Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012140.1 Corchorus capsularis cultivar CVL-1 contig12161, 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: 100765
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:75 original size:33 final size:33
Alignment explanation
Indices: 24--111 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
14 GCCATGGTGA
* * *
24 AGCCGCCCCAGTGGGGAGGCTCCGCCGTGGTTG
1 AGCCTCCCTAGTGGGGAGGCTCCGCCGTGGCTG
57 AGCCTCCCTAGTGGGGAGGCTCCGCCGTGGCTG
1 AGCCTCCCTAGTGGGGAGGCTCCGCCGTGGCTG
90 AGCCGT-CCTAGTGGGGAGGCTC
1 AGCC-TCCCTAGTGGGGAGGCTC
112 AGTGTAAAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
33 50 0.98
34 1 0.02
ACGTcount: A:0.10, C:0.32, G:0.41, T:0.17
Consensus pattern (33 bp):
AGCCTCCCTAGTGGGGAGGCTCCGCCGTGGCTG
Found at i:86 original size:16 final size:16
Alignment explanation
Indices: 34--86 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
24 AGCCGCCCCA
34 GTGGGGAGGCTCCGCC
1 GTGGGGAGGCTCCGCC
* * *
50 GTGGTTGAGCCTCC-CTA
1 GTGG-GGAGGCTCCGC-C
67 GTGGGGAGGCTCCGCC
1 GTGGGGAGGCTCCGCC
83 GTGG
1 GTGG
87 CTGAGCCGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.08, C:0.28, G:0.45, T:0.19
Consensus pattern (16 bp):
GTGGGGAGGCTCCGCC
Found at i:146 original size:14 final size:15
Alignment explanation
Indices: 117--158 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
107 GGCTCAGTGT
*
117 AAAAGTGTAAAAAGGGT
1 AAAAGTGT--AAAGGGC
134 AAAAG-GTAAAGGGC
1 AAAAGTGTAAAGGGC
148 AAAAGTGTAAA
1 AAAAGTGTAAA
159 AAGTGGGACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 11 0.48
15 5 0.22
16 2 0.09
17 5 0.22
ACGTcount: A:0.55, C:0.02, G:0.29, T:0.14
Consensus pattern (15 bp):
AAAAGTGTAAAGGGC
Found at i:2333 original size:11 final size:11
Alignment explanation
Indices: 2317--2346 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2307 ATTTATTCAT
*
2317 TATTAATTAAC
1 TATTAATTAAA
2328 TATTAATTAAA
1 TATTAATTAAA
2339 TATTAATT
1 TATTAATT
2347 CAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTAATTAAA
Found at i:9921 original size:45 final size:45
Alignment explanation
Indices: 9850--9936 Score: 149
Period size: 45 Copynumber: 1.9 Consensus size: 45
9840 GATTACTTCT
9850 CCAGCTCATCATTAATCCGGGATAGGGATCTTTTAGTAATTCTAC
1 CCAGCTCATCATTAATCCGGGATAGGGATCTTTTAGTAATTCTAC
*
9895 CCAGCTCATCATTAAT-CTGGAGTAGGGATCTTTTAGTAATTC
1 CCAGCTCATCATTAATCCGGGA-TAGGGATCTTTTAGTAATTC
9937 CACTACTCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 4 0.10
45 36 0.90
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (45 bp):
CCAGCTCATCATTAATCCGGGATAGGGATCTTTTAGTAATTCTAC
Found at i:10354 original size:27 final size:27
Alignment explanation
Indices: 10316--10373 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
10306 TAGAACATAA
10316 TTTTTAAGTTCAGATGACTACAGAGAC
1 TTTTTAAGTTCAGATGACTACAGAGAC
10343 TTTTTAAGTTCAGATGACTACAGAGAC
1 TTTTTAAGTTCAGATGACTACAGAGAC
10370 TTTT
1 TTTT
10374 AGTTTGGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
TTTTTAAGTTCAGATGACTACAGAGAC
Found at i:11556 original size:45 final size:45
Alignment explanation
Indices: 11505--11594 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
11495 GATTAGTTCT
11505 CCAGCTCATCATTAATCCGGGGTAGGGATCTTTTAGTAATTCCAC
1 CCAGCTCATCATTAATCCGGGGTAGGGATCTTTTAGTAATTCCAC
*
11550 CCAGCTCATCATTAATCTGGGGTAGGGATCTTTTAGTAATTCCAC
