Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007557.1 Corchorus capsularis cultivar CVL-1 contig07578, 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: 29370
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Found at i:252 original size:2 final size:2
Alignment explanation
Indices: 245--280 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
235 TAAAACATAC
245 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
281 GGCTTTAGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8483 original size:32 final size:31
Alignment explanation
Indices: 8418--8483 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
8408 ATAATAGTCA
*
8418 AAGGAGACAAAAAAAAATGACATGAAGCCCTC
1 AAGGAGACAAAAAAAAATGACATGAA-CACTC
*
8450 AAGGAGACAAAAAATGACATGACATGAA-ACTC
1 AAGGAGACAAAAAA--AAATGACATGAACACTC
8482 AA
1 AA
8484 AGCCTAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 19 0.63
34 11 0.37
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.11
Consensus pattern (31 bp):
AAGGAGACAAAAAAAAATGACATGAACACTC
Found at i:8495 original size:181 final size:179
Alignment explanation
Indices: 8193--8540 Score: 642
Period size: 181 Copynumber: 1.9 Consensus size: 179
8183 ACCATGAAAA
*
8193 AAAACATTCACCTCTCTAAACACTAAGCAACATCAAATAATAGTCAAAGGAGACGAAAAAATGAC
1 AAAACATTCACCTCTCTAAACACTAAGCAACATCAAATAATAGTCAAAGGAGACAAAAAAATGAC
8258 ATGAAGCCCTCAAGGAGACAAAAAATGACATGACATGAAACTCAAACCCTAAAGATGAAATAACA
66 ATGAAGCCCTCAAGGAGACAAAAAATGACATGACATGAAACTCAAACCCTAAAGATGAAATAACA
*
8323 AACCCTAAGTGAGATGAAGGCTAAACCCTAACCATGAAAAAAAACTCTC
131 AACCCTAAATGAGATGAAGGCTAAACCCTAACCATGAAAAAAAACTCTC
8372 AAAACATTCACCTCTCTAAACACTAAGCAACATCAAATAATAGTCAAAGGAGACAAAAAAAAATG
1 AAAACATTCACCTCTCTAAACACTAAGCAACATCAAATAATAGTCAAAGGAGAC--AAAAAAATG
* *
8437 ACATGAAGCCCTCAAGGAGACAAAAAATGACATGACATGAAACTCAAAGCCTAAAGATGAAATGA
64 ACATGAAGCCCTCAAGGAGACAAAAAATGACATGACATGAAACTCAAACCCTAAAGATGAAATAA
8502 CAAACCCTAAATGAGATGAAGGCTAAACCCTAACCATGA
129 CAAACCCTAAATGAGATGAAGGCTAAACCCTAACCATGA
8541 CATAAAAGTC
Statistics
Matches: 163, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
179 54 0.33
181 109 0.67
ACGTcount: A:0.49, C:0.21, G:0.14, T:0.16
Consensus pattern (179 bp):
AAAACATTCACCTCTCTAAACACTAAGCAACATCAAATAATAGTCAAAGGAGACAAAAAAATGAC
ATGAAGCCCTCAAGGAGACAAAAAATGACATGACATGAAACTCAAACCCTAAAGATGAAATAACA
AACCCTAAATGAGATGAAGGCTAAACCCTAACCATGAAAAAAAACTCTC
Found at i:10667 original size:27 final size:27
Alignment explanation
Indices: 10635--10703 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
10625 GTCCAAGGGT
10635 ATTTTGGTCATTTTTGCACCCAGGGGC
1 ATTTTGGTCATTTTTGCACCCAGGGGC
* *
10662 ATTTTGGTCATTTTTGTACTCAGGGGC
1 ATTTTGGTCATTTTTGCACCCAGGGGC
*
10689 ATTTTAGTCATTTTT
1 ATTTTGGTCATTTTT
10704 AGGTTCACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (27 bp):
ATTTTGGTCATTTTTGCACCCAGGGGC
Found at i:13560 original size:20 final size:20
Alignment explanation
Indices: 13535--13589 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
13525 AAATAGGATA
13535 TTTGGCTAAAAGATAT-AACC
1 TTTGGCTAAAAGAT-TCAACC
*
13555 TTTGGCTTAAAGATTCAACC
1 TTTGGCTAAAAGATTCAACC
*
13575 TTTGGATAAAAGATT
1 TTTGGCTAAAAGATT
13590 GAATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (20 bp):
TTTGGCTAAAAGATTCAACC
Found at i:13739 original size:50 final size:51
Alignment explanation
Indices: 13581--13820 Score: 220
Period size: 51 Copynumber: 4.7 Consensus size: 51
13571 AACCTTTGGA
* *
13581 TAAAAGATTGAATTTTTA-AGTAAATTGGTAAATAAAAATATCATTTTTGAG
1 TAAAAGATTGAATTTTTAGAGT-AATTAGTAAATAAAAATATCATCTTTGAG
* * * * * *
13632 TAAAAGGTTGAACTTTTAGAGTAATTAGTAAATAAAGATTTAATCTTTGAA
1 TAAAAGATTGAATTTTTAGAGTAATTAGTAAATAAAAATATCATCTTTGAG
* * * * * *
13683 TAAAAGATTGAATTTTTA-AGTAATTGGTAAGTAAAAATGTCATGTCTGGG
1 TAAAAGATTGAATTTTTAGAGTAATTAGTAAATAAAAATATCATCTTTGAG
* * ** * *
13733 TAAAAGATTGAATCTTTAGAGTGATTAGTAAATAAAGCTTTAACAT-TTT-AA
1 TAAAAGATTGAATTTTTAGAGTAATTAGTAAATAAA--AATATCATCTTTGAG
*
13784 TGAAAGATTGAACTTTTTA-AGTAATTAGTAAATAAAA
1 TAAAAGATTGAA-TTTTTAGAGTAATTAGTAAATAAAA
13821 TGTTACCTTT
Statistics
Matches: 150, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
50 40 0.27
51 96 0.64
52 10 0.07
53 4 0.03
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (51 bp):
TAAAAGATTGAATTTTTAGAGTAATTAGTAAATAAAAATATCATCTTTGAG
Found at i:13823 original size:101 final size:101
Alignment explanation
Indices: 13562--13820 Score: 342
Period size: 101 Copynumber: 2.5 Consensus size: 101
13552 ACCTTTGGCT
* * * * *
13562 TAAAGATTCAACCTTTGGATAAAAGATTGAATTTTTAAGTAAATTGGTAAATAAAAATATCATTT
1 TAAAGATTTAATCTTTGAATAAAAGATTGAATTTTTAAGT-AATTGGTAAATAAAAATGTCATGT
* *
13627 TTGAGTAAAAGGTTGAACTTTTAGAGTAATTAGTAAA
65 CTGAGTAAAAGATTGAACTTTTAGAGTAATTAGTAAA
*
13664 TAAAGATTTAATCTTTGAATAAAAGATTGAATTTTTAAGTAATTGGTAAGTAAAAATGTCATGTC
1 TAAAGATTTAATCTTTGAATAAAAGATTGAATTTTTAAGTAATTGGTAAATAAAAATGTCATGTC
* *
13729 TGGGTAAAAGATTGAA-TCTTTAGAGTGATTAGTAAA
66 TGAGTAAAAGATTGAACT-TTTAGAGTAATTAGTAAA
* * * *
13765 TAAAGCTTTAA-CATTTTAATGAAAGATTGAACTTTTTAAGTAATTAGTAAATAAAA
1 TAAAGATTTAATC-TTTGAATAAAAGATTGAA-TTTTTAAGTAATTGGTAAATAAAA
13821 TGTTACCTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
100 2 0.01
101 78 0.56
102 59 0.42
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.37
Consensus pattern (101 bp):
TAAAGATTTAATCTTTGAATAAAAGATTGAATTTTTAAGTAATTGGTAAATAAAAATGTCATGTC
TGAGTAAAAGATTGAACTTTTAGAGTAATTAGTAAA
Found at i:14574 original size:56 final size:56
Alignment explanation
Indices: 14495--14704 Score: 300
Period size: 56 Copynumber: 3.8 Consensus size: 56
14485 AAAAGAGCCA
* * * * * **
14495 AATC-AGAGTCAAGGTGATGGTAATCAGTCAATTAGTAAATCGGTAAAAAGAGATT
1 AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGATT
14550 AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGATT
1 AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGATT
*
14606 AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCGGTAATTAAGTAAAAAGAGATT
1 AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGATT
* *
14662 AATCAA-AGTTAAAGTAATAGTAATCAGTAAATC-GATAATTAAG
1 AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCAG-TAATTAAG
14705 AGTTAAAATG
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 1 0.01
55 37 0.26
56 105 0.73
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.26
Consensus pattern (56 bp):
AATCAAGAGTCAAGGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAAGAGATT
Found at i:14584 original size:30 final size:30
Alignment explanation
Indices: 14550--14639 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
14540 AAAAGAGATT
14550 AATCAAGAGTCAAGGTAATAGTAATCAGTA
1 AATCAAGAGTCAAGGTAATAGTAATCAGTA
* * * *
14580 AATC-AGTAATTAA-GTAA-A--AA-GAGATT
1 AATCAAG-AGTCAAGGTAATAGTAATCAG-TA
14606 AATCAAGAGTCAAGGTAATAGTAATCAGTA
1 AATCAAGAGTCAAGGTAATAGTAATCAGTA
14636 AATC
1 AATC
14640 GGTAATTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
25 2 0.05
26 11 0.25
27 6 0.14
28 2 0.05
29 6 0.14
30 15 0.34
31 2 0.05
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.24
Consensus pattern (30 bp):
AATCAAGAGTCAAGGTAATAGTAATCAGTA
Found at i:15053 original size:41 final size:42
Alignment explanation
Indices: 14930--15139 Score: 176
Period size: 43 Copynumber: 5.0 Consensus size: 42
14920 GTAATTAGTA
* *
14930 AAGAGTAAAATAGTAATCAGTAAAAAGTAAGAAGGTAATCGAC
1 AAGAGTAAAATAGTAATCAGTAAAAAGTAA-AAGGTAATCAAT
* *
14973 AAGAGTAAAATAGTAGTCGGTAAAAAGTAAATA-GTAATCAAT
1 AAGAGTAAAATAGTAATCAGTAAAAAGTAAA-AGGTAATCAAT
* * * *
15015 AAGAGTAAAA-AGTAATAAGTAAGAAGTAAAAGGAAATCAGT
1 AAGAGTAAAATAGTAATCAGTAAAAAGTAAAAGGTAATCAAT
* ** * **
15056 AAGAGTAAAA-AGGTGATCAGTAAAGGGTAAAATGCTAATCAGC
1 AAGAGTAAAATA-GTAATCAGTAAAAAGTAAAA-GGTAATCAAT
* * * *
15099 AAAACGCAAAA-GGTAATCAGTAAAAACTAAAAGAGTAATCA
1 AAGA-GTAAAATAGTAATCAGTAAAAAGTAAAAG-GTAATCA
15140 GTAAAAAAGG
Statistics
Matches: 135, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
40 1 0.01
41 34 0.25
42 34 0.25
43 61 0.45
44 5 0.04
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (42 bp):
AAGAGTAAAATAGTAATCAGTAAAAAGTAAAAGGTAATCAAT
Found at i:15065 original size:20 final size:20
Alignment explanation
Indices: 14998--15067 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
14988 GTCGGTAAAA
* * *
14998 AGTAAATAGTAATCAATAAG
1 AGTAAAAAGAAATCAGTAAG
* *
15018 AGTAAAAAGTAATAAGTAAG
1 AGTAAAAAGAAATCAGTAAG
*
15038 AAGTAAAAGGAAATCAGTAAG
1 -AGTAAAAAGAAATCAGTAAG
15059 AGTAAAAAG
1 AGTAAAAAG
15068 GTGATCAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.59, C:0.03, G:0.20, T:0.19
Consensus pattern (20 bp):
AGTAAAAAGAAATCAGTAAG
Found at i:15096 original size:22 final size:21
Alignment explanation
Indices: 14921--15097 Score: 87
Period size: 22 Copynumber: 8.3 Consensus size: 21
14911 GGTAGAATGG
*
14921 TAATTAGTAAAGAGTAAAATAG-
1 TAATCAGT-AAGAGTAAAA-AGC
* * *
14943 TAATCAGTAAAAAGTAAGAAGG
1 TAATCAGT-AAGAGTAAAAAGC
*
14965 TAATC-GACAAGAGTAAAATAG-
1 TAATCAG-TAAGAGTAAAA-AGC
* * * *
14986 TAGTCGGTAAAAAGTAAATAG-
1 TAATCAGT-AAGAGTAAAAAGC
*
15007 TAATCAATAAGAGTAAAAAG-
1 TAATCAGTAAGAGTAAAAAGC
* *
15027 TAATAAGTAAGAAGT-AAAAGG
1 TAATCAGTAAG-AGTAAAAAGC
* *
15048 AAATCAGTAAGAGTAAAAAGG
1 TAATCAGTAAGAGTAAAAAGC
* * *
15069 TGATCAGTAAAGGGTAAAATGC
1 TAATCAGT-AAGAGTAAAAAGC
15091 TAATCAG
1 TAATCAG
15098 CAAAACGCAA
Statistics
Matches: 121, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
20 27 0.22
21 46 0.38
22 48 0.40
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (21 bp):
TAATCAGTAAGAGTAAAAAGC
Found at i:15124 original size:22 final size:22
Alignment explanation
Indices: 15091--15146 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15081 GGTAAAATGC
*
15091 TAATCAG-CAAAACGCAAAAG-G
1 TAATCAGTAAAAAC-CAAAAGAG
*
15112 TAATCAGTAAAAACTAAAAGAG
1 TAATCAGTAAAAACCAAAAGAG
15134 TAATCAGTAAAAA
1 TAATCAGTAAAAA
15147 AGGAGCAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.16
Consensus pattern (22 bp):
TAATCAGTAAAAACCAAAAGAG
Found at i:15145 original size:21 final size:21
Alignment explanation
Indices: 14920--15145 Score: 128
Period size: 21 Copynumber: 10.6 Consensus size: 21
14910 GGGTAGAATG
* *
14920 GTAATTAGTAAAGAGTAAAATA
1 GTAATCAGTAAA-AGTAAAAGA
14942 GTAATCAGTAAAAAGTAAGAAG-
1 GTAATCAGT-AAAAGTAA-AAGA
*
14964 GTAATC-G-ACAAGAGTAAAATA
1 GTAATCAGTA-AA-AGTAAAAGA
* * *
14985 GTAGTCGGTAAAAAGT-AAATA
1 GTAATCAGT-AAAAGTAAAAGA
* *
15006 GTAATCAATAAGAGTAAAA-A
1 GTAATCAGTAAAAGTAAAAGA
*
15026 GTAATAAGTAAGAAGTAAAAG-
1 GTAATCAGTAA-AAGTAAAAGA
* *
15047 GAAATCAGTAAGAGTAAAA-A
1 GTAATCAGTAAAAGTAAAAGA
* *
15067 GGTGATCAGTAAAGGGTAAAATG-
1 -GTAATCAGTAAA-AGTAAAA-GA
* * *
15090 CTAATCAGCAAAACGCAAAAG-
1 GTAATCAGTAAAA-GTAAAAGA
*
15111 GTAATCAGTAAAAACTAAAAGA
1 GTAATCAGT-AAAAGTAAAAGA
15133 GTAATCAGTAAAA
1 GTAATCAGTAAAA
15146 AAGGAGCAGA
Statistics
Matches: 158, Mismatches: 27, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
19 1 0.01
20 26 0.16
21 67 0.42
22 56 0.35
23 7 0.04
24 1 0.01
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (21 bp):
GTAATCAGTAAAAGTAAAAGA
Found at i:15190 original size:21 final size:21
Alignment explanation
