Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010585.1 Corchorus capsularis cultivar CVL-1 contig10606, 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: 15571
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Found at i:3563 original size:18 final size:17
Alignment explanation
Indices: 3530--3563 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3520 GTTTTTTCTT
*
3530 CGCGCGTGGTTTCTCTG
1 CGCGCGTGGATTCTCTG
3547 CGCGCGTGAGATTCTCT
1 CGCGCGTG-GATTCTCT
3564 CTTCCTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.29, G:0.32, T:0.32
Consensus pattern (17 bp):
CGCGCGTGGATTCTCTG
Found at i:12209 original size:20 final size:20
Alignment explanation
Indices: 12184--12232 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
12174 GAAAGATAAT
12184 TTAATGACTTGTAACTTTCA
1 TTAATGACTTGTAACTTTCA
12204 TTAATGACTTGTAACTTTCA
1 TTAATGACTTGTAACTTTCA
12224 TTAATGACT
1 TTAATGACT
12233 CAAAAGCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (20 bp):
TTAATGACTTGTAACTTTCA
Found at i:13503 original size:22 final size:22
Alignment explanation
Indices: 13399--13496 Score: 90
Period size: 22 Copynumber: 4.5 Consensus size: 22
13389 TATGATCCCA
13399 TTATGAAATTTTAATAACCTTC
1 TTATGAAATTTTAATAACCTTC
* ** *
13421 CTATGAAATTTTAATAACGATA
1 TTATGAAATTTTAATAACCTTC
* ** * *
13443 TTATGGAATTTCGAGAACCTTT
1 TTATGAAATTTTAATAACCTTC
**
13465 TTAT-AAATTTTTTTAACCTTC
1 TTATGAAATTTTAATAACCTTC
13486 TTATGAAATTT
1 TTATGAAATTT
13497 GATTAACTTC
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
21 15 0.26
22 42 0.74
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (22 bp):
TTATGAAATTTTAATAACCTTC
Found at i:13562 original size:44 final size:44
Alignment explanation
Indices: 13487--13570 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
13477 TTAACCTTCT
* *
13487 TATGAAATTTGATTAACTTCCTTAAGGAATTTTGAAGACCTCAA
1 TATGAAATTTGATTAACTTCCTCAAGAAATTTTGAAGACCTCAA
*
13531 TATGAAATTTTGA-TAACTTCC-CAATGAAATTTTGATGACC
1 TATGAAA-TTTGATTAACTTCCTCAA-GAAATTTTGAAGACC
13571 AACACTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.06
44 28 0.80
45 5 0.14
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (44 bp):
TATGAAATTTGATTAACTTCCTCAAGAAATTTTGAAGACCTCAA
Found at i:13611 original size:45 final size:45
Alignment explanation
Indices: 13531--13616 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
13521 AAGACCTCAA
* * * *
13531 TATGAAATTTTGATAACTTCCCAATGAAATTTTGATGACCAACAC
1 TATGAAATGTTGATAACCTCCCAATGAAATATTGATAACCAACAC
* *
13576 TATGAGATGTTGATAACCT-CCATATGATATATTGATAACCA
1 TATGAAATGTTGATAACCTCCCA-ATGAAATATTGATAACCA
13617 CGTTATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 3 0.09
45 31 0.91
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (45 bp):
TATGAAATGTTGATAACCTCCCAATGAAATATTGATAACCAACAC
Found at i:13669 original size:22 final size:23
Alignment explanation
Indices: 13642--13696 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
13632 AAAACCTCCA
13642 TATG-AATTGTTAATAATCACAC
1 TATGAAATTGTTAATAATCACAC
* *
13664 TCTGAAATT-TTGATAATCACAC
1 TATGAAATTGTTAATAATCACAC
13686 TATGAAATTGT
1 TATGAAATTGT
13697 GATAACCTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (23 bp):
TATGAAATTGTTAATAATCACAC
Found at i:13699 original size:22 final size:22
Alignment explanation
Indices: 13654--13723 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
13644 TGAATTGTTA
*
13654 ATAATCACACTCTGAAATTTTG
1 ATAATCACACTATGAAATTTTG
*
13676 ATAATCACACTATGAAATTGTG
1 ATAATCACACTATGAAATTTTG
* * *
13698 ATAACCTCGCTATGAAATTTTG
