Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008198.1 Corchorus capsularis cultivar CVL-1 contig08219, 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: 85014
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--49 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
43 CT CT CT C
1 CT CT CT C
50 CCATTCGGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:2550 original size:2 final size:2
Alignment explanation
Indices: 2543--2567 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2533 GAAGCAGAAG
2543 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 A
2568 GGAATAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12325 original size:2 final size:2
Alignment explanation
Indices: 12318--12345 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12308 CAAGCTCTAC
12318 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
12346 ATCCGTCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14163 original size:2 final size:2
Alignment explanation
Indices: 14156--14182 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14146 TTTCAAAGAA
14156 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
14183 ATTTATGAAT
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
Found at i:21732 original size:75 final size:74
Alignment explanation
Indices: 21639--21789 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 74
21629 TTTATTTCTA
21639 AAAGCCTATAACAATATTATTAATTATGGAATTTACCCTTAAAATAAAAATAAAATTTTAATTTG
1 AAAGCCTATAACAATATTATTAATTATGGAATTTACCCTTAAAATAAAAATAAAATTTTAATTT-
21704 GGGCTAAACT
65 GGGCTAAACT
*
21714 AAAGCCTATAACAATATTATTAATTATGGAATTTACCCTTAAAATAAAAATAAAATTTTAATTTT
1 AAAGCCTATAACAATATTATTAATTATGGAATTTACCCTTAAAATAAAAATAAAATTTTAATTTG
21779 GGCTAAACT
66 GGCTAAACT
21788 AA
1 AA
21790 GTGAAATTAG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 11 0.15
75 64 0.85
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (74 bp):
AAAGCCTATAACAATATTATTAATTATGGAATTTACCCTTAAAATAAAAATAAAATTTTAATTTG
GGCTAAACT
Found at i:22427 original size:11 final size:11
Alignment explanation
Indices: 22413--22437 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22403 AAAATCTTCC
22413 TTGGATCTTTT
1 TTGGATCTTTT
22424 TTGGATCTTTT
1 TTGGATCTTTT
22435 TTG
1 TTG
22438 AAAGAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (11 bp):
TTGGATCTTTT
Found at i:22524 original size:37 final size:37
Alignment explanation
Indices: 22474--22553 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
22464 TCTTCTTTCA
22474 ATAATTTCCCAATAACTGGGTCTTCAGTAATTCTCCG
1 ATAATTTCCCAATAACTGGGTCTTCAGTAATTCTCCG
22511 ATAATTTCCCAATAACTGGGTCTTCAGTAATTCTCCG
1 ATAATTTCCCAATAACTGGGTCTTCAGTAATTCTCCG
22548 ATAATT
1 ATAATT
22554 GAATCTTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (37 bp):
ATAATTTCCCAATAACTGGGTCTTCAGTAATTCTCCG
Found at i:22669 original size:16 final size:16
Alignment explanation
Indices: 22648--22682 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
22638 ATCTGAAATA
*
22648 CTTCAGAGCTTTTCTG
1 CTTCAGAGCTCTTCTG
22664 CTTCAGAGCTCTTCTG
1 CTTCAGAGCTCTTCTG
22680 CTT
1 CTT
22683 TCTGAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.29, G:0.17, T:0.43
Consensus pattern (16 bp):
CTTCAGAGCTCTTCTG
Found at i:23623 original size:21 final size:21
Alignment explanation
Indices: 23599--23642 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23589 AGGAAAATTT
23599 TATACATACATATACTAGTAC
1 TATACATACATATACTAGTAC
23620 TATACATACATATACTAGTAC
1 TATACATACATATACTAGTAC
23641 TA
1 TA
