Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014109.1 Corchorus capsularis cultivar CVL-1 contig14130, 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: 13681
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Found at i:3093 original size:11 final size:11
Alignment explanation
Indices: 3077--3112 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
3067 ATATATTCAT
3077 TATTAATTAGA
1 TATTAATTAGA
*
3088 TATTAATTAGC
1 TATTAATTAGA
3099 TATTAATTAGA
1 TATTAATTAGA
3110 TAT
1 TAT
3113 AGTATAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (11 bp):
TATTAATTAGA
Found at i:3457 original size:2 final size:2
Alignment explanation
Indices: 3450--3479 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3440 AATAATTACC
3450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3480 CTAGTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3617 original size:22 final size:22
Alignment explanation
Indices: 3592--4190 Score: 290
Period size: 22 Copynumber: 27.6 Consensus size: 22
3582 ATGATCTCAT
3592 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTTCC
* ** *
3614 TATGAAATTTTAATAACGATAC
1 TATGAAATTTTGATAACCTTCC
* * * **
3636 TATGGAATTTCGAGAACCTTTT
1 TATGAAATTTTGATAACCTTCC
* ** *
3658 TAT-AATTTTTTTTAACCTTCT
1 TATGAAATTTTGATAACCTTCC
* * *
3679 TATGAAATTTGGTTAACCTCCC
1 TATGAAATTTTGATAACCTTCC
* * *
3701 TAAG-AATTTTGA-AGA-ATTCAA
1 TATGAAATTTTGATA-ACCTTC-C
3722 TATGAAATTTTGATAA-CTTCC
1 TATGAAATTTTGATAACCTTCC
**
3743 TAATGAAATTTTGATAACCAACAC
1 T-ATGAAATTTTGATAACCTTC-C
* * *
3767 TATGAGATGTTGATAACCTTCA
1 TATGAAATTTTGATAACCTTCC
* * * *
3789 TATGATATATTGATAACC-ACGT
1 TATGAAATTTTGATAACCTTC-C
* * *
3811 TATGAAAATTTAAAAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* *
3832 ATATG-AATTGTT-AGTAATC-ACAC
1 -TATGAAATT-TTGA-TAACCTTC-C
* * *
3855 TCTGAAATTTTGATAATC-ACAC
1 TATGAAATTTTGATAACCTTC-C
* *
3877 TATAAAATTTTGATAACCTTGC
1 TATGAAATTTTGATAACCTTCC
*
3899 TATGAAATTTTGATAAATCTTCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
3922 TATAAAATTTTCATAAACCTCCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
3945 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTTCC
*
3967 TATGAAATCTTGATAA-----C
1 TATGAAATTTTGATAACCTTCC
* * *
3984 TA-CAAATTTTGCTAACCTCCC
1 TATGAAATTTTGATAACCTTCC
** *
4005 TATGATTTTTTGATAACC-TCAT
1 TATGAAATTTTGATAACCTTC-C
* * *
4027 TATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAACCTTCC
* * *
4049 TATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAACCTTCC
* *
4071 TATGAAATTTTGAT--CTCATAC
1 TATGAAATTTTGATAAC-CTTCC
* *
4092 TATGAAATTTTGATAACCCTCT
1 TATGAAATTTTGATAACCTTCC
* * **
4114 TGTGAAATTTTGA-AAACTAAAC
1 TATGAAATTTTGATAACCT-TCC
*
4136 TATGAAATTTTGATAACCTTCA
1 TATGAAATTTTGATAACCTTCC
*
4158 TATGAAATTTTGATATCC-TCC
1 TATGAAATTTTGATAACCTTCC
4179 -ATGAAATTTTGA
1 TATGAAATTTTGA
4191 ATACTCCATA
Statistics
Matches: 436, Mismatches: 111, Indels: 62
