967--320036 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 31
319957 GTATGTGTTT
319967 TTTTTTGTTTTTGTTTTTGTTT-TTTTTCATCA
1 TTTTTTGTTTTT-TTTTT-TTTATTTTTCATCA
319999 TTTTTTGTTTTTTTTTTTTTACTTTTTCATCA
1 TTTTTTGTTTTTTTTTTTTTA-TTTTTCATCA
320031 TTTTTT
1 TTTTTT
320037 TAAGGGAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 28 0.78
ACGTcount: A:0.07, C:0.07, G:0.06, T:0.80
Consensus pattern (31 bp):
TTTTTTGTTTTTTTTTTTTTATTTTTCATCA
Found at i:320016 original size:12 final size:12
Alignment explanation
Indices: 319964--319993 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
319954 TGTGTATGTG
319964 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
319976 TTTGTTTTTGTT
1 TTTTTTTTTGTT
319988 TTTTTT
1 TTTTTT
319994 CATCATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:327015 original size:20 final size:20
Alignment explanation
Indices: 326962--327016 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
326952 AAATTTTTAG
**
326962 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
326982 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
327002 ATGTATCGATACATT
1 ATGTATCGATACATT
327017 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:327540 original size:18 final size:19
Alignment explanation
Indices: 327504--327541 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
327494 AATTATTTTA
*
327504 TTTTTATTATTCATGTAAT
1 TTTTTATTATTAATGTAAT
*
327523 TTTTTATTTTTAAT-TAAT
1 TTTTTATTATTAATGTAAT
327541 T
1 T
327542 ATATAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTATTATTAATGTAAT
Found at i:327548 original size:26 final size:26
Alignment explanation
Indices: 327494--327548 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
327484 AAAATAAACA
*
327494 AATTATTTTATTTTTATTATTCATGT
1 AATTATTTTATTTTTATTATTCATAT
327520 AATT-TTTTATTTTTAATTAATT-ATAT
1 AATTATTTTATTTTT-ATT-ATTCATAT
327546 AAT
1 AAT
327549 AATAAATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 10 0.38
26 13 0.50
27 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
AATTATTTTATTTTTATTATTCATAT
Found at i:328745 original size:11 final size:11
Alignment explanation
Indices: 328729--328807 Score: 69
Period size: 11 Copynumber: 7.5 Consensus size: 11
328719 GCTTTTACTT
*
328729 TTTATATGTAA
1 TTTATATATAA
328740 TTTATA-ATTAA
1 TTTATATA-TAA
* *
328751 ATAATATATAA
1 TTTATATATAA
328762 -TTATATATAA
1 TTTATATATAA
*
328772 TTTAATATATTA
1 TTT-ATATATAA
328784 TTTATATATAA
1 TTTATATATAA
328795 -TTATA-AT-A
1 TTTATATATAA
328803 TTTAT
1 TTTAT
328808 TAAAAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.02
9 6 0.11
10 14 0.25
11 25 0.44
12 11 0.19
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (11 bp):
TTTATATATAA
Found at i:328769 original size:10 final size:10
Alignment explanation
Indices: 328754--328799 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
328744 TAATTAAATA
328754 ATATATAATT
1 ATATATAATT
328764 ATATATAATTT
1 ATATATAA-TT
*
328775 AATATATTATTT
1 -ATATA-TAATT
328787 ATATATAATT
1 ATATATAATT
328797 ATA
1 ATA
328800 ATATTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 15 0.48
11 7 0.23
12 7 0.23
13 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATATAATT
Found at i:328788 original size:23 final size:23
Alignment explanation
Indices: 328742--328808 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
328732 ATATGTAATT
* *
328742 TATAATTAAATAATATATAATTATA
1 TATAATTTAAT-ATAT-TATTTATA
328767 TATAATTTAATATATTATTTATA
1 TATAATTTAATATATTATTTATA
328790 TATAATTATAATAT-TTATT
1 TATAATT-TAATATATTATT
328809 AAAAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.49
