Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold79
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: 4189514
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 5041 characters in sequence are not A, C, G, or T
File 19 of 26
Found at i:2630499 original size:28 final size:28
Alignment explanation
Indices: 2630446--2630500 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2630436 GAGAGGGGAC
*
2630446 GACGGGGCCGGGGGCGAGTGGGGGGGGG
1 GACGGGGCCGGGCGCGAGTGGGGGGGGG
* *
2630474 GACGGGGCCGGGCGTG-GTGGGAGGGGG
1 GACGGGGCCGGGCGCGAGTGGGGGGGGG
2630501 CAGACATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.07, C:0.15, G:0.73, T:0.05
Consensus pattern (28 bp):
GACGGGGCCGGGCGCGAGTGGGGGGGGG
Found at i:2631425 original size:18 final size:19
Alignment explanation
Indices: 2631389--2631427 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2631379 AGAATAAAAG
*
2631389 TAAACTTTAATTTAATCTT
1 TAAACTTTAAATTAATCTT
*
2631408 TAAAC-TTAAATTATTCTT
1 TAAACTTTAAATTAATCTT
2631426 TA
1 TA
2631428 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAACTTTAAATTAATCTT
Found at i:2633707 original size:33 final size:33
Alignment explanation
Indices: 2633670--2633734 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
2633660 AATTGCCAAA
2633670 TTAGGATTGTAGATAATTCTAAGGCTTATTGAG
1 TTAGGATTGTAGATAATTCTAAGGCTTATTGAG
*
2633703 TTAGGATTGTAGATAATTCTGAGGCTTATTGA
1 TTAGGATTGTAGATAATTCTAAGGCTTATTGA
2633735 ATTCTTACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (33 bp):
TTAGGATTGTAGATAATTCTAAGGCTTATTGAG
Found at i:2633765 original size:2 final size:2
Alignment explanation
Indices: 2633758--2633791 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2633748 CTGGATTCCA
2633758 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2633792 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2635125 original size:33 final size:33
Alignment explanation
Indices: 2635083--2635147 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
2635073 ATGTAAGAAT
2635083 TCAATAAGCCTCAGAATTATCTACAATCCTAAC
1 TCAATAAGCCTCAGAATTATCTACAATCCTAAC
*
2635116 TCAATAAGCCTTAGAATTATCTACAATCCTAA
1 TCAATAAGCCTCAGAATTATCTACAATCCTAA
2635148 TTTTGGCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (33 bp):
TCAATAAGCCTCAGAATTATCTACAATCCTAAC
Found at i:2637388 original size:14 final size:15
Alignment explanation
Indices: 2637369--2637398 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2637359 AATAAAATAT
2637369 TATTTTTAT-TTTTA
1 TATTTTTATATTTTA
2637383 TATTTTTATATTTTA
1 TATTTTTATATTTTA
2637398 T
1 T
2637399 TATTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTTATATTTTA
Found at i:2637810 original size:23 final size:24
Alignment explanation
Indices: 2637779--2637825 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2637769 CTAAATTATA
* *
2637779 TAAATAAAATATATTTAA-AAAAT
1 TAAAAAAAATAAATTTAATAAAAT
2637802 TAAAAAAAATAAATTTAATAAAAT
1 TAAAAAAAATAAATTTAATAAAAT
2637826 ACATTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAAAAATAAATTTAATAAAAT
Found at i:2643592 original size:17 final size:16
Alignment explanation
Indices: 2643570--2643655 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 16
2643560 AATATTTAAA
2643570 TATATTAAAAATAATTT
1 TATATTAAAAAT-ATTT
*
2643587 TATATT-AATATA-TT
1 TATATTAAAAATATTT
*
2643601 T-TA--AAATATA-TT
1 TATATTAAAAATATTT
2643613 TATATTAAAAATTATTT
1 TATATTAAAAA-TATTT
* *
2643630 TTTATTAAATAATAATT
1 TATATTAAA-AATATTT
*
2643647 TAAATTAAA
1 TATATTAAA
2643656 CTATTAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
12 9 0.16
13 4 0.07
14 3 0.05
15 5 0.09
16 6 0.11
17 27 0.48
18 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATTAAAAATATTT
Found at i:2643599 original size:27 final size:24
Alignment explanation
Indices: 2643555--2643621 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 24
2643545 AAAAAAACTC
2643555 ATTTTAATATTTAAATATATTAAAAAT
1 ATTTT-ATA-TTAAATAT-TTAAAAAT
*
2643582 AATTTTATATTAATATATTTTAAAAT
1 -ATTTTATATTAA-ATATTTAAAAAT
2643608 ATATTTATATTAAA
1 AT-TTTATATTAAA
2643622 AATTATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 3 0.08
26 21 0.58
27 7 0.19
28 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTTATATTAAATATTTAAAAAT
Found at i:2643606 original size:26 final size:25
Alignment explanation
Indices: 2643568--2643620 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
2643558 TTAATATTTA
2643568 AATATATTAAAAATA-ATTTTATATT
1 AATATATTAAAAATATA-TTTATATT
*
2643593 AATATATTTTAAAATATATTTATATT
1 AATATA-TTAAAAATATATTTATATT
2643619 AA
1 AA
2643621 AAATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 18 0.72
27 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATATATTAAAAATATATTTATATT
Found at i:2643700 original size:21 final size:21
Alignment explanation
Indices: 2643643--2643700 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
2643633 ATTAAATAAT
**
2643643 AATTTAAATTAAACTATTAAA
1 AATTTAAATTAATTTATTAAA
* * *
2643664 AATTTAAAATATTTTATTATA
1 AATTTAAATTAATTTATTAAA
*
2643685 AATTTAATTTAATTTA
1 AATTTAAATTAATTTA
2643701 GATCAAAGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTAAATTAATTTATTAAA
Found at i:2643914 original size:14 final size:15
Alignment explanation
Indices: 2643895--2643923 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2643885 TATTTTATAT
2643895 TTATATT-AATTTTA
1 TTATATTAAATTTTA
2643909 TTATATTAAATTTTA
1 TTATATTAAATTTTA
2643924 AAAAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTAAATTTTA
Found at i:2643963 original size:30 final size:29
Alignment explanation
Indices: 2643910--2643997 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
2643900 TTAATTTTAT
* *
2643910 TATATTAAATTTTAAAAAATATATTTAAAA
1 TATATT-AATTTTAATAATTATATTTAAAA
* *
2643940 TATATTATATTTTAATTATTATA--T-ATA
1 TATATTA-ATTTTAATAATTATATTTAAAA
*
2643967 TATATTAAATTTATATAATTATATTTAAAA
1 TATATTAATTTTA-ATAATTATATTTAAAA
2643997 T
1 T
2643998 TATCAAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
26 5 0.11
27 17 0.37
28 1 0.02
29 2 0.04
30 21 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TATATTAATTTTAATAATTATATTTAAAA
Found at i:2643964 original size:21 final size:20
Alignment explanation
Indices: 2643939--2643998 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
2643929 TATATTTAAA
*
2643939 ATATATTATATTTTAATTATT
1 ATATATTATATTTTAAAT-TT
*
2643960 ATATA-TATATATTAAATTT
1 ATATATTATATTTTAAATTT
*
2643979 ATATAATTATATTTAAAATT
1 ATAT-ATTATATTTTAAATT
2643999 ATCAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATATTTTAAATTT
Found at i:2643987 original size:27 final size:27
Alignment explanation
Indices: 2643910--2643990 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
2643900 TTAATTTTAT
* * *
2643910 TATATTAAATTTTAAAAAATATATTTAAAA
1 TATATTAAATTTT-AATAAT-TATAT-ATA
* *
2643940 TATATTATATTTTAATTATTATATATA
1 TATATTAAATTTTAATAATTATATATA
2643967 TATATTAAA-TTTATATAATTATAT
1 TATATTAAATTTTA-ATAATTATAT
2643991 TTAAAATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.09
27 19 0.44
28 4 0.09
29 4 0.09
30 12 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATATTAAATTTTAATAATTATATATA
Found at i:2643990 original size:57 final size:55
Alignment explanation
