Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167928.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_191, 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: 54381
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Found at i:8587 original size:16 final size:16
Alignment explanation
Indices: 8536--8588 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
8526 CTCAAATATC
8536 AATTCTAAAA-AATTCA
1 AATT-TAAAATAATTCA
* * *
8552 AATCTAAAATTATTCG
1 AATTTAAAATAATTCA
*
8568 AATTTAAAATAATTTA
1 AATTTAAAATAATTCA
8584 AATTT
1 AATTT
8589 GAAGTAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTAAAATAATTCA
Found at i:14643 original size:15 final size:15
Alignment explanation
Indices: 14623--14660 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
14613 CTTGGTAAGT
14623 TTTTTTATCATTT-TA
1 TTTTTTAT-ATTTATA
14638 TTTTTTATATTTCATA
1 TTTTTTATATTT-ATA
14654 TTTTTTA
1 TTTTTTA
14661 AAATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATATTTATA
Found at i:14839 original size:8 final size:8
Alignment explanation
Indices: 14826--14883 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
14816 GTAAAACCCA
14826 TTATTTTT
1 TTATTTTT
14834 TTATTTTT
1 TTATTTTT
14842 TATGATTTTT
1 T-T-ATTTTT
*
14852 TCAGTTTTT
1 TTA-TTTTT
*
14861 TTATATATT
1 TTAT-TTTT
*
14870 TTATGTTT
1 TTATTTTT
14878 TTATTT
1 TTATTT
14884 CAATGGAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 18 0.45
9 15 0.38
10 7 0.17
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (8 bp):
TTATTTTT
Found at i:15010 original size:16 final size:16
Alignment explanation
Indices: 14989--15023 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14979 TTCTATTTTT
*
14989 TTTATTCATTTTTATC
1 TTTATTCATTTTTAAC
*
15005 TTTATTCTTTTTTAAC
1 TTTATTCATTTTTAAC
15021 TTT
1 TTT
15024 TCGTTTCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTCATTTTTAAC
Found at i:15540 original size:11 final size:11
Alignment explanation
Indices: 15524--15557 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
15514 TCCAAATTTG
15524 ATCTTTTTTTA
1 ATCTTTTTTTA
15535 ATCTTTTTTTTA
1 ATC-TTTTTTTA
15547 AGTCTTTTTTT
1 A-TCTTTTTTT
15558 TTTGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 16 0.76
13 2 0.10
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (11 bp):
ATCTTTTTTTA
Found at i:15545 original size:13 final size:13
Alignment explanation
Indices: 15527--15558 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15517 AAATTTGATC
15527 TTTTTTTAA-TCT
1 TTTTTTTAAGTCT
15539 TTTTTTTAAGTCT
1 TTTTTTTAAGTCT
15552 TTTTTTT
1 TTTTTTT
15559 TTGTAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTTTAAGTCT
Found at i:15679 original size:34 final size:34
Alignment explanation
Indices: 15631--15712 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
15621 TATATGCCAA
* *
15631 TTCTTTTTT-TTTTTTACTT--TTTGTCGTTTTTT
1 TTCTTTTTTAATTTTTACTTCCTTTCT-GTTTTTT
*
