Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004909.1 Hibiscus syriacus cultivar Beakdansim tig00011044_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: 69112
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:1311 original size:19 final size:21
Alignment explanation
Indices: 1283--1332 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
1273 ACCAAGAGCT
*
1283 TGTATCTTCA-TTAAAA-TCA
1 TGTATTTTCATTTAAAAGTCA
1302 TGTATTTTCATTTAAAAGTCA
1 TGTATTTTCATTTAAAAGTCA
1323 TGTATTTTCA
1 TGTATTTTCA
1333 AAGGGTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 13 0.46
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (21 bp):
TGTATTTTCATTTAAAAGTCA
Found at i:10310 original size:17 final size:17
Alignment explanation
Indices: 10288--10321 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10278 ACCTATAGTT
*
10288 CACATCTTTATAATATA
1 CACATCATTATAATATA
*
10305 CACATCATTATATTATA
1 CACATCATTATAATATA
10322 TGCATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
CACATCATTATAATATA
Found at i:12493 original size:24 final size:24
Alignment explanation
Indices: 12458--12507 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
12448 TCACTTCAAG
* *
12458 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACTT
* *
12482 TTGAAGAATCAATAAACGTGACTT
1 TTGAAGAATCAAGAAACATGACTT
12506 TT
1 TT
12508 AGTGATCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACTT
Found at i:17406 original size:14 final size:15
Alignment explanation
Indices: 17388--17425 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17378 ATTTGGAGTG
*
17388 CAAAAGAAAGAAAAG
1 CAAAAGAAAGAAAAT
*
17403 AAAAAG-AAGAAAAT
1 CAAAAGAAAGAAAAT
17417 CAAAAGAAA
1 CAAAAGAAA
17426 AAGAAAAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (15 bp):
CAAAAGAAAGAAAAT
Found at i:17410 original size:11 final size:11
Alignment explanation
Indices: 17394--17434 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17384 AGTGCAAAAG
17394 AAAGAAAAGAA
1 AAAGAAAAGAA
17405 AAAG--AAGAA
1 AAAGAAAAGAA
**
17414 AATCAAAAGAA
1 AAAGAAAAGAA
17425 AAAGAAAAGA
1 AAAGAAAAGA
17435 GAAGCAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
11 17 0.71
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:17599 original size:16 final size:18
Alignment explanation
Indices: 17580--17612 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17570 TTCCTTACTA
17580 TTTCATT-TTT-TTATTC
1 TTTCATTCTTTCTTATTC
17596 TTTCATTCTTTCTTATT
1 TTTCATTCTTTCTTATT
17613 TCATTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTCATTCTTTCTTATTC
Found at i:18530 original size:19 final size:20
Alignment explanation
Indices: 18502--18541 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
18492 GGATAATAAT
18502 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
* *
18522 ATAAG-AATGATATGAAATA
1 ATAAGTAATGAAAAGAAATA
18541 A
1 A
18542 ATAAAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:24122 original size:19 final size:20
Alignment explanation
Indices: 24094--24133 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24084 GGATAATAAT
24094 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
* *
24114 ATAAG-AATGATATGAAATA
1 ATAAGTAATGAAAAGAAATA
24133 A
1 A
24134 AGAAAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:30804 original size:19 final size:20
Alignment explanation
Indices: 30780--30830 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
30770 CGGCCAAGAG
*
30780 CATGTATTTTCATT-AAAGT
1 CATGTATTTTCATTAAAAAT
30799 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
30819 CATGTATTTTCA
1 CATGTATTTTCA
30831 AAGGGATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:31559 original size:5 final size:5
Alignment explanation
Indices: 31549--31581 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
31539 AAAAGTAAGA
31549 AAAAG AAAAG AAAAG AAAAG AAAA- AGAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG AAA
31582 GTTGAAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:31567 original size:15 final size:15
Alignment explanation
Indices: 31537--31581 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
31527 CAAAAAGGAG
*
31537 GAAAAAGTAAGAAAA
1 GAAAAAGAAAGAAAA
31552 -AGAAAAGAAAAGAAAA
1 GA-AAAAG-AAAGAAAA
31568 GAAAAAGAAAGAAA
1 GAAAAAGAAAGAAA
31582 GTTGAAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 12 0.46
16 12 0.46
17 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
GAAAAAGAAAGAAAA
Found at i:33325 original size:15 final size:15
Alignment explanation
Indices: 33305--33347 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
33295 TTTTTTCAAA
33305 AAAACAAAAAAAAAC
1 AAAACAAAAAAAAAC
**
33320 AAAACAAAAAAAGGC
1 AAAACAAAAAAAAAC
33335 AAAA-AAAAAAAAA
1 AAAACAAAAAAAAA
33348 AAACCGGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAAAAC
Found at i:33338 original size:21 final size:20
Alignment explanation
Indices: 33314--33383 Score: 83
Period size: 19 Copynumber: 3.5 Consensus size: 20
33304 AAAAACAAAA
33314 AAAAACAAAACAAAAAAAGGC
1 AAAAA-AAAACAAAAAAAGGC
33335 AAAAAAAAA-AAAAAAACCGGC
1 AAAAAAAAACAAAAAAA--GGC
33356 --AAAAAAACAAAAAAAGAGC
1 AAAAAAAAACAAAAAAAG-GC
33375 AAAAAAAAA
1 AAAAAAAAA
33384 AGCCAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.02
19 16 0.37
20 11 0.26
21 15 0.35
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAAGGC
Found at i:38931 original size:19 final size:21
Alignment explanation
Indices: 38907--38958 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
38897 CGGCCAAGAG
*
38907 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
38926 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
38947 CATGTATTTTCA
1 CATGTATTTTCA
38959 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:39713 original size:34 final size:31
Alignment explanation
Indices: 39675--39746 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 31
39665 GTACAAAAAT
*
39675 AAAGAAAAGACA-AAAAGAAGAAGAAAATTCAGAA
1 AAAGAAAAGA-AGAAAAGAAAAAG-AAATTC--AA
39709 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
1 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
39740 AAAGAAA
1 AAAGAAA
39747 GCAAGCCAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 9 0.25
33 7 0.19
34 20 0.56
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.06
Consensus pattern (31 bp):
AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
Found at i:42901 original size:19 final size:21
Alignment explanation
Indices: 42873--42922 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
42863 GCCAAGAGCT
*
42873 TGTATCTTCA-TTAAAA-TCA
1 TGTATTTTCATTTAAAAGTCA
42892 TGTATTTTCATTTAAAAGTCA
1 TGTATTTTCATTTAAAAGTCA
42913 TGTATTTTCA
1 TGTATTTTCA
42923 AAGGGGTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 13 0.46
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (21 bp):
TGTATTTTCATTTAAAAGTCA
Found at i:45388 original size:18 final size:17
Alignment explanation
Indices: 45358--45406 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
45348 AATTGGAGTG
*
45358 CAAAAAGAAAGAAAAGA
1 CAAAAAAAAAGAAAAGA
*
45375 CAAAAAAAACAGAATAGAA
1 CAAAAAAAA-AGAAAAG-A
*
45394 GAAAAAAAAAGAA
1 CAAAAAAAAAGAA
45407 GAATTTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.30
18 10 0.37
19 9 0.33
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (17 bp):
CAAAAAAAAAGAAAAGA
Found at i:45409 original size:21 final size:21
Alignment explanation
Indices: 45371--45410 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45361 AAAGAAAGAA
*
45371 AAGACAAAAAAAACAGAATAG
1 AAGACAAAAAAAAAAGAATAG
45392 AAGA-AAAAAAAAGAAGAAT
1 AAGACAAAAAAAA-AAGAAT
45411 TTCAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (21 bp):
AAGACAAAAAAAAAAGAATAG
Found at i:49447 original size:13 final size:12
Alignment explanation
Indices: 49423--49479 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
49413 ATTGGAGTAC
49423 AAAAAGAAAGAA
1 AAAAAGAAAGAA
49435 AGAAAA-AACAGAA
1 A-AAAAGAA-AGAA
*
49448 AAGAAGAAAAGAA
1 AAAAAG-AAAGAA
*
49461 AAAAAGGAA-AA
1 AAAAAGAAAGAA
49472 AAAAAGAA
1 AAAAAGAA
49480 TTTCAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
11 9 0.24
12 8 0.22
13 18 0.49
14 2 0.05
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:49452 original size:22 final size:21
Alignment explanation
Indices: 49424--49479 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
49414 TTGGAGTACA
49424 AAAAGAAAGAAAGAAAAAACAG
1 AAAAGAAAGAAAGAAAAAA-AG
49446 AAAAG-AAGAAAAGAAAAAAAG
1 AAAAGAAAG-AAAGAAAAAAAG
*
49467 GAAA-AAA-AAAGAA
1 AAAAGAAAGAAAGAA
49480 TTTCAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.19
21 10 0.32
22 15 0.48
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAAAGAAAAAAAG
Found at i:51966 original size:17 final size:17
Alignment explanation
Indices: 51944--51977 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51934 ACCTATAGTT
*
51944 CACATCTTTATAATATA
1 CACATCATTATAATATA
*
51961 CACATCATTATATTATA
1 CACATCATTATAATATA
51978 TGCATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
CACATCATTATAATATA
Found at i:54151 original size:24 final size:24
Alignment explanation
Indices: 54116--54165 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
54106 TCACTTCAAG
* *
54116 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACTT
* *
54140 TTGAAGAATCAATAAACGTGACTT
1 TTGAAGAATCAAGAAACATGACTT
54164 TT
1 TT
54166 AGTGATCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACTT
Found at i:60631 original size:19 final size:20
Alignment explanation
Indices: 60602--60642 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
60592 CCATTCGGCC
*
60602 AAGAGCATGTATTTTTATTA
1 AAGAGCATGTATTTTCATTA
60622 AAGA-CATGTATTTTCATTA
1 AAGAGCATGTATTTTCATTA
60641 AA
1 AA
60643 AATCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (20 bp):
AAGAGCATGTATTTTCATTA
Found at i:61321 original size:24 final size:24
Alignment explanation
Indices: 61289--61342 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
61279 TCAAGACTGA
61289 CAAGAAACTGATAGAGTTCTAATC
1 CAAGAAACTGATAGAGTTCTAATC
61313 CAAGAAACTGATAGAGTTCTAATC
1 CAAGAAACTGATAGAGTTCTAATC
61337 CAAGAA
1 CAAGAA
61343 CTAAAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (24 bp):
CAAGAAACTGATAGAGTTCTAATC
Found at i:63416 original size:30 final size:31
Alignment explanation
Indices: 63371--63430 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
63361 CTTAGCTTTA
**
63371 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
63401 TATTTTGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
63431 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:64295 original size:19 final size:20
Alignment explanation
Indices: 64271--64321 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
64261 CGGCCAAGAG
* *
64271 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
64290 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
64310 CATGTATTTTCA
1 CATGTATTTTCA
64322 AAAGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:65220 original size:23 final size:25
Alignment explanation
Indices: 65194--65248 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
65184 AAATCCAGCA
65194 AAGAAAATCAAAGCACTC-AAAA-G
1 AAGAAAATCAAAGCACTCAAAAAGG
* * *
65217 AAGAAATTGAAAGTACTCAAAAAGG
1 AAGAAAATCAAAGCACTCAAAAAGG
65242 AAGAAAA
1 AAGAAAA
65249 AGAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 15 0.58
24 4 0.15
25 7 0.27
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.11
Consensus pattern (25 bp):
AAGAAAATCAAAGCACTCAAAAAGG
Found at i:66909 original size:13 final size:11
Alignment explanation
Indices: 66889--67044 Score: 106
Period size: 11 Copynumber: 13.2 Consensus size: 11
66879 AATATAGGCG
66889 TGATATGGTGA
1 TGATATGGTGA
66900 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
66913 TGATATAGGCG-
1 TGATAT-GGTGA
66924 TGATAATGGTGA
1 TGAT-ATGGTGA
66936 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
66949 TGATATAGGCG-
1 TGATAT-GGTGA
66960 TGATAATGGTGA
1 TGAT-ATGGTGA
66972 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
66985 TGATATAGGCG-
1 TGATAT-GGTGA
66996 TGATAATGGTGA
1 TGAT-ATGGTGA
67008 TGGACTATGGTG-
1 T-GA-TATGGTGA
67020 TