Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005407.1 Kokia drynarioides strain JFW-HI SEQ_119416, 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: 29481
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Found at i:4076 original size:118 final size:118
Alignment explanation
Indices: 3859--4122 Score: 354
Period size: 118 Copynumber: 2.2 Consensus size: 118
3849 ACTACGAGCG
* ** * *
3859 CAAAAATGG-ATTTTTAGAAGTTCGGGGGTAAAATGGTAATTTTTGAAAGGTTCAGGGTTAAAAA
1 CAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGAAAGATTCAGGGTCAAAAA
* * **
3923 TTGAATTTTTGAAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGATTTGGGGT
66 TGGAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGATACGGGGT
3976 CAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTT-AGAAGATTC-GAGGTCAAA
1 CAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGA-AAGATTCAG-GGTCAAA
* * * *
4039 AATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTACGGGGT
64 AATGGAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGATACGGGGT
*
4094 CAAAAATGAAATTTTTGGACAGTTTAGGG
1 CAAAAATGGAATTTTTGGA-AGTTTAGGG
4123 ACCTTCGGGG
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
117 11 0.09
118 109 0.84
119 9 0.07
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (118 bp):
CAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGAAAGATTCAGGGTCAAAAA
TGGAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGATACGGGGT
Found at i:4110 original size:30 final size:30
Alignment explanation
Indices: 3859--4112 Score: 156
Period size: 29 Copynumber: 8.6 Consensus size: 30
3849 ACTACGAGCG
* *
3859 CAAAAATGG-ATTTTTAGAA-GTTCGGGGGT
1 CAAAAATGGAATTTTTGGAAGGTAC-GGGGT
* * *
3888 --AAAATGGTAATTTTTGAAAGGTTCAGGGT
1 CAAAAATGG-AATTTTTGGAAGGTACGGGGT
* * * *
3917 TAAAAATTGAATTTTT-GAAAGTTCGGGGGT
1 CAAAAATGGAATTTTTGGAAGGTAC-GGGGT
* * **
3947 --AAAATGGTAATTTTTAGAAGATTTGGGGT
1 CAAAAATGG-AATTTTTGGAAGGTACGGGGT
*
3976 CAAAAATGGAATTTTTGGAAGTTTA-GGGGT
1 CAAAAATGGAATTTTTGGAAG-GTACGGGGT
* * * *
4006 --AAAATGGTAATTTTTAGAAGATTCGAGGT
1 CAAAAATGG-AATTTTTGGAAGGTACGGGGT
* *
4035 CAAAAATGGGATTTTTGGAA-GTTCGAGGGT
1 CAAAAATGGAATTTTTGGAAGGTACG-GGGT
4065 --AAAATGGTAATTTTTGGAAGGTACGGGGT
1 CAAAAATGG-AATTTTTGGAAGGTACGGGGT
*
4094 CAAAAATGAAATTTTTGGA
1 CAAAAATGGAATTTTTGGA
4113 CAGTTTAGGG
Statistics
Matches: 180, Mismatches: 25, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
27 7 0.04
28 21 0.12
29 63 0.35
30 62 0.34
31 27 0.15
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.33
Consensus pattern (30 bp):
CAAAAATGGAATTTTTGGAAGGTACGGGGT
Found at i:4111 original size:59 final size:58
Alignment explanation
Indices: 3859--4117 Score: 306
Period size: 59 Copynumber: 4.4 Consensus size: 58
3849 ACTACGAGCG
* * * * *
3859 CAAAAATGGATTTTTAGAAGTTCGGGGGTAAAATGGTAATTTTT-GAAAGGTTCAGGGT
1 CAAAAATGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAG-AAGATTCGGGGT
* * * *
3917 TAAAAATTGAATTTTTGAAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGATTTGGGGT
1 CAAAAA-TGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGATTCGGGGT
* *
3976 CAAAAATGGAATTTTTGGAAGTT-TAGGGGTAAAATGGTAATTTTTAGAAGATTCGAGGT
1 CAAAAAT-GAATTTTTGGAAGTTCGA-GGGTAAAATGGTAATTTTTAGAAGATTCGGGGT
* * * *
4035 CAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTACGGGGT
1 CAAAAAT-GAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGATTCGGGGT
4094 CAAAAATGAAATTTTTGGACAGTT
1 CAAAAATG-AATTTTTGGA-AGTT
4118 TAGGGACCTT
Statistics
Matches: 174, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
58 7 0.04
59 161 0.93
