Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020590.1 Corchorus olitorius cultivar O-4 contig20623, 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: 60821
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:2115 original size:23 final size:23
Alignment explanation
Indices: 2087--2133 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
2077 TGCTTTCCTT
2087 ATTGGCTTCAGTTTCACATGAGA
1 ATTGGCTTCAGTTTCACATGAGA
2110 ATTGGCTTCAGTTTCACATGAGA
1 ATTGGCTTCAGTTTCACATGAGA
2133 A
1 A
2134 GTAGTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (23 bp):
ATTGGCTTCAGTTTCACATGAGA
Found at i:2353 original size:12 final size:13
Alignment explanation
Indices: 2336--2364 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2326 AATTATCAAT
2336 ATCTCTC-ACCCA
1 ATCTCTCAACCCA
2348 ATCTCTCAACCCA
1 ATCTCTCAACCCA
2361 ATCT
1 ATCT
2365 AACAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.28, C:0.45, G:0.00, T:0.28
Consensus pattern (13 bp):
ATCTCTCAACCCA
Found at i:2426 original size:29 final size:29
Alignment explanation
Indices: 2392--2473 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
2382 CAAACCCAAC
*
2392 AATCTTGAGCACTCTCACTCGGTCTCTAT
1 AATCTTGAGCACTCTCGCTCGGTCTCTAT
2421 AATCTTGAGCACTCTCGCTCGGTCTC--T
1 AATCTTGAGCACTCTCGCTCGGTCTCTAT
2448 -AT-TTGAGCACTCTCGCTCGGTCTCTA
1 AATCTTGAGCACTCTCGCTCGGTCTCTA
2474 CAAATCAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
25 22 0.44
26 2 0.04
27 1 0.02
29 25 0.50
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (29 bp):
AATCTTGAGCACTCTCGCTCGGTCTCTAT
Found at i:2453 original size:25 final size:26
Alignment explanation
Indices: 2393--2473 Score: 119
Period size: 25 Copynumber: 3.0 Consensus size: 26
2383 AAACCCAACA
*
2393 ATCTTGAGCACTCTCACTCGGTCTCTAT
1 ATCTTGAGCACTCTCGCTCGGTCTC--T
2421 AATCTTGAGCACTCTCGCTCGGTCTCT
1 -ATCTTGAGCACTCTCGCTCGGTCTCT
2448 AT-TTGAGCACTCTCGCTCGGTCTCT
1 ATCTTGAGCACTCTCGCTCGGTCTCT
2473 A
1 A
2474 CAAATCAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
25 24 0.47
26 2 0.04
27 1 0.02
29 24 0.47
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (26 bp):
ATCTTGAGCACTCTCGCTCGGTCTCT
Found at i:8351 original size:14 final size:14
Alignment explanation
Indices: 8332--8359 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8322 TATCTCAATA
8332 TTATCTTAAATTTG
1 TTATCTTAAATTTG
8346 TTATCTTAAATTTG
1 TTATCTTAAATTTG
8360 GGCACTCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATCTTAAATTTG
Found at i:10893 original size:46 final size:46
Alignment explanation
Indices: 10826--10917 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
10816 CTAGTCAGCA
10826 CAGAAAAAGGAAAGAGGAGATAATGGTCATATTGGGGCTTTCTTTG
1 CAGAAAAAGGAAAGAGGAGATAATGGTCATATTGGGGCTTTCTTTG
*
10872 CAGAAAAAGGAAAG-GAGAGATAATGGTCATGTTGGGGCTTTCTTTG
1 CAGAAAAAGGAAAGAG-GAGATAATGGTCATATTGGGGCTTTCTTTG
10918 AATTACTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
CAGAAAAAGGAAAGAGGAGATAATGGTCATATTGGGGCTTTCTTTG
Found at i:11501 original size:97 final size:98
Alignment explanation
Indices: 11335--11529 Score: 338
Period size: 97 Copynumber: 2.0 Consensus size: 98
11325 TTCTATACAC
* *
11335 ATAAAAACTGGCTCTTGTACCCGAGTCTATTTAAGACATTCCAGTGATAGAAAACTTGAGCATAG
1 ATAAAAACTGGCTCTTGTACCCGAGTCCATGTAAGACATTCCAGTGATAGAAAACTTGAGCATAG
*
11400 ATGTAC-TGTGTCATATTATTATTTATTACCTA
66 ATGTACTTGCGTCATATTATTATTTATTACCTA
*
11432 ATAAAAACTGGCTCTTGTACCCGAGTCCATGTAAGACATTCCATTGATAGAAAACTTGAGCATAG
1 ATAAAAACTGGCTCTTGTACCCGAGTCCATGTAAGACATTCCAGTGATAGAAAACTTGAGCATAG
11497 ATGTACTTTGCGTCATATTATTATTTATTACCT
66 ATGTAC-TTGCGTCATATTATTATTTATTACCT
11530 TCTAGTAGCC
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
97 68 0.74
99 24 0.26
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (98 bp):
ATAAAAACTGGCTCTTGTACCCGAGTCCATGTAAGACATTCCAGTGATAGAAAACTTGAGCATAG
ATGTACTTGCGTCATATTATTATTTATTACCTA
Found at i:19901 original size:36 final size:36
Alignment explanation
Indices: 19854--19922 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
19844 GATTTAGCTT
19854 GAATAAAATTAACTTATAAATACGAGAAAAAAACTC
1 GAATAAAATTAACTTATAAATACGAGAAAAAAACTC
*
19890 GAATAAAATTAACTTATAAATATGAGAAAAAAA
1 GAATAAAATTAACTTATAAATACGAGAAAAAAA
19923 AGGTTTACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (36 bp):
GAATAAAATTAACTTATAAATACGAGAAAAAAACTC
Found at i:19999 original size:48 final size:48
Alignment explanation
Indices: 19943--20035 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
19933 GTGGGATTGA
*
19943 GATGACTTAGTTCGAATAAAATTAACCTATAAATATGAAAAAAAAGGT
1 GATGACTTAGCTCGAATAAAATTAACCTATAAATATGAAAAAAAAGGT
19991 GATGACTTAGCTCGAATAAAATTAACCTATAAATATGAAAAAAAA
1 GATGACTTAGCTCGAATAAAATTAACCTATAAATATGAAAAAAAA
20036 AGGTTTGGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (48 bp):
GATGACTTAGCTCGAATAAAATTAACCTATAAATATGAAAAAAAAGGT
Found at i:21908 original size:25 final size:25
Alignment explanation
Indices: 21880--21932 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
21870 TAATGGAAAG
21880 AGACCTATATGAGTATAATTATAAA
1 AGACCTATATGAGTATAATTATAAA
21905 AGACCTATATGAGTATAATTATAAA
1 AGACCTATATGAGTATAATTATAAA
21930 AGA
1 AGA
21933 ATTATGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (25 bp):
AGACCTATATGAGTATAATTATAAA
Found at i:28079 original size:389 final size:392
Alignment explanation
Indices: 27322--28106 Score: 1506
Period size: 389 Copynumber: 2.0 Consensus size: 392
27312 CGCACGCCCC
*
27322 TCTCTTTGTCTCTCTACATAGTCGGCGATCCCTGGCTCTCCTCCTCCTAGTCTCTCAGCAAGGTG
1 TCTCTTTGTCTCTCTACATAGTCGGCGATCCCCGGCTCTCCTCCTCCTAGTCTCTCAGCAAGGTG
27387 TCCGCCTCACTCAAAGGTCCACACCAACTCACCCTCTTGACGCTTGAAGCAGGACATGATAGCAG
66 TCCGCCTCACTCAAAGGTCCACACCAACTCACCCTCTTGACGCTTGAAGCAGGACATGATAGCAG
27452 ATCTCTCCTCCTATCACGCCTCCAGGGTATAATTTCTTTACTTTTTTTTTCATTTATTTACTTTA
131 ATCTCTCCTCCTATCACGCCTCCAGGGTATAATTTCTTTACTTTTTTTTTCATTTATTTACTTTA
27517 AGTTTTTTTTTCCTACACAACACAGCTATGCCACCTAAGAATGGAGATAAGAGGCCTCAAGACTC
196 AGTTTTTTTTTCCTACACAACACAGCTATGCCACCTAAGAATGGAGATAAGAGGCCTCAAGACTC
*
27582 CTCAAGCCAAAGCCCACATGGCTCTACTGGCAAGGAGGAAGATGACTCTCCTTCTAAGCAGACAG
261 CTCAAGCCAAAGCCCACATGGCTCTACTGGCAAGGAGGAAGATGACTCTCCTCCTAAGCAGACAG
27647 ATGCTAAGATGTGGCGAGCTCTCGAAGCCATTGCTCAATCTCTTGAAAGGTTAAACACCTCTCAA
326 ATGCTAAGATGTGGCGAGCTCTCGAAGCCATTGCTCAATCTCTTGAAAGGTTAAACACCTCTCAA
27712 GA
391 GA
27714 TCTCTTTGTCTCTCTACATAGTCGGCGATCCCCGGCTCTCCTCCTCCTAGTCTCTCAGCAAGGTG
1 TCTCTTTGTCTCTCTACATAGTCGGCGATCCCCGGCTCTCCTCCTCCTAGTCTCTCAGCAAGGTG
27779 TCCGCCTCACTCAAAGGTCCACACCAACTCACCCTCTTGACGCTTGAAGCAGGACATGATAGCAG
66 TCCGCCTCACTCAAAGGTCCACACCAACTCACCCTCTTGACGCTTGAAGCAGGACATGATAGCAG
*
27844 ATCTCTCCTCCTATCACGCCTCCAGGGTATAATTTCTTTAC-TTTTTTTT-GTTTATTTACTTTA
131 ATCTCTCCTCCTATCACGCCTCCAGGGTATAATTTCTTTACTTTTTTTTTCATTTATTTACTTTA
