Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001431.1 Hibiscus syriacus cultivar Beakdansim tig00002779_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: 92040
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:1894 original size:17 final size:18
Alignment explanation
Indices: 1869--1912 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
1859 ATGTTGTAAA
1869 TATTATTTTA-AATAATTAC
1 TATT-TTTTACAATAA-TAC
1888 -ATTTTTTACAATAATAC
1 TATTTTTTACAATAATAC
1905 TATTTTTT
1 TATTTTTT
1913 CATCCCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTTTTACAATAATAC
Found at i:11417 original size:16 final size:17
Alignment explanation
Indices: 11396--11436 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11386 CATAAAATTA
*
11396 TAAATAATT-AATATAT
1 TAAATAATTAAAAATAT
11412 TAAAT-ATTAAAAATAT
1 TAAATAATTAAAAATAT
*
11428 AAAATAATT
1 TAAATAATT
11437 TTAATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATTAAAAATAT
Found at i:13353 original size:2 final size:2
Alignment explanation
Indices: 13346--13427 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
13336 AATGTCTAAT
13346 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
13388 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
13428 CTACAATCAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16097 original size:15 final size:15
Alignment explanation
Indices: 16050--16098 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
16040 AAAAAACCGC
16050 TTTTC-GCCTTTTCG
1 TTTTCAGCCTTTTCG
*
16064 TTTCCAGCCTTTTCG
1 TTTTCAGCCTTTTCG
* *
16079 TTTTCAGCTTTTTAG
1 TTTTCAGCCTTTTCG
16094 TTTTC
1 TTTTC
16099 TTTATTCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.06, C:0.24, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTTCAGCCTTTTCG
Found at i:16268 original size:22 final size:22
Alignment explanation
Indices: 16242--16289 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
16232 TGTGGGGATA
16242 TTTTTAGT-TTTTTATTAAATGT
1 TTTTTAGTATTTTTATTAAAT-T
* *
16264 TTTTTGGTATTTTTATTTAATT
1 TTTTTAGTATTTTTATTAAATT
16286 TTTT
1 TTTT
16290 AAATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTTAGTATTTTTATTAAATT
Found at i:19110 original size:5 final size:5
Alignment explanation
Indices: 19086--19169 Score: 132
Period size: 5 Copynumber: 16.8 Consensus size: 5
19076 GTCCGTCCGT
* * * *
19086 CTCGT CTCGG CTCGG CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
19136 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
19170 TGGTCGTGGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 76 1.00
ACGTcount: A:0.04, C:0.40, G:0.38, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:19178 original size:6 final size:6
Alignment explanation
Indices: 19167--19203 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
19157 TCGGCTCGGC
19167 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
19204 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:19216 original size:15 final size:15
Alignment explanation
Indices: 19196--19228 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19186 CGTGGTCGTG
19196 GTCGTGGTAATACGT
1 GTCGTGGTAATACGT
19211 GTCGTGGTAATACGT
1 GTCGTGGTAATACGT
19226 GTC
1 GTC
19229 TTCGACACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.33
Consensus pattern (15 bp):
GTCGTGGTAATACGT
Found at i:24139 original size:5 final size:5
Alignment explanation
Indices: 24120--24173 Score: 72
Period size: 5 Copynumber: 10.8 Consensus size: 5
24110 GTCCGTCCGT
* * * *
24120 CTCGT CTCGG CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
24170 CTCG
1 CTCG
24174 TGGTCGTGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.06, C:0.41, G:0.37, T:0.17
Consensus pattern (5 bp):
CTCGG
Found at i:24182 original size:6 final size:6
Alignment explanation
Indices: 24171--24234 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
24161 TCGGCTCGGC
* *
24171 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
24219 TCGTGG TCGTGG TCGT
1 TCGTGG TCGTGG TCGT
24235 TGTAATACGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.03, C:0.17, G:0.48, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:24537 original size:22 final size:22
Alignment explanation
Indices: 24512--24566 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
24502 TTAGGAGTTA
* *
24512 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
24534 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
24556 CGGGAGTTATA
1 CAGGAGTTATA
24567 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:29969 original size:19 final size:19
Alignment explanation
Indices: 29941--29979 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29931 TTCATTTTCT