Indices: 15164--15206 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15154 GAAAATAGTA
* *
15164 ATCAGTAAAGAGTAAAGGGTG
1 ATCAGTAAACAGTAAAAGGTG
*
15185 ATCAGTAATCAGTAAAAGGTG
1 ATCAGTAAACAGTAAAAGGTG
15206 A
1 A
15207 GTAAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (21 bp):
ATCAGTAAACAGTAAAAGGTG
Found at i:19414 original size:50 final size:50
Alignment explanation
Indices: 19360--19459 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
19350 GTATGGGTAG
19360 TAATTTTATTAACTGCGAGGGTTCAGGTAGTACCCTTAGAGTACCCGATA
1 TAATTTTATTAACTGCGAGGGTTCAGGTAGTACCCTTAGAGTACCCGATA
*
19410 TAATTTTATTAACTGCGAGGGTTCGGGTAGTACCCTTAGAGTACCCGATA
1 TAATTTTATTAACTGCGAGGGTTCAGGTAGTACCCTTAGAGTACCCGATA
19460 CCCGATTATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (50 bp):
TAATTTTATTAACTGCGAGGGTTCAGGTAGTACCCTTAGAGTACCCGATA
Found at i:22264 original size:57 final size:57
Alignment explanation
Indices: 22195--22308 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
22185 ACGATGTTTG
*
22195 CAGTTGATTGCTAAAATTTGATTGGAACATGATATAGTAGGTGTGGCCTATTTTAAA
1 CAGTTGATTGCTAAAATTTGATTGAAACATGATATAGTAGGTGTGGCCTATTTTAAA
*
22252 CAGTTGATTGCTAAATTTTGATTGAAACATGATATAGTAGGTGTGGCCTATTTTAAA
1 CAGTTGATTGCTAAAATTTGATTGAAACATGATATAGTAGGTGTGGCCTATTTTAAA
22309 ATTTCTCTCG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (57 bp):
CAGTTGATTGCTAAAATTTGATTGAAACATGATATAGTAGGTGTGGCCTATTTTAAA
Found at i:25557 original size:51 final size:51
Alignment explanation
Indices: 25495--25592 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
25485 GGACCATGAA
* * **
25495 AAATTACTAATTTAGAGAGGTTATTAATTTATGGAGTGTTAATTTATATGG
1 AAATTACTAATTTAGAGAGGTTAATAATTTATCGAGCATTAATTTATATGG
* ** *
25546 AAATTATTAATTTATCGAGTTTAATAATTTATCGAGCATTAATTTAT
1 AAATTACTAATTTAGAGAGGTTAATAATTTATCGAGCATTAATTTAT
25593 GGAGGTTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (51 bp):
AAATTACTAATTTAGAGAGGTTAATAATTTATCGAGCATTAATTTATATGG
Found at i:25590 original size:15 final size:16
Alignment explanation
Indices: 25551--25592 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
25541 TATGGAAATT
*
25551 ATTAATTTATCGAGTTT
1 ATTAATTTATCGAG-TC
*
25568 AATAATTTATCGAG-C
1 ATTAATTTATCGAGTC
25583 ATTAATTTAT
1 ATTAATTTAT
25593 GGAGGTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
17 13 0.59
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (16 bp):
ATTAATTTATCGAGTC
Found at i:27103 original size:22 final size:22
Alignment explanation
Indices: 27065--27106 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27055 GAATTCTGAT
*
27065 TCGACCTCCTTTGAGGTTGAGC
1 TCGACCTCCTATGAGGTTGAGC
27087 TCGACCTCC-ATGAAGGTTGA
1 TCGACCTCCTATG-AGGTTGA
27107 AACAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (22 bp):
TCGACCTCCTATGAGGTTGAGC
Done.