27907 AGTTTTTTTTT-CTACACAACACAGCTATGCCACCTAAGAATGGAGATAAGAGGCCTCAAGACTC
196 AGTTTTTTTTTCCTACACAACACAGCTATGCCACCTAAGAATGGAGATAAGAGGCCTCAAGACTC
27971 CTCAAGCCAAAGCCCACATGGCTCTACTGGCAAGGAGGAAG-TGGACTCTCCTCCTAAGCAGACA
261 CTCAAGCCAAAGCCCACATGGCTCTACTGGCAAGGAGGAAGAT-GACTCTCCTCCTAAGCAGACA
28035 GATGCTAAGATGTGGCGAGCTCTCGAAGCCATTGCTCAATCTCTTGAAAGGTTAAACACCTCTCA
325 GATGCTAAGATGTGGCGAGCTCTCGAAGCCATTGCTCAATCTCTTGAAAGGTTAAACACCTCTCA
28100 AGA
390 AGA
28103 TCTC
1 TCTC
28107 ATAGTGCAAC
Statistics
Matches: 389, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
388 1 0.00
389 186 0.48
390 24 0.06
391 8 0.02
392 170 0.44
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (392 bp):
TCTCTTTGTCTCTCTACATAGTCGGCGATCCCCGGCTCTCCTCCTCCTAGTCTCTCAGCAAGGTG
TCCGCCTCACTCAAAGGTCCACACCAACTCACCCTCTTGACGCTTGAAGCAGGACATGATAGCAG
ATCTCTCCTCCTATCACGCCTCCAGGGTATAATTTCTTTACTTTTTTTTTCATTTATTTACTTTA
AGTTTTTTTTTCCTACACAACACAGCTATGCCACCTAAGAATGGAGATAAGAGGCCTCAAGACTC
CTCAAGCCAAAGCCCACATGGCTCTACTGGCAAGGAGGAAGATGACTCTCCTCCTAAGCAGACAG
ATGCTAAGATGTGGCGAGCTCTCGAAGCCATTGCTCAATCTCTTGAAAGGTTAAACACCTCTCAA
GA
Found at i:31341 original size:23 final size:23
Alignment explanation
Indices: 31315--31366 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
31305 AGTAGTGTTG
31315 CTCCCTGACATCTATTTTCCCCT
1 CTCCCTGACATCTATTTTCCCCT
31338 CTCCCTGACATCTATTTTCCCCT
1 CTCCCTGACATCTATTTTCCCCT
31361 CTCCCT
1 CTCCCT
31367 CGTAGTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.12, C:0.46, G:0.04, T:0.38
Consensus pattern (23 bp):
CTCCCTGACATCTATTTTCCCCT
Found at i:31771 original size:52 final size:51
Alignment explanation
Indices: 31669--31771 Score: 113
Period size: 52 Copynumber: 2.0 Consensus size: 51
31659 GTTCTTCATA
* **
31669 TTTTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCTTTTAGTGTT
1 TTTTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGTT
*
31720 TTTTCTCTTGTTTCA-ATCTTGTCTCCGGACATAA-AAACACT-GTACACGTGTT
1 TTTTC-CTTGTTT-AGATCTTGTCTCAGGACA-AACAAACACTCGTACA-GTGTT
31772 CTTCATTCAG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
51 7 0.16
52 34 0.77
53 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (51 bp):
TTTTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGTT
Found at i:32375 original size:13 final size:13
Alignment explanation
Indices: 32352--32406 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
32342 AAAAAAATGG
*
32352 TGACTAGGCCTGA
1 TGACTTGGCCTGA
* *
32365 TGACTTAGCCTGC
1 TGACTTGGCCTGA
32378 TGA-TATGGCCTGA
1 TGACT-TGGCCTGA
*
32391 TGACATGGCCTGA
1 TGACTTGGCCTGA
32404 TGA
1 TGA
32407 TGTGGCCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 1 0.03
13 33 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (13 bp):
TGACTTGGCCTGA
Found at i:32394 original size:26 final size:26
Alignment explanation
Indices: 32358--32413 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
32348 ATGGTGACTA
* *
32358 GGCCTGATGACTTAGCCTGCTGATAT
1 GGCCTGATGACATAGCCTGATGATAT
* *
32384 GGCCTGATGACATGGCCTGATGATGT
1 GGCCTGATGACATAGCCTGATGATAT
32410 GGCC
1 GGCC
32414 AAAATAGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (26 bp):
GGCCTGATGACATAGCCTGATGATAT
Found at i:32412 original size:13 final size:13
Alignment explanation
Indices: 32358--32413 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
32348 ATGGTGACTA
32358 GGCCTGATGACT-T
1 GGCCTGATGA-TAT
* *
32371 AGCCTGCTGATAT
1 GGCCTGATGATAT
*
32384 GGCCTGATGACAT
1 GGCCTGATGATAT
*
32397 GGCCTGATGATGT
1 GGCCTGATGATAT
32410 GGCC
1 GGCC
32414 AAAATAGATG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
12 1 0.03
13 34 0.97
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (13 bp):
GGCCTGATGATAT
Found at i:32517 original size:31 final size:30
Alignment explanation
Indices: 32479--32558 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 30
32469 CTGCAATTGG
32479 AGTTCAGGGGCTTATTTGGCCGTTTTGTGTA
1 AGTTCAGGGGCTT-TTTGGCCGTTTTGTGTA
32510 AGTTCAGGGGCCTTTTTGGCCGTTTTGTGTA
1 AGTTCAGGGG-CTTTTTGGCCGTTTTGTGTA
32541 AGTTCAGGGGCCTTTTTG
1 AGTTCAGGGG-CTTTTTG
32559 AGCAATAAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 45 0.94
32 3 0.06
ACGTcount: A:0.11, C:0.15, G:0.33, T:0.41
Consensus pattern (30 bp):
AGTTCAGGGGCTTTTTGGCCGTTTTGTGTA
Found at i:32866 original size:39 final size:39
Alignment explanation
Indices: 32823--32903 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
32813 TTTATATACT
* * *
32823 TGATCAACATACACGTCTTTTCATATAGACATAAATTTA
1 TGATCAACACACACGTCTTTACATATAAACATAAATTTA
* * * *
32862 TGATCAATACATATGTCTTTACATATAAACATAACTTTA
1 TGATCAACACACACGTCTTTACATATAAACATAAATTTA
32901 TGA
1 TGA
32904 ATAATTATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (39 bp):
TGATCAACACACACGTCTTTACATATAAACATAAATTTA
Found at i:41776 original size:28 final size:28
Alignment explanation
Indices: 41736--41793 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
41726 GGCTATTTGC
41736 TTAATTTAGGAAATAATTAACCAAAATA
1 TTAATTTAGGAAATAATTAACCAAAATA
41764 TTAATTTAGGAAATAATTAACCAAAATA
1 TTAATTTAGGAAATAATTAACCAAAATA
41792 TT
1 TT
41794 TTGTTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (28 bp):
TTAATTTAGGAAATAATTAACCAAAATA
Found at i:41782 original size:16 final size:16
Alignment explanation
Indices: 41736--41783 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
41726 GGCTATTTGC
41736 TTAATTTAGGAAATAA
1 TTAATTTAGGAAATAA
**
41752 TTAA-CCA--AAAT-A
1 TTAATTTAGGAAATAA
41764 TTAATTTAGGAAATAA
1 TTAATTTAGGAAATAA
41780 TTAA
1 TTAA
41784 CCAAAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
12 5 0.21
13 5 0.21
15 5 0.21
16 9 0.38
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (16 bp):
TTAATTTAGGAAATAA
Found at i:45090 original size:25 final size:26
Alignment explanation
Indices: 45056--45105 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
45046 TTGTAGATAA
45056 TTAAAGAATATAATGAAT-ATTATAT
1 TTAAAGAATATAATGAATAATTATAT
* *
45081 TTAAAGAATATGATGGATAATTATA
1 TTAAAGAATATAATGAATAATTATA
45106 AACTGATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (26 bp):
TTAAAGAATATAATGAATAATTATAT
Found at i:47176 original size:14 final size:14
Alignment explanation
Indices: 47157--47185 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47147 GTGTGCAGCA
47157 TAACAAAATTTAAG
1 TAACAAAATTTAAG
47171 TAACAAAATTTAAG
1 TAACAAAATTTAAG
47185 T
1 T
47186 GATTGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (14 bp):
TAACAAAATTTAAG
Found at i:54320 original size:13 final size:13
Alignment explanation
Indices: 54298--54335 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
54288 CCTATTATCC
54298 TATTATTATATT-A
1 TATTA-TATATTAA
54311 TATTACTATATTAA
1 TATTA-TATATTAA
54325 TATTATATATT
1 TATTATATATT
54336 TTAATCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATATATTAA
Done.