Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003449.1 Kokia drynarioides strain JFW-HI SEQ_116239, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 177189
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 92 characters in sequence are not A, C, G, or T
Found at i:4506 original size:22 final size:22
Alignment explanation
Indices: 4478--4519 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4468 AAATTATTTA
4478 TTTCTTTTAATTCTTTTCTCTT
1 TTTCTTTTAATTCTTTTCTCTT
**
4500 TTTCTTTTCTTTCTTTTCTC
1 TTTCTTTTAATTCTTTTCTC
4520 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTCTTTTAATTCTTTTCTCTT
Found at i:11813 original size:52 final size:51
Alignment explanation
Indices: 11724--11832 Score: 157
Period size: 52 Copynumber: 2.1 Consensus size: 51
11714 ATCTCTTTTC
11724 TTTAAAAATTATTATTATTTTTAATATAATATATATCATATACATATATAACT
1 TTTAAAAATTATTATTA-TTTTAATATAATATATATCATATACATATATAA-T
* * *
11777 TTTAAAAATTATTATCTA-TTTCATATAATATATATCATATGCATGTATAAT
1 TTTAAAAATTATTAT-TATTTTAATATAATATATATCATATACATATATAAT
11828 TTTAA
1 TTTAA
11833 TCTATAATCC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
51 6 0.12
52 29 0.56
53 15 0.29
54 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (51 bp):
TTTAAAAATTATTATTATTTTAATATAATATATATCATATACATATATAAT
Found at i:20113 original size:18 final size:18
Alignment explanation
Indices: 20090--20125 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20080 AAAGTTTATT
20090 TAGTTGAAATTTGAAATA
1 TAGTTGAAATTTGAAATA
*
20108 TAGTTGGAATTTGAAATA
1 TAGTTGAAATTTGAAATA
20126 ATTGAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (18 bp):
TAGTTGAAATTTGAAATA
Found at i:21496 original size:52 final size:52
Alignment explanation
Indices: 21415--21550 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 52
21405 AATGAAAAAA
* * *
21415 AAGGTTCGATGACTATGTGTCATCATGAGTATATGAATCCT-TTACAGATTAT
1 AAGGTTCGATGATTATGTGTCATCGTGAGTATATGAATCCTATTACAAATT-T
* * *
21467 GAGGTTTGATGATTATGTGTCATCGTGAGTATATGGATCCTATTACAAATTT
1 AAGGTTCGATGATTATGTGTCATCGTGAGTATATGAATCCTATTACAAATTT
* *
21519 AAGGTCCGATGACTT-TGTGTCATTGTGAGTAT
1 AAGGTTCGATGA-TTATGTGTCATCGTGAGTAT
21551 TAAATGGGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
52 62 0.86
53 10 0.14
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (52 bp):
AAGGTTCGATGATTATGTGTCATCGTGAGTATATGAATCCTATTACAAATTT
Found at i:22556 original size:117 final size:116
Alignment explanation
Indices: 22406--22625 Score: 325
Period size: 117 Copynumber: 1.9 Consensus size: 116
22396 GAAGTTGCAA
*
22406 GGTAAGATTTCTTAACTCTCTGGAGTTTTTAGTATCGA-TAGATGCATGACATGTTTCGGTAGAA
1 GGTAAGATTTCTTAACTCTCTGGAGTTTTTAGTAT-GAGTAGAAGCATGACATGTTTCGGTAGAA
* *
22470 GTCTGCACTGTTCTTAAACTATTTACTGACTTGACAACTATTGATACTTGTTG
65 GTCTGCACTATTCTTAAACTATTTACTG-CGTGACAACTATTGATACTTGTTG
* * *
22523 GGTAAGATTTCTTAACTCTCTGGAGTTTTTAGTATTAGTAGAAGCATGGCATGTTTTGGTAGAAG
1 GGTAAGATTTCTTAACTCTCTGGAGTTTTTAGTATGAGTAGAAGCATGACATGTTTCGGTAGAAG
* * * *
22588 TTTGCACTATTCTTGAATTTTTTACTGCGTGACAACTA
66 TCTGCACTATTCTTAAACTATTTACTGCGTGACAACTA
22626 CCGGTACTTG
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
116 11 0.12
117 81 0.88
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (116 bp):
GGTAAGATTTCTTAACTCTCTGGAGTTTTTAGTATGAGTAGAAGCATGACATGTTTCGGTAGAAG
TCTGCACTATTCTTAAACTATTTACTGCGTGACAACTATTGATACTTGTTG
Found at i:27495 original size:52 final size:52
Alignment explanation
Indices: 27422--27659 Score: 341
Period size: 52 Copynumber: 4.6 Consensus size: 52
27412 TTTTCATTTA
* *
27422 ATACTCATGATGACACATAGTCATCGGACCTCTTAACCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
* * *
27474 ATACTCACGATAACACATAGTCATCGGACCTCTTAACCCGCAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
* *
27526 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
* * * * *
27578 ATACTCACGATGACACATAGCCATCAGACCTCATAATCCATAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
* * *
27630 ATACTCACGATGAAACATAATCATCAGACC
1 ATACTCACGATGACACATAGTCATCGGACC
27660 CTTTTTGCTT
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 172 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
Found at i:29767 original size:33 final size:33
Alignment explanation
Indices: 29722--29791 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
29712 TAGAAATAAT
*
29722 AGATGTTGGCACCCCATACAACCGCACAATCTC
1 AGATGTTAGCACCCCATACAACCGCACAATCTC
*
29755 AGATGTTAGCACCCCATACAACTGCACAATCTC
1 AGATGTTAGCACCCCATACAACCGCACAATCTC
29788 AGAT
1 AGAT
29792 ACATACAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (33 bp):
AGATGTTAGCACCCCATACAACCGCACAATCTC
Found at i:33985 original size:21 final size:21
Alignment explanation
Indices: 33961--34003 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33951 CTGATATTTA
33961 TGACAATT-CTACCAATACAAG
1 TGAC-ATTACTACCAATACAAG
*
33982 TGACTTTACTACCAATACAAG
1 TGACATTACTACCAATACAAG
34003 T
1 T
34004 CTTACTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (21 bp):
TGACATTACTACCAATACAAG
Found at i:34832 original size:52 final size:52
Alignment explanation
Indices: 34750--34982 Score: 304
Period size: 52 Copynumber: 4.5 Consensus size: 52
34740 TTTTCATTTA
* * * * * * *
34750 ATACTCACGGTGACACATAATCATCAGACCTCTTAACCCGCAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTAAT
* * *
34802 ATACTCATGATGACACATAGACATCGGACCTCATAATCCGTAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTAAT
* * *
34854 ATACTCACGGTGATACATAGTCATCGGACCTCATAATCCGTAATGGATTAAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTAAT
* * * * *
34906 ATACTCACGATGACACACATTCATCGAACCTCATAATCCGTAAAGGATTGAC
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTAAT
34958 ATACTCACGATGACACATAGTCATC
1 ATACTCACGATGACACATAGTCATC
34983 TAACCCTTTT
Statistics
Matches: 156, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 156 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTAAT
Found at i:37992 original size:25 final size:25
Alignment explanation
Indices: 37938--37993 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
37928 AATTAAAGGG
* *
37938 AAAATAAAATCAAGTAATTAAATCA
1 AAAATAAAATCAAGTAAATAAATAA
*
37963 AAAATAAAATTAA-TAAATAAATAA
1 AAAATAAAATCAAGTAAATAAATAA
37987 ATAAATA
1 A-AAATA
37994 CACAACATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAATAAAATCAAGTAAATAAATAA
Found at i:40647 original size:52 final size:52
Alignment explanation
Indices: 40569--40731 Score: 256
Period size: 52 Copynumber: 3.1 Consensus size: 52
40559 AATGAAATAG
*
40569 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAA
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAA
* * *
40621 GTCCGATGACAATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAG
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAA
**
40673 GTCCGATGTTTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT-AA
1 GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAA
40724 GGTCCGAT
1 -GTCCGAT
40732 CGAGTTAGTA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 1 0.01
52 100 0.99
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (52 bp):
GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAA
Found at i:44374 original size:52 final size:52
Alignment explanation
Indices: 44290--44428 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 52
44280 TAAATGAAAT
* *
44290 AGGTCCGATGAATATGTGTCATCGTCAATATATGAATCATTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTAAATATATGAATCATTTACGAATTATG
* * * * *
44342 AGGTCCAATGACTATGTGTCATCGTGATTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTAAATATATGAATCATTTACGAATTATG
* *
44394 AGGTTCGATGACTATGTGTCATCGTAAGTATATGA
1 AGGTCCGATGACTATGTGTCATCGTAAATATATGA
44429 TTCCCAATAC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTAAATATATGAATCATTTACGAATTATG
Found at i:44450 original size:52 final size:52
Alignment explanation
Indices: 44290--44468 Score: 175
Period size: 52 Copynumber: 3.4 Consensus size: 52
44280 TAAATGAAAT
* * * * *
44290 AGGTCCGATGAATATGTGTCATCGTCAA-TATATGAAT-CATTTACGAATTATG
1 AGGTTCGATGACTATGTGTCATCGT-AAGTATATGAATCCA-ATACGGATTATA
* * * * ** *
44342 AGGTCCAATGACTATGTGTCATCGTGATTATATGAATCCTTTACGGATTATG
1 AGGTTCGATGACTATGTGTCATCGTAAGTATATGAATCCAATACGGATTATA
*
44394 AGGTTCGATGACTATGTGTCATCGTAAGTATATGATTCCCAATACGGATTA-A
1 AGGTTCGATGACTATGTGTCATCGTAAGTATATGAAT-CCAATACGGATTATA
* *
44446 AGGTTCGATGACTCTATGTCATC
1 AGGTTCGATGACTATGTGTCATC
44469 ATGAGTATCA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
51 1 0.01
52 96 0.88
53 12 0.11
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (52 bp):
AGGTTCGATGACTATGTGTCATCGTAAGTATATGAATCCAATACGGATTATA
Found at i:45196 original size:21 final size:21
Alignment explanation
Indices: 45165--45221 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
45155 TAGAAGTAAG
* *
45165 ACATGTTTCGGTAGAAGAGTC
1 ACATGTATCGGTAGAACAGTC
* *
45186 ACTTGTATCGGTAGAACTGTC
1 ACATGTATCGGTAGAACAGTC
45207 ACATGTATCGGTAGA
1 ACATGTATCGGTAGA
45222 TGTCTGTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (21 bp):
ACATGTATCGGTAGAACAGTC
Found at i:52409 original size:20 final size:20
Alignment explanation
Indices: 52363--52452 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
52353 GAAAAAAAAA
*
52363 TGCCTCTGTTTGCACTTTGG
1 TGCCCCTGTTTGCACTTTGG
*
52383 TGTCCCTGTTTGCACATTT-G
1 TGCCCCTGTTTGCAC-TTTGG
* * * ***
52403 TGCCCCTATTTACACGTCAA
1 TGCCCCTGTTTGCACTTTGG
* * *
52423 TGCCCCTTTTTGCACTTCGA
1 TGCCCCTGTTTGCACTTTGG
52443 TGCCCCTGTT
1 TGCCCCTGTT
52453 ATGTATCTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 1 0.02
20 51 0.93
21 3 0.05
ACGTcount: A:0.11, C:0.31, G:0.18, T:0.40
Consensus pattern (20 bp):
TGCCCCTGTTTGCACTTTGG
Found at i:54045 original size:23 final size:22
Alignment explanation
Indices: 53997--54053 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
53987 TTATAAATAC
*
53997 TATTAAAAAT-TTTAAAAGCAA
1 TATTAAAAATATTTAAAAACAA
* *
54018 AATTAAAAACTATTTAAAAACAT
1 TATTAAAAA-TATTTAAAAACAA
54041 TATTAAAAATATT
1 TATTAAAAATATT
54054 CTATGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 5 0.17
23 17 0.57
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (22 bp):
TATTAAAAATATTTAAAAACAA
Found at i:54409 original size:42 final size:42
Alignment explanation
Indices: 54350--54432 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
54340 GAGCGGTCAA
54350 ATGCAAACAGTTGTATCCCCTCGTACACGTGGCAAAGTAAAT
