Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007109.1 Corchorus capsularis cultivar CVL-1 contig07130, 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: 28159
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Found at i:867 original size:10 final size:10
Alignment explanation
Indices: 852--903 Score: 59
Period size: 10 Copynumber: 4.8 Consensus size: 10
842 TCGACACCAA
852 GCCATGCCCG
1 GCCATGCCCG
862 GCCATGTCCGCG
1 GCCATG-CC-CG
*
874 CACCATGCCCG
1 -GCCATGCCCG
885 GCCATGCCCG
1 GCCATGCCCG
895 GCCAATGCC
1 GCC-ATGCC
904 ATGTCATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
10 18 0.50
11 9 0.25
12 4 0.11
13 5 0.14
ACGTcount: A:0.13, C:0.48, G:0.27, T:0.12
Consensus pattern (10 bp):
GCCATGCCCG
Found at i:3163 original size:10 final size:10
Alignment explanation
Indices: 3148--3172 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3138 GTTGCTACAC
3148 AATTCCAGAA
1 AATTCCAGAA
3158 AATTCCAGAA
1 AATTCCAGAA
3168 AATTC
1 AATTC
3173 TAGAGTCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (10 bp):
AATTCCAGAA
Found at i:4118 original size:6 final size:6
Alignment explanation
Indices: 4107--4133 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4097 ATTAATCTGC
4107 TTTAGA TTTAGA TTTAGA TTTAGA TTT
1 TTTAGA TTTAGA TTTAGA TTTAGA TTT
4134 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:6409 original size:20 final size:21
Alignment explanation
Indices: 6381--6419 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6371 TAACAAACAT
**
6381 CAAACAACCCTAAAAAAAGCC
1 CAAACAACCAAAAAAAAAGCC
6402 CAAA-AACCAAAAAAAAAG
1 CAAACAACCAAAAAAAAAG
6420 AGCCTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.67, C:0.26, G:0.05, T:0.03
Consensus pattern (21 bp):
CAAACAACCAAAAAAAAAGCC
Found at i:6423 original size:22 final size:21
Alignment explanation
Indices: 6392--6434 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6382 AAACAACCCT
6392 AAAAAAAGCCCAAAAACCAAA
1 AAAAAAAGCCCAAAAACCAAA
* *
6413 AAAAAAGAGCCTAATAACCAAA
1 AAAAAA-AGCCCAAAAACCAAA
6435 TCAAATTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.67, C:0.21, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAAAAAGCCCAAAAACCAAA
Found at i:7404 original size:30 final size:30
Alignment explanation
Indices: 7368--7435 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
7358 GGACAAAGAT
*
7368 AATCAGCCCCCAGGTATGGTTAAAGATAGC
1 AATCAGCCCCCAGGTATGGTTAAAAATAGC
7398 AATCAGCCCCCAGGTATGGTTAAAAATAGC
1 AATCAGCCCCCAGGTATGGTTAAAAATAGC
*
7428 AATTAGCC
1 AATCAGCC
7436 ATTCATTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (30 bp):
AATCAGCCCCCAGGTATGGTTAAAAATAGC
Found at i:11979 original size:27 final size:27
Alignment explanation
Indices: 11901--12022 Score: 86
Period size: 27 Copynumber: 4.5 Consensus size: 27
11891 AAAGATGCTC
* * **
11901 CCGTAGTTGGCACTCATGCTGAAATTCT
1 CCGTAGTTGGGACTCATGC-CAAAGCCT
* * * *
11929 -CGCAGTTTGGACGCACGCCAAAGCCT
1 CCGTAGTTGGGACTCATGCCAAAGCCT
* * *
11955 CCGTAGTTGGGTCTCATTCCGAAG-CT
1 CCGTAGTTGGGACTCATGCCAAAGCCT
* *
11981 CCCGCAGTTGAGACTCATGCCAAAGCCT
1 -CCGTAGTTGGGACTCATGCCAAAGCCT
*
12009 CCATAGTTGGGACT
1 CCGTAGTTGGGACT
12023 TATGTTAAAG
Statistics
Matches: 68, Mismatches: 23, Indels: 7
0.69 0.23 0.07
Matches are distributed among these distances:
26 7 0.10
27 59 0.87
28 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (27 bp):
CCGTAGTTGGGACTCATGCCAAAGCCT
