Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012737.1 Corchorus olitorius cultivar O-4 contig12770, 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: 27485
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Found at i:5728 original size:30 final size:30
Alignment explanation
Indices: 5692--5752 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
5682 TAAAAAAAAA
*
5692 TTTCAAAGA-GATTCATAAGCAAATTTCTTT
1 TTTCAAAGAGGA-CCATAAGCAAATTTCTTT
*
5722 TTTCAAAGAGGACCGTAAGCAAATTTCTTT
1 TTTCAAAGAGGACCATAAGCAAATTTCTTT
5752 T
1 T
5753 GTCAGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (30 bp):
TTTCAAAGAGGACCATAAGCAAATTTCTTT
Found at i:6104 original size:133 final size:133
Alignment explanation
Indices: 5854--6111 Score: 390
Period size: 133 Copynumber: 1.9 Consensus size: 133
5844 TATGTCCTGG
* * * *
5854 AAGAAAGAGAAAACGCTTTTAAGCGGCCAAACGGTTAATTACCAGAAAGGGCAGGGAGAAAAGGA
1 AAGAAACAGAAAACGCTTTTAAGCGGCCAAACAGTCAATTACCAAAAAGGGCAGGGAGAAAAGGA
* * * * *
5919 AGTGCTGGAAACTGATTCAGGGGCTTCTTAGTAATCCGGCAAGTGAGCAAAGACAAAAAATAAAT
66 AGTGCAGGAAACTGATTCAGGGGCTTCTTAGTAATACGACAAGCGAGAAAAGACAAAAAATAAAT
5984 TCA
131 TCA
* *
5987 AAGAAACAGAAAACGCTTTTAAGTGGCCAAACAGTCAATTACCAAAAAGGGCAGGGAGAAGAGGA
1 AAGAAACAGAAAACGCTTTTAAGCGGCCAAACAGTCAATTACCAAAAAGGGCAGGGAGAAAAGGA
* * *
6052 AGTGCAGGAAACTGATTGAGGGGTTTCTTAGTAATATGACAAGCGAGAAAAGACAAAAAA
66 AGTGCAGGAAACTGATTCAGGGGCTTCTTAGTAATACGACAAGCGAGAAAAGACAAAAAA
6112 AAAAGACAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 111 1.00
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (133 bp):
AAGAAACAGAAAACGCTTTTAAGCGGCCAAACAGTCAATTACCAAAAAGGGCAGGGAGAAAAGGA
AGTGCAGGAAACTGATTCAGGGGCTTCTTAGTAATACGACAAGCGAGAAAAGACAAAAAATAAAT
TCA
Found at i:6728 original size:69 final size:69
Alignment explanation
Indices: 6648--7091 Score: 355
Period size: 69 Copynumber: 6.4 Consensus size: 69
6638 TCATCACTCG
* ** * * * *
6648 TATATATATGACAACTTCTGGTGTCAATTGAAAAAACAAAATTGTTACAAATTC-GGATGTCAAT
1 TATAT-TATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAG-TGTCAAT
*
6712 TTGAAA
64 TGGAAA
*
6718 TATATTATGACAACTTAAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAGTGTCAATTG
1 TATATTATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAGTGTCAATTG
*
6783 GAAG
66 GAAA
* * * ** * * * *
6787 TTTATCATGACAATTTTTGCTGTCAATTGAAAAGGTAAAATTATGACAACTTCAAGTGACAATTA
1 TATATTATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAGTGTCAATTG
6852 GAAA
66 GAAA
* * * * * *
6856 TTTATTATGAAAACTTCCGGTGTCAATTGTAAAAGTAAAATTATGATAACTTC-AGCTATCAATT
1 TATATTATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAG-TGTCAATT
6920 GGAAA
65 GGAAA
* * ** * **
6925 TCTATTATGACAACTTCAAGTGTCAATTG-AAAA-T-TTATTATGACAACTACTGGTGTCAATTG
1 TATATTATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAGTGTCAATTG
*
6987 AAAAAA
66 --GAAA
* * ** * * **
6993 TAAAATTATGATAACTTTTGGTGTCAATTG-GAAA-T-TAATTATGACAACTTCTGGTGTCAATT
1 T-ATATTATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAGTGTCAATT
*
7055 GAAAAGA
65 G-GAA-A
* *
7062 TAAAATTATGACAACTTCAGATGTCAATTG
1 T-ATATTATGACAACTTCAGGTGTCAATTG
7092 GAAATTTATT
Statistics
Matches: 311, Mismatches: 56, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
66 20 0.06
67 2 0.01
68 14 0.05
69 269 0.86
70 6 0.02
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (69 bp):
TATATTATGACAACTTCAGGTGTCAATTGAAAAAGTAAAATTATGACAACTTCAAGTGTCAATTG
GAAA
Found at i:6945 original size:171 final size:171
Alignment explanation
Indices: 6757--7109 Score: 492
Period size: 171 Copynumber: 2.1 Consensus size: 171
6747 AAAAAGTAAA
* * * ** **
6757 ATTATGACAACTTCAAGTGTCAATTGGAAGTTTATCATGACAATTTTTGCTGTCAATTGAAAAGG
1 ATTATGACAACTTCAAGTGTCAATTGAAAATTTATCATGACAACTACTGCTGTCAATTGAAAAAA
*
6822 TAAAATTATGACAACTTCAAGTGACAATTAGAAATTTATTATGAAAACTTCCGGTGTCAATTGTA
66 TAAAATTATGACAACTTCAAGTGACAATTAGAAATTAATTATGAAAACTTCCGGTGTCAATTG-A
* *
6887 AAAG-TAAAATTATGATAACTTCAGCTATCAATTGGAAATCT
130 AAAGATAAAATTATGACAACTTCAGATATCAATTGGAAATCT
* *
6928 ATTATGACAACTTCAAGTGTCAATTGAAAATTTATTATGACAACTACTGGTGTCAATTGAAAAAA
1 ATTATGACAACTTCAAGTGTCAATTGAAAATTTATCATGACAACTACTGCTGTCAATTGAAAAAA
* *** * * * *
6993 TAAAATTATGATAACTTTTGGTGTCAATTGGAAATTAATTATGACAACTTCTGGTGTCAATTGAA
66 TAAAATTATGACAACTTCAAGTGACAATTAGAAATTAATTATGAAAACTTCCGGTGTCAATTGAA
* *
7058 AAGATAAAATTATGACAACTTCAGATGTCAATTGGAAATTT
131 AAGATAAAATTATGACAACTTCAGATATCAATTGGAAATCT
7099 ATTATGACAAC
1 ATTATGACAAC
7110 CGCCGGTGTA
Statistics
Matches: 159, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
170 5 0.03
171 154 0.97
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (171 bp):
ATTATGACAACTTCAAGTGTCAATTGAAAATTTATCATGACAACTACTGCTGTCAATTGAAAAAA
TAAAATTATGACAACTTCAAGTGACAATTAGAAATTAATTATGAAAACTTCCGGTGTCAATTGAA
AAGATAAAATTATGACAACTTCAGATATCAATTGGAAATCT
Found at i:7118 original size:102 final size:103
Alignment explanation
Indices: 6654--7091 Score: 354
Period size: 102 Copynumber: 4.2 Consensus size: 103
6644 CTCGTATATA
* * * * * * * * *
6654 TATGACAACTTCTGGTGTCAATTGAAAAAACAAAATTGTTACAAATTCGGATGTCAATTTGAAAT
1 TATGACAACTTCAGATGTCAATTG-AAAAATAAAATTATGACAACTTCTGCTGTCAATTGGAAAT
6719 AT-ATTATGACAACTT-AAGGTGTCAATTGAAAAAGTAAAAT
65 ATAATTATGACAACTTCAA-GTGTCAATTGAAAAA-T-AAAT
* * ** * * * *
6759 TATGACAACTTCA-AGTGTCAATTG-GAAGT-TTATCATGACAATTTTTGCTGTCAATTGAAAAG
1 TATGACAACTTCAGA-TGTCAATTGAAAAATAAAATTATGACAACTTCTGCTGTCAATTGGAAA-
* * * **
6821 GTAAAATTATGACAACTTCAAGTGACAATT-AGAAATTTAT
64 -TATAATTATGACAACTTCAAGTGTCAATTGAAAAATAAAT
* * * * * * *
6861 TATGAAAACTTCCGGTGTCAATTGTAAAAGTAAAATTATGATAACTTCAGCTATCAATTGGAAAT
