Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020015.1 Corchorus olitorius cultivar O-4 contig20048, 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: 32449
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Found at i:874 original size:30 final size:29
Alignment explanation
Indices: 831--887 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
821 TTAGGATTAG
831 TTATTTATGCTTTAATTTTCAA-TTTCCT
1 TTATTTATGCTTTAATTTTCAAGTTTCCT
859 TTATCTTATGTCTTTAATTTTCAAGTTTC
1 TTAT-TTATG-CTTTAATTTTCAAGTTTC
888 ATTAATAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 13 0.50
31 4 0.15
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (29 bp):
TTATTTATGCTTTAATTTTCAAGTTTCCT
Found at i:1541 original size:19 final size:18
Alignment explanation
Indices: 1519--1554 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1509 AAAAACGGTA
*
1519 AAAAAAAATTGTTTTCAT
1 AAAAAAAAGTGTTTTCAT
*
1537 AAAAAGAAGTGTTTTCAT
1 AAAAAAAAGTGTTTTCAT
1555 GATAGAGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (18 bp):
AAAAAAAAGTGTTTTCAT
Found at i:2414 original size:19 final size:18
Alignment explanation
Indices: 2390--2426 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2380 AAGTTCGTGC
2390 TTTGAAGATAATTTGAAGA
1 TTTGAAGATAA-TTGAAGA
*
2409 TTTGAAGATCATTGAAGA
1 TTTGAAGATAATTGAAGA
2427 ATTATTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.35
Consensus pattern (18 bp):
TTTGAAGATAATTGAAGA
Found at i:13139 original size:21 final size:22
Alignment explanation
Indices: 13106--13154 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
13096 CTCCTCCTAG
*
13106 GCACCCACATGG-TTGCCTTGA
1 GCACCCACATGGTTTGCCTTAA
**
13127 GCACCCATTTGGTTTGCCTTAA
1 GCACCCACATGGTTTGCCTTAA
13149 G-ACCCA
1 GCACCCA
13155 GCTGGGCGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (22 bp):
GCACCCACATGGTTTGCCTTAA
Found at i:14368 original size:40 final size:40
Alignment explanation
Indices: 14324--15114 Score: 472
Period size: 40 Copynumber: 18.9 Consensus size: 40
14314 AGGGAATAGG
* * *
14324 AACAACACCTTCCGATGAGGAAGGGCATACTGGGAATTCA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTCA
* ** * * *
14364 AACAACATCTT-CGGTTAGGAAGGGCCAACTGGTAAAAT-A
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGG-GAATTCA
* * * *
14403 AACAAAACCTTACGGTGGGGAAGGGCAAACTAGGAACGT-A
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA-TTCA
* * * * * ** *
14443 AACTAGATCTTCTGGTGGGGAAGGGCAAATTCAGAATCTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAT-TCA
* * *
14484 AACAACACCTTCCGGTGGGGAAAGGCAAACTCGTAA-TCTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTC-A
* * * *
14524 AATAACAACTTCCGGTGGGGAAGGGCAAACT-GGTATTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTCA
* * *
14563 AACAACACTTTCCGGTGGGGAAGGGCAAACTAGTAA-TCTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTC-A
* * * *
14603 AACAACACCCTCCGGTGCGGAAGGGCAAACTAGTAA-TCTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTC-A
* **
14643 AACAACACCTTCCGATGGGGAAGGGCAAACTGATAA-TCTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTC-A
*
14683 AACAACACATTCCGGTGGGGAAGGGCAAACTGGGAAAAGCAGCCTT-A
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGG---A--A---TTCA
* * * * *
14730 AACAACACTTTCCGATGAGGAAAGGCAAACTGGGAATTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTCA
* * *
14770 AACAACACCTTCTGGTGGGGAAGGGCAAATTGGGTAAAGTAGACTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGG--AA-T----TCA
* * * * * *
14817 AAGAATACCTTCCGATGAGGAAGGACAAACT-GGAAATCTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTC-A
*