0.72 0.18 0.10
Matches are distributed among these distances:
16 10 0.02
17 2 0.00
20 15 0.03
21 55 0.13
22 283 0.65
23 69 0.16
24 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCC
Found at i:3780 original size:45 final size:45
Alignment explanation
Indices: 3722--3807 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
3712 AAGAATTCAA
* * *
3722 TATGAAATTTTGATAA-CTTCCTAATGAAATTTTGATAACCAACAC
1 TATGAAATGTTGATAACCTTCAT-ATGAAATATTGATAACCAACAC
* *
3767 TATGAGATGTTGATAACCTTCATATGATATATTGATAACCA
1 TATGAAATGTTGATAACCTTCATATGAAATATTGATAACCA
3808 CGTTATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 30 0.86
46 5 0.14
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (45 bp):
TATGAAATGTTGATAACCTTCATATGAAATATTGATAACCAACAC
Found at i:3906 original size:44 final size:43
Alignment explanation
Indices: 3722--4692 Score: 254
Period size: 44 Copynumber: 22.5 Consensus size: 43
3712 AAGAATTCAA
*
3722 TATGAAATTTTGATAA-CTTC-CTAATGAAATTTTGATAACCAACAC
1 TATGAAATTTTGATAATC-TCACT-ATGAAATTTTGATAACC-TC-C
* * * * * * *
3767 TATGAGATGTTGATAACCTTCA-TATGATATATTGATAACCACGT
1 TATGAAATTTTGATAATC-TCACTATGAAATTTTGATAACCTC-C
* * * * * *
3811 TATGAAAATTTAAAAACCTC-CATATG-AATTGTT-AGTAATCACAC
1 TATGAAATTTTGATAATCTCAC-TATGAAATT-TTGA-TAACCTC-C
* * * *
3855 TCTGAAATTTTGATAATCACACTATAAAATTTTGATAACCTTGC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACC-TCC
* *
3899 TATGAAATTTTGATAAATCTTC-CTATAAAATTTTCATAAACCTCCC
1 TATGAAATTTTGAT-AATC-TCACTATGAAATTTTGAT-AACCT-CC
* * * *
3945 TATAAAATTTTGATAACTTTC-TTATGAAATCTTGATAA----C
1 TATGAAATTTTGATAA-TCTCACTATGAAATTTTGATAACCTCC
* * * * ** *
3984 TA-CAAATTTTGCTAACCTCCCTATGATTTTTTGATAACCTCAT
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCTC-C
* * * *
4027 TATGAAATTTTGTTAATCTCCCTATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCT-CC
* *
4071 TATGAAATTTTGAT-CTCAT-ACTATGAAATTTTGATAACCCTCT
1 TATGAAATTTTGATAATC-TCACTATGAAATTTTGATAA-CCTCC
* * * *
4114 TGTGAAATTTTGA-AAACTAAACTATGAAATTTTGATAACCTTCA
1 TATGAAATTTTGATAATCT-CACTATGAAATTTTGATAACC-TCC
4158 TATGAAATTTTGAT-ATCCTC-C-ATGAAATTTTGA-ATA-CTCC
1 TATGAAATTTTGATAAT-CTCACTATGAAATTTTGATA-ACCTCC
* * * * * *
4198 ATAATAAAAGTTTAATAACCTTC-C--T--AA-TTTGGTAACCATAC
1 -T-ATGAAATTTTGATAATC-TCACTATGAAATTTTGATAACC-TCC
* * * *
4239 TATGAAATTTTGATAACCTCCCCA-G-AA-----AT-ACC-AC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCTCC
* * * * *
4273 TATGAAATTTTTG-TAATCACATTTTGAAAATTTGATAACCTCTT
1 TATGAAA-TTTTGATAATCTCACTATGAAATTTTGATAACCTC-C
* ** * * * *
4317 TATGAAATTTTGATAACCTCTTTATAAAATTTTGTTGACCCCTC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCTC-C
* * * *
4361 TATGAAATTCTGATAATCACATTATGTAATTTTGATAACCTCGC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCTC-C
* * * * * *
4405 TTTGAGATTTTGATAA-CAACACTATGAAATTTTAATAATCATTC
1 TATGAAATTTTGATAATC-TCACTATGAAATTTTGATAA-CCTCC