24 10 0.26
25 10 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATAATTTAATATATTATTTATA
Found at i:328789 original size:19 final size:18
Alignment explanation
Indices: 328754--328807 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
328744 TAATTAAATA
*
328754 ATATATAAT-TA-TATAT
1 ATATATAATATATTATTT
*
328770 A-ATTTAATATATTATTT
1 ATATATAATATATTATTT
*
328787 ATATATAATTATAATATTT
1 ATATATAA-TATATTATTT
328806 AT
1 AT
328808 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.20
16 3 0.10
17 5 0.17
18 5 0.17
19 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATAATATATTATTT
Found at i:328817 original size:23 final size:23
Alignment explanation
Indices: 328768--328817 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
328758 ATAATTATAT
* * *
328768 ATAATTTAATATATTATTTATAT
1 ATAATTTAATATATTATTAAAAA
328791 ATAATTATAATAT-TTATTAAAAA
1 ATAATT-TAATATATTATTAAAAA
328814 ATAA
1 ATAA
328818 AGGAGTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTTAATATATTATTAAAAA
Found at i:329207 original size:11 final size:13
Alignment explanation
Indices: 329180--329211 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
329170 ACATACATAT
329180 AAATATAATTAAA
1 AAATATAATTAAA
329193 AAAT-TAATT-AA
1 AAATATAATTAAA
329204 AAATATAA
1 AAATATAA
329212 ATAGAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 8 0.44
13 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAATTAAA
Found at i:331500 original size:3 final size:3
Alignment explanation
Indices: 331492--331520 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
331482 GTATCATATC
331492 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
331521 TTGTTAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:333801 original size:18 final size:18
Alignment explanation
Indices: 333769--333816 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
333759 TTTTCTATTG
333769 AAGAAAGA-AATAAAAGA-A
1 AAGAAAGAGAA-AAAA-ATA
333787 AAGAAAGAGAAAAAAATA
1 AAGAAAGAGAAAAAAATA
*
333805 AATAAAGAGAAA
1 AAGAAAGAGAAA
333817 TGTTAACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AAGAAAGAGAAAAAAATA
Found at i:335267 original size:21 final size:20
Alignment explanation
Indices: 335237--335283 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
335227 TGATATATAT
* *
335237 ATATATAAAATATATTTAAAA
1 ATATAAAAAAT-TAATTAAAA
335258 ATATAAAAAATTAATTAAAA
1 ATATAAAAAATTAATTAAAA
335278 ACTATA
1 A-TATA
335284 TGGTAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATAAAAAATTAATTAAAA
Found at i:335425 original size:3 final size:3
Alignment explanation
Indices: 335417--335457 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
335407 TTTTTCCTTT
335417 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
335458 TTCATCTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:340970 original size:16 final size:16
Alignment explanation
Indices: 340938--340969 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
340928 ATTTTTTTAT
340938 TAAATTTTAAAATATA
1 TAAATTTTAAAATATA
340954 TAAA-TTT-AAATATA
1 TAAATTTTAAAATATA
340968 TA
1 TA
340970 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.56
15 3 0.19
16 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTTAAAATATA
Found at i:342165 original size:73 final size:74
Alignment explanation
Indices: 342073--342221 Score: 173
Period size: 73 Copynumber: 2.0 Consensus size: 74
342063 TATTATTTAC
*
342073 TATCAAATAAATTTCATTT-ACTTAAGGATT-TTCAATATAATTAGAATTCTTA-TTA-CAAATG
1 TATCAAATAAATTTCATTTAAC-CAA-G-TTATTCAATATAATTAGAATTCTTATTTATC-AATG