14857 AACAACACCTTCCGGTGGGGAATGGCAAACTGGGTAAAGCAGACTT-A
1 AACAACACCTTCCGGTGGGGAAGGGCAAACT-GG----G-A-A-TTCA
* * *
14904 AAGAACACCTTCCGATGAGGAAGGGCAAACTGGGAA-TCTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTC-A
*
14944 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGTAACGCATACTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGG--A---AT--TCA
* ** * *
14991 AACAACACCTTCCGATAAGAAAGGGCAAACTGGGAATTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTCA
* *
15031 AACAACACCTTCCGGTGGGGAAGGGCAAATTGGGTAAAGTAGACTTA
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGG--AA-T----TCA
* * *
15078 AACAACACCTTCCGATGAGGAAGGGCTAACTGGGAAT
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAT
15115 ACCGACAAGG
Statistics
Matches: 594, Mismatches: 104, Indels: 102
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 65 0.11
40 316 0.53
41 30 0.05
42 10 0.02
43 3 0.01
44 4 0.01
45 5 0.01
46 5 0.01
47 151 0.25
48 2 0.00
49 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (40 bp):
AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAATTCA
Found at i:14453 original size:79 final size:79
Alignment explanation
Indices: 14324--15059 Score: 388
Period size: 87 Copynumber: 8.9 Consensus size: 79
14314 AGGGAATAGG
* * * * * * **
14324 AACAACACCTTCCGATGAGGAAGGGCATACTGGGAAT-TCAAACAACATCTTCGGTTAGGAAGGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCT-AAACTACATCTTCGGTGGGGAAGGG
* * **
14388 CCAACTGGTAAAATA
65 CAAACTAGTAATTTA
* * * *
14403 AACAAAACCTTACGGTGGGGAAGGGCAAACTAGGAA-CGTAAACTAGATCTTCTGGTGGGGAAGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATC-TAAACTACATCTTC-GGTGGGGAAGG
*
14467 GCAAATTCAG-AATCTTA
64 GCAAACT-AGTAAT-TTA
* * *
14484 AACAACACCTTCCGGTGGGGAAAGGCAAACTCGTAATCTAAA-TAACAACTTCCGGTGGGGAAGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACT-ACATCTT-CGGTGGGGAAGG
*
14548 GCAAACTGGT-ATTTA
64 GCAAACTAGTAATTTA
* * * * *
14563 AACAACACTTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACAACACCCTCCGGTGCGGAAGGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACTACA-TCTTCGGTGGGGAAGGG
*
14628 CAAACTAGTAATCTA
65 CAAACTAGTAATTTA
* *
14643 AACAACACCTTCCGATGGGGAAGGGCAAACT-GATAATCTAAACAACA-CATTCCGGTGGGGAAG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAG-TAATCTAAACTACATC-TT-CGGTGGGGAAG
* **
14706 GGCAAACTGGGAAAAGCAGCCTTA
63 GGCAAACT------AGTA-ATTTA
* * * * * * * * *
14730 AACAACACTTTCCGATGAGGAAAGGCAAACTGGGAATTTAAACAACACCTTCTGGTGGGGAAGGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACTACATCTTC-GGTGGGGAAGGG
* *
14795 CAAATTGGGTAAAGTAGACTTA
65 CAAA----CT--AGTA-ATTTA
* * * * * * * * * *
14817 AAGAATACCTTCCGATGAGGAAGGACAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAATGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACTACATCTT-CGGTGGGGAAGGG
* *
14882 CAAACTGGGTAAAGCAGACTTA
65 CAAAC----T--AGTA-ATTTA
* * * * * * *
14904 AAGAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAAGGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACTACATCTT-CGGTGGGGAAGGG
*
14969 CAAACTGGGTAACGCATACTTA
65 CAAACT-AGT-A---AT--TTA
* ** * * * * * *
14991 AACAACACCTTCCGATAAGAAAGGGCAAACTGGGAATTTAAACAACACCTTCCGGTGGGGAAGGG
1 AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACTACATCTT-CGGTGGGGAAGGG
15056 CAAA
65 CAAA
15060 TTGGGTAAAG
Statistics
Matches: 546, Mismatches: 72, Indels: 70
0.79 0.10 0.10
Matches are distributed among these distances:
78 1 0.00
79 108 0.20
80 88 0.16
81 60 0.11
82 3 0.01
83 2 0.00
85 1 0.00
86 4 0.01
87 275 0.50
88 3 0.01
91 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (79 bp):
AACAACACCTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAACTACATCTTCGGTGGGGAAGGGC
AAACTAGTAATTTA
Found at i:14787 original size:87 final size:87
Alignment explanation
Indices: 14641--15114 Score: 682
Period size: 87 Copynumber: 5.4 Consensus size: 87
14631 ACTAGTAATC
* * ** *
14641 TAAACAACACCTTCCGATGGGGAAGGGCAAACTGATAATCTAAACAACACATTCCGGTGGGGAAG
1 TAAACAACACCTTCCGATGAGGAAAGGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAAG
* *
14706 GGCAAACTGGGAAAAGCAGCCT
66 GGCAAACTGGGTAAAGCAGACT
* * *
14728 TAAACAACACTTTCCGATGAGGAAAGGCAAACTGGGAATTTAAACAACACCTTCTGGTGGGGAAG
1 TAAACAACACCTTCCGATGAGGAAAGGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAAG
* *
14793 GGCAAATTGGGTAAAGTAGACT
66 GGCAAACTGGGTAAAGCAGACT
* * *
14815 TAAAGAATACCTTCCGATGAGG-AAGGACAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAA
1 TAAACAACACCTTCCGATGAGGAAAGG-CAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAA
*
14879 TGGCAAACTGGGTAAAGCAGACT
65 GGGCAAACTGGGTAAAGCAGACT
* *
14902 TAAAGAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAAG
1 TAAACAACACCTTCCGATGAGGAAAGGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAAG
* *
14967 GGCAAACTGGGTAACGCATACT
66 GGCAAACTGGGTAAAGCAGACT
* *
14989 TAAACAACACCTTCCGAT-AAGAAAGGGCAAACTGGGAATTTAAACAACACCTTCCGGTGGGGAA
1 TAAACAACACCTTCCGATGAGGAAA-GGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAA
* *
15053 GGGCAAATTGGGTAAAGTAGACT
65 GGGCAAACTGGGTAAAGCAGACT
* *
15076 TAAACAACACCTTCCGATGAGGAAGGGCTAACTGGGAAT
1 TAAACAACACCTTCCGATGAGGAAAGGCAAACTGGGAAT
15115 ACCGACAAGG
Statistics
Matches: 345, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
86 8 0.02
87 330 0.96
88 7 0.02
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.18
Consensus pattern (87 bp):
TAAACAACACCTTCCGATGAGGAAAGGCAAACTGGGAATCTAAACAACACCTTCCGGTGGGGAAG
GGCAAACTGGGTAAAGCAGACT
Found at i:14886 original size:174 final size:173
Alignment explanation
Indices: 14324--15114 Score: 816
Period size: 174 Copynumber: 4.7 Consensus size: 173
14314 AGGGAATAGG
* * * **
14324 AACAACACCTTCCGATGAGGAAGGGCATACTGGGAAT-TCAAACAACATCTT-CGGTTAGGAAGG
1 AACAACACCTTCCGATGAGGAAGGGCAAACTGGAAATCT-AAACAACACCTTCCGGTGGGGAAGG
* * * * * *
14387 GCCAACT-GGT-AA--A-A--TAAACAAAACCTTACGGTGGGGAAGGGCAAACTAGGAA-CGTAA
65 GCAAACTGGGTAAAGCAGACTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAATC-TAA
* * * * *
14444 ACTAGATCTTCTGGTGGGGAAGGGCAAA-T---T-CAG-AATCTTA
129 ACAACACCTTCCGGTGGGGAAGGGCAAACTGGGTAAAGTAA-CTTA
* * * * * * *
14484 AACAACACCTTCCGGTGGGGAAAGGCAAACTCGTAATCTAAATAACAACTTCCGGTGGGGAAGGG
1 AACAACACCTTCCGATGAGGAAGGGCAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAAGGG
* * * * * *
14549 CAAACT-GGT-------ATTTAAACAACACTTTCCGGTGGGGAAGGGCAAACTAGTAATCTAAAC
66 CAAACTGGGTAAAGCAGACTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAAC
* * *
14606 AACACCCTCCGGTGCGGAAGGGCAAACT-AGT-AA-T--C-TA
131 AACACCTTCCGGTGGGGAAGGGCAAACTGGGTAAAGTAACTTA
* *
14643 AACAACACCTTCCGATGGGGAAGGGCAAACT-GATAATCTAAACAACACATTCCGGTGGGGAAGG
1 AACAACACCTTCCGATGAGGAAGGGCAAACTGGA-AATCTAAACAACACCTTCCGGTGGGGAAGG
* * * * *
14707 GCAAACTGGGAAAAGCAGCCTTAAACAACACTTTCCGATGAGGAAAGGCAAACTGGGAATTTAAA
65 GCAAACTGGGTAAAGCAGACTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAA
* *
14772 CAACACCTTCTGGTGGGGAAGGGCAAATTGGGTAAAGTAGACTTA
130 CAACACCTTCCGGTGGGGAAGGGCAAACTGGGTAAAGTA-ACTTA
* * * *
14817 AAGAATACCTTCCGATGAGGAAGGACAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAATGG
1 AACAACACCTTCCGATGAGGAAGGGCAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAAGGG
*