1 TATGACAACTTCAGATGTCAATTG-AAAAATAAAATTATGACAACTTCTGCTGTCAATTGGAAAT
* **
6926 CT-ATTATGACAACTTCAAGTGTCAATTG-AAAATTTAT
65 ATAATTATGACAACTTCAAGTGTCAATTGAAAAATAAAT
* * * * * *
6963 TATGACAACTACTGGTGTCAATTGAAAAAATAAAATTATGATAACTTTTGGTGTCAATTGGAAAT
1 TATGACAACTTCAGATGTCAATTG-AAAAATAAAATTATGACAACTTCTGCTGTCAATTGGAAAT
**
7028 -TAATTATGACAACTTCTGGTGTCAATTGAAAAGATAAAAT
65 ATAATTATGACAACTTCAAGTGTCAATTGAAAA-AT-AAAT
7068 TATGACAACTTCAGATGTCAATTG
1 TATGACAACTTCAGATGTCAATTG
7092 GAAATTTATT
Statistics
Matches: 265, Mismatches: 54, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
101 1 0.00
102 155 0.58
103 7 0.03
104 12 0.05
105 88 0.33
106 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (103 bp):
TATGACAACTTCAGATGTCAATTGAAAAATAAAATTATGACAACTTCTGCTGTCAATTGGAAATA
TAATTATGACAACTTCAAGTGTCAATTGAAAAATAAAT
Found at i:9196 original size:18 final size:17
Alignment explanation
Indices: 9165--9199 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9155 ATAGAATTAT
*
9165 AAAAAATCTTAATACAA
1 AAAAAATCTAAATACAA
9182 AAAAAATCTAAAATACAA
1 AAAAAATCT-AAATACAA
9200 GGCTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAATCTAAATACAA
Found at i:9501 original size:100 final size:100
Alignment explanation
Indices: 9328--9527 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
9318 ATAATAATTC
9328 TGTTAAGCATCCAACCTAAAGCCAATTGGTTTTAGGTTGGATGCTTAACATGGTATTAGAGCTCA
1 TGTTAAGCATCCAACCTAAAGCCAATTGGTTTTAGGTTGGATGCTTAACATGGTATTAGAGCTCA
9393 GGTCTGTCCTGTTGCGCCCCAGACTCGGTTGTCCA
66 GGTCTGTCCTGTTGCGCCCCAGACTCGGTTGTCCA
9428 TGTTAAGCATCCAACCTAAAGCCAATTGGTTTTAGGTTGGATGCTTAACATGGTATTAGAGCTCA
1 TGTTAAGCATCCAACCTAAAGCCAATTGGTTTTAGGTTGGATGCTTAACATGGTATTAGAGCTCA
9493 GGTCTGTCCTGTTGCGCCCCAGACTCGGTTGTCCA
66 GGTCTGTCCTGTTGCGCCCCAGACTCGGTTGTCCA
9528 CGTGTAGACC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (100 bp):
TGTTAAGCATCCAACCTAAAGCCAATTGGTTTTAGGTTGGATGCTTAACATGGTATTAGAGCTCA
GGTCTGTCCTGTTGCGCCCCAGACTCGGTTGTCCA
Found at i:16652 original size:226 final size:227
Alignment explanation
Indices: 16249--16700 Score: 836
Period size: 226 Copynumber: 2.0 Consensus size: 227
16239 CTAAGACTTA
16249 TCCTTTCAAAACAAGAAAAGTGAAATTTCCCTAATGAAGTTCATTCAAAACAAGGAACCGATCCC
1 TCCTTTCAAAACAAGAAAAGTGAAATTTCCCTAATGAAGTTCATTCAAAACAAGGAACCGATCCC
16314 AATAAATACGCAAATAAGCAAGTAACCAAAAACTACCCTTATAAACAACTAATACCTCACATTTG
66 AATAAATACGCAAATAAGCAAGTAACCAAAAACTACCCTTATAAACAAC--A-ACCTCACATTTG
16379 CTAAACTCAAGCTGACATCAATAAATCAAATCAAAGCAGGAAAGGACATTAAATTAAGTGATAAT
128 CTAAACTCAAGCTGACATCAATAAATCAAATCAAAGCAGGAAAGGACATTAAATTAAGTGATAAT
16444 TACACATGATTTTGATCTTTGTATCATCTGATTTT
193 TACACATGATTTTGATCTTTGTATCATCTGATTTT
*
16479 TCCTTTCAAAACAAGAAAAGTGAATTTTCCCTAATGAAGTTCATTCAAAACAAGGAACCGATCCC
