Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009033.1 Hibiscus syriacus cultivar Beakdansim tig00112434_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: 110163
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:261 original size:16 final size:16
Alignment explanation
Indices: 229--268 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
219 AAATTATCTT
229 AGTTCCTTCACTTCATC
1 AGTTCC-TCACTTCATC
* *
246 GGTTCCTCATTTCATC
1 AGTTCCTCACTTCATC
262 AGTTCCT
1 AGTTCCT
269 TCATGAGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.15, C:0.33, G:0.10, T:0.42
Consensus pattern (16 bp):
AGTTCCTCACTTCATC
Found at i:8870 original size:22 final size:22
Alignment explanation
Indices: 8835--8879 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
8825 CATAATTATT
8835 TAAAAAATTAAAT-AAAAATAA
1 TAAAAAATTAAATAAAAAATAA
*
8856 TAAAAATATTTAATAAAAAATAA
1 TAAAAA-ATTAAATAAAAAATAA
8879 T
1 T
8880 TTTTTATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAATTAAATAAAAAATAA
Found at i:10275 original size:20 final size:21
Alignment explanation
Indices: 10252--10294 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10242 ATATATTTTA
*
10252 TATATTATTT-TAAATATAAT
1 TATAATATTTATAAATATAAT
10272 TATAATATTTGATAAATATAAT
1 TATAATATTT-ATAAATATAAT
10294 T
1 T
10295 TTTTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATAATATTTATAAATATAAT
Found at i:21250 original size:21 final size:21
Alignment explanation
Indices: 21226--21265 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21216 ACCGGTTTTG
*
21226 CCGGTTTTCAGCCGGTTCACC
1 CCGGTTTTCAACCGGTTCACC
21247 CCGGTTTTCAACCGGTTCA
1 CCGGTTTTCAACCGGTTCA
21266 TTGTTTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.35, G:0.23, T:0.30
Consensus pattern (21 bp):
CCGGTTTTCAACCGGTTCACC
Found at i:25674 original size:20 final size:20
Alignment explanation
Indices: 25646--25690 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25636 ATTTAATTTC
*
25646 TAAAGTTATAAAATTATTAT
1 TAAATTTATAAAATTATTAT
**
25666 TAAATTTATTGAATTATTAT
1 TAAATTTATAAAATTATTAT
*
25686 AAAAT
1 TAAAT
25691 AATTATTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TAAATTTATAAAATTATTAT
Found at i:27310 original size:65 final size:65
Alignment explanation
Indices: 27240--27387 Score: 160
Period size: 65 Copynumber: 2.3 Consensus size: 65
27230 TACACTAGGG
* * *
27240 GTGCATCGGTACACT-AATTATATTCGATGT-TTAAAAAGAGCCAGGAGTGCATCGATGCATGGT
1 GTGCATCGGTACACTAAAATATATTCGATGTATCAAAAA-AGCCAAGAGTGCATCGATGCATGGT
27303 CT
65 -T
* * * ** *
27305 GTGCATCGGTATA-TAAAATGTATTCGATGTATCAATAAATTCAAGAGTGCATTGATGCATGGTT
1 GTGCATCGGTACACTAAAATATATTCGATGTATCAAAAAAGCCAAGAGTGCATCGATGCATGGTT
*
27369 GTGCATCCGTACAC-AAAAT
1 GTGCATCGGTACACTAAAAT
27388 GCATTCGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
64 18 0.26
65 46 0.67
66 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (65 bp):
GTGCATCGGTACACTAAAATATATTCGATGTATCAAAAAAGCCAAGAGTGCATCGATGCATGGTT
Found at i:35960 original size:65 final size:65
Alignment explanation
Indices: 35883--36019 Score: 197
Period size: 65 Copynumber: 2.1 Consensus size: 65
35873 ACACTAATTA
* *
35883 CATTCGATGTTTCAA-AAGAGCCAGGAGTGCATCGATGCATGGTCTGTGCATCAGTACA-TAAAA
1 CATTCGATGTTTCAATAA-AGCCAAGAGTGCATCGATGCATGGT-TGTGCATCAGTACACAAAAA
35946 TG
64 TG
** *
35948 CATTCGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAAATG
1 CATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGTTGTGCATCAGTACACAAAAATG
36013 CATTCGA
1 CATTCGA
36020 AATAGGGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
64 13 0.20
65 50 0.77
66 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (65 bp):
CATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGTTGTGCATCAGTACACAAAAATG
Found at i:38588 original size:21 final size:20
Alignment explanation
Indices: 38550--38588 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38540 ATAAAAGGAA
* *
38550 AAAAAACTTAAAACATATCC
1 AAAAAACTGAAAAAATATCC
38570 AAAAAACTGAACAAAATAT
1 AAAAAACTGAA-AAAATAT
38589 ATGTACGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.64, C:0.15, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAAACTGAAAAAATATCC
Found at i:57046 original size:33 final size:33
Alignment explanation
Indices: 57009--57073 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
56999 AAGTCAGCTT
57009 ATCATTACAACATTGACAACACTTTTCACCCTC
1 ATCATTACAACATTGACAACACTTTTCACCCTC
*
57042 ATCATTACAACATTGACTACACTTTTCACCCT
1 ATCATTACAACATTGACAACACTTTTCACCCT
57074 TGTCCTACGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (33 bp):
ATCATTACAACATTGACAACACTTTTCACCCTC
Found at i:61244 original size:12 final size:12
Alignment explanation
Indices: 61215--61249 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
61205 ATTTTTATTT
61215 GTTAAAAGAAAAA
1 GTTAAAA-AAAAA
*
61228 ATTAAAAAAAAA
1 GTTAAAAAAAAA
61240 GTTAAAAAAA
1 GTTAAAAAAA
61250 TTAGACTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (12 bp):
GTTAAAAAAAAA
Found at i:88588 original size:7 final size:7
Alignment explanation
Indices: 88576--88606 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
88566 GTCAAAGAAA
88576 GTCAACG
1 GTCAACG
88583 GTCAACG
1 GTCAACG
88590 GTCAACG
1 GTCAACG
88597 GTCAACG
1 GTCAACG
88604 GTC
1 GTC
88607 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:88613 original size:5 final size:5
Alignment explanation
Indices: 88603--88659 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
88593 AACGGTCAAC
* *
88603 GGTCG GGTCG GGTC- GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
88651 GGTCG GGTC
1 GGTCG GGTC
88660 AGACCGGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 32 0.73
7 8 0.18
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:88619 original size:21 final size:21
Alignment explanation
Indices: 88595--88659 Score: 121
Period size: 21 Copynumber: 3.0 Consensus size: 21
88585 CAACGGTCAA
88595 CGGTCAACGGTCGGGTCGGGT
1 CGGTCAACGGTCGGGTCGGGT
88616 CGGTCAACGGTCGGGTCGGGT
1 CGGTCAACGGTCGGGTCGGGT
88637 CGGGTCAACGGTCGGGTCGGGT
1 C-GGTCAACGGTCGGGTCGGGT
88659 C
1 C
88660 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 22 0.51
22 21 0.49
ACGTcount: A:0.09, C:0.25, G:0.48, T:0.18
Consensus pattern (21 bp):
CGGTCAACGGTCGGGTCGGGT
Found at i:88679 original size:19 final size:18
Alignment explanation
Indices: 88656--88734 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
88646 GGTCGGGTCG
88656 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
88674 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
88693 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
88713 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
88732 GGT
1 GGT
88735 TGAAAACCGG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
18 5 0.10
19 39 0.75
20 8 0.15
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:88713 original size:29 final size:31
Alignment explanation
Indices: 88681--88755 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
88671 ACCGAGTCAG
88681 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
88710 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
88740 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
88756 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:88755 original size:9 final size:9
Alignment explanation
Indices: 88656--88754 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
88646 GGTCGGGTCG
*
88656 GGTCAGACC
1 GGTCAAACC
88665 GGTCAAACC
1 GGTCAAACC
*
88674 GAGTCAGACC
1 G-GTCAAACC
88684 GGTCAAACC
1 GGTCAAACC
*
88693 GGTTCGAACC
1 GG-TCAAACC
*
88703 GGTTGAAACC
1 GG-TCAAACC
88713 GGTCAAACC
1 GGTCAAACC
88722 GGTCAGAACC
1 GGTCA-AACC
*
88732 GGTTGAAAACC
1 GG-T-CAAACC
*
88743 GGTTAAACC
1 GGTCAAACC
88752 GGT
1 GGT
88755 TTCCAGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 37 0.49
10 31 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:95918 original size:7 final size:7
Alignment explanation
Indices: 95906--95943 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
95896 GTCAAAGAAA
95906 GTCAACG
1 GTCAACG
95913 GTCAACG
1 GTCAACG
95920 GTCAACG
1 GTCAACG
95927 GTCAACG
1 GTCAACG
95934 GTCAACG
1 GTCAACG
95941 GTC
1 GTC
95944 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:95950 original size:5 final size:5
Alignment explanation
Indices: 95940--95997 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
95930 AACGGTCAAC
* *
95940 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
95989 GGTCG GGTC
1 GGTCG GGTC
95998 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:95961 original size:22 final size:22
Alignment explanation
Indices: 95933--95997 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
95923 AACGGTCAAC
95933 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
95955 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
95977 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
95998 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:96017 original size:19 final size:18
Alignment explanation
Indices: 95994--96072 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
95984 GGTCGGGTCG
95994 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
96012 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
96031 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
96051 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
96070 GGT
1 GGT
96073 TGAAAACCGG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
18 5 0.10
19 39 0.75
20 8 0.15
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:96051 original size:29 final size:31
Alignment explanation
Indices: 96019--96093 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
96009 ACCGAGTCAG
96019 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
96048 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
96078 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
96094 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:96093 original size:9 final size:9
Alignment explanation
Indices: 95994--96092 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
95984 GGTCGGGTCG
*
95994 GGTCAGACC
1 GGTCAAACC
96003 GGTCAAACC
1 GGTCAAACC
*
96012 GAGTCAGACC
1 G-GTCAAACC
96022 GGTCAAACC
1 GGTCAAACC
*
96031 GGTTCGAACC
1 GG-TCAAACC
*
96041 GGTTGAAACC
1 GG-TCAAACC
96051 GGTCAAACC
1 GGTCAAACC
96060 GGTCAGAACC
1 GGTCA-AACC
*
96070 GGTTGAAAACC
1 GG-T-CAAACC
*
96081 GGTTAAACC
1 GGTCAAACC
96090 GGT
1 GGT
96093 TTCCAGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 37 0.49
10 31 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:98132 original size:78 final size:78
Alignment explanation
Indices: 98048--98205 Score: 316
Period size: 78 Copynumber: 2.0 Consensus size: 78
98038 AAATATATAA
98048 CAATTTCTCTTTGATAACAAGTTTACTATTTTTCAATTTAATCCCTAAATTTTTAATAATTTTCT
1 CAATTTCTCTTTGATAACAAGTTTACTATTTTTCAATTTAATCCCTAAATTTTTAATAATTTTCT
98113 TATTTCTTCAATT
66 TATTTCTTCAATT
98126 CAATTTCTCTTTGATAACAAGTTTACTATTTTTCAATTTAATCCCTAAATTTTTAATAATTTTCT
1 CAATTTCTCTTTGATAACAAGTTTACTATTTTTCAATTTAATCCCTAAATTTTTAATAATTTTCT
98191 TATTTCTTCAATT
66 TATTTCTTCAATT
98204 CA
1 CA
98206 TCATGTATTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.30, C:0.16, G:0.03, T:0.52
Consensus pattern (78 bp):
CAATTTCTCTTTGATAACAAGTTTACTATTTTTCAATTTAATCCCTAAATTTTTAATAATTTTCT
TATTTCTTCAATT
Found at i:102721 original size:2 final size:2
Alignment explanation
Indices: 102714--102751 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
102704 AGTTATGAGA
102714 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102752 GATAACAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:102738 original size:19 final size:19
Alignment explanation
Indices: 102714--102751 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
102704 AGTTATGAGA
102714 ATATATATATAATATATAT
1 ATATATATATAATATATAT
102733 ATATATATATAATATATAT
1 ATATATATATAATATATAT
102752 GATAACAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATATATATAATATATAT
Found at i:102768 original size:189 final size:190
Alignment explanation
Indices: 102534--102922 Score: 746
Period size: 189 Copynumber: 2.1 Consensus size: 190
102524 GATCTAGGTG
102534 AATATATATATATATATATACATATATATGATAACAATGTATAAGTTATATGAATTAGATCTATG
1 AATATATATATATATATATACATATATATGATAACAATGTATAAGTTATATGAATTAGATCTATG
* *
102599 TGAACTGGTATAATTGATTTATGTGATTAAATGAAATTAGAGATAAGCTGAGTATAATGGACCTA
66 TGAACTGGTATAATTAATTTATGTGATTAAATGAAATTAGAGATAAGCTGAGTATAATGAACCTA
102664 TATGATAATATGAGAATGTTATAGGAACTAGGTGATAATAAGTTATGAGAATATATATAT
131 TATGATAATATGAGAATGTTATAGGAACTAGGTGATAATAAGTTATGAGAATATATATAT
102724 AATATATATATATATATATA-ATATATATGATAACAATGTATAAGTTATATGAATTAGATCTATG
1 AATATATATATATATATATACATATATATGATAACAATGTATAAGTTATATGAATTAGATCTATG
102788 TGAACTGGTATAATTAATTTATGTGATTAAATGAAATTAGAGATAAGCTGAGTATAATGAACCTA
66 TGAACTGGTATAATTAATTTATGTGATTAAATGAAATTAGAGATAAGCTGAGTATAATGAACCTA
102853 TATGATAATATGAGAATGTTATAGGAACTAGGTGATAATAAGTTATGAGAATATATATAT
131 TATGATAATATGAGAATGTTATAGGAACTAGGTGATAATAAGTTATGAGAATATATATAT
102913 -ATATATATAT
1 AATATATATAT
102923 GCTTATGTGA
Statistics
Matches: 197, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
188 10 0.05
189 167 0.85
190 20 0.10
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (190 bp):
AATATATATATATATATATACATATATATGATAACAATGTATAAGTTATATGAATTAGATCTATG
TGAACTGGTATAATTAATTTATGTGATTAAATGAAATTAGAGATAAGCTGAGTATAATGAACCTA
TATGATAATATGAGAATGTTATAGGAACTAGGTGATAATAAGTTATGAGAATATATATAT
Found at i:108727 original size:31 final size:31
Alignment explanation
Indices: 108684--108752 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
108674 TATCGTTGAC
* * * * *
108684 CTGACCCGAGTTGGACATGGAAATTGTGGAT
1 CTGAACCGAGTTGAACACGAAAATTATGGAT
*
108715 CTGAACCGAGTTGAACCCGAAAATTATGGAT
1 CTGAACCGAGTTGAACACGAAAATTATGGAT
108746 CTGAACC
1 CTGAACC
108753 AAACTTACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (31 bp):
CTGAACCGAGTTGAACACGAAAATTATGGAT
Done.