14882 CAAACTGGGTAAAGCAGACTTAAAGAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAAC
66 CAAACTGGGTAAAGCAGACTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAAC
* *
14947 AACACCTTCCGGTGGGGAAGGGCAAACTGGGTAACGCATACTTA
131 AACACCTTCCGGTGGGGAAGGGCAAACTGGGTAAAGTA-ACTTA
* * * *
14991 AACAACACCTTCCGATAAGAAAGGGCAAACTGGGAATTTAAACAACACCTTCCGGTGGGGAAGGG
1 AACAACACCTTCCGATGAGGAAGGGCAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAAGGG
* * *
15056 CAAATTGGGTAAAGTAGACTTAAACAACACCTTCCGATGAGGAAGGGCTAACTGGGAAT
66 CAAACTGGGTAAAGCAGACTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAAT
15115 ACCGACAAGG
Statistics
Matches: 534, Mismatches: 71, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
158 2 0.00
159 65 0.12
160 103 0.19
161 22 0.04
163 2 0.00
167 64 0.12
168 2 0.00
169 2 0.00
170 1 0.00
173 1 0.00
174 268 0.50
175 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (173 bp):
AACAACACCTTCCGATGAGGAAGGGCAAACTGGAAATCTAAACAACACCTTCCGGTGGGGAAGGG
CAAACTGGGTAAAGCAGACTTAAACAACACCTTCCGATGAGGAAGGGCAAACTGGGAATCTAAAC
AACACCTTCCGGTGGGGAAGGGCAAACTGGGTAAAGTAACTTA
Found at i:18447 original size:17 final size:16
Alignment explanation
Indices: 18421--18459 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
18411 TTTGTTTTTT
18421 GTGAGCATGTGGAGAA
1 GTGAGCATGTGGAGAA
*
18437 GATGAGGATGTGGAGAA
1 G-TGAGCATGTGGAGAA
18454 GTGAGC
1 GTGAGC
18460 TGGCTTGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.31, C:0.05, G:0.46, T:0.18
Consensus pattern (16 bp):
GTGAGCATGTGGAGAA
Found at i:27338 original size:30 final size:30
Alignment explanation
Indices: 27304--27366 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
27294 GGGGTGCGTC
27304 TATAACACGCACTGACGTGGATGACACGTG
1 TATAACACGCACTGACGTGGATGACACGTG
* * * * *
27334 TATAACAGGCGCTGATGTGGATGGCACTTG
1 TATAACACGCACTGACGTGGATGACACGTG
27364 TAT
1 TAT
27367 GCCCACATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (30 bp):
TATAACACGCACTGACGTGGATGACACGTG
Found at i:27549 original size:18 final size:18
Alignment explanation
Indices: 27526--27562 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27516 TCAAGAACAC
**
27526 CAAGAACATTCAAAATTG
1 CAAGAACATGAAAAATTG
27544 CAAGAACATGAAAAATTG
1 CAAGAACATGAAAAATTG
27562 C
1 C
27563 CAAAAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (18 bp):
CAAGAACATGAAAAATTG
Found at i:28897 original size:31 final size:30
Alignment explanation
Indices: 28859--28929 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
28849 GTCTAATTTT
* *
28859 ATCCTGAATTGACCCATCCCGATAACGTTAG
1 ATCCTGAATTGACACA-ACCGATAACGTTAG
* *
28890 ATCCTGAATTGATACAAGCGATAACGTTAG
1 ATCCTGAATTGACACAACCGATAACGTTAG
28920 A-CCTGAATTG
1 ATCCTGAATTG
28930 TAGTTTACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 9 0.25
30 13 0.36
31 14 0.39
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (30 bp):
ATCCTGAATTGACACAACCGATAACGTTAG
Found at i:30540 original size:20 final size:20
Alignment explanation
Indices: 30513--30561 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
30503 ATAAGAGAGA
* * *
30513 ATTTTTTAAAGTTTTTATTTT
1 ATTTTTAAAATTTTTTA-ATT
30534 ATTTTTAAAATTTTTTAATT
1 ATTTTTAAAATTTTTTAATT
30554 ATTTTTAA
1 ATTTTTAA
30562 GAATGAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTAAAATTTTTTAATT
Found at i:31330 original size:2 final size:2
Alignment explanation
Indices: 31325--31351 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31315 ATTATGATGC
31325 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
31352 GGGAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.