1 CCAGCTCATCATTAATCCGGGGTAGGGATCTTTTAGTAATTCCAC
11595 TACTCTATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
CCAGCTCATCATTAATCCGGGGTAGGGATCTTTTAGTAATTCCAC
Found at i:18047 original size:33 final size:33
Alignment explanation
Indices: 18000--18063 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
17990 AGTACCTTGA
18000 ATATTAGTGACACCTGAAGTTGTCACATCAAGC
1 ATATTAGTGACACCTGAAGTTGTCACATCAAGC
*
18033 ATATTAGTGGCACCTGAAGTTGTCACATCAA
1 ATATTAGTGACACCTGAAGTTGTCACATCAA
18064 AAATATAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (33 bp):
ATATTAGTGACACCTGAAGTTGTCACATCAAGC
Found at i:18110 original size:29 final size:29
Alignment explanation
Indices: 18068--18128 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
18058 CATCAAAAAT
18068 ATAGTATCACTTTGACACCCGAAATTGTC
1 ATAGTATCACTTTGACACCCGAAATTGTC
* *
18097 ATAGTATCATTTTGACACCCGAAGTTGTC
1 ATAGTATCACTTTGACACCCGAAATTGTC
18126 ATA
1 ATA
18129 TTAAGGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (29 bp):
ATAGTATCACTTTGACACCCGAAATTGTC
Found at i:23731 original size:166 final size:164
Alignment explanation
Indices: 23543--23989 Score: 538
Period size: 166 Copynumber: 2.7 Consensus size: 164
23533 GATTACTGAG
* * * * *
23543 GAGCGAGAGAACTAATTTTTTTCGTCTTTTCCCACTTGGCCGATTACTTAAATGCCCTAATTTTT
1 GAGCTAGAGAACTAATTTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTT
* * * * *
23608 TATTCTTGAGGTGATTAAATAACTAGACTTTTTGGTCATTTCTCAATTGATTTTAATAGAGTAGT
66 GATTCTTGAGGAGATTAAATAACTA-ACTTTTTGGTCATTTCTCAATTGACTTGAATAGAGTAAT
* * **
23673 GGAATTACTAAAAGATCTCTACCAA-AACTTGCTTTT
130 GGAATTAATAAAAGATCTC-ACCAAGAA-TTGATGAT
* * * *
23709 GGAGTTAGAGAACT-TTTTTTTTCGTCTTTTCCTATTTGACAGATTACTTAAATGTCCTAACTTT
1 -GAGCTAGAGAACTAATTTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTT
* * * * * *
23773 TGATTCTTGAGGGGATTAAATAAGTAATCTTTTTTGTCATTTCTTAATGGGCTTGAATAGAGTAA
65 TGATTCTTGAGGAGATTAAATAACTAA-CTTTTTGGTCATTTCTCAATTGACTTGAATAGAGTAA
* *
23838 TGGAATTAATAAAAGATCTCATCAAGGATTGATGAT
129 TGGAATTAATAAAAGATCTCACCAAGAATTGATGAT
* * * *
23874 GAGCTAGAAAACTAATCTTTTTCGTCTTTACCTACTTGGCAGATTACTTAAATGTCCTAACTTAT
1 GAGCTAGAGAACTAATTTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTT
* *
23939 GATTCTTAACGAGATTAAATAACTAAACTTTTTGGTCATTTCTCAATTGAC
66 GATTCTTGAGGAGATTAAATAACT-AACTTTTTGGTCATTTCTCAATTGAC
23990 AAATGACTCA
Statistics
Matches: 235, Mismatches: 41, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
164 11 0.05
165 95 0.40
166 118 0.50
167 11 0.05
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (164 bp):
GAGCTAGAGAACTAATTTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTT
GATTCTTGAGGAGATTAAATAACTAACTTTTTGGTCATTTCTCAATTGACTTGAATAGAGTAATG
GAATTAATAAAAGATCTCACCAAGAATTGATGAT
Found at i:29709 original size:21 final size:21
Alignment explanation
Indices: 29685--29733 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
29675 TCTCACTAAA
*
29685 TCTGATTTGAAT-TTGAAAACC
1 TCTGATTTAAATCTTGAAAA-C
29706 TCTGA-TTAAATCTTGAAAAC
1 TCTGATTTAAATCTTGAAAAC
29726 TCTTGATT
1 TC-TGATT
29734 ACCCATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTGATTTAAATCTTGAAAAC
Found at i:31840 original size:16 final size:16
Alignment explanation
Indices: 31791--31840 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
31781 GGCCATTAAT