Indices: 2643881--2643997 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 55
2643871 AATCAAATTA
*
2643881 AAAATATTTTATATTTATATTAATTTTATTATATTAAATTTTAAAAAATATATTT
1 AAAATATATTATATTTATATTAATTTTATTATATTAAATTTTAAAAAATATATTT
* *
2643936 AAAATATATTATATTT-TAATT-ATTATATATATATATTAAA-TTTATATAATTATATTT
1 AAAATATATTATATTTAT-ATTAATT-T-TAT-TATATTAAATTTTA-AAAAATATATTT
2643993 AAAAT
1 AAAAT
2643998 TATCAAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
54 4 0.07
55 19 0.35
56 7 0.13
57 24 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (55 bp):
AAAATATATTATATTTATATTAATTTTATTATATTAAATTTTAAAAAATATATTT
Found at i:2644007 original size:21 final size:21
Alignment explanation
Indices: 2643965--2644007 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2643955 TTATTATATA
* *
2643965 TATATATTAAATTTATATAAT
1 TATATATTAAAATTATAAAAT
2643986 TATAT-TTAAAATTATCAAAAT
1 TATATATTAAAATTAT-AAAAT
2644007 T
1 T
2644008 TAATTGAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATATTAAAATTATAAAAT
Found at i:2644260 original size:2 final size:2
Alignment explanation
Indices: 2644253--2644277 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2644243 TTTCAATTTT
2644253 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2644278 TCGATTTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2644895 original size:3 final size:3
Alignment explanation
Indices: 2644889--2644934 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
2644879 TTATGGTTGG
*
2644889 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2644935 ACAAAACAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2645925 original size:23 final size:22
Alignment explanation
Indices: 2645880--2645924 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
2645870 TTAATTTTAT
2645880 TTATTTTATAATTATATAATATA
1 TTATTTTAT-ATTATATAATATA
*
2645903 TTATTTTAT-TTATATATTATA
1 TTATTTTATATTATATAATATA
2645924 T
1 T
2645925 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
23 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTTTATATTATATAATATA
Found at i:2645934 original size:32 final size:32
Alignment explanation
Indices: 2645873--2645934 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
2645863 ATTTGATTTA
*
2645873 ATTTTATTTATTTTATAATTATATAATATATT
1 ATTTTATTTATTTTATAATAATATAATATATT
2645905 ATTTTATTTATATATTAT-ATAATAT-ATATA
1 ATTTTATTTAT-T-TTATAATAATATAATATA
2645935 ATATAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 16 0.59
33 7 0.26
34 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
ATTTTATTTATTTTATAATAATATAATATATT
Found at i:2645962 original size:29 final size:29
Alignment explanation
Indices: 2645920--2646034 Score: 78
Period size: 27 Copynumber: 4.0 Consensus size: 29
2645910 ATTTATATAT
2645920 TATATA-ATATATATAATATAAAAATTAAA
1 TATATATATA-ATATAATATAAAAATTAAA
*
2645949 TATATATATAATAT--TATGAAAATTAAA
1 TATATATATAATATAATATAAAAATTAAA
* * *
2645976 AATATAT-TAAATTATATATTTAAAAATTTAA
1 TATATATAT-AA-TATA-ATATAAAAATTAAA
* * * *
2646007 TAAAAAATATAAAATTAT-TAAAAATTAA
1 T-ATATATATAATATAATATAAAAATTAA
2646035 TACTTAGTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
26 1 0.01
27 20 0.30
28 3 0.04
29 19 0.28
30 5 0.07
31 12 0.18
32 6 0.09
33 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
TATATATATAATATAATATAAAAATTAAA
Found at i:2645970 original size:27 final size:26
Alignment explanation
Indices: 2645925--2646002 Score: 92
Period size: 24 Copynumber: 3.1 Consensus size: 26
2645915 TATATTATAT
2645925 AATATATATAATA-TA-AAAATTAAA
1 AATATATATAATATTATAAAATTAAA
*
2645949 TATATATATAATATTATGAAAATTAAA
1 AATATATATAATATTAT-AAAATTAAA
* *
2645976 AATATAT-TAA-ATTATATATTTAAA
1 AATATATATAATATTATAAAATTAAA
2646000 AAT
1 AAT
2646003 TTAATAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 22 0.47
25 7 0.15
26 3 0.06
27 15 0.32
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (26 bp):
AATATATATAATATTATAAAATTAAA
Found at i:2646016 original size:24 final size:24
Alignment explanation
Indices: 2645971--2646017 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2645961 ATTATGAAAA
* **
2645971 TTAAAAATATATTAAATTATATAT
1 TTAAAAATATAATAAAAAATATAT
*
2645995 TTAAAAATTTAATAAAAAATATA
1 TTAAAAATATAATAAAAAATATA
2646018 AAATTATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAAAATATAATAAAAAATATAT
Found at i:2646138 original size:2 final size:2
Alignment explanation
Indices: 2646131--2646159 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2646121 ACTGGGAAAG
2646131 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2646160 TAGGACAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2650571 original size:17 final size:18
Alignment explanation
Indices: 2650537--2650571 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2650527 AAAATAGTTT
*
2650537 TTTTTAAGATAAGGGTAG
1 TTTTTAAGATAAGAGTAG
2650555 TTTTTAAGAT-AGAGTAG
1 TTTTTAAGATAAGAGTAG
2650572 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
TTTTTAAGATAAGAGTAG
Found at i:2650620 original size:34 final size:34
Alignment explanation
Indices: 2650577--2650647 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
2650567 AGTAGATATT
*
2650577 TTTAATTTTTTTATTAAT-TATTATTAA-AAAATA
1 TTTAATTTTTATATTAATAT-TTATTAACAAAATA
* *
2650610 TTTATATTTTTATATTTATATTTATTAACATAATA
1 TTTA-ATTTTTATATTAATATTTATTAACAAAATA
2650645 TTT
1 TTT
2650648 TGATATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.12
34 19 0.59
35 9 0.28
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (34 bp):
TTTAATTTTTATATTAATATTTATTAACAAAATA
Found at i:2650666 original size:39 final size:34
Alignment explanation
Indices: 2650597--2650666 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 34
2650587 TTATTAATTA
2650597 TTATTAAAAAATATTTATATTTTTATATTTATAT
1 TTATTAAAAAATATTTATATTTTTATATTTATAT
*
2650631 TTATTAACATAATATTTTGATATATTTTATCATTTA
1 TTATTAA-AAAATA-TTT-ATAT-TTTTAT-ATTTA
2650667 ATTGATATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 7 0.23
35 5 0.17
36 3 0.10
37 4 0.13
38 6 0.20
39 5 0.17
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (34 bp):
TTATTAAAAAATATTTATATTTTTATATTTATAT
Found at i:2654505 original size:2 final size:2
Alignment explanation
Indices: 2654498--2654523 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2654488 TCTTTTCAAC
2654498 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
2654524 GAAAATTTAA
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:2655783 original size:4 final size:4
Alignment explanation
Indices: 2655774--2655812 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
2655764 GTATGCAGTA
*
2655774 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
2655813 CATCAATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:2660395 original size:2 final size:2
Alignment explanation
Indices: 2660388--2660415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2660378 GTTTCAAATA
2660388 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2660416 TCAATACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2664420 original size:2 final size:2
Alignment explanation
Indices: 2664413--2664447 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2664403 GAAATTATAA
