Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002163.1 Hibiscus syriacus cultivar Beakdansim tig00004416_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: 99243
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:4939 original size:24 final size:25
Alignment explanation
Indices: 4895--4942 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
4885 ATATAAATAT
4895 TCTTCAACATTTCATCAATTAATTTC
1 TCTTCAACATTTCAT-AATTAATTTC
4921 TCTTCAA-ATTTCA-ATATTAATT
1 TCTTCAACATTTCATA-ATTAATT
4943 AGTAGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 7 0.33
25 6 0.29
26 7 0.33
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (25 bp):
TCTTCAACATTTCATAATTAATTTC
Found at i:9237 original size:23 final size:24
Alignment explanation
Indices: 9211--9255 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9201 TTGATTGAAC
9211 TTGAGTTCGATTTAAG-TTTAAAT
1 TTGAGTTCGATTTAAGCTTTAAAT
*
9234 TTGAGTTTGATTTAAGCTTTAA
1 TTGAGTTCGATTTAAGCTTTAA
9256 CACAAACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (24 bp):
TTGAGTTCGATTTAAGCTTTAAAT
Found at i:9606 original size:30 final size:30
Alignment explanation
Indices: 9565--9621 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
9555 GATACGTGTG
9565 GATGAAGATGTCGGCATCTCTTGGTTGGTT
1 GATGAAGATGTCGGCATCTCTTGGTTGGTT
* *
9595 GATGGAGATGTCGGCTTCTCTTGGTTG
1 GATGAAGATGTCGGCATCTCTTGGTTG
9622 AGGGATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.37
Consensus pattern (30 bp):
GATGAAGATGTCGGCATCTCTTGGTTGGTT
Found at i:12136 original size:18 final size:18
Alignment explanation
Indices: 12113--12148 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12103 ACTATTACTG
12113 GACCT-ATTAAACTTTTAA
1 GACCTAATTAAA-TTTTAA
12131 GACCTAATTAAATTTTAA
1 GACCTAATTAAATTTTAA
12149 CTCAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (18 bp):
GACCTAATTAAATTTTAA
Found at i:14751 original size:26 final size:27
Alignment explanation
Indices: 14722--14779 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
14712 CCGTTTAATT
14722 TAAAATTTATAA-AATTTTAAAG-AAAA
1 TAAAATTTA-AAGAATTTTAAAGAAAAA
* *
14748 T-AAACTTAAAGAATTTTATAGAAAAA
1 TAAAATTTAAAGAATTTTAAAGAAAAA
14774 TAAAAT
1 TAAAAT
14780 AAATTACCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 6 0.23
27 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (27 bp):
TAAAATTTAAAGAATTTTAAAGAAAAA
Found at i:14999 original size:16 final size:17
Alignment explanation
Indices: 14978--15015 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
14968 ATCACTTTGG
14978 TATTTAAATATT-TTTT
1 TATTTAAATATTATTTT
* *
14994 TATTTAATTTTTATTTT
1 TATTTAAATATTATTTT
15011 TATTT
1 TATTT
15016 TTTTTCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTAAATATTATTTT
Found at i:23551 original size:2 final size:2
Alignment explanation
Indices: 23544--23580 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
23534 TCAAAGAATA
* *
23544 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23581 GTACTATTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:37575 original size:18 final size:17
Alignment explanation
Indices: 37532--37577 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
37522 TGTATGTTTC
37532 CTACAGTCTGTTTTCTA
1 CTACAGTCTGTTTTCTA
*
37549 CAATACAGTCTGTTTTCTTT
1 C--TACAGTCTGTTTTC-TA
37569 CTACAGTCT
1 CTACAGTCT
37578 ATTTCCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 14 0.56
20 2 0.08
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.46
Consensus pattern (17 bp):
CTACAGTCTGTTTTCTA
Found at i:42720 original size:15 final size:15
Alignment explanation
Indices: 42681--42723 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
42671 AACTCAAAGT
42681 TAAATATTATTTTAAA
1 TAAATA-TATTTTAAA
*
42697 TAAACATATTTTACAA
1 TAAATATATTTTA-AA
42713 T-AATATATTTT
1 TAAATATATTTT
42724 TTCACTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAATATATTTTAAA
Found at i:43723 original size:42 final size:43
Alignment explanation
Indices: 43591--43862 Score: 214
Period size: 43 Copynumber: 6.3 Consensus size: 43
43581 ATCCCATTTT
* ** ** *
43591 TTTTTACATTTATAATTGATGATCCTAAGTTTTTCAATCTCAC
1 TTTTTACCTTTATAATTGATGCCCCTATTTTTTTCAATATCAC
** * * * * *
43634 CGTGTACCTTTATAATT-AAGCTCATGTTTTTTTTCAATATCAC
1 TTTTTACCTTTATAATTGATGCCCCT-ATTTTTTTCAATATCAC
* * * *
43677 TTTTTATCTTTATAATTGA-GACCCCTATTTTTTTTAAT-CCTAT
1 TTTTTACCTTTATAATTGATG-CCCCTATTTTTTTCAATATC-AC
* * *
43720 TTTTTA-CTCATATAATTTATGCCCCTCATTTTTTTCAATCTCAC
1 TTTTTACCT-TTATAATTGATGCCCCT-ATTTTTTTCAATATCAC
*
43764 TTTTTACCTTTAAAATTGATGCCCCTATTTTTTT-AATATCAC
1 TTTTTACCTTTATAATTGATGCCCCTATTTTTTTCAATATCAC
** * *
43806 TTTTTACCTTTATAATTGGGGTCCCTAATTTTTTCAATCAT-AC
1 TTTTTACCTTTATAATTGATGCCCCTATTTTTTTCAAT-ATCAC
*
43849 TTTTTACTTTTATA
1 TTTTTACCTTTATA
43863 GTTTAAACCC
Statistics
Matches: 182, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
42 44 0.24
43 96 0.53
44 39 0.21
45 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.06, T:0.51
Consensus pattern (43 bp):
TTTTTACCTTTATAATTGATGCCCCTATTTTTTTCAATATCAC
Found at i:49958 original size:27 final size:28
Alignment explanation
Indices: 49924--49979 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
49914 TATTATATAA
* *
49924 ATATAATTTTTAATAT-TTTTTTAATAT
1 ATATAATTTATAATATATTATTTAATAT
*
49951 ATATAATTTATAATGTATTATTTAATAT
1 ATATAATTTATAATATATTATTTAATAT
49979 A
1 A
49980 CATATATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
ATATAATTTATAATATATTATTTAATAT
Found at i:50034 original size:17 final size:17
Alignment explanation
Indices: 50012--50046 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
50002 GCATCACTTG
*
50012 TGAATTAATCTTAATTT
1 TGAATTAATCTCAATTT
50029 TGAATTAATCTCAATTT
1 TGAATTAATCTCAATTT
50046 T
1 T
50047 ATTCCACCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (17 bp):
TGAATTAATCTCAATTT
Found at i:50671 original size:16 final size:16
Alignment explanation
Indices: 50650--50683 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
50640 TTAATATTCA
*
50650 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
50666 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
50682 CG
1 CG
50684 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:60503 original size:24 final size:24
Alignment explanation
Indices: 60476--60525 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
60466 TTTAAAGTAA
60476 AATTCAAGTGGAAGATATAGAGAC
1 AATTCAAGTGGAAGATATAGAGAC
60500 AATTCAAGTGGAAGATATAGAGAC
1 AATTCAAGTGGAAGATATAGAGAC
60524 AA
1 AA
60526 ATTCTGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (24 bp):
AATTCAAGTGGAAGATATAGAGAC
Found at i:61470 original size:185 final size:185
Alignment explanation
Indices: 61158--61526 Score: 711