1 ATAATCACACTATGAAATTTTG
13720 ATAA
1 ATAA
13724 ATTGTGATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
ATAATCACACTATGAAATTTTG
Found at i:13731 original size:32 final size:32
Alignment explanation
Indices: 13690--13755 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
13680 TCACACTATG
*
13690 AAATTGTGATAACCTCGCTATGAAATTTTGAT
1 AAATTGTGATAACCTCCCTATGAAATTTTGAT
**
13722 AAATTGTGATAACCTCCCTATGATTTTTTGAT
1 AAATTGTGATAACCTCCCTATGAAATTTTGAT
13754 AA
1 AA
13756 TCTCATTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (32 bp):
AAATTGTGATAACCTCCCTATGAAATTTTGAT
Found at i:14065 original size:44 final size:43
Alignment explanation
Indices: 13864--14121 Score: 234
Period size: 44 Copynumber: 5.8 Consensus size: 43
13854 AATCACACTC
* * *
13864 TGAAATTTTGATAATCACACTATGAAATTGTGATAACCTCGCTA
1 TGAAATTTTGATAA-CATACTATGAAATTTTGATAACCTCCCTA
* * *
13908 TGAAATTTTGATAAATCTTCCTATAAAATTTTGATAAACCTCCCTA
1 TGAAATTTTGAT-AA-CATACTATGAAATTTTGAT-AACCTCCCTA
* * * *
13954 TAAAATTTTGATAACTTTCTTATGAAATCTTGATAACCTCCCTA
1 TGAAATTTTGATAACATAC-TATGAAATTTTGATAACCTCCCTA
* * * *
13998 TG-ATTTTTGATAATC-TCATTATGAAATTTTGTTAATCTCCCTA
1 TGAAATTTTGATAA-CAT-ACTATGAAATTTTGATAACCTCCCTA
* * *
14041 TGAAATTTTGATCTACATACTATGAAATTTTGATAACC-CTCTTG
1 TGAAATTTTGAT-AACATACTATGAAATTTTGATAACCTC-CCTA
* *
14085 TGAAATTTTGAAAACTAAACTATGAAATTTTGATAAC
1 TGAAATTTTGATAAC-ATACTATGAAATTTTGATAAC
14122 TTTTGTATGC
Statistics
Matches: 177, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
43 37 0.21
44 87 0.49
45 33 0.19
46 20 0.11
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (43 bp):
TGAAATTTTGATAACATACTATGAAATTTTGATAACCTCCCTA
Found at i:14122 original size:22 final size:22
Alignment explanation
Indices: 13859--14121 Score: 196
Period size: 22 Copynumber: 11.9 Consensus size: 22
13849 TTAGTAATCA
* * *
13859 CACTCTGAAATTTTGATAATCA
1 CACTATGAAATTTTGATAACCT
*
13881 CACTATGAAATTGTGATAACCT
1 CACTATGAAATTTTGATAACCT
* *
13903 CGCTATGAAATTTTGATAAATCTT
1 CACTATGAAATTTTGAT-AA-CCT
*
13927 C-CTATAAAATTTTGATAAACCT
1 CACTATGAAATTTTGAT-AACCT
* * *
13949 CCCTATAAAATTTTGATAACTTT
1 CACTATGAAATTTTGATAAC-CT
* *
13972 C-TTATGAAATCTTGATAACCT
1 CACTATGAAATTTTGATAACCT
* * *
13993 CCCTATG-ATTTTTGATAATCT
1 CACTATGAAATTTTGATAACCT
* * *
14014 CATTATGAAATTTTGTTAATCT
1 CACTATGAAATTTTGATAACCT
* * *
14036 CCCTATGAAATTTTGATCTACAT
1 CACTATGAAATTTTGAT-AACCT
14059 -ACTATGAAATTTTGATAACCCT
1 CACTATGAAATTTTGATAA-CCT
* * *
14081 C-TTGTGAAATTTTGA-AAACT
1 CACTATGAAATTTTGATAACCT
*
14101 AAACTATGAAATTTTGATAAC
1 -CACTATGAAATTTTGATAAC
14122 TTTTGTATGC
Statistics
Matches: 191, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.01
21 21 0.11
22 125 0.65
23 40 0.21
24 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (22 bp):
CACTATGAAATTTTGATAACCT
Found at i:14130 original size:22 final size:22
Alignment explanation
Indices: 14039--14141 Score: 68
Period size: 22 Copynumber: 4.7 Consensus size: 22
14029 TTAATCTCCC
* **
14039 TATGAAATTTTGATCTAC-ATAC
1 TATGAAATTTTGAT-AACTATTG
*
14061 TATGAAATTTTGATAACCCTCTTG
1 TATGAAATTTTGATAA--CTATTG
* ***
14085 --TGAAATTTTGAAAACTAAAC
1 TATGAAATTTTGATAACTATTG
*
14105 TATGAAATTTTGATAACTTTTG
1 TATGAAATTTTGATAACTATTG
*
14127 TATGCAATTTTGATA
1 TATGAAATTTTGATA
14142 TCCTCCCTGA
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 2 0.03
21 1 0.02
22 56 0.92
23 1 0.02
24 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (22 bp):
TATGAAATTTTGATAACTATTG
Found at i:14178 original size:20 final size:19
Alignment explanation