Found at i:12074 original size:27 final size:27
Alignment explanation
Indices: 12044--12192 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
12034 ACTCAAGCCG
* *
12044 AAGCTCCCGTAGTTGGGGCTCATGTTA
1 AAGCTCCCGCAGTTGGGACTCATGTTA
* ** *
12071 AAGCTCCCGCAGTAGGGACTCATACTG
1 AAGCTCCCGCAGTTGGGACTCATGTTA
* *
12098 AAGCTCCCGCGGTTGGGACTCATGTCA
1 AAGCTCCCGCAGTTGGGACTCATGTTA
* **
12125 AAGC-CTCCGCAGTTGGGATTCATGCCA
1 AAGCTC-CCGCAGTTGGGACTCATGTTA
* * *
12152 AAGCAT-CCGCAATTGGGACTTATGTTG
1 AAGC-TCCCGCAGTTGGGACTCATGTTA
12179 AAGCTCCCGCAGTT
1 AAGCTCCCGCAGTT
12193 AGGTTTTGTG
Statistics
Matches: 96, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 94 0.98
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (27 bp):
AAGCTCCCGCAGTTGGGACTCATGTTA
Found at i:12114 original size:54 final size:54
Alignment explanation
Indices: 12032--12191 Score: 164
Period size: 54 Copynumber: 3.0 Consensus size: 54
12022 TTATGTTAAA
* *
12032 GGACTCA-AGCCGAAGCTCCCGTAGTTGGGGCTCATGTTAAAGCTCCCGCAGTAG
1 GGACTCATA-CCGAAGCTCCCGCAGTTGGGACTCATGTTAAAGCTCCCGCAGTAG
* * * *
12086 GGACTCATACTGAAGCTCCCGCGGTTGGGACTCATGTCAAAGC-CTCCGCAGTTG
1 GGACTCATACCGAAGCTCCCGCAGTTGGGACTCATGTTAAAGCTC-CCGCAGTAG
* * * * * *
12140 GGATTCATGCCAAAGCAT-CCGCAATTGGGACTTATGTTGAAGCTCCCGCAGT
1 GGACTCATACCGAAGC-TCCCGCAGTTGGGACTCATGTTAAAGCTCCCGCAGT
12192 TAGGTTTTGT
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 83 0.95
55 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.23
Consensus pattern (54 bp):
GGACTCATACCGAAGCTCCCGCAGTTGGGACTCATGTTAAAGCTCCCGCAGTAG
Found at i:13555 original size:27 final size:27
Alignment explanation
Indices: 13525--13580 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
13515 CACCGCGGGA
* *
13525 CAGCCATGATGCCTGCTGATGGCATAC
1 CAGCCACGATGCCCGCTGATGGCATAC
* *
13552 CAGCCACGATTCCCGCTGCTGGCATAC
1 CAGCCACGATGCCCGCTGATGGCATAC
13579 CA
1 CA
13581 ACTCTGCCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGCCACGATGCCCGCTGATGGCATAC
Found at i:17098 original size:48 final size:48
Alignment explanation
Indices: 17042--17194 Score: 189
Period size: 48 Copynumber: 3.2 Consensus size: 48
17032 ATGTGGCAGC
* * * ** **
17042 ATGGTGCTTGGCTTCTGCGGTAAAATTATGGTTGGCTTCTGCCGCGGA
1 ATGGTGCTTGACTTCTGCGGTAGAATTATGATTAACTTCTGCCGCAAA
* * *
17090 ATGGTGCTTGACGTGTGCGGTAGAATTGTGATTAACTTCTGCCGCAAA
1 ATGGTGCTTGACTTCTGCGGTAGAATTATGATTAACTTCTGCCGCAAA
* * *
17138 ATGGTGCTTGACTTTTGCGGTAGAATTGTGATTAACTTTTGCCGCAAA
1 ATGGTGCTTGACTTCTGCGGTAGAATTATGATTAACTTCTGCCGCAAA
17186 ATGGTGCTT
1 ATGGTGCTT
17195 AAGATTGGTG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (48 bp):
ATGGTGCTTGACTTCTGCGGTAGAATTATGATTAACTTCTGCCGCAAA
Found at i:17115 original size:24 final size:24
Alignment explanation
Indices: 17042--17163 Score: 82
Period size: 24 Copynumber: 5.1 Consensus size: 24
17032 ATGTGGCAGC
* *
17042 ATGGTGCTTGGCTTCTGCGGTAAA
1 ATGGTGCTTGACTTCTGCGGTAGA
** * * * **
17066 ATTATGGTTGGCTTCTGCCGCGGA
1 ATGGTGCTTGACTTCTGCGGTAGA
* *
17090 ATGGTGCTTGACGTGTGCGGTAGA
1 ATGGTGCTTGACTTCTGCGGTAGA
* * * * * *
17114 ATTGTGATTAACTTCTGCCGCAAA
1 ATGGTGCTTGACTTCTGCGGTAGA
*
17138 ATGGTGCTTGACTTTTGCGGTAGA
1 ATGGTGCTTGACTTCTGCGGTAGA
17162 AT
1 AT
17164 TGTGATTAAC
Statistics
Matches: 67, Mismatches: 31, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (24 bp):
ATGGTGCTTGACTTCTGCGGTAGA
Found at i:17196 original size:24 final size:24