Period size: 185 Copynumber: 2.0 Consensus size: 185
61148 TTAATCGTTA
61158 TCAACAAGACTGAAAAATAACTCTCTCCATATTATACCGATATCCAGAAAACAAATCAAACTTCA
1 TCAACAAGACTGAAAAATAACTCTCTCCATATTATACCGATATCCAGAAAACAAATCAAACTTCA
61223 CTGTAGATAAAACCAAAACTAGCTTTTTCATGAAAAGGAGATCACCATCATGCTGTTTATCAGTA
66 CTGTAGATAAAACCAAAACTAGCTTTTTCATGAAAAGGAGATCACCATCATGCTGTTTATCAGTA
* *
61288 TGCAGGCGGTTTCCAGGAACACTGGTGTTCAAATCAAACAGGTTTACCATCCTGT
131 AGCAGGCGGTTTCCAGGAACACTGGTGTTCAAATCAAAAAGGTTTACCATCCTGT
*
61343 TCAACAAGACTGAAAAATAACTCTCTCCATATTATACCGATATCCAGAACACAAATCAAACTTCA
1 TCAACAAGACTGAAAAATAACTCTCTCCATATTATACCGATATCCAGAAAACAAATCAAACTTCA
61408 CTGTAGATAAAACCAAAACTAGCTTTTTCATGAAAAGGAGATCACCATCATGCTGTTTATCAGTA
66 CTGTAGATAAAACCAAAACTAGCTTTTTCATGAAAAGGAGATCACCATCATGCTGTTTATCAGTA
61473 AGCAGGCGGTTTCCAGGAACACTGGTGTTCAAATCAAAAAGGTTTACCATCCTG
131 AGCAGGCGGTTTCCAGGAACACTGGTGTTCAAATCAAAAAGGTTTACCATCCTG
61527 CCCAAGCATC
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 181 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (185 bp):
TCAACAAGACTGAAAAATAACTCTCTCCATATTATACCGATATCCAGAAAACAAATCAAACTTCA
CTGTAGATAAAACCAAAACTAGCTTTTTCATGAAAAGGAGATCACCATCATGCTGTTTATCAGTA
AGCAGGCGGTTTCCAGGAACACTGGTGTTCAAATCAAAAAGGTTTACCATCCTGT
Found at i:66862 original size:186 final size:186
Alignment explanation
Indices: 66539--66917 Score: 661
Period size: 186 Copynumber: 2.0 Consensus size: 186
66529 TAAAAATTTT
* *
66539 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACACAATTAATAA
*
66604 TTTAAGATCGAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
66669 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTCTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACAATTTTTCTGAATTAAA
66725 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACACAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACACAATTAATAA
*
66790 TTTAAGATCCAATAATTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATAT-AAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* * *
66854 TGTATTTTATAATTATATATTATTTGAATTAATTATAAACAATTTTTTTGAATTATA
131 T-TATTTTATAATTATATATTATTTAAATTAATTATAAACAATTTTTCTGAATTAAA
66911 AAATATT
1 AAATATT
66918 TATTTTTTAT
Statistics
Matches: 183, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 7 0.04
186 176 0.96
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACACAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACAATTTTTCTGAATTAAA
Found at i:66918 original size:20 final size:21
Alignment explanation
Indices: 66884--66923 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
66874 TATTTGAATT
66884 AATTATAAACAATTT-TTTTG
1 AATTATAAACAATTTATTTTG
66904 AATTATAAA-ATATTTATTTT
1 AATTATAAACA-ATTTATTTT
66924 TTATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
AATTATAAACAATTTATTTTG
Found at i:67525 original size:52 final size:51
Alignment explanation
Indices: 67451--67552 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 51
67441 CAGCTCATAT
67451 GACCATCAATTTTTAAGTAAAAAAAGACAAGTTTGGAACATATGAATAGTCA
1 GACCATCAATTTTTAAG-AAAAAAAGACAAGTTTGGAACATATGAATAGTCA
* *
67503 GACCATCAAATTTTTTAA-AAAAAATGACGAGTTTGGAACATATGAATAGT
1 GACCATC-AA-TTTTTAAGAAAAAAAGACAAGTTTGGAACATATGAATAGT
67553 TAGATGACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
52 37 0.80
53 2 0.04
54 7 0.15
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (51 bp):
GACCATCAATTTTTAAGAAAAAAAGACAAGTTTGGAACATATGAATAGTCA