15663 TTCCTTTTTTAATTTTTTCTTCCTTTCTGTTTTTT
1 TT-CTTTTTTAATTTTTACTTCCTTTCTGTTTTTT
15698 TTCTTTTTTACATTT
1 TTCTTTTTTA-ATTT
15713 AATAAAACGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 2 0.05
33 7 0.17
34 16 0.38
35 13 0.31
36 4 0.10
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.77
Consensus pattern (34 bp):
TTCTTTTTTAATTTTTACTTCCTTTCTGTTTTTT
Found at i:18155 original size:36 final size:36
Alignment explanation
Indices: 18114--18190 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
18104 AGTTTTAGGA
* *
18114 TTTAGT-TTTAAGGTTTAAAGGGTTT-AGGGTTTTGAT
1 TTTAGTGTTTAAGGTTT-AA-GATTTAAGGGTTTGGAT
*
18150 TTTAGTGTTTCAGGTTTAAGATTTAAGGGTTTGGAT
1 TTTAGTGTTTAAGGTTTAAGATTTAAGGGTTTGGAT
18186 TTTAG
1 TTTAG
18191 GGCTATAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 4 0.11
36 23 0.64
37 9 0.25
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.49
Consensus pattern (36 bp):
TTTAGTGTTTAAGGTTTAAGATTTAAGGGTTTGGAT
Found at i:18181 original size:22 final size:22
Alignment explanation
Indices: 18120--18181 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
18110 AGGATTTAGT
*
18120 TTTAAGGTTTAAAGGGTTTAGGG
1 TTTAAGATTT-AAGGGTTTAGGG
* * *
18143 TTT-TGATTTTAGTGTTTCA-GG
1 TTTAAGATTTAAGGGTTT-AGGG
18164 TTTAAGATTTAAGGGTTT
1 TTTAAGATTTAAGGGTTT
18182 GGATTTTAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
21 11 0.37
22 16 0.53
23 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (22 bp):
TTTAAGATTTAAGGGTTTAGGG
Found at i:19879 original size:28 final size:28
Alignment explanation
Indices: 19838--19905 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
19828 TCTGGTTGGA
*
19838 TCAAAATCAAGCCT-GAAACCCAATTGAG
1 TCAAAATCAGGCCTAG-AACCCAATTGAG
* *
19866 TCAAAATCAGGCCTAGAGCCCAGTTGAG
1 TCAAAATCAGGCCTAGAACCCAATTGAG
* *
19894 CCAAAATTAGGC
1 TCAAAATCAGGC
19906 TTAGGGCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (28 bp):
TCAAAATCAGGCCTAGAACCCAATTGAG
Found at i:20247 original size:35 final size:35
Alignment explanation
Indices: 20197--20301 Score: 106
Period size: 35 Copynumber: 3.0 Consensus size: 35
20187 ATTAGGATTT
* * *
20197 AACTACAAGTCAAAAAATAAAGAGATCAAGATTAA
1 AACTGCAAGTTAAAAAATAAAGAGATCGAGATTAA
* *
20232 AACTGCAAGTTAAAAAATAATGACCATCGAGATT-A
1 AACTGCAAGTTAAAAAATAAAGA-GATCGAGATTAA
* * * *
20267 AATTGCGACTT-AAAAATAAAGAGATTGAGATTAA
1 AACTGCAAGTTAAAAAATAAAGAGATCGAGATTAA
20301 A
1 A
20302 CCGCCTGTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
33 8 0.14
34 12 0.21
35 29 0.51
36 8 0.14
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.22
Consensus pattern (35 bp):
AACTGCAAGTTAAAAAATAAAGAGATCGAGATTAA
Found at i:20401 original size:34 final size:33
Alignment explanation
Indices: 20340--20418 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 33
20330 GGATTTAATC
20340 GCGAGTCGAAGAATAATAGGACCGGGATCAAACTA
1 GCGAGTC-AAGAATAATAGGACCGGGATCAAAC-A
* ** **
20375 -CGAGTCAAGAATAATGATGATTGGGATTGAACA