* * **
4449 TAT-AAATTTCGATAATCCGATCTCTATGAAATTTCAATAATCACT-C
1 TATGAAATTTTGATAAT-C--TCACTATGAAATTTTGATAA-C-CTCC
* * * * * *
4495 TTTGAGA-TTTGATAACCT-TCTATCAAATTTTGGTAA--TCC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCTCC
* * *
4534 TTATGAAATTGAGACTTTTATAACCTTCA-TATGAAATTTTGATAACCACAC
1 -TATGAAA-T-----TTTGATAATC-TCACTATGAAATTTTGATAACCTC-C
* * * * * * *
4585 TGTAAAATTTTGATCACCTCCCCATGAAATATT-AGTAACCTCC
1 TATGAAATTTTGATAATCTCACTATGAAATTTTGA-TAACCTCC
* * * **
4628 TAATGAAATTTTGTTAACCCCACTATGGTATTCTT-ATAACCTCGC
1 T-ATGAAATTTTGATAATCTCACTATGAAATT-TTGATAACCTC-C
*
4673 TATGACATTTTGATAATCTC
1 TATGAAATTTTGATAATCTC
4693 TTTGATAACC
Statistics
Matches: 688, Mismatches: 157, Indels: 163
0.68 0.16 0.16
Matches are distributed among these distances:
34 14 0.02
35 6 0.01
36 5 0.01
37 3 0.00
38 27 0.04
39 24 0.03
40 12 0.02
41 9 0.01
42 43 0.06
43 68 0.10
44 306 0.44
45 81 0.12
46 55 0.08
47 12 0.02
48 15 0.02
49 1 0.00
50 6 0.01
51 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (43 bp):
TATGAAATTTTGATAATCTCACTATGAAATTTTGATAACCTCC
Found at i:4108 original size:87 final size:86
Alignment explanation
Indices: 4012--4190 Score: 209
Period size: 87 Copynumber: 2.1 Consensus size: 86
4002 CCCTATGATT
* * ** * * *
4012 TTTTGATAA-CCTCATTATGAAATTTTGTTAATCT-CCCTATGAAATTTTGTTAATCTCCCTATG
1 TTTTGATAACCCTC-TTATGAAATTTTG-AAAACTAAACTATGAAATTTTGATAACCTCCATATG
* *
4075 AAATTTTGATCTCATACTATGAAA
64 AAATTTTGATATCAT-CCATGAAA
* *
4099 TTTTGATAACCCTCTTGTGAAATTTTGAAAACTAAACTATGAAATTTTGATAACCTTCATATGAA
1 TTTTGATAACCCTCTTATGAAATTTTGAAAACTAAACTATGAAATTTTGATAACCTCCATATGAA
*
4164 ATTTTGATATCCTCCATGAAA
66 ATTTTGATATCATCCATGAAA
4185 TTTTGA
1 TTTTGA
4191 ATACTCCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
86 17 0.22
87 57 0.73
88 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (86 bp):
TTTTGATAACCCTCTTATGAAATTTTGAAAACTAAACTATGAAATTTTGATAACCTCCATATGAA
ATTTTGATATCATCCATGAAA
Found at i:4184 original size:20 final size:20
Alignment explanation
Indices: 4137--4199 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 20
4127 AAACTAAACT
* *
4137 ATGAAATTTTGATAACCTTCAT
1 ATGAAATTTTGATATCC-TC-C
4159 ATGAAATTTTGATATCCTCC
1 ATGAAATTTTGATATCCTCC
*
4179 ATGAAATTTTGA-ATACTCC
1 ATGAAATTTTGATATCCTCC
4198 AT
1 AT
4200 AATAAAAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.21
20 12 0.32
21 2 0.05
22 16 0.42
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGAAATTTTGATATCCTCC
Found at i:4436 original size:22 final size:21
Alignment explanation
Indices: 4270--4442 Score: 73
Period size: 22 Copynumber: 7.9 Consensus size: 21
4260 CCAGAAATAC
4270 CACTATGAAATTTTTG-TAATCA
1 CACTATGAAA-TTTTGATAA-CA
* * *
4292 CATTTTGAAAATTTGATAAC-
1 CACTATGAAATTTTGATAACA
*
4312 CTCTTTATGAAATTTTGATAAC-
1 CAC--TATGAAATTTTGATAACA
* * * * *
4334 CTCTTTATAAAATTTTGTTGACCC
1 CAC--TATGAAATTTTGAT-AACA
* *
