Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013604.1 Corchorus capsularis cultivar CVL-1 contig13625, 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: 79238
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Found at i:56 original size:12 final size:13
Alignment explanation
Indices: 15--59 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
5 AATTATTGTT
15 TGCTTTATTAATC
1 TGCTTTATTAATC
*
28 TGCTTTATTAATT
1 TGCTTTATTAATC
41 TGCTTTA-TAATC
1 TGCTTTATTAATC
53 TGCTTTA
1 TGCTTTA
60 GATTTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (13 bp):
TGCTTTATTAATC
Found at i:67 original size:6 final size:6
Alignment explanation
Indices: 56--82 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46 TATAATCTGC
56 TTTAGA TTTAGA TTTAGA TTTAGA TTT
1 TTTAGA TTTAGA TTTAGA TTTAGA TTT
83 GCTTTGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTAGA
Found at i:383 original size:60 final size:60
Alignment explanation
Indices: 288--516 Score: 354
Period size: 60 Copynumber: 3.8 Consensus size: 60
278 CGACACGATC
* *
288 AGTTGGCTACGGACTGGCCTACTTCAAGTGTTGACCACGAATTGGTCTCTTTTAGGTATT
1 AGTTGGCTACGGACTAGCCTACTTCAAGTGTTGACCACGAATTGGTCTCTTTCAGGTATT
* * *
348 AATTGGCTACAGACTAGCCTACTTCAAGTGTTGACCACAAATTGGTCTCTTTCAGGTATT
1 AGTTGGCTACGGACTAGCCTACTTCAAGTGTTGACCACGAATTGGTCTCTTTCAGGTATT
* *
408 TGTTGGCTACGGACTAGCCTACTTCAAGTGTTGACCACGGATTGGTCTCTTTCAGGTATT
1 AGTTGGCTACGGACTAGCCTACTTCAAGTGTTGACCACGAATTGGTCTCTTTCAGGTATT
* *
468 AGTTGGCTACGGACTAGCCTACTTCAA-TGTCGATCAC-AGATTGGTCTCT
1 AGTTGGCTACGGACTAGCCTACTTCAAGTGTTGACCACGA-ATTGGTCTCT
517 CTTTCAGTTT
Statistics
Matches: 154, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
59 18 0.12
60 136 0.88
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (60 bp):
AGTTGGCTACGGACTAGCCTACTTCAAGTGTTGACCACGAATTGGTCTCTTTCAGGTATT
Found at i:480 original size:32 final size:31
Alignment explanation
Indices: 388--480 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 31
378 TTGACCACAA
388 ATTGGTCTCTTTCAGGTATTTGTTGGCTACGG
1 ATTGGTCTCTTTCAGGTA-TTGTTGGCTACGG
* * * * * *
420 ACTAGCCTAC-TTCA---AGTGTTGACCACGG
1 ATTGGTCT-CTTTCAGGTATTGTTGGCTACGG
448 ATTGGTCTCTTTCAGGTATTAGTTGGCTACGG
1 ATTGGTCTCTTTCAGGTATT-GTTGGCTACGG
480 A
1 A
481 CTAGCCTACT
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
27 1 0.02
28 19 0.44
29 1 0.02
31 2 0.05
32 19 0.44
33 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (31 bp):
ATTGGTCTCTTTCAGGTATTGTTGGCTACGG
Found at i:4512 original size:31 final size:32
Alignment explanation
Indices: 4474--4545 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
4464 TAATCTGCTT
*
4474 TAAAAAAAAGTTTTT-GTTTTTCCGTTTTTTC
1 TAAAAAAAAGTTTTTCGTTTTTCCGATTTTTC
*
4505 TAAAAAAAAGTTTTTCTTTTTTCCGATTTTTC
1 TAAAAAAAAGTTTTTCGTTTTTCCGATTTTTC
4537 TAAAAAAAA
1 TAAAAAAAA
4546 ATAAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 15 0.39
32 23 0.61
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (32 bp):
TAAAAAAAAGTTTTTCGTTTTTCCGATTTTTC
Found at i:4557 original size:32 final size:32
Alignment explanation
Indices: 4490--4557 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
4480 AAAGTTTTTG
* * *** *
4490 TTTTTCCGTTTTTTCTAAAAAAAAGTTTTTCT
1 TTTTTCCGATTTTTCTAAAAAAAAATAAATAT
4522 TTTTTCCGATTTTTCTAAAAAAAAATAAATAT
1 TTTTTCCGATTTTTCTAAAAAAAAATAAATAT
4554 TTTT
1 TTTT
4558 GTGATTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.53
Consensus pattern (32 bp):
TTTTTCCGATTTTTCTAAAAAAAAATAAATAT
Found at i:4648 original size:42 final size:41
Alignment explanation
Indices: 4592--4670 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
4582 CGATTTTTAA
* * *
4592 AAAAAATTTAATTTTTCTTTTCCGTTTTTCCTTTTTAAAAT
1 AAAAAATATAATTTTTATTTTCCGTTTCTCCTTTTTAAAAT
* *
4633 AAAAAATATATATTTTTATTTTCTGTTTCTGCTTTTTA
1 AAAAAATATA-ATTTTTATTTTCCGTTTCTCCTTTTTA
4671 TTTAAGAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 9 0.28
42 23 0.72
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (41 bp):
AAAAAATATAATTTTTATTTTCCGTTTCTCCTTTTTAAAAT
Found at i:8719 original size:33 final size:33
Alignment explanation
Indices: 8669--8731 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
8659 AACTAAAGGA
* * *
8669 TCATGTGGCCGGTTGTGGCCGGGCATGGCCGAG
1 TCATCTGGCCGGGTGTGGCCAGGCATGGCCGAG
8702 TCATCTGGCCGGGTGTGGCCAGGCATGGCC
1 TCATCTGGCCGGGTGTGGCCAGGCATGGCC
8732 ATGTCGCGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.10, C:0.27, G:0.43, T:0.21
Consensus pattern (33 bp):
TCATCTGGCCGGGTGTGGCCAGGCATGGCCGAG
Found at i:8754 original size:33 final size:32
Alignment explanation
Indices: 8707--8782 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
8697 CCGAGTCATC
* *
8707 TGGCCGGGTGTGGCCAGGCATGGCCATGTCGCG
1 TGGCC-GGTGTGGCCAGGCATCGCCATGTCGCA
* * *
8740 TGGCTGGTGATGGCCGGGCATCTCCATGTCGCA
1 TGGCCGGTG-TGGCCAGGCATCGCCATGTCGCA
8773 TGGCCGGTGT
1 TGGCCGGTGT
8783 TGCGCGAGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 5 0.14
33 31 0.86
ACGTcount: A:0.09, C:0.26, G:0.42, T:0.22
Consensus pattern (32 bp):
TGGCCGGTGTGGCCAGGCATCGCCATGTCGCA
Found at i:8779 original size:66 final size:67
Alignment explanation
Indices: 8707--8845 Score: 160
Period size: 66 Copynumber: 2.1 Consensus size: 67