1 GCGAGTCAAGAATAAT-AGGACCGGGATCAAACA
20408 GCGAGTCAAGA
1 GCGAGTCAAGA
20419 GGATAAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 10 0.27
34 27 0.73
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (33 bp):
GCGAGTCAAGAATAATAGGACCGGGATCAAACA
Found at i:20449 original size:36 final size:35
Alignment explanation
Indices: 20398--20490 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 35
20388 ATGATGATTG
*
20398 GGATTGAACAGCGAGTCAAGAGGATAAAGATAATCA
1 GGATTGAACA-CGAGTCAAGAGGATAAAGACAATCA
* **
20434 GGATTGAACCACGAGTCAAGAGGATAAAGACGATTG
1 GGATTGAA-CACGAGTCAAGAGGATAAAGACAATCA
*
20470 GGACTGAATCACGAGTCAAGA
1 GGATTGAA-CACGAGTCAAGA
20491 AAATAATGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
36 48 0.96
37 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.29, T:0.16
Consensus pattern (35 bp):
GGATTGAACACGAGTCAAGAGGATAAAGACAATCA
Found at i:20580 original size:69 final size:69
Alignment explanation
Indices: 20349--20775 Score: 269
Period size: 69 Copynumber: 6.1 Consensus size: 69
20339 CGCGAGTCGA
* * * *
20349 AGAATAAT-AGGACCGGGATCAAA-CTACGAGTCA-AGAATAATGATGATTGGGATTGAA-CAGC
1 AGAATAATGATGACTGGGATTAAATC-ACGAGTCAGAGAATAATGA-GATTGGGATTGAACCA-T
20410 GAGTCAAG
63 GAGTC-AG
* * * * * * * * * * *
20418 AGGATAAAGAT-AATCAGGATTGAACCACGAGTCAAGAGGATAAAGACGATTGGGACTGAATCAC
1 AGAATAATGATGACT-GGGATTAAATCACGAGTC-AGAGAATAATGA-GATTGGGATTGAACCAT
20482 GAGTCAAG
63 GAGTC-AG
* * * * * *
20490 AAAATAATG-TCGA-TCGAGATTAAATCGCGAGTCA-AGGATAACGAAGACTGGGATTGAACCAT
1 AGAATAATGAT-GACT-GGGATTAAATCACGAGTCAGAGAATAATG-AGATTGGGATTGAACCAT
*
20552 GAGTTAG
63 GAGTCAG
* * * * * *
20559 AGAATAATGATGACTGGGATTAAACCAC-AGGTCAGAAAATAATGATATTGGGATTGAATCGTAA
1 AGAATAATGATGACTGGGATTAAATCACGA-GTCAGAGAATAATGAGATTGGGATTGAACCATGA
*
20623 GTCAT
65 GTCAG
* ** * * * * * *
20628 AAAATAATGACAACCGGGATTAAATCACAAATCAAAGAATAATGAGATTGAGATTGAATCATGAG
1 AGAATAATGATGACTGGGATTAAATCACGAGTCAGAGAATAATGAGATTGGGATTGAACCATGAG
*
20693 TCAT
66 TCAG
* * * * **
20697 AGAATAATAATGATTGGGATTAAATCATGAGTCAGAGAATAATGAGATCGGGATTGAACTGTGAG
1 AGAATAATGATGACTGGGATTAAATCACGAGTCAGAGAATAATGAGATTGGGATTGAACCATGAG
*
20762 TTAG
66 TCAG
20766 AGAATAATGA
1 AGAATAATGA
20776 GATCGAGACT
Statistics
Matches: 274, Mismatches: 70, Indels: 28
0.74 0.19 0.08
Matches are distributed among these distances:
68 1 0.00
69 167 0.61
70 48 0.18
71 5 0.02
72 50 0.18
73 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (69 bp):
AGAATAATGATGACTGGGATTAAATCACGAGTCAGAGAATAATGAGATTGGGATTGAACCATGAG
TCAG
Found at i:20585 original size:35 final size:35
Alignment explanation
Indices: 20376--20775 Score: 185
Period size: 34 Copynumber: 11.5 Consensus size: 35
20366 ATCAAACTAC
* *
20376 GAGTCA-AGAATAATGATGATTGGGATTGAA-CAGC
1 GAGTCAGAGAATAATGATGACTGGGATTGAATCA-T
* * * * * *
20410 GAGTCAAGAGGATAAAGAT-AATCAGGATTGAACCAC
1 GAGTC-AGAGAATAATGATGACT-GGGATTGAATCAT
* * * * * *
20446 GAGTCAAGAGGATAAAGACGATTGGGACTGAATCAC
