Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1396
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: 309291
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 3
Found at i:2799 original size:31 final size:33
Alignment explanation
Indices: 2750--2810 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
2740 ATCAATTTTA
* *
2750 AAATTTTACAGTTTTAT-AATTAAATTAAAAAT
1 AAATTTTACAATTTTATAAATCAAATTAAAAAT
2782 AAATTTTA-AATTTTATAAATCAAATTAAA
1 AAATTTTACAATTTTATAAATCAAATTAAA
2811 TTACATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (33 bp):
AAATTTTACAATTTTATAAATCAAATTAAAAAT
Found at i:2818 original size:19 final size:17
Alignment explanation
Indices: 2767--2823 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 17
2757 ACAGTTTTAT
2767 AATTAAATTAA-AAATA
1 AATTAAATTAATAAATA
*
2783 AATTTTAAATTTTATAAATCA
1 AA--TTAAA-TTAATAAAT-A
2804 AATTAAATTACATAAATA
1 AATTAAATTA-ATAAATA
2822 AA
1 AA
2824 AATTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
16 2 0.06
18 10 0.30
19 14 0.42
20 4 0.12
21 3 0.09
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTAAATTAATAAATA
Found at i:2826 original size:25 final size:25
Alignment explanation
Indices: 2798--2909 Score: 63
Period size: 25 Copynumber: 4.4 Consensus size: 25
2788 TAAATTTTAT
2798 AAATCAAATTAAATTACATAAATAA
1 AAATCAAATTAAATTACATAAATAA
* * **
2823 AAATTTAAATT-TA-TATCATACCTAA
1 AAA-TCAAATTAAATTA-CATAAATAA
* *
2848 TAAATCGAATTAACTTACATAAA-AA
1 -AAATCAAATTAAATTACATAAATAA
* *
2873 AGAA-CACAATTAAATTTCTATAAATCA
1 A-AATCA-AATTAAATTAC-ATAAATAA
2900 AAAT-AAATTA
1 AAATCAAATTA
2910 CTTTAAAAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
24 4 0.06
25 34 0.54
26 21 0.33
27 4 0.06
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATCAAATTAAATTACATAAATAA
Found at i:4392 original size:16 final size:15
Alignment explanation
Indices: 4369--4444 Score: 65
Period size: 13 Copynumber: 5.4 Consensus size: 15
4359 TTATAAAAGT
4369 TTTAATTAAATAAAA
1 TTTAATTAAATAAAA
4384 TTATAATT-AATAAAA
1 TT-TAATTAAATAAAA
* *
4399 TTTATTTAAA-AATA
1 TTTAATTAAATAAAA
*
4413 TTTAA-CAAAT-AAA
1 TTTAATTAAATAAAA
*
4426 TTTAA--AATTAAAA
1 TTTAATTAAATAAAA
4439 TTTAAT
1 TTTAAT
4445 CATATAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.06
13 18 0.36
14 11 0.22
15 13 0.26
16 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAATTAAATAAAA
Found at i:4397 original size:15 final size:16
Alignment explanation
Indices: 4361--4437 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 16
4351 TTTAATATTT
*
4361 ATAAAAGTTTTAATTAA
1 ATAAAA-TTATAATTAA
4378 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
*
4393 ATAAAATT-TATTTAA
1 ATAAAATTATAATTAA
* *
4408 A-AATATT-TAA-CAA
1 ATAAAATTATAATTAA
* *
4421 ATAAATTTAAAATTAA
1 ATAAAATTATAATTAA
4437 A
1 A
4438 ATTTAATCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
13 3 0.06
14 15 0.32
15 13 0.28
16 10 0.21
17 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:4729 original size:58 final size:59
Alignment explanation
Indices: 4667--4779 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
4657 ACATTTTTTT
* *
4667 AATTAAATCACTATAACAAATTAT-AAAAAAATGTCACGAATTGAGATATGATACTTTA
1 AATTAAATCACTATAACAAATTATGAAAAAAATGTCACGAATGGAGATACGATACTTTA
* * * * * * *
4725 AATTAAATTATTATGATAAATTATGTAAAATATGTCATGAATGGAGATACGATAC
1 AATTAAATCACTATAACAAATTATGAAAAAAATGTCACGAATGGAGATACGATAC
4780 GAATATAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
58 20 0.44
59 25 0.56
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (59 bp):
AATTAAATCACTATAACAAATTATGAAAAAAATGTCACGAATGGAGATACGATACTTTA
Found at i:5425 original size:25 final size:22
Alignment explanation
Indices: 5397--5446 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 22
5387 TGATATGTAT
5397 ATAACATGAATATATATATAATAAA
1 ATAA-ATGAATA-ATATAT-ATAAA
* *
5422 ATAAATTATTAATATATATAAA
1 ATAAATGAATAATATATATAAA
5444 ATA
1 ATA
5447 TATAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 5 0.22
25 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAAATGAATAATATATATAAA
Found at i:5455 original size:32 final size:33
Alignment explanation
Indices: 5410--5497 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 33
5400 ACATGAATAT
*
5410 ATATATAATAAA-ATAA-ATTATTAATATATATAAA
1 ATATATAA-AAATATAATA-TATTAA-ATATAAAAA
*
5444 ATATATAAAAATATAATATTTTAAATATAAAAA
1 ATATATAAAAATATAATATATTAAATATAAAAA
*
5477 ATA-ATATAAATATGAATATAT
1 ATATATAAAAATAT-AATATAT
5498 AATTTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 9 0.19
33 20 0.43
34 17 0.36
35 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (33 bp):
ATATATAAAAATATAATATATTAAATATAAAAA
Found at i:5484 original size:34 final size:33
Alignment explanation
Indices: 5410--5486 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
5400 ACATGAATAT
*
5410 ATATATAATAAAATAAATTATTAATATATATAAA
1 ATATATAA-AAAATAAATTATTAATATATAAAAA
5444 ATATATAAAAATATAATATT-TTAA-ATATAAAAA
1 ATATATAAAAA-ATAA-ATTATTAATATATAAAAA
5477 ATAATATAAA
1 AT-ATATAAA
5487 TATGAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
33 13 0.33
34 23 0.59
35 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (33 bp):
ATATATAAAAAATAAATTATTAATATATAAAAA
Found at i:5979 original size:19 final size:19
Alignment explanation
Indices: 5955--5994 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5945 TTTCAAAAGA
5955 TTAAATCTTTAAACTTTGC
1 TTAAATCTTTAAACTTTGC
* *
5974 TTAAATTTTTAAGCTTTGC
1 TTAAATCTTTAAACTTTGC
5993 TT
1 TT
5995 TATATTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (19 bp):
TTAAATCTTTAAACTTTGC
Found at i:6824 original size:36 final size:35
Alignment explanation
Indices: 6766--6855 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
6756 TAAAATTTTA
** * *
6766 TTTTTAAAAAAAATAATTATTATACATTAATTATATT
1 TTTTTAAAAATCA-AATCATTAT-CATTAATTATAAT
*
6803 TTTTTAAAAATCAAATCATTATTATTAATTATAAT
1 TTTTTAAAAATCAAATCATTATCATTAATTATAAT
6838 TTTTTAAAAATCAAATCA
1 TTTTTAAAAATCAAATCA
6856 CGGCTAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 29 0.60
36 8 0.17
37 11 0.23
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.47
Consensus pattern (35 bp):
TTTTTAAAAATCAAATCATTATCATTAATTATAAT
Found at i:8680 original size:26 final size:26
Alignment explanation
Indices: 8644--8739 Score: 95
Period size: 26 Copynumber: 3.4 Consensus size: 26
8634 GATTTAAAAA
8644 ATAATATAAATATTTTAAAATTTTAT
1 ATAATATAAATATTTTAAAATTTTAT
*
8670 ATAATATAAATTATTAATATAATAAAATTTAT
1 ATAATATAAA-TATT--T-T-A-AAATTTTAT
*
8702 ATAAATATAAAATATTTT-AAATTTAAT
1 AT-AATAT-AAATATTTTAAAATTTTAT
8729 ATAATATAAAT
1 ATAATATAAAT
8740 TGCAAGGACA
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
25 4 0.07
26 15 0.25
27 13 0.22
29 1 0.02
30 2 0.03
31 2 0.03
32 10 0.17
33 9 0.15
34 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAATATAAATATTTTAAAATTTTAT
Found at i:8708 original size:20 final size:18
Alignment explanation
Indices: 8668--8740 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 18
8658 TTAAAATTTT
8668 ATATAATATAAATTATTA
1 ATATAATATAAATTATTA
8686 ATATAATA-AAATTTATATAA
1 ATATAATATAAA-TTAT-T-A
* **
8706 ATATAAAATATTTTAAATTTA
1 ATATAATATAAATT--A-TTA
8727 ATATAATATAAATT
1 ATATAATATAAATT
8741 GCAAGGACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
17 3 0.07
18 12 0.29
19 1 0.02
20 10 0.24
21 13 0.31
22 2 0.05
23 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATATAAATTATTA
Found at i:8711 original size:17 final size:17
Alignment explanation
Indices: 8659--8714 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
8649 ATAAATATTT
8659 TAAAATTT-TATATAATA
1 TAAAATTTATATA-AATA
8676 T-AAA-TTAT-TAATATAA
1 TAAAATTTATATAA-AT-A
8692 TAAAATTTATATAAATA
1 TAAAATTTATATAAATA
8709 TAAAAT
1 TAAAAT
8715 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 1 0.03
15 6 0.18
16 6 0.18
17 11 0.33
18 6 0.18
19 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:8738 original size:16 final size:16
Alignment explanation
Indices: 8661--8740 Score: 59
Period size: 14 Copynumber: 5.3 Consensus size: 16
8651 AAATATTTTA
*
8661 AAATTTTATATAATAT
1 AAATTTAATATAATAT
8677 AAATTATTAATATAATA-
1 AAA-T-TTAATATAATAT
8694 AAATTT-ATATAA-AT
1 AAATTTAATATAATAT
*
8708 ATAA---AATAT--TTT
1 A-AATTTAATATAATAT
8720 AAATTTAATATAATAT
1 AAATTTAATATAATAT
8736 AAATT
1 AAATT
8741 GCAAGGACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 22
0.67 0.04 0.29
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 5 0.10
14 12 0.24
15 4 0.08
16 11 0.22
17 4 0.08
18 10 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAATATAATAT
Found at i:9038 original size:21 final size:20
Alignment explanation