4358 CTCTATGAAATTCTGATAATCA
1 CACTATGAAATTTTGATAA-CA
* * *
4380 CATTATGTAATTTTGATAACCT
1 CACTATGAAATTTTGATAA-CA
* * *
4402 CGCTTTGAGATTTTGATAACAA
1 CACTATGAAATTTTGATAAC-A
*
4424 CACTATGAAATTTTAATAA
1 CACTATGAAATTTTGATAA
4443 TCATTCTATA
Statistics
Matches: 113, Mismatches: 31, Indels: 14
0.72 0.20 0.09
Matches are distributed among these distances:
20 1 0.01
21 7 0.06
22 100 0.88
23 2 0.02
24 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (21 bp):
CACTATGAAATTTTGATAACA
Found at i:4451 original size:22 final size:22
Alignment explanation
Indices: 4426--4525 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 22
4416 GATAACAACA
4426 CTATGAAATTTTAATAATCATT
1 CTATGAAATTTTAATAATCATT
**
4448 CTAT-AAATTTCGATAATCCGATCT
1 CTATGAAATTTTAATAAT-C-AT-T
* *
4472 CTATGAAATTTCAATAATCACT
1 CTATGAAATTTTAATAATCATT
* * * *
4494 CTTTGAGA-TTTGATAA-CCTT
1 CTATGAAATTTTAATAATCATT
*
4514 CTATCAAATTTT
1 CTATGAAATTTT
4526 GGTAATCCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
20 7 0.12
21 20 0.33
22 12 0.20
23 3 0.05
24 6 0.10
25 12 0.20
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (22 bp):
CTATGAAATTTTAATAATCATT
Found at i:4488 original size:25 final size:23
Alignment explanation
Indices: 4426--4490 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 23
4416 GATAACAACA
*
4426 CTATGAAATTTTAATAAT-CATT
1 CTATGAAATTTCAATAATCCATT
*
4448 CTAT-AAATTTCGATAATCCGATCT
1 CTATGAAATTTCAATAATCC-AT-T
4472 CTATGAAATTTCAATAATC
1 CTATGAAATTTCAATAATC
4491 ACTCTTTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.31
22 5 0.14
23 2 0.06
24 5 0.14
25 13 0.36
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (23 bp):
CTATGAAATTTCAATAATCCATT
Found at i:4688 original size:22 final size:21
Alignment explanation
Indices: 4297--4862 Score: 129
Period size: 22 Copynumber: 25.8 Consensus size: 21
4287 AATCACATTT
* *
4297 TGAAAATTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTC-CTA
*
4319 TGAAATTTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTC-CTA
* * * *
4341 TAAAATTTTGTTGACCCCTCTA
1 TGAAATTTTGATAACCTC-CTA
* * * *
4363 TGAAATTCTGATAATCACATTA
1 TGAAATTTTGATAACCTC-CTA
* *
4385 TGTAATTTTGATAACCTCGCTT
1 TGAAATTTTGATAACCTC-CTA
* **
4407 TGAGATTTTGATAACAACACTA
1 TGAAATTTTGATAACCTC-CTA
* * *
4429 TGAAATTTTAATAATCATTCTA
1 TGAAATTTTGATAA-CCTCCTA
*
4451 T-AAATTTCGATAATCCGATCTCTA
1 TGAAATTTTGATAA-CC--TC-CTA
** *
4475 TGAAATTTCAATAATCACT-CTT
1 TGAAATTTTGATAA-C-CTCCTA
* *
4497 TGAGA-TTTGATAACCTTCTA
1 TGAAATTTTGATAACCTCCTA
* *
4517 TCAAATTTTGGTAA--TCCTTA
1 TGAAATTTTGATAACCTCC-TA
* *
4537 TGAAATTGAGACTTTTATAACCTTCATA
1 TGAAA-T-----TTTGATAACC-TCCTA
* *
4565 TGAAATTTTGATAACCACACTG
1 TGAAATTTTGATAACCTC-CTA
* * *
4587 TAAAATTTTGATCACCTCCCCA
1 TGAAATTTTGATAACCT-CCTA
*
4609 TGAAATATT-AGTAACCTCCTAA
1 TGAAATTTTGA-TAACCTCCT-A
* *
4631 TGAAATTTTGTTAACCCCACTA
1 TGAAATTTTGATAACCTC-CTA
**
4653 TGGTATTCTT-ATAACCTCGCTA
