Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167909.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_174, 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: 58248
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.30
Warning! 1000 characters in sequence are not A, C, G, or T
Found at i:751 original size:19 final size:20
Alignment explanation
Indices: 729--770 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
719 AAAATATCAA
*
729 TTATTATTAATTT-CATTTT
1 TTATTATTAATTTACATTGT
*
748 TTATTATTATTTTACATTGT
1 TTATTATTAATTTACATTGT
768 TTA
1 TTA
771 AATCAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTATTAATTTACATTGT
Found at i:1184 original size:16 final size:18
Alignment explanation
Indices: 1147--1196 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
1137 TTTTTACCAG
1147 TAATAATATAAAATAACAA
1 TAATAAT-TAAAATAACAA
1166 TAATAATTAAAA-AAC-A
1 TAATAATTAAAATAACAA
* *
1182 TAAAAATTAACATAA
1 TAATAATTAAAATAA
1197 AAAATCAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.39
17 5 0.18
18 5 0.18
19 7 0.25
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
TAATAATTAAAATAACAA
Found at i:1195 original size:12 final size:12
Alignment explanation
Indices: 1178--1216 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1168 ATAATTAAAA
*
1178 AACATAAAAATT
1 AACATAAAAATC
1190 AACATAAAAAATC
1 AACAT-AAAAATC
1203 AACATAAAAATC
1 AACATAAAAATC
1215 AA
1 AA
1217 AATGGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (12 bp):
AACATAAAAATC
Found at i:2008 original size:3 final size:3
Alignment explanation
Indices: 2000--2061 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
1990 TTTTAAAGAT
* * *
2000 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAAA GAA CAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
2045 TTA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
2062 AAAAAGAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.88
4 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2057 original size:29 final size:30
Alignment explanation
Indices: 2017--2076 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 30
2007 AATAGTAATA
2017 ATAATAATAATAATAATAAAGAACAAAATTAT
1 ATAATAATAATAA-AA-AAAGAACAAAATTAT
*
2049 ATAATAATAATAAAAAAAGAATAAAATT
1 ATAATAATAATAAAAAAAGAACAAAATT
2077 GGTGCCTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 12 0.44
31 2 0.07
32 13 0.48
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (30 bp):
ATAATAATAATAAAAAAAGAACAAAATTAT
Found at i:2387 original size:39 final size:39
Alignment explanation
Indices: 2244--2453 Score: 250
Period size: 39 Copynumber: 5.4 Consensus size: 39
2234 AGAGGCTATA
* *
2244 AAACTTTAAATTCAAAAAGCT-CTTCTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTT-TAACCAAAGGCAAC
2283 AAACTTTAAATT-AAAAAGCT-CTATT-ACCAAAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCT-TTAACCAAAGGCAAC
* * *
2320 AAACTTTAAA-TCCAAAAGCTCATTTAACCAAAGGCAGC
1 AAACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCAAC
*
2358 GAACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCAAC
* * * * * *
2397 AAACTTTAAATGTTAAAAGGCTCCTCTCATCAGAGGCAAC
1 AAACTTTAAAT-TCAAAAAGCTCCTTTAACCAAAGGCAAC
2437 AAACTTTAAATTCAAAA
1 AAACTTTAAATTCAAAA
2454 TGATGATTAT
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.01
37 30 0.20
38 32 0.21
39 53 0.36
40 33 0.22
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCAAC
Found at i:7394 original size:16 final size:16
Alignment explanation
Indices: 7375--7410 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7365 ATATTCAAAA
7375 TATTAATTATTATTAT
1 TATTAATTATTATTAT
* *