1 TCCTTTCAAAACAAGAAAAGTGAAATTTCCCTAATGAAGTTCATTCAAAACAAGGAACCGATCCC
*
16544 AATAAATATGCAAATAAGCAAGTAACCAAAAACTATCCC-TATAAACAAC-ACCTCACATTTGCT
66 AATAAATACGCAAATAAGCAAGTAACCAAAAACTA-CCCTTATAAACAACAACCTCACATTTGCT
16607 AAACTCAAGCTGACATCAATAAATCAAATCAAAGCAGGAAAGGACATTAAATTAAGTGATAATTA
130 AAACTCAAGCTGACATCAATAAATCAAATCAAAGCAGGAAAGGACATTAAATTAAGTGATAATTA
16672 CACATGATTTTGATCTTTGTATCATCTGA
195 CACATGATTTTGATCTTTGTATCATCTGA
16701 ATGGTGAACA
Statistics
Matches: 219, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
226 108 0.49
230 108 0.49
231 3 0.01
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (227 bp):
TCCTTTCAAAACAAGAAAAGTGAAATTTCCCTAATGAAGTTCATTCAAAACAAGGAACCGATCCC
AATAAATACGCAAATAAGCAAGTAACCAAAAACTACCCTTATAAACAACAACCTCACATTTGCTA
AACTCAAGCTGACATCAATAAATCAAATCAAAGCAGGAAAGGACATTAAATTAAGTGATAATTAC
ACATGATTTTGATCTTTGTATCATCTGATTTT
Found at i:22375 original size:21 final size:21
Alignment explanation
Indices: 22351--22390 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22341 ATGAAGCTGT
22351 GGATGATATTCATGGTGGTGG
1 GGATGATATTCATGGTGGTGG
*
22372 GGATGCTATTCATGGTGGT
1 GGATGATATTCATGGTGGT
22391 AATGATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.40, T:0.35
Consensus pattern (21 bp):
GGATGATATTCATGGTGGTGG
Found at i:22397 original size:21 final size:21
Alignment explanation
Indices: 22351--22398 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22341 ATGAAGCTGT
**
22351 GGATGATATTCATGGTGGTGG
1 GGATGATATTCATGGTGGTAA
*
22372 GGATGCTATTCATGGTGGTAA
1 GGATGATATTCATGGTGGTAA
*
22393 TGATGA
1 GGATGA
22399 AGTTTTAGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.06, G:0.38, T:0.33
Consensus pattern (21 bp):
GGATGATATTCATGGTGGTAA
Found at i:22467 original size:21 final size:21
Alignment explanation
Indices: 22442--22502 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
22432 TAATGTGGAA
22442 GGAGAAGCTCATCCTGGTGGT
1 GGAGAAGCTCATCCTGGTGGT
22463 GGAGAAGCTCATCCTGGTGGT
1 GGAGAAGCTCATCCTGGTGGT
*
22484 GGAGAAGCTCTTCCTGGTG
1 GGAGAAGCTCATCCTGGTG
22503 AAGGTGAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.25
Consensus pattern (21 bp):
GGAGAAGCTCATCCTGGTGGT
Found at i:22511 original size:21 final size:21
Alignment explanation
Indices: 22439--22511 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
22429 AGTTAATGTG
22439 GAAGGAGAAGCTCATCCTGGT
1 GAAGGAGAAGCTCATCCTGGT
**
22460 GGTGGAGAAGCTCATCCTGGT
1 GAAGGAGAAGCTCATCCTGGT
** *
22481 GGTGGAGAAGCTCTTCCTGGT
1 GAAGGAGAAGCTCATCCTGGT
*
22502 GAAGGTGAAG
1 GAAGGAGAAG
22512 GCATAGATGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.22
Consensus pattern (21 bp):
GAAGGAGAAGCTCATCCTGGT
Found at i:22541 original size:30 final size:30
Alignment explanation
Indices: 22505--22580 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