1 TGAAATT-TTGATAACCTC-CTA
* * *
4675 TGACATTTTGATAATCT-CTT
1 TGAAATTTTGATAACCTCCTA
** *
4695 TGATAACCTTTCT-ATAAAAT--TG
1 TGA-AA--TTT-TGATAACCTCCTA
*
4717 TG--A---TGATTAACCACCCTA
1 TGAAATTTTGA-TAACC-TCCTA
** *
4735 TGAAATTTCAATAACCAACCTA
1 TGAAATTTTGATAACC-TCCTA
* * *
4757 AGAGATTTTAATAACCTGATCCTA
1 TGAAATTTTGATAACC---TCCTA
* *
4781 TGAAATTTTGGTAACCACACTA
1 TGAAATTTTGATAACCTC-CTA
*
4803 TGGAATTTTGATAACCTCCTCA
1 TGAAATTTTGATAACCTCCT-A
* * *
4825 TGAAATTATAATAACCATCTTA
1 TGAAATTTTGATAACC-TCCTA
4847 TGAAATTTTGATAACC
1 TGAAATTTTGATAACC
4863 ACATAGAGAT
Statistics
Matches: 396, Mismatches: 103, Indels: 90
0.67 0.17 0.15
Matches are distributed among these distances:
13 1 0.00
14 1 0.00
15 3 0.01
18 3 0.01
19 5 0.01
20 18 0.05
21 36 0.09
22 256 0.65
23 20 0.05
24 23 0.06
25 13 0.03
26 7 0.02
27 1 0.00
28 7 0.02
29 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (21 bp):
TGAAATTTTGATAACCTCCTA
Found at i:4810 original size:68 final size:66
Alignment explanation
Indices: 4724--4865 Score: 160
Period size: 68 Copynumber: 2.1 Consensus size: 66
4714 TTGTGATGAT
* * *
4724 TAACCACCCTATGAAATTTCAATAACCAACCT-AAGAGATTTTAATAACCTGATCCTATGAAATT
1 TAACCACACTATGAAATTTCAATAACC-ACCTCAAGAAATTATAATAACC--ATCCTATGAAATT
*
4788 TTGG
63 TTGA
* ** * * *
4792 TAACCACACTATGGAATTTTGATAACCTCCTCATGAAATTATAATAACCATCTTATGAAATTTTG
1 TAACCACACTATGAAATTTCAATAACCACCTCAAGAAATTATAATAACCATCCTATGAAATTTTG
4857 A
66 A
4858 TAACCACA
1 TAACCACA
4866 TAGAGATAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
66 23 0.37
67 3 0.05
68 37 0.59
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (66 bp):
TAACCACACTATGAAATTTCAATAACCACCTCAAGAAATTATAATAACCATCCTATGAAATTTTG
A
Found at i:5060 original size:19 final size:20
Alignment explanation
Indices: 5029--5066 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5019 TATTGACAAT
5029 TAAAAATTGAAATT-AAAAG
1 TAAAAATTGAAATTCAAAAG
5048 TAAAATATT-AAATTCAAAA
1 TAAAA-ATTGAAATTCAAAA
5067 AATAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAAATTGAAATTCAAAAG
Found at i:6793 original size:30 final size:30
Alignment explanation
Indices: 6757--6816 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6747 TTTCATTTCA
* *
6757 CTTATAATAGTATTTTTCAAAACCTTACAT
1 CTTATAATAGCATTTCTCAAAACCTTACAT
**
6787 CTTATAATAGCATTTCTCATGACCTTACAT
1 CTTATAATAGCATTTCTCAAAACCTTACAT
6817 ACAACTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (30 bp):
CTTATAATAGCATTTCTCAAAACCTTACAT
Found at i:9069 original size:25 final size:25
Alignment explanation
Indices: 9035--9085 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
9025 TTGCCTGACA
*
9035 TTGTTTTGACCTCTCAGTGAATCAG
1 TTGTTTTGACCTCTCAGTAAATCAG
*
9060 TTGTTTTGACCTCTCGGTAAATCAG
1 TTGTTTTGACCTCTCAGTAAATCAG
9085 T
1 T
9086 AATGAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (25 bp):
TTGTTTTGACCTCTCAGTAAATCAG
Done.