29941 TATGAGTATG-AACATACAA
1 TATGAGTATGTAA-ATACAA
*
29960 TATGATTATGTAAATACAA
1 TATGAGTATGTAAATACAA
29979 T
1 T
29980 CCTACTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (19 bp):
TATGAGTATGTAAATACAA
Found at i:30215 original size:21 final size:20
Alignment explanation
Indices: 30189--30248 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
30179 GGCATGTAAA
*
30189 ATCTATGTCCCGAAGGACGT
1 ATCTATGTCCCGAAGGACCT
* *
30209 CATCTATATCTCGAAGGACCT
1 -ATCTATGTCCCGAAGGACCT
30230 ATCATATGTCCCGAAGGAC
1 ATC-TATGTCCCGAAGGAC
30249 ATATGCAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCTATGTCCCGAAGGACCT
Found at i:33149 original size:32 final size:29
Alignment explanation
Indices: 33102--33167 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 29
33092 TATGTAAAAC
33102 ATTTTTTTATCAAAATAAATACCTAAAGTT
1 ATTTTTTTATCAAAATAAATACCTAAAG-T
** *
33132 ATTTTTTTATTCAAAAATAGGTACGTAAAGT
1 ATTTTTTTA-TC-AAAATAAATACCTAAAGT
33163 ATTTT
1 ATTTT
33168 ATGTCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.29
31 8 0.26
32 14 0.45
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (29 bp):
ATTTTTTTATCAAAATAAATACCTAAAGT
Found at i:33167 original size:28 final size:28
Alignment explanation
Indices: 33136--33193 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
33126 AAAGTTATTT
*
33136 TTTTAT-TCAAAAATAGGTACGTAAAGTA
1 TTTTATGTC-AAAATAGGTACGTAAACTA
*
33164 TTTTATGTCAAAATAGGTACTTAAACTA
1 TTTTATGTCAAAATAGGTACGTAAACTA
33192 TT
1 TT
33194 CAAACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (28 bp):
TTTTATGTCAAAATAGGTACGTAAACTA
Found at i:33319 original size:31 final size:29
Alignment explanation
Indices: 33281--33349 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 29
33271 AATTGATTAT
33281 TTTAGGTACCTATTTTGACCAAAAATATAAC
1 TTTAGGTACCTATTTTGACCAAAAA-AT-AC
* * *
33312 TTTAGGTACTTCTTTTGACCAAAAAATTC
1 TTTAGGTACCTATTTTGACCAAAAAATAC
33341 TTTAGGTAC
1 TTTAGGTAC
33350 TTAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 10 0.29
30 2 0.06
31 23 0.66
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (29 bp):
TTTAGGTACCTATTTTGACCAAAAAATAC
Found at i:37646 original size:31 final size:30
Alignment explanation
Indices: 37604--37663 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
37594 GGGGTAAACT
37604 GTCCCTTTAGTACCTAAACTATCACTTTTA
1 GTCCCTTTAGTACCTAAACTATCACTTTTA
* * *
37634 GTCCGCTTTAGTATCTAAACTTTCATTTTT
1 GTCC-CTTTAGTACCTAAACTATCACTTTT
37664 TTCAAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (30 bp):
GTCCCTTTAGTACCTAAACTATCACTTTTA
Found at i:46924 original size:2 final size:2
Alignment explanation
Indices: 46917--46945 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46907 AAAACTGTGC
46917 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 T
46946 TGATTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48894 original size:15 final size:15
Alignment explanation
Indices: 48874--48907 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48864 CCGTAGGACC
48874 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
48889 ACTACATCCTGAAGG
1 ACTACATCCCGAAGG
48904 ACTA
1 ACTA
48908 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:49456 original size:64 final size:63
Alignment explanation
Indices: 49387--49543 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 63
49377 TAACGAAGGT
* **
49387 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTTTATT-TTAA-AA
49450 G
63 G
* * *
49451 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
* *
49514 AGTGCATTGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
49544 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 3 0.04
64 66 0.85
65 9 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
Found at i:52140 original size:19 final size:19
Alignment explanation
Indices: 52118--52181 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
52108 AATTATTTAA
52118 ATATATTTAAATTAAATAT
1 ATATATTTAAATTAAATAT
* *
52137 ATATTTTTAATTTAAAT-T
1 ATATATTTAAATTAAATAT
* * *
52155 AAATTTATTAATATTATATAT
1 ATATAT-TTAA-ATTAAATAT
52176 ATATAT
1 ATATAT
52182 AATAATTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.17
19 19 0.54
20 5 0.14
21 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTTAAATTAAATAT
Found at i:58208 original size:27 final size:25
Alignment explanation
Indices: 58156--58208 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
58146 AATACATTTT
* *
58156 TTTATTTTATTTTTAAAATTAAATA
1 TTTATTTTATTTTGAAAATGAAATA
*
58181 TTTATTTTATCTATTGAAAATGGAATA
1 TTTATTTTAT-T-TTGAAAATGAAATA
58208 T
1 T
58209 ATATAGACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.43