342134 TGATAAATCTTAT
62 TGATAAATCTTAT
* * * * *
342147 TATCTAATAAA-TTCATTTAACCAAGTTATTTAATATAATTATAATTTTTATTTATCAATGTTAT
1 TATCAAATAAATTTCATTTAACCAAGTTATTCAATATAATTAGAATTCTTATTTATCAATGTGAT
342211 AAATCTTAT
66 AAATCTTAT
342220 TA
1 TA
342222 ATAATGAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
71 2 0.03
72 20 0.31
73 30 0.46
74 13 0.20
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (74 bp):
TATCAAATAAATTTCATTTAACCAAGTTATTCAATATAATTAGAATTCTTATTTATCAATGTGAT
AAATCTTAT
Found at i:343037 original size:15 final size:15
Alignment explanation
Indices: 343017--343065 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
343007 TTATTACCAC
343017 TTATAATATATTATA
1 TTATAATATATTATA
343032 TTATAATATATTTATA
1 TTATAATATA-TTATA
*
343048 TTATAA-AAATTAT-
1 TTATAATATATTATA
343061 TTATA
1 TTATA
343066 TATTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 5 0.16
14 4 0.12
15 12 0.38
16 11 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATATATTATA
Found at i:343076 original size:13 final size:13
Alignment explanation
Indices: 343060--343084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
343050 ATAAAAATTA
343060 TTTATATATTAAT
1 TTTATATATTAAT
343073 TTTATATATTAA
1 TTTATATATTAA
343085 ATACAGAATT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATATATTAAT
Found at i:344749 original size:16 final size:15
Alignment explanation
Indices: 344730--344774 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
344720 TATTAATTTT
344730 AAATAATAAAAAATTA
1 AAATAA-AAAAAATTA
*
344746 AAATAAATTAAAATTA
1 AAATAAA-AAAAATTA
344762 AATATAAAAAAAA
1 AA-ATAAAAAAAA
344775 CTTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 1 0.04
16 19 0.76
17 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAAAAAAATTA
Found at i:345323 original size:21 final size:21
Alignment explanation
Indices: 345276--345323 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
345266 TTGTGTCATA
*
345276 ATTTTTTTATTTAAAAATATT
1 ATTTTTTTATTTAAAAATAAT
* *
345297 AATTTTTTA-TTATAAATGAAT
1 ATTTTTTTATTTAAAAAT-AAT
345318 ATTTTT
1 ATTTTT
345324 AATTATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTTTTATTTAAAAATAAT
Found at i:345586 original size:16 final size:16
Alignment explanation
Indices: 345565--345605 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
345555 ATAATATAAA
* *
345565 AAATAAATTTATTTAT
1 AAATAAATTAATTAAT
345581 AAATAAATTAATTAAT
1 AAATAAATTAATTAAT
345597 AAATTAAAT
1 AAA-TAAAT
345606 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAAATTAATTAAT
Found at i:345667 original size:11 final size:9
Alignment explanation
Indices: 345644--345687 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
345634 CTAACTGATC
*
345644 TAAAAAAAT
1 TAAAAATAT
345653 TAAATTAATAT
1 TAAA--AATAT
345664 TAAAAATAT
1 TAAAAATAT
345673 T-AAAATAT
1 TAAAAATAT
345681 TAAAAAT
1 TAAAAAT
345688 TATTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
11 8 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAAATAT
Found at i:345713 original size:20 final size:19
Alignment explanation
Indices: 345688--345725 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
345678 TATTAAAAAT
*
345688 TATTTTATTATTAATATTAA
1 TATTTTATAATTAA-ATTAA
345708 TATTTTATAATTAAATTA
1 TATTTTATAATTAAATTA
345726 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTTATAATTAAATTAA
Found at i:345725 original size:25 final size:27
Alignment explanation
Indices: 345697--345753 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
345687 TTATTTTATT
*
345697 ATTAATAT-TAATATTTTA-TAATTAA
1 ATTAATATAAAATATTTTATTAATTAA
*