1 ATGCAAACAGTTGTATCCCCTCGTACACGTGGCAAAGTAAAT
54392 ATGCAAACAGTTGTATCCCCTCGTACACGTGGCAAAGTAAA
1 ATGCAAACAGTTGTATCCCCTCGTACACGTGGCAAAGTAAA
54433 CGTTATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCAAACAGTTGTATCCCCTCGTACACGTGGCAAAGTAAAT
Found at i:55373 original size:50 final size:51
Alignment explanation
Indices: 55319--55414 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
55309 TAAATTATTT
* *
55319 CCATCA-TCTCATTTT-AACATTAAAATGTTTGAAACAATTGCCATTGGATA
1 CCATCATTCT-ATTTTAAAAATTAAAATGTTCGAAACAATTGCCATTGGATA
* * *
55369 CCATCGTTCTGTTTTAAAAATTAAAATGTTCGAAACAATTGGCATT
1 CCATCATTCTATTTTAAAAATTAAAATGTTCGAAACAATTGCCATT
55415 AAGATGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 9 0.23
51 30 0.77
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (51 bp):
CCATCATTCTATTTTAAAAATTAAAATGTTCGAAACAATTGCCATTGGATA
Found at i:55415 original size:24 final size:24
Alignment explanation
Indices: 55388--55438 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55378 TGTTTTAAAA
*
55388 ATTAAAATGTTCGAAACAATTGGC
1 ATTAAAATGTTCGAAACAATTGCC
* **
55412 ATTAAGATGTTTTAAACAATTGCC
1 ATTAAAATGTTCGAAACAATTGCC
55436 ATT
1 ATT
55439 GGATACTACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (24 bp):
ATTAAAATGTTCGAAACAATTGCC
Found at i:56691 original size:31 final size:31
Alignment explanation
Indices: 56634--56698 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
56624 AAAATTTTAA
*
56634 AAATCGAAAAGTACAATGACTAAAATTAGTC
1 AAATCGAAAAGTACAATGACTAAAATTAATC
* * *
56665 AAATCGTAAAGTATAATGA-TCCAAATTAATC
1 AAATCGAAAAGTACAATGACT-AAAATTAATC
56696 AAA
1 AAA
56699 ATTAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (31 bp):
AAATCGAAAAGTACAATGACTAAAATTAATC
Found at i:56855 original size:23 final size:23
Alignment explanation
Indices: 56825--56876 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
56815 TATTGTTAAA
*
56825 AAAATTTAATAATTA-ATATTTTT
1 AAAATTTAA-AATTATATAATTTT
56848 AAAATTTAAAATTATATAATTTT
1 AAAATTTAAAATTATATAATTTT
*
56871 ATAATT
1 AAAATT
56877 ACAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AAAATTTAAAATTATATAATTTT
Found at i:60426 original size:7 final size:6
Alignment explanation
Indices: 60406--60440 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
60396 TTTTTTTCAG
60406 TTTTA- TTTTAT TTTTAT TTTTATT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTA
60441 AAAGTTATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:60432 original size:13 final size:12
Alignment explanation
Indices: 60406--60440 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
60396 TTTTTTTCAG
60406 TTTTA-TTTTAT
1 TTTTATTTTTAT
60417 TTTTATTTTTATT
1 TTTTATTTTTA-T
60430 TTTTATTTTTA
1 TTTTATTTTTA
60441 AAAGTTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 5 0.23
12 5 0.23
13 12 0.55
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:70702 original size:20 final size:20
Alignment explanation
Indices: 70673--70716 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
70663 TTCTAGAAAT
70673 AGTGGAGTCAAGTCATGAAC
1 AGTGGAGTCAAGTCATGAAC
* * *
70693 AGTGGGGTCATGTCGTGAAC
1 AGTGGAGTCAAGTCATGAAC
70713 AGTG
1 AGTG
70717 ATAGTGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (20 bp):
AGTGGAGTCAAGTCATGAAC
Found at i:71071 original size:34 final size:33
Alignment explanation
Indices: 71033--71104 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 33
71023 ATATTAATTT
*
71033 ATATTTTATGTACTATTATATCAAAATTATTTAA
1 ATATTTTATATACTATTATAT-AAAATTATTTAA
** *
71067 ATATTTTATATTTTATTATATTAAATTATTTAA
1 ATATTTTATATACTATTATATAAAATTATTTAA
71100 ATATT
1 ATATT
71105 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (33 bp):
ATATTTTATATACTATTATATAAAATTATTTAA
Found at i:71098 original size:24 final size:23
Alignment explanation
Indices: 71058--71111 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
71048 TTATATCAAA
* *
71058 ATTATTTAAATATTTTATATTTT
1 ATTATTTAAATATTTTAAATATT
71081 ATTATATTAAAT-TATTTAAATATT
1 ATTAT-TTAAATAT-TTTAAATATT
71105 ATT-TTTA
1 ATTATTTA
71112 TTTTCTAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 17 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTATTTAAATATTTTAAATATT
Found at i:71149 original size:34 final size:35
Alignment explanation
Indices: 71104--71171 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
71094 ATTTAAATAT
* * *
71104 TATTTTTATTTTCTAACATCATGTTTAA-AATAAA
1 TATTTTAATTTTATAACATAATGTTTAACAATAAA
*
71138 TATTTTAATTTTATAACATAATTTTTAACAATAA
1 TATTTTAATTTTATAACATAATGTTTAACAATAA
71172 TATCAAACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.50
Consensus pattern (35 bp):
TATTTTAATTTTATAACATAATGTTTAACAATAAA
Found at i:71174 original size:34 final size:33
Alignment explanation
Indices: 71098--71174 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
71088 TAAATTATTT
* * * *
71098 AAATATTATTTTTATTTTCTAACATCATGTTTA
1 AAATAATATTTTAATTTTATAACATAATGTTTA
*
71131 AAATAAATATTTTAATTTTATAACATAATTTTTA
1 AAAT-AATATTTTAATTTTATAACATAATGTTTA
71165 ACAATAATAT
1 A-AATAATAT
71175 CAAACACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 4 0.11
34 30 0.81
35 3 0.08
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (33 bp):
AAATAATATTTTAATTTTATAACATAATGTTTA
Found at i:71626 original size:33 final size:34
Alignment explanation
Indices: 71562--71632 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
71552 TAAAATTTTG
71562 TATTTTATGTACTATTATATCAAAATTATTTAAA
1 TATTTTATGTACTATTATATCAAAATTATTTAAA
* *
71596 TATTTTATGTATTATTATAT-TAAATTATTTAAA
1 TATTTTATGTACTATTATATCAAAATTATTTAAA
71629 TATT
1 TATT
71633 ATCTAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (34 bp):
TATTTTATGTACTATTATATCAAAATTATTTAAA
Found at i:71643 original size:33 final size:34
Alignment explanation
Indices: 71574--71646 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
71564 TTTTATGTAC
* **
71574 TATTATATCAAAATTATTTAAATATTTTATGTAT
1 TATTATATCAAAATTATTTAAATATTATATAAAT
* *
71608 TATTATAT-TAAATTATTTAAATATTATCTAAAT
1 TATTATATCAAAATTATTTAAATATTATATAAAT
71641 TATTAT
1 TATTAT
71647 TTTTTATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (34 bp):
TATTATATCAAAATTATTTAAATATTATATAAAT
Found at i:72048 original size:539 final size:528
Alignment explanation
Indices: 71034--72083 Score: 1622
Period size: 539 Copynumber: 2.0 Consensus size: 528
71024 TATTAATTTA
*
71034 TATTTTATGTACTATTATATCAAAATTATTTAAATATTTTATATTTTATTATATTAAATTATTTA
1 TATTTTATGTACTATTATATCAAAATTATTTAAATATTTTATATTTTATTATATTAAATTATCTA
*
71099 AATATTATTTTTATTTTCTAACATCATGTTTAAAATAAATATTTTAATTTTATAACATAATTTTT
66 AATATTATTTTTATTTTCTAACACCATGTTTAAAATAAATATTTTAATTTTATAACATAATTTTT
* * * * *
71164 AACAATAATATCAAACACTTAAACTATGTTTGGTTTAATATAATAGAATAACCATTACAACTCTA
131 AACAATAATATCAAACACTTAAACTATATTTGGTTCAATATAATAAAATAACAATTACAACCCTA
* * *
71229 TTCAATGGGTCCAACACAAACCATTATTTGGTTGAATGGAATATCCATTACGGGTGTATTCCATT
196 TTCAATGGGCCCAACACAAACCATTATTTGGTTGAATGAAATATCCATTACGAGTGTATTCCATT
* *
71294 ACAACCTTATGCAGGAAAAAAATGTGGTTTCTATTCCTCCCCTCTCCACCGAATGCTCATTTATT
261 ACAACCTTATGCAGCAAAAAAACGTGGTTTCTATTCCTCCCCTCTCCACCGAATGCTCATTTATT
* * * **
71359 GTTTAGAGAATCAAGGTTGTTTCAATTTTACCCTTCCTAATTTCTCACCTAAAAAAGGCTCTTAC
326 GTTTAGAAAATCAAGGCTATTTCAATTTTACCCTTCCTAATTTCTCACCTAAAAAACACTCTTAC
*
71424 TTAGCCCAACCGACAGTCACTCCCTTGTTGCTTCCTTCAATTCCGGCCAATAGCACTCCTCTCAC
391 TTAGCCCAACCGACAGTCACTCCCTTGTTGCTTCCTTCAACTCCGGCCAATAGCACTCCTCTCAC
* * *
71489 TCATCTCTTTCAGGTAAACATCTTCCTCTCTTCGTTTGTTCCTT-TCATTTTCCTCTCTACATTT
456 TCATCTCCTTCAGATAAACATCTTCCTCTCTTCCTTTGTTCCTTCT-ATTTTCCTCTCTACATTT
71553 AAAATTTTG
520 AAAATTTTG
71562 TATTTTATGTACTATTATATCAAAATTATTTAAATATTTTATGTATTATTATATTAAATTATTTA
1 TATTTTATGTACTATTATATCAAAATTATTTAAATATTTTA--TA-T-TT-TATT--A-TA-TT-
*
71627 AATATTATCTAAATTATTATTTTTTATTTTTTAACACCATGTTTAAAATAAATATTTTAATTTTA
56 AA-ATTATCTAAA-TATTA-TTTTTATTTTCTAACACCATGTTTAAAATAAATATTTTAATTTTA
* *
71692 TAACATAA-TTTTAACAATAATATCAAACACTTAAACTATATTTGGTTCAATGTAATAAAATAAT
118 TAACATAATTTTTAACAATAATATCAAACACTTAAACTATATTTGGTTCAATATAATAAAATAAC
* * *
71756 AATTACAACCCTATTCAAT-GGCCCACCACAAACCGTTATTTGGTTGAATGAAATATTCATTACG
183 AATTACAACCCTATTCAATGGGCCCAACACAAACCATTATTTGGTTGAATGAAATATCCATTACG
* * *
71820 AGTGTATTCTATTACAACCTTATGCAGCAAAAAAACGTGGTTTCTATTCCTCCCCTCTTCACTGA
248 AGTGTATTCCATTACAACCTTATGCAGCAAAAAAACGTGGTTTCTATTCCTCCCCTCTCCACCGA
* *
71885 ATGCTCCTTTGTTGTTTAGAAAATCAAGGCTATTTCAATTTTACCC-TCCTTAATTTCTCACCTA
313 ATGCTCATTTATTGTTTAGAAAATCAAGGCTATTTCAATTTTACCCTTCC-TAATTTCTCACCTA
71949 AAAAACACTCTTACTTAGCCCAACCGACAGTCACTCCCTTGTTGCTTCCTTCAACTCCGGCCAAT
377 AAAAACACTCTTACTTAGCCCAACCGACAGTCACTCCCTTGTTGCTTCCTTCAACTCCGGCCAAT
* * *
72014 AGCACTTCTCTCACTCATCTCCTTCATATAAACATTTTCCTCTCTTCCTTTGTTCCTTCTATTTT
442 AGCACTCCTCTCACTCATCTCCTTCAGATAAACATCTTCCTCTCTTCCTTTGTTCCTTCTATTTT
72079 CCTCT
507 CCTCT
72084 TTTCCTTCAA
Statistics
Matches: 472, Mismatches: 35, Indels: 19
0.90 0.07 0.04
Matches are distributed among these distances:
528 41 0.09
530 2 0.00
531 1 0.00
532 2 0.00
533 4 0.01
535 1 0.00
536 2 0.00
537 2 0.00
538 5 0.01
539 287 0.61
540 74 0.16
541 51 0.11
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (528 bp):
TATTTTATGTACTATTATATCAAAATTATTTAAATATTTTATATTTTATTATATTAAATTATCTA
AATATTATTTTTATTTTCTAACACCATGTTTAAAATAAATATTTTAATTTTATAACATAATTTTT
AACAATAATATCAAACACTTAAACTATATTTGGTTCAATATAATAAAATAACAATTACAACCCTA
TTCAATGGGCCCAACACAAACCATTATTTGGTTGAATGAAATATCCATTACGAGTGTATTCCATT
ACAACCTTATGCAGCAAAAAAACGTGGTTTCTATTCCTCCCCTCTCCACCGAATGCTCATTTATT
GTTTAGAAAATCAAGGCTATTTCAATTTTACCCTTCCTAATTTCTCACCTAAAAAACACTCTTAC
TTAGCCCAACCGACAGTCACTCCCTTGTTGCTTCCTTCAACTCCGGCCAATAGCACTCCTCTCAC
TCATCTCCTTCAGATAAACATCTTCCTCTCTTCCTTTGTTCCTTCTATTTTCCTCTCTACATTTA
AAATTTTG
Found at i:77260 original size:26 final size:26
Alignment explanation
Indices: 77205--77261 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
77195 AAAAAAAGGT
* *
77205 AATTTTTTATTTTTAATTTATTTTAA
1 AATTTTTTATTTTAAATTTATTATAA
* *
77231 AATTATTTTGTTTTAAATTT-TTATAC
1 AATT-TTTTATTTTAAATTTATTATAA
77257 AATTT
1 AATTT
77262 AGTTTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 12 0.46
27 13 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
AATTTTTTATTTTAAATTTATTATAA
Found at i:79032 original size:21 final size:21
Alignment explanation
Indices: 79008--79057 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
78998 ACTTCTACTA
* *
79008 ATACAAGTGACAGTTTTATCG
1 ATACAAGTGACACTTTTACCG
*
79029 ATACAAGTGACTCTTTTACCG
1 ATACAAGTGACACTTTTACCG
*
79050 AAACAAGT
1 ATACAAGT
79058 CTTACTTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (21 bp):
ATACAAGTGACACTTTTACCG
Found at i:79900 original size:53 final size:53
Alignment explanation
Indices: 79748--80042 Score: 403
Period size: 53 Copynumber: 5.6 Consensus size: 53
79738 ACATTTGATT
* * * * *
79748 ACTCACGATGACACAAAATCATCGAACCTTTAATCTGCAATAGGATTCATATA
1 ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
* * * *
79801 ACTCACGAT-ACATAGAGTCATCGAACCTTTAATCTGTAATAAGATTCATATA
1 ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
* *
79853 CCTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAGTAGGATTCATATA
1 ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
79906 ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
1 ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
* * * * * *
79959 ACTCATGATGACATAAAGTCATCGGACCTTTAATTCATATTAGGATTCATATA
1 ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
* * *
80012 ACTCACGATGACATAGAATCATCAGACCTTT
1 ACTCACGATGACACAGAGTCATCGGACCTTT
80043 TTGCATTTAC
Statistics
Matches: 218, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
52 46 0.21
53 172 0.79
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (53 bp):
ACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATA
Found at i:82250 original size:7 final size:7
Alignment explanation
Indices: 82238--82278 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
82228 TTTATTAGAC
82238 TAAACCT
1 TAAACCT
*
82245 TAAACCA
1 TAAACCT
*
82252 TAAATCT
1 TAAACCT
82259 TAAAACCT
1 T-AAACCT
82267 TAAACCT
1 TAAACCT
82274 TAAAC
1 TAAAC
82279 TCTAATCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:82270 original size:15 final size:15
Alignment explanation
Indices: 82238--82277 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
82228 TTTATTAGAC
82238 TAAACCTT-AAACCA
1 TAAACCTTAAAACCA
* *
82252 TAAATCTTAAAACCT
1 TAAACCTTAAAACCA
82267 TAAACCTTAAA
1 TAAACCTTAAA
82278 CTCTAATCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAACCTTAAAACCA
Found at i:82312 original size:7 final size:7
Alignment explanation
Indices: 82296--82329 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
82286 ACAAACCTCA
82296 AAACCA-
1 AAACCAT
82302 AAACCAT
1 AAACCAT
82309 AAACCAT
1 AAACCAT
82316 AAACCAT
1 AAACCAT
82323 AAACCAT
1 AAACCAT
82330 GGAACCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.59, C:0.29, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCAT
Found at i:83270 original size:38 final size:38
Alignment explanation
Indices: 83212--83292 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
83202 AATTGCACAA
* *
83212 TTAATAACATGTTACGATATTAACAAGGGT-AATATAAT
1 TTAATAACATGCTACAATATTAACAAGGGTCAAT-TAAT
**
83250 TTAATAACATGCTACAATATTAACACTGGTCAATTAAT
1 TTAATAACATGCTACAATATTAACAAGGGTCAATTAAT
83288 TTAAT
1 TTAAT
83293 TTAATAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 35 0.92
39 3 0.08
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (38 bp):
TTAATAACATGCTACAATATTAACAAGGGTCAATTAAT
Found at i:85059 original size:16 final size:18
Alignment explanation
Indices: 85030--85068 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 18
85020 TCTACTAAAT
85030 AAAAAATTAATAACAAAA-
1 AAAAAATT-ATAACAAAAC
85048 AAAAAATT-TAACAAAAC
1 AAAAAATTATAACAAAAC
85065 AAAA
1 AAAA
85069 CAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAATTATAACAAAAC
Found at i:85293 original size:32 final size:32
Alignment explanation
Indices: 85244--85306 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
85234 ATAATTACCA
* *
85244 TTAACAAAATAACTTTAAAATAACAACCAAAT
1 TTAACAAAAAAACTTTAAAATAACAAACAAAT
*
85276 TTAACAAAAAAATTTTAAAATAACAAACAAA
1 TTAACAAAAAAACTTTAAAATAACAAACAAA
85307 CAATTATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (32 bp):
TTAACAAAAAAACTTTAAAATAACAAACAAAT
Found at i:85692 original size:60 final size:59
Alignment explanation
Indices: 85620--85830 Score: 210
Period size: 62 Copynumber: 3.5 Consensus size: 59
85610 TTGAAAAAAA
* *
85620 ACCGACACCCCTTTTTAATCTGATAAAAAAATCAAATTTTTGGGTGTTGGCCATGCAATG
1 ACCGACACCCCTTTTT-ATCAGATAAAAAAATCAAATTTTTTGGTGTTGGCCATGCAATG
* * *
85680 ACCGACATCCCTTTTTTGTCAGAT-AAAAAAT-ACAATTTTTTGGTGTTGGCCATGTAATG
1 ACCGACA-CCCCTTTTTATCAGATAAAAAAATCA-AATTTTTTGGTGTTGGCCATGCAATG
** * * * * *
85739 GTCGATACCCCCTTTTCTCGGATAAAAAAATTTCAAATTTTTTTGGTGTTGACCATGCAATG
1 ACCGACACCCCTTTTTATCAGATAAAAAAA--TCAAA-TTTTTTGGTGTTGGCCATGCAATG
* * * *
85801 GCCGACACCTCTTTTTTTTAGATAAAAAAA
1 ACCGACACCCCTTTTTATCAGATAAAAAAA
85831 ATTCAAAATT
Statistics
Matches: 123, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
58 13 0.11
59 41 0.33
60 12 0.10
61 11 0.09
62 46 0.37
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (59 bp):
ACCGACACCCCTTTTTATCAGATAAAAAAATCAAATTTTTTGGTGTTGGCCATGCAATG
Found at i:86315 original size:62 final size:62
Alignment explanation
Indices: 86179--86332 Score: 177
Period size: 62 Copynumber: 2.5 Consensus size: 62
86169 ACATTACACC
* * * * * *
86179 AAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGGGGTGTCGACCATTGCATGGCCAATACA