Alignment explanation
Indices: 17121--17196 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
17111 AGAATTGTGA
*
17121 TTAACTTCTGCCGCAAAATGGTGC
1 TTAACTTTTGCCGCAAAATGGTGC
* * * * * *
17145 TTGACTTTTGCGGTAGAATTGTGA
1 TTAACTTTTGCCGCAAAATGGTGC
17169 TTAACTTTTGCCGCAAAATGGTGC
1 TTAACTTTTGCCGCAAAATGGTGC
17193 TTAA
1 TTAA
17197 GATTGGTGGC
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (24 bp):
TTAACTTTTGCCGCAAAATGGTGC
Found at i:17902 original size:25 final size:25
Alignment explanation
Indices: 17874--17924 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17864 ATGTTTACTC
17874 CAAGACTTGCAGAAGTTTTAATTGG
1 CAAGACTTGCAGAAGTTTTAATTGG
* ** *
17899 CAAGTCTTGTGGAAGTTTTAGTTGG
1 CAAGACTTGCAGAAGTTTTAATTGG
17924 C
1 C
17925 TCTAGGCACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (25 bp):
CAAGACTTGCAGAAGTTTTAATTGG
Found at i:18278 original size:27 final size:27
Alignment explanation
Indices: 18248--18331 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
18238 AGGCACGCCA
18248 AAGCCTCCGCAGTTGGGACTCATGCTG
1 AAGCCTCCGCAGTTGGGACTCATGCTG
* *
18275 AAG-CTCCCGCAGTTGGGACTCTTGC-C
1 AAGCCT-CCGCAGTTGGGACTCATGCTG
* *
18301 AATGCCTCCGTAGTTGGGACTTATGCTG
1 AA-GCCTCCGCAGTTGGGACTCATGCTG
18329 AAG
1 AAG
18332 GACTCATGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.09
27 39 0.83
28 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (27 bp):
AAGCCTCCGCAGTTGGGACTCATGCTG
Found at i:18286 original size:54 final size:54
Alignment explanation
Indices: 18204--18331 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
18194 ATGCTCCCGT
* * ** *
18204 AGTTGGCATTCATGCTGAAATTCCCGCAGTTGGGAGGCACGCCAAAGCCTCCGC
1 AGTTGGGACTCATGCTGAAGCTCCCGCAGTTGGGACGCACGCCAAAGCCTCCGC
* ** * *
18258 AGTTGGGACTCATGCTGAAGCTCCCGCAGTTGGGACTCTTGCCAATGCCTCCGT
1 AGTTGGGACTCATGCTGAAGCTCCCGCAGTTGGGACGCACGCCAAAGCCTCCGC
*
18312 AGTTGGGACTTATGCTGAAG
1 AGTTGGGACTCATGCTGAAG
18332 GACTCATGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (54 bp):
AGTTGGGACTCATGCTGAAGCTCCCGCAGTTGGGACGCACGCCAAAGCCTCCGC
Found at i:18372 original size:27 final size:27
Alignment explanation
Indices: 18333--18392 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
18323 ATGCTGAAGG
* **
18333 ACTCATGCCGAAGCTCCCGTTGTTGGA
1 ACTCATACCGAAGCTCCCGCGGTTGGA
* *
18360 ACTCATACTGAAGCTCCCGCGGTTGGG
1 ACTCATACCGAAGCTCCCGCGGTTGGA
18387 ACTCAT
1 ACTCAT
18393 GTCAAAGCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (27 bp):
ACTCATACCGAAGCTCCCGCGGTTGGA
Found at i:18400 original size:27 final size:27
Alignment explanation
Indices: 18382--18443 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
18372 GCTCCCGCGG
*
18382 TTGGGACTCATGTCAAAGCCTCCGCAA
1 TTGGGACTCATGCCAAAGCCTCCGCAA
*
18409 TTGGGATTCATGCCAAAGCCTCCGCAA
1 TTGGGACTCATGCCAAAGCCTCCGCAA
18436 TTGGGACT
1 TTGGGACT
18444 TATGTTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (27 bp):
TTGGGACTCATGCCAAAGCCTCCGCAA
Found at i:19705 original size:27 final size:27
Alignment explanation
Indices: 19667--19722 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
19657 CACCGCGAGA
*
19667 CAGCCATGATTCCCGCTGCTGGCATAC
1 CAGCCACGATTCCCGCTGCTGGCATAC
19694 CAGCCACGATTCCCGCTGCTGGCATAC
1 CAGCCACGATTCCCGCTGCTGGCATAC
19721 CA
1 CA
19723 ACTCTGCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.39, G:0.21, T:0.20
Consensus pattern (27 bp):
CAGCCACGATTCCCGCTGCTGGCATAC
