Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168172.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_410, 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: 28051
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Found at i:120 original size:16 final size:16
Alignment explanation
Indices: 99--129 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89 TTAGGGTTTT
99 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
115 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
130 GTTTTTGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:571 original size:16 final size:16
Alignment explanation
Indices: 550--580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
540 TTAGGGTTTT
550 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
566 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
581 GTTTTGTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:598 original size:51 final size:50
Alignment explanation
Indices: 537--645 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 50
527 GGATATGGAA
* * * *
537 GGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAGGG-TTTGGGTTTTGT
1 GGTTTGGGGTTTTGATTTAAGAGTTT-G-GATTTTAGGGATTTGGATTTTGG
*
588 GGTTTGGGGTTTTGATTTAAGGGTTTGGATTTTAGGGATTTTGGATTTTGG
1 GGTTTGGGGTTTTGATTTAAGAGTTTGGATTTTAGGGA-TTTGGATTTTGG
639 GGTTTGG
1 GGTTTGG
646 ATTTTAGGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 10 0.20
50 1 0.02
51 40 0.78
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.50
Consensus pattern (50 bp):
GGTTTGGGGTTTTGATTTAAGAGTTTGGATTTTAGGGATTTGGATTTTGG
Found at i:642 original size:30 final size:31
Alignment explanation
Indices: 603--715 Score: 156
Period size: 30 Copynumber: 3.6 Consensus size: 31
593 GGGGTTTTGA
*
603 TTTAAGGGTTTGGATTTTAGGGATTTTGGAT
1 TTTAGGGGTTTGGATTTTAGGGATTTTGGAT
*
634 TTT-GGGGTTTGGATTTTAGGGGTTTTGGAT
1 TTTAGGGGTTTGGATTTTAGGGATTTTGGAT
* *
664 TTTAGGGGTTTGGATTTAAGGGATTTTAGATT
1 TTTAGGGGTTTGGATTTTAGGGATTTTGGA-T
*
696 TTTAGGGGTTTCGAATTTTA
1 TTTAGGGGTTT-GGATTTTA
716 AGAGTTTTAG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
30 28 0.39
31 26 0.36
32 12 0.17
33 6 0.08
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.49
Consensus pattern (31 bp):
TTTAGGGGTTTGGATTTTAGGGATTTTGGAT
Found at i:715 original size:16 final size:15
Alignment explanation
Indices: 593--706 Score: 124
Period size: 16 Copynumber: 7.5 Consensus size: 15
583 TTTGTGGTTT
*
593 GGGGTTTTGA-TTTA
1 GGGGTTTGGATTTTA
*
607 AGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
*
622 GGGATTTTGGATTTT-
1 GGG-GTTTGGATTTTA
637 GGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
652 GGGGTTTTGGATTTTA
1 GGGG-TTTGGATTTTA
*
668 GGGGTTTGGATTTAA
1 GGGGTTTGGATTTTA
* *
683 GGGATTTTAGATTTTTA
1 GGG-GTTTGGA-TTTTA
700 GGGGTTT
1 GGGGTTT
707 CGAATTTTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
14 18 0.21
15 26 0.31
16 33 0.39
17 7 0.08
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:1794 original size:14 final size:14
Alignment explanation
Indices: 1771--1802 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1761 CTGTGTCTTT
*
1771 TTTTTTTGTTTCTG
1 TTTTTATGTTTCTG
1785 TTTTTATGTTTCTG
1 TTTTTATGTTTCTG
1799 TTTT
1 TTTT
