Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01015933.1 Corchorus capsularis cultivar CVL-1 contig15954, 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: 56968
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:928 original size:27 final size:26
Alignment explanation
Indices: 898--973 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
888 CCGTTTGGCA
898 TCGTTTCTGTTTTTTTGTTTTTTGTTT
1 TCGTTTC-GTTTTTTTGTTTTTTGTTT
* *
925 TCGTTTCGTTTCGTTTT-TATTTTATTT
1 TCGTTTCGTTT--TTTTGTTTTTTGTTT
* *
952 TTGTTACG-TTTTTTGTTTTTTG
1 TCGTTTCGTTTTTTTGTTTTTTG
974 AAAACAGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 4 0.10
25 5 0.12
26 6 0.15
27 21 0.52
28 4 0.10
ACGTcount: A:0.04, C:0.08, G:0.14, T:0.74
Consensus pattern (26 bp):
TCGTTTCGTTTTTTTGTTTTTTGTTT
Found at i:941 original size:22 final size:23
Alignment explanation
Indices: 914--970 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
904 CTGTTTTTTT
* *
914 GTTTTTTGTTTTCGTTTCGTTTC
1 GTTTTTTGTTTTAGTTTCGTTAC
* * *
937 G-TTTTTATTTTATTTTTGTTAC
1 GTTTTTTGTTTTAGTTTCGTTAC
959 GTTTTTTGTTTT
1 GTTTTTTGTTTT
971 TTGAAAACAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.05, C:0.07, G:0.14, T:0.74
Consensus pattern (23 bp):
GTTTTTTGTTTTAGTTTCGTTAC
Found at i:962 original size:32 final size:32
Alignment explanation
Indices: 898--962 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
888 CCGTTTGGCA
*
898 TCGTTTCTGTTTTTTTGTTTTTTGTTTTCGTT
1 TCGTTTCTGTTTTTTTGTTTTTTGTTTACGTT
*
930 TCGTTTC-GTTTTTATTTTATTTTTG-TTACGTT
1 TCGTTTCTGTTTTT-TTGT-TTTTTGTTTACGTT
962 T
1 T
963 TTTGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.21
32 17 0.59
33 6 0.21
ACGTcount: A:0.05, C:0.09, G:0.14, T:0.72
Consensus pattern (32 bp):
TCGTTTCTGTTTTTTTGTTTTTTGTTTACGTT
Found at i:6320 original size:14 final size:14
Alignment explanation
Indices: 6301--6327 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6291 GCCTAGCCCA
6301 TTCTTTTCTTCTTC
1 TTCTTTTCTTCTTC
6315 TTCTTTTCTTCTT
1 TTCTTTTCTTCTT
6328 TTTTTTAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTTTCTTCTTC
Found at i:10690 original size:37 final size:36
Alignment explanation
Indices: 10635--10781 Score: 168
Period size: 37 Copynumber: 4.0 Consensus size: 36
10625 GGAAACAACA
* * *
10635 AAAAGAGCCTCAGACTCAAATCCAAGCAATCATCAAC
1 AAAAGAGCCTCGGGCTCAAATCCAAGCAAT-ATCAAT
* ** * *
10672 CACTGAGCCTCGGGCTCAAGTCCAAACAAATATCAAT
1 AAAAGAGCCTCGGGCTCAAATCCAAGC-AATATCAAT
*
10709 AAAAGAGCCTCGGGCTCAAATCCAACGAAATATCAAT
1 AAAAGAGCCTCGGGCTCAAATCCAA-GCAATATCAAT
*
10746 AAAAGAGCCTCGGGCTCAAATCCAACGAAATATCAA
1 AAAAGAGCCTCGGGCTCAAATCCAA-GCAATATCAA
10782 AACATCACAA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 91 0.97
38 3 0.03
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (36 bp):
AAAAGAGCCTCGGGCTCAAATCCAAGCAATATCAAT
Found at i:10756 original size:74 final size:74
Alignment explanation
Indices: 10635--10781 Score: 190
Period size: 74 Copynumber: 2.0 Consensus size: 74
10625 GGAAACAACA
* * ** *
10635 AAAAGAGCCTCAGACTCAAATCCAAGCAATCATCAACCACTGAGCCTCGGGCTCAAGTCCAAAC-
1 AAAAGAGCCTCAGACTCAAATCCAAGAAATCATCAACAAAAGAGCCTCGGGCTCAAATCC-AACG
10699 AAATATCAAT
65 AAATATCAAT
* * *
10709 AAAAGAGCCTCGGGCTCAAATCCAACGAAAT-ATCAATAAAAGAGCCTCGGGCTCAAATCCAACG
1 AAAAGAGCCTCAGACTCAAATCCAA-GAAATCATCAACAAAAGAGCCTCGGGCTCAAATCCAACG
10773 AAATATCAA
65 AAATATCAA
10782 AACATCACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 3 0.05
74 56 0.89
75 4 0.06
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (74 bp):