Found at i:21526 original size:17 final size:17
Alignment explanation
Indices: 21460--21585 Score: 69
Period size: 17 Copynumber: 6.9 Consensus size: 17
21450 GATATACTAA
21460 AATAAATAGATAGATAAAT
1 AATAAATA-ATAGAT-AAT
*
21479 AATAGTATTACATAGATAAT
1 AATA--AATA-ATAGATAAT
**
21499 -AGCAATAAATAGATAAT
1 AATAAAT-AATAGATAAT
21516 AATAAATAATA-ATTACA-
1 AATAAATAATAGA-TA-AT
* * *
21533 AATAGATAAGAAAATAAAT
1 AATAAATAA-TAGAT-AAT
*
21552 AGTAAATAGATAGATAAT
1 AATAAATA-ATAGATAAT
21570 AATAAATAATAGATAA
1 AATAAATAATAGATAA
21586 AGAAAATAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
16 1 0.01
17 33 0.40
18 19 0.23
19 16 0.20
20 4 0.05
21 9 0.11
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (17 bp):
AATAAATAATAGATAAT
Found at i:21538 original size:44 final size:43
Alignment explanation
Indices: 21458--21594 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 43
21448 AGGATATACT
* *
21458 AAAATAAATAGAT-A-GATAAATAATAGTATTAC--ATAGATAAT
1 AAAATAAATAGATAATAATAAATAATA--ATTACAAATAGATAAG
*
21499 AGCAATAAATAGATAATAATAAATAATAATTACAAATAGATAAG
1 A-AAATAAATAGATAATAATAAATAATAATTACAAATAGATAAG
* *
21543 AAAATAAATAG-TAAATAGATAGATAATAA-TAAATAATAGATAAAG
1 AAAATAAATAGAT-AATA-ATAAATAATAATTACA-AATAGAT-AAG
21588 AAAATAA
1 AAAATAA
21595 TTTAAGAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
41 1 0.01
42 17 0.21
43 17 0.21
44 36 0.44
45 10 0.12
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (43 bp):
AAAATAAATAGATAATAATAAATAATAATTACAAATAGATAAG
Found at i:21560 original size:23 final size:22
Alignment explanation
Indices: 21502--21594 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 22
21492 AGATAATAGC
* *
21502 AATAAATAGATAATA-ATAA-AT
1 AATAAATA-AAAATAGATAAGAA
* *
21523 AATAATTACAAATAGATAAGAA
1 AATAAATAAAAATAGATAAGAA
* *
21545 AATAAATAGTAAATAGAT-AGAT
1 AATAAATA-AAAATAGATAAGAA
21567 AAT-AATAAATAATAGATAAAGAA
1 AATAAATAAA-AATAGAT-AAGAA
21590 AATAA
1 AATAA
21595 TTTAAGAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.09
21 22 0.39
22 14 0.25
23 14 0.25
24 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.25
Consensus pattern (22 bp):
AATAAATAAAAATAGATAAGAA
Found at i:23968 original size:11 final size:11
Alignment explanation
Indices: 23952--23983 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
23942 GAAGTTCGTG
23952 TTTGAAGATTA
1 TTTGAAGATTA
*
23963 TTTGAAGATAA
1 TTTGAAGATTA
23974 TTTGAAGATT
1 TTTGAAGATT
23984 TGAAGACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (11 bp):
TTTGAAGATTA
Found at i:23977 original size:22 final size:22
Alignment explanation
Indices: 23952--24006 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 22
23942 GAAGTTCGTG
*
23952 TTTGAAGATTATTTGAAGATAA
1 TTTGAAGATTATTTGAAGACAA
23974 TTTGAAG---ATTTGAAGACAA
1 TTTGAAGATTATTTGAAGACAA
23993 -TTGAAGAATTATTT
1 TTTGAAG-ATTATTT
24007 CAAAAAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 6 0.21
19 11 0.39
22 11 0.39
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (22 bp):
TTTGAAGATTATTTGAAGACAA
Found at i:25401 original size:15 final size:15
Alignment explanation
Indices: 25383--25418 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25373 TAGTTTTTAG
* *
25383 TTTAATTGTTTTCTT
1 TTTAATTGCTTCCTT
25398 TTTAATTGCTTCCTT
1 TTTAATTGCTTCCTT
25413 TTTAAT
1 TTTAAT
25419 CCCCTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTAATTGCTTCCTT
Done.