1803 CGTGGTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.06, G:0.12, T:0.78
Consensus pattern (14 bp):
TTTTTATGTTTCTG
Found at i:2140 original size:3 final size:3
Alignment explanation
Indices: 2129--2171 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
2119 TTAAAAAAAT
2129 TTA TT- TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2172 GTAAACCCGG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7439 original size:33 final size:33
Alignment explanation
Indices: 7397--7462 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
7387 TATTTTTGTT
*
7397 TTGCTTCTTTATTTTCCCTA-AAAATCTTGTTGC
1 TTGCTTCTTTATTTTCCC-AGAAAATCTTATTGC
*
7430 TTGCTTCTTTATTTTGCCAGAAAATCTTATTGC
1 TTGCTTCTTTATTTTCCCAGAAAATCTTATTGC
7463 CCTAGCCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (33 bp):
TTGCTTCTTTATTTTCCCAGAAAATCTTATTGC
Found at i:8312 original size:21 final size:21
Alignment explanation
Indices: 8286--8326 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8276 TCTCAAACTT
8286 ATTCAAAAACCATCATATATC
1 ATTCAAAAACCATCATATATC
*
8307 ATTCAAAAACTATCATATAT
1 ATTCAAAAACCATCATATAT
8327 GAATGTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTCAAAAACCATCATATATC
Found at i:10105 original size:28 final size:28
Alignment explanation
Indices: 10071--10134 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
10061 TATTTATTCG
* *
10071 AAATTAATTTAA-T-AATCAATTTATTAAT
1 AAATTAAATTAACTCAATCAATTAATT--T
10099 AAATTAAATTAACTCAATCAATTAATTT
1 AAATTAAATTAACTCAATCAATTAATTT
10127 AAATTAAA
1 AAATTAAA
10135 ACAAAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 20 0.62
29 1 0.03
30 11 0.34
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATTAAATTAACTCAATCAATTAATTT
Found at i:10841 original size:21 final size:21
Alignment explanation
Indices: 10812--10852 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10802 TTAGCTTAAT
* *
10812 TTATATAATTATTTTAAAATA
1 TTATATAATAAATTTAAAATA
*
10833 TTATTTAATAAATTTAAAAT
1 TTATATAATAAATTTAAAAT
10853 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATATAATAAATTTAAAATA
Found at i:16585 original size:4 final size:4
Alignment explanation
Indices: 16576--16601 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16566 AATAATGAAT
16576 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
16602 CCTATCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:18649 original size:21 final size:21
Alignment explanation
Indices: 18623--18663 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18613 ACACACATTC
18623 ATATATGATAGTTTTTGAATG
1 ATATATGATAGTTTTTGAATG
*
18644 ATATATGATGGTTTTTGAAT
1 ATATATGATAGTTTTTGAAT
18664 AAGTTTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (21 bp):
ATATATGATAGTTTTTGAATG
Found at i:18813 original size:58 final size:58
Alignment explanation
Indices: 18698--18815 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 58
18688 CATAAAATAA
*** * * *
18698 GAAAGAAGCAACATATAGAGGGGAATGATGCAATCAAGATAAAAGAGCGGGGTTTTAG
1 GAAAGAAGCAACATATAGAAAAGAATGATGAAATCAAGATAAAAGAGCAGGGCTTTAG
* * * * *
18756 GAAAGAAGCAATATATAGAAAAGAATGATGAAATCAGGATACAGGAGTAGGGCTTTAG
1 GAAAGAAGCAACATATAGAAAAGAATGATGAAATCAAGATAAAAGAGCAGGGCTTTAG
18814 GA
1 GA