23643 GTACTAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (21 bp):
TATACATACATATACTAGTAC
Found at i:28394 original size:7 final size:7
Alignment explanation
Indices: 28378--28422 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
28368 AAATAATAAA
28378 AAAAAAG
1 AAAAAAG
*
28385 AAAAAGG
1 AAAAAAG
28392 AAAAAAG
1 AAAAAAG
28399 AAAAAAG
1 AAAAAAG
28406 AAAAGAA-
1 AAAA-AAG
28413 AAGAAAAG
1 AA-AAAAG
28421 AA
1 AA
28423 GAGATAGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:28415 original size:25 final size:25
Alignment explanation
Indices: 28375--28424 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
28365 TGAAAATAAT
28375 AAAAAAAAAGAAAAAGGAAAA-AAGA
1 AAAAAAAAAGAAAAA-GAAAAGAAGA
28400 AAAAAGAAAAG-AAAAGAAAAGAAGA
1 AAAAA-AAAAGAAAAAGAAAAGAAGA
28425 GATAGTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAGAAAAGAAGA
Found at i:28420 original size:15 final size:14
Alignment explanation
Indices: 28376--28422 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
28366 GAAAATAATA
28376 AAAAAAAAGAAAAAGG
1 AAAAAAAAG-AAAA-G
28392 AAAAAAGAA-AAAAG
1 AAAAAA-AAGAAAAG
28406 AAAAGAAAAGAAAAG
1 AAAA-AAAAGAAAAG
28421 AA
1 AA
28423 GAGATAGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.25
15 13 0.46
16 6 0.21
17 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:32076 original size:2 final size:2
Alignment explanation
Indices: 32069--32094 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32059 TAGACACATA
32069 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32095 GTTATAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41047 original size:53 final size:53
Alignment explanation
Indices: 40967--41074 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
40957 ATAAACCTTC
*
40967 AAATTTTCTTGCGCTTTGATTTAATATTTTCACTTCTAGGTTTTCAAATGCCT
1 AAATTTTCTTGCGCTTTGATTTAATATTTTCACTTCAAGGTTTTCAAATGCCT
* *
41020 AAATTTTCTTGCGCTTTGATTTGATATTTTCACTTCAAGGTTTTCAAATTCCT
1 AAATTTTCTTGCGCTTTGATTTAATATTTTCACTTCAAGGTTTTCAAATGCCT
41073 AA
1 AA
41075 TCAGGCCACG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (53 bp):
AAATTTTCTTGCGCTTTGATTTAATATTTTCACTTCAAGGTTTTCAAATGCCT
Found at i:54242 original size:231 final size:229
Alignment explanation
Indices: 53839--54259 Score: 673
Period size: 231 Copynumber: 1.8 Consensus size: 229
53829 AACACAGAAC
* * *
53839 GTCAATAGTGTGATGACAACACTGAGAATTAAAAGCTTCATCATCAATCTCCTTTGACAATGTTG
1 GTCAATAGCGCGATCACAACACTGAGAATTAAAAGCTTCATCATCAATCTCCTTTGACAATGTTG
*
53904 TAGCCTAGAATGTTATCCTTGTTCATCCACCCATCCCACCCTGAATTCCCCCAGGACAAAGTCTT
66 TAGCCTAGAAAGTTATCCTTGTTCATCCACCCATCCCACCCTGAATTCCCCCAGGACAAAGTCTT
*
53969 GGAGTTGAAGTTAGAGGTGATTAATTGAACAACTGCTCTTGGTTGATTTCAAACAATATGACGCA
131 GGAGTTAAAGTTAGAGGTGATTAATTG-A-AACTGCTCTTGGTTGATTTCAAACAATATGACGCA
54034 TTATTCAAATGCTTGATCATGCATTTATGACGCTAT
194 TTATTCAAATGCTTGATCATGCATTTATGACGCTAT
54070 GTCAATAGCGCGATCACAACACTGAGAATTAAAAGCTTCATCATCAATCTCCTTTGACAATGTTG
1 GTCAATAGCGCGATCACAACACTGAGAATTAAAAGCTTCATCATCAATCTCCTTTGACAATGTTG
* * ** *
54135 TAGCCTAGAAAGTTATCCTTTTCGTTCATCCACCCATCCGACCCTGAATTCCCCCCGGATGAATT
66 TAGCCTAGAAAGTTATCC--TT-GTTCATCCACCCATCCCACCCTGAATTCCCCCAGGACAAAGT
* * *
54200 TTTGGAGTTAAAGTTAGAGTTGATTAATTG-AACTTCTCTTGGTTGATTTCAAACAATATG
128 CTTGGAGTTAAAGTTAGAGGTGATTAATTGAAACTGCTCTTGGTTGATTTCAAACAATATG
54260 TACGGCTATG
Statistics
Matches: 174, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
231 108 0.62
233 2 0.01
234 64 0.37
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (229 bp):