Indices: 8997--9034 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8987 TATTTTTATT
8997 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
9017 TAAATATTAA-TATAAAAA
1 TAAAT-TTAATTATAAAAA
9035 ATATTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:9691 original size:23 final size:23
Alignment explanation
Indices: 9665--9717 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
9655 TTAAAAAATC
*
9665 ATTATTATT-TATTATATTT-TTAA
1 ATTATTATTATA-AATATTTATT-A
*
9688 ATTAGTATTATAAATATTTATTA
1 ATTATTATTATAAATATTTATTA
9711 ATTATTA
1 ATTATTA
9718 ATAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTATTATTATAAATATTTATTA
Found at i:10206 original size:22 final size:26
Alignment explanation
Indices: 10167--10219 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 26
10157 CTCAATTCGT
10167 TATTTATTATATTATTTTAT-ATTAA
1 TATTTATTATATTATTTTATAATTAA
10192 TATTTA-TATA-T-TTTTATAATTAA
1 TATTTATTATATTATTTTATAATTAA
10215 -ATTTA
1 TATTTA
10220 AATAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 6 0.22
24 4 0.15
25 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTTATTATATTATTTTATAATTAA
Found at i:11973 original size:2 final size:2
Alignment explanation
Indices: 11966--12009 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
11956 CAAACTACAA
11966 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
12008 AT
1 AT
12010 CAAATGAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13813 original size:21 final size:23
Alignment explanation
Indices: 13772--13814 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
13762 CCATTAAGTT
13772 ATATATGAATTATTTTCATAATC
1 ATATATGAATTATTTTCATAATC
13795 ATATAT-AATTATTTT-ATAAT
1 ATATATGAATTATTTTCATAAT
13815 ACTATTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATGAATTATTTTCATAATC
Found at i:14063 original size:16 final size:16
Alignment explanation
Indices: 14032--14084 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
14022 ACCAATAAAT
*
14032 ATATTATTATTATTTTA
1 ATATTAATA-TATTTTA
14049 ATATTAATATATTTTA
1 ATATTAATATATTTTA
* * *
14065 ATATTTATGTATTTAA
1 ATATTAATATATTTTA
14081 ATAT
1 ATAT
14085 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 24 0.75
17 8 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATATTAATATATTTTA
Found at i:14697 original size:21 final size:21
Alignment explanation
Indices: 14669--14718 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14659 TTATTTATTT
14669 AATATTAAAATTAT-TTTAAA
1 AATATTAAAATTATATTTAAA
*
14689 AATATTTAAAATTTTATTTAAA
1 AATA-TTAAAATTATATTTAAA
14711 TAA-ATTAA
1 -AATATTAA
14719 TTAATTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 7 0.27
23 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAAATTATATTTAAA
Found at i:14711 original size:20 final size:19
Alignment explanation
Indices: 14662--14712 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
14652 CTATATATTA
14662 TTTATTT-AATATTAAAAT
1 TTTATTTAAATATTAAAAT
*
14680 TATT-TTAAAAATATTTAAAAT
1 T-TTATT-TAAATA-TTAAAAT
14701 TTTATTTAAATA
1 TTTATTTAAATA
14713 AATTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 11 0.42
21 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATTTAAATATTAAAAT
Found at i:16000 original size:21 final size:21
Alignment explanation
Indices: 15976--16019 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15966 AAATTTTTAT
15976 TTAAAT-TTAATTACAAAAATA
1 TTAAATATTAA-TACAAAAATA
*
15997 TTAAATATTAATATAAAAATA
1 TTAAATATTAATACAAAAATA
16018 TT
1 TT
16020 TTTTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAATATTAATACAAAAATA
Found at i:17463 original size:514 final size:512
Alignment explanation
Indices: 16124--17652 Score: 2475
Period size: 514 Copynumber: 3.0 Consensus size: 512
16114 AGATAATATG
*
16124 TGGAATACGTTTTAACTTTGGGATTATGTGATAAATATTTATTAATGATTTGAAAGACAATAAAT
1 TGGAATACGTTTTAACTTTGGGATTATGTGATAAATATTTATTAATGATTTGAAAGACAATAAAA
* * * * * *
16189 CATTGTTGTTTTAACGAAAACTTATTTATAACAATACCTGTTAGAACGAGTAGAAAGAATTTGAT
66 CATCGTTGTTTTAACGAAAACTTGTTTATAACGATGCCT-TTAGGACGAGTGGAAAGAATTTGAT
* * * *
16254 GTCTTTTAAATGAAGTTTTGATTTTAAGTCTTATAAATGAAAAAAATAAGTGTCGAAAGAGTTTT
130 GTCTTTTAAATAAAGTTTTGACTTTAAGTCTTGTAAATGAAAAAAATAAGTGCCGAAAGAGTTTT
*
16319 CACCCATTAAAGGTTTGGTTTGGCTCAACTTTGAAATTATCGAAACCTACTAAAAAGTCTTAGAT
195 CACCCATTAAAGGTTTGGCTTGGCTCAACTTTGAAATTATCGAAACCTACTAAAAAGTCTTAGA-
* *** *
16384 TAAAACAAAAA--AAAC--TTGCGT-AAGCTTTAATTACTTTATTCTTATGGCCTAAAGAAGTCA
259 TAAAA-AAAAATTAACCTATTTTATCAAGCTTTAATTACTATATTCTTATGGCCTAAAGAAGTCA
*
16444 AAACTTTTACTTTTGTTTTAAATAAAATAAATTATCTTATTCATTGATAACAAAGTTTTAAAACT
323 AAACTTGTACTTTTGTTTTAAATAAAATAAATTATCTTATTCATTGATAACAAAGTTTTAAAACT
*
16509 ACATAAATATATTAATATAGAATTTGAGTTTAATATAATTAATTCATATAGTTATTTTTAAGAAT
388 ACGTAAATATATTAATATAGAATTTGAGTTTAATATAATTAATTCATATAGTTATTTTTAAGAAT
* *
16574 TGACATTCAATAAATCTAAAATTCAAATTTCACATATACGACT-C--CTCTATTAATACA
453 TGACATTCAACAAATCTAAAATTCAAATTCCACATATACGACTCCTTCTCTATTAATACA
* *
16631 TGGAATATGTTTTAACTTTGGGATTATGTGATAAATATTTATTAATAATTTGAAAGACAATAAAA
1 TGGAATACGTTTTAACTTTGGGATTATGTGATAAATATTTATTAATGATTTGAAAGACAATAAAA
* * *
16696 CATCGTTATTTTAACGAAAACTTGTTTATAACGATGCCTTTAGGACGAGTGAAAATAATTTGATG
66 CATCGTTGTTTTAACGAAAACTTGTTTATAACGATGCCTTTAGGACGAGTGGAAAGAATTTGATG
16761 TCTTTTAAATAAAGTTTTGACTTTAAGTCTTGTAAATGAAAAAAATAAGTGCCGAAAGAGTTTTC
131 TCTTTTAAATAAAGTTTTGACTTTAAGTCTTGTAAATGAAAAAAATAAGTGCCGAAAGAGTTTTC
* *
16826 ACACATTAAAGGTTTGGCTTGGCTCAACTTTGAAATTATTGAAACCTACTAAAAAGTCTTAGATA
196 ACCCATTAAAGGTTTGGCTTGGCTCAACTTTGAAATTATCGAAACCTACTAAAAAGTCTTAGATA
* * **
16891 AAAAAAAACTT-GCCTATGTTTATCAAGCTTTAATTACTATTTTCTTATGGTTTAAAGAAGTCAA
261 AAAAAAAA-TTAACCTAT-TTTATCAAGCTTTAATTACTATATTCTTATGGCCTAAAGAAGTCAA
* *
16955 AACTTGTACTTTTGTTTTAAATACAATAAATTATCTTATTCATTGATAACAAAATTTTAAAACTA
324 AACTTGTACTTTTGTTTTAAATAAAATAAATTATCTTATTCATTGATAACAAAGTTTTAAAACTA
* *
17020 CGTAAATATATTAATATAAAATTTGAGTTTAATATAATTAATTCATATAGTTATTTTTAAGAATC
389 CGTAAATATATTAATATAGAATTTGAGTTTAATATAATTAATTCATATAGTTATTTTTAAGAATT
17085 GACATTCAACAAATCTAAAATTCAAATTCCACATATACGACTCCTTCTCTATTAATACA
454 GACATTCAACAAATCTAAAATTCAAATTCCACATATACGACTCCTTCTCTATTAATACA
*
17144 TGGAATACGTTTTAACTTTGAGATTATGTGATAAATATTTATTAATGATTTGAAAGACAATAAAA
1 TGGAATACGTTTTAACTTTGGGATTATGTGATAAATATTTATTAATGATTTGAAAGACAATAAAA
*
17209 CATCGTTGTTTGAACGAAAACTTGTTTATAACGATGCCTATTAGGACGAGTGGAAAGAATTTGAT
66 CATCGTTGTTTTAACGAAAACTTGTTTATAACGATGCCT-TTAGGACGAGTGGAAAGAATTTGAT
*
17274 GTCTTTTAAATAAAGTTTTGACTTTAAGTCTTGTAAATGAAAAAAAT-AGATACCGAAAGAGTTT
130 GTCTTTTAAATAAAGTTTTGACTTTAAGTCTTGTAAATGAAAAAAATAAG-TGCCGAAAGAGTTT
* * *
17338 TCACCCATTAAAGGTTTGGCTTGACTCAACTCTAAAATTATCGAAACCTACTAAAAAGTCTTAGA
194 TCACCCATTAAAGGTTTGGCTTGGCTCAACTTTGAAATTATCGAAACCTACTAAAAAGTCTTAGA
* *
17403 TAAAAAAAAATTAACCTATATTTATCAAGCTTTAATTACTCTCTTCTTATGGCCTAAAGAAGTCA
259 TAAAAAAAAATTAACCTAT-TTTATCAAGCTTTAATTACTATATTCTTATGGCCTAAAGAAGTCA
* *
17468 AAACTTGTACTTTTGTTTTAAATAAAATAAATTGTCTTAGTCATTGATAACAAAGTTTTAAAACT
323 AAACTTGTACTTTTGTTTTAAATAAAATAAATTATCTTATTCATTGATAACAAAGTTTTAAAACT
* *
17533 ACGTAAATATATTAATATAGAATTTAAGTTTAATCTAATTAATTCATATAGTTATTTTTAAGAAT
388 ACGTAAATATATTAATATAGAATTTGAGTTTAATATAATTAATTCATATAGTTATTTTTAAGAAT
*
17598 TGACATTCAACAAATCTAAAATTCAAATTCTACATATACGACTCCTTCTCTATTA
453 TGACATTCAACAAATCTAAAATTCAAATTCCACATATACGACTCCTTCTCTATTA
17653 TCAGTGTGTG
Statistics
Matches: 945, Mismatches: 64, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
504 5 0.01
505 5 0.01
506 144 0.15
507 96 0.10
508 1 0.00
509 2 0.00
510 200 0.21
511 1 0.00
513 116 0.12
514 375 0.40
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (512 bp):
TGGAATACGTTTTAACTTTGGGATTATGTGATAAATATTTATTAATGATTTGAAAGACAATAAAA
CATCGTTGTTTTAACGAAAACTTGTTTATAACGATGCCTTTAGGACGAGTGGAAAGAATTTGATG
TCTTTTAAATAAAGTTTTGACTTTAAGTCTTGTAAATGAAAAAAATAAGTGCCGAAAGAGTTTTC
ACCCATTAAAGGTTTGGCTTGGCTCAACTTTGAAATTATCGAAACCTACTAAAAAGTCTTAGATA
AAAAAAAATTAACCTATTTTATCAAGCTTTAATTACTATATTCTTATGGCCTAAAGAAGTCAAAA
CTTGTACTTTTGTTTTAAATAAAATAAATTATCTTATTCATTGATAACAAAGTTTTAAAACTACG
TAAATATATTAATATAGAATTTGAGTTTAATATAATTAATTCATATAGTTATTTTTAAGAATTGA
CATTCAACAAATCTAAAATTCAAATTCCACATATACGACTCCTTCTCTATTAATACA
Found at i:19159 original size:2 final size:2
Alignment explanation
Indices: 19152--19195 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
19142 GATTTGTTTG
19152 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
19194 AT
1 AT
19196 GCCAACATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22423 original size:25 final size:22
Alignment explanation
Indices: 22366--22414 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
22356 TGGACATGTT
22366 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