31791 ATAACTAATATGATTA
1 ATAACTAATATGATTA
*
31807 ACAACTAATATGATTA
1 ATAACTAATATGATTA
31823 ATAACTAATATGATTA
1 ATAACTAATATGATTA
31839 AT
1 AT
31841 GGGAAAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (16 bp):
ATAACTAATATGATTA
Found at i:36963 original size:5 final size:5
Alignment explanation
Indices: 36949--36983 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
36939 CTTTTGTTAA
36949 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
36984 ACAAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:37471 original size:155 final size:154
Alignment explanation
Indices: 37288--37647 Score: 399
Period size: 155 Copynumber: 2.3 Consensus size: 154
37278 CTTCACAACT
37288 CAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATGCTAAGTCTAAATG-AGCTGAAACT
1 CAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCAT-CTAAGTCTAAATGAAGCTG--A-T
* * * *
37352 TTGCCA-AG-GGACTTAGATTCTCTCCATAAAACTATGGGAAAAATTCTAAGTAAAACCGAGCTC
62 TTGCCACAGAGG-CTTAGATTATCTCCATAAAACTATGGGAAAAAATCCAAGTAAAACCGAACT-
* * *
37415 CCCT-TAATGGTGAACTAGGTTTCTCTCCC
125 CCCTATAATAGAGAACTAGGTTTCTCACCC
* * * * * *
37444 C-GAGTGTCCTTAAATGAAAAACTAGCATAAGTTTTTTATCCTAAGTC-CAATGAAGTTGATTTT
1 CAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCAT-CTAAGTCTAAATGAAGCTGATTTG
* *
37507 CCACCAGTAGGCTTAGATTATCTCCATAAAGCTATGGGAAAAAATCCAAGTAAAACCGAACTCTC
65 CCA-CAG-AGGCTTAGATTATCTCCATAAAACTATGGGAAAAAATCCAAGTAAAACCGAACTCCC
* * * *
37572 TATCATAGAGAAGTTGGTTTGTCACCC
128 TATAATAGAGAACTAGGTTTCTCACCC
* *
37599 CAAACTGTCCTTAACTGAAAAACAAGCATAAGTTTTTCATCTTAAGTCT
1 CAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATC-TAAGTCT
37648 GTTTGAGATG
Statistics
Matches: 170, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
152 6 0.04
153 1 0.01
154 9 0.05
155 112 0.66
156 42 0.25
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (154 bp):
CAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATCTAAGTCTAAATGAAGCTGATTTGC
CACAGAGGCTTAGATTATCTCCATAAAACTATGGGAAAAAATCCAAGTAAAACCGAACTCCCTAT
AATAGAGAACTAGGTTTCTCACCC
Found at i:39324 original size:1 final size:1
Alignment explanation
Indices: 39318--39355 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
39308 GTTAATTACT
*
39318 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
39356 CTTAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:42283 original size:6 final size:6
Alignment explanation
Indices: 42272--42302 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
42262 TAAAGATATG
42272 CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT C
1 CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT C
42303 CACCACCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (6 bp):
CAGGCT
Found at i:48035 original size:21 final size:21
Alignment explanation
Indices: 48009--48058 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
47999 CATAAATTAA
48009 ATAAATGATTCCAAAA-AAGCC
1 ATAAATGATT-CAAAATAAGCC
* *
48030 ATAAATTATTCAAAATAAGCG
1 ATAAATGATTCAAAATAAGCC
*
48051 ATCAATGA
1 ATAAATGA
48059 AGGATACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (21 bp):
ATAAATGATTCAAAATAAGCC
Found at i:74393 original size:1 final size:1
Alignment explanation
Indices: 74387--74422 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
74377 GCTTTGTAGG