GTCAATAGCGCGATCACAACACTGAGAATTAAAAGCTTCATCATCAATCTCCTTTGACAATGTTG
TAGCCTAGAAAGTTATCCTTGTTCATCCACCCATCCCACCCTGAATTCCCCCAGGACAAAGTCTT
GGAGTTAAAGTTAGAGGTGATTAATTGAAACTGCTCTTGGTTGATTTCAAACAATATGACGCATT
ATTCAAATGCTTGATCATGCATTTATGACGCTAT
Found at i:64029 original size:7 final size:7
Alignment explanation
Indices: 64010--64067 Score: 57
Period size: 7 Copynumber: 8.0 Consensus size: 7
64000 CTAAACTAGT
64010 ATTAATTA
1 ATTAA-TA
64018 A-TAATA
1 ATTAATA
64024 ATTAATA
1 ATTAATA
64031 ATTAAT-
1 ATTAATA
64037 ATTAATA
1 ATTAATA
*
64044 ATATTATA
1 AT-TAATA
64052 TATTAATA
1 -ATTAATA
64060 CATTAATA
1 -ATTAATA
64068 CATACATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
6 9 0.21
7 16 0.37
8 16 0.37
9 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTAATA
Found at i:64054 original size:16 final size:16
Alignment explanation
Indices: 64012--64059 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
64002 AAACTAGTAT
*
64012 TAATTAATAATAATTAA
1 TAATTAATATTAA-TAA
64029 TAATTAATATTAATAA
1 TAATTAATATTAATAA
64045 T-ATTATATATTAATA
1 TAATTA-ATATTAATA
64060 CATTAATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 4 0.14
16 13 0.45
17 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATTAATATTAATAA
Found at i:64201 original size:31 final size:30
Alignment explanation
Indices: 64138--64203 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
64128 AACTTTAAGT
* *
64138 TTTCCGATTGTACCCTCATTTTTAAAATATA
1 TTTCCAATTGTACCCT-ATTTTTAAAACATA
64169 TTTCCAATTGTACCCT-TTTTTAAAAAACATA
1 TTTCCAATTGTACCCTATTTTT--AAAACATA
64200 TTTC
1 TTTC
64204 TAAATTGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 5 0.16
31 26 0.84
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (30 bp):
TTTCCAATTGTACCCTATTTTTAAAACATA
Found at i:64584 original size:21 final size:22
Alignment explanation
Indices: 64544--64589 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
64534 TTCCTTAGGG
* * *
64544 AGGTTAACAAAATTTCATAAGA
1 AGGTTAAAAAAAATTCATAAAA
64566 AGGTTAAAAAAAATT-ATAAAA
1 AGGTTAAAAAAAATTCATAAAA
64587 AGG
1 AGG
64590 CTCTCGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.24
Consensus pattern (22 bp):
AGGTTAAAAAAAATTCATAAAA
Found at i:67758 original size:16 final size:16
Alignment explanation
Indices: 67737--67769 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67727 GATGTCCATG
67737 AATCTAAAATTAAAGC
1 AATCTAAAATTAAAGC
67753 AATCTAAAATTAAAGC
1 AATCTAAAATTAAAGC
67769 A
1 A
67770 CGGATAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (16 bp):
AATCTAAAATTAAAGC
Found at i:71538 original size:11 final size:11
Alignment explanation
Indices: 71514--71548 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
71504 TTGACAGCGC
71514 AACAAAAACAA
1 AACAAAAACAA
* *
71525 AACGAAAACGA
1 AACAAAAACAA
71536 AACAAAAACAA
1 AACAAAAACAA
71547 AA
1 AA
71549 AACAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:73195 original size:36 final size:37
Alignment explanation
Indices: 73126--73195 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
73116 TCGGTGCATT
* * * *
73126 TACTAGTTGCGAACTTGCGATAACAATATAAATACAC
1 TACTAGTTGAGAACTTGAGATAACAACACAAATACAC
73163 TACTAGTTGAG-ACTTGAGATAACAACACAAATA
1 TACTAGTTGAGAACTTGAGATAACAACACAAATA
73196 GGAAAGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 19 0.66
37 10 0.34
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (37 bp):
TACTAGTTGAGAACTTGAGATAACAACACAAATACAC
Found at i:74650 original size:15 final size:15
Alignment explanation
Indices: 74630--74659 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74620 TGCCATGTAG