22388 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
22410 AAAAA
1 AAAAA
22415 AAATGCATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.16
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:23381 original size:20 final size:20
Alignment explanation
Indices: 23334--23408 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
23324 AAAAAGACAT
*
23334 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
23353 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
23374 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
23394 AATGTATCGATACAT
1 AATGTATCGATACAT
23409 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:23402 original size:40 final size:39
Alignment explanation
Indices: 23331--23408 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
23321 GGTAAAAAGA
* *
23331 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
23370 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
23409 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:23685 original size:28 final size:28
Alignment explanation
Indices: 23604--25536 Score: 2116
Period size: 28 Copynumber: 67.1 Consensus size: 28
23594 TCTGGTGTCT
*
23604 ACTGACTTGTGGGC-TTGAAAG-GTACC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * * *
23630 ACTGACTCGAGGGC-ATGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
23657 ACTGACTTATGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
23685 ACTGACTCGTGGGCTTTGAAA-AGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGA-GTGCC
23713 ACTGACTTGCGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTT--GTGGGCTTTGAAA-GAGTGCC
23744 ACTGACTTGTGTGGGCTTTGAAAG-GATGCC
1 ACTGAC-T-TGTGGGCTTTGAAAGAG-TGCC
* *
23774 ACTAACTCGTGGGCTTTGAAATGA-TGCC
1 ACTGACTTGTGGGCTTTGAAA-GAGTGCC
*
23802 ACTGACTTATGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
23830 ACTGACTCGTGGGCTTTGAAA-AGGTACC
1 ACTGACTTGTGGGCTTTGAAAGA-GTGCC
* * *
23858 ACCGACTTGCGTGAGCTTTAAAAGGAGTGCC
1 ACTGACTT--GTGGGCTTTGAAA-GAGTGCC
* *
23889 ACTGACTTGTGTGGGCTTTAAAAGGGTGCC
1 ACTGAC-T-TGTGGGCTTTGAAAGAGTGCC
23919 ACTGACTTGTGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * *
23947 ACTGAATTGTGGGCTTCGCAATG-GTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* *
23975 ACTGACTTGTGGGCTTCGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
24003 ACTGACTTGTGGGCTCTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
**
24031 ACAAACTTGTGGGCTTTGAAA-AGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGA-GTGCC
24059 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
*
24088 ACTGACTTGTGGGCTTAGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* *
24117 ACTGATTTGTGGGCTTTTAAAAGAGTGCC
1 ACTGACTTGTGGGC-TTTGAAAGAGTGCC
*
24146 ACTGACTTGTGGGCTTTGAAATAGGTTGCC
1 ACTGACTTGTGGGCTTTGAAAGA-G-TGCC
* *
24176 ACCGACTTGTGTGGGCTTTGAAAGGGTGCC
1 ACTGAC-T-TGTGGGCTTTGAAAGAGTGCC
24206 ACTGACTTGTGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * ** *
24234 ATTGAATTGTGGGCTGCGCAATG-GTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* *
24262 ACTGACTTGTGGGCTTCGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
24290 ACTGACTTGCGTGGGCTTTGAAAAGGGTGCC
1 ACTGACTT--GTGGGCTTTG-AAAGAGTGCC
*
24321 ACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
24349 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* * *
24378 ACTAACTTGTGGGCTTTAAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
24406 ACTAACTTGTGTGGGCTTTGAAAGGGGTGCC
1 ACTGAC-T-TGTGGGCTTTGAAA-GAGTGCC
*
24437 ACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
24465 ACCGACTTGTGTGGGCTTTGAAAG-GATGCC
1 ACTGAC-T-TGTGGGCTTTGAAAGAG-TGCC
*
24495 ACTGACTAGTGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
24523 ACTGACTCGTGGGCTTTGAAA-ATGTACC
1 ACTGACTTGTGGGCTTTGAAAGA-GTGCC
* * *
24551 ACTAACTTGCGTGAGCTTTAAAAGGAGTGCC
1 ACTGACTT--GTGGGCTTTGAAA-GAGTGCC
* *
24582 ACTGACTTGTGTGGGCTTTAAAAGGGTGCC
1 ACTGAC-T-TGTGGGCTTTGAAAGAGTGCC
* *
24612 ACTGATTTGTGGGCTTTGAAAAAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * *
24640 ACTGAATTGTGGGCTTCGCAATG-GTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* *
24668 ACTGACTTGTGGGCTTCGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
24696 ACTGACTTGTGGGCTCTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
24724 ACTAACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
24752 ACTGACTTGTGGGCTTTGAAAATAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* *
24781 ACTAATTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
24810 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAA-GAGTGCC
24839 ACTGACTTGTGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
24867 ACTGAATTGTGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * *
24895 ACTGAATTGTGGGCTTCGCAATG-GTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* * *
24923 ACTGACTTGTGGGCTTCGAAAGGGTGTC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * *
24951 ACTAACTTGTGGGCTCTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
24979 ACTAACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
25007 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
*
25036 ACTGATTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
25065 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAA-GAGTGCC
*
25094 ACTGACTTGTGGGCTTTGAAAGGAATGCC
1 ACTGACTTGTGGGCTTTGAAA-GAGTGCC
* *
25123 ACTGACTTGTGTGGGCTTTAAAAGGGTGCC
1 ACTGAC-T-TGTGGGCTTTGAAAGAGTGCC
25153 ACTGACTTGTGGGCTTTGAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* * *
25181 ACTGAATTGTGGGCTTCGCAATG-GTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* * *
25209 ACTGACTTGTGAGCTTCGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
*
25237 ACTGACTTGCGTGGGCTTTGAAAAGGGTGCC
1 ACTGACTT--GTGGGCTTTG-AAAGAGTGCC
*
25268 ACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
25296 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGAGTGCC
* * * *
25325 ACTAACTTATGGGCTTTAAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
25353 ACTTACTTGCGTGGGCTTTGAAAGGGGTGCC
1 ACTGACTT--GTGGGCTTTGAAA-GAGTGCC
*
25384 ACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
* *
25412 ACCGACTTGTGTGGGCTTTGAAAAGTGTTGCC
1 ACTGAC-T-TGTGGGCTTTG-AAAGAG-TGCC
* *
25444 ACCGACTTGTGTGGGCTTTGAAATGGGTTGCC
1 ACTGAC-T-TGTGGGCTTTGAAA-GAG-TGCC
*
25476 A-TCGACTTGTGTGGGCTTTGAAATGGGTGCC
1 ACT-GAC-T-TGTGGGCTTTGAAA-GAGTGCC
* * ** *
25507 ACAGAGTTGTGGATTTTAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGAGTGCC
25535 AC
1 AC
25537 GGAGTTATGG
Statistics
Matches: 1677, Mismatches: 154, Indels: 150
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.01
27 35 0.02
28 828 0.49
29 380 0.23
30 179 0.11
31 158 0.09
32 76 0.05
33 3 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
ACTGACTTGTGGGCTTTGAAAGAGTGCC
Found at i:25653 original size:27 final size:27
Alignment explanation
Indices: 25500--26319 Score: 1228
Period size: 27 Copynumber: 30.0 Consensus size: 27
25490 GCTTTGAAAT
* *
25500 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
25528 GAGTGCCACGGAGTTATGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
25556 GGGTGCCACGAAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
**
25584 GGGTGCCACAAAGTTGTGGA-TTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
* * *
25611 GAGATGCCACAGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
25639 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
25666 GGATGCCACAGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
25693 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
25720 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
25747 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
25774 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
25801 GGGTGCCACAGAGTTGTGGACCTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
25828 GGGTGCCATGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
25855 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
25882 GGGTTGCCGCGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
25910 GGGTTGCCGCGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
25938 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
25965 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
25992 GAATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
26019 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
26046 GAATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
26073 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
26100 GGGATGCCACAAAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
26128 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
26155 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
