Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020369.1 Corchorus olitorius cultivar O-4 contig20402, 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: 128907
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--29 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30 CATCAGTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11487 original size:41 final size:43
Alignment explanation
Indices: 11385--11714 Score: 408
Period size: 41 Copynumber: 7.8 Consensus size: 43
11375 CCAATAACCA
* * *
11385 AAAGTCCCCAAACACATATATAACATATG-GGCATCTCTATTCC
1 AAAGTCCCCAAACACATATATAACACA-GAGGCATCTATATTAC
* *
11428 AAAAGTCCTCAAACACATATATAACACAGAGGCACCTATATT-C
1 -AAAGTCCCCAAACACATATATAACACAGAGGCATCTATATTAC
* * *
11471 -AAGTCCCCAAACACATATATAACACAGGGGCACCTTTATTAC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTATATTAC
* *
11513 AAAGTCCTCAAACACATATATAACACAGAGACATCTATA-T-C
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTATATTAC
* *
11554 AAAGTCCCCAAACACATATATAACACATG-GGCAACTCTATTAC
1 AAAGTCCCCAAACACATATATAACACA-GAGGCATCTATATTAC
* *
11597 AAAGTCCTCAAACACATATATAACACAGAGACATC--TATTAC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTATATTAC
* *
11638 AAAGTCCCCAAATACATATATAACACAG-GTGCATCTCTATTAC
1 AAAGTCCCCAAACACATATATAACACAGAG-GCATCTATATTAC
*
11681 AAAGTCCTCAAACACATATATAACACAGAGGCAT
1 AAAGTCCCCAAACACATATATAACACAGAGGCAT
11715 TTCTCCTTAT
Statistics
Matches: 251, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.00
41 107 0.43
42 5 0.02
43 102 0.41
44 36 0.14
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.22
Consensus pattern (43 bp):
AAAGTCCCCAAACACATATATAACACAGAGGCATCTATATTAC
Found at i:11541 original size:84 final size:85
Alignment explanation
Indices: 11385--11710 Score: 514
Period size: 84 Copynumber: 3.9 Consensus size: 85
11375 CCAATAACCA
* * *
11385 AAAGTCCCCAAACACATATATAACATATGGGCATCTCTATTCCAAAAGTCCTCAAACACATATAT
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTAC-AAAGTCCTCAAACACATATAT
* *
11450 AACACAGAGGCACCTATATTC
65 AACACAGAGACATCTATATTC
* *
11471 -AAGTCCCCAAACACATATATAACACAGGGGCACCTTTATTACAAAGTCCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTACAAAGTCCTCAAACACATATATA
11535 ACACAGAGACATCTATA-TC
66 ACACAGAGACATCTATATTC
* *
11554 AAAGTCCCCAAACACATATATAACACATGGGCAACTCTATTACAAAGTCCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTACAAAGTCCTCAAACACATATATA
*
11619 ACACAGAGACATCTAT-TAC
66 ACACAGAGACATCTATATTC
* *
11638 AAAGTCCCCAAATACATATATAACACAGGTGCATCTCTATTACAAAGTCCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTACAAAGTCCTCAAACACATATATA
11703 ACACAGAG
66 ACACAGAG
11711 GCATTTCTCC
Statistics
Matches: 223, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
83 2 0.01
84 184 0.83
85 37 0.17
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (85 bp):
AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTACAAAGTCCTCAAACACATATATA
ACACAGAGACATCTATATTC
Found at i:20567 original size:31 final size:28
Alignment explanation
Indices: 20497--20570 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 28
20487 TCAAATTGCG
*
20497 AGTTCAGGGGGC-AAACATCCAAATTAA
1 AGTTCAGGGGGCAAAACATCAAAATTAA
* * *
20524 AGTTTAGAGGGCAAAACGTCAAAATCATAAA
1 AGTTCAGGGGGCAAAACATCAAAAT--T-AA
20555 AGTTCAGGGGGCAAAA
1 AGTTCAGGGGGCAAAA
20571 AGGGCATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 10 0.27
28 10 0.27
30 1 0.03