18816 GTGACTATAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.45, C:0.08, G:0.30, T:0.18
Consensus pattern (58 bp):
GAAAGAAGCAACATATAGAAAAGAATGATGAAATCAAGATAAAAGAGCAGGGCTTTAG
Found at i:19529 original size:33 final size:33
Alignment explanation
Indices: 19487--19552 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
19477 GGAGGCTAGG
*
19487 GCAATAAGATTTTCT-GGCAAAATAAAGAAGCAA
1 GCAACAAGATTTT-TAGGCAAAATAAAGAAGCAA
*
19520 GCAACAAGATTTTTAGGGAAAATAAAGAAGCAA
1 GCAACAAGATTTTTAGGCAAAATAAAGAAGCAA
19553 AACAAAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.20
Consensus pattern (33 bp):
GCAACAAGATTTTTAGGCAAAATAAAGAAGCAA
Found at i:21638 original size:28 final size:29
Alignment explanation
Indices: 21573--21638 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
21563 ACCAAAATCC
* *
21573 CATCCAAATCACTAAACTTTAATTTGTCT
1 CATCAAAATCACTAAAATTTAATTTGTCT
* *
21602 CATTAAAATCACTAAAATTT-ATTTAGTGT
1 CATCAAAATCACTAAAATTTAATTT-GTCT
21631 -ATCAAAAT
1 CATCAAAAT
21639 TGGTCATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.38
Consensus pattern (29 bp):
CATCAAAATCACTAAAATTTAATTTGTCT
Found at i:25032 original size:3 final size:3
Alignment explanation
Indices: 25019--25054 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
25009 ACTATTAATT
* *
25019 TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25055 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25408 original size:14 final size:14
Alignment explanation
Indices: 25377--25408 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25367 ACCAACCACG
*
25377 AAAACAGAAACATA
1 AAAACAGAAACAAA
25391 AAAACAGAAACAAA
1 AAAACAGAAACAAA
25405 AAAA
1 AAAA
25409 AAGACACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.12, G:0.06, T:0.03
Consensus pattern (14 bp):
AAAACAGAAACAAA
Found at i:26483 original size:16 final size:15
Alignment explanation
Indices: 26463--26571 Score: 105
Period size: 15 Copynumber: 7.2 Consensus size: 15
26453 GAAACCACTA
*
26463 AAAATCTAAAATCCCT
1 AAAATC-AAAACCCCT
* *
26479 TAAATCCAAACCCCT
1 AAAATCAAAACCCCT
26494 AAAATCCAAAACCCCT
1 AAAAT-CAAAACCCCT
*
26510 AAAATCCAAACCCC-
1 AAAATCAAAACCCCT
*
26524 AAAATCCAAAATCCCT
1 AAAAT-CAAAACCCCT
* *
26540 AAAATCCAAACCCTT
1 AAAATCAAAACCCCT
*
26555 TAAATCAAAA-CCCT
1 AAAATCAAAACCCCT
26569 AAA
1 AAA
26572 CCACAAAACC
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
14 10 0.13
15 41 0.55
16 24 0.32
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCAAAACCCCT
Found at i:26498 original size:15 final size:15
Alignment explanation
Indices: 26475--26571 Score: 117
Period size: 15 Copynumber: 6.5 Consensus size: 15
26465 AATCTAAAAT
*
26475 CCCTTAAATCCAAAC
1 CCCTAAAATCCAAAC
26490 CCCTAAAATCCAAAAC
1 CCCTAAAATCC-AAAC
26506 CCCTAAAATCCAAAC
1 CCCTAAAATCCAAAC
*
26521 CCC-AAAATCCAAAAT
1 CCCTAAAATCC-AAAC
26536 CCCTAAAATCCAAAC
1 CCCTAAAATCCAAAC
* * *
26551 CCTTTAAAT-CAAAA
1 CCCTAAAATCCAAAC
26565 CCCTAAA
1 CCCTAAA
26572 CCACAAAACC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
14 16 0.23
15 33 0.46
16 22 0.31
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.16
Consensus pattern (15 bp):
CCCTAAAATCCAAAC
Found at i:26530 original size:30 final size:31
Alignment explanation
Indices: 26445--26571 Score: 152