26182 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
26209 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
26237 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
26265 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
26292 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
26319 G
1 G
26320 AGGTCACACT
Statistics
Matches: 728, Mismatches: 57, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
26 2 0.00
27 503 0.69
28 221 0.30
29 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:33833 original size:22 final size:23
Alignment explanation
Indices: 33805--33860 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
33795 TGGACATGTT
33805 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
33827 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
33850 AAAAATGCATG
1 AAAAATGCATG
33861 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:34818 original size:20 final size:20
Alignment explanation
Indices: 34771--34845 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
34761 AAAAAGACAT
*
34771 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
34790 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
34811 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
34831 AATGTATCGATACAT
1 AATGTATCGATACAT
34846 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:34839 original size:40 final size:39
Alignment explanation
Indices: 34768--34845 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
34758 GGTAAAAAGA
* *
34768 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
34807 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
34846 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:36822 original size:29 final size:29
Alignment explanation
Indices: 36766--36821 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
36756 ACATTATTCA
36766 AAATTTTTAATTAAATAAAATTTAAAAAT
1 AAATTTTTAATTAAATAAAATTTAAAAAT
* * *
36795 AAATTTTTATTTTAA-AAATTTTAAAAA
1 AAATTTTTAATTAAATAAAATTTAAAAA
36822 AGTTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATTTTTAATTAAATAAAATTTAAAAAT
Found at i:37089 original size:6 final size:7
Alignment explanation
Indices: 37070--37095 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37060 AGTTAGATTA
37070 TATTTTT
1 TATTTTT
37077 TATTTTT
1 TATTTTT
37084 TATTTTT
1 TATTTTT
37091 TATTT
1 TATTT
37096 AAAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:37905 original size:21 final size:21
Alignment explanation
Indices: 37864--37907 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37854 TATATTTAAA
*
37864 ATATTTTATATTAATTTTTAC
1 ATATTTTATATTAATTGTTAC
*
37885 ATATTTATATATTCA-TGTTAC
1 ATATTT-TATATTAATTGTTAC
37906 AT
1 AT
37908 TCATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATTTTATATTAATTGTTAC
Found at i:41709 original size:16 final size:16
Alignment explanation
Indices: 41684--41725 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
41674 ACTTATATTA
*
41684 AATTTGAATTCAAAAT
1 AATTTAAATTCAAAAT
*
41700 AATTTAAATTCAGAAT
1 AATTTAAATTCAAAAT
*
41716 GATTTAAATT
1 AATTTAAATT
41726 TGATTAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
AATTTAAATTCAAAAT
Found at i:45939 original size:10 final size:11
Alignment explanation
Indices: 45911--45941 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
45901 TTCTTCATCG
45911 TATTTATATTT
1 TATTTATATTT
45922 TATTTATATTT
1 TATTTATATTT
45933 T-TTTATATT
1 TATTTATATT
45942 AAAAAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTATATTT
Found at i:46175 original size:12 final size:12
Alignment explanation
Indices: 46160--46185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46150 TTTAATTAAG
46160 AATTTTTTTATA
1 AATTTTTTTATA
46172 AATTTTTTTATA
1 AATTTTTTTATA
46184 AA
1 AA
46186 AATATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTTTTTATA
Found at i:46416 original size:6 final size:7
Alignment explanation
Indices: 46401--46426 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46391 ATATAAATAT
46401 AAATTAA
1 AAATTAA
46408 AAATTAA
1 AAATTAA
46415 AAATTAA
1 AAATTAA
46422 AAATT
1 AAATT
46427 TATTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:46469 original size:28 final size:27
Alignment explanation
Indices: 46414--46470 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
46404 TTAAAAATTA
**
46414 AAAATTAAAAATTTATTTAAATGTAAT
1 AAAATTAAAAATTTATTTAAATAAAAT
*
46441 AAAATATAAAAATTTCTTTAAATAAAAT
1 AAAAT-TAAAAATTTATTTAAATAAAAT
46469 AA
1 AA
46471 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATTAAAAATTTATTTAAATAAAAT
Found at i:52752 original size:24 final size:24
Alignment explanation
Indices: 52690--52754 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
52680 TAATAAAAAC
* *
52690 TAAAT-TTTATTTAAAATTAATTA
1 TAAATATTAATTTAAAAATAATTA
* *
52713 TAAATATTAATATAAAAATAATTT
1 TAAATATTAATTTAAAAATAATTA
* *
52737 TTAATATTATTTTAAAAA
1 TAAATATTAATTTAAAAA
52755 ATAAAGTAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATATTAATTTAAAAATAATTA
Found at i:53339 original size:20 final size:20
Alignment explanation
Indices: 53316--53355 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53306 ATAAATTTAT
53316 AATTAAAT-TTAAATTAAAAA
1 AATTAAATATTAAA-TAAAAA
*
53336 AATTAATTATTAAATAAAAA
1 AATTAAATATTAAATAAAAA
53356 TTCGAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTAAATATTAAATAAAAA
Found at i:58680 original size:22 final size:22
Alignment explanation
Indices: 58655--58698 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
58645 CATAATCGAA
*
58655 AATAACCAAGTTGACATTGGTT
1 AATAACCAAATTGACATTGGTT
58677 AATAACCAAATTGACATTGGTT
1 AATAACCAAATTGACATTGGTT
58699 GGCTGCTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (22 bp):
AATAACCAAATTGACATTGGTT
Found at i:59211 original size:17 final size:17
Alignment explanation
Indices: 59186--59221 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59176 TTTTGGTCAT
*
59186 TTTTAAGTTCTAATTAA
1 TTTTAAGTTCGAATTAA
*
59203 TTTTGAGTTCGAATTAA
1 TTTTAAGTTCGAATTAA
59220 TT
1 TT
59222 AAGTTTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (17 bp):
TTTTAAGTTCGAATTAA
Found at i:59299 original size:15 final size:16
Alignment explanation
Indices: 59281--59310 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59271 TGATCATATA
59281 AGATTTG-ATTATTTT
1 AGATTTGTATTATTTT
59296 AGATTTGTATTATTT
1 AGATTTGTATTATTT
59311 CGAATTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (16 bp):
AGATTTGTATTATTTT
Found at i:59344 original size:17 final size:15
Alignment explanation
Indices: 59293--59348 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
59283 ATTTGATTAT
59293 TTTAGATTT-GTATTA
1 TTTAGATTTAGT-TTA
*
59308 TTTCGAATTTAGTTTA
1 TTTAG-ATTTAGTTTA
*
59324 TTTAAGATTTATGTTTT
1 TTT-AGATTTA-GTTTA
59341 TTTAGATT
1 TTTAGATT
59349 CAAATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 4 0.12
16 20 0.59
17 10 0.29
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTAGATTTAGTTTA
Found at i:67189 original size:13 final size:13
Alignment explanation
Indices: 67173--67197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67163 TTTTTAAAGT
67173 TTTTCCATGTATG
1 TTTTCCATGTATG
67186 TTTTCCATGTAT
1 TTTTCCATGTAT
67198 ATTAGAAAGT
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:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (13 bp):
TTTTCCATGTATG
Found at i:71593 original size:14 final size:14
Alignment explanation
Indices: 71545--71664 Score: 75
Period size: 15 Copynumber: 7.9 Consensus size: 14
71535 CGCCATTAAA
71545 ATATAATATAAA-T
1 ATATAATATAAATT
71558 ATATAAATATTTTAAAATTT
1 ATAT-AATA---T-AAA-TT
71578 ATATAATATAAATT
1 ATATAATATAAATT
71592 ATTTATAAT-TAAATTT
1 A--TATAATATAAA-TT
*
71608 ATATAAATATAAAAT
1 ATAT-AATATAAATT
71623 ATATTAA-ATATAATT
1 ATA-TAATATA-AATT
* *
71638 ATATAAAATAAAAT
1 ATATAATATAAATT
71652 ATATAAATATAAA
1 ATAT-AATATAAA
71665 AATTACCAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 30
0.72 0.03 0.25
Matches are distributed among these distances:
13 4 0.05
14 23 0.26
15 32 0.37
16 15 0.17
17 1 0.01
18 3 0.03
19 4 0.05
20 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAATATAAATT
Found at i:71608 original size:30 final size:29
Alignment explanation
Indices: 71572--71660 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
71562 AAATATTTTA
*
71572 AAATTTATATAATATAAATTAT-TTATAATT
1 AAATTTATATAATATAAAATATATTA-AA-T
71602 AAATTTATATAAATATAAAATATATTAAAT
1 AAATTTATAT-AATATAAAATATATTAAAT
*
71632 ATAA-TTATATAAAATAAAATATA-TAAAT
1 A-AATTTATATAATATAAAATATATTAAAT
71660 A
1 A
71661 TAAAAATTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
28 6 0.11