2664413 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2664448 AAGATTACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2672087 original size:14 final size:15
Alignment explanation
Indices: 2672063--2672095 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2672053 TAAAATTTAA
2672063 TAATTCAAATTAAAT
1 TAATTCAAATTAAAT
2672078 TAATTC-AATTAAAT
1 TAATTCAAATTAAAT
2672092 TAAT
1 TAAT
2672096 ATTCATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTCAAATTAAAT
Found at i:2681339 original size:68 final size:68
Alignment explanation
Indices: 2681237--2681382 Score: 292
Period size: 68 Copynumber: 2.1 Consensus size: 68
2681227 TAATATTATT
2681237 AATTAAAGCTGCTGGAATTATTGTATTTTTAATTTTTTTAGTTATTTATAGATGAAATTCCTATT
1 AATTAAAGCTGCTGGAATTATTGTATTTTTAATTTTTTTAGTTATTTATAGATGAAATTCCTATT
2681302 AAA
66 AAA
2681305 AATTAAAGCTGCTGGAATTATTGTATTTTTAATTTTTTTAGTTATTTATAGATGAAATTCCTATT
1 AATTAAAGCTGCTGGAATTATTGTATTTTTAATTTTTTTAGTTATTTATAGATGAAATTCCTATT
2681370 AAA
66 AAA
2681373 AATTAAAGCT
1 AATTAAAGCT
2681383 AATACACTAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 78 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (68 bp):
AATTAAAGCTGCTGGAATTATTGTATTTTTAATTTTTTTAGTTATTTATAGATGAAATTCCTATT
AAA
Found at i:2685403 original size:46 final size:46
Alignment explanation
Indices: 2685350--2685444 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
2685340 CTTACAGACT
* *
2685350 GTGGCTTCTGTGTCTCAATGGGATGAAGATTACAGCAAGGCGTTGG
1 GTGGCTTCTGTGTCTCAATAGGATGAAGATTACAGCAAGGCATTGG
2685396 GTGGCTTCTGTGTCTCAATAGGATGAAGATTACAGCAAGGCATTGG
1 GTGGCTTCTGTGTCTCAATAGGATGAAGATTACAGCAAGGCATTGG
2685442 GTG
1 GTG
2685445 ACCCTTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (46 bp):
GTGGCTTCTGTGTCTCAATAGGATGAAGATTACAGCAAGGCATTGG
Found at i:2694966 original size:23 final size:21
Alignment explanation
Indices: 2694940--2694988 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
2694930 ACTCATTAAC
*
2694940 TTTCTCTCTCTTTCCTTTTTTTT
1 TTTCTCT-TCTTT-CTTCTTTTT
2694963 TTTCT-TTCTTTCTTCTTTTT
1 TTTCTCTTCTTTCTTCTTTTT
2694983 TTTCTC
1 TTTCTC
2694989 CTTTTTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 13 0.54
21 5 0.21
22 1 0.04
23 5 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTCTCTTCTTTCTTCTTTTT
Found at i:2695152 original size:25 final size:25
Alignment explanation
Indices: 2695110--2695172 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
2695100 GATATTTTAA
* * *
2695110 ATAAATA-AAAATATAAAAATTAAT
1 ATAAATATAAAAAAAAAAAAATAAT
2695134 -TAAAATATAAAAAAAAAAAAATAAT
1 AT-AAATATAAAAAAAAAAAAATAAT
2695159 ATAAATATAAAAAA
1 ATAAATATAAAAAA
2695173 TATATAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 5 0.15
25 26 0.79
26 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (25 bp):
ATAAATATAAAAAAAAAAAAATAAT
Found at i:2695177 original size:17 final size:17
Alignment explanation
Indices: 2695116--2695183 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 17
2695106 TTAAATAAAT
*
2695116 AAAAATATAAAAAT-TA
1 AAAAATATATAAATATA
* *
2695132 ATTAAAATATA-AAAAAAA
1 A--AAAATATATAAATATA
2695150 AAAAATAATATAAATATA
1 AAAAAT-ATATAAATATA
2695168 AAAAATATATAAATAT
1 AAAAATATATAAATAT
2695184 TATATAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 6 0.14
17 16 0.37
18 21 0.49
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATATATAAATATA
Found at i:2695275 original size:15 final size:15
Alignment explanation
Indices: 2695252--2695281 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2695242 AAAAAAATTA
2695252 TTTTCTCTCTTTCTT
1 TTTTCTCTCTTTCTT
*
2695267 TTTTGTCTCTTTCTT
1 TTTTCTCTCTTTCTT
2695282 CTCTTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTCTCTCTTTCTT
Found at i:2695292 original size:13 final size:13
Alignment explanation
Indices: 2695253--2695310 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
2695243 AAAAAATTAT
2695253 TTTC-TCTCTTTC
1 TTTCTTCTCTTTC
* *
2695265 TTT-TT-TGTCTC
1 TTTCTTCTCTTTC
2695276 TTTCTTCTCTTTC
1 TTTCTTCTCTTTC
*
2695289 TTTC-TCTCCTTCC
1 TTTCTTCT-CTTTC
2695302 TTTCTTCTC
1 TTTCTTCTC
2695311 ATGGCTCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
11 7 0.19
12 9 0.25
13 17 0.47
14 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.66
Consensus pattern (13 bp):
TTTCTTCTCTTTC
Found at i:2697496 original size:6 final size:6
Alignment explanation
Indices: 2697487--2697550 Score: 52
Period size: 6 Copynumber: 11.8 Consensus size: 6
2697477 ATAATATTCA
* **
2697487 TATATT TATA-T TATATT AATATT T-TA-T TATA-T TATAAA TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
2697531 TA-A-- TATATT TATATT TATAT
1 TATATT TATATT TATATT TATAT
2697551 AATTTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
3 2 0.04
4 3 0.06
5 15 0.32
6 27 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
TATATT
Found at i:2697501 original size:11 final size:11
Alignment explanation
Indices: 2697487--2697550 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
2697477 ATAATATTCA
2697487 TATATTTATAT
1 TATATTTATAT
*
2697498 TATATTAATAT
1 TATATTTATAT
*
2697509 TTTA-TTATAT
1 TATATTTATAT
**
2697519 TATAAATATAT
1 TATATTTATAT
*
2697530 T-TA-ATATATT
1 TATATTTATA-T
2697540 TATATTTATAT
1 TATATTTATAT
2697551 AATTTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 5 0.12
10 12 0.28
11 22 0.51
12 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTTATAT
Found at i:2697516 original size:16 final size:17
Alignment explanation
Indices: 2697488--2697578 Score: 63
Period size: 15 Copynumber: 5.7 Consensus size: 17
2697478 TAATATTCAT
2697488 ATATTTATATTATATTA
1 ATATTTATATTATATTA
2697505 ATATTT-TATTATATT-
1 ATATTTATATTATATTA
** *
2697520 ATAAATATATT-TAAT-
1 ATATTTATATTATATTA
2697535 ATATTTATATT-TA-T-
1 ATATTTATATTATATTA
**
2697549 ATAATTTA-AAAATATTA
1 AT-ATTTATATTATATTA
2697566 ATAATTTATATTA
1 AT-ATTTATATTA
2697579 AATAAACTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
14 4 0.07
15 25 0.42
16 14 0.24
17 14 0.24
18 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTTATATTATATTA
Found at i:2697518 original size:21 final size:22
Alignment explanation
Indices: 2697492--2697556 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
2697482 ATTCATATAT
2697492 TTATATTATATTAATAT-TTTA
1 TTATATTATATTAATATATTTA
2697513 TTATATTATA--AATATATTTA
1 TTATATTATATTAATATATTTA
* *
2697533 ATATATTTATATTTATATAATTTA
1 TTATA-TTATATTAATAT-ATTTA
2697557 AAAATATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 5 0.14
20 8 0.22
21 15 0.41
23 4 0.11
24 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATTATATTAATATATTTA
Found at i:2697545 original size:36 final size:35
Alignment explanation
Indices: 2697486--2697596 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 35
2697476 TATAATATTC
*
2697486 ATATATTTATATTATATTAATATTTTAT-TATATTATAA
1 ATATATTTA-A-TATATTTATATTTTATATA-ATT-TAA
2697524 ATATATTTAATATATTTATA-TTTATATAATTTAA
1 ATATATTTAATATATTTATATTTTATATAATTTAA
* **
2697558 AAATA-TTAATA-ATTTATATTAAATA-AACTTTAA
1 ATATATTTAATATATTTATATTTTATATAA-TTTAA
2697591 ATATAT
1 ATATAT
2697597 ACATTTATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
32 9 0.14
33 19 0.30
34 7 0.11
35 8 0.12
36 11 0.17
37 1 0.02
38 9 0.14
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (35 bp):
ATATATTTAATATATTTATATTTTATATAATTTAA