8697 CCGAGTCATC
* * *
8707 TGGCCGGGTGTGGC-C-AGGCATGGCCATGTCGCGTGGCTGGTGATGGC-CGGGCATCTCCATGT
1 TGGCCGGGTGTGGCGCGA-GCATCGCCAAGTCGCGTGGCTGGTG-TGGCGCGGGCATCTCCAAGT
8769 CGCA
64 CGCA
* * * *
8773 TGGCC-GGTGTTGCGCGAGCATCTCCAAGTCGCGTGGTTGGTGTTGCGCGGGCATCTCCAAGTCG
1 TGGCCGGGTGTGGCGCGAGCATCGCCAAGTCGCGTGGCTGGTGTGGCGCGGGCATCTCCAAGTCG
*
8837 CG
66 CA
8839 TGGCCGG
1 TGGCCGG
8846 TCACAAGTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
65 10 0.16
66 49 0.80
67 2 0.03
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.22
Consensus pattern (67 bp):
TGGCCGGGTGTGGCGCGAGCATCGCCAAGTCGCGTGGCTGGTGTGGCGCGGGCATCTCCAAGTCG
CA
Found at i:8794 original size:33 final size:33
Alignment explanation
Indices: 8734--8846 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
8724 GCATGGCCAT
* * *
8734 GTCGCGTGGCTGGTGATG-GCCGGGCATCTCCAT
1 GTCGCGTGGCCGGTGTTGCG-CGGGCATCTCCAA
* *
8767 GTCGCATGGCCGGTGTTGCGCGAGCATCTCCAA
1 GTCGCGTGGCCGGTGTTGCGCGGGCATCTCCAA
**
8800 GTCGCGTGGTTGGTGTTGCGCGGGCATCTCCAA
1 GTCGCGTGGCCGGTGTTGCGCGGGCATCTCCAA
8833 GTCGCGTGGCCGGT
1 GTCGCGTGGCCGGT
8847 CACAAGTACT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
33 67 0.99
34 1 0.01
ACGTcount: A:0.10, C:0.27, G:0.39, T:0.24
Consensus pattern (33 bp):
GTCGCGTGGCCGGTGTTGCGCGGGCATCTCCAA
Found at i:10082 original size:33 final size:33
Alignment explanation
Indices: 10040--10105 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
10030 TCCTTTATGT
* *
10040 CGCCCTTATGGCTTTAGGATTAGGGAGAGGTGC
1 CGCCCTTATGGCTATACGATTAGGGAGAGGTGC
10073 CGCCCTTATGGCTATACGATTAGGGAGAGGTGC
1 CGCCCTTATGGCTATACGATTAGGGAGAGGTGC
10106 GTCCCCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.26
Consensus pattern (33 bp):
CGCCCTTATGGCTATACGATTAGGGAGAGGTGC
Found at i:10121 original size:33 final size:33
Alignment explanation
Indices: 10057--10121 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
10047 ATGGCTTTAG
* *
10057 GATTAGGGAGAGGTGCCGCCCTTATGGCTATAC
1 GATTAGGGAGAGGTGCCGCCCCTATGACTATAC
10090 GATTAGGGAGAGGTG-CGTCCCCTACT-ACTATA
1 GATTAGGGAGAGGTGCCG-CCCCTA-TGACTATA
10122 TAAAGGGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 25 0.89
34 1 0.04
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.25
Consensus pattern (33 bp):
GATTAGGGAGAGGTGCCGCCCCTATGACTATAC
Found at i:16048 original size:12 final size:13
Alignment explanation
Indices: 16007--16051 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
15997 AATTATTGTT
16007 TGCTTTATTAATC
1 TGCTTTATTAATC
*
16020 TGCTTTATTAATT
1 TGCTTTATTAATC
16033 TGCTTTA-TAATC
1 TGCTTTATTAATC
16045 TGCTTTA
1 TGCTTTA
16052 GATTTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (13 bp):
TGCTTTATTAATC
Found at i:16059 original size:6 final size:6
Alignment explanation
Indices: 16048--16074 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16038 TATAATCTGC
16048 TTTAGA TTTAGA TTTAGA TTTAGA TTT
1 TTTAGA TTTAGA TTTAGA TTTAGA TTT
16075 GCTTTGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTAGA
Found at i:18051 original size:12 final size:12
Alignment explanation
Indices: 18020--18054 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
18010 TCGCCTGGGA
18020 ACATGACCGGCC
1 ACATGACCGGCC
18032 A-A-GACCGGCC
1 ACATGACCGGCC
18042 ACATGACCGGCC
1 ACATGACCGGCC
18054 A
1 A
18055 TTGCATGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.29, C:0.40, G:0.26, T:0.06
Consensus pattern (12 bp):
ACATGACCGGCC
Found at i:22485 original size:36 final size:34
Alignment explanation
Indices: 22427--22509 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 34
22417 TCTTAATTTG
22427 GTAATTAAG-AAAA-CCAAAGTACTTAAATCAGA
1 GTAATTAAGTAAAAGCCAAAGTACTTAAATCAGA
* *
22459 GTAATTAAGTAAAAGCAGCAAAGTACTTAATTCAGG
1 GTAATTAAGTAAAAGC--CAAAGTACTTAAATCAGA
22495 GTAATTAAGTAAAAG
1 GTAATTAAGTAAAAG
22510 TAGTTAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 9 0.20
33 4 0.09
34 1 0.02
36 31 0.69
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (34 bp):
GTAATTAAGTAAAAGCCAAAGTACTTAAATCAGA
Found at i:22611 original size:39 final size:39
Alignment explanation
Indices: 22520--23193 Score: 957
Period size: 39 Copynumber: 17.6 Consensus size: 39
22510 TAGTTAAAGA
*
22520 ACTTAATTTCAAGGAAATTAGGTAAAAG--GA-AGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
22556 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTCG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACT-G
22596 -CTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
22634 ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGT-AAAAGAAGACTGACTG
*
22674 ACTTAATTTCAAGGAAATTAGGT-AAA-AAGA-AGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
*
22710 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGA-AGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
22748 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
* *
22787 ATTTAATTTCAAGGGAATTAGGTAAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGT-AAAAGAAGACTGACTG
*
22827 ACTTAATTTTAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
*
22866 ACTTAATTTCAAGGAAATTAGG-CAAAGAA-A--GACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
22901 ACTTAATTTCAAGGAAGGAAATTAGG-AAAAGAA-A--GACTCG