29 12 0.22
30 18 0.33
31 15 0.28
32 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AAATTTATATAATATAAAATATATTAAAT
Found at i:71640 original size:22 final size:21
Alignment explanation
Indices: 71607--71667 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
71597 TAATTAAATT
*
71607 TATATAAATATAAAATATATTAA
1 TATATAAATATAAAA-ATA-AAA
*
71630 -ATATAATTATATAAAATAAAA
1 TATATAAATATA-AAAATAAAA
71651 TATATAAATATAAAAAT
1 TATATAAATATAAAAAT
71668 TACCAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.21
22 23 0.70
23 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TATATAAATATAAAAATAAAA
Found at i:71667 original size:16 final size:15
Alignment explanation
Indices: 71545--71665 Score: 99
Period size: 16 Copynumber: 7.9 Consensus size: 15
71535 CGCCATTAAA
71545 ATAT-AATAT-AAAT
1 ATATAAATATAAAAT
71558 ATATAAATATTTTAAAAT
1 ATATAAATA---TAAAAT
* *
71576 TTATATAATATAAATT
1 ATATA-AATATAAAAT
* *
71592 ATTTATAAT-TAAATTT
1 ATATA-AATATAAA-AT
71608 ATATAAATATAAAAT
1 ATATAAATATAAAAT
*
71623 ATATTAAATAT-AATT
1 ATA-TAAATATAAAAT
71638 ATATAAA-ATAAAAT
1 ATATAAATATAAAAT
71652 ATATAAATATAAAA
1 ATATAAATATAAAA
71666 ATTACCAAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
13 6 0.07
14 18 0.20
15 23 0.26
16 29 0.33
17 1 0.01
18 8 0.09
19 4 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAAATATAAAAT
Found at i:71669 original size:31 final size:31
Alignment explanation
Indices: 71545--71665 Score: 112
Period size: 31 Copynumber: 3.9 Consensus size: 31
71535 CGCCATTAAA
71545 ATAT-AATAT-AAATATATAAATATTTTAAAATT
1 ATATAAATATAAAATATATAAATA---TAAAATT
* * *
71577 -TATATAATATAAATTATTTATAAT-TAAATTT
1 ATATA-AATATAAAATATATA-AATATAAAATT
71608 ATATAAATATAAAATATATTAAATAT--AATT
1 ATATAAATATAAAATATA-TAAATATAAAATT
71638 ATATAAA-ATAAAATATATAAATATAAAA
1 ATATAAATATAAAATATATAAATATAAAA
71666 ATTACCAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
28 7 0.09
29 10 0.14
30 12 0.16
31 23 0.31
32 7 0.09
33 5 0.07
34 7 0.09
35 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATAAATATAAAATATATAAATATAAAATT
Found at i:71675 original size:29 final size:29
Alignment explanation
Indices: 71608--71667 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
71598 AATTAAATTT
**
71608 ATATAAATATAAAATATATTAAATATAATT
1 ATATAAA-ATAAAATATATTAAATATAAAA
71638 ATATAAAATAAAATATA-TAAATATAAAA
1 ATATAAAATAAAATATATTAAATATAAAA
71666 AT
1 AT
71668 TACCAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.39
29 10 0.36
30 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
ATATAAAATAAAATATATTAAATATAAAA
Found at i:72119 original size:19 final size:21
Alignment explanation
Indices: 72095--72136 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
72085 TTGATTGTTA
*
72095 TTTT-AAATTTT-TTTTCTTT
1 TTTTAAAATTTTGTTTGCTTT
72114 TTTTAAAATTTTGTTTGCTTT
1 TTTTAAAATTTTGTTTGCTTT
72135 TT
1 TT
72137 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTAAAATTTTGTTTGCTTT
Found at i:72836 original size:16 final size:17
Alignment explanation
Indices: 72811--72848 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
72801 TTTATACAAC
*
72811 TTATTTTAAAAT-ATTT
1 TTATTGTAAAATCATTT
*
72827 TTATTGTAAACTCATTT
1 TTATTGTAAAATCATTT
72844 TTATT
1 TTATT
72849 TTTTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (17 bp):
TTATTGTAAAATCATTT
Found at i:73722 original size:18 final size:17
Alignment explanation
Indices: 73699--73761 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 17
73689 ATATTTTAAT
73699 AATTAAATTTAAATATAA
1 AATTAAATTTAAATAT-A
* *
73717 AATTAAATTTTTATTATCA
1 AATTAAA-TTTAAATAT-A
*
73736 AATAATAATTTAAAT-TA
1 AATTA-AATTTAAATATA
73753 AATTAAATT
1 AATTAAATT
73762 ATTAAAATCT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 8 0.22
19 17 0.47
20 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTTAAATATA
Found at i:74141 original size:22 final size:19
Alignment explanation
Indices: 74114--74155 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
74104 TCTTTTAATT
74114 ATTTTTGACATATATATAAAAA
1 ATTTTTGA-ATA-AT-TAAAAA
74136 ATTTTTGAATAATTAAAAA
1 ATTTTTGAATAATTAAAAA
74155 A
1 A
74156 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 3 0.15
22 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTTTTGAATAATTAAAAA
Found at i:74955 original size:3 final size:3
Alignment explanation
Indices: 74947--74994 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
74937 AAGTTGGACT
74947 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
74995 GTTTACCTTT
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):
TTA
Found at i:75783 original size:21 final size:20
Alignment explanation
Indices: 75754--75793 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
75744 ATATAAAATA
*
75754 TAATTAAAATATTATTTTAT
1 TAATTAAAATATTAATTTAT
75774 TAATGTAAAATATTAATTTA
1 TAAT-TAAAATATTAATTTA
75794 ATAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TAATTAAAATATTAATTTAT
Found at i:75808 original size:32 final size:32
Alignment explanation
Indices: 75741--75808 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
75731 AATTTAATAT
*
75741 TTAATATAAAATATAATTAAAATATTATTTTA
1 TTAATATAAAATATAATTAAAATATAATTTTA
* *
75773 TTAATGTAAAATATTAATT-TAATA-AATTTTAA
1 TTAATATAAAATA-TAATTAAAATATAATTTT-A
75805 TTAA
1 TTAA
75809 ATATTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 5 0.16
32 21 0.68
33 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
TTAATATAAAATATAATTAAAATATAATTTTA
Found at i:75937 original size:79 final size:82
Alignment explanation
Indices: 75844--76044 Score: 185
Period size: 83 Copynumber: 2.5 Consensus size: 82
75834 TCTTAAAATT
** *
75844 TAATAATTTGTTAATAAATTTGAGTTGAATTTGAAAAAAAT-AAGA-TAAATATAAACAT-CATT
1 TAATAATTAATTAATAAATTTGAGTTGAATTTTAAAAAAATCAAGATTAAATATAAACATACATT
* *
75906 AACCCAACCCTAAGACA
66 AACACAACCCTAACACA
* * ** * * * *
75923 TAATAATTAATTAATGGAA-TTGAGTTAAATTTTTAAAAATTTCATGATTAATTATAACCATATA
1 TAATAATTAATTAAT-AAATTTGAGTTGAA-TTTTAAAAAAATCAAGATTAAATATAAACATACA
* * *
75987 TTAATAGAACTCTAACACA
64 TTAACACAACCCTAACACA
* * *
76006 TAATAATTAATTAGTCAATTTGAATTGAATTTTAAAAAA
1 TAATAATTAATTAATAAATTTGAGTTGAATTTTAAAAAA
76045 TCTCATAATT
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
79 22 0.23
80 11 0.12
81 3 0.03
82 22 0.23
83 37 0.39
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (82 bp):
TAATAATTAATTAATAAATTTGAGTTGAATTTTAAAAAAATCAAGATTAAATATAAACATACATT
AACACAACCCTAACACA
Found at i:76121 original size:87 final size:87
Alignment explanation
Indices: 76008--76189 Score: 224
Period size: 87 Copynumber: 2.1 Consensus size: 87
75998 CTAACACATA
* * * *
76008 ATAATTAATTAGTCAATTTGAATTGAATTTTAAAAAATCTCATAATTAA-TCAAAAAAATAAATA
1 ATAATTAATTAGTAAATTTGAATTGAATGTAAAAAAATCTCATAATTAATTCAAAAAAA-AAACA
* *
76072 AATATAAACATCTATTAAATCTC
65 AATATAAACATCCATTAAATCCC
* * * *
76095 ATAATTAGTTAGTAAATTT-AACTTGAATGTAAAAAAATTTCATAATTAATTCAAAAGAAAGACA
1 ATAATTAATTAGTAAATTTGAA-TTGAATGTAAAAAAATCTCATAATTAATTCAAAAAAAAAACA
*
76159 AATGTAAACATCCATTAAATCCC
65 AATATAAACATCCATTAAATCCC
*
76182 GTAATTAA
1 ATAATTAA
76190 ATTTAACTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
86 2 0.03
87 70 0.88
88 8 0.10
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.34
Consensus pattern (87 bp):
ATAATTAATTAGTAAATTTGAATTGAATGTAAAAAAATCTCATAATTAATTCAAAAAAAAAACAA
ATATAAACATCCATTAAATCCC
Found at i:76233 original size:3 final size:3
Alignment explanation
Indices: 76218--76256 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
76208 AAGTCTCGTG
*
76218 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
76257 TGGCCTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:76735 original size:21 final size:20
Alignment explanation
Indices: 76711--76750 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
76701 ATTTAAAATA
*
76711 TTTTTTACTTAAATTAAATTG
1 TTTTGTACTTAAA-TAAATTG
*
76732 TTTTGTATTTAAATAAATT
1 TTTTGTACTTAAATAAATT
76751 CGATAGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTGTACTTAAATAAATTG
Found at i:76802 original size:32 final size:33
Alignment explanation
Indices: 76757--76818 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
76747 AATTCGATAG
* *
76757 TTATATTACTATTTA-AAATAATATTAAATTTT
1 TTATACTAATATTTATAAATAATATTAAATTTT
* *
76789 TTATACTAATATTTATAATTAATTTTAAAT
1 TTATACTAATATTTATAAATAATATTAAAT
76819 AAAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 13 0.52
33 12 0.48
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (33 bp):
TTATACTAATATTTATAAATAATATTAAATTTT
Found at i:77153 original size:20 final size:20
Alignment explanation
Indices: 77128--77170 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
77118 TATATTATTT
*
77128 AATATTATAT-TTGTATTTAA
1 AATATTATATATT-TATATAA
77148 AATATTATATATTTATATAA
1 AATATTATATATTTATATAA
77168 AAT
1 AAT
77171 TTAATAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATATTATATATTTATATAA
Found at i:77279 original size:22 final size:21
Alignment explanation
Indices: 77258--77320 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
77248 TAAAAAATAT
77258 TATTTTATATTAATAATTATA
1 TATTTTATATTAATAATTATA
* *
77279 TATCTTTATAATAATTATTATA
1 TAT-TTTATATTAATAATTATA
77301 TATTTATATAATTAA-AATTA
1 TATTT-TAT-ATTAATAATTA
77321 AATAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.14
22 26 0.74
23 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTATATTAATAATTATA
Found at i:77292 original size:19 final size:20
Alignment explanation
Indices: 77268--77314 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
77258 TATTTTATAT
*
77268 TAATAATTA-TATATCTTTA
1 TAATAATTATTATATATTTA
77287 TAATAATTATTATATATTTA
1 TAATAATTATTATATATTTA
77307 T-ATAATTA
1 TAATAATTA
77315 AAATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAATTATTATATATTTA
Found at i:77759 original size:11 final size:12
Alignment explanation
Indices: 77743--77772 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
77733 CATATAATTT
*
77743 TAAAAAAATTAA
1 TAAAAAATTTAA
77755 TAAAAAATTTAA
1 TAAAAAATTTAA
77767 TAAAAA
1 TAAAAA
77773 TTATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAAATTTAA
Found at i:77784 original size:21 final size:21
Alignment explanation
Indices: 77718--77784 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
77708 AATATTTTTA
77718 TAATAAAAATTATATCATATAATTT
1 TAATAAAAATTATAT--T-TAA-TT
***
77743 TAA-AAAAATTAATAAAAAATT
1 TAATAAAAATT-ATATTTAATT
77764 TAATAAAAATTATATTTAATT
1 TAATAAAAATTATATTTAATT
77785 ATAAAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 12 0.35
22 9 0.26
24 7 0.21
25 6 0.18
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAAAAATTATATTTAATT
Found at i:80946 original size:24 final size:21
Alignment explanation
Indices: 80905--80967 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
80895 GTAACCATAA
* * *
80905 ATTTTAAACAGAACATAAAAC
1 ATTTTAAATATAATATAAAAC
*
80926 ATTATATAAATATTAATATAAAAT
1 ATT-T-TAAATA-TAATATAAAAC
80950 ATTTTAAATATAATATAA
1 ATTTTAAATATAATATAA
80968 TATATAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 11 0.31
22 7 0.20
23 6 0.17
24 11 0.31
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTTTAAATATAATATAAAAC
Found at i:80962 original size:28 final size:29
Alignment explanation
Indices: 80929--80990 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
80919 ATAAAACATT
*
80929 ATATAAATATTA-ATATAAAATATTTTAA
1 ATATAAATATAATATATAAAATATTTTAA
80957 ATAT-AATATAATATATAAAATATTTTAA
1 ATATAAATATAATATATAAAATATTTTAA
*
80985 AAATAA
1 ATATAA
80991 TATGATGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 23 0.77
29 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
ATATAAATATAATATATAAAATATTTTAA
Found at i:80964 original size:14 final size:14
Alignment explanation
Indices: 80929--80993 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
80919 ATAAAACATT
80929 ATATAA-ATATTAA
1 ATATAATATATTAA
* *
80942 TATAAAATATTTTAA
1 -ATATAATATATTAA
* *
80957 ATATAATATAATAT
1 ATATAATATATTAA
* *
80971 ATAAAATATTTTAA
1 ATATAATATATTAA
*
80985 AAATAATAT
1 ATATAATAT
80994 GATGAGAGAT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
14 32 0.84
15 6 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAATATATTAA
Found at i:80979 original size:19 final size:19
Alignment explanation
Indices: 80928--80975 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
80918 CATAAAACAT
80928 TATATAAATATTAATATAAAA
1 TATATAAATA-TAATAT-AAA
*
80949 TATTTTAAATATAATAT-AA
1 TA-TATAAATATAATATAAA
80968 TATATAAA
1 TATATAAA
80976 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
21 8 0.33
22 7 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATAAATATAATATAAA
Found at i:81237 original size:13 final size:13
Alignment explanation
Indices: 81219--81244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81209 TAATATTTTT
81219 AATATTTTTAAAA
1 AATATTTTTAAAA
81232 AATATTTTTAAAA
1 AATATTTTTAAAA
81245 TTTGTAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATTTTTAAAA
Found at i:81335 original size:52 final size:52
Alignment explanation
Indices: 81261--81409 Score: 209
Period size: 52 Copynumber: 2.9 Consensus size: 52
81251 GGAAATAAAA
* * *
81261 TAAATATAAATA-TAATTTTTAATATTATTTATTTATTATGTTATTTAAATT
1 TAAAAATAAATATTAATTATTAATATTATTTATTTATTATATTATTTAAATT
81312 TAAAAATAAATATTAATTATTAATATTATTTATTTATTATATTATTTAAATT
1 TAAAAATAAATATTAATTATTAATATTATTTATTTATTATATTATTTAAATT
* *
81364 T-AAAATAAATATTAATTATAAATA-TATTTA-ATATTAATATT-TTTAA
1 TAAAAATAAATATTAATTATTAATATTATTTATTTATT-ATATTATTTAA
81410 TTTTTTAATT
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
49 9 0.10
50 11 0.12
51 33 0.36
52 38 0.42
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (52 bp):
TAAAAATAAATATTAATTATTAATATTATTTATTTATTATATTATTTAAATT
Found at i:81462 original size:25 final size:26
Alignment explanation
Indices: 81417--81482 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
81407 TAATTTTTTA
* * *
81417 ATTTAAAAAT-TATATATATATATAT
1 ATTTAAATATATATATAAATATAAAT
81442 ATTTAAATATATAT-TAAATATAAAT
1 ATTTAAATATATATATAAATATAAAT
81467 A-TTAAATATAATATAT
1 ATTTAAATAT-ATATAT
81483 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 8 0.23
25 23 0.66
26 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTAAATATATATATAAATATAAAT
Found at i:81660 original size:27 final size:27
Alignment explanation
Indices: 81630--81731 Score: 73
Period size: 27 Copynumber: 3.6 Consensus size: 27
81620 CGTTATTATT
*
81630 TTAAAAATATTATATATTATAATTAAA
1 TTAAAAATATTATATATAATAATTAAA
* *
81657 TTAATTATTAAATATTATAT-TAAT-ATTTAT
1 TT-A--A--AAATATTATATATAATAATTAAA
*
81687 TTAAAAATATTAATATATAATATTTAAA
1 TTAAAAATATT-ATATATAATAATTAAA
* * *
81715 ATAAAATTATAATATAT
1 TTAAAAATATTATATAT
81732 GCATTTATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
25 7 0.12
26 4 0.07
27 13 0.22
28 12 0.21
29 1 0.02
30 7 0.12
31 3 0.05
32 11 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTAAAAATATTATATATAATAATTAAA
Found at i:82014 original size:11 final size:10
Alignment explanation
Indices: 81983--82061 Score: 51
Period size: 10 Copynumber: 8.2 Consensus size: 10
81973 ATTCGATAAT
81983 TTAT-ATATA
1 TTATAATATA
* *
81992 TTTTTATATA
1 TTATAATATA
82002 TTATAATTATA
1 TTATAA-TATA
82013 TT-TAATATA
1 TTATAATATA
82022 TTATAA-AT-
1 TTATAATATA
*
82030 TTAT-ATAAA
1 TTATAATATA
* *
82039 TTTTAATAAA
1 TTATAATATA
*
82049 TTAATAATTTA
1 TT-ATAATATA
82060 TT
1 TT
82062 TTATATAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
7 1 0.02
8 5 0.09
9 14 0.25
10 22 0.40
11 13 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTATAATATA
Found at i:82043 original size:27 final size:27
Alignment explanation
Indices: 82013--82111 Score: 94
Period size: 32 Copynumber: 3.5 Consensus size: 27
82003 TATAATTATA
*
82013 TTTAATATATTATAAATTTATATAAAT
1 TTTAATAAATTATAAATTTATATAAAT
*
82040 TTTAATAAATTAATAATTTATTTTATATAAAA
1 TTTAATAAATT-ATAA---A-TTTATATAAAT
* *
82072 TTTAATAAATATATATATTTATATTAAT
1 TTTAATAAAT-TATAAATTTATATAAAT
82100 TTT--TAAATTATA
1 TTTAATAAATTATA
82112 TTATATTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
25 4 0.07
26 5 0.08
27 10 0.16
28 16 0.26
29 1 0.02
31 1 0.02
32 23 0.38
33 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTAATAAATTATAAATTTATATAAAT
Found at i:82062 original size:47 final size:43
Alignment explanation
Indices: 81980--82081 Score: 118
Period size: 47 Copynumber: 2.3 Consensus size: 43
81970 TAAATTCGAT
* * *
81980 AATTTATATATATTTTTATATATTATAATTATATTTAATATATTATA
1 AATTTATATAAATTTTAATAAATTATAATTATATTT--TATA-TA-A
82027 AATTTATATAAATTTTAATAAATTAATAATT-TATTTTATATAA
1 AATTTATATAAATTTTAATAAATT-ATAATTATATTTTATATAA
82070 AATTTA-ATAAAT
1 AATTTATATAAAT
82082 ATATATATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 6 0.12
43 7 0.14
44 2 0.04
45 4 0.08
47 26 0.51
48 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (43 bp):
AATTTATATAAATTTTAATAAATTATAATTATATTTTATATAA
Found at i:82083 original size:16 final size:16
Alignment explanation
Indices: 82032--82084 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
82022 TTATAAATTT
*
82032 ATATAAATTTTAATAA
1 ATATAAAATTTAATAA
* **
82048 AT-TAATAATTTATTTT
1 ATATAA-AATTTAATAA
82064 ATATAAAATTTAATAA
1 ATATAAAATTTAATAA
82080 ATATA
1 ATATA
82085 TATATTTATA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAAAATTTAATAA
Found at i:88786 original size:11 final size:10