Found at i:2700281 original size:13 final size:13
Alignment explanation
Indices: 2700263--2700289 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2700253 AAATATTTTA
2700263 TAAATTTAAAATT
1 TAAATTTAAAATT
2700276 TAAATTTAAAATT
1 TAAATTTAAAATT
2700289 T
1 T
2700290 TATTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATTTAAAATT
Found at i:2700721 original size:30 final size:32
Alignment explanation
Indices: 2700685--2700761 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 32
2700675 TTATTACATA
*
2700685 TAAAATAAATTATTAATCTTTAATTTAT-AT-
1 TAAAATAAATTATTAATATTTAATTTATAATG
2700715 TAAAATAAAATT-TTAATATTTAATTTATAAATG
1 TAAAAT-AAATTATTAATATTTAATTTAT-AATG
*
2700748 TAAAAAAAATTATT
1 TAAAATAAATTATT
2700762 TAAAATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 21 0.52
31 5 0.12
32 7 0.17
33 7 0.17
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (32 bp):
TAAAATAAATTATTAATATTTAATTTATAATG
Found at i:2711357 original size:17 final size:17
Alignment explanation
Indices: 2711331--2711366 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2711321 TATTGAGTTC
*
2711331 GATTATTTAAATTATAT
1 GATTACTTAAATTATAT
2711348 GATTACTTAAATTATAT
1 GATTACTTAAATTATAT
2711365 GA
1 GA
2711367 GTTTGATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (17 bp):
GATTACTTAAATTATAT
Found at i:2711648 original size:23 final size:24
Alignment explanation
Indices: 2711600--2711648 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
2711590 AATCTCAGAT
*
2711600 AAAATGTAATGAATAAAAATATAA
1 AAAATGTAATGAATAAAAATACAA
*
2711624 AAAAT-TAA-GAATGAAAATGACAA
1 AAAATGTAATGAATAAAAAT-ACAA
2711647 AA
1 AA
2711649 TAGCTTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 8 0.36
24 5 0.23
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.20
Consensus pattern (24 bp):
AAAATGTAATGAATAAAAATACAA
Found at i:2711805 original size:13 final size:14
Alignment explanation
Indices: 2711782--2711814 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2711772 GGAGGGACAG
2711782 TTTTCTGTTTTCTT
1 TTTTCTGTTTTCTT
*
2711796 TTTTCT-TTTTTTT
1 TTTTCTGTTTTCTT
2711809 TTTTCT
1 TTTTCT
2711815 CTTCTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTCTGTTTTCTT
Found at i:2711806 original size:7 final size:7
Alignment explanation
Indices: 2711782--2711814 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2711772 GGAGGGACAG
*
2711782 TTTTCTG
1 TTTTCTT
2711789 TTTTCTT
1 TTTTCTT
2711796 TTTTCTT
1 TTTTCTT
2711803 TTTT-TT
1 TTTTCTT
2711809 TTTTCT
1 TTTTCT
2711815 CTTCTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:2712020 original size:33 final size:33
Alignment explanation
Indices: 2711978--2712053 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
2711968 CCCAAAATAA
*
2711978 ATTTGTAATTTTTTAATAATTTTATTATGCTTT
1 ATTTGTAATTTTTTAATAATTTTATTATACTTT
2712011 ATTTGTAATTTTTTAATAATTTTATTATACTTT
1 ATTTGTAATTTTTTAATAATTTTATTATACTTT
*
2712044 ATTTGAAATT
1 ATTTGTAATT
2712054 GTGGTGAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (33 bp):
ATTTGTAATTTTTTAATAATTTTATTATACTTT
Found at i:2712146 original size:21 final size:20
Alignment explanation
Indices: 2712120--2712182 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
2712110 TTATACTTAA
2712120 TTAAATTAAGTTAAATTAAAT
1 TTAAATTAA-TTAAATTAAAT
*
2712141 TTAAA-TAATTTAAAATAAAATT
1 TTAAATTAA-TT-AAATTAAA-T
2712163 TTAAATT--TTAAATTAAAT
1 TTAAATTAATTAAATTAAAT
2712181 TT
1 TT
2712183 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 3 0.08
19 7 0.19
20 7 0.19
21 12 0.33
22 6 0.17
23 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTAAATTAATTAAATTAAAT
Found at i:2712178 original size:25 final size:25
Alignment explanation
Indices: 2712150--2712221 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
2712140 TTTAAATAAT
*
2712150 TTAAAATAAAATTTTAAATTTTAAA
1 TTAAAATAAATTTTTAAATTTTAAA
* ** *
2712175 TTAAATTTTATTTTTAAAATTTAAA
1 TTAAAATAAATTTTTAAATTTTAAA
*
2712200 TAAAAAGTAAATTATTTAAATT
1 TTAAAA-TAAATT-TTTAAATT
2712222 AATTCGATTA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
25 24 0.69
26 4 0.11
27 7 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (25 bp):
TTAAAATAAATTTTTAAATTTTAAA
Found at i:2712195 original size:19 final size:20
Alignment explanation
Indices: 2712132--2712200 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 20
2712122 AAATTAAGTT
2712132 AAATTAAA-TTTAAATAATTTA
1 AAATTAAATTTTAAAT--TTTA
*
2712153 AAATAAAATTTTAAATTTT-
1 AAATTAAATTTTAAATTTTA
*
2712172 AAATTAAATTTT-ATTTTTA
1 AAATTAAATTTTAAATTTTA
2712191 AAATTTAAAT
1 AAA-TTAAAT
2712201 AAAAAGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.12
19 14 0.33
20 9 0.21
21 7 0.17
22 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATTAAATTTTAAATTTTA
Found at i:2712393 original size:34 final size:35
Alignment explanation
Indices: 2712337--2712409 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
2712327 TACTAATTAA
* * * *
2712337 AAATAAAAAATTAAATTAAATTTA-TAAATTATTT
1 AAATAAAAAATAAAAATAAATTTATTAAATAACTT
2712371 AAATAAAAAATAAAAA-ATAATTTATTAAATAACTT
1 AAATAAAAAATAAAAATA-AATTTATTAAATAACTT
2712406 AAAT
1 AAAT
2712410 TTAACTCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 20 0.61
35 12 0.36
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (35 bp):
AAATAAAAAATAAAAATAAATTTATTAAATAACTT
Found at i:2714230 original size:1 final size:1
Alignment explanation
Indices: 2714224--2714253 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
2714214 TCCGGTAGAG
*
2714224 TTTTTTTTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2714254 GCAAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:2714376 original size:21 final size:21
Alignment explanation
Indices: 2714335--2714372 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
2714325 TTATTAATAA
2714335 TTAAATTTAATTATTTAAATT
1 TTAAATTTAATTATTTAAATT
2714356 TTAAA-TT-ATTATTTAAA
1 TTAAATTTAATTATTTAAA
2714373 AATTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 2 0.12
21 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAATTTAATTATTTAAATT
Found at i:2714415 original size:24 final size:21
Alignment explanation
Indices: 2714374--2714416 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 21
2714364 TTATTTAAAA
2714374 ATTAATATTTTTATATTAATC
1 ATTAATATTTTTATATTAATC
2714395 ATTATATATATTTTATAATTAA
1 ATTA-ATAT-TTTTAT-ATTAA
2714417 ATACTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 6 0.32
24 5 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATATTTTTATATTAATC
Found at i:2714539 original size:9 final size:10
Alignment explanation
Indices: 2714525--2714674 Score: 59
Period size: 9 Copynumber: 15.3 Consensus size: 10
2714515 TTATAATATA
2714525 AAAATA-AAT
1 AAAATATAAT
2714534 AAAATATAATAT
1 AAAATAT-A-AT
2714546 AAAATATAAT
1 AAAATATAAT
*
2714556 ACGAATATAAT
1 A-AAATATAAT
2714567 ATAAATAT-AT
1 A-AAATATAAT
**
2714577 -AAATATTTT
1 AAAATATAAT
2714586 AAAATAT-AT
1 AAAATATAAT
*
2714595 AATATA-AATT
1 AAAATATAA-T
* *
2714605 ATTAATATATT
1 A-AAATATAAT
*
2714616 AAAAT-TTAT
1 AAAATATAAT
*
2714625 ATAA-AT-AT
1 AAAATATAAT
* *
2714633 AAATTAT-TT
1 AAAATATAAT
*
2714642 TAAATATAATT
1 AAAATATAA-T
*
2714653 ATAATATAAT
1 AAAATATAAT
2714663 AAAATAT-AT
1 AAAATATAAT
2714672 AAA
1 AAA
2714675 TTCAGAGCTA