1 GAGTC-AGAGAATAATGATGACTGGGATTGAATCAT
* * * **
20482 GAGTCAAGAAAATAATG-TCGA-TCGAGATTAAATCGC
1 GAGTC-AGAGAATAATGAT-GACT-GGGATTGAATCAT
* * * *
20518 GAGTCA-AGGATAACGAAGACTGGGATTGAACCAT
1 GAGTCAGAGAATAATGATGACTGGGATTGAATCAT
* * *
20552 GAGTTAGAGAATAATGATGACTGGGATTAAACCA-
1 GAGTCAGAGAATAATGATGACTGGGATTGAATCAT
* * * *
20586 CAGGTCAGAAAATAATGAT-ATTGGGATTGAATCGT
1 GA-GTCAGAGAATAATGATGACTGGGATTGAATCAT
* * * ** * * *
20621 AAGTCATAAAATAATGACAACCGGGATTAAATCAC
1 GAGTCAGAGAATAATGATGACTGGGATTGAATCAT
* * * * *
20656 AAATCAAAGAATAATGA-GATTGAGATTGAATCAT
1 GAGTCAGAGAATAATGATGACTGGGATTGAATCAT
* * * *
20690 GAGTCATAGAATAATAATGATTGGGATTAAATCAT
1 GAGTCAGAGAATAATGATGACTGGGATTGAATCAT
*
20725 GAGTCAGAGAATAATGA-GA-TCGGGATTGAA-CTGT
1 GAGTCAGAGAATAATGATGACT-GGGATTGAATC-AT
*
20759 GAGTTAGAGAATAATGA
1 GAGTCAGAGAATAATGA
20776 GATCGAGACT
Statistics
Matches: 284, Mismatches: 66, Indels: 32
0.74 0.17 0.08
Matches are distributed among these distances:
33 2 0.01
34 103 0.36
35 99 0.35
36 76 0.27
37 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (35 bp):
GAGTCAGAGAATAATGATGACTGGGATTGAATCAT
Found at i:20632 original size:34 final size:34
Alignment explanation
Indices: 20538--20754 Score: 148
Period size: 35 Copynumber: 6.3 Consensus size: 34
20528 TAACGAAGAC
* * * * *
20538 TGGGATTGAACCATGAGTTAGAGAATAATGATGAC
1 TGGGATTGAATCATAAGTCAGAAAATAATGA-GAT
* * * * *
20573 TGGGATTAAACCACAGGTCAGAAAATAATGATAT
1 TGGGATTGAATCATAAGTCAGAAAATAATGAGAT
* * * *
20607 TGGGATTGAATCGTAAGTCATAAAATAATGACAAC
1 TGGGATTGAATCATAAGTCAGAAAATAATGA-GAT
* * * *
20642 CGGGATTAAATCACAAATCA-AAGAATAATGAGAT
1 TGGGATTGAATCATAAGTCAGAA-AATAATGAGAT
* * * * *
20676 TGAGATTGAATCATGAGTCATAGAATAATAATGAT
1 TGGGATTGAATCATAAGTCAGAAAATAATGA-GAT
* * *
20711 TGGGATTAAATCATGAGTCAGAGAATAATGAGAT
1 TGGGATTGAATCATAAGTCAGAAAATAATGAGAT
*
20745 CGGGATTGAA
1 TGGGATTGAA
20755 CTGTGAGTTA
Statistics
Matches: 141, Mismatches: 37, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
34 61 0.43
35 80 0.57
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (34 bp):
TGGGATTGAATCATAAGTCAGAAAATAATGAGAT
Found at i:20793 original size:34 final size:34
Alignment explanation
Indices: 20724--20798 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
20714 GATTAAATCA
* * *
20724 TGAGTCAGAGAATAATGAGATCGGGATTGAACTG
1 TGAGTTAGAGAATAATGAGATCGAGACTGAACTG
*
20758 TGAGTTAGAGAATAATGAGATCGAGACTGAGCTG
1 TGAGTTAGAGAATAATGAGATCGAGACTGAACTG
20792 TGAGTTA
1 TGAGTTA
20799 AACAATAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.25
Consensus pattern (34 bp):
TGAGTTAGAGAATAATGAGATCGAGACTGAACTG
Found at i:21860 original size:38 final size:38
Alignment explanation
Indices: 21818--21901 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
21808 TCACTTCCCT
*
21818 TTTTTTTTGTGTT-TTTTGTA-TTTTTTGCATTTTTTCTC
1 TTTTTTTTGT-TTCTTTTGTATTTTTTTACATTTTTT-TC
21856 TTTTTTTTGTTTCTTTTGTATGTTTTTTTACATTTTTTTC
1 TTTTTTTTGTTTCTTTTGTA--TTTTTTTACATTTTTTTC