Alignment explanation
Indices: 88728--88787 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
88718 ATTTTATTAA
88728 TAATTTAAAT
1 TAATTTAAAT
*
88738 TAAATTAAAT
1 TAATTTAAAT
*
88748 AAATTTAAAT
1 TAATTTAAAT
*
88758 T-ATTAAAAATT
1 TAATT-TAAA-T
*
88769 TATTTTAAAT
1 TAATTTAAAT
88779 TGAATTTAA
1 T-AATTTAA
88788 TTTGGATTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
9 3 0.08
10 22 0.58
11 11 0.29
12 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:89131 original size:23 final size:22
Alignment explanation
Indices: 89090--89170 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 22
89080 ATATAAATGA
89090 TATATTATATAAGTGATAATAATT
1 TATATTATATAA-T-ATAATAATT
89114 GTATATTATATAATATAAT--TT
1 -TATATTATATAATATAATAATT
89135 TAAATTATTATATAA-AT-ATATATT
1 T--A-TATTATATAATATAATA-ATT
89159 TATATTATATAA
1 TATATTATATAA
89171 AAAATTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
20 1 0.02
21 14 0.28
22 4 0.08
23 15 0.30
24 4 0.08
25 12 0.24
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TATATTATATAATATAATAATT
Found at i:89182 original size:44 final size:48
Alignment explanation
Indices: 89092--89182 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 48
89082 ATAAATGATA
* *
89092 TATTATATAAGTGATAATAATTGTATATTATATAATATAATTTTAAAT
1 TATTATATAAATGATAATAATTGTATATTATATAATAAAATTTTAAAT
89140 TATTATATAAAT-AT-AT-ATT-TATATTATATAA-AAAATTATTAAA
1 TATTATATAAATGATAATAATTGTATATTATATAATAAAATT-TTAAA
89183 AATAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
43 5 0.12
44 17 0.43
45 3 0.08
46 2 0.05
47 2 0.05
48 11 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (48 bp):
TATTATATAAATGATAATAATTGTATATTATATAATAAAATTTTAAAT
Found at i:89306 original size:14 final size:14
Alignment explanation
Indices: 89287--89314 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89277 TTTTAAATCA
89287 AAATAAATTAAATT
1 AAATAAATTAAATT
89301 AAATAAATTAAATT
1 AAATAAATTAAATT
89315 TAATCGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTAAATT
Found at i:90170 original size:12 final size:12
Alignment explanation
Indices: 90155--90188 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
90145 TATAATATTA
90155 ATACATATATAC
1 ATACATATATAC
*
90167 ATACATATATAT
1 ATACATATATAC
*
90179 ATATATATAT
1 ATACATATAT
90189 TCATTTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
ATACATATATAC
Found at i:91320 original size:16 final size:16
Alignment explanation
Indices: 91277--91322 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
91267 TTATTTAATA
91277 ATAAA-AATAATATAT
1 ATAAATAATAATATAT
* *
91292 TTAAATAAAAATATAT
1 ATAAATAATAATATAT
*
91308 ATAAATATTAATATA
1 ATAAATAATAATATA
91323 AAATAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATAATAATATAT
Found at i:91330 original size:16 final size:18
Alignment explanation
Indices: 91268--91347 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 18
91258 GTTGAGTTAT
91268 TATTTAATAATAAAAATAATA
1 TATTTAATAAT-AAAAT-A-A
91289 TATTTAAATAA-AAATATATA
1 TATTT-AATAATAAA-ATA-A
91309 TAAATATTAAT-ATAAAATAA
1 T--AT-TTAATAATAAAATAA
91329 TATTTTAATAATAAAATAA
1 TA-TTTAATAATAAAATAA
91348 AATATTAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
18 6 0.12
19 10 0.20
20 9 0.18
21 11 0.22
22 13 0.25
23 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATTTAATAATAAAATAA
Found at i:91331 original size:24 final size:24
Alignment explanation
Indices: 91272--91351 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 24
91262 AGTTATTATT
91272 TAATAATA-AAAATAATATAT---
1 TAATAATATAAAATAATATATAAA
*
91292 TTA-AATA-AAAAT-ATATATAAA
1 TAATAATATAAAATAATATATAAA
* * *
91313 TATTAATATAAAATAATATTTTAA
1 TAATAATATAAAATAATATATAAA
*
91337 TAATAAAATAAAATA
1 TAATAATATAAAATA
91352 TTAAATGATC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 6 0.13
19 9 0.19
20 2 0.04
21 1 0.02
22 4 0.09
23 5 0.11
24 20 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATAATATAAAATAATATATAAA
Found at i:91338 original size:18 final size:19
Alignment explanation
Indices: 91268--91353 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 19
91258 GTTGAGTTAT
91268 TATTTAATAATAAAAATAATA
1 TATTTAAT-AT-AAAATAATA
91289 TATTTAA-ATAAAAATATATA
1 TATTTAATAT-AAAATA-ATA
91309 TAAATATTAATATAAAATAATA
1 T--AT-TTAATATAAAATAATA
*
91331 T-TTTAATAATAAAATAAAA
1 TATTTAAT-ATAAAATAATA
91350 TATT
1 TATT
91354 AAATGATCTT
Statistics
Matches: 57, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
18 5 0.09
19 21 0.37
20 6 0.11
21 7 0.12
22 6 0.11
23 10 0.18
24 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTTAATATAAAATAATA
Found at i:96466 original size:22 final size:22
Alignment explanation
Indices: 96440--96481 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
96430 ATATTTTTTT
96440 AAAAT-TTAATTATAAAAATATA
1 AAAATATTAA-TATAAAAATATA
96462 AAAATATTAATATAAAAATA
1 AAAATATTAATATAAAAATA
96482 AATTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATATTAATATAAAAATATA
Found at i:96528 original size:19 final size:19
Alignment explanation
Indices: 96504--96553 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
96494 TTTTATATAA
96504 TAATTTAAATTATT-AAATT
1 TAATTTAAATT-TTGAAATT
96523 TAATTT-AATTTTGAAATT
1 TAATTTAAATTTTGAAATT
* *
96541 AAAATTAAATTTT
1 TAATTTAAATTTT
96554 TTGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 13 0.48
19 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATTTAAATTTTGAAATT
Found at i:96893 original size:90 final size:89
Alignment explanation
Indices: 96738--96902 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 89
96728 GTCTCAATTA
* *
96738 TTCATGAAATATGAAAAACAGATGAAAAGTTATTTATTTTTAAAAGAAGTCATAAAATTTCTTAA
1 TTCATGAAATATGAAAAACAGATGAAAAGTTATTTATTTTCAAAAGAAAT-ATAAAATTTCTTAA
*
96803 GAATTTTATAATATTCATTTATTTT
65 GAATCTTATAATATTCATTTATTTT
* * *
96828 TTCATGAAATGTGAAAAACAGATGAATAA-TTTTTTATTTTCAAAAGAAAT-TAAAGTATTTTTT
1 TTCATGAAATATGAAAAACAGATGAA-AAGTTATTTATTTTCAAAAGAAATATAAA--ATTTCTT
96891 AAGAATCTTATA
63 AAGAATCTTATA
96903 TGATCTATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
88 4 0.06
90 60 0.91
91 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (89 bp):
TTCATGAAATATGAAAAACAGATGAAAAGTTATTTATTTTCAAAAGAAATATAAAATTTCTTAAG
AATCTTATAATATTCATTTATTTT
Found at i:101874 original size:26 final size:28
Alignment explanation
Indices: 101830--101913 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 28
101820 AATTTAGTAA
* *
101830 TTTATATATTTAAATTATTTTTTATATT
1 TTTATATATATAAATTATTATTTATATT
101858 TTTATA-ATATAAA-TATTATTTATA--
1 TTTATATATATAAATTATTATTTATATT
* * *
101882 TAT-TATAT-TAAATT-TTAATTATTTT
1 TTTATATATATAAATTATTATTTATATT
101907 TTTATAT
1 TTTATAT
101914 TACACCTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 13 0.29
24 5 0.11
25 2 0.04
26 13 0.29
27 6 0.13
28 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTATATATATAAATTATTATTTATATT
Found at i:102376 original size:27 final size:27
Alignment explanation
Indices: 102346--102444 Score: 80
Period size: 28 Copynumber: 3.6 Consensus size: 27
102336 ATTTTTAATA
102346 ATATAAAT-TATTAAAATATTAAAATTG
1 ATATAAATATA-TAAAATATTAAAATTG
* *
102373 ATATAAATATATAATATATTTAAATATTT
1 ATATAAATATATAAAATA-TTAAA-ATTG
*
102402 TTATAAA-ATA-AAAATAATATAAAAATAT-
1 ATATAAATATATAAAAT-AT-T-AAAAT-TG
102430 ATATAAATATATAAA
1 ATATAAATATATAAA
102445 TAATTTAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
27 19 0.33
28 20 0.34
29 16 0.28
30 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (27 bp):
ATATAAATATATAAAATATTAAAATTG
Found at i:102426 original size:12 final size:12
Alignment explanation
Indices: 102409--102447 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
102399 TTTTTATAAA
102409 ATAAAAATA-AT
1 ATAAAAATATAT
102420 ATAAAAATATAT
1 ATAAAAATATAT
* *
102432 ATAAATATATAA
1 ATAAAAATATAT
102444 ATAA
1 ATAA
102448 TTTAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAAAAATATAT
Found at i:102431 original size:10 final size:10
Alignment explanation
Indices: 102409--102444 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
102399 TTTTTATAAA
102409 ATAAAAATAAT
1 ATAAAAAT-AT
102420 ATAAAAATAT
1 ATAAAAATAT
*
102430 ATATAAATAT
1 ATAAAAATAT
102440 ATAAA
1 ATAAA
102445 TAATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:102460 original size:14 final size:15
Alignment explanation
Indices: 102441--102469 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
102431 TATAAATATA
102441 TAAATAATT-TAATT
1 TAAATAATTATAATT
102455 TAAATAATTATAATT
1 TAAATAATTATAATT
102470 AATATACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATAATTATAATT
Found at i:103855 original size:22 final size:22