Found at i:70987 original size:31 final size:29
Alignment explanation
Indices: 70944--71002 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
70934 TAATTTTGAC
**
70944 AAAAATAAAGTTTAGGTACTAAAATATAAT
1 AAAAATAAAGTTTAGACACT-AAATATAAT
*
70974 AAAAGTAATAGTTTAGACACTAAATATAA
1 AAAAATAA-AGTTTAGACACTAAATATAA
71003 ATTTACCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (29 bp):
AAAAATAAAGTTTAGACACTAAATATAAT
Found at i:72137 original size:31 final size:30
Alignment explanation
Indices: 72091--72177 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 30
72081 TTCGATAATA
*
72091 TAATAATTATTTTATAGTA-TTTAGATAAATT
1 TAATAA-TATTTTATAATATTTTA-ATAAATT
*
72122 TATTAATAATTTTATAATATTTTAATAAATT
1 TAATAAT-ATTTTATAATATTTTAATAAATT
*
72153 TAATAACTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATATTTTAA
72178 ACTTTATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.02
31 43 0.88
32 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATATTTTAATAAATT
Found at i:72138 original size:20 final size:20
Alignment explanation
Indices: 72115--72178 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
72105 TAGTATTTAG
72115 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
*
72135 AT-AATATTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
72155 ATAACTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
72174 TTAAA
1 ATAAA
72179 CTTTATTGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 16 0.44
20 13 0.36
21 7 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:78391 original size:2 final size:2
Alignment explanation
Indices: 78384--78414 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78374 TAGATTATTA
78384 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78415 AAAGATCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:82666 original size:22 final size:22
Alignment explanation
Indices: 82638--82696 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
82628 CTAAATCTCA
*
82638 TCTCTCTTGATACATGAACTTG
1 TCTCTCTTGATACATGAACTCG
82660 TCTCTCTTGATACATGAACTCG
1 TCTCTCTTGATACATGAACTCG
* *
82682 TCTCCCTTGAGACAT
1 TCTCTCTTGATACAT
82697 AAACACCGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTCTCTTGATACATGAACTCG
Found at i:82768 original size:46 final size:44
Alignment explanation
Indices: 82665--82783 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 44
82655 ACTTGTCTCT
* *
82665 CTTGATACATGAACTCGTCTCCCTTGAGACATAAACACCGTACC
1 CTTGATACATAAACTCGTCTCCCTTAAGACATAAACACCGTACC
* * *
82709 CTTTGAAACATAAATCTCGTCTCCCTTAAGTCATAAACTCCAGCT-CC
1 C-TTGATACATAAA-CTCGTCTCCCTTAAGACATAAACACC-G-TACC
* *
82756 CTTGATATATAAACTCTGTCTCTCTTAA
1 CTTGATACATAAACTC-GTCTCCCTTAA
82784 TATATATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
44 1 0.02
45 13 0.21
46 43 0.69
47 4 0.06
48 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (44 bp):
CTTGATACATAAACTCGTCTCCCTTAAGACATAAACACCGTACC
Found at i:82807 original size:25 final size:25
Alignment explanation
Indices: 82759--82813 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
82749 CAGCTCCCTT
82759 GATATATAAACTCTGTCTCTCTTAA
1 GATATATAAACTCTGTCTCTCTTAA
*
82784 TATATATAAA-TCTCGTCT-TCCTTAA
1 GATATATAAACTCT-GTCTCT-CTTAA
82809 GATAT
1 GATAT
82814 TAATCTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (25 bp):
GATATATAAACTCTGTCTCTCTTAA
Done.