31 16 0.43
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (28 bp):
AGTTCAGGGGGCAAAACATCAAAATTAA
Found at i:23562 original size:12 final size:12
Alignment explanation
Indices: 23545--23576 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
23535 ACCTGGCAAT
23545 TCGTGTTTCGTG
1 TCGTGTTTCGTG
23557 TCGTGTTTCGTG
1 TCGTGTTTCGTG
23569 TCGTGTTT
1 TCGTGTTT
23577 ACATAGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.31, T:0.53
Consensus pattern (12 bp):
TCGTGTTTCGTG
Found at i:44038 original size:22 final size:22
Alignment explanation
Indices: 44008--44050 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43998 ATTTATAATA
* *
44008 TTCTTGGATCATTCGGGTTAAC
1 TTCTCGGATCATTCGGATTAAC
*
44030 TTCTCGGATTATTCGGATTAA
1 TTCTCGGATCATTCGGATTAA
44051 GGGTTTATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (22 bp):
TTCTCGGATCATTCGGATTAAC
Found at i:53427 original size:10 final size:10
Alignment explanation
Indices: 53412--53437 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
53402 GGTTAGCATT
53412 AAAAGGAAAG
1 AAAAGGAAAG
53422 AAAAGGAAAG
1 AAAAGGAAAG
53432 AAAAGG
1 AAAAGG
53438 GAAGTTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
AAAAGGAAAG
Found at i:58987 original size:5 final size:5
Alignment explanation
Indices: 58977--59007 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
58967 TGTACTTGCT
58977 ACACC ACACC ACACC ACACC ACACC ACACC A
1 ACACC ACACC ACACC ACACC ACACC ACACC A
59008 GCTCATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACACC
Found at i:65386 original size:2 final size:2
Alignment explanation
Indices: 65379--65410 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
65369 TGGAGTGTTT
65379 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
65411 TGAGTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:68266 original size:20 final size:20
Alignment explanation
Indices: 68237--68287 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
68227 TTTTTTGCGC
*
68237 GGAGCAAGTTTGTAGCTGCA
1 GGAGCTAGTTTGTAGCTGCA
68257 GGAGCTAGTTTGTAGCTGCA
1 GGAGCTAGTTTGTAGCTGCA
*
68277 GGAGCTGGTTT
1 GGAGCTAGTTT
68288 TTTGATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.37, T:0.29
Consensus pattern (20 bp):
GGAGCTAGTTTGTAGCTGCA
Found at i:77513 original size:16 final size:17
Alignment explanation
Indices: 77489--77530 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
77479 CATTCAAGAG
77489 GGAAAGAAA-AGAAAAT
1 GGAAAGAAAGAGAAAAT
* *
77505 GGAAGGAAAGAGAAATT
1 GGAAAGAAAGAGAAAAT
77522 GGAAA-AAAG
1 GGAAAGAAAG
77531 GCAAGGCAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (17 bp):
GGAAAGAAAGAGAAAAT
Found at i:88051 original size:10 final size:10
Alignment explanation
Indices: 88036--88061 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
88026 CAAATCCAAA
88036 AAAAAAAAAC
1 AAAAAAAAAC
88046 AAAAAAAAAC
1 AAAAAAAAAC
88056 AAAAAA
1 AAAAAA
88062 CAAAATGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:88059 original size:17 final size:16
Alignment explanation
Indices: 88033--88066 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
88023 TTCCAAATCC
88033 AAAAAAAAAAAACAAA
1 AAAAAAAAAAAACAAA
88049 AAAAAACAAAAAACAAA
1 AAAAAA-AAAAAACAAA
88066 A
1 A
88067 TGTCTCTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAACAAA
Found at i:89511 original size:93 final size:90
Alignment explanation