Alignment explanation
Indices: 103827--103868 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
103817 AGAAAGATCA
*
103827 TAAATTTCTTTTTTTTTTGGAC
1 TAAATTTCTTTTTTTCTTGGAC
103849 TAAATTTCTTTTTTTCTTGG
1 TAAATTTCTTTTTTTCTTGG
103869 GTCTATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.64
Consensus pattern (22 bp):
TAAATTTCTTTTTTTCTTGGAC
Found at i:106678 original size:36 final size:38
Alignment explanation
Indices: 106632--106712 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 38
106622 TGAAAATCTA
*
106632 TATTACTATTTA-AAATAATATT-AAA-AA-ATTATTTTT
1 TATTAATATTTATAAATAA-ATTAAAATAACATTA-TTTT
*
106668 TATTAATATTTATAATTAAATTAAAATAACATTATTTT
1 TATTAATATTTATAAATAAATTAAAATAACATTATTTT
106706 TATTAAT
1 TATTAAT
106713 TTTTTACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 14 0.36
37 8 0.21
38 13 0.33
39 4 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (38 bp):
TATTAATATTTATAAATAAATTAAAATAACATTATTTT
Found at i:110765 original size:22 final size:21
Alignment explanation
Indices: 110698--110768 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
110688 AAAAAAACCC
* * *
110698 TAAATTTTAAATAAATAAAATA
1 TAAATTTTAATTATATTAAA-A
110720 TTAAATTTTAATTATATTCAAAA
1 -TAAATTTTAATTATATT-AAAA
110743 TAAATTTTAAATTATACTT-AAA
1 TAAATTTT-AATTATA-TTAAAA
110765 TAAA
1 TAAA
110769 ATCTTGATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 15 0.36
23 22 0.52
24 5 0.12
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTTAATTATATTAAAA
Found at i:110851 original size:23 final size:23
Alignment explanation
Indices: 110783--110851 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
110773 TGATATGGAT
*
110783 AAATATTTTTAAAATTTTAA-ATA
1 AAAT-TTTTTAAAATTTTAATTTA
* *
110806 AAATTTTTTATTTATTTTTAATTTA
1 AAATTTTTTA--AAATTTTAATTTA
*
110831 AAATTTTTTAAAATATTAATT
1 AAATTTTTTAAAATTTTAATT
110852 AATATATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 7 0.19
25 12 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATTTTTTAAAATTTTAATTTA
Found at i:110870 original size:23 final size:22
Alignment explanation
Indices: 110844--110895 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
110834 TTTTTTAAAA
* *
110844 TATTAATTAATATATAATGATTT
1 TATTAATTAAAAAATAAT-ATTT
110867 TATTAATTAAAAAATAATATTT
1 TATTAATTAAAAAATAATATTT
*
110889 AATTAAT
1 TATTAAT
110896 ACTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTAATTAAAAAATAATATTT
Found at i:110977 original size:23 final size:22
Alignment explanation
Indices: 110938--111001 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
110928 TAAAAATAAA
**
110938 TTTTAAATATTTTATTATAATT
1 TTTTAAATATTAAATTATAATT
110960 TTTTAAAGTATTAAATTATAAATT
1 TTTTAAA-TATTAAATTAT-AATT
* *
110984 TATTATAATATAAAATTA
1 TTTTA-AATATTAAATTA
111002 AATGATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.20
23 9 0.26
24 17 0.49
25 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAATATTAAATTATAATT
Found at i:110999 original size:24 final size:23
Alignment explanation
Indices: 110951--111014 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
110941 TAAATATTTT
* *
110951 ATTATAATTTTTTAAAGTATTAA
1 ATTATAATTTATTAAAGTATAAA
110974 ATTATAAATTTATTATAA-TATAAA
1 ATTAT-AATTTATTA-AAGTATAAA
110998 ATTA-AATGATTATTAAA
1 ATTATAAT--TTATTAAA
111015 TGGGTACGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 3 0.09
23 7 0.20
24 23 0.66
25 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
ATTATAATTTATTAAAGTATAAA
Found at i:111338 original size:29 final size:25
Alignment explanation
Indices: 111317--111373 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
111307 TTTATATCGA
*
111317 TCGAATTAGTAAGTATTAATTTATT
1 TCGAATTAATAAGTATTAATTTATT
*
111342 TTGAATTAATAAGTATTAATTTATT
1 TCGAATTAATAAGTATTAATTTATT
111367 TC-AATTA
1 TCGAATTA
111374 TATCAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (25 bp):
TCGAATTAATAAGTATTAATTTATT
Found at i:111508 original size:32 final size:32
Alignment explanation
Indices: 111457--111545 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
111447 AATTTGATGA
* * * * *
111457 ATTAGATATAATTATTTATAATTTTAATGAAT
1 ATTAAATAAAATTACTTATAAATTTAATCAAT
111489 ATTAAATAAAATTACTTATAAATTTAATCAAT
1 ATTAAATAAAATTACTTATAAATTTAATCAAT
* * * *
111521 ATTATATACAATTACATGTAAATTT
1 ATTAAATAAAATTACTTATAAATTT
111546 GATTACTATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (32 bp):
ATTAAATAAAATTACTTATAAATTTAATCAAT
Found at i:111942 original size:16 final size:17
Alignment explanation
Indices: 111921--111952 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
111911 CAAAATATAG
111921 TAAAAAATAAT-TAAAA
1 TAAAAAATAATATAAAA
111937 TAAAAAATAATATAAA
1 TAAAAAATAATATAAA
111953 TACGATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAAAATAATATAAAA
Found at i:112408 original size:13 final size:13
Alignment explanation
Indices: 112390--112414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112380 TACGTATCAT
112390 TTTATAAATTTTA
1 TTTATAAATTTTA
112403 TTTATAAATTTT
1 TTTATAAATTTT
112415 TTCATCATTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATAAATTTTA
Found at i:113673 original size:16 final size:16
Alignment explanation
Indices: 113652--113686 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
113642 TATTAATATT
113652 TATAATTAAATTTAAA
1 TATAATTAAATTTAAA
*
113668 TATAATTCAATTTAAA
1 TATAATTAAATTTAAA
113684 TAT
1 TAT
113687 CTGAATTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATTAAATTTAAA
Found at i:114332 original size:20 final size:20
Alignment explanation
Indices: 114309--114362 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
114299 TTAAAATCAT
*
114309 TAATTTTAATATAAATTTCA
1 TAATTTTAATATAAATTTAA
*
114329 TAATATTTAATATAATTTTAA
1 TAAT-TTTAATATAAATTTAA
114350 TATATTTATAATA
1 TA-ATTT-TAATA
114363 ATTTTTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 4 0.14
21 18 0.62
22 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATTTTAATATAAATTTAA
Found at i:114350 original size:11 final size:11
Alignment explanation
Indices: 114309--114380 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
114299 TTAAAATCAT
114309 TAATTTTAATA
1 TAATTTTAATA
* *
114320 TAAATTT--CA
1 TAATTTTAATA
114329 TAATATTTAATA
1 TAAT-TTTAATA
114341 TAATTTTAATA
1 TAATTTTAATA
114352 T-ATTTATAATA
1 TAATTT-TAATA
* *
114363 -ATTTTTGATA
1 TAATTTTAATA
*
114373 CAATTTTA
1 TAATTTTA
114381 GATCTTGATA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 4 0.09
10 11 0.23
11 27 0.57
12 5 0.11
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
TAATTTTAATA
Found at i:114364 original size:32 final size:32
Alignment explanation
Indices: 114309--114380 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
114299 TTAAAATCAT
*
114309 TAATTTTAATATAAATTTCATAATATTTAATA
1 TAATTTTAATATAAATTTAATAATATTTAATA
* * *
114341 TAATTTTAATAT-ATTTATAATAATTTTTGATA
1 TAATTTTAATATAAATT-TAATAATATTTAATA
*
114373 CAATTTTA
1 TAATTTTA
114381 GATCTTGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 3 0.09
32 31 0.91
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (32 bp):
TAATTTTAATATAAATTTAATAATATTTAATA
Found at i:118011 original size:20 final size:19
Alignment explanation
Indices: 117986--118027 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
117976 TTTTGACACG
117986 AATATAATAAAAATAATATA
1 AATATAATAAAAAT-ATATA
*
118006 AATATAATATAAATATATA
1 AATATAATAAAAATATATA
118025 AAT
1 AAT
118028 TAAATTATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAAAAATATATA
Found at i:118019 original size:11 final size:11
Alignment explanation
Indices: 117986--118022 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
117976 TTTTGACACG
117986 AATATAATA-A
1 AATATAATATA
117996 AA-ATAATATA
1 AATATAATATA
118006 AATATAATATA
1 AATATAATATA
118017 AATATA
1 AATATA
118023 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 6 0.24
10 5 0.20
11 14 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AATATAATATA
Found at i:118381 original size:2 final size:2
Alignment explanation
Indices: 118374--118403 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
118364 AACAAACAGG
118374 AT AT 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 AT AT
118404 TGTTTTTGTC
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):
AT
Found at i:122612 original size:20 final size:20
Alignment explanation
Indices: 122589--122627 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
122579 TTTTTCCTTC
122589 AAATCTCT-CTTTTTCTTTTT
1 AAATCTCTCCTTTTT-TTTTT
122609 AAATCTCTCCTTTTTTTTT
1 AAATCTCTCCTTTTTTTTT
122628 CTCTCTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (20 bp):
AAATCTCTCCTTTTTTTTTT
Done.