Statistics
Matches: 105, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
8 10 0.10
9 33 0.31
10 23 0.22
11 29 0.28
12 10 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
AAAATATAAT
Found at i:2714542 original size:11 final size:12
Alignment explanation
Indices: 2714516--2714578 Score: 78
Period size: 11 Copynumber: 5.4 Consensus size: 12
2714506 GATATAATTT
2714516 TATAATATAAAA
1 TATAATATAAAA
2714528 -ATAA-ATAAAA
1 TATAATATAAAA
2714538 TATAATATAAAA
1 TATAATATAAAA
**
2714550 TATAATA-CGAA
1 TATAATATAAAA
2714561 TATAATATAAATA
1 TATAATATAAA-A
2714574 TATAA
1 TATAA
2714579 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.14
11 17 0.40
12 14 0.33
13 6 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:2714567 original size:5 final size:5
Alignment explanation
Indices: 2714516--2714670 Score: 62
Period size: 5 Copynumber: 31.8 Consensus size: 5
2714506 GATATAATTT
* *
2714516 TATAA TATAA -A-AA TA-AA TAAAA TATAA TATAAAA TATAA TACGAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT--AA TATAA TA-TAA
* * * *
2714561 TATAA TATAA -AT-A TATAA -ATAT TTTAA AAT-A TATAA TATAA -ATTA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * *
2714606 T-TAA TATAT TAAAA T-TTA TATAAA TATAA -ATTAT TTTAAA TATAA
1 TATAA TATAA TATAA TATAA TAT-AA TATAA TA-TAA TAT-AA TATAA
*
2714651 TTATAA TATAA TAAAA TATA
1 -TATAA TATAA TATAA TATA
2714671 TAAATTCAGA
Statistics
Matches: 110, Mismatches: 23, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
3 3 0.03
4 25 0.23
5 61 0.55
6 16 0.15
7 5 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:2714580 original size:47 final size:46
Alignment explanation
Indices: 2714516--2714675 Score: 132
Period size: 47 Copynumber: 3.4 Consensus size: 46
2714506 GATATAATTT
*
2714516 TATAATATAAA-A-ATAAATAAAATATAATATAAAATATAA-TACGAA
1 TATAATA-AAATATATAAATAAAATATAATATAAAATATAATTA-TAA
*** * *
2714561 TATAATATAAATATATAAATATTTTAAAATATATAATATAAATTATTAA
1 TATAATA-AAATATATAAATAAAATATAATATAAAATAT-AATTA-TAA
* * *
2714610 TATATTAAAATTTATATAAATATAAAT-T-ATTTTAAATATAATTATAA
1 TATAATAAAA--TATATAAATA-AAATATAATATAAAATATAATTATAA
2714657 TATAATAAAATATATAAAT
1 TATAATAAAATATATAAAT
2714676 TCAGAGCTAA
Statistics
Matches: 92, Mismatches: 16, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
45 20 0.22
46 1 0.01
47 32 0.35
48 10 0.11
49 18 0.20
50 10 0.11
51 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (46 bp):
TATAATAAAATATATAAATAAAATATAATATAAAATATAATTATAA
Found at i:2714593 original size:52 final size:53
Alignment explanation
Indices: 2714533--2714668 Score: 129
Period size: 54 Copynumber: 2.5 Consensus size: 53
2714523 TAAAAATAAA
*
2714533 TAAAATATAATATAAAATATAATACGAATATAA-TATA-AATATATAAA-TATTT
1 TAAAATATAATATAAAATATAATA-GAATAAAATTATATAA-ATATAAATTATTT
* * *
2714585 TAAAATATATAATATAAATTATTAATATATTAAAATTTATATAAATATAAATTATTT
1 T-AAA-ATATAATATAAAATA-TAATAGAATAAAA-TTATATAAATATAAATTATTT
* *
2714642 T-AAATATAAT-TATAATATAATAAAATA
1 TAAAATATAATATAAAATATAATAGAATA
2714669 TATAAATTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
52 9 0.13
53 8 0.12
54 26 0.38
55 7 0.10
56 11 0.16
57 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (53 bp):
TAAAATATAATATAAAATATAATAGAATAAAATTATATAAATATAAATTATTT
Found at i:2714614 original size:22 final size:22
Alignment explanation
Indices: 2714563--2714614 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
2714553 AATACGAATA
* *
2714563 TAATATAAATATATAAATATTT
1 TAATATATATATATAAATATAT
*
2714585 TAAAATATATAATATAAAT-TAT
1 TAATATATAT-ATATAAATATAT
2714607 TAATATAT
1 TAATATAT
2714615 TAAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATATATATATATAAATATAT
Found at i:2714636 original size:16 final size:15
Alignment explanation
Indices: 2714560--2714675 Score: 75
Period size: 16 Copynumber: 7.5 Consensus size: 15
2714550 TATAATACGA
2714560 ATAT-AATATAAA-T
1 ATATAAATATAAATT
*
2714573 ATATAAATATTTTAAAAT
1 ATATAAATA---TAAATT
2714591 ATAT-AATATAAATT
1 ATATAAATATAAATT
2714605 AT-TAATATATTAAAATTT
1 ATATAA-ATA-T-AAA-TT
2714623 ATATAAATATAAATT
1 ATATAAATATAAATT
*
2714638 ATTTTAAATAT-AATT
1 A-TATAAATATAAATT
2714653 ATAATATAATA-AAA-T
1 AT-ATA-AATATAAATT
2714668 ATATAAAT
1 ATATAAAT
2714676 TCAGAGCTAA
Statistics
Matches: 85, Mismatches: 3, Indels: 30
0.72 0.03 0.25
Matches are distributed among these distances:
13 8 0.09
14 16 0.19
15 16 0.19
16 18 0.21
17 12 0.14
18 12 0.14
19 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATAAATATAAATT
Found at i:2714880 original size:5 final size:5
Alignment explanation
Indices: 2714867--2714898 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
2714857 GGAATTTCGC
*
2714867 TTTCC TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
2714899 CATATAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:2715631 original size:13 final size:13
Alignment explanation
Indices: 2715597--2715635 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2715587 AGTTTGATTG
2715597 TATTATTTAAA-T
1 TATTATTTAAATT
*
2715609 AATTATTTAAATT
1 TATTATTTAAATT
*
2715622 TATTAATTAAATT
1 TATTATTTAAATT
2715635 T
1 T
2715636 TAAATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAATT
Found at i:2715994 original size:27 final size:26
Alignment explanation
Indices: 2715964--2716035 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
2715954 TAAAACTATG
*
2715964 AATTTAAAATTTAAATATATCTACAAA
1 AATTTAAAATTTAAATATAACT-CAAA
* *
2715991 AATTTTAAATTCATAAATA-AACTCATA
1 AATTTAAAATT--TAAATATAACTCAAA
**
2716018 AATTTAAAAAATAAATAT
1 AATTTAAAATTTAAATAT
2716036 TATATTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
25 6 0.17
27 21 0.58
28 3 0.08
29 6 0.17
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (26 bp):
AATTTAAAATTTAAATATAACTCAAA
Found at i:2716087 original size:23 final size:23
Alignment explanation
Indices: 2716039--2716089 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2716029 TAAATATTAT
** *
2716039 ATTTATATGTATTTTATCATGTA
1 ATTTATATGTATTTTAAAATCTA
2716062 ATTTATAT-TATTTTAAAATCTAA
1 ATTTATATGTATTTTAAAATCT-A
2716085 ATTTA
1 ATTTA
2716090 AAAAAAAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTATATGTATTTTAAAATCTA
Found at i:2717976 original size:21 final size:20
Alignment explanation
Indices: 2717959--2717997 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2717949 TAATTAAATT
2717959 TAAATAAA-AATATTTTAAA
1 TAAATAAATAATATTTTAAA
*
2717978 TCAATAAATAATATTTTAAA
1 TAAATAAATAATATTTTAAA
2717998 ATAATCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATAAATAATATTTTAAA
Found at i:2718229 original size:3 final size:3
Alignment explanation
Indices: 2718221--2718268 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2718211 GTCTCTTTTC
2718221 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2718269 GTTAAAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2719201 original size:3 final size:3
Alignment explanation
Indices: 2719193--2719237 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2719183 AGTTTAGATG
2719193 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2719238 AGACTTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2719624 original size:14 final size:14
Alignment explanation