1 AAAAAAATTTGAAATTTTTTTATTTGAGAAAAAGGGATGTCGACCATTACATGACCAAAACA
* * *
86241 AAACAATTTTGAAAATTTTTTTATTTGA-AAAAAGGGATGTC-AGCCATTACATGACCAAAATA
1 AAAAAAATTTG-AAATTTTTTTATTTGAGAAAAAGGGATGTCGA-CCATTACATGACCAAAACA
* *
86303 AAAAAAAATTGAAATTTTTTTATTCGAGAA
1 AAAAAAATTTGAAATTTTTTTATTTGAGAA
86333 CAATGGCCGA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
61 16 0.21
62 45 0.59
63 15 0.20
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (62 bp):
AAAAAAATTTGAAATTTTTTTATTTGAGAAAAAGGGATGTCGACCATTACATGACCAAAACA
Found at i:88890 original size:250 final size:249
Alignment explanation
Indices: 88449--88941 Score: 794
Period size: 250 Copynumber: 2.0 Consensus size: 249
88439 AAAATGTGAA
*
88449 ATAGATATTAAAACAACAAGTATTTTAGAGAAATTTAATGAAAAACTGAAAATTAAAAAATTGAC
1 ATAGATATTAAAACAACAAGTATTTTAGAGAAATTTAATGAAAAACTAAAAATTAAAAAATTGAC
88514 AGAATTGAGAGAATTAGATTTGAATGCAAAATGAAAAAAAAATATTAGGATTTATACAGCAAATA
66 AGAATTGAGAGAATTAGATTTGAATGCAAAATG-AAAAAAAATATTAGGATTTATACAGCAAATA
* * * *
88579 AACTAATCGTTTTATAACCATTGGGTTTTGTGACCGTTGCAATTTTACCGTTTAGAAAAATTAGA
130 AACTAAACGTTTTATAACCATTGGGTTTTGTGACCGTTACAATTTTACCGTTGAGAAAAATTAAA
* * * * *
88644 AAAATGTG-CTTCGCAAGACGTATTTTCCTATCACATAAGCTTAAAACACGTGTTG
195 AAAATGCGTC-TCACAAAACGCATTTTCCTATCACATAAACTTAAAACACGTGTTG
*
88699 ATAGATAATTAAAACAACAAGTATTTTAGAGAAATTTAATGAAAAACTAAAAATTAAAAACTTGA
1 ATAGAT-ATTAAAACAACAAGTATTTTAGAGAAATTTAATGAAAAACTAAAAATTAAAAAATTGA
88764 CAGAATTGAGAGAATTAGATTTGAATGCAAAATG-AAAAAAATGATTAGGATTTATACAGCAAAT
65 CAGAATTGAGAGAATTAGATTTGAATGCAAAATGAAAAAAAAT-ATTAGGATTTATACAGCAAAT
* * *
88828 AAACTAAACGTTTTATAATCATTGGGTTTTGTGACTGTTATAATTTTACCGTTCGA-AAAAATTA
129 AAACTAAACGTTTTATAACCATTGGGTTTTGTGACCGTTACAATTTTACCGTT-GAGAAAAATTA
88892 AAAAAATGCGTCTCACAAAACGCATTTTCCTATCACATAAACTTAAAACA
193 AAAAAATGCGTCTCACAAAACGCATTTTCCTATCACATAAACTTAAAACA
88942 TATGTTGCTG
Statistics
Matches: 225, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
249 8 0.04
250 125 0.56
251 92 0.41
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (249 bp):
ATAGATATTAAAACAACAAGTATTTTAGAGAAATTTAATGAAAAACTAAAAATTAAAAAATTGAC
AGAATTGAGAGAATTAGATTTGAATGCAAAATGAAAAAAAATATTAGGATTTATACAGCAAATAA
ACTAAACGTTTTATAACCATTGGGTTTTGTGACCGTTACAATTTTACCGTTGAGAAAAATTAAAA
AAATGCGTCTCACAAAACGCATTTTCCTATCACATAAACTTAAAACACGTGTTG
Found at i:90384 original size:11 final size:11
Alignment explanation
Indices: 90368--90393 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90358 TAGGGACTAA
90368 TTTGCCCAACT
1 TTTGCCCAACT
90379 TTTGCCCAACT
1 TTTGCCCAACT
90390 TTTG
1 TTTG
90394 AGTAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (11 bp):
TTTGCCCAACT
Found at i:97508 original size:2 final size:2
Alignment explanation
Indices: 97501--97531 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
97491 TTAAAGGACA
97501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97532 ACATCACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100084 original size:21 final size:22
Alignment explanation
Indices: 100053--100094 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
100043 ATTCACACGT
100053 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
100075 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
100095 CTTTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:108879 original size:24 final size:24
Alignment explanation
Indices: 108851--108907 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
108841 TCGACTAATA
108851 AGAGTTTAACTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAT
*
108875 AGAGTTTGACTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAT
108899 AGAGTTTAA
1 AGAGTTTAA
108908 TTTGAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAT
Found at i:111019 original size:52 final size:52
Alignment explanation
Indices: 110838--111171 Score: 391
Period size: 52 Copynumber: 6.6 Consensus size: 52
110828 AATGAAAAAG
* *
110838 GGTCCAATGACTAAGTGTCATCGTGAG----T--ATCCTTTACGGATTATAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
* ** *
110884 GGACCGATGACTAAGCAT-ATCGTAAGTACATGAATCCTTCACGGATTATAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
*
110935 GGTCCG-TGACTTAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
*
110986 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACAGATTATAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
** * *
111038 GGTTTGATGACTAAGTGTCATCATGAGTACATGAATCCTTCATGGATTATAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
* * * * * **
111090 GGTCTGATGACTAAGTGTAATCGTGAGTATAAGAATTCCTTTACGGAACA-AGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTACATGAA-TCCTTCACGGATTATA-A
*
111143 GGTCCGATGACTATA-TGTTATCGTGAGTA
1 GGTCCGATGACTA-AGTGTCATCGTGAGTA
111172 TTAAATGAAA
Statistics
Matches: 248, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
45 7 0.03
46 14 0.06
49 1 0.00
50 8 0.03
51 60 0.24
52 121 0.49
53 36 0.15
54 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (52 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
Found at i:117994 original size:52 final size:51
Alignment explanation
Indices: 117906--118195 Score: 359
Period size: 52 Copynumber: 5.5 Consensus size: 51