345722 ATT-ATATAAAATATTTTATTTATTAA
1 ATTAATATAAAATATTTTATTAATTAA
345748 A-TAATA
1 ATTAATA
345754 ATTCAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 13 0.48
26 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTAATATAAAATATTTTATTAATTAA
Found at i:350055 original size:59 final size:59
Alignment explanation
Indices: 349963--350154 Score: 217
Period size: 59 Copynumber: 3.3 Consensus size: 59
349953 TTGAGTCTGA
* * * * **
349963 GTGACTTGGTGTTACGTAGTGTGTTAGTCTGGGTCACCTTAGTGTTGGTCAAAGTTCGG
1 GTGACTTGGTGTCACTTAGTGTGGTAATCTGGGTCACCTTAGTGGCGGTCAAAGTTCGG
*
350022 GTGACTTGGTGTCACTTAGTGTGGTAATCTGGGTCGCCTTAGTGGCGGTCAAAGTTCGG
1 GTGACTTGGTGTCACTTAGTGTGGTAATCTGGGTCACCTTAGTGGCGGTCAAAGTTCGG
** * * * * *
350081 GTGACTTGGTGTCACTTAGTGCACG-AATCT-AGTCGCCTTGGTGGCGATCTAAAGTTTGG
1 GTGACTTGGTGTCACTTAGTG-TGGTAATCTGGGTCACCTTAGTGGCGGTC-AAAGTTCGG
*
350140 GTGACTTGGCGTCAC
1 GTGACTTGGTGTCAC
350155 CTATTGCGCA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
58 16 0.14
59 100 0.85
60 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.33, T:0.33
Consensus pattern (59 bp):
GTGACTTGGTGTCACTTAGTGTGGTAATCTGGGTCACCTTAGTGGCGGTCAAAGTTCGG
Found at i:350194 original size:118 final size:120
Alignment explanation
Indices: 350053--350316 Score: 338
Period size: 118 Copynumber: 2.2 Consensus size: 120
350043 TGGTAATCTG
* * ** * *
350053 GGTCGCCTTAGTGGCGGTC-AAAGTTCGGGTGACTTGGTGTCACTTAGTGCACGAATC-TAGTCG
1 GGTCGCCTTGGTGGCGATCTAAAGTTCGGGTGACTTGGCATCACCTAATGCACGAATCTTAGTCG
* * *
350116 CCTTGGTGGCGATCTAAAG-TTTGGGTGACTTGGCGTCACCTATTGCGCAAG-TGT
66 CCTTGGTGGAGATCTAAAGTTTTGGGTGACTTGGCATCACCTAGTGCGCAAGCT-T
* * * * *
350170 GGTCGCCTTGGTGGTGATCTAAAGTTTGGGTGACTTGGCATCACCTAATGCATGAGTCTTGGTCG
1 GGTCGCCTTGGTGGCGATCTAAAGTTCGGGTGACTTGGCATCACCTAATGCACGAATCTTAGTCG
350235 CCTTGGTGGAGATCTAAAGTTTTGGGTGACTTGGCATCACCTAGTGCGCAAGCCTT
66 CCTTGGTGGAGATCTAAAGTTTTGGGTGACTTGGCATCACCTAGTGCGCAAG-CTT
* *
350291 GGTCACCTTGGTGGCGATCTTAAGTT
1 GGTCGCCTTGGTGGCGATCTAAAGTT
350317 GCAGTGTGAT
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
117 16 0.13
118 31 0.25
119 23 0.18
120 30 0.24
121 24 0.19
122 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.31
Consensus pattern (120 bp):
GGTCGCCTTGGTGGCGATCTAAAGTTCGGGTGACTTGGCATCACCTAATGCACGAATCTTAGTCG
CCTTGGTGGAGATCTAAAGTTTTGGGTGACTTGGCATCACCTAGTGCGCAAGCTT
Found at i:350292 original size:61 final size:59
Alignment explanation
Indices: 350053--350316 Score: 282
Period size: 59 Copynumber: 4.4 Consensus size: 59
350043 TGGTAATCTG
* * * ** * * * *
350053 GGTCGCCTTAGTGGCGGTC-AAAGTTCGGGTGACTTGGTGTCACTTAGTGCACGAATC-T
1 GGTCGCCTTGGTGGCGATCTAAAGTTTGGGTGACTTGGCATCACCTAATGCGC-AAGCTT
* * *
350111 AGTCGCCTTGGTGGCGATCTAAAGTTTGGGTGACTTGGCGTCACCTATTGCGCAAG-TGT
1 GGTCGCCTTGGTGGCGATCTAAAGTTTGGGTGACTTGGCATCACCTAATGCGCAAGCT-T
* ***
350170 GGTCGCCTTGGTGGTGATCTAAAGTTTGGGTGACTTGGCATCACCTAATGCATGAGTCTT
1 GGTCGCCTTGGTGGCGATCTAAAGTTTGGGTGACTTGGCATCACCTAATGCGCAAG-CTT
* *
350230 GGTCGCCTTGGTGGAGATCTAAAGTTTTGGGTGACTTGGCATCACCTAGTGCGCAAGCCTT
1 GGTCGCCTTGGTGGCGATCTAAAG-TTTGGGTGACTTGGCATCACCTAATGCGCAAG-CTT
* *
350291 GGTCACCTTGGTGGCGATCTTAAGTT
1 GGTCGCCTTGGTGGCGATCTAAAGTT
350317 GCAGTGTGAT
Statistics
Matches: 175, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
58 18 0.10
59 78 0.45
60 26 0.15
61 53 0.30
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.31
Consensus pattern (59 bp):
GGTCGCCTTGGTGGCGATCTAAAGTTTGGGTGACTTGGCATCACCTAATGCGCAAGCTT
Found at i:356238 original size:40 final size:40
Alignment explanation
Indices: 356172--356251 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