Indices: 2719607--2719633 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2719597 TTAATGTATT
2719607 AAAAATAATGAATA
1 AAAAATAATGAATA
2719621 AAAAATAATGAAT
1 AAAAATAATGAAT
2719634 GATATTTCAA
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:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAAATAATGAATA
Found at i:2719944 original size:21 final size:20
Alignment explanation
Indices: 2719918--2719959 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
2719908 TATTTTTATT
2719918 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAA-ATA
2719939 TAAATTTTAATATAAAAATA
1 TAAATTTTAATATAAAAATA
2719959 T
1 T
2719960 TAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATTTTAATATAAAAATA
Found at i:2719947 original size:22 final size:21
Alignment explanation
Indices: 2719917--2719968 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
2719907 ATATTTTTAT
2719917 TTAAA-TTTAAT-TATAAAATA
1 TTAAATTTTAATATA-AAAATA
2719937 TATAAATTTTAATATAAAAATA
1 T-TAAATTTTAATATAAAAATA
2719959 TTAATATTTT
1 TTAA-ATTTT
2719969 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 7 0.25
22 18 0.64
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATTTTAATATAAAAATA
Found at i:2722774 original size:2 final size:2
Alignment explanation
Indices: 2722769--2722811 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2722759 ATATATATAT
2722769 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2722811 A
1 A
2722812 ATTATGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2722930 original size:2 final size:2
Alignment explanation
Indices: 2722919--2722947 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2722909 GGCCAATCTC
2722919 AT AT -T 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 AT AT
2722948 TTTAGATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2724542 original size:21 final size:20
Alignment explanation
Indices: 2724494--2724556 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
2724484 TTTTTTTAAG
2724494 AATA-ATTTTAAA-AAAATT
1 AATATATTTTAAATAAAATT
*
2724512 AATATATTTTAAATTAAATT
1 AATATATTTTAAATAAAATT
*
2724532 ATTATTATTTTAAATAATAATT
1 AATA-TATTTTAAATAA-AATT
2724554 AAT
1 AAT
2724557 TTAAATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.11
19 8 0.22
20 8 0.22
21 11 0.30
22 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATATTTTAAATAAAATT
Found at i:2724546 original size:16 final size:16
Alignment explanation
Indices: 2724520--2724563 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2724510 TTAATATATT
* *
2724520 TTAAATTAAATTATTA
1 TTAATTTAAATTATAA
* *
2724536 TTATTTTAAATAATAA
1 TTAATTTAAATTATAA
2724552 TTAATTTAAATT
1 TTAATTTAAATT
2724564 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTTAAATTATAA
Found at i:2734753 original size:2 final size:2
Alignment explanation
Indices: 2734746--2734784 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2734736 AAAAGTACCA
2734746 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2734785 AAATTCACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2735019 original size:24 final size:26
Alignment explanation
Indices: 2734991--2735039 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
2734981 CATGATACAG
2734991 AAAAATAAT-TAAA-ATAAAATATAA
1 AAAAATAATATAAACATAAAATATAA
*
2735015 AAAAATAATATAAACATAACATATA
1 AAAAATAATATAAACATAAAATATA
2735040 TGCATGATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 9 0.41
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAAATAATATAAACATAAAATATAA
Found at i:2735024 original size:13 final size:13
Alignment explanation
Indices: 2734991--2735028 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
2734981 CATGATACAG
2734991 AAAAATAAT-TAA
1 AAAAATAATATAA
*
2735003 AATAA-AATATAA
1 AAAAATAATATAA
2735015 AAAAATAATATAA
1 AAAAATAATATAA
2735028 A
1 A
2735029 CATAACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 3 0.14
12 11 0.50
13 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAATATAA
Found at i:2739533 original size:19 final size:21
Alignment explanation
Indices: 2739511--2739558 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
2739501 ATTTAAAAAT
2739511 TATTAAAATAT-TA-ATTTTA
1 TATTAAAATATATATATTTTA
* *
2739530 TATTAATATTTATATATTTTA
1 TATTAAAATATATATATTTTA
2739551 TAATTAAA
1 T-ATTAAA
2739559 TTTAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 7 0.30
22 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTAAAATATATATATTTTA
Found at i:2739550 original size:21 final size:21
Alignment explanation
Indices: 2739524--2739570 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
2739514 TAAAATATTA
*
2739524 ATTTTAT-ATTAATATTTATAT
1 ATTTTATAATTAA-ATTTAAAT
2739545 ATTTTATAATTAAATTTAAAT
1 ATTTTATAATTAAATTTAAAT
2739566 ATTTT
1 ATTTT
2739571 TTTTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATAATTAAATTTAAAT
Found at i:2739572 original size:23 final size:23
Alignment explanation
Indices: 2739516--2739586 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
2739506 AAAATTATTA
2739516 AAATATTAATTTTAT-ATTAATATTT
1 AAATATT--TTTTATAATTAA-ATTT
*
2739541 --ATATATTTTATAATTAAATTT
1 AAATATTTTTTATAATTAAATTT
* *
2739562 AAATATTTTTTTTAATTTAATTT
1 AAATATTTTTTATAATTAAATTT
2739585 AA
1 AA
2739587 TATGATTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 10 0.26
22 5 0.13
23 24 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AAATATTTTTTATAATTAAATTT
Found at i:2751889 original size:9 final size:10
Alignment explanation
Indices: 2751865--2751889 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2751855 CATAAATCAG
2751865 CAAAAAATCT
1 CAAAAAATCT
2751875 CAAAAAATCT
1 CAAAAAATCT
2751885 CAAAA
1 CAAAA
2751890 CCCTACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (10 bp):
CAAAAAATCT
Found at i:2753352 original size:25 final size:27
Alignment explanation
Indices: 2753305--2753360 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
2753295 TTCATATATT
*
2753305 TTTATTATATTATAATTATATTTAAATA
1 TTTATTATATTATAA-TAAATTTAAATA
*
2753333 TTTATTAT-TTATAA-AAATTTTAATA
1 TTTATTATATTATAATAAATTTAAATA
2753358 TTT
1 TTT
2753361 TAATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
27 6 0.23
28 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTATTATATTATAATAAATTTAAATA
Found at i:2753360 original size:33 final size:32
Alignment explanation
Indices: 2753322--2753384 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
2753312 TATTATAATT
*
2753322 ATATTTAAATATTTATTATTTATAAAAATTTTA
1 ATATTTAAATATTT-TTAATTATAAAAATTTTA
* *
2753355 ATATTTTAATATTTTTAATTATATAAATTT
1 ATATTTAAATATTTTTAATTATAAAAATTT
2753385 CAAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
ATATTTAAATATTTTTAATTATAAAAATTTTA
Found at i:2753676 original size:7 final size:7
Alignment explanation
Indices: 2753660--2753723 Score: 110
Period size: 7 Copynumber: 9.1 Consensus size: 7
2753650 TGCATTAAAT
*
2753660 CAATAAG
1 CAATATG
2753667 CAATATG
1 CAATATG
2753674 CAATATG
1 CAATATG
*
2753681 CAATAAG
1 CAATATG
2753688 CAATATG
1 CAATATG
2753695 CAATATG
1 CAATATG
2753702 CAATATG
1 CAATATG
2753709 CAATATG
1 CAATATG
2753716 CAATATG
1 CAATATG
2753723 C
1 C
2753724 TTTCCTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (7 bp):
CAATATG
Found at i:2755809 original size:2 final size:2