7391 TATTATTTTTTATTAT
1 TATTAATTATTATTAT
7407 TATT
1 TATT
7411 TTGCATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTAATTATTATTAT
Found at i:7403 original size:13 final size:13
Alignment explanation
Indices: 7387--7412 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7377 TTAATTATTA
7387 TTATTATTATTTT
1 TTATTATTATTTT
7400 TTATTATTATTTT
1 TTATTATTATTTT
7413 GCATTGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:7811 original size:16 final size:17
Alignment explanation
Indices: 7790--7836 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
7780 TATTACTAGT
*
7790 AATAAT-ATAAAATAAC
1 AATAATAATAAAAAAAC
7806 AATAATAATAAAAAAAC
1 AATAATAATAAAAAAAC
*
7823 -ATAAAAATTAAAAA
1 AATAATAA-TAAAAA
7837 TCAAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAATAATAAAAAAAC
Found at i:7813 original size:19 final size:17
Alignment explanation
Indices: 7789--7836 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
7779 TTATTACTAG
7789 TAATAATATAAAATAACAA
1 TAATAATATAAAA-AAC-A
7808 TAATAATA-AAAAAACA
1 TAATAATATAAAAAACA
*
7824 TAAAAAT-TAAAAA
1 TAATAATATAAAAA
7837 TCAAAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 12 0.44
17 3 0.11
18 4 0.15
19 8 0.30
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (17 bp):
TAATAATATAAAAAACA
Found at i:8349 original size:19 final size:21
Alignment explanation
Indices: 8326--8364 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8316 TTTTTGAAAA
8326 TTTTTTT-TTGTGTTTGTTAT
1 TTTTTTTATTGTGTTTGTTAT
8346 TTTTTTTATTGTGTTTGTT
1 TTTTTTTATTGTGTTTGTT
8365 CCCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.05, C:0.00, G:0.15, T:0.79
Consensus pattern (21 bp):
TTTTTTTATTGTGTTTGTTAT
Found at i:8665 original size:15 final size:15
Alignment explanation
Indices: 8645--8674 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8635 TTTTAAAGAT
8645 TAATAATAACAATAA
1 TAATAATAACAATAA
8660 TAATAATAACAATAA
1 TAATAATAACAATAA
8675 ACAGAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATAATAACAATAA
Found at i:8711 original size:27 final size:28
Alignment explanation
Indices: 8656--8726 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
8646 AATAATAACA
* *
8656 ATAATAATAATAACAATAAACAGAATTAT
1 ATAATAATAA-AAAAATAAACAAAATTAT
8685 ATAATAATAAAAAAAT-AACAAAATTAT
1 ATAATAATAAAAAAATAAACAAAATTAT
8712 ATAATAATAAAAAAA
1 ATAATAATAAAAAAA
8727 AAGAATGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.62
28 5 0.12
29 10 0.25
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (28 bp):
ATAATAATAAAAAAATAAACAAAATTAT
Found at i:25830 original size:23 final size:23
Alignment explanation
Indices: 25800--25845 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25790 TTGGGTCACC
25800 AGGCATGATTGAGTTTTGACTCA
1 AGGCATGATTGAGTTTTGACTCA
25823 AGGCATGATTGAGTTTTGACTCA
1 AGGCATGATTGAGTTTTGACTCA
25846 TAGCCTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (23 bp):
AGGCATGATTGAGTTTTGACTCA
Found at i:49295 original size:21 final size:21
Alignment explanation
Indices: 49269--49349 Score: 65
Period size: 24 Copynumber: 3.6 Consensus size: 21
49259 TCATTCTTCT
49269 TTTTTTATTATTATTATATAA
1 TTTTTTATTATTATTATATAA
*
49290 TTTTTTATTTTTTTTATTATATAA
1 TTTTTTA---TTATTATTATATAA
* *
49314 TTATGTTTATTGTTATTATCATTA
1 TT-T-TTTATTATTATTAT-ATAA
*
49338 -TTGTTATTATTA
1 TTTTTTATTATTA
49350 ATCTTTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
21 15 0.31
22 1 0.02
23 10 0.20
24 18 0.37
25 1 0.02
26 4 0.08
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTTTATTATTATTATATAA
Found at i:49332 original size:26 final size:24
Alignment explanation
