Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007284.1 Hibiscus syriacus cultivar Beakdansim tig00019324_pilon, 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: 73461
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Found at i:1964 original size:19 final size:19
Alignment explanation
Indices: 1929--1977 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1919 AAATACCCCT
1929 AAAAAATAATATTTAAAAC
1 AAAAAATAATATTTAAAAC
*
1948 AAAAGATAAT-TTCTAAAA-
1 AAAAAATAATATT-TAAAAC
1966 ATAAAAATAATA
1 A-AAAAATAATA
1978 AATCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATAATATTTAAAAC
Found at i:17975 original size:20 final size:20
Alignment explanation
Indices: 17950--17992 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
17940 ACCATCTCGG
17950 TTATTTGATTAAATAAGTGA
1 TTATTTGATTAAATAAGTGA
*
17970 TTATTTGATTCAATAAGTGA
1 TTATTTGATTAAATAAGTGA
17990 TTA
1 TTA
17993 AAATCAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (20 bp):
TTATTTGATTAAATAAGTGA
Found at i:27265 original size:12 final size:12
Alignment explanation
Indices: 27246--27279 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27236 GTATAAACAT
27246 ACAAACTAATAA
1 ACAAACTAATAA
*
27258 ATAAACTAATAA
1 ACAAACTAATAA
27270 ACAAAC-AATA
1 ACAAACTAATA
27280 GAAAATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (12 bp):
ACAAACTAATAA
Found at i:28383 original size:21 final size:21
Alignment explanation
Indices: 28325--28384 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
28315 TAGGTCATTG
28325 ATTATTAA-TAAAATTT-AAAA
1 ATTA-TAATTAAAATTTAAAAA
* * **
28345 ATATATCATTGAGTTTTAAAAA
1 AT-TATAATTAAAATTTAAAAA
28367 ATTATAATTAAAATTTAA
1 ATTATAATTAAAATTTAA
28385 TTAATTTATC
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (21 bp):
ATTATAATTAAAATTTAAAAA
Found at i:32081 original size:2 final size:2
Alignment explanation
Indices: 32076--32116 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32066 TATATCTGTC
32076 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
32117 GGGTGTGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32141 original size:14 final size:14
Alignment explanation
Indices: 32122--32156 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
32112 TATATGGGTG
32122 TGTGGGTGTAATTC
1 TGTGGGTGTAATTC
32136 TGTGGGTGTAATTC
1 TGTGGGTGTAATTC
32150 TGTGGGT
1 TGTGGGT
32157 TTGATTGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.06, G:0.40, T:0.43
Consensus pattern (14 bp):
TGTGGGTGTAATTC
Found at i:34323 original size:12 final size:12
Alignment explanation
Indices: 34306--34356 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
34296 TTCAAACAGG
34306 TTTTATATTTAA
1 TTTTATATTTAA
34318 TTTTATA-TTATA
1 TTTTATATTTA-A
*
34330 TTTGAT-TTTAA
1 TTTTATATTTAA
34341 TTTTA-ATATTAA
1 TTTTATAT-TTAA
34353 TTTT
1 TTTT
34357 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:34406 original size:27 final size:25
Alignment explanation
Indices: 34345--34415 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
34335 TTTTAATTTT
34345 AATATTAATTTTTTAA-A-TAAATTA
1 AATATTAA-TTTTTAATATTAAATTA
*
34369 AATATTAATTTTTAATATTATATTA
1 AATATTAATTTTTAATATTAAATTA
34394 TATATATTAA-TTTTAATATTAA
1 -A-ATATTAATTTTTAATATTAA
34416 TTTTTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.17
24 9 0.22
25 6 0.15
26 12 0.29
27 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATATTAATTTTTAATATTAAATTA
Found at i:34412 original size:12 final size:12
Alignment explanation