356162 GTGCCAAATT
* * *
356172 GTTGATGTCACTTCCTTGGGGACACCAAAGCAGGCCTTCC
1 GTTGATGCCACTTCCTTGGCGACACCAAAGCAAGCCTTCC
*
356212 GTTGATGCCACTT-CTTGGCGAGCACCAAAGTAAGCCTTCC
1 GTTGATGCCACTTCCTTGGCGA-CACCAAAGCAAGCCTTCC
356252 TACAAGAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.20
40 28 0.80
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (40 bp):
GTTGATGCCACTTCCTTGGCGACACCAAAGCAAGCCTTCC
Found at i:356804 original size:18 final size:18
Alignment explanation
Indices: 356757--356804 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
356747 TAAAAATAAA
356757 ATAATTTAT-TTTTATAT
1 ATAATTTATATTTTATAT
356774 ATTTAA-TTA-ATTTTATAT
1 A--TAATTTATATTTTATAT
356792 ATAATTTATATTT
1 ATAATTTATATTT
356805 ATTTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.12
17 4 0.15
18 16 0.62
19 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATAATTTATATTTTATAT
Found at i:356835 original size:22 final size:20
Alignment explanation
Indices: 356758--356840 Score: 70
Period size: 22 Copynumber: 4.3 Consensus size: 20
356748 AAAAATAAAA
*
356758 TAATTTAT-TTTTATATATT
1 TAATTTATATTTTTTATATT
*
356777 TAA-TTA-A--TTTTATATA
1 TAATTTATATTTTTTATATT
356793 TAATTTATATTTATTTA-ATT
1 TAATTTATATTT-TTTATATT
356813 TAATAATTATATTTTTTATATT
1 TAAT--TTATATTTTTTATATT
*
356835 TTATTT
1 TAATTT
356841 TATGTAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
16 10 0.20
17 3 0.06
18 4 0.08
19 3 0.06
20 9 0.18
21 8 0.16
22 14 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TAATTTATATTTTTTATATT
Found at i:357425 original size:27 final size:29
Alignment explanation
Indices: 357379--357433 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
357369 AATTTATATT
*
357379 ATATATTATGTAATTTTTATAATATAAAA
1 ATATATTATGTAATTATTATAATATAAAA
357408 ATATA-TATGTAA-TATTATAATATAAA
1 ATATATTATGTAATTATTATAATATAAA
357434 TATTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.52
28 7 0.28
29 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (29 bp):
ATATATTATGTAATTATTATAATATAAAA
Found at i:357505 original size:19 final size:19
Alignment explanation
Indices: 357481--357524 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
357471 TTAATAAAAG
357481 AAAATAAT-TAAATTTTAAA
1 AAAATAATAT-AATTTTAAA
*
357500 AAAAT-ATATATTTTTAAA
1 AAAATAATATAATTTTAAA
357518 AAAATAA
1 AAAATAA
357525 ATTGTAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATATAATTTTAAA
Found at i:358356 original size:6 final size:6
Alignment explanation
Indices: 358340--358413 Score: 57
Period size: 6 Copynumber: 12.2 Consensus size: 6
358330 TTTAATTTGA
* *
358340 TAAATT T-AATT TAAATT AAAAAATT TAAAATA TAATATTT TAAATT TAAATT
1 TAAATT TAAATT TAAATT --TAAATT T-AAATT TAA-A-TT TAAATT TAAATT
358392 T-AATT T-AATT T-AATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
358414 TTAATTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
5 20 0.35
6 21 0.37
7 7 0.12
8 9 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:360656 original size:19 final size:18
Alignment explanation
Indices: 360632--360675 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
360622 TTTAAATTAT
360632 TATTTATAAAATAATAAAA
1 TATTTATAAAATAAT-AAA
* *
360651 TATTTA-AAAATTATTAA
1 TATTTATAAAATAATAAA
360668 TATTTATA
1 TATTTATA
360676 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTATAAAATAATAAA
Found at i:361601 original size:37 final size:36
Alignment explanation
Indices: 361558--361633 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
361548 GTAATAAAAA
361558 ATTTAATGTATTGAATAAATTAAATAAT-TAAATAATT