1 ACTTAATTTC----AAGGAAATTAGGTAAAAGAAGACTGACT-G
22941 -CTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGT-AAAAGAAGACTGACTG
* *
22980 ACTTAATTTCAAGCAAATTAGATAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
23019 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
23058 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
*
23097 ACTTAATTTCAAGGAAATTAGGTCAAAGAAGACT-A--G
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
*
23133 -CTTAATTTCAAGGAAGGAAATTAGG-CAAAGAA-AC--ACTG
1 ACTTAATTTC----AAGGAAATTAGGTAAAAGAAGACTGACTG
23171 ACTTAATTTCAAGGAAATTAGGT
1 ACTTAATTTCAAGGAAATTAGGT
23194 CGAAGATTGG
Statistics
Matches: 593, Mismatches: 16, Indels: 58
0.89 0.02 0.09
Matches are distributed among these distances:
35 48 0.08
36 58 0.10
37 17 0.03
38 64 0.11
39 305 0.51
40 101 0.17
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (39 bp):
ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
Found at i:22811 original size:153 final size:154
Alignment explanation
Indices: 22520--23193 Score: 950
Period size: 153 Copynumber: 4.4 Consensus size: 154
22510 TAGTTAAAGA
*
22520 ACTTAATTTCAAGGAAATTAGGTAAAAGGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGA
1 ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGA
*
22585 AGACTGACTCG-CTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGA
66 AGACAGACT-GACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGA
22649 AATTAGGTAAAAAGAAGACTGACTG
130 AATTAGGTAAAAAGAAGACTGACTG
22674 ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGA
1 ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGA
* *
22739 AGA-AGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGATTTAATTTCAAGGGA
66 AGACAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAA
22803 ATTAGGTAAAAAGAAGACTGACTG
131 ATTAGGTAAAAAGAAGACTGACTG
* * *
22827 ACTTAATTTTAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGG-CAA
1 ACTTAATTTCAAGGAAATTAGGT-AAA-AAGA-AGACTGACTTAATTTCAAGGAAATTAGGTAAA
22891 AG-A-A-AGACTGACTTAATTTCAAGGAAGGAAATTAGG-AAAAGAA-A--GACTCG-CTTAATT
63 AGAAGACAGACTGACTTAATTTC----AAGGAAATTAGGTAAAAGAAGACTGACT-GACTTAATT
22948 TCAAGGAAATTAGGTAAAAAGAAGACTGACTG
123 TCAAGGAAATTAGGTAAAAAGAAGACTGACTG
* * *
22980 ACTTAATTTCAAGCAAATTAGATAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAA
1 ACTTAATTTCAAGGAAATTAGGT-AAA-AAGA-AGACTGACTTAATTTCAAGGAAATTAGGTAAA
*
23045 AGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAG
63 AGAAGACAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAG
*
23110 GAAATTAGGT-CAAAGAAGACT-A--G
128 GAAATTAGGTAAAAAGAAGACTGACTG
* * *
23133 -CTTAATTTCAAGGAAGGAAATTAGGCAAAGA-AACACTGACTTAATTTCAAGGAAATTAGGT
1 ACTTAATTTC----AAGGAAATTAGGTAAAAAGAAGACTGACTTAATTTCAAGGAAATTAGGT
23194 CGAAGATTGG
Statistics
Matches: 477, Mismatches: 21, Indels: 46
0.88 0.04 0.08
Matches are distributed among these distances:
152 37 0.08
153 232 0.49
154 84 0.18
155 15 0.03
156 56 0.12
157 53 0.11
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (154 bp):
ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGA
AGACAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAA
ATTAGGTAAAAAGAAGACTGACTG
Found at i:22856 original size:192 final size:190
Alignment explanation
Indices: 22520--23193 Score: 1005
Period size: 192 Copynumber: 3.5 Consensus size: 190
22510 TAGTTAAAGA
22520 ACTTAATTTCAAGGAAATTAGGTAAAAG-GAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAG
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAG
22584 AAGACTGACTCG-CTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGG
66 AAGACTGACT-GACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGG
22648 AAATTAGGTAAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTG
130 AAATTAGGT-AAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTG
22710 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAA
1 ACTTAATTTCAAGGAAATTAGGTAAAAG-AGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAA
* * *
22775 GAAGACTGACTGATTTAATTTCAAGGGAATTAGGTAAAAAGAAGACTGACTGACTTAATTTTAAG
65 GAAGACTGACTGACTTAATTTCAAGGAAATTAGGT-AAAAGAAGACTGACTGACTTAATTTCAAG
* *
22840 GAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGCAAAGA-AAGACTG
129 GAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTG
22901 ACTTAATTTCAAGGAAGGAAATTAGG-AAAAGA-AAGACTCG-CTTAATTTCAAGGAAATTAGGT
1 ACTTAATTTC----AAGGAAATTAGGTAAAAGAGAAGACT-GACTTAATTTCAAGGAAATTAGGT
* *
22963 AAAAAGAAGACTGACTGACTTAATTTCAAGCAAATTAGATAAAAGAAGACTGACTGACTTAATTT
61 -AAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTT
*
23028 CAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTG
125 CAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGT-AAA-AAGA-AG
23093 ACTG
187 ACTG
*
23097 ACTTAATTTCAAGGAAATTAGGT-CAA-AGAAGACT-AGCTTAATTTCAAGGAAGGAAATTAGG-
1 ACTTAATTTCAAGGAAATTAGGTAAAAGAGAAGACTGA-CTTAATTTC----AAGGAAATTAGGT
*
23158 CAAAGAA-AC--ACTGACTTAATTTCAAGGAAATTAGGT
61 AAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGT
23194 CGAAGATTGG
Statistics
Matches: 445, Mismatches: 17, Indels: 43
0.88 0.03 0.09
Matches are distributed among these distances:
190 28 0.06
191 44 0.10
192 241 0.54
193 80 0.18
194 12 0.03
195 13 0.03
196 27 0.06
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (190 bp):
ACTTAATTTCAAGGAAATTAGGTAAAAGAGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAG
AAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGA
AATTAGGTAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTG
Found at i:23225 original size:71 final size:72
Alignment explanation
Indices: 23015--23257 Score: 289
Period size: 71 Copynumber: 3.3 Consensus size: 72
23005 AAGAAGACTG
*
23015 ACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGACTTAATTTC----AAGGAAAT
1 ACTGACTTAATTTCAAGGAAATTAGGT--CAGAAGACT-A--G-CTTAATTTCAAGGAAGGAAAT
*
23076 TAGGTAAAAGAAGAC
60 TAGG-CAAAGAA-AC
23091 TGACTGACTTAATTTCAAGGAAATTAGGTCAAAGAAGACTAGCTTAATTTCAAGGAAGGAAATTA
1 --ACTGACTTAATTTCAAGGAAATTAGGTC--AGAAGACTAGCTTAATTTCAAGGAAGGAAATTA
23156 GGCAAAGAAAC
62 GGCAAAGAAAC
* *
23167 ACTGACTTAATTTCAAGGAAATTAGGTC-GAAGATTGGCTTAATTTCAAGGAAGGAAATTAGGCA
1 ACTGACTTAATTTCAAGGAAATTAGGTCAGAAGACTAGCTTAATTTCAAGGAAGGAAATTAGGCA
*
23231 AAGAAAG
66 AAGAAAC
*
23238 ATTGACTTAATTTCAAGGAA
1 ACTGACTTAATTTCAAGGAA
23258 GGAAATTAGG
Statistics
Matches: 153, Mismatches: 6, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
71 59 0.39
74 37 0.24
75 1 0.01
76 2 0.01
77 7 0.05
78 47 0.31
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (72 bp):
ACTGACTTAATTTCAAGGAAATTAGGTCAGAAGACTAGCTTAATTTCAAGGAAGGAAATTAGGCA
AAGAAAC
Found at i:23250 original size:39 final size:35
Alignment explanation
Indices: 22520--23281 Score: 694
Period size: 39 Copynumber: 20.0 Consensus size: 35
22510 TAGTTAAAGA
*
22520 ACTTAATTTCAAGGAAATTAGGTAAAAGGAAGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAAAGACTG
22556 ACTTAATTTCAAGGAAATTAGGTAAAAG-AAGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAAAGACTG
22591 ACTCGCTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 A----CTTAATTTCAAGGAAATTAGG-AAAAGAA-A--GACTG
22634 ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG--AAAAGAA-A--GACTG
22674 ACTTAATTTCAAGGAAATTAGGTAAAA-AGAAGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGA-AAGACTG
22710 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGAAGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAG-A-AAGACTG
22748 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAA-A--GACTG
* *
22787 ATTTAATTTCAAGGGAATTAGGTAAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG--AAAAGAA-A--GACTG
*
22827 ACTTAATTTTAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAA-A--GACTG
*
22866 ACTTAATTTCAAGGAAATTAGGCAAAGAAAGACTG
1 ACTTAATTTCAAGGAAATTAGGAAAAGAAAGACTG
22901 ACTTAATTTCAAGGAAGGAAATTAGGAAAAGAAAGACTCG
1 ACTTAATTTC----AAGGAAATTAGGAAAAGAAAGACT-G
22941 -CTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG--AAAAGAA-A--GACTG
* *
22980 ACTTAATTTCAAGCAAATTAGATAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAG-GAAAAGAA-A--GACTG
23019 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAA-A--GACTG
23058 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAA-A--GACTG
*
23097 ACTTAATTTCAAGGAAATTAGGTCAAAG-AAGACT-
1 ACTTAATTTCAAGGAAATTAGG-AAAAGAAAGACTG
* *
23131 AGCTTAATTTCAAGGAAGGAAATTAGGCAAAGAAACACTG
1 A-CTTAATTTC----AAGGAAATTAGGAAAAGAAAGACTG
** *
23171 ACTTAATTTCAAGGAAATTAGG--TCG-AAGATTG
1 ACTTAATTTCAAGGAAATTAGGAAAAGAAAGACTG
* * *
23203 GCTTAATTTCAAGGAAGGAAATTAGGCAAAGAAAGATTG
1 ACTTAATTTC----AAGGAAATTAGGAAAAGAAAGACTG
*
23242 ACTTAATTTCAAGGAAGGAAATTAGGTAAAGAAAGACTG
1 ACTTAATTTC----AAGGAAATTAGGAAAAGAAAGACTG
23281 A
1 A
23282 GGAACATGCT
Statistics
Matches: 655, Mismatches: 28, Indels: 83
0.86 0.04 0.11
Matches are distributed among these distances:
32 14 0.02
33 1 0.00
34 1 0.00
35 60 0.09
36 73 0.11
37 11 0.02
38 53 0.08
39 336 0.51
40 99 0.15
41 1 0.00
43 6 0.01
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (35 bp):
ACTTAATTTCAAGGAAATTAGGAAAAGAAAGACTG
Found at i:23260 original size:110 final size:109
Alignment explanation
Indices: 22520--23281 Score: 633
Period size: 114 Copynumber: 6.7 Consensus size: 109
22510 TAGTTAAAGA
*
22520 ACTTAATTTCAAGGAAATTAGGTAAAAGGAAGACT-GACTTAATTTC----AAGGAAATTAGGTA
1 ACTTAATTTCAAGGAAATTAGGTCAAA-GAAGACTAG-CTTAATTTCAAGGAAGGAAATTAGG-A
22580 AAAGAAGACTGACTCG-CTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
63 AAAGAA-AC--ACT-GACTTAATTTCAAGGAAATTAGGT--AAGAAGACT-A-TG
*
22634 ACTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTGACTTAATTTC----AAGGAAATTAG
1 ACTTAATTTCAAGGAAATTAGGT-CAAAGAAGACT-A--G-CTTAATTTCAAGGAAGGAAATTAG
* **
22695 GTAAAA-AGAAGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGAAGACTG
61 G-AAAAGA-AACACTGACTTAATTTCAAGGAAATTAGGT--AAGAAGACTA-TG
* *
22748 ACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTGATTTAATTTCAA-G--GG-AATTAGG
1 ACTTAATTTCAAGGAAATTAGGTCAAAGAAGACT-A--G-CTTAATTTCAAGGAAGGAAATTAGG
*
22809 TAAAAAGAAGACTGACTGACTTAATTTTAAGGAAATTAGGTAAAAGAAGACTGACTG
62 --AAAAGAA-AC--ACTGACTTAATTTCAAGGAAATTAGGT--AAGAAGACT-A-TG
22866 ACTTAATTTCAAGGAAATTAGG-CAAAGAAAGACT-GACTTAATTTCAAGGAAGGAAATTAGGAA
1 ACTTAATTTCAAGGAAATTAGGTCAAAG-AAGACTAG-CTTAATTTCAAGGAAGGAAATTAGGAA
*
22929 AAGAAAGACTCG-CTTAATTTCAAGGAAATTAGGTAAAAAGAAGACTGACTG
64 AAGAAACACT-GACTTAATTTCAAGGAAATTAGGT---AAGAAGACT-A-TG
* * *
22980 ACTTAATTTCAAGCAAATTAGATAAAAGAAGACTGACTGACTTAATTTC----AAGGAAATTAGG
1 ACTTAATTTCAAGGAAATTAGGTCAAAGAAGACT-A--G-CTTAATTTCAAGGAAGGAAATTAGG
23041 TAAAAGAAGACTGACTGACTTAATTTCAAGGAAATTAGGTAAAAGAAGACTGACTG
62 -AAAAGAA-AC--ACTGACTTAATTTCAAGGAAATTAGGT--AAGAAGACT-A-TG
*
23097 ACTTAATTTCAAGGAAATTAGGTCAAAGAAGACTAGCTTAATTTCAAGGAAGGAAATTAGGCAAA
1 ACTTAATTTCAAGGAAATTAGGTCAAAGAAGACTAGCTTAATTTCAAGGAAGGAAATTAGGAAAA
*
23162 GAAACACTGACTTAATTTCAAGGAAATTAGGT-CGAAGA-T-TG
66 GAAACACTGACTTAATTTCAAGGAAATTAGGTAAGAAGACTATG
* *
23203 GCTTAATTTCAAGGAAGGAAATTAGG-CAAAGAAAGA-TTGACTTAATTTCAAGGAAGGAAATTA
1 ACTTAATTTC----AAGGAAATTAGGTCAAAG-AAGACTAG-CTTAATTTCAAGGAAGGAAATTA
* *
23266 GGTAAAGAAAGACTGA
60 GGAAAAGAAACACTGA
23282 GGAACATGCT
Statistics
Matches: 579, Mismatches: 26, Indels: 90
0.83 0.04 0.13
Matches are distributed among these distances:
106 11 0.02
109 8 0.01
110 58 0.10
113 92 0.16
114 133 0.23
115 55 0.09
116 15 0.03
117 103 0.18
118 104 0.18
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (109 bp):
ACTTAATTTCAAGGAAATTAGGTCAAAGAAGACTAGCTTAATTTCAAGGAAGGAAATTAGGAAAA
GAAACACTGACTTAATTTCAAGGAAATTAGGTAAGAAGACTATG
Found at i:23401 original size:32 final size:33
Alignment explanation
Indices: 23308--23434 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
23298 CAGGGAAGGA
*
23308 AATTAAGTAGAATAAAAGAACTTTATTCAGGGT
1 AATTAAGTAGAATAAAAGAACTTAATTCAGGGT
23341 AATTAAGTAGAATAAAAGAACTTAATTCAGGGT
1 AATTAAGTAGAATAAAAGAACTTAATTCAGGGT
* *
23374 ACTTAAGTAGAATAAAAG-ACTTAATTCAAGGT
1 AATTAAGTAGAATAAAAGAACTTAATTCAGGGT
23406 AATTAAGTAGAATCAATAAAGAACTTAAT
1 AATTAAGTAGAAT--A-AAAGAACTTAAT
23435 CTAAAAAGAG
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
32 25 0.29
33 49 0.57
34 1 0.01
35 4 0.05
36 7 0.08
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (33 bp):
AATTAAGTAGAATAAAAGAACTTAATTCAGGGT
Found at i:23984 original size:15 final size:15
Alignment explanation
Indices: 23964--23993 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23954 TCAATGGCGG
*
23964 GCCCCGGTCCTGCCA
1 GCCCCGGCCCTGCCA
23979 GCCCCGGCCCTGCCA
1 GCCCCGGCCCTGCCA
23994 CGTTGCGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.57, G:0.27, T:0.10
Consensus pattern (15 bp):
GCCCCGGCCCTGCCA
Found at i:28427 original size:33 final size:33
Alignment explanation
Indices: 28323--28427 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
28313 TTGTAAAGAG
* * * *
28323 TGTTTTAGATGATGTTTGCGATGATACTAAACC
1 TGTTTTAGGTGTTGTTTGCGATGAAACTAAATC
* * *
28356 TGATTT-GAGTGTTGTTTGCAATGACACTAAATC
1 TGTTTTAG-GTGTTGTTTGCGATGAAACTAAATC
28389 TGTTTTAGGTGTTGTTTGCGATGAAACTAAATC
1 TGTTTTAGGTGTTGTTTGCGATGAAACTAAATC
28422 TGTTTT
1 TGTTTT
28428 GGATGCTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
32 1 0.02
33 59 0.97
34 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (33 bp):
TGTTTTAGGTGTTGTTTGCGATGAAACTAAATC
Found at i:28445 original size:33 final size:32
Alignment explanation
Indices: 28338--28463 Score: 101
Period size: 33 Copynumber: 3.8 Consensus size: 32
28328 TAGATGATGT
* * * * **
28338 TTGCGATGATACTAAACCTGATTTGAGTGTTGT
1 TTGCGATGAAACTAAATCTGTTTTG-GTGCTAA
* * * **
28371 TTGCAATGACACTAAATCTGTTTTAGGTGTTGT
1 TTGCGATGAAACTAAATCTGTTTT-GGTGCTAA
28404 TTGCGATGAAACTAAATCTGTTTTGGATGCTAA
1 TTGCGATGAAACTAAATCTGTTTTGG-TGCTAA
*
28437 TTGTGATGAAAAC-AAATCTGTTTTGGT
1 TTGCGATG-AAACTAAATCTGTTTTGGT
28464 TGATCATAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
32 3 0.04
33 72 0.90
34 5 0.06
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (32 bp):
TTGCGATGAAACTAAATCTGTTTTGGTGCTAA
Found at i:28490 original size:33 final size:33
Alignment explanation
Indices: 28453--28561 Score: 191
Period size: 33 Copynumber: 3.3 Consensus size: 33
28443 TGAAAACAAA
*
28453 TCTGTTTTGGTTGATCATAGCATTGCAAATAAT
1 TCTGTTTTGGTTGATCATAACATTGCAAATAAT
28486 TCTGTTTTGGTTGATCATAACATTGCAAATAAT
1 TCTGTTTTGGTTGATCATAACATTGCAAATAAT
* *
28519 TCTATTTTGGTTGATCATAACATTGAAAATAAT
1 TCTGTTTTGGTTGATCATAACATTGCAAATAAT
28552 TCTGTTTTGG
1 TCTGTTTTGG
28562 GTGAAAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (33 bp):
TCTGTTTTGGTTGATCATAACATTGCAAATAAT
Found at i:28944 original size:30 final size:30
Alignment explanation
Indices: 28904--28961 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
28894 CAAGGGGGAG
28904 GGAATGATGCGCCCAAGG-CTTATCATGGAA
1 GGAATGATGCG-CCAAGGACTTATCATGGAA
* *
28934 GGAATTATGCGCCAAGGACTTATTATGG
1 GGAATGATGCGCCAAGGACTTATCATGG
28962 GCTTGATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (30 bp):
GGAATGATGCGCCAAGGACTTATCATGGAA
Found at i:30610 original size:21 final size:21
Alignment explanation
Indices: 30586--30633 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
30576 ACTGAATTAT
*
30586 TGATTA-TCATTACTATTTTAC
1 TGATTATTCATTACT-CTTTAC
*
30607 TGATTATTCTTTACTCTTTAC
1 TGATTATTCATTACTCTTTAC
30628 TGATTA
1 TGATTA
30634 CTAGTTACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (21 bp):
TGATTATTCATTACTCTTTAC
Found at i:30641 original size:21 final size:21
Alignment explanation
Indices: 30602--30641 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30592 TCATTACTAT
* **
30602 TTTACTGATTATTCTTTACTC
1 TTTACTGATTACTAGTTACTC
30623 TTTACTGATTACTAGTTAC
1 TTTACTGATTACTAGTTAC
30642 CATTTTATTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTACTGATTACTAGTTACTC
Found at i:30719 original size:37 final size:35
Alignment explanation
Indices: 30675--30747 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
30665 ATTACTTTTC
* *
30675 ACTGATTAATATTTTACTTCTTTGCCATTTTTTCTTT
1 ACTGATTAATATTTTAC-TCTTTACCA-TTCTTCTTT
* *
30712 ACTGATTATTCTTTTACTCTTTACCATTCTTCTTT
1 ACTGATTAATATTTTACTCTTTACCATTCTTCTTT
30747 A
1 A
30748 TTTAACTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 9 0.28
36 8 0.25
37 15 0.47
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.58
Consensus pattern (35 bp):
ACTGATTAATATTTTACTCTTTACCATTCTTCTTT
Found at i:30773 original size:47 final size:47
Alignment explanation
Indices: 30722--30843 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
30712 ACTGATTATT
30722 CTTTTACTCTTTAC-CATT-CTTCTTTA-TTTAACTCTTTACTATTTTAC
1 CTTTT-CTCTTTACTCATTAC-TCTTTACTTT-ACTCTTTACTATTTTAC
* *
30769 CTTTT-TCCTTTACTGATTACTCTTTACTTTACTCTTTACTCTTTTAC
1 CTTTTCT-CTTTACTCATTACTCTTTACTTTACTCTTTACTATTTTAC
* *
30816 CTTTTTTCTTTACTGATTACTCTTTACT
1 CTTTTCTCTTTACTCATTACTCTTTACT
30844 GATTACTGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
45 1 0.01
46 6 0.09
47 56 0.82
48 5 0.07
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (47 bp):
CTTTTCTCTTTACTCATTACTCTTTACTTTACTCTTTACTATTTTAC
Found at i:30795 original size:7 final size:7
Alignment explanation
Indices: 30785--30843 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
30775 CCTTTACTGA
30785 TTACTCT
1 TTACTCT
30792 TTA--CT
1 TTACTCT
30797 TTACTCT
1 TTACTCT
30804 TTACTCTT
1 TTACTC-T
30812 TTAC-CT
1 TTACTCT
**
30818 TTTTTCT
1 TTACTCT
**
30825 TTACTGA
1 TTACTCT
30832 TTACTCT
1 TTACTCT
30839 TTACT
1 TTACT
30844 GATTACTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
5 5 0.12
6 3 0.08
7 27 0.68
8 5 0.12
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (7 bp):
TTACTCT
Found at i:30795 original size:14 final size:14
Alignment explanation
Indices: 30776--30850 Score: 53
Period size: 14 Copynumber: 6.0 Consensus size: 14
30766 TACCTTTTTC
30776 CTTTACTGATTACT
1 CTTTACTGATTACT
30790 CTTTACT--TTACT
1 CTTTACTGATTACT
**
30802 CTTTACTCTTTTAC-
1 CTTTACT-GATTACT
30816 CTTT--T--TT-CT
1 CTTTACTGATTACT
30825 --TTACTGATTACT
1 CTTTACTGATTACT
30837 CTTTACTGATTACT
1 CTTTACTGATTACT
30851 GTTTTACTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 22
0.69 0.00 0.31
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 3 0.06
11 2 0.04
12 15 0.30
14 23 0.46
15 4 0.08
ACGTcount: A:0.17, C:0.23, G:0.04, T:0.56
Consensus pattern (14 bp):
CTTTACTGATTACT
Found at i:30800 original size:19 final size:19
Alignment explanation
Indices: 30776--30812 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30766 TACCTTTTTC
*
30776 CTTTACTGATTACTCTTTA
1 CTTTACTCATTACTCTTTA
*
30795 CTTTACTCTTTACTCTTT
1 CTTTACTCATTACTCTTT
30813 TACCTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.24, G:0.03, T:0.57
Consensus pattern (19 bp):
CTTTACTCATTACTCTTTA
Found at i:30877 original size:22 final size:22
Alignment explanation
Indices: 30832--31183 Score: 246
Period size: 22 Copynumber: 16.7 Consensus size: 22
30822 TCTTTACTGA
*
30832 TTACTCTTTACTGATTA-CTGTT
1 TTACTTTTTACTGATTACCT-TT
*
30854 TTACTTTTTACTGATTTCCTTT
1 TTACTTTTTACTGATTACCTTT
* **
30876 TTGCTTTTTGTTGATTACC-TT
1 TTACTTTTTACTGATTACCTTT
*
30897 TTACTTCTTACTGATTA-----
1 TTACTTTTTACTGATTACCTTT
*
30914 --GCTTTTTACTGATTACCTTT
1 TTACTTTTTACTGATTACCTTT
* **
30934 TTATTTCCTACTGATTA-CTATT
1 TTACTTTTTACTGATTACCT-TT
* *
30956 CTACCTTTTACTGATTACC-TT
1 TTACTTTTTACTGATTACCTTT
*
30977 TTACTCTTGT--TGATTA-CTATT
1 TTACT-TTTTACTGATTACCT-TT
*
30998 TTAC-TCTTACTGATTA-CTATT
1 TTACTTTTTACTGATTACCT-TT
*
31019 TTAC-TCTTACTGATTACCTTT
1 TTACTTTTTACTGATTACCTTT
* *
31040 TTACTTTTTTACTAATTA-CTAT
1 TTAC-TTTTTACTGATTACCTTT
* * * *
31062 TTAC-TCTTGCTGGTTACCTTC
1 TTACTTTTTACTGATTACCTTT
31083 TTACTTTTTACTGATTA-CTATT
1 TTACTTTTTACTGATTACCT-TT
* *
31105 TTACTCTTTACTGATTACCATT
1 TTACTTTTTACTGATTACCTTT
*
31127 TTAC-TCTTACTGATTACCTTT
1 TTACTTTTTACTGATTACCTTT
*
31148 TTACTTTTTACTGATTACC--A
1 TTACTTTTTACTGATTACCTTT
*
31168 TTACTTCTTACTGATT
1 TTACTTTTTACTGATT
31184 GCTGTTACTC
Statistics
Matches: 260, Mismatches: 47, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
15 13 0.05
19 3 0.01
20 29 0.11
21 87 0.33
22 114 0.44
23 14 0.05
ACGTcount: A:0.19, C:0.20, G:0.07, T:0.55
Consensus pattern (22 bp):
TTACTTTTTACTGATTACCTTT
Found at i:30918 original size:36 final size:37
Alignment explanation
Indices: 30878--30950 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
30868 TTTCCTTTTT
** *
30878 GCTTTTTGTTGATTACC-TTTTACTTCTTACTGATTA
1 GCTTTTTACTGATTACCTTTTTACTTCCTACTGATTA
*
30914 GCTTTTTACTGATTACCTTTTTATTTCCTACTGATTA
1 GCTTTTTACTGATTACCTTTTTACTTCCTACTGATTA
30951 CTATTCTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 15 0.47
37 17 0.53
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.55
Consensus pattern (37 bp):
GCTTTTTACTGATTACCTTTTTACTTCCTACTGATTA
Found at i:30924 original size:15 final size:15
Alignment explanation
Indices: 30904--30936 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30894 CTTTTACTTC
*
30904 TTACTGATTAGCTTT
1 TTACTGATTACCTTT
30919 TTACTGATTACCTTT
1 TTACTGATTACCTTT
30934 TTA
1 TTA
30937 TTTCCTACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (15 bp):
TTACTGATTACCTTT
Found at i:31007 original size:27 final size:23
Alignment explanation
Indices: 30944--31152 Score: 93
Period size: 21 Copynumber: 9.7 Consensus size: 23
30934 TTATTTCCTA
* *
30944 CTGATTACTATTCTAC-CTT-TT
1 CTGATTACTATTTTACTCTTACT
* *
30965 ACTGATTAC-CTTTTACTCTT-GT
1 -CTGATTACTATTTTACTCTTACT
30987 -TGATTACTATTTTACTCTTA--
1 CTGATTACTATTTTACTCTTACT
31007 CTGATTACTATTTTACTCTTA--
1 CTGATTACTATTTTACTCTTACT
**
31028 CTGATTACCT-TTTTACT-TTTTT
1 CTGATTA-CTATTTTACTCTTACT
* *
31050 ACTAATTACTA-TTTACTCTT--G
1 -CTGATTACTATTTTACTCTTACT
* * *
31071 CTGGTTACCT-TCTTACT-TT-TT
1 CTGATTA-CTATTTTACTCTTACT
31092 ACTGATTACTATTTTACTCTT--T
1 -CTGATTACTATTTTACTCTTACT
*
31114 ACTGATTACCATTTTACTCTTA--
1 -CTGATTACTATTTTACTCTTACT
31136 CTGATTACCT-TTTTACT
1 CTGATTA-CTATTTTACT
31153 TTTTACTGAT
Statistics
Matches: 154, Mismatches: 15, Indels: 37
0.75 0.07 0.18
Matches are distributed among these distances:
20 16 0.10
21 72 0.47
22 56 0.36
23 10 0.06
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (23 bp):
CTGATTACTATTTTACTCTTACT
Found at i:31095 original size:65 final size:66
Alignment explanation
Indices: 30916--31166 Score: 270
Period size: 65 Copynumber: 3.9 Consensus size: 66
30906 ACTGATTAGC
* * * *
30916 TTTTTACTGATTACCT-TTTTATTTCCTACTGATTA-CTATTCTACCTTTTACTGATTACC-TTT
1 TTTTTACTGATTA-CTATTTTA-CTCTTACTGATTACCT-TTTTACTTTTTACTGATTACCTTTT
30978 TACT
63 TACT
* * *
30982 CTTGT--TGATTACTATTTTACTCTTACTGATTA-CTATTTTAC-TCTTACTGATTACCTTTTTA
1 TTTTTACTGATTACTATTTTACTCTTACTGATTACCT-TTTTACTTTTTACTGATTACCTTTTTA
31043 CT
65 CT
* * * *
31045 TTTTTACTAATTACTA-TTTACTCTTGCTGGTTACCTTCTTACTTTTTACTGATTA-CTATTTTA
1 TTTTTACTGATTACTATTTTACTCTTACTGATTACCTTTTTACTTTTTACTGATTACCT-TTTTA
31108 C-
65 CT
* *
31109 TCTTTACTGATTACCATTTTACTCTTACTGATTACCTTTTTACTTTTTACTGATTACC
1 TTTTTACTGATTACTATTTTACTCTTACTGATTACCTTTTTACTTTTTACTGATTACC
31167 ATTACTTCTT
Statistics
Matches: 157, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
62 13 0.08
63 31 0.20
64 46 0.29
65 63 0.40
66 4 0.03
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.54
Consensus pattern (66 bp):
TTTTTACTGATTACTATTTTACTCTTACTGATTACCTTTTTACTTTTTACTGATTACCTTTTTAC
T
Found at i:31137 original size:43 final size:44
Alignment explanation
Indices: 30942--31183 Score: 249
Period size: 42 Copynumber: 5.7 Consensus size: 44
30932 TTTTATTTCC
* * *
30942 TACTGATTACTATTCTACCTT-TTACTGATTAC-CTTTTACTCTT
1 TACTGATTACCATTTTA-CTTCTTACTGATTACTATTTTACTCTT
*
30985 GT--TGATTACTATTTTAC-TCTTACTGATTACTATTTTACTC-T
1 -TACTGATTACCATTTTACTTCTTACTGATTACTATTTTACTCTT
* * *
31026 TACTGATTACCTTTTTACTTTTTTACTAATTACTA-TTTACTC-T
1 TACTGATTACCATTTTAC-TTCTTACTGATTACTATTTTACTCTT
* * *
31069 TGCTGGTTACC-TTCTTACTTTTTACTGATTACTATTTTACTCTT
1 TACTGATTACCATT-TTACTTCTTACTGATTACTATTTTACTCTT
*
31113 TACTGATTACCATTTTAC-TCTTACTGATTACCT-TTTTACTTTT
1 TACTGATTACCATTTTACTTCTTACTGATTA-CTATTTTACTCTT
31156 TACTGATTACCA--TTACTTCTTACTGATT
1 TACTGATTACCATTTTACTTCTTACTGATT
31184 GCTGTTACTC
Statistics
Matches: 173, Mismatches: 13, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
40 2 0.01
41 17 0.10
42 62 0.36
43 60 0.35
44 30 0.17
45 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (44 bp):
TACTGATTACCATTTTACTTCTTACTGATTACTATTTTACTCTT
Found at i:31544 original size:19 final size:21
Alignment explanation
Indices: 31520--31567 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
31510 ATCAATTTAC
31520 TAATTA-ACCAC-TCAACTCT
1 TAATTACACCACTTCAACTCT
*
31539 TAATTACTGACCACTTTAACTCT
1 TAATTAC--ACCACTTCAACTCT
31562 TAATTA
1 TAATTA
31568 TCGATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
22 5 0.21
23 13 0.54
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATTACACCACTTCAACTCT
Found at i:31709 original size:55 final size:55
Alignment explanation
Indices: 31648--31808 Score: 241
Period size: 55 Copynumber: 2.9 Consensus size: 55
31638 TATCAATTTA
* * * * * *
31648 CTGATTACTATCTTTTTACCTGATTACTGATTTAATGATTACTATTACCTTGACT
1 CTGATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTACCTTCACT
*
31703 CTGATTAATCTCTTTTTACTTAATTACTAATTTACTGATTACTATTACCTTCACT
1 CTGATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTACCTTCACT
* *
31758 CTGCTTAATCTCTTTTCACTTAATTACTGATTTACTGATTACTATTACCTT
1 CTGATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTACCTT
31809 TTTACTGATT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 96 1.00
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.48
Consensus pattern (55 bp):
CTGATTAATCTCTTTTTACTTAATTACTGATTTACTGATTACTATTACCTTCACT
Found at i:34726 original size:18 final size:17
Alignment explanation
Indices: 34703--34738 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
34693 CTCAACCTAA
34703 AACTAGAAGAAAAACTAG
1 AACTAGAAGAAAAA-TAG
34721 AACTAGAAGAAAAATAG
1 AACTAGAAGAAAAATAG
34738 A
1 A
34739 TGAAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (17 bp):
AACTAGAAGAAAAATAG
Found at i:36087 original size:33 final size:33
Alignment explanation
Indices: 36047--36121 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
36037 AGCCCTTGTG
* *
36047 ACCGGCCACGCGACTTGGAGATGCCCGGCCATC-
1 ACCGGCCACGCGACATGGACATGCCCGGCCA-CA
*
36080 ACCGGCCACGCGACATGGCCATGCCCGGCCACA
1 ACCGGCCACGCGACATGGACATGCCCGGCCACA
36113 ACCGGCCAC
1 ACCGGCCAC
36122 ATGATCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.20, C:0.44, G:0.28, T:0.08
Consensus pattern (33 bp):
ACCGGCCACGCGACATGGACATGCCCGGCCACA
Found at i:44298 original size:10 final size:10
Alignment explanation
Indices: 44283--44318 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
44273 GAGGACTCTA
*
44283 GAATTTTCTC
1 GAATTTTCTG
44293 GAATTTTCTG
1 GAATTTTCTG
44303 GAATTTTCTG
1 GAATTTTCTG
44313 GAATTT
1 GAATTT
44319 GGCAGCAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (10 bp):
GAATTTTCTG
Found at i:44730 original size:18 final size:19
Alignment explanation
Indices: 44707--44745 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
44697 TTCTTGAATT
*
44707 AAATCTTC-AATTATCTTC
1 AAATCTTCAAAATATCTTC
44725 AAATCTTCAAAATATCTTC
1 AAATCTTCAAAATATCTTC
44744 AA
1 AA
44746 TCACGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATCTTCAAAATATCTTC
Found at i:48616 original size:33 final size:32
Alignment explanation
Indices: 48542--48640 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 32
48532 AGCACTTGTG
**
48542 ACCGGCCACGCGACTTGGAGATGCCCGGCCATC-
1 ACCGGCCACGCGAC-TGGCCATGCCCGGCCA-CA
*
48575 ACCCGCCACGCGACATGGCCATGCCCGGCCACA
1 ACCGGCCACGCGAC-TGGCCATGCCCGGCCACA
**
48608 ACCGGCCACATGACTCGGCCATGCCCGGCCACA
1 ACCGGCCACGCGACT-GGCCATGCCCGGCCACA
48641 TGATCCTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.20, C:0.44, G:0.26, T:0.09
Consensus pattern (32 bp):
ACCGGCCACGCGACTGGCCATGCCCGGCCACA
Found at i:48626 original size:23 final size:23
Alignment explanation
Indices: 48600--48643 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48590 TGGCCATGCC
48600 CGGCCACAACCGGCCACATGACT
1 CGGCCACAACCGGCCACATGACT
***
48623 CGGCCATGCCCGGCCACATGA
1 CGGCCACAACCGGCCACATGA
48644 TCCTTTGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.43, G:0.25, T:0.09
Consensus pattern (23 bp):
CGGCCACAACCGGCCACATGACT
Found at i:57433 original size:27 final size:27
Alignment explanation
Indices: 57395--57447 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
57385 TACTACATGC
57395 CTAGTGGTTCAATCACTTCTTGGACGA
1 CTAGTGGTTCAATCACTTCTTGGACGA
57422 CTAGTGGTTCAATCACTTCTTGGACG
1 CTAGTGGTTCAATCACTTCTTGGACG
57448 GGCCTTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
CTAGTGGTTCAATCACTTCTTGGACGA
Found at i:58041 original size:21 final size:21
Alignment explanation
Indices: 58002--58050 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
57992 TCAATGCTTT
**
58002 AGGAATGCAAGAGGGATTTCAA
1 AGGAA-GCAAGAGCCATTTCAA
*
58024 AGGAAGCAAGAGCCATTTCCA
1 AGGAAGCAAGAGCCATTTCAA
58045 A-GAAGC
1 AGGAAGC
58051 TACAATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14
Consensus pattern (21 bp):
AGGAAGCAAGAGCCATTTCAA
Found at i:69382 original size:21 final size:21
Alignment explanation
Indices: 69352--69393 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
69342 TTCTGATGTA
*
69352 ACCCGTGCCTGGGCAAGGTTG
1 ACCCGCGCCTGGGCAAGGTTG
69373 ACCCGCGCCTGGGCAAGGTTG
1 ACCCGCGCCTGGGCAAGGTTG
69394 CGGAATAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.31, G:0.38, T:0.17
Consensus pattern (21 bp):
ACCCGCGCCTGGGCAAGGTTG
Found at i:70937 original size:12 final size:12
Alignment explanation
Indices: 70920--70955 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
70910 CATGCGATGG
70920 CCGGTCATGTGC
1 CCGGTCATGTGC
*
70932 CCGGTCATGTGG
1 CCGGTCATGTGC
*
70944 CCGGTCTTGTGC
1 CCGGTCATGTGC
70956 GATCCTTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.31, G:0.36, T:0.28
Consensus pattern (12 bp):
CCGGTCATGTGC
Found at i:71671 original size:21 final size:21
Alignment explanation
Indices: 71647--71695 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
71637 TAGATTTAGA
* * *
71647 TTTAATTTACTTTGTTTTGTT
1 TTTAATTTAATTTGCTTTCTT
*
71668 TTTAGTTTAATTTGCTTTCTT
1 TTTAATTTAATTTGCTTTCTT
*
71689 TATAATT
1 TTTAATT
71696 AATCTCTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTAATTTAATTTGCTTTCTT
Found at i:72154 original size:13 final size:13
Alignment explanation
Indices: 72136--72175 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
72126 ACAAGTTTTA
72136 GTTAACAAACAAG
1 GTTAACAAACAAG
72149 GTTAACAAACAAG
1 GTTAACAAACAAG
72162 GTTAAC-AACAAG
1 GTTAACAAACAAG
72174 GT
1 GT
72176 CCATCATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (13 bp):
GTTAACAAACAAG
Found at i:77849 original size:21 final size:23
Alignment explanation
Indices: 77809--77857 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
77799 GTCTTGTCGA
77809 CATGGG-TCTACAGTGTTTTT-T
1 CATGGGTTCTACAGTGTTTTTAT
77830 CATGGGTTCT-CAGT-TATTTTAT
1 CATGGGTTCTACAGTGT-TTTTAT
77852 -ATGGGT
1 CATGGGT
77858 CCCCATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.16, C:0.12, G:0.24, T:0.47
Consensus pattern (23 bp):
CATGGGTTCTACAGTGTTTTTAT
Done.