60 6 0.03
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (58 bp):
CAAAAATGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGATTCGGGGT
Found at i:5247 original size:15 final size:16
Alignment explanation
Indices: 5221--5253 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5211 TTCGTTTTTT
*
5221 TATTTATTAATATTAA
1 TATTTATTAATAATAA
5237 TATTT-TTAATAATAA
1 TATTTATTAATAATAA
5252 TA
1 TA
5254 AATTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTATTAATAATAA
Found at i:6012 original size:11 final size:11
Alignment explanation
Indices: 5998--6071 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
5988 TGGAAATAAT
*
5998 TTTAAACTTAA
1 TTTAAAATTAA
*
6009 TTTAAATTTAAA
1 TTTAAAATT-AA
*
6021 TTTAAAATAAA
1 TTTAAAATTAA
*
6032 TTTAAATTTTAA
1 TTTAAA-ATTAA
* *
6044 -ATAAATTTAA
1 TTTAAAATTAA
*
6054 TTTTAAAATAAA
1 -TTTAAAATTAA
6066 TTTAAA
1 TTTAAA
6072 GGAAATATGA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
10 5 0.10
11 26 0.52
12 19 0.38
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTAAAATTAA
Found at i:6020 original size:17 final size:17
Alignment explanation
Indices: 5991--6071 Score: 90
Period size: 17 Copynumber: 4.8 Consensus size: 17
5981 TTAAATTTGG
*
5991 AAATAATTTTAAACTTA
1 AAATAAATTTAAACTTA
** *
6008 ATTTAAATTTAAATTTA
1 AAATAAATTTAAACTTA
* *
6025 AAATAAATTTAAATTTT
1 AAATAAATTTAAACTTA
**
6042 AAATAAATTTAATTTTA
1 AAATAAATTTAAACTTA
6059 AAATAAATTTAAA
1 AAATAAATTTAAA
6072 GGAAATATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 54 1.00
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATAAATTTAAACTTA
Found at i:6029 original size:34 final size:35
Alignment explanation
Indices: 5973--6071 Score: 121
Period size: 34 Copynumber: 2.8 Consensus size: 35
5963 TTTTATTTAT
* *
5973 TTTAAATTTTAAATTTGGAAATAATTTTAAA-CTTAA
1 TTTAAA-TTTAAATTT-AAAATAAATTTAAATCTTAA
*
6009 TTTAAATTTAAATTTAAAATAAATTTAAATTTTAA
1 TTTAAATTTAAATTTAAAATAAATTTAAATCTTAA
* *
6044 -ATAAATTTAATTTTAAAATAAATTTAAA
1 TTTAAATTTAAATTTAAAATAAATTTAAA
6072 GGAAATATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 38 0.67
35 13 0.23
36 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (35 bp):
TTTAAATTTAAATTTAAAATAAATTTAAATCTTAA
Found at i:8601 original size:21 final size:21
Alignment explanation
Indices: 8577--8620 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8567 TCACACAGAG
* *
8577 TGAACCCATAAAACATGATAA
1 TGAACCCACAAAACATGAGAA
8598 TGAACCCACAAAACATGAGAA
1 TGAACCCACAAAACATGAGAA
8619 TG
1 TG
8621 TGGAGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (21 bp):
TGAACCCACAAAACATGAGAA
Found at i:9202 original size:2 final size:2
Alignment explanation
Indices: 9195--9232 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9185 CACTGTTTTA
9195 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9233 TATTTTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11967 original size:19 final size:19
Alignment explanation
Indices: 11945--11981 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11935 AAAAAATTAG
11945 AAAAAAAATTATCAAAATC
1 AAAAAAAATTATCAAAATC
* *
11964 AAAAGAAATTATTAAAAT
1 AAAAAAAATTATCAAAAT
11982 GCTTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAAAAATTATCAAAATC
Found at i:14472 original size:19 final size:19
Alignment explanation
Indices: 14450--14494 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14440 TTATATTAGG
14450 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
14469 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
14488 ATTTAAT
1 ATTTAAT