26 1 0.04
27 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTATTTTATTTTGAAAATGAAATA
Found at i:66632 original size:20 final size:20
Alignment explanation
Indices: 66607--66649 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
66597 ACTAAGAGCC
*
66607 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
66627 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
66647 CAT
1 CAT
66650 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:77061 original size:13 final size:13
Alignment explanation
Indices: 77043--77068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77033 ATTATCTTAA
77043 TTATTATTATTAT
1 TTATTATTATTAT
77056 TTATTATTATTAT
1 TTATTATTATTAT
77069 GTATCATACA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:83020 original size:29 final size:29
Alignment explanation
Indices: 82977--83037 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
82967 TATGTTTTAA
* * *
82977 GGGCGAATTTGAACTTTTAAAATTTCAGG
1 GGGCGAACTTAAACTTATAAAATTTCAGG
*
83006 GGGCGAACTTAAACTTATAAAATTTTAGG
1 GGGCGAACTTAAACTTATAAAATTTCAGG
83035 GGG
1 GGG
83038 ATAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (29 bp):
GGGCGAACTTAAACTTATAAAATTTCAGG
Found at i:83359 original size:22 final size:22
Alignment explanation
Indices: 83331--83372 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
83321 TGGTCTTTTC
83331 AAATATT-TTATTATTATAATGG
1 AAATATTATTATTA-TATAATGG
83353 AAATATTATTATTATATAAT
1 AAATATTATTATTATATAAT
83373 TCATAGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
AAATATTATTATTATATAATGG
Found at i:83720 original size:17 final size:17
Alignment explanation
Indices: 83700--83732 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83690 AATGAAACAT
83700 TATTTTTTAAAAAATTA
1 TATTTTTTAAAAAATTA
*
83717 TATTTTTTAACAAATT
1 TATTTTTTAAAAAATT
83733 TTTCAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTTTAAAAAATTA
Found at i:85454 original size:35 final size:35
Alignment explanation
Indices: 85415--85489 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
85405 AAACGAATTA
*
85415 AACGGGGATATGG-AAAACCGTTTATGCTAAACGGG
1 AACGGGGA-AGGGAAAAACCGTTTATGCTAAACGGG
* *
85450 AACGGGGACGGGAAAAACCGTTTATGCTAAATGGG
1 AACGGGGAAGGGAAAAACCGTTTATGCTAAACGGG
*
85485 GACGG
1 AACGG
85490 AACGAGAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.17
Consensus pattern (35 bp):
AACGGGGAAGGGAAAAACCGTTTATGCTAAACGGG
Found at i:85657 original size:28 final size:29
Alignment explanation
Indices: 85590--85660 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
85580 ATTATATATA
85590 TATATATAATATAATAAATTTAATTTAAATT
1 TATATAT-ATATAAT-AATTTAATTTAAATT
* * *
85621 AAAAAATATATAAT-ATTTATATTT-AATT
1 TATATATATATAATAATTTA-ATTTAAATT
85649 TATATATATATA
1 TATATATATATA
85661 CCCGGCCCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 18 0.55
29 4 0.12
30 7 0.21
31 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TATATATATATAATAATTTAATTTAAATT
Found at i:91151 original size:190 final size:187
Alignment explanation
Indices: 90839--91284 Score: 552
Period size: 190 Copynumber: 2.3 Consensus size: 187
90829 TGAATGATTG
* * * * *
90839 GATCAACTCAAATAAGACCTAATAAGTGAAACAATTCAAGCAAGTAACCTTGGGGGCTATAAATC
1 GATCAACT-AAATAAGACCCAATAAGTGAAACAATTCAAGCATGTAAACTT-GAGGCTATAAATG
* * * * *
90904 TCTATATTCTGCATCATAACATCTCCTCTTCTGACTAGTTCCAGCACTAAATACTGAAATCGCTC
64 TCTATAATCTACATCAAAACATCCCCTCTTCTGACTAATTCCAGCACTAAATACTGAAATCGCTC
* * * *
90969 AAGAAGTTCCTGATAATTGGAGTAACCAATGCATCAACAACAAAAACAATACTTAAATA
129 AAGAAGTTCATGATAATTGGAGTAACCAACGCACCAACAACAAAAACAAGACTTAAATA
* *
91028 GATC-ACTAAATAAGACTCCAATAATTGAAACAATTCAAGCATGTAAACTTGAGGCTTTAAATGT
1 GATCAACTAAATAAGAC-CCAATAAGTGAAACAATTCAAGCATGTAAACTTGAGGCTATAAATGT
* *
91092 CTATAATCTACATCAAAAGCATACCCCCTTTTCTGACTAATTCCAGCACTAAATACTGAAATCGT
65 CTATAATCTACATCAAAA-CAT--CCCCTCTTCTGACTAATTCCAGCACTAAATACTGAAATCGC
* * * * * *
91157 TCTAGAAGTTCATGATAATTGGAGTAATCAACGCACCACCAACAAAAAGAGGACTTAAATT
127 TCAAGAAGTTCATGATAATTGGAGTAACCAACGCACCAACAACAAAAACAAGACTTAAATA
* * *
91218 GAATCAACGCAAATAAGGCCCTACTAAGTGAAACAATTCAAGCATGTAAACTTGAGGGCTATAAA
1 G-ATCAAC-TAAATAAGACCC-AATAAGTGAAACAATTCAAGCATGTAAACTTGA-GGCTATAAA
91283 TG
62 TG
91285 CCAATATTTT
Statistics
Matches: 219, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
187 35 0.16
188 35 0.16
189 4 0.02
190 89 0.41
191 3 0.01
192 4 0.02
193 39 0.18
194 10 0.05
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (187 bp):
GATCAACTAAATAAGACCCAATAAGTGAAACAATTCAAGCATGTAAACTTGAGGCTATAAATGTC
TATAATCTACATCAAAACATCCCCTCTTCTGACTAATTCCAGCACTAAATACTGAAATCGCTCAA
GAAGTTCATGATAATTGGAGTAACCAACGCACCAACAACAAAAACAAGACTTAAATA
Done.