Alignment explanation
Indices: 2755802--2755828 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2755792 AAAATATTAA
2755802 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
2755829 ATCAAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2756291 original size:27 final size:26
Alignment explanation
Indices: 2756238--2756291 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2756228 ATATATTATT
* *
2756238 ATTTAATAATAAAAAAATTTATTTAA
1 ATTTAATAATAAAAAAATTAATATAA
*
2756264 ATTTAATTATAAAATAAATTAATATAA
1 ATTTAATAATAAAA-AAATTAATATAA
2756291 A
1 A
2756292 AATTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTTAATAATAAAAAAATTAATATAA
Found at i:2756294 original size:16 final size:17
Alignment explanation
Indices: 2756261--2756292 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2756251 AAAATTTATT
2756261 TAAATTTAATTATAAAA
1 TAAATTTAATTATAAAA
2756278 TAAA-TTAA-TATAAAA
1 TAAATTTAATTATAAAA
2756293 ATTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAATTATAAAA
Found at i:2756685 original size:16 final size:16
Alignment explanation
Indices: 2756664--2756732 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 16
2756654 TAGATCTTTT
2756664 TATTTAATTAAATTT-A
1 TATTTAA-TAAATTTAA
*
2756680 TATTTAA-AATATTTGA
1 TATTTAATAA-ATTTAA
2756696 TATTTATATAAATTTTAA
1 TATTTA-ATAAA-TTTAA
2756714 TATGTTAAT-AATTT-A
1 TAT-TTAATAAATTTAA
2756729 TATT
1 TATT
2756733 ATATAATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
14 3 0.07
15 8 0.17
16 17 0.37
17 4 0.09
18 11 0.24
19 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATTTAATAAATTTAA
Found at i:2756708 original size:32 final size:31
Alignment explanation
Indices: 2756664--2756742 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 31
2756654 TAGATCTTTT
2756664 TATTTA-ATTAAATTTATAT-TTAAAATATTTGA
1 TATTTATA-TAAATTTATATGTTAAAA-ATTT-A
*
2756696 TATTTATATAAATTTTAATATGTTAATAATTTA
1 TATTTATATAAA-TTT-ATATGTTAAAAATTTA
2756729 TA-TTATAT-AATTTA
1 TATTTATATAAATTTA
2756743 AAATATTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
29 1 0.02
30 3 0.07
31 2 0.05
32 16 0.38
33 7 0.17
34 8 0.19
35 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TATTTATATAAATTTATATGTTAAAAATTTA
Found at i:2758350 original size:12 final size:12
Alignment explanation
Indices: 2758317--2758355 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2758307 TTTTAATAAT
*
2758317 AATTTAAATTTAT
1 AATTTAAA-TTAA
*
2758330 AAGTTAAATTAA
1 AATTTAAATTAA
2758342 AATTTAAATTAA
1 AATTTAAATTAA
2758354 AA
1 AA
2758356 AAATCGGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
AATTTAAATTAA
Found at i:2760023 original size:81 final size:81
Alignment explanation
Indices: 2759654--2760042 Score: 397
Period size: 81 Copynumber: 4.8 Consensus size: 81
2759644 GTTGTAGCGT
* * * * * * * * * * ** *
2759654 CTTCCAATGACTGCTGCTTTGCTTCAGCATCCTCGACTACACTTTCCGAAGCTTCTTTGCTAACT
1 CTTCTAATGACGGCAGCTTTGCTTCAGAATCTTTGATTTCAGTTTCTGAAGCTTCTTCACTATCT
*
2759719 TTGTTTAATGGTGCCA
66 TTGTTTAATGGTGCAA
* * * * * *
2759735 CTTCTAATGACGGCAGATTTGGTTCAGAATCTTTGATCTCGGTTTCTGCAGCTTCTTCACTACCT
1 CTTCTAATGACGGCAGCTTTGCTTCAGAATCTTTGATTTCAGTTTCTGAAGCTTCTTCACTATCT
*
2759800 TCGTTTAATGGTGCAA
66 TTGTTTAATGGTGCAA
* * * **
2759816 TTTCTAATGACGGCAGCTTTGGTTCAGAATCTCTGATTTCAGTTTCTGCTGCTTCTTCACTATCT
1 CTTCTAATGACGGCAGCTTTGCTTCAGAATCTTTGATTTCAGTTTCTGAAGCTTCTTCACTATCT
*
2759881 TTGTTTAGTGGTGCAA
66 TTGTTTAATGGTGCAA
* * * * * * **
2759897 CTCCTAATGACGGCAGCTTTGCTTCAGCATCTTCGACTACAGTTTTTGAAGCTTCTTTGCTATCT
1 CTTCTAATGACGGCAGCTTTGCTTCAGAATCTTTGATTTCAGTTTCTGAAGCTTCTTCACTATCT
2759962 TTGTTTAATGGTGCAA
66 TTGTTTAATGGTGCAA
* * * **
2759978 TTTCTAATGACCGCAGCTTTGCTTCAGAATCTTTGATTTCGGTTT-T--ATTTTCTTCACTATCT
1 CTTCTAATGACGGCAGCTTTGCTTCAGAATCTTTGATTTCAGTTTCTGAAGCTTCTTCACTATCT
2760040 TTG
66 TTG
2760043 CTTGTTTGAC
Statistics
Matches: 253, Mismatches: 55, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
78 15 0.06
80 1 0.00
81 237 0.94
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (81 bp):
CTTCTAATGACGGCAGCTTTGCTTCAGAATCTTTGATTTCAGTTTCTGAAGCTTCTTCACTATCT
TTGTTTAATGGTGCAA
Found at i:2763260 original size:11 final size:11
Alignment explanation
Indices: 2763246--2763281 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
2763236 TAAAAAATAA
2763246 TTAAATTAATT
1 TTAAATTAATT
2763257 TTAAATTAATT
1 TTAAATTAATT
*
2763268 TTAAATTAAAT
1 TTAAATTAATT
2763279 TTA
1 TTA
2763282 TTTAATGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAATTAATT
Found at i:2768286 original size:2 final size:2
Alignment explanation
Indices: 2768279--2768318 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
2768269 TTAAAAATAC
*
2768279 CT CT CT CT -T C- CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2768319 TTTCTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:2768605 original size:27 final size:27
Alignment explanation
Indices: 2768543--2768605 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
2768533 TCAAATTATT
*
2768543 ATAATTAAATATATTTAATTTTTTCAA
1 ATAAATAAATATATTTAATTTTTTCAA
* *
2768570 ATAATTAAATATATTTAATTTTATTTAA
1 ATAAATAAATATATTTAATTTT-TTCAA
2768598 A-AAATAAA
1 ATAAATAAA
2768606 AAATTAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
ATAAATAAATATATTTAATTTTTTCAA
Found at i:2770024 original size:3 final size:3
Alignment explanation
Indices: 2770018--2770068 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
2770008 TTCCTCGGTC
*
2770018 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCA TCT TCT TCT TC- TCT GTCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT
2770066 TCT
1 TCT
2770069 GCTTTATTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:2771979 original size:2 final size:2
Alignment explanation
Indices: 2771974--2772004 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2771964 AAAACAAATA
*
2771974 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2772005 ATATGTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:2772325 original size:29 final size:28
Alignment explanation
Indices: 2772275--2772331 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2772265 TTTTTATTTT
**
2772275 ATCATATTTATATTTATTTATATATTATA
1 ATCATATTTATAAATATTTATAT-TTATA
2772304 ATCATATTTA-AAATATTATATATTTATA
1 ATCATATTTATAAATATT-TATATTTATA
2772332 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
ATCATATTTATAAATATTTATATTTATA
Found at i:2773502 original size:5 final size:5
Alignment explanation
Indices: 2773492--2773532 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
2773482 TTTGATTAAA
*
2773492 AAATT AAATT AAATT AAATT ATTATT AAATT AAATTT AAAT
1 AAATT AAATT AAATT AAATT A-AATT AAATT AAA-TT AAAT
2773533 AATTCAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
AAATT
Found at i:2773520 original size:11 final size:10
Alignment explanation
Indices: 2773492--2773532 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
2773482 TTTGATTAAA
2773492 AAATTAAATT
1 AAATTAAATT
2773502 AAATTAAATT
1 AAATTAAATT
*
2773512 ATTATTAAATT
1 A-AATTAAATT
2773523 AAATTTAAAT
1 AAA-TTAAAT
2773533 AATTCAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 12 0.44
11 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATTAAATT
Found at i:2774082 original size:28 final size:29