1 ATTTAATGTATTGAATAAATT-AATAATAT-AATAATT
* *
361595 ATTTAATGTATTGAATTAATTTATAATATAATAATT
1 ATTTAATGTATTGAATAAATTAATAATATAATAATT
361631 ATT
1 ATT
361634 AAAATAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 15 0.42
37 21 0.58
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (36 bp):
ATTTAATGTATTGAATAAATTAATAATATAATAATT
Found at i:362123 original size:52 final size:50
Alignment explanation
Indices: 362053--362156 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 50
362043 TTTAATTCGG
362053 TAAATATATTAAAATTATTTATTAATTTAATTAATTTAATAACTTAAAAATAA
1 TAAATATATTAAAATTATTT-TTAATTTAATTAATTTAAT-A-TTAAAAATAA
** * ** *
362106 TAAA-ATATTAATTTTATTTTTTATTTTTTTAATTTTATATTAAAAATAA
1 TAAATATATTAAAATTATTTTTAATTTAATTAATTTAATATTAAAAATAA
362155 TA
1 TA
362157 TCATCAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 12 0.27
50 1 0.02
51 15 0.33
52 13 0.29
53 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (50 bp):
TAAATATATTAAAATTATTTTTAATTTAATTAATTTAATATTAAAAATAA
Found at i:362351 original size:22 final size:19
Alignment explanation
Indices: 362322--362362 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 19
362312 ATTTTATTTA
362322 AAATTTAATTATAAAATATAT
1 AAATTTAATT-TAAAA-ATAT
362343 AAATATTAATTTAAAAATAT
1 AAAT-TTAATTTAAAAATAT
362363 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTTAATTTAAAAATAT
Found at i:362374 original size:22 final size:23
Alignment explanation
Indices: 362349--362400 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
362339 ATATAAATAT
*
362349 TAATTTAAA-AATATTTTTAAAA
1 TAATTTAAATAAAATTTTTAAAA
* **
362371 TAA-TAAAATAAAATTTTTAATT
1 TAATTTAAATAAAATTTTTAAAA
362393 TAATTTAA
1 TAATTTAA
362401 TTTAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 4 0.17
22 16 0.70
23 3 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATTTAAATAAAATTTTTAAAA
Found at i:362420 original size:24 final size:25
Alignment explanation
Indices: 362393--362447 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
362383 ATTTTTAATT
*
362393 TAATTTAAT-TTAAAATAAATTAAA
1 TAATTTAATAATAAAATAAATTAAA
* *
362417 TAA-TAAATAATAAATTAAATTAAA
1 TAATTTAATAATAAAATAAATTAAA
362441 -AATTTAA
1 TAATTTAA
362448 ACTCCTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATTTAATAATAAAATAAATTAAA
Found at i:364525 original size:13 final size:14
Alignment explanation
Indices: 364507--364540 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
364497 ATTTTTAATT
364507 TTATTAAA-TTATA
1 TTATTAAATTTATA
*
364520 TTATTAAATTTTTA
1 TTATTAAATTTATA
364534 TTATTAA
1 TTATTAA
364541 TAAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTAAATTTATA
Found at i:364528 original size:30 final size:29
Alignment explanation
Indices: 364490--364547 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
364480 TTTTATATAA
*
364490 ATTATAAATTTTTAATT-TTATTAAATTAT
1 ATTATAAATTTTT-ATTATTAATAAATTAT
364519 ATTATTAAATTTTTATTATTAATAAATTA
1 ATTA-TAAATTTTTATTATTAATAAATTA
364548 AATCACTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTATAAATTTTTATTATTAATAAATTAT
Found at i:364532 original size:24 final size:23
Alignment explanation
Indices: 364462--364536 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 23
364452 ATTTTAAATC
*
364462 ATTAAATT-TATCATTAATTTTT
1 ATTAAATTATATTATTAATTTTT
*
364484 ATATAAATTATAAATTTTTAA-TTTT
1 AT-TAAATTAT--ATTATTAATTTTT
364509 ATTAAATTATATTATTAAATTTTT
1 ATTAAATTATATTATT-AATTTTT
364533 ATTA
1 ATTA
364537 TTAATAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 17 0.39
25 6 0.14
26 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTAAATTATATTATTAATTTTT
Done.