74630 GCCAATTTGACGGAC
1 GCCAATTTGACGGAC
*
74645 GCCAATTTGATGGAC
1 GCCAATTTGACGGAC
74660 TTCTGACGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (15 bp):
GCCAATTTGACGGAC
Found at i:74805 original size:31 final size:31
Alignment explanation
Indices: 74735--74807 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
74725 ATATTTTTTT
* *
74735 CACTTGAGAGACCAAAATGCTATGGTCCCTC
1 CACTTGAGGGACCAAAATGCTATGATCCCTC
**
74766 CACTTGAGGGACCAAAATGCTATGATTGCTC
1 CACTTGAGGGACCAAAATGCTATGATCCCTC
74797 CACTTGAGGGA
1 CACTTGAGGGA
74808 TCAATTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (31 bp):
CACTTGAGGGACCAAAATGCTATGATCCCTC
Found at i:76085 original size:3 final size:3
Alignment explanation
Indices: 76077--76147 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
76067 CCACTTGTTA
* * * * *
76077 TAT TAT TAT TAT T-T AAT TATT TAA TAA TAG TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
76122 TAT AAT TAT TA- TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
76148 AATTTTGATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 3 0.05
3 50 0.89
4 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:78696 original size:36 final size:37
Alignment explanation
Indices: 78637--78708 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 37
78627 ACACCTTATA
*
78637 ACTTTCATTGCTTTTTATTCCAGTTTTTAGGCAGATC
1 ACTTTCATTGCTTTTTATTCCAGTTCTTAGGCAGATC
78674 ACTTTCATTGC-TTTTATTCCAGTTCTTAGGCAGAT
1 ACTTTCATTGCTTTTTATTCCAGTTCTTAGGCAGAT
78709 AGGGTATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 23 0.68
37 11 0.32
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (37 bp):
ACTTTCATTGCTTTTTATTCCAGTTCTTAGGCAGATC
Found at i:80110 original size:146 final size:146
Alignment explanation
Indices: 79846--80137 Score: 584
Period size: 146 Copynumber: 2.0 Consensus size: 146
79836 TCAGCTATGG
79846 TGTATACTTCTACAGTGCAACAAAAGGTTAAATCTCACAAACAATTTGAACTTATACTCTTATCT
1 TGTATACTTCTACAGTGCAACAAAAGGTTAAATCTCACAAACAATTTGAACTTATACTCTTATCT
79911 TTCAGTATCCTTTGTTGGTTTTGATTTTGGTTGGGGGAGAAAAGAGAAAAGGGGGGAGGGGAATG
66 TTCAGTATCCTTTGTTGGTTTTGATTTTGGTTGGGGGAGAAAAGAGAAAAGGGGGGAGGGGAATG
79976 TGTTAATTGGGTTTTT
131 TGTTAATTGGGTTTTT
79992 TGTATACTTCTACAGTGCAACAAAAGGTTAAATCTCACAAACAATTTGAACTTATACTCTTATCT
1 TGTATACTTCTACAGTGCAACAAAAGGTTAAATCTCACAAACAATTTGAACTTATACTCTTATCT
80057 TTCAGTATCCTTTGTTGGTTTTGATTTTGGTTGGGGGAGAAAAGAGAAAAGGGGGGAGGGGAATG
66 TTCAGTATCCTTTGTTGGTTTTGATTTTGGTTGGGGGAGAAAAGAGAAAAGGGGGGAGGGGAATG
80122 TGTTAATTGGGTTTTT
131 TGTTAATTGGGTTTTT
80138 GGCAAGTTGC
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.36
Consensus pattern (146 bp):
TGTATACTTCTACAGTGCAACAAAAGGTTAAATCTCACAAACAATTTGAACTTATACTCTTATCT
TTCAGTATCCTTTGTTGGTTTTGATTTTGGTTGGGGGAGAAAAGAGAAAAGGGGGGAGGGGAATG
TGTTAATTGGGTTTTT
Found at i:81064 original size:81 final size:81
Alignment explanation
Indices: 80976--81137 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
80966 TCAATTCGAA
80976 GTATGTCTTTTTTAGGGTGGTCATATATGATGATATATGTGAATAGAAAAATGTTTGGAAGTATT
1 GTATGTCTTTTTTAGGGTGGTCATATATGATGATATATGTGAATAGAAAAATGTTTGGAAGTATT
81041 TGCTTCGGCATTGTAT
66 TGCTTCGGCATTGTAT
81057 GTATGTCTTTTTTAGGGTGGTCATATATGATGATATATGTGAATAGAAAAATGTTTGGAAGTATT
1 GTATGTCTTTTTTAGGGTGGTCATATATGATGATATATGTGAATAGAAAAATGTTTGGAAGTATT
81122 TGCTTCGGCATTGTAT
66 TGCTTCGGCATTGTAT
81138 CCCACCACTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (81 bp):
GTATGTCTTTTTTAGGGTGGTCATATATGATGATATATGTGAATAGAAAAATGTTTGGAAGTATT
TGCTTCGGCATTGTAT
Done.