Period size: 30 Copynumber: 4.1 Consensus size: 31
26435 CTAAAACTCT
* * *
26445 TAAAATTCGAAACCACTAAAAATCTAAAATCCC
1 TAAAA-TCCAAACCCCT-AAAATCCAAAATCCC
* *
26478 TTAAATCCAAACCCCTAAAATCCAAAACCCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
26509 TAAAATCCAAACCCC-AAAATCCAAAATCCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
* *
26539 TAAAATCCAAACCCTTTAAAT-CAAAA-CCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
26568 TAAA
1 TAAA
26572 CCACAAAACC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.08
30 33 0.39
31 31 0.37
32 9 0.11
33 4 0.05
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (31 bp):
TAAAATCCAAACCCCTAAAATCCAAAATCCC
Found at i:26593 original size:14 final size:14
Alignment explanation
Indices: 26561--26622 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
26551 CCTTTAAATC
26561 AAAACCCTAAACCAC-
1 AAAACCC-AAACC-CT
26576 AAAACCCAAACCCT
1 AAAACCCAAACCCT
*
26590 AAAATCTCCAAACTCT
1 AAAA-C-CCAAACCCT
* *
26606 AAAATCAAAACCCT
1 AAAACCCAAACCCT
26620 AAA
1 AAA
26623 CCTTCCATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 1 0.03
14 19 0.47
15 8 0.20
16 12 0.30
ACGTcount: A:0.53, C:0.34, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCCAAACCCT
Found at i:26602 original size:16 final size:16
Alignment explanation
Indices: 26581--26611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26571 ACCACAAAAC
26581 CCAAACCCTAAAATCT
1 CCAAACCCTAAAATCT
*
26597 CCAAACTCTAAAATC
1 CCAAACCCTAAAATC
26612 AAAACCCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAACCCTAAAATCT
Found at i:26970 original size:15 final size:15
Alignment explanation
Indices: 26926--27023 Score: 110
Period size: 15 Copynumber: 6.4 Consensus size: 15
26916 TTAAAATTCG
*
26926 AAACCCCTAAAAATCTA
1 AAACCCCT-AAAATC-C
* *
26943 AAATCCCTTAAATCC
1 AAACCCCTAAAATCC
26958 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
26973 GAAA-CCCTAAAATCC
1 -AAACCCCTAAAATCC
26988 AAACCCC-AAAATCC
1 AAACCCCTAAAATCC
*
27002 AAAATCCCTAAAATCC
1 -AAACCCCTAAAATCC
27018 AAACCC
1 AAACCC
27024 TTCCTAAACC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
14 10 0.14
15 38 0.54
16 15 0.21
17 7 0.10
ACGTcount: A:0.48, C:0.36, G:0.01, T:0.15
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:26988 original size:30 final size:31
Alignment explanation
Indices: 26917--27023 Score: 146
Period size: 30 Copynumber: 3.5 Consensus size: 31
26907 CCTAAACTCT
* *
26917 TAAAATTCGAAACCCCTAAAAATCTAAAATCCC
1 TAAAA-TCCAAACCCCT-AAAATCCAAAATCCC
* *
26950 TTAAATCCAAACCCCTAAAATCCGAAA-CCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
26980 TAAAATCCAAACCCC-AAAATCCAAAATCCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
27010 TAAAATCCAAACCC
1 TAAAATCCAAACCC
27024 TTCCTAAACC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
29 10 0.15
30 34 0.51
31 9 0.13
32 10 0.15
33 4 0.06
ACGTcount: A:0.48, C:0.34, G:0.02, T:0.17
Consensus pattern (31 bp):
TAAAATCCAAACCCCTAAAATCCAAAATCCC
Found at i:26993 original size:14 final size:14
Alignment explanation
Indices: 26947--27082 Score: 120
Period size: 14 Copynumber: 9.5 Consensus size: 14
26937 AATCTAAAAT
*
26947 CCCTTAAATCCAAA
1 CCCTAAAATCCAAA
26961 CCCCTAAAATCCGAAA
1 -CCCTAAAATCC-AAA
26977 CCCTAAAATCCAAA
1 CCCTAAAATCCAAA
*
26991 CCCCAAAATCCAAAA
1 CCCTAAAATCC-AAA
27006 TCCCTAAAATCCAAA
1 -CCCTAAAATCCAAA
27021 CCCT----TCCTAAA
1 CCCTAAAATCC-AAA
*
27032 CCAC-AAAACCCAAA
1 CC-CTAAAATCCAAA
27046 CCCTAAAATCTCCAAA
1 CCCTAAAA--TCCAAA
* *
27062 CTCTAAAATCAAAA
1 CCCTAAAATCCAAA
27076 CCCTAAA
1 CCCTAAA
27083 CCTTCCATAT
Statistics
Matches: 101, Mismatches: 8, Indels: 25
0.75 0.06 0.19
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 1 0.01
13 1 0.01
14 37 0.37
15 29 0.29
16 25 0.25
ACGTcount: A:0.47, C:0.37, G:0.01, T:0.15
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:27434 original size:15 final size:16
Alignment explanation
Indices: 27388--27484 Score: 117
Period size: 16 Copynumber: 6.1 Consensus size: 16
27378 TTAAAATTCG
*
27388 AAACCCCTAAAAATCTA
1 AAACCCCT-AAAATCCA
* * *
27405 AAATCTCTTAAATCC-
1 AAACCCCTAAAATCCA
*
27420 AAACCCCTAAAATCCG
1 AAACCCCTAAAATCCA
27436 AAACCCCTAAAATCCA
1 AAACCCCTAAAATCCA
27452 AAACCCC-AAAATCCA
1 AAACCCCTAAAATCCA
*
27467 AAATCCCTAAAATCCA
1 AAACCCCTAAAATCCA
27483 AA
1 AA
27485 CGCTTCCTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
15 26 0.38
16 37 0.54
17 6 0.09
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.16
Consensus pattern (16 bp):
AAACCCCTAAAATCCA
Found at i:27449 original size:31 final size:30
Alignment explanation
Indices: 27414--27485 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 30
27404 AAAATCTCTT
*
27414 AAATCCAAACCCCTAAAATCCGAAACCCCTA
1 AAATCCAAACCCC-AAAATCCAAAACCCCTA
*
27445 AAATCCAAAACCCCAAAATCCAAAATCCCTA
1 AAATCC-AAACCCCAAAATCCAAAACCCCTA
27476 AAATCCAAAC
1 AAATCCAAAC
27486 GCTTCCTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 4 0.11
31 27 0.71
32 7 0.18
ACGTcount: A:0.50, C:0.36, G:0.01, T:0.12
Consensus pattern (30 bp):
AAATCCAAACCCCAAAATCCAAAACCCCTA
Found at i:27530 original size:15 final size:15
Alignment explanation
Indices: 27506--27545 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
27496 CCACAAAACC
27506 CAAACCCTAAAATCT
1 CAAACCCTAAAATCT
*
27521 CAAACTCTAAAATC-
1 CAAACCCTAAAATCT
*
27535 AAAACCCTAAA
1 CAAACCCTAAA
27546 CCTTCCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAACCCTAAAATCT
Found at i:27711 original size:463 final size:462
Alignment explanation
Indices: 26490--27831 Score: 2377
Period size: 460 Copynumber: 2.9 Consensus size: 462
26480 AAATCCAAAC
* *
26490 CCCTAAAATCCAAAACCCCTAAAATCC-AAACCCC-AAAATCCAAAATCCCTAAAATCC-AAA-C
1 CCCTTAAATCC-AAACCCCTAAAATCCGAAACCCCTAAAATCCAAAA-CCCCAAAATCCAAAATC
*
26551 CCTTTAAAT-CAAA-AC--CCTAAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATC
64 CC-TAAAATCCAAACACTTCCTAAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATC
26612 AAAACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACCAAAC
128 AAAACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACCAAAC
* *
26677 CTTCAAAACCTTTACTCAAGCCCCTACTCAAAATCTCATAAAAATCCTAAGGACACGTGTGAAAA
193 CTTCAAAACCTTTACTCAAGCCCTTACTCAAAACCTCATAAAAATCCTAAGGACACGTGTGAAAA
26742 TTTCATTTGAAGCAATTTATTCTCGAATGCCGCCTAGATGATGAGATATTTAGAAAATTTTACTT
258 TTTCATTTGAAGCAATTTATTCTCGAATGCCGCCTAGATGATGAGATATTTAGAAAATTTTACTT
*
26807 CGTTAAGTCTTTTCACATGATTTCTTAATTCACATTAATAATAAGATTAATAAATAAAAAGTATG
323 CGTTAAGTCTTTTCACATGATTTCCTAATTCACATTAATAATAAGATTAATAAATAAAAAGTATG
26872 ACAGTAAATTAGGATTTTAAATATAAACAGTCGCACCTAAACTCTTAAAATTCGAAACCCCTAAA
388 ACAGTAAATTAGGATTTTAAATATAAACAGTCGCACCTAAACTCTTAAAATTCGAAACCCCTAAA
26937 AATCTAAAAT
453 AATCTAAAAT
26947 CCCTTAAATCCAAACCCCTAAAATCCGAAA-CCCTAAAATCC-AAACCCCAAAATCCAAAATCCC
1 CCCTTAAATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAAACCCCAAAATCCAAAATCCC
*
27010 TAAAATCCAAACCCTTCCTAAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAA
66 TAAAATCCAAACACTTCCTAAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAA
27075 ACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACCAAACCTT
131 ACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACCAAACCTT
27140 CAAAACCTTTACTCAAGCCCTTACTCAAAACCTCATAAAAATCCTAAGGACACGTGTGAAAATTT
196 CAAAACCTTTACTCAAGCCCTTACTCAAAACCTCATAAAAATCCTAAGGACACGTGTGAAAATTT
27205 CATTTGAAGCAATTTATTCTCGAATGCCGCCTAGATGATGAGATATTTAGAAAATTTTACTTCGT
261 CATTTGAAGCAATTTATTCTCGAATGCCGCCTAGATGATGAGATATTTAGAAAATTTTACTTCGT
27270 TAAGTCTTTTCACATGATTTCCTAATTCACACATTAATAATAAGATTAATAAATAAAAAGTATGA
326 TAAGTCTTTTCACATGATTTCCTAATT--CACATTAATAATAAGATTAATAAATAAAAAGTATGA
*
27335 CAGTAAATTAGGATTTTAAATATAAACAGTCGCACCTAAACTTTTAAAATTCGAAACCCCTAAAA
389 CAGTAAATTAGGATTTTAAATATAAACAGTCGCACCTAAACTCTTAAAATTCGAAACCCCTAAAA
27400 ATCTAAAAT
454 ATCTAAAAT
*
27409 CTCTTAAATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAAACCCCAAAATCCAAAATCCC
1 CCCTTAAATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAAACCCCAAAATCCAAAATCCC
*
27474 TAAAATCCAAACGCTTCCTAAACCACAAAACCCAAACCCTAAAATCT-CAAACTCTAAAATCAAA
66 TAAAATCCAAACACTTCCTAAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAA
27538 ACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACCAAAACCT
131 ACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACC-AAACCT
* *
27603 CCAAAACCTTTACTCAAGCCCTTACTCAAAACCTCATAAAAATCCTAA-GACACATGTGAAAATT
195 TCAAAACCTTTACTCAAGCCCTTACTCAAAACCTCATAAAAATCCTAAGGACACGTGTGAAAATT
* *
27667 TCATTTGAAGCAATTTATTCTCGAAATGCC-ACTAGATGATGAGATATTTAGGAAATTTTACTTC
260 TCATTTGAAGCAATTTATTCTCG-AATGCCGCCTAGATGATGAGATATTTAGAAAATTTTACTTC
27731 GTTAAGTCTTTTCACATGATTTCCTAATTCACATTAATAATAAGATTAATAAATAAAAAGTATGA
324 GTTAAGTCTTTTCACATGATTTCCTAATTCACATTAATAATAAGATTAATAAATAAAAAGTATGA
* *
27796 TAGTAAATTCGGGATTTTAAATATAAACAGTCGCAC
389 CAGTAAATT-AGGATTTTAAATATAAACAGTCGCAC
27832 TAAGCTATAA
Statistics
Matches: 854, Mismatches: 16, Indels: 25
0.95 0.02 0.03
Matches are distributed among these distances:
455 10 0.01
456 29 0.03
457 27 0.03
458 1 0.00
460 268 0.31
461 44 0.05
462 163 0.19
463 185 0.22
464 127 0.15
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (462 bp):
CCCTTAAATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAAACCCCAAAATCCAAAATCCC
TAAAATCCAAACACTTCCTAAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAA
ACCCTAAACCTTCCATATCCTAAAATTCAAGCCTTAAAACCCTCTAAACCTTAAAACCAAACCTT
CAAAACCTTTACTCAAGCCCTTACTCAAAACCTCATAAAAATCCTAAGGACACGTGTGAAAATTT
CATTTGAAGCAATTTATTCTCGAATGCCGCCTAGATGATGAGATATTTAGAAAATTTTACTTCGT
TAAGTCTTTTCACATGATTTCCTAATTCACATTAATAATAAGATTAATAAATAAAAAGTATGACA
GTAAATTAGGATTTTAAATATAAACAGTCGCACCTAAACTCTTAAAATTCGAAACCCCTAAAAAT
CTAAAAT
Done.