Indices: 34314--34419 Score: 85
Period size: 12 Copynumber: 8.7 Consensus size: 12
34304 GGTTTTATAT
34314 TTAATTTT-ATA
1 TTAATTTTAATA
* *
34325 TT-ATATTTGATT
1 TTAAT-TTTAATA
34337 TTAATTTTAATA
1 TTAATTTTAATA
34349 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
34362 -TAAATTAAATA
1 TTAATTTTAATA
34373 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
34386 TTATATTATATATA
1 TTA-ATTTTA-ATA
34400 TTAATTTTAATA
1 TTAATTTTAATA
34412 TTAATTTT
1 TTAATTTT
34420 TTAAATTTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
10 6 0.08
11 6 0.08
12 30 0.39
13 21 0.28
14 13 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:34418 original size:39 final size:41
Alignment explanation
Indices: 34361--34446 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 41
34351 AATTTTTTAA
*
34361 ATAAA-TTAAATATTAA-TTTTT-AATATTATATTATAT-AT
1 ATAAATTTTAATATTAATTTTTTAAAT-TTATATTATATCAT
* *
34399 ATTAATTTTAATATTAATTTTTTAAATTTATTTTATATCAT
1 ATAAATTTTAATATTAATTTTTTAAATTTATATTATATCAT
34440 ATAAATT
1 ATAAATT
34447 ATTTTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.10
39 10 0.25
40 15 0.38
41 11 0.28
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (41 bp):
ATAAATTTTAATATTAATTTTTTAAATTTATATTATATCAT
Found at i:34431 original size:13 final size:14
Alignment explanation
Indices: 34341--34432 Score: 67
Period size: 13 Copynumber: 7.1 Consensus size: 14
34331 TTGATTTTAA
34341 TTTTAATATTAATT
1 TTTTAATATTAATT
34355 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
34365 ATTAAATATTAA-T
1 TTTTAATATTAATT
*
34378 TTTTAATATT-ATA
1 TTTTAATATTAATT
*
34391 TTATATATATTAA--
1 TTTTA-ATATTAATT
34404 TTTTAATATTAATT
1 TTTTAATATTAATT
*
34418 TTTTAA-ATTTATT
1 TTTTAATATTAATT
34431 TT
1 TT
34433 ATATCATATA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
10 4 0.06
11 1 0.02
12 14 0.23
13 25 0.40
14 17 0.27
15 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:34435 original size:40 final size:40
Alignment explanation
Indices: 34337--34446 Score: 106
Period size: 40 Copynumber: 2.9 Consensus size: 40
34327 ATATTTGATT
* * * *
34337 TTAA-TTTTAATATTA-ATT-TTTTAAATAAA-TTAAATA
1 TTAATTTTTAATATTATATTATATCATATAAATTTTAATA
*
34373 TTAATTTTTAATATTATATTATAT-ATATTAATTTTAATA
1 TTAATTTTTAATATTATATTATATCATATAAATTTTAATA
*
34412 TTAATTTTTTAA-ATTTATTTTATATCATATAAATT
1 TTAA-TTTTTAATA-TTATATTATATCATATAAATT
34447 ATTTTATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
36 4 0.07
37 11 0.18
38 8 0.13
39 13 0.21
40 17 0.28
41 8 0.13
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (40 bp):
TTAATTTTTAATATTATATTATATCATATAAATTTTAATA
Found at i:34464 original size:20 final size:20
Alignment explanation
Indices: 34420--34478 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
34410 TATTAATTTT
34420 TTAAATTTATTTTATATCA-TA
1 TTAAA-TTATTTTATAT-ATTA
34441 -TAAATTATTTTATATATTA
1 TTAAATTATTTTATATATTA
34460 TTAAA--ATTTTATAT-TTA
1 TTAAATTATTTTATATATTA
34477 TT
1 TT
34479 TTAGTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.14
18 10 0.28
19 13 0.36
20 8 0.22
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATTATTTTATATATTA
Found at i:35627 original size:14 final size:14
Alignment explanation
Indices: 35608--35645 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
35598 AAAAAAATAT
35608 AATTTATTTTTCAG
1 AATTTATTTTTCAG
*
35622 AATTTAATTTTCAG
1 AATTTATTTTTCAG
35636 AATTTATTTT
1 AATTTATTTT
35646 CAGTATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (14 bp):