Indices: 89326--89511 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 90
89316 CGCTTTCTTC
* * *
89326 TTCCTCAATTTCGCCAAAAGCCTTTCTCTTTGTATCTTGTGCTTTCTCAGGCAGACTTTCACTAG
1 TTCCTCAATTTCACCAAAAGCCTTTCTCTTTGTATCTTCTGCTTTCTCAGGCAGAATTTCACTAG
89391 CATGCTCATTAGCATGAGCCTTCTG
66 CATGCTCATTAGCATGAGCCTTCTG
*
89416 TTCCTCGATTTCACCAAAAGCCTTTCTCTTTGTATCTTCTGCTTTCTCAGGAGGCAGAATTTCAC
1 TTCCTCAATTTCACCAAAAGCCTTTCTCTTTGTATCTTCTGCTTTCTC---AGGCAGAATTTCAC
89481 TAGCATGCTCATTAGCATGAGCCTTCTG
63 TAGCATGCTCATTAGCATGAGCCTTCTG
89509 TTC
1 TTC
89512 TAAATCATGC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
90 45 0.51
93 44 0.49
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (90 bp):
TTCCTCAATTTCACCAAAAGCCTTTCTCTTTGTATCTTCTGCTTTCTCAGGCAGAATTTCACTAG
CATGCTCATTAGCATGAGCCTTCTG
Found at i:95014 original size:8 final size:9
Alignment explanation
Indices: 95001--95038 Score: 55
Period size: 8 Copynumber: 4.6 Consensus size: 9
94991 GAATGGCCCT
95001 TAATAT-TA
1 TAATATATA
95009 TAATATATA
1 TAATATATA
95018 T-ATATATA
1 TAATATATA
95026 T-ATATATA
1 TAATATATA
95034 TAATA
1 TAATA
95039 CAATCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TAATATATA
Found at i:95054 original size:2 final size:2
Alignment explanation
Indices: 95003--95035 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
94993 ATGGCCCTTA
95003 AT AT -T AT A- 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 AT AT AT AT A
95036 ATACAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95481 original size:18 final size:20
Alignment explanation
Indices: 95458--95499 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
95448 CTCAAATTAG
95458 AAACTATATA-CTAT-AAAT
1 AAACTATATACCTATCAAAT
*
95476 AAACTATCTACCTATCAAAT
1 AAACTATATACCTATCAAAT
95496 AAAC
1 AAAC
95500 AAACAAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (20 bp):
AAACTATATACCTATCAAAT
Found at i:97904 original size:44 final size:42
Alignment explanation
Indices: 97839--97955 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 42
97829 GGTTCTACTC
* *
97839 AGACAAGGCTTGGTTATGGCTAAGAATATGTGATTTGGGGGATT
1 AGACAAGGCTTGATT-TGGCTAAGAATATGAGATTT-GGGGATT
* * *
97883 AGACAAGGTTTGATTTGGGCTATA-AGTGTTGAGATTTGGGGATT
1 AGACAAGGCTTGATTT-GGCTA-AGAAT-ATGAGATTTGGGGATT
*
97927 AGACAAGGCTTGATCCTGGCTAAGAATAT
1 AGACAAGGCTTGAT-TTGGCTAAGAATAT
97956 AGAGTGATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.05
44 47 0.80
45 9 0.15
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.32
Consensus pattern (42 bp):
AGACAAGGCTTGATTTGGCTAAGAATATGAGATTTGGGGATT
Found at i:98465 original size:5 final size:5
Alignment explanation
Indices: 98451--98480 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
98441 TCAAGTAATT
*
98451 AAAGG AAAGG GAAGG AAAGG AAAGG AAAGG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG
98481 GGAGGGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:98740 original size:21 final size:22
Alignment explanation
Indices: 98706--98753 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
98696 AAAACAAAAG
*
98706 AAAAAATCAGAAATTTTCAACAA
1 AAAAAATCAGAAATCTTC-ACAA
98729 AAAAAAT-A-AAATCTTCACAA
1 AAAAAATCAGAAATCTTCACAA
*
98749 GAAAA
1 AAAAA
98754 GAGATGAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 1 0.04
23 7 0.30
ACGTcount: A:0.65, C:0.12, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAAAATCAGAAATCTTCACAA
Found at i:102725 original size:12 final size:12
Alignment explanation
Indices: 102708--102732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102698 AGTTAATCAC
102708 TTTTTAATTTTT
1 TTTTTAATTTTT
102720 TTTTTAATTTTT
1 TTTTTAATTTTT
102732 T
1 T
102733 CTATCCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTAATTTTT
Found at i:111946 original size:25 final size:24
Alignment explanation
Indices: 111895--111947 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
111885 TTTTTGTCAA
*
111895 TTGTAAATTAGTACTATATAATTT
1 TTGTAAATTAGTACTATATAATAT
111919 TTGTAAATTAGTACTACTAT-ATAAT
1 TTGTAAATTAGTACTA-TATAAT-AT
111944 TTGT
1 TTGT
111948 TATAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (24 bp):
TTGTAAATTAGTACTATATAATAT
Found at i:112986 original size:53 final size:53
Alignment explanation
Indices: 112901--113007 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
112891 CTTACAATAG
112901 TATACTTTGTTAGTGAAAGCTCAATCTTTTTATTAAGATTCAAATATTTAGGA
1 TATACTTTGTTAGTGAAAGCTCAATCTTTTTATTAAGATTCAAATATTTAGGA
* * *
112954 TATATTTTGTTGGTTAAAGCTCAATCTTTTTATTAAGATTCAAATATTTAGGA
1 TATACTTTGTTAGTGAAAGCTCAATCTTTTTATTAAGATTCAAATATTTAGGA
113007 T
1 T
113008 TTGTTTGGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (53 bp):
TATACTTTGTTAGTGAAAGCTCAATCTTTTTATTAAGATTCAAATATTTAGGA
Found at i:113251 original size:61 final size:61
Alignment explanation
Indices: 113164--113297 Score: 241
Period size: 61 Copynumber: 2.2 Consensus size: 61
113154 AATTAAAAGG
*
113164 AAAATAAATAAAAAAATATTATTGCTAGAATACCGGTTCATTATTATATAAAGTAAAAATTA
1 AAAAGAAA-AAAAAAATATTATTGCTAGAATACCGGTTCATTATTATATAAAGTAAAAATTA
*
113226 AAAAGAAAAAAAAAATATTATTGCTAGAATACCGGTTCATTATTATATAAAGTTAAAATTA
1 AAAAGAAAAAAAAAATATTATTGCTAGAATACCGGTTCATTATTATATAAAGTAAAAATTA
113287 AAAAGAAAAAA
1 AAAAGAAAAAA
113298 TATTAATGCT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
61 63 0.90
62 7 0.10
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (61 bp):
AAAAGAAAAAAAAAATATTATTGCTAGAATACCGGTTCATTATTATATAAAGTAAAAATTA
Found at i:115138 original size:70 final size:69
Alignment explanation
Indices: 115025--115163 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 69
115015 ATAAGGTCTT
115025 GGGTTCAACTCTCACGGAATGTGAGTTTAATAGTTTCTAATTTCTAGGTTTAGGAGCATGTATTA
1 GGGTTCAACTCTCACGGAATGTGAGTTTAATAGTTTCTAATTTCTAGG-TTAGGAGCATGTATTA
115090 TGAGA
65 TGAGA
115095 GGGTTCAACTCTCACGGAATGTGAGTTTAATAGTTTCTAATTTCTAGGTTAGGAGCATGTATTAT
1 GGGTTCAACTCTCACGGAATGTGAGTTTAATAGTTTCTAATTTCTAGGTTAGGAGCATGTATTAT
115160 GAGA
66 GAGA
115164 TTTCAAATCT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 21 0.30
70 48 0.70
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (69 bp):
GGGTTCAACTCTCACGGAATGTGAGTTTAATAGTTTCTAATTTCTAGGTTAGGAGCATGTATTAT
GAGA
Found at i:120070 original size:46 final size:47
Alignment explanation
Indices: 119978--120074 Score: 160
Period size: 46 Copynumber: 2.0 Consensus size: 47
119968 GGATACCACA
*
119978 TGCAAACAGTAAAATTAAATAGATAATAAAGTAGTCATGCCTCTTTCCC
1 TGCAAACAGTAAAATTAAATAG--AATAAAGTAGTCATACCTCTTTCCC
120027 TGCAAACAGTAAAATTAAATAG-ATAAAGTAGTCATACCTCTTTCCC
1 TGCAAACAGTAAAATTAAATAGAATAAAGTAGTCATACCTCTTTCCC
120073 TG
1 TG
120075 GCTTCCCAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
46 25 0.53
49 22 0.47
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (47 bp):
TGCAAACAGTAAAATTAAATAGAATAAAGTAGTCATACCTCTTTCCC
Done.