117896 ATGAAAAAGG
117906 GGTCGAATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
1 GGTCG-ATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
* *
117958 GGATCGATGGCTAAGTGTCATTGTGAGTACATGAATCCTTCACGGATTATAA
1 GG-TCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
* *
118010 GGTTCGATGACTAAGTGCCATCGTGAGTACATGAATCCTTCATGGATTATAA
1 GG-TCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
* *
118062 GGTCCGATGGCAAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
1 GGT-CGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
* * * * * * **
118114 GGTCTGATAACTAAGTGTCATCATGAGTATAAGGATTCCTTTACGGAACA-AGA
1 GGTC-GATGACTAAGTGTCATCGTGAGTA-CATGAATCCTTCACGGATTATA-A
118167 GGTCCGATGACTATA-TGTCATCGTGAGTA
1 GGT-CGATGACTA-AGTGTCATCGTGAGTA
118196 TTAAATGAAA
Statistics
Matches: 208, Mismatches: 23, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
51 2 0.01
52 163 0.78
53 41 0.20
54 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (51 bp):
GGTCGATGACTAAGTGTCATCGTGAGTACATGAATCCTTCACGGATTATAA
Found at i:118246 original size:60 final size:61
Alignment explanation
Indices: 118148--118262 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 61
118138 GAGTATAAGG
* *
118148 ATTCCTTTACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATTAAATGAAATGA
1 ATTCCATTACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATCAAATGAAATGA
** * * *
118209 ATTCCATTACGGATTAAG-GGTTCGATGACTTTGTGTCATCGTGAGTATCAAATG
1 ATTCCATTACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATCAAATG
118263 CAAGTTAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 32 0.68
61 15 0.32
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (61 bp):
ATTCCATTACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATCAAATGAAATGA
Found at i:119685 original size:24 final size:24
Alignment explanation
Indices: 119627--119685 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
119617 AATCTAGACT
119627 AATAAGAGTTTAACTAAAACAAATA
1 AATAA-AGTTTAACTAAAACAAATA
* * *
119652 AATAATGTTTGACTGAAACAAATA
1 AATAAAGTTTAACTAAAACAAATA
119676 AGA-AAAGTTT
1 A-ATAAAGTTT
119686 TATATGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (24 bp):
AATAAAGTTTAACTAAAACAAATA
Found at i:123785 original size:20 final size:19
Alignment explanation
Indices: 123740--123795 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
123730 CTTTTGGTTG
*
123740 TTTTTTTATTGTTTCT-ATT
1 TTTTTTTATTGTTT-TGATC
123759 TTGTTTTTATTGTTTTGATGC
1 TT-TTTTTATTGTTTTGAT-C
*
123780 TTTTTTTACTGTTTTG
1 TTTTTTTATTGTTTTG
123796 GTTACTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 3 0.09
20 27 0.84
21 2 0.06
ACGTcount: A:0.09, C:0.05, G:0.12, T:0.73
Consensus pattern (19 bp):
TTTTTTTATTGTTTTGATC
Found at i:123815 original size:23 final size:21
Alignment explanation
Indices: 123789--123838 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
123779 CTTTTTTTAC
*
123789 TGTTTTGGTTACTGTTTTCCTGT
1 TGTTTTGGTTACTATTTT--TGT
* *
123812 TGTTTTTGTTGCTATTTTTGT
1 TGTTTTGGTTACTATTTTTGT
123833 TGTTTT
1 TGTTTT
123839 TAATGTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
23 15 0.62
ACGTcount: A:0.04, C:0.08, G:0.20, T:0.68
Consensus pattern (21 bp):
TGTTTTGGTTACTATTTTTGT
Found at i:123861 original size:23 final size:23
Alignment explanation
Indices: 123829--123885 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
123819 GTTGCTATTT
* *
123829 TTGTTGTTTTTAATGTTGTTTT-G
1 TTGTTATTTTT-ATGCTGTTTTGG
*
123852 TTGTTATTTTTCTGCTGTTTTGG
1 TTGTTATTTTTATGCTGTTTTGG
123875 TTGTTATTTTT
1 TTGTTATTTTT
123886 GTTATTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 8 0.27
23 22 0.73
ACGTcount: A:0.07, C:0.04, G:0.19, T:0.70
Consensus pattern (23 bp):
TTGTTATTTTTATGCTGTTTTGG
Found at i:136176 original size:21 final size:21
Alignment explanation
Indices: 136152--136206 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
136142 GGAGTTTTTA
*
136152 GTATCAGTAGAAGAGTCACTT
1 GTATCGGTAGAAGAGTCACTT
* **
136173 GTATCGGTAAAACTGTCACTT
1 GTATCGGTAGAAGAGTCACTT
136194 GTATCGGTAGAAG
1 GTATCGGTAGAAG
136207 TCTGCATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (21 bp):
GTATCGGTAGAAGAGTCACTT
Found at i:148436 original size:14 final size:16
Alignment explanation
Indices: 148417--148450 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
148407 ATTTAATAAA
148417 TTTAAAT-T-TATTAT
1 TTTAAATATATATTAT
148431 TTTAAATATATATTAT
1 TTTAAATATATATTAT
148447 TTTA
1 TTTA
148451 TTGAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 1 0.06
16 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAATATATATTAT
Found at i:148528 original size:24 final size:24
Alignment explanation
Indices: 148501--148551 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
148491 TTATTTGTAG
148501 ATTCTTTTAAATATTAACCCATGC
1 ATTCTTTTAAATATTAACCCATGC
148525 ATTCTTTTAAATATTAACCCATGC
1 ATTCTTTTAAATATTAACCCATGC
148549 ATT
1 ATT
148552 TACATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTCTTTTAAATATTAACCCATGC
Found at i:149893 original size:24 final size:24
Alignment explanation
Indices: 149861--149910 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
149851 TATTTTAAAT