14495 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:15315 original size:15 final size:16
Alignment explanation
Indices: 15295--15324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15285 CTTCCCTATT
15295 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
15310 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
15325 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:15317 original size:22 final size:22
Alignment explanation
Indices: 15290--15350 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
15280 TTCGACTTCC
15290 CTATTTTCTATTT-CTTTTAATT
1 CTATTTTCT-TTTACTTTTAATT
*
15312 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTACTTTTAATT
* *
15334 CT-GTTTCTTTTATTTTT
1 CTATTTTCTTTTACTTTT
15351 CCTTAGATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTTTACTTTTAATT
Found at i:15340 original size:21 final size:22
Alignment explanation
Indices: 15304--15350 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15294 TTTCTATTTC
*
15304 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
15326 TTTTAATTCT-GTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
15347 TTTT
1 TTTT
15351 CCTTAGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:16911 original size:21 final size:21
Alignment explanation
Indices: 16887--16936 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
16877 GAATTTCAGC
*
16887 AGCAATCTATAGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
* *
16908 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
*
16929 AGAAAACT
1 AGCAAACT
16937 GAGGCATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
AGCAAACTATAGATTTTCAAA
Found at i:16937 original size:21 final size:21
Alignment explanation
Indices: 16898--16937 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16888 GCAATCTATA
*
16898 GATTTTCAAAAGCAAACTGTG
1 GATTTTCAAAAGAAAACTGTG
16919 GATTTTCAAAAGAAAACTG
1 GATTTTCAAAAGAAAACTG
16938 AGGCATCTAT
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:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
GATTTTCAAAAGAAAACTGTG
Found at i:18121 original size:9 final size:9
Alignment explanation
Indices: 18107--18177 Score: 76
Period size: 9 Copynumber: 8.1 Consensus size: 9
18097 AGGCAACCCA
18107 ATTTTTTTT
1 ATTTTTTTT
18116 ATTTTTTTT
1 ATTTTTTTT
18125 A-TTTTTTT
1 ATTTTTTTT
18133 A-TTTTTTT
1 ATTTTTTTT
* *
18141 ATTTTCTCT
1 ATTTTTTTT
*
18150 ATTTTATTT
1 ATTTTTTTT
*
18159 A-TTTATTT
1 ATTTTTTTT
18167 ATTTTTGTTT
1 ATTTTT-TTT
18177 A
1 A
18178 GGAAACTCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
8 24 0.44
9 26 0.48
10 4 0.07
ACGTcount: A:0.15, C:0.03, G:0.01, T:0.80
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:18122 original size:8 final size:8
Alignment explanation
Indices: 18109--18172 Score: 83
Period size: 8 Copynumber: 7.6 Consensus size: 8
18099 GCAACCCAAT
18109 TTTTTTTA
1 TTTTTTTA
18117 TTTTTTTTA
1 -TTTTTTTA
18126 TTTTTTTA
1 TTTTTTTA
18134 TTTTTTTA
1 TTTTTTTA
*
18142 TTTTCTCTA
1 TTTT-TTTA
18151 TTTTATTTA
1 TTTT-TTTA
*
18160 TTTATTTA
1 TTTTTTTA
18168 TTTTT
1 TTTTT
18173 GTTTAGGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
8 28 0.57
9 21 0.43
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:18131 original size:17 final size:17
Alignment explanation
Indices: 18109--18177 Score: 86
Period size: 17 Copynumber: 4.0 Consensus size: 17
18099 GCAACCCAAT
18109 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTTTTTA
18126 TTTTTTTA-TTTTTTTA
1 TTTTTTTATTTTTTTTA
* *
18142 TTTTCTCTATTTTATTTA
1 TTTT-TTTATTTTTTTTA
*
18160 TTTATTTATTTTTGTTTA
1 TTTTTTTATTTTT-TTTA
18178 GGAAACTCGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 12 0.27
17 18 0.41
18 14 0.32
ACGTcount: A:0.14, C:0.03, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTA
Found at i:19219 original size:15 final size:16
Alignment explanation
Indices: 19199--19228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19189 CTTCCCTATT
19199 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
19214 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
19229 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:19221 original size:22 final size:22
Alignment explanation
Indices: 19194--19254 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
19184 TTCGACTTCC
19194 CTATTTTCTATTT-CTTTTAATT
1 CTATTTTCT-TTTACTTTTAATT
*
19216 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTACTTTTAATT
* *
19238 CT-GTTTCTTTTATTTTT
1 CTATTTTCTTTTACTTTT
19255 CCTTAGATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTTTACTTTTAATT
Found at i:19244 original size:21 final size:22
Alignment explanation
Indices: 19208--19254 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
19198 TTTCTATTTC
*
19208 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
19230 TTTTAATTCT-GTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
19251 TTTT
1 TTTT
19255 CCTTAGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:20668 original size:17 final size:18
Alignment explanation
Indices: 20630--20670 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20620 TTATAAATTC
*
20630 ATAAAAAATTTCTCAAAA
1 ATAAAAAAATTCTCAAAA
20648 ATAAAAAAATT-T-AAAA
1 ATAAAAAAATTCTCAAAA
20664 TATAAAA
1 -ATAAAA
20671 TTATTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAAAATTCTCAAAA
Found at i:22784 original size:35 final size:36
Alignment explanation
Indices: 22745--22816 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
22735 TGCAACAGTC
22745 AGAGGA-TTTTTCTCAACTGAAAATATTTTGAAAAT
1 AGAGGATTTTTTCTCAACTGAAAATATTTTGAAAAT
* *
22780 AGAGGATTTTTTCTTAGCTGAAAATATTTTGAAAAT
1 AGAGGATTTTTTCTCAACTGAAAATATTTTGAAAAT
22816 A
1 A
22817 TTTTTTGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (36 bp):
AGAGGATTTTTTCTCAACTGAAAATATTTTGAAAAT
Found at i:22847 original size:87 final size:86
Alignment explanation
Indices: 22697--22866 Score: 277
Period size: 87 Copynumber: 2.0 Consensus size: 86
22687 AATAGCAGAA
* * *
22697 GATTTTTTCTCAACTGAAAATATTTTGAAAATATTTTTTGCAACAGTCAGAGGATTTTTCTCAAC
1 GATTTTTTCTCAACTGAAAATATTTTGAAAATATTTTTTGCAACAATCAAAGGATTTTCCTCAAC
*
22762 TGAAAATATTTTGAAAATAGAG
66 TGAAAATATTCT-AAAATAGAG
* *
22784 GATTTTTTCTTAGCTGAAAATATTTTGAAAATATTTTTTGCAACAATCAAAGGATTTTCCTCAAC
1 GATTTTTTCTCAACTGAAAATATTTTGAAAATATTTTTTGCAACAATCAAAGGATTTTCCTCAAC
22849 TGAAAATATTCTAAAATA
66 TGAAAATATTCTAAAATA
22867 TTATTTTGCA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 6 0.08
87 71 0.92
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (86 bp):
GATTTTTTCTCAACTGAAAATATTTTGAAAATATTTTTTGCAACAATCAAAGGATTTTCCTCAAC
TGAAAATATTCTAAAATAGAG
Found at i:26828 original size:25 final size:24
Alignment explanation
Indices: 26767--26838 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
26757 ACTGGTTAAC
* *
26767 CTTTCTGGGCTCGTAAGATCTAAT
1 CTTTCTAGGCTCGTAAGAGCTAAT
*
26791 CTTTCTAAGCTCGTAAGAGCTAAT
1 CTTTCTAGGCTCGTAAGAGCTAAT
* *
26815 TTTATCTAGGCTCGTATGAGCTAA
1 CTT-TCTAGGCTCGTAAGAGCTAA
26839 AATCTGGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 23 0.56
25 18 0.44
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (24 bp):
CTTTCTAGGCTCGTAAGAGCTAAT
Done.