AATTTATTTTTCAG
Found at i:36317 original size:30 final size:30
Alignment explanation
Indices: 36267--36343 Score: 111
Period size: 30 Copynumber: 2.5 Consensus size: 30
36257 CTTTTAAAAC
**
36267 TTGCAATACAGTCTCCCAACATTTATT-CTGT
1 TTGCAATATGGTC-CCCAACATTTATTCCT-T
36298 TTGCAATATGGTCCCCAACATTTATTCCTT
1 TTGCAATATGGTCCCCAACATTTATTCCTT
36328 TTGCAATATGGTCCCC
1 TTGCAATATGGTCCCC
36344 CAACTTAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 30 0.70
31 13 0.30
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (30 bp):
TTGCAATATGGTCCCCAACATTTATTCCTT
Found at i:36981 original size:35 final size:36
Alignment explanation
Indices: 36932--37040 Score: 121
Period size: 36 Copynumber: 3.1 Consensus size: 36
36922 TCTAAACCTT
** * *
36932 AAATTGAAGCATTTTAGAATTTGGGGTTTAAAAT-T
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATGA
* * *
36967 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATGA
* * *
37003 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATGA
37039 AA
1 AA
37041 TTAAGGACTA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 28 0.45
36 34 0.55
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (36 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAAAATGA
Found at i:43677 original size:2 final size:2
Alignment explanation
Indices: 43670--43694 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43660 AGACGTTCAG
43670 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 T
43695 GAATAAACCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53673 original size:132 final size:132
Alignment explanation
Indices: 53436--53700 Score: 530
Period size: 132 Copynumber: 2.0 Consensus size: 132
53426 ATAGCCAAAC
53436 ATGTAAATGATAAAGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATA
1 ATGTAAATGATAAAGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATA
53501 AACTCCTAAAAGCATAATTTAACCTTCAAAGCAATGGACACATTGAGCATCTCACTTGTTATGAA
66 AACTCCTAAAAGCATAATTTAACCTTCAAAGCAATGGACACATTGAGCATCTCACTTGTTATGAA
53566 CG
131 CG
53568 ATGTAAATGATAAAGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATA
1 ATGTAAATGATAAAGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATA
53633 AACTCCTAAAAGCATAATTTAACCTTCAAAGCAATGGACACATTGAGCATCTCACTTGTTATGAA
66 AACTCCTAAAAGCATAATTTAACCTTCAAAGCAATGGACACATTGAGCATCTCACTTGTTATGAA
53698 CG
131 CG
53700 A
1 A
53701 GATCACCCTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (132 bp):
ATGTAAATGATAAAGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATA
AACTCCTAAAAGCATAATTTAACCTTCAAAGCAATGGACACATTGAGCATCTCACTTGTTATGAA
CG
Found at i:53712 original size:97 final size:97
Alignment explanation
Indices: 53581--53778 Score: 396
Period size: 97 Copynumber: 2.0 Consensus size: 97
53571 TAAATGATAA
53581 AGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATAAACTCCTAAAAGC
1 AGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATAAACTCCTAAAAGC
53646 ATAATTTAACCTTCAAAGCAATGGACACATTG
66 ATAATTTAACCTTCAAAGCAATGGACACATTG
53678 AGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATAAACTCCTAAAAGC
1 AGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATAAACTCCTAAAAGC
53743 ATAATTTAACCTTCAAAGCAATGGACACATTG
66 ATAATTTAACCTTCAAAGCAATGGACACATTG
53775 AGCA
1 AGCA
53779 AGTAATTTGA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 101 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (97 bp):
AGCATCTCACTTGTTATGAACGAGATCACCCTTCACAGAGTTTATGTAAATAAACTCCTAAAAGC
ATAATTTAACCTTCAAAGCAATGGACACATTG