Indices: 49268--49332 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
49258 TTCATTCTTC
*
49268 TTTTT-TTATTATTATTATATAAT
1 TTTTTATTGTTATTATTATATAAT
* *
49291 TTTTTATTTTTTTTATTATATAAT
1 TTTTTATTGTTATTATTATATAAT
49315 TATGTTTATTGTTATTAT
1 T-T-TTTATTGTTATTAT
49333 CATTATTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.14
24 17 0.49
25 1 0.03
26 12 0.34
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTTTATTGTTATTATTATATAAT
Found at i:49610 original size:19 final size:19
Alignment explanation
Indices: 49586--49623 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49576 AATAAGAGGG
49586 AACAAACACAAAAAAAAAA
1 AACAAACACAAAAAAAAAA
49605 AACAAACACAAAAAAAAAA
1 AACAAACACAAAAAAAAAA
49624 TTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (19 bp):
AACAAACACAAAAAAAAAA
Found at i:50111 original size:25 final size:25
Alignment explanation
Indices: 50083--50144 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
50073 TAGGTTTTTC
* *
50083 TTTTTCTTTTT-ATTTTCCATTTTGA
1 TTTTTATTTTTAATTTT-CATGTTGA
* *
50108 TTTTGATTTTTAATTTTTATGTTGA
1 TTTTTATTTTTAATTTTCATGTTGA
50133 TTTTTATGTTTT
1 TTTTTAT-TTTT
50145 TTTTTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTTTATTTTTAATTTTCATGTTGA
Found at i:50123 original size:19 final size:19
Alignment explanation
Indices: 50101--50138 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50091 TTTATTTTCC
*
50101 ATTTTGATTTTGATTTTTA
1 ATTTTGATGTTGATTTTTA
*
50120 ATTTTTATGTTGATTTTTA
1 ATTTTGATGTTGATTTTTA
50139 TGTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (19 bp):
ATTTTGATGTTGATTTTTA
Found at i:50161 original size:19 final size:19
Alignment explanation
Indices: 50139--50175 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50129 TTGATTTTTA
* *
50139 TGTTTTTTTTTATTATTAT
1 TGTTATTTTATATTATTAT
50158 TGTTATTTTATATTATTA
1 TGTTATTTTATATTATTA
50176 CTAGTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TGTTATTTTATATTATTAT
Found at i:55798 original size:39 final size:39
Alignment explanation
Indices: 55671--55991 Score: 330
Period size: 39 Copynumber: 8.3 Consensus size: 39
55661 TCAGATCTTT
* *
55671 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAG-CTTTTG
1 AATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
* * *
55709 AATTTAAAGTTTGTTGCCTCTGATGAGAGGAGCCTTTTA
1 AATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
* * * * *
55748 ACATTTGAAGTTTGCTGCCTTTGGTTAAAGGAGCTTTTTG
1 A-ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
* * * * *
55788 AATTTAAAGTTCGCTGCCTTTGGTTAAATGAG-CTTTTG
1 AATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
* * * * *
55826 GATTTAAAGTTCGCTACCTCTGGTGAGAGGAGCCTTTTG
1 AATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
* *
55865 AATTTAAAGTTTGTTGCCTCTGATGAGAGGAGCCTTTTG
1 AATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
* * *
55904 AATTTAAAGTTCGTTGCCTTTGGT-AATA-GAG-CTTTTT
1 AATTTAAAGTTTGTTGCCTCTGGTGAA-AGGAGCCTTTTG
**
55941 AATTTAAAGTTTGTTGCCTCTGGTGAGAA-GAGTTTTTTG
1 AATTTAAAGTTTGTTGCCTCTGGTGA-AAGGAGCCTTTTG
55980 AATTTAAAGTTT
1 AATTTAAAGTTT
55992 TATAGCCTCT
Statistics
Matches: 239, Mismatches: 37, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
37 27 0.11
38 68 0.28
39 113 0.47
40 31 0.13
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (39 bp):
AATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCCTTTTG
Found at i:56024 original size:116 final size:115
Alignment explanation
Indices: 55671--56017 Score: 421
Period size: 116 Copynumber: 3.0 Consensus size: 115
55661 TCAGATCTTT
* *
55671 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGATGAG
1 AATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAG
* * * * * *
55736 AGGAGCCTTTTAACATTTGAAGTTTGCTGCCTTTGGTTA-AAGGAGCTTTTTG
66 AGGAGCCTTTTGA-ATTTAAAGTTT-TTGCCTCTGATTAGAA-GAGCCTTTTG
* * * * * *
55788 AATTTAAAGTTCGCTGCCTTTGGTTAAATGAGCTTTTGGATTTAAAGTTCGCTACCTCTGGTGAG
1 AATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAG
* *
55853 AGGAGCCTTTTGAATTTAAAGTTTGTTGCCTCTGATGAGAGGAGCCTTTTG
66 AGGAGCCTTTTGAATTTAAAGTTT-TTGCCTCTGATTAGAAGAGCCTTTTG
*
55904 AATTTAAAGTTCGTTGCCTTTGG-TAATA-GAGCTTTTTAATTTAAAGTTTGTTGCCTCTGGTGA
1 AATTTAAAGTTCGTTGCCTTTGGTTAA-AGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGA
* ** *
55967 GAAGAGTTTTTTGAATTTAAAGTTTTATAGCCTCTGTTTAGAAGAGCCTTT
65 GAGGAGCCTTTTGAATTTAAAGTTTT-T-GCCTCTGATTAGAAGAGCCTTT
56018 CAAATTTTCT
Statistics
Matches: 198, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
114 1 0.01
115 56 0.28
116 71 0.36
117 70 0.35
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (115 bp):
AATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAG
AGGAGCCTTTTGAATTTAAAGTTTTTGCCTCTGATTAGAAGAGCCTTTTG
Found at i:56180 original size:3 final size:3
Alignment explanation
Indices: 56174--56226 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
56164 GTTCTTTTTT
* * *
56174 TTA TTA TTA TTA -TA TAA TT- TTG TTCT TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
56218 TTA TTA TTA
1 TTA TTA TTA
56227 ATCTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.09
3 37 0.86
4 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:56215 original size:32 final size:31
Alignment explanation
Indices: 56158--56218 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
56148 TGTAGGCACC
*
56158 AATTTTGTTCTTTTTTTTATTATTATTATAT
1 AATTTTGTTCTTTTTATTATTATTATTATAT
56189 AATTTTGTTCTTTATTATTATTATTATTAT
1 AATTTTGTTCTTT-TTATTATTATTATTAT
56219 TATTATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (31 bp):
AATTTTGTTCTTTTTATTATTATTATTATAT
Found at i:57044 original size:25 final size:25
Alignment explanation
Indices: 57016--57064 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
57006 TTTTCTTTTT
* *
57016 ATTTTCCATTTTGATTTTTATGTTG
1 ATTTTCCATGTTAATTTTTATGTTG
**
57041 ATTTTTTATGTTAATTTTTATGTT
1 ATTTTCCATGTTAATTTTTATGTT
57065 TTTTTAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.18, C:0.04, G:0.10, T:0.67
Consensus pattern (25 bp):
ATTTTCCATGTTAATTTTTATGTTG
Found at i:57046 original size:13 final size:12
Alignment explanation
Indices: 57026--57064 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
57016 ATTTTCCATT
57026 TTGATTTTTATG
1 TTGATTTTTATG
57038 TTGATTTTTTATG
1 TTGA-TTTTTATG
*
57051 TTAATTTTTATG
1 TTGATTTTTATG
57063 TT
1 TT
57065 TTTTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (12 bp):
TTGATTTTTATG
Found at i:57093 original size:19 final size:18
Alignment explanation
Indices: 57046--57096 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
57036 TGTTGATTTT
* *
57046 TTATGTTAATTTTTA-TG
1 TTATTTTAATTATTATTG
*
57063 TTTTTTTAATTATTATTG
1 TTATTTTAATTATTATTG
57081 TTATTTTATATTATTA
1 TTATTTTA-ATTATTA
57097 CTGGTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 12 0.43
18 9 0.32
19 7 0.25
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTATTTTAATTATTATTG
Found at i:57514 original size:19 final size:20
Alignment explanation
Indices: 57476--57517 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
57466 AAGATTGATT
*
57476 TAAACAATGTAAAATAATAA
1 TAAAAAATGTAAAATAATAA
*
57496 TAAAAAATG-AAATTAATAA
1 TAAAAAATGTAAAATAATAA
57515 TAA
1 TAA
57518 TTGATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAAAAATGTAAAATAATAA
Done.