*
149861 TACATAATA-TATAAAAATAAATAA
1 TACAAAATATTATAAAAATAAA-AA
*
149885 TACAAAATATTATAAACATAAAAA
1 TACAAAATATTATAAAAATAAAAA
149909 TA
1 TA
149911 GATTAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (24 bp):
TACAAAATATTATAAAAATAAAAA
Found at i:150405 original size:24 final size:25
Alignment explanation
Indices: 150355--150404 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
150345 TAAAAAATAT
150355 TTATTTATCAAAATAATATATTTTTTA
1 TTATTTATCAAAATAATATA--TTTTA
**
150382 TTATTTATCAAAATGGTATATTT
1 TTATTTATCAAAATAATATATTT
150405 AAAGGAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
27 18 0.86
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
TTATTTATCAAAATAATATATTTTA
Found at i:151452 original size:17 final size:17
Alignment explanation
Indices: 151430--151466 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
151420 CATTTTTTAT
151430 TTTATAATAGTTAGTTA
1 TTTATAATAGTTAGTTA
151447 TTTATAATAGTTAGTTA
1 TTTATAATAGTTAGTTA
151464 TTT
1 TTT
151467 GTTTAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (17 bp):
TTTATAATAGTTAGTTA
Found at i:153906 original size:27 final size:27
Alignment explanation
Indices: 153829--153898 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
153819 CGACAGCACA
153829 GCAGTACTCTACTCCTTTCAGCCCGTT
1 GCAGTACTCTACTCCTTTCAGCCCGTT
153856 GCAGTACTCTACTCCTTTCAGCCCGTT
1 GCAGTACTCTACTCCTTTCAGCCCGTT
153883 GCAGTACTCTACTCCT
1 GCAGTACTCTACTCCT
153899 CCTCGCCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.16, C:0.37, G:0.14, T:0.33
Consensus pattern (27 bp):
GCAGTACTCTACTCCTTTCAGCCCGTT
Found at i:154186 original size:15 final size:14
Alignment explanation
Indices: 154162--154194 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
154152 AATTAATTAT
154162 GTTTAAGTTTAAGG
1 GTTTAAGTTTAAGG
154176 GTTTCAAGTTTAA-G
1 GTTT-AAGTTTAAGG
154190 GTTTA
1 GTTTA
154195 GGATTTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 9 0.50
15 8 0.44
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (14 bp):
GTTTAAGTTTAAGG
Found at i:154201 original size:21 final size:21
Alignment explanation
Indices: 154162--154201 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
154152 AATTAATTAT
*
154162 GTTTAAGTTTAAGGGTTTCAA
1 GTTTAAGTTTAAGGATTTCAA
154183 GTTTAAGGTTT-AGGATTTC
1 GTTTAA-GTTTAAGGATTTC
154202 TCTAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (21 bp):
GTTTAAGTTTAAGGATTTCAA
Found at i:154349 original size:16 final size:15
Alignment explanation
Indices: 154319--154372 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
154309 ACTATTAACT
154319 AAAACTCTAAACCTTA
1 AAAAC-CTAAACCTTA
154335 AAAACCTAAATCCTTA
1 AAAACCTAAA-CCTTA
* * * *
154351 TAACCCTACACTTTA
1 AAAACCTAAACCTTA
154366 AAAACCT
1 AAAACCT
154373 TAAAAATCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAACCTAAACCTTA
Found at i:154428 original size:52 final size:52
Alignment explanation
Indices: 154366--154465 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
154356 CTACACTTTA
*
154366 AAAACCTTAAAAATCTAAAACCCTAAACGCATCA-CTTTAAATCCTAAATCTT
1 AAAACCTTAAAAATATAAAACCCTAAACGCATCATCTTT-AATCCTAAATCTT
* * *
154418 AAAACCTTAAAAATATATAACCTTAAACTCATCATCTTTAATCCTAAA
1 AAAACCTTAAAAATATAAAACCCTAAACGCATCATCTTTAATCCTAAA
154466 CTCTAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 39 0.91
53 4 0.09
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (52 bp):
AAAACCTTAAAAATATAAAACCCTAAACGCATCATCTTTAATCCTAAATCTT
Found at i:155051 original size:26 final size:26
Alignment explanation
Indices: 155015--155073 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
155005 CACTTATGCC
* *
155015 TTAATTAAATACAAATATAAACATCA
1 TTAATTAAATACAAACATAAAAATCA
*
155041 TTAATTAAATACAAACATAAAAATTA
1 TTAATTAAATACAAACATAAAAATCA
155067 TTAATTA
1 TTAATTA
155074 CATATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (26 bp):
TTAATTAAATACAAACATAAAAATCA
Found at i:155279 original size:26 final size:26
Alignment explanation
Indices: 155241--155290 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
155231 TAAAGAAGGG
*
155241 ATACAAACATAAAAATTATTAATTAA
1 ATACAAACATAAAAATAATTAATTAA
** *
155267 ATACAAATTTAAATATAATTAATT
1 ATACAAACATAAAAATAATTAATT
155291 CCAAATTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (26 bp):
ATACAAACATAAAAATAATTAATTAA
Found at i:158209 original size:26 final size:26
Alignment explanation
Indices: 158139--158201 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
158129 TCTGTTTTAT
*
158139 TTCAAAAATTTTGCTTCTTTTCCTTC
1 TTCAAAAATTTTGCTTCTTTTCCTGC
*
158165 TTCAAAAATTTTGTTTCTTTTCCTGC
1 TTCAAAAATTTTGCTTCTTTTCCTGC
158191 TTCAAAAATTT
1 TTCAAAAATTT
158202 ACCTTCTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.52
Consensus pattern (26 bp):
TTCAAAAATTTTGCTTCTTTTCCTGC
Found at i:175442 original size:14 final size:15
Alignment explanation
Indices: 175423--175451 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
175413 CATCAAATAA
175423 TTTTTAC-TTTTTTT
1 TTTTTACATTTTTTT
175437 TTTTTACATTTTTTT
1 TTTTTACATTTTTTT
175452 CATTAACTAA
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:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTACATTTTTTT
Done.