Found at i:61648 original size:60 final size:60
Alignment explanation
Indices: 61562--61729 Score: 169
Period size: 60 Copynumber: 2.8 Consensus size: 60
61552 TCTGGATGAA
* * ** *
61562 TTTAGGGAGGAAATTGGAATATTCAAAAGTTTGGGGACTAATTTAAAAAGAGGGTCATAG
1 TTTACGGAGGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAAGAGAGTCATAG
* * * *
61622 TTTACGGATGAAATTAGATTATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
1 TTTACGGAGGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAAGAGAGTCATAG
* * ** * *
61682 TAT-GGGTCTGAAATTAAAATATTCAAAAATTTAA-GATCTAATTTAAAA
1 TTTACGG-AGGAAATTAGAATATTCAAAAGTTTAAGGA-CTAATTTAAAA
61730 TTAGAGTTAG
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
59 4 0.04
60 86 0.96
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (60 bp):
TTTACGGAGGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAAGAGAGTCATAG
Found at i:66265 original size:12 final size:12
Alignment explanation
Indices: 66250--66293 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
66240 GCATGTAATA
*
66250 CATACATGCATG
1 CATACATACATG
66262 CATACATACATG
1 CATACATACATG
** *
66274 CATGTATACATA
1 CATACATACATG
66286 CATACATA
1 CATACATA
66294 TCTGAATCTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (12 bp):
CATACATACATG
Found at i:66268 original size:16 final size:16
Alignment explanation
Indices: 66247--66288 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
66237 ATCGCATGTA
66247 ATACATACATGCATGC
1 ATACATACATGCATGC
*
66263 ATACATACATGCATGT
1 ATACATACATGCATGC
66279 ATACATACAT
1 ATACATACAT
66289 ACATATCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (16 bp):
ATACATACATGCATGC
Found at i:67951 original size:2 final size:2
Alignment explanation
Indices: 67944--67973 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
67934 GAAGACATTA
*
67944 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67974 GTTATGTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:69783 original size:2 final size:2
Alignment explanation
Indices: 69776--69819 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
69766 ATTGGAAAAT
69776 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
69818 TA
1 TA
69820 CAAACAACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:69986 original size:24 final size:23
Alignment explanation
Indices: 69944--69988 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
69934 GAAATTAAAA
* *
69944 ATAAATATAAAATACATGCATGT
1 ATAAATAAAAAATAAATGCATGT
69967 ATAAATAAATAAATAAATGCAT
1 ATAAATAAA-AAATAAATGCAT
69989 AGTTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (23 bp):
ATAAATAAAAAATAAATGCATGT
Found at i:71748 original size:13 final size:13
Alignment explanation
Indices: 71730--71756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71720 TGGTTTAACC
71730 TTTTTAAAATATA
1 TTTTTAAAATATA
71743 TTTTTAAAATATA
1 TTTTTAAAATATA
71756 T
1 T
71757 CATATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATATA
Found at i:72063 original size:31 final size:32
Alignment explanation
Indices: 72028--72097 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
72018 TTCTTTTATT
* *
72028 TCATTTTAGTA-CCCGTTGTTAACTTTTTGTA
1 TCATTTTAGTACCCCGCTATTAACTTTTTGTA
* *
72059 TCA-TTCAGTACCCCGCTATTAACTTTTTGTT
1 TCATTTTAGTACCCCGCTATTAACTTTTTGTA
72090 TCATTTTA
1 TCATTTTA
72098 ATACTTAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 6 0.19
31 23 0.72
32 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (32 bp):
TCATTTTAGTACCCCGCTATTAACTTTTTGTA
Done.