74387 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
74423 AGTGACTCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:87586 original size:31 final size:31
Alignment explanation
Indices: 87532--87609 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
87522 TAAATTGACT
** *
87532 TTAGGGACTAATTTGAGCCGATTTCACAACG
1 TTAGGGACTAATTAAAGCCGATTTCACAACA
* **
87563 TTAGGGACTAATTAAAGCTGATTTTGCAACA
1 TTAGGGACTAATTAAAGCCGATTTCACAACA
*
87594 TTATGGACTTAATTAA
1 TTAGGGAC-TAATTAA
87610 CCAAATTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (31 bp):
TTAGGGACTAATTAAAGCCGATTTCACAACA
Found at i:91968 original size:27 final size:27
Alignment explanation
Indices: 91918--91970 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
91908 TTGTCGACCC
* *
91918 CGACCTCCTCACTTGGGTTATCAATTG
1 CGACCTCCTCAATTGAGTTATCAATTG
91945 CGACCTCCTCAAATTGAGTT-TCAATT
1 CGACCTCCTC-AATTGAGTTATCAATT
91971 TGGGGTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (27 bp):
CGACCTCCTCAATTGAGTTATCAATTG
Found at i:93522 original size:36 final size:35
Alignment explanation
Indices: 93458--93527 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
93448 TCTTCGTCAT
* *
93458 CACCCTAACTTGGGTGATCAAAATTTCCAACAACAA
1 CACCCTAACTGGGGTGACCAAAATTTCCAA-AACAA
*
93494 CACCCTAACATGGGGTGGCCAAAA-TTCCAAAACA
1 CACCCTAAC-TGGGGTGACCAAAATTTCCAAAACA
93528 TGTCACCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 4 0.13
36 15 0.50
37 11 0.37
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.19
Consensus pattern (35 bp):
CACCCTAACTGGGGTGACCAAAATTTCCAAAACAA
Found at i:94036 original size:51 final size:52
Alignment explanation
Indices: 93938--94037 Score: 141
Period size: 51 Copynumber: 1.9 Consensus size: 52
93928 TTGTTCGACA
* *
93938 ATTTCTTCTTTGATTGCAACTCTCTGTTTGGTTTTCTTCTTTGTGTTTCGATT
1 ATTTCTTCTTTGATTGCAAC-CTCTGTTTCGATTTCTTCTTTGTGTTTCGATT
*
93991 ATTTCTTCTTTGATTGGAA-CTCTGTTTCGATTTCTTCGTTT-TGTTTC
1 ATTTCTTCTTTGATTGCAACCTCTGTTTCGATTTCTTC-TTTGTGTTTC
94038 AGACATCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 22 0.51
52 3 0.07
53 18 0.42
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (52 bp):
ATTTCTTCTTTGATTGCAACCTCTGTTTCGATTTCTTCTTTGTGTTTCGATT
Found at i:94049 original size:53 final size:52
Alignment explanation
Indices: 93912--94051 Score: 133
Period size: 53 Copynumber: 2.6 Consensus size: 52
93902 TTTCTTCTTT
* *
93912 GATTACTTCTTTGTGTTTGTTCGACA-ATTTCTTCTTTGATTGCAACTCTCTGTTTG
1 GATTTCTTCTTTGTG--T-TTCGA-ATATTTCTTCTTTGATTGCAAC-CTCTGTTTC
* * *
93968 GTTTTCTTCTTTGTGTTTCGATTATTTCTTCTTTGATTGGAA-CTCTGTTTC
1 GATTTCTTCTTTGTGTTTCGAATATTTCTTCTTTGATTGCAACCTCTGTTTC
*
94019 GATTTCTTCGTTT-TGTTTCAGACATCTTTCTTC
1 GATTTCTTC-TTTGTGTTTC-GA-ATATTTCTTC
94052 AACTTCTCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
51 22 0.31
52 5 0.07
53 31 0.43
54 1 0.01
56 13 0.18
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (52 bp):
GATTTCTTCTTTGTGTTTCGAATATTTCTTCTTTGATTGCAACCTCTGTTTC
Found at i:98189 original size:13 final size:14
Alignment explanation
Indices: 98164--98198 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
98154 ACACAAAATG
98164 ATCATTCTGATTA-A
1 ATCATT-TGATTACA
98178 ATCATTTGATTACA
1 ATCATTTGATTACA
98192 ATCATTT
1 ATCATTT
98199 TGTTTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (14 bp):
ATCATTTGATTACA
Done.