Alignment explanation
Indices: 2774028--2774090 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
2774018 AGATTAATAA
**
2774028 TTAATTTATAAAAAATATTTATTTTAAAT
1 TTAATTTATAAAAAATATAAATTTTAAAT
2774057 TTAA-TTAT-AAAAATATAAATTATT-AAT
1 TTAATTTATAAAAAATATAAATT-TTAAAT
*
2774084 ATAATTT
1 TTAATTT
2774091 TTATTATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 17 0.59
28 8 0.28
29 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATTTATAAAAAATATAAATTTTAAAT
Found at i:2778543 original size:20 final size:18
Alignment explanation
Indices: 2778518--2778559 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
2778508 TTATAATTAA
2778518 ATTTAAATTATTAATATATT
1 ATTTAAATTA-TAA-ATATT
*
2778538 ATTTAATTTATAAATATT
1 ATTTAAATTATAAATATT
2778556 ATTT
1 ATTT
2778560 TCGGACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAAATTATAAATATT
Found at i:2779633 original size:14 final size:15
Alignment explanation
Indices: 2779608--2779643 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
2779598 AATAAATTAA
2779608 ATTTAATATTAAATT
1 ATTTAATATTAAATT
*
2779623 TTTTAAT-TTAAATT
1 ATTTAATATTAAATT
2779637 ATTTAAT
1 ATTTAAT
2779644 CTCGAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTAATATTAAATT
Found at i:2780469 original size:26 final size:25
Alignment explanation
Indices: 2780435--2780493 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
2780425 AAATTGATCC
* *
2780435 AAAACTTTTATTTTATTATTTAAAAT
1 AAAA-TTTTATATTAATATTTAAAAT
2780461 AAATATTTTATATTAATATTTAAAAT
1 AAA-ATTTTATATTAATATTTAAAAT
2780487 AAAATTT
1 AAAATTT
2780494 AAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 4 0.13
26 25 0.83
27 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
AAAATTTTATATTAATATTTAAAAT
Found at i:2780499 original size:11 final size:12
Alignment explanation
Indices: 2780452--2780502 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2780442 TTATTTTATT
2780452 ATTTAAAATAAA
1 ATTTAAAATAAA
* * *
2780464 TATTTTATATTAAT
1 -A-TTTAAAATAAA
2780478 ATTTAAAATAAA
1 ATTTAAAATAAA
2780490 ATTT-AAATAAA
1 ATTTAAAATAAA
2780501 AT
1 AT
2780503 AATTTTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 9 0.29
12 12 0.39
13 2 0.06
14 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTTAAAATAAA
Found at i:2780507 original size:26 final size:26
Alignment explanation
Indices: 2780451--2780500 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2780441 TTTATTTTAT
* *
2780451 TATTTAAAATAAATATTTTATATTAA
1 TATTTAAAATAAATATTTAATATAAA
2780477 TATTTAAAATAAA-ATTTAA-ATAAA
1 TATTTAAAATAAATATTTAATATAAA
2780501 ATAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 5 0.23
26 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTTAAAATAAATATTTAATATAAA
Found at i:2781322 original size:2 final size:2
Alignment explanation
Indices: 2781315--2781348 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2781305 CAACTTACCC
2781315 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2781349 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2781353 original size:2 final size:2
Alignment explanation
Indices: 2781348--2781373 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2781338 ATATATATAT
2781348 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2781374 TTATTTAGGT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2783595 original size:2 final size:2
Alignment explanation
Indices: 2783588--2783634 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2783578 GCCACATCAT
2783588 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2783630 TA TA T
1 TA TA T
2783635 TGGTTTTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2785147 original size:17 final size:17
Alignment explanation
Indices: 2785125--2785176 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
2785115 TTATTTTATT
2785125 TTATTTTATTTAAATTA
1 TTATTTTATTTAAATTA
2785142 TTA-TTTATTAATAAAATTA
1 TTATTTTATT--T-AAATTA
*
2785161 TAATTTTATTTAAATT
1 TTATTTTATTTAAATT
2785177 TAATTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 6 0.20
17 8 0.27
18 2 0.07
19 8 0.27
20 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTTATTTAAATTA
Found at i:2785150 original size:16 final size:17
Alignment explanation
Indices: 2785127--2785181 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
2785117 ATTTTATTTT
*
2785127 ATTTTATTTAAATTATT
1 ATTTTATTTAAATTATA
2785144 A-TTTATTAATAAAATTATA
1 ATTTTATT--T-AAATTATA
2785163 ATTTTATTTAAATT-TA
1 ATTTTATTTAAATTATA
2785179 ATT
1 ATT
2785182 ATAAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
16 11 0.33
17 6 0.18
18 2 0.06
19 8 0.24
20 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATTTAAATTATA
Found at i:2785192 original size:36 final size:37
Alignment explanation
Indices: 2785127--2785197 Score: 85
Period size: 36 Copynumber: 1.9 Consensus size: 37
2785117 ATTTTATTTT
* *
2785127 ATTTTATTTAAATTATTATTTATTAATAAA-ATTATA
1 ATTTTATTTAAATTATTATTAAATAATAAATATTATA
2785163 ATTTTATTTAAATTTAATTA-TAAAT-ATAAATATTA
1 ATTTTATTTAAA-TT-ATTATTAAATAATAAATATTA
2785198 ATATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
36 17 0.57
37 9 0.30
38 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (37 bp):
ATTTTATTTAAATTATTATTAAATAATAAATATTATA
Found at i:2786909 original size:2 final size:2
Alignment explanation
Indices: 2786902--2786931 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2786892 CTCTATTAAT
2786902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2786932 ATTGCTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2789722 original size:4 final size:4
Alignment explanation
Indices: 2789715--2789745 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2789705 ATATATATAT
2789715 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2789746 TATTGCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2791032 original size:194 final size:194
Alignment explanation
Indices: 2790699--2791065 Score: 626
Period size: 194 Copynumber: 1.9 Consensus size: 194
2790689 ATGAAGAATA
*
2790699 ACAAGATTAAGAAATTATGGTTGAATTAAAATAACATTTATTATTCGTAAAAATAAAGACGGATT
1 ACAAGATTAAGAAATTATGGTTGAATTAAAATAACATTTATTATTCGTAAAAATAAAGACGGATC
* * * *
2790764 ATAAAAAAATAAGATCATGATTAATTCGATGTAAAAAGAATTGCTATTTAAAATTTCAAATATAT
66 ATAAAAAAATAAAATCATGATTAATTCGATATAAAAAGAATTACTATTTAAAATTTCAAACATAT
*
2790829 AAGATAAATTTGAAAGTAAAAGCTATCTAGCTAGCTTTTTTTTCTTTTTTTTTTTTGGTTAATT
131 AAAATAAATTTGAAAGTAAAAGCTATCTAGCTAGCTTTTTTTTCTTTTTTTTTTTTGGTTAATT
** * *
2790893 ACAAGATTAAGAAATTATGGTTGAATTAAAATAGTATTTATTATTCGTAAAAGTAAAGATGGATC
1 ACAAGATTAAGAAATTATGGTTGAATTAAAATAACATTTATTATTCGTAAAAATAAAGACGGATC
* *
2790958 ATCAAAAAATAAAATCATGATTAATTCGATATAAAAAGAATTACTATTTAAATTTTCAAACATAT
66 ATAAAAAAATAAAATCATGATTAATTCGATATAAAAAGAATTACTATTTAAAATTTCAAACATAT
2791023 AAAATAAATTTGAAAGTAAAAGCTATCTAGCTAGCTTTTTTTT
131 AAAATAAATTTGAAAGTAAAAGCTATCTAGCTAGCTTTTTTTT
2791066 TTGTTAATTA
Statistics
Matches: 161, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
194 161 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (194 bp):
ACAAGATTAAGAAATTATGGTTGAATTAAAATAACATTTATTATTCGTAAAAATAAAGACGGATC
ATAAAAAAATAAAATCATGATTAATTCGATATAAAAAGAATTACTATTTAAAATTTCAAACATAT
AAAATAAATTTGAAAGTAAAAGCTATCTAGCTAGCTTTTTTTTCTTTTTTTTTTTTGGTTAATT
Done.