21896 TTTTTT
1 TTTTTT
21902 ATTTTAAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
37 2 0.05
38 17 0.41
40 8 0.20
41 14 0.34
ACGTcount: A:0.06, C:0.07, G:0.08, T:0.79
Consensus pattern (38 bp):
TTTTTTTTGTTTCTTTTGTATTTTTTTACATTTTTTTC
Found at i:31674 original size:12 final size:13
Alignment explanation
Indices: 31643--31676 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
31633 AATTAGTAAT
31643 GTAAATAAAACAA
1 GTAAATAAAACAA
*
31656 ATAAATAAAA-AA
1 GTAAATAAAACAA
31668 GTAAATAAA
1 GTAAATAAA
31677 TTAATAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (13 bp):
GTAAATAAAACAA
Found at i:33891 original size:13 final size:13
Alignment explanation
Indices: 33873--33897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33863 TTATTGTCAT
33873 TTAATTATTATTG
1 TTAATTATTATTG
33886 TTAATTATTATT
1 TTAATTATTATT
33898 ATAAAACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTAATTATTATTG
Found at i:34551 original size:10 final size:10
Alignment explanation
Indices: 34536--34564 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
34526 TTTCTAGATA
34536 CTTTTTTTTT
1 CTTTTTTTTT
34546 C-TTTTTTTT
1 CTTTTTTTTT
34555 CTTTTTTTTT
1 CTTTTTTTTT
34565 TTAACTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:34552 original size:9 final size:9
Alignment explanation
Indices: 34538--34563 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34528 TCTAGATACT
34538 TTTTTTTTC
1 TTTTTTTTC
34547 TTTTTTTTC
1 TTTTTTTTC
34556 TTTTTTTT
1 TTTTTTTT
34564 TTTAACTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:35058 original size:18 final size:17
Alignment explanation
Indices: 35025--35057 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
35015 TCTTTTTTTC
35025 TTTCCTTTTTTTATTAT
1 TTTCCTTTTTTTATTAT
35042 TTT-C-TTTTTTATTAT
1 TTTCCTTTTTTTATTAT
35057 T
1 T
35058 AATTGTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.75
16 1 0.06
17 3 0.19
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCCTTTTTTTATTAT
Found at i:46083 original size:30 final size:29
Alignment explanation
Indices: 45989--46084 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
45979 TTCTAAGAAC
* **
45989 TTATTTAAATATAAATTATAAA-TTAGGGAT
1 TTATTTGAATATAAATTA-AAAGTTAAAG-T
*
46019 TTATTTGAATATAAATTAAAAGTTAATGT
1 TTATTTGAATATAAATTAAAAGTTAAAGT
* * * *
46048 CTTATTTGCATATGAATTATATGTTAAAAGT
1 -TTATTTGAATATAAATTAAAAGTT-AAAGT
46079 TTATTT
1 TTATTT
46085 TGGTGTATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
29 4 0.07
30 47 0.85
31 4 0.07
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (29 bp):
TTATTTGAATATAAATTAAAAGTTAAAGT
Found at i:47112 original size:1 final size:1
Alignment explanation
Indices: 47106--47149 Score: 88
Period size: 1 Copynumber: 44.0 Consensus size: 1
47096 CTTCTCTTCC
47106 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
47150 ACATTATTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.