Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011715.1 Corchorus capsularis cultivar CVL-1 contig11736, 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: 31369
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Found at i:4633 original size:26 final size:26
Alignment explanation
Indices: 4597--4674 Score: 120
Period size: 26 Copynumber: 2.9 Consensus size: 26
4587 CTAGGGTTAC
4597 TATAAAAAAATTTATTAATATTTTAT
1 TATAAAAAAATTTATTAATATTTTAT
*
4623 TATAAAAAAATTTCTTAATATTTTAT
1 TATAAAAAAATTTATTAATATTTTAT
*
4649 CATAAAAAAATTTTATTTAATATTTT
1 TATAAAAAAA-TTTA-TTAATATTTT
4675 GTTCTGGCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 34 0.72
27 3 0.06
28 10 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (26 bp):
TATAAAAAAATTTATTAATATTTTAT
Found at i:12852 original size:15 final size:15
Alignment explanation
Indices: 12832--12901 Score: 68
Period size: 15 Copynumber: 4.3 Consensus size: 15
12822 AGTCATGAGT
*
12832 TTGAAAGTTTGAAGG
1 TTGAAAGTTTGAAGA
12847 TTGAAAGTTTGAAGA
1 TTGAAAGTTTGAAGA
*
12862 TTGAGAGAATTTGAGAGAA
1 TTGA-A-AGTTTGA-AG-A
*
12881 TTGAAAAGTTTGAAGT
1 TTG-AAAGTTTGAAGA
12897 TTGAA
1 TTGAA
12902 GAAAATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
15 20 0.43
16 4 0.09
17 8 0.17
18 8 0.17
19 5 0.11
20 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.33
Consensus pattern (15 bp):
TTGAAAGTTTGAAGA
Found at i:16219 original size:13 final size:13
Alignment explanation
Indices: 16201--16225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16191 AATTATAAGT
16201 TGAAGAAATTGGA
1 TGAAGAAATTGGA
16214 TGAAGAAATTGG
1 TGAAGAAATTGG
16226 TTTGAGGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (13 bp):
TGAAGAAATTGGA
Found at i:17702 original size:14 final size:13
Alignment explanation
Indices: 17685--17727 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
17675 TTATTACTAG
17685 TTTTAATAAATTGT
1 TTTTAATAAA-TGT
17699 TTTT-ATAAATGAT
1 TTTTAATAAATG-T
*
17712 TTTTATTAAATGT
1 TTTTAATAAATGT
17725 TTT
1 TTT
17728 GGGTGCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.08
13 14 0.54
14 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (13 bp):
TTTTAATAAATGT
Found at i:20069 original size:18 final size:19
Alignment explanation
Indices: 20046--20090 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20036 TTTGCATTAT
20046 AATTAAATAAC-AA-TAATC
1 AATTAAA-AACAAACTAATC
*
20064 AATTAAAACCAAACTAATC
1 AATTAAAAACAAACTAATC
20083 AATTAAAA
1 AATTAAAA
20091 TTAACTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 9 0.38
19 13 0.54
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (19 bp):
AATTAAAAACAAACTAATC
Found at i:21327 original size:2 final size:2
Alignment explanation
Indices: 21320--21356 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
21310 AAACTATAAC
21320 TA TA TA TA TA TA TA TA TA TA TA TA TA -A CTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
21357 CTATCTACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.94
3 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21419 original size:25 final size:26
Alignment explanation
Indices: 21391--21449 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
21381 ATTTTCTTGG
21391 CCTTTTC-CATTTCT-TTCTTTTTTTC
1 CCTTTTCTC-TTTCTATTCTTTTTTTC
* *
21416 CCTTGTCTCTTTCTATTTTTTTTTTC
1 CCTTTTCTCTTTCTATTCTTTTTTTC
*
21442 CATTTTCT
1 CCTTTTCT
21450 GAACCAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (26 bp):
CCTTTTCTCTTTCTATTCTTTTTTTC
Found at i:23828 original size:109 final size:109
Alignment explanation
Indices: 23561--23834 Score: 419
Period size: 108 Copynumber: 2.5 Consensus size: 109
23551 ACTATTATAG
* * *
23561 TTTTATTCTACTAGAAACTCTATTTTTATTCAATTAAATTAAATCTAATATCTTTATAATTACTT
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAA-T---TCTAATATCTTTATAATTACTT
* *
23626 TATTTTTACCAAAAAATTTGGATATACTAAAATTTTTCTAATATATAA
62 TATTTTTACCAAAAAAATTGGATATACTAAAATTTTTCTAATATACAA
*
23674 TTTTATTCTACTAAAAACTCAATTTTCATTTAATTAAA-TCTAATATCTTTATAATTACTTTATT
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATTCTAATATCTTTATAATTACTTTATT
*
23738 TTTACCAAAAAAATTGGATATATTAAAATTTTTTCTAATATACAA
66 TTTACCAAAAAAATTGGATATACTAAAA-TTTTTCTAATATACAA
23783 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATTC-AATAT-TTTATA
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATTCTAATATCTTTATA
23835 TAATTTTTTT
Statistics
Matches: 151, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
108 58 0.38
109 57 0.38
110 2 0.01
113 34 0.23
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (109 bp):
TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATTCTAATATCTTTATAATTACTTTATT
TTTACCAAAAAAATTGGATATACTAAAATTTTTCTAATATACAA
Found at i:25696 original size:24 final size:24
Alignment explanation
Indices: 25664--25712 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25654 TAATTCAATC
25664 AATTAATCAATCAAGCACCACTCT
1 AATTAATCAATCAAGCACCACTCT
25688 AATTAATCAATCAAGCACCACTCT
1 AATTAATCAATCAAGCACCACTCT
25712 A
1 A
25713 GAACAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.24
Consensus pattern (24 bp):
AATTAATCAATCAAGCACCACTCT
Found at i:28362 original size:14 final size:14
Alignment explanation
Indices: 28329--28367 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
28319 AAATTTCCTT
*
28329 AACCCGAAACTAACCT
1 AACCC-AAA-TAACCG
28345 AACCCAAATAACCG
1 AACCCAAATAACCG
28359 AACCCAAAT
1 AACCCAAAT
28368 CCAATCCGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (14 bp):
AACCCAAATAACCG
Found at i:29157 original size:7 final size:7
Alignment explanation
Indices: 29118--29234 Score: 64
Period size: 7 Copynumber: 16.9 Consensus size: 7
29108 TGATTAATAT
29118 TTTACTC
1 TTTACTC
29125 TTTAC-C
1 TTTACTC
**
29131 ATTTTTTC
1 -TTTACTC
*
29139 TTTACTG
1 TTTACTC
*
29146 ATTACTC
1 TTTACTC
29153 TTTACTC
1 TTTACTC
29160 TTTAC-C
1 TTTACTC
29166 ATTT-CTC
1 -TTTACTC
*
29173 TTTACTG
1 TTTACTC
* *
29180 ATTACTT
1 TTTACTC
29187 TTTACTC
1 TTTACTC
*
29194 TTTACTG
1 TTTACTC
*
29201 ATTAC-C
1 TTTACTC
* *
29207 ATTACTT
1 TTTACTC
29214 TTTAC-C
1 TTTACTC
29220 ATTTTACTC
1 --TTTACTC
29229 TTTACT
1 TTTACT
29235 GATGCCTTTT
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
6 11 0.13
7 64 0.78
8 6 0.07
9 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.03, T:0.56
Consensus pattern (7 bp):
TTTACTC
Found at i:29180 original size:34 final size:34
Alignment explanation
Indices: 29094--29198 Score: 156
Period size: 34 Copynumber: 3.0 Consensus size: 34
29084 TTACTGATTG
* *
29094 CCATTTCTTTTTACTGATTAATATTTTACTCTTTA
1 CCATTTCTCTTTACTGATTACT-TTTTACTCTTTA
* *
29129 CCATTTTTTCTTTACTGATTACTCTTTACTCTTTA
1 CCA-TTTCTCTTTACTGATTACTTTTTACTCTTTA
29164 CCATTTCTCTTTACTGATTACTTTTTACTCTTTA
1 CCATTTCTCTTTACTGATTACTTTTTACTCTTTA
29198 C
1 C
29199 TGATTACCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
34 30 0.48
35 17 0.27
36 16 0.25
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.56
Consensus pattern (34 bp):
CCATTTCTCTTTACTGATTACTTTTTACTCTTTA
Found at i:29185 original size:27 final size:28
Alignment explanation
Indices: 29154--29237 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 28
29144 TGATTACTCT
*
29154 TTACTCTTTACCATTT-CTCTTTACTGA
1 TTACTTTTTACCATTTACTCTTTACTGA
** *
29181 TTACTTTTTACTC-TTTACTGATTAC-CA
1 TTACTTTTTAC-CATTTACTCTTTACTGA
29208 TTACTTTTTACCATTTTACTCTTTACTGA
1 TTACTTTTTACCA-TTTACTCTTTACTGA
29237 T
1 T
29238 GCCTTTTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
26 1 0.02
27 25 0.56
28 17 0.38
29 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.04, T:0.54
Consensus pattern (28 bp):
TTACTTTTTACCATTTACTCTTTACTGA
Found at i:29212 original size:34 final size:35
Alignment explanation
Indices: 29104--29237 Score: 112
Period size: 34 Copynumber: 3.8 Consensus size: 35
29094 CCATTTCTTT
* * ** *
29104 TTACTGATTAATATTTTACTCTTTAC-CATTTTTTCT
1 TTACTGATTACT-TTTTACTCTTTACTGA-TTACTCA
* * * *
29140 TTACTGATTACTCTTTACTCTTTAC-CATTTCTCT
1 TTACTGATTACTTTTTACTCTTTACTGATTACTCA
29174 TTACTGATTACTTTTTACTCTTTACTGATTAC-CA
1 TTACTGATTACTTTTTACTCTTTACTGATTACTCA
** *
29208 TTACTTTTTACCATTTTACTCTTTACTGAT
1 TTACTGATTA-CTTTTTACTCTTTACTGAT
29238 GCCTTTTCAA
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
34 39 0.45
35 36 0.42
36 11 0.13
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (35 bp):
TTACTGATTACTTTTTACTCTTTACTGATTACTCA
Found at i:29218 original size:13 final size:13
Alignment explanation
Indices: 29154--29233 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
29144 TGATTACTCT
29154 TTACTCTTTACCA
1 TTACTCTTTACCA
* *
29167 TTTCTCTTTACTGA
1 TTACTCTTTAC-CA
* *
29181 TTACTTTTTACTCT
1 TTACTCTTTAC-CA
**
29195 TTACTGATTACCA
1 TTACTCTTTACCA
*
29208 TTACTTTTTACCA
1 TTACTCTTTACCA
29221 TTTTACTCTTTAC
1 --TTACTCTTTAC
29234 TGATGCCTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
13 22 0.42
14 20 0.38
15 10 0.19
ACGTcount: A:0.20, C:0.24, G:0.03, T:0.54
Consensus pattern (13 bp):
TTACTCTTTACCA
Found at i:29331 original size:26 final size:26
Alignment explanation
Indices: 29302--29524 Score: 197
Period size: 26 Copynumber: 8.4 Consensus size: 26
29292 CTTTATTGAC
29302 TACT-ATTACGCTTTTCTTACTCTTTT
1 TACTGATTAC-CTTTTCTTACTCTTTT
* *
29328 TACTGAATA-TTGTTTCTTACTCTTTT
1 TACTGATTACCT-TTTCTTACTCTTTT
*
29354 TACTGATGACTCTTTTTCTTACTCTTTT
1 TACTGATTAC-C-TTTTCTTACTCTTTT
*
29382 TACTGAATA-CTGTTTCTTACTCTTTT
1 TACTGATTACCT-TTTCTTACTCTTTT
**
29408 TACTGATGGCTCTTTTCTTACTCTTTT
1 TACTGATTAC-CTTTTCTTACTCTTTT
* * *
29435 TACTGAATA-TTGTTTCTTACTCTATT
1 TACTGATTACCT-TTTCTTACTCTTTT
*
29461 TACTGATGACCCTTTTCTTACTCTTTT
1 TACTGATTA-CCTTTTCTTACTCTTTT
**
29488 TACTGAATGT-TGTTTT-TTACTCTTTTT
1 TACTG-AT-TACCTTTTCTTACTC-TTTT
29515 TACTGATTAC
1 TACTGATTAC
29525 TGATTACTGA
Statistics
Matches: 159, Mismatches: 23, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
25 4 0.03
26 74 0.47
27 54 0.34
28 26 0.16
29 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.08, T:0.56
Consensus pattern (26 bp):
TACTGATTACCTTTTCTTACTCTTTT
Found at i:29367 original size:16 final size:15
Alignment explanation
Indices: 29345--29440 Score: 63
Period size: 12 Copynumber: 7.0 Consensus size: 15
29335 TATTGTTTCT
29345 TACTCTTTTTACTGA
1 TACTCTTTTTACTGA
29360 TGACTCTTTTT-CT--
1 T-ACTCTTTTTACTGA
29373 TACTCTTTTTACTGA
1 TACTCTTTTTACTGA
*
29388 -A-TACTGTTT-CT--
1 TACT-CTTTTTACTGA
29399 TACTCTTTTTACTGA
1 TACTCTTTTTACTGA
*
29414 TGGCTC-TTTT-CT--
1 T-ACTCTTTTTACTGA
29426 TACTCTTTTTACTGA
1 TACTCTTTTTACTGA
29441 ATATTGTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 30
0.65 0.04 0.31
Matches are distributed among these distances:
11 3 0.05
12 20 0.32
13 11 0.18
14 8 0.13
15 8 0.13
16 12 0.19
ACGTcount: A:0.16, C:0.21, G:0.08, T:0.55
Consensus pattern (15 bp):
TACTCTTTTTACTGA
Found at i:29369 original size:53 final size:53
Alignment explanation
Indices: 29312--29521 Score: 348
Period size: 53 Copynumber: 3.9 Consensus size: 53
29302 TACTATTACG
29312 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTTTTTACTGATGACT
1 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTTTTTACTGATGACT
* *
29365 CTTTTTCTTACTCTTTTTACTGAATACTGTTTCTTACTCTTTTTACTGATGGCT
1 C-TTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTTTTTACTGATGACT
* *
29419 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTATTTACTGATGACC
1 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTTTTTACTGATGACT
* *
29472 CTTTTCTTACTCTTTTTACTGAATGTTGTTTTTTACTCTTTTTTACTGAT
1 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTC-TTTTTACTGAT
29522 TACTGATTAC
Statistics
Matches: 146, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
53 85 0.58
54 61 0.42
ACGTcount: A:0.16, C:0.19, G:0.08, T:0.57
Consensus pattern (53 bp):
CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTTTTTACTGATGACT
Found at i:29423 original size:107 final size:107
Alignment explanation
Indices: 29312--29521 Score: 359
Period size: 107 Copynumber: 2.0 Consensus size: 107
29302 TACTATTACG
* *
29312 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTTTTTACTGATGACTCTTTTTCTTACT
1 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTATTTACTGATGAC-CCTTTTCTTACT
29377 CTTTTTACTGAATACTGTTTCTTACTC-TTTTTACTGATGGCT
65 CTTTTTACTGAATACTGTTTCTTACTCTTTTTTACTGATGGCT
29419 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTATTTACTGATGACCCTTTTCTTACTC
1 CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTATTTACTGATGACCCTTTTCTTACTC
** *
29484 TTTTTACTGAATGTTGTTTTTTACTCTTTTTTACTGAT
66 TTTTTACTGAATACTGTTTCTTACTCTTTTTTACTGAT
29522 TACTGATTAC
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 35 0.36
107 62 0.64
ACGTcount: A:0.16, C:0.19, G:0.08, T:0.57
Consensus pattern (107 bp):
CTTTTCTTACTCTTTTTACTGAATATTGTTTCTTACTCTATTTACTGATGACCCTTTTCTTACTC
TTTTTACTGAATACTGTTTCTTACTCTTTTTTACTGATGGCT
Found at i:29526 original size:7 final size:7
Alignment explanation
Indices: 29514--29544 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
29504 TTACTCTTTT
29514 TTACTGA
1 TTACTGA
29521 TTACTGA
1 TTACTGA
29528 TTACTGA
1 TTACTGA
29535 TTACT-A
1 TTACTGA
29541 TTAC
1 TTAC
29545 CTTAACTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (7 bp):
TTACTGA
Found at i:29637 original size:56 final size:56
Alignment explanation
Indices: 29511--29694 Score: 268
Period size: 56 Copynumber: 3.4 Consensus size: 56
29501 TTTTTACTCT
* ** * *
29511 TTTTTAC-TGATTACTGA-TTACTGATTACTATTACCTTAACTC-TGATTAATCTC
1 TTTTTACTTAATTACTGATTTACTGATTACTGCTACTTTGACTCATGATTAATCTC
*
29564 -TTTTACTTAATTCCTGATTTACTGATTACTGCTACTTTGACTCATGATTAATCTC
1 TTTTTACTTAATTACTGATTTACTGATTACTGCTACTTTGACTCATGATTAATCTC
*
29619 TTTTTACTTAATTACTGATTTACTAATTACTGCTACTTTGACTCATGATTAATCTC
1 TTTTTACTTAATTACTGATTTACTGATTACTGCTACTTTGACTCATGATTAATCTC
*
29675 TTTTTACTTAATTATTGATT
1 TTTTTACTTAATTACTGATT
29695 GCCCCCTTTC
Statistics
Matches: 118, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
52 6 0.05
53 8 0.07
54 21 0.18
55 11 0.09
56 72 0.61
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (56 bp):
TTTTTACTTAATTACTGATTTACTGATTACTGCTACTTTGACTCATGATTAATCTC
Found at i:29645 original size:15 final size:16
Alignment explanation
Indices: 29621--29650 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29611 TTAATCTCTT
29621 TTTACTTAATTACTGA
1 TTTACTTAATTACTGA
29637 TTTAC-TAATTACTG
1 TTTACTTAATTACTG
29651 CTACTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (16 bp):
TTTACTTAATTACTGA
Found at i:30676 original size:10 final size:11
Alignment explanation
Indices: 30651--30679 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
30641 AGATTAGTCC
30651 TTTATCACCAA
1 TTTATCACCAA
30662 TTTATCACC-A
1 TTTATCACCAA
30672 TTTATCAC
1 TTTATCAC
30680 TTAAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (11 bp):
TTTATCACCAA
Done.