22495 TCCTGGTGAA
22505 GGTGAAGGCATAGATGGTGGTGTAGGTAAT
1 GGTGAAGGCATAGATGGTGGTGTAGGTAAT
22535 GGTGAAGGCATAGATGGTGGTGTAGGTAAT
1 GGTGAAGGCATAGATGGTGGTGTAGGTAAT
* *
22565 GGTGATGGTATAGATG
1 GGTGAAGGCATAGATG
22581 TAGCTGTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.26, C:0.03, G:0.43, T:0.28
Consensus pattern (30 bp):
GGTGAAGGCATAGATGGTGGTGTAGGTAAT
Found at i:25359 original size:24 final size:24
Alignment explanation
Indices: 25326--25377 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
25316 ACTGCCCCTG
* *
25326 CTGCCCCTGCTTATGGATCTGGCC
1 CTGCCCCTGCCTATGCATCTGGCC
* * *
25350 CTGCCTCTGCCTCTGCCTCTGGCC
1 CTGCCCCTGCCTATGCATCTGGCC
25374 CTGC
1 CTGC
25378 ATCTAGCTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.44, G:0.23, T:0.29
Consensus pattern (24 bp):
CTGCCCCTGCCTATGCATCTGGCC
Found at i:25377 original size:12 final size:12
Alignment explanation
Indices: 25343--25377 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
25333 TGCTTATGGA
25343 TCTGGCCCTGCC
1 TCTGGCCCTGCC
25355 TCT-GCCTCTGCC
1 TCTGGCC-CTGCC
25367 TCTGGCCCTGC
1 TCTGGCCCTGC
25378 ATCTAGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.00, C:0.49, G:0.23, T:0.29
Consensus pattern (12 bp):
TCTGGCCCTGCC
Found at i:25976 original size:39 final size:38
Alignment explanation
Indices: 25874--25982 Score: 173
Period size: 38 Copynumber: 2.8 Consensus size: 38
25864 ATTTTGTGTC
*
25874 CAATGAATGTTTTTTGTGATTAAGATCCAGCAACTGCT
1 CAATGAATGTTTTTTGTGATTATGATCCAGCAACTGCT
* *
25912 TAATGAATGTTTTTTGTGATTATGATCCAGCAATTGCT
1 CAATGAATGTTTTTTGTGATTATGATCCAGCAACTGCT
*
25950 CAATGAATGTGTTTTTATGATTATGATCCAGCA
1 CAATGAATGT-TTTTTGTGATTATGATCCAGCA
25983 TTAGTTCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 44 0.68
39 21 0.32
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (38 bp):
CAATGAATGTTTTTTGTGATTATGATCCAGCAACTGCT
Found at i:26886 original size:12 final size:12
Alignment explanation
Indices: 26869--26907 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
26859 TTTATTTTAC
26869 ACGTGGCATCTT
1 ACGTGGCATCTT
*
26881 ACGTGGCATCCT
1 ACGTGGCATCTT
26893 ACGTGGCATACTT
1 ACGTGGCAT-CTT
26906 AC
1 AC
26908 CGGCACGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (12 bp):
ACGTGGCATCTT
Found at i:27017 original size:29 final size:29
Alignment explanation
Indices: 26998--27058 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
26988 GACGTTTTTG
*
26998 AAACGTTATATCCTGAATTGATTTTTCAGGC
1 AAACATTATATCCTGAATTGATTTTT-A-GC
27029 AAACATTATATCCTGAATTGATTATTTAGC
1 AAACATTATATCCTGAATTGATT-TTTAGC
27059 CCAAAACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 23 0.82
32 3 0.11
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (29 bp):
AAACATTATATCCTGAATTGATTTTTAGC
Done.