Indices: 14132--14179 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
14122 TTTTGTATGC
14132 AATTTTGATATCCTCCCTG
1 AATTTTGATATCCTCCCTG
* *
14151 AATTTTGATATTCTCCTTG
1 AATTTTGATATCCTCCCTG
14170 AAGTTTTGAT
1 AA-TTTTGAT
14180 TACTCCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (19 bp):
AATTTTGATATCCTCCCTG
Found at i:14185 original size:19 final size:19
Alignment explanation
Indices: 14132--14185 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
14122 TTTTGTATGC
*
14132 AATTTTGATATCCTCCCTG
1 AATTTTGATATACTCCCTG
* *
14151 AATTTTGATATTCTCCTTG
1 AATTTTGATATACTCCCTG
14170 AAGTTTTGAT-TACTCC
1 AA-TTTTGATATACTCC
14186 ATAATAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (19 bp):
AATTTTGATATACTCCCTG
Found at i:14310 original size:22 final size:22
Alignment explanation
Indices: 14285--14408 Score: 119
Period size: 22 Copynumber: 5.7 Consensus size: 22
14275 AATCACATTT
*
14285 TGAAAATTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCTTTA
14307 TGAAATTTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCTTTA
* * *
14329 T-AGAATTTTGTTGACC-CTCTA
1 TGA-AATTTTGATAACCTCTTTA
* * * *
14350 TGAAATTCTGATAATCACATTA
1 TGAAATTTTGATAACCTCTTTA
*
14372 TGAAATTTTGATAACCTCGCTT-
1 TGAAATTTTGATAACCTC-TTTA
*
14394 TGATATTTTGATAAC
1 TGAAATTTTGATAAC
14409 AACACTACGA
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.18
22 66 0.80
23 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (22 bp):
TGAAATTTTGATAACCTCTTTA
Found at i:14379 original size:43 final size:44
Alignment explanation
Indices: 14260--14450 Score: 158
Period size: 44 Copynumber: 4.4 Consensus size: 44
14250 AGAAATACCA
* *
14260 CTATGAAATTTTTG-TAATCACATTTTGAAAATTTGATAACCTCT
1 CTATGAAA-TTTTGATAATCACATTATGAAATTTTGATAACCTCT
* * * * * *
14304 TTATGAAATTTTGATAACCTCTTTAT-AGAATTTTGTTGACC-CT
1 CTATGAAATTTTGATAATCACATTATGA-AATTTTGATAACCTCT
* *
14347 CTATGAAATTCTGATAATCACATTATGAAATTTTGATAACCTCG
1 CTATGAAATTTTGATAATCACATTATGAAATTTTGATAACCTCT
* * * * * * *
14391 CTTTGATATTTTGATAA-CAACACTACGAAATTTCGATAATCACT
1 CTATGAAATTTTGATAATC-ACATTATGAAATTTTGATAACCTCT
*
14435 CTATGAGA-TTTGATAA
1 CTATGAAATTTTGATAA
14451 CCTTCTATCA
Statistics
Matches: 115, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
43 49 0.43
44 66 0.57
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (44 bp):
CTATGAAATTTTGATAATCACATTATGAAATTTTGATAACCTCT
Found at i:14423 original size:87 final size:87
Alignment explanation
Indices: 14260--14423 Score: 190
Period size: 87 Copynumber: 1.9 Consensus size: 87
14250 AGAAATACCA
* * * **
14260 CTATGAAATTTTTGTAATCACATTTTGAAAATTTGATAACCTCTTTATGAAATTTTGATAACCTC
1 CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTGATAACAAC
** *
14325 TTTATAGAATTTTGTTGACCCT
66 ACTAGAGAATTTTGTTGACCCT
* *
14347 CTATGAAA-TTCTGATAATCACATTATGAAATTTTGATAACCTCGCTT-TGATATTTTGATAACA
1 CTATGAAATTTCTG-TAATCACATTATGAAAATTTGATAACCTC-CTTATGAAATTTTGATAACA
14410 ACACTACGA-AATTT
64 ACACTA-GAGAATTT
14424 CGATAATCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
86 4 0.06
87 57 0.89
88 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (87 bp):
CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTGATAACAAC
ACTAGAGAATTTTGTTGACCCT
Found at i:14519 original size:22 final size:21
Alignment explanation
Indices: 14490--14545 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
14480 AAATTGAGAC
14490 TTTT-ATAACCTTCATATGAAA
1 TTTTGATAACC-TCATATGAAA
* *
14511 TTTTGATAACCACACTATAAAA
1 TTTTGATAACCTCA-TATGAAA
14533 TTTTGATAACCTC
1 TTTTGATAACCTC
14546 CACATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTTGATAACCTCATATGAAA
Found at i:14555 original size:22 final size:22
Alignment explanation
Indices: 14490--14555 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
14480 AAATTGAGAC
* * *
14490 TTTT-ATAACCTTCATATGAAA
1 TTTTGATAACCTACACATAAAA
14511 TTTTGATAACC-ACACTATAAAA
1 TTTTGATAACCTACAC-ATAAAA
* *
14533 TTTTGATAACCTCCACATTAAA
1 TTTTGATAACCTACACATAAAA
14555 T
1 T
14556 ATTTAATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 6 0.16
22 28 0.76
23 3 0.08
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (22 bp):
TTTTGATAACCTACACATAAAA
Found at i:14586 original size:22 final size:23
Alignment explanation
Indices: 14561--14621 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
14551 TAAATATTTA
14561 ATGAAATTTTGT-TAACCACACT
1 ATGAAATTTTGTATAACCACACT
* * *
14583 ATGAAATTCTTATATAACCTCGCT
1 ATGAAATT-TTGTATAACCACACT
*
14607 ATGACATTTTG-ATAA
1 ATGAAATTTTGTATAA
14622 TCTCTTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 12 0.38
23 5 0.16
24 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (23 bp):
ATGAAATTTTGTATAACCACACT
Found at i:14764 original size:22 final size:21
Alignment explanation
Indices: 14709--14795 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 21
14699 AATAACCTGA
*
14709 TCCTATGAAATTTTGGTAACC
1 TCCTATGAAATTTTGATAACC
* *
14730 ACACTATGGAATTTTGATAACC
1 TC-CTATGAAATTTTGATAACC
* *
14752 TCCTCATGAAATTATAATAACC
1 TCCT-ATGAAATTTTGATAACC
*
14774 ATCTTATGAAATTTTGATAACC
1 -TCCTATGAAATTTTGATAACC
14796 ACTTAGAGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
21 3 0.06
22 47 0.89
23 3 0.06
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (21 bp):
TCCTATGAAATTTTGATAACC
Found at i:14796 original size:22 final size:22
Alignment explanation
Indices: 14694--14800 Score: 85
Period size: 22 Copynumber: 4.8 Consensus size: 22
14684 AACCTAAGAG
* *
14694 ATTTTAATAACCTGATCCTATGAA
1 ATTTTGATAACC--ATCTTATGAA
* * *
14718 ATTTTGGTAACCA-CACTATGGA
1 ATTTTGATAACCATC-TTATGAA
*
14740 ATTTTGATAACC-TCCTCATGAA
1 ATTTTGATAACCAT-CTTATGAA
* *
14762 ATTATAATAACCATCTTATGAA
1 ATTTTGATAACCATCTTATGAA
14784 ATTTTGATAACCA-CTTA
1 ATTTTGATAACCATCTTA
14801 GAGACAAGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
21 5 0.07
22 50 0.75
23 2 0.03
24 10 0.15
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
ATTTTGATAACCATCTTATGAA
Found at i:14990 original size:19 final size:20
Alignment explanation
Indices: 14959--15001 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
14949 TATTGACACT
14959 TAAAAATTGAAATT-AAAAG
1 TAAAAATTGAAATTAAAAAG
14978 TAAAATATT-AAATTCAAAAAG
1 TAAAA-ATTGAAATT-AAAAAG
14999 TAA
1 TAA
15002 TAGTAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAAATTGAAATTAAAAAG
Found at i:15345 original size:31 final size:31
Alignment explanation
Indices: 15310--15368 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
15300 GGCAATTTAG
15310 AAATATGTTTTAAAGAA-AAGGGTACAATTGA
1 AAATATGTTTTAAA-AATAAGGGTACAATTGA
15341 AAATATGTTTTAAAAATAAGGGTACAAT
1 AAATATGTTTTAAAAATAAGGGTACAAT
15369 CGGAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (31 bp):
AAATATGTTTTAAAAATAAGGGTACAATTGA
Found at i:15468 original size:21 final size:21
Alignment explanation
Indices: 15425--15468 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
15415 AGATATAGGG
* *
15425 TTGCTAAATACCGCCCTAGTT
1 TTGCTAAATACCGCCCCACTT
15446 TTGCTAAATACCGCCCCACTT
1 TTGCTAAATACCGCCCCACTT
15467 TT
1 TT
15469 TACACTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (21 bp):
TTGCTAAATACCGCCCCACTT
Done.