AAAAGAGCCTCAGACTCAAATCCAAGAAATCATCAACAAAAGAGCCTCGGGCTCAAATCCAACGA
AATATCAAT
Found at i:11126 original size:15 final size:16
Alignment explanation
Indices: 11103--11148 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
11093 ACTCACAACC
*
11103 AAAACAGTTATTAA-A
1 AAAAAAGTTATTAATA
11118 AAAAAAGTTA-TAATA
1 AAAAAAGTTATTAATA
*
11133 AAACAA-TTATTAATA
1 AAAAAAGTTATTAATA
11148 A
1 A
11149 TAAATCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (16 bp):
AAAAAAGTTATTAATA
Found at i:11591 original size:14 final size:14
Alignment explanation
Indices: 11568--11610 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
11558 TAATGCACCC
11568 AAAA-CATTTAATA
1 AAAATCATTTAATA
11581 AAAATCATTT-ATA
1 AAAATCATTTAATA
* *
11594 AAAATAATTTATTA
1 AAAATCATTTAATA
11608 AAA
1 AAA
11611 GTAGTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATCATTTAATA
Found at i:12353 original size:23 final size:23
Alignment explanation
Indices: 12327--12372 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12317 GTAGAGTACA
12327 GTGACATTTCTTACGTGTTATAG
1 GTGACATTTCTTACGTGTTATAG
12350 GTGACATTTCTTACGTGTTATAG
1 GTGACATTTCTTACGTGTTATAG
12373 TTGTTGACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGACATTTCTTACGTGTTATAG
Found at i:15534 original size:14 final size:14
Alignment explanation
Indices: 15511--15559 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15501 AGATTTAATA
15511 TATTTAATAATATAT
1 TATTT-ATAATATAT
*
15526 TATTTAT-A-ACAT
1 TATTTATAATATAT
*
15538 T-TTAATAATATAT
1 TATTTATAATATAT
15551 TATTTATAA
1 TATTTATAA
15560 CATTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 5 0.19
14 8 0.30
15 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTATAATATAT
Found at i:15546 original size:25 final size:25
Alignment explanation
Indices: 15513--15567 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
15503 ATTTAATATA
15513 TTTAATAATATATTATTTATAACAT
1 TTTAATAATATATTATTTATAACAT
15538 TTTAATAATATATTATTTATAACAT
1 TTTAATAATATATTATTTATAACAT
15563 TTTAA
1 TTTAA
15568 ATTACAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAATAATATATTATTTATAACAT
Found at i:18869 original size:24 final size:24
Alignment explanation
Indices: 18842--18888 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18832 TGCCGCTATC
18842 AAATAACGGCGTCTAGACGCCGTT
1 AAATAACGGCGTCTAGACGCCGTT
** *
18866 AAATAGTGGCGTTTAGACGCCGT
1 AAATAACGGCGTCTAGACGCCGT
18889 CATACAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
AAATAACGGCGTCTAGACGCCGTT
Found at i:19145 original size:89 final size:89
Alignment explanation
Indices: 18923--19157 Score: 283
Period size: 89 Copynumber: 2.6 Consensus size: 89
18913 ATTTTTTTAA
* *
18923 AAATAACATATAGTGGCGTCTAGACGCCACTATTTAACAGCGTCTAGACGCCGCTATCTGTAGAT
1 AAATAATATATAGTGGCGTCTAGACGCCACTATTTAACGGCGTCTAGACGCCGCTATCTGTAGAT
18988 GTTCACAAAAAATAATACTTTTTT
66 GTTCACAAAAAATAATACTTTTTT
* * * *
19012 AAATAATATATAATGGCATCTAGACGCCACTATTTAACGACGTCTAGAAGCCGCTATCTGTAGAT
1 AAATAATATATAGTGGCGTCTAGACGCCACTATTTAACGGCGTCTAGACGCCGCTATCTGTAGAT
*** *
19077 GTT-TGTAAAATTAATACTTTTTTT
66 GTTCACAAAAAATAATAC-TTTTTT
* ** * * * ***
19101 AATTTGTATATAGCGGCGCCTTGACGCCACTATTTGGGGGCGTCTAGACGCCGCTAT
1 AAATAATATATAGTGGCGTCTAGACGCCACTATTTAACGGCGTCTAGACGCCGCTAT
19158 ATGCAATTAA
Statistics
Matches: 122, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
88 10 0.08
89 112 0.92
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (89 bp):
AAATAATATATAGTGGCGTCTAGACGCCACTATTTAACGGCGTCTAGACGCCGCTATCTGTAGAT
GTTCACAAAAAATAATACTTTTTT
Found at i:19255 original size:32 final size:31
Alignment explanation
Indices: 19213--19330 Score: 155
Period size: 32 Copynumber: 3.7 Consensus size: 31
19203 GGCGACTAGG
* *
19213 CGCCGTTAAATAGAGGCGTTTTGTTCTACAGA
1 CGCCGCTAAATA-AGGCGTTTTGTTCTATAGA
* *
19245 CGCCGCTAAATATGGGCGTTTTGTTCTTTAGA
1 CGCCGCTAAATA-AGGCGTTTTGTTCTATAGA
*
19277 CGGCGCTAAATAAGGACGTTTTGTTCTATAGA
1 CGCCGCTAAATAAGG-CGTTTTGTTCTATAGA
19309 CGCCGCTAAATAAGGCTGTTTT
1 CGCCGCTAAATAAGGC-GTTTT
19331 CTTTTCATAC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 3 0.04
32 72 0.96
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (31 bp):
CGCCGCTAAATAAGGCGTTTTGTTCTATAGA
Found at i:20742 original size:64 final size:64
Alignment explanation
Indices: 20641--20769 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
20631 TACAATTTGA
20641 ATGACTTGATATTAATATCTATTGTGATCCTTAGAGTATCGATAGAGTGACAATTTAGTCCTCC
1 ATGACTTGATATTAATATCTATTGTGATCCTTAGAGTATCGATAGAGTGACAATTTAGTCCTCC
20705 ATGACTTGATATTAATATCTATTGTGATCCTTAGAGTATCGATAGAGTGACAATTTAGTCCTCC
1 ATGACTTGATATTAATATCTATTGTGATCCTTAGAGTATCGATAGAGTGACAATTTAGTCCTCC
20769 A
1 A
20770 ACTAATATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (64 bp):
ATGACTTGATATTAATATCTATTGTGATCCTTAGAGTATCGATAGAGTGACAATTTAGTCCTCC
Found at i:21130 original size:11 final size:11
Alignment explanation
Indices: 21097--21155 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
21087 ATCCTAGCCA
*
21097 TCCATCACTTG
1 TCCATCACTAG
* *
21108 GCCATCATTAG
1 TCCATCACTAG
21119 TCCATCACTAG
1 TCCATCACTAG
*
21130 TCCAACACTAG
1 TCCATCACTAG
*
21141 TCCATCATTAG
1 TCCATCACTAG
21152 TCCA
1 TCCA
21156 CCTCTAGTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.27, C:0.34, G:0.10, T:0.29
Consensus pattern (11 bp):
TCCATCACTAG
Found at i:21152 original size:22 final size:22
Alignment explanation
Indices: 21097--21164 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
21087 ATCCTAGCCA
* * * *
21097 TCCATCACTTGGCCATCATTAG
1 TCCATCACTAGTCCAACACTAG
21119 TCCATCACTAGTCCAACACTAG
1 TCCATCACTAGTCCAACACTAG
* * *
21141 TCCATCATTAGTCCACCTCTAG
1 TCCATCACTAGTCCAACACTAG
21163 TC
1 TC
21165 TAACTTAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.35, G:0.10, T:0.29
Consensus pattern (22 bp):
TCCATCACTAGTCCAACACTAG
Found at i:21163 original size:11 final size:11
Alignment explanation
Indices: 21116--21164 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
21106 TGGCCATCAT
*
21116 TAGTCCATCAC
1 TAGTCCACCAC
*
21127 TAGTCCAACAC
1 TAGTCCACCAC
* *
21138 TAGTCCATCAT
1 TAGTCCACCAC
*
21149 TAGTCCACCTC
1 TAGTCCACCAC
21160 TAGTC
1 TAGTC
21165 TAACTTAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.27, C:0.35, G:0.10, T:0.29
Consensus pattern (11 bp):
TAGTCCACCAC
Found at i:21236 original size:12 final size:12
Alignment explanation
Indices: 21219--21244 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21209 AATAATGGTG
21219 CTTTCACTCAAT
1 CTTTCACTCAAT
21231 CTTTCACTCAAT
1 CTTTCACTCAAT
21243 CT
1 CT
21245 CATGATTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (12 bp):
CTTTCACTCAAT
Found at i:26909 original size:11 final size:11
Alignment explanation
Indices: 26885--26919 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
26875 CCTTGCCGTT
* *
26885 CATCACTAGGC
1 CATCATTAGTC
26896 CATCATTAGTC
1 CATCATTAGTC
26907 CATCATTAGTC
1 CATCATTAGTC
26918 CA
1 CA
26920 CCTCTAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (11 bp):
CATCATTAGTC
Found at i:50492 original size:30 final size:30
Alignment explanation
Indices: 50422--50826 Score: 503
Period size: 30 Copynumber: 13.6 Consensus size: 30
50412 TATTCAAAGA
*** *
50422 TGACACCAGAAGTTGTCATGAT-AACCAAA
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
50451 TGACACCAGAAGTTGTCATGATCTTGCAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* *
50481 TGACACAAGAAGTTGTCATGATCTTACAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* * *
50511 TGACACTAGAAGATGTCATGAGCTTGCAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
*
50541 TGACACCATAAGTTGTCATGATCTTGCAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* * *
50571 TGACACCAGAAGTTGTCATAATCTTACAAA
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* * * *
50601 TGACACCAGAAGTTGCCATGGTCTTACAAA
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* * * *
50631 TGACTCCAGAAGTTGTCATGGTCTTACAAA
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* * *
50661 TGACACCAGAAGTTGTCATGGTCTTACAAA
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* *
50691 GGACACCAGAAGTTGTCATGATTTTGCAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* *
50721 TGACACCATAAGTTGTCATGATTTTGCAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
* *
50751 TGACACCAGAAGTTGTCATGCTCTTGTAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
50781 TGACA-C--AAGTTGTCATGATCTTGCAAT
1 TGACACCAGAAGTTGTCATGATCTTGCAAT
*
50808 TGACACAAGAAGTTGTCAT
1 TGACACCAGAAGTTGTCAT
50827 ATACACTATT
Statistics
Matches: 334, Mismatches: 38, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.07
29 23 0.07
30 287 0.86
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (30 bp):
TGACACCAGAAGTTGTCATGATCTTGCAAT
Found at i:55537 original size:66 final size:66
Alignment explanation
Indices: 55407--55550 Score: 231
Period size: 66 Copynumber: 2.2 Consensus size: 66
55397 TAGATCACAA
*
55407 ATTTAATTGTTATTTATTTTTAACGTTATGCAAATTAAATTCTAACGTTATATATTAATGTTAAA
1 ATTTAATTGTTATTTATTTTTAACGTTATGCAAATTAAATTCTAACGTTATATATTAATATTAAA
55472 T
66 T
*
55473 ATTTAATTGTTATTTATTTTTAACGTTATGTAAATTAAATTCTAACGTTATATA-TATATATTAA
1 ATTTAATTGTTATTTATTTTTAACGTTATGCAAATTAAATTCTAACGTTATATATTA-ATATTAA
55537 AT
65 AT
55539 -TCTTAA-TGTTAT
1 AT-TTAATTGTTAT
55551 ATAACGTTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
65 9 0.12
66 65 0.88
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (66 bp):
ATTTAATTGTTATTTATTTTTAACGTTATGCAAATTAAATTCTAACGTTATATATTAATATTAAA
T
Found at i:55563 original size:29 final size:26
Alignment explanation
Indices: 55506--55604 Score: 107
Period size: 23 Copynumber: 3.8 Consensus size: 26
55496 CGTTATGTAA
*
55506 ATTAAATTC-TAACGTTATATATATAT
1 ATTAAATTCTTAATGTTATATAT-TAT
55532 ATTAAATTCTTAATGTTATATAACGTTAT
1 ATTAAATTCTTAATGTTATAT-A--TTAT
* *
55561 ATTTAATTCTTAA-GGT-TATA-TAT
1 ATTAAATTCTTAATGTTATATATTAT
55584 ATTAAATTCTTAATGTTATAT
1 ATTAAATTCTTAATGTTATAT
55605 TCAATGTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
23 15 0.24
24 2 0.03
25 3 0.05
26 10 0.16
27 13 0.21
28 3 0.05
29 15 0.24
30 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (26 bp):
ATTAAATTCTTAATGTTATATATTAT
Found at i:55580 original size:19 final size:20
Alignment explanation
Indices: 55556--55605 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
55546 GTTATATAAC
55556 GTTATATTT-AATTCTTAAG
1 GTTATATTTAAATTCTTAAG
*
55575 GTTATATATATTAAATTCTTAAT
1 G-T-TATAT-TTAAATTCTTAAG
55598 GTTATATT
1 GTTATATT
55606 CAATGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 10 0.38
22 3 0.12
23 10 0.38
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (20 bp):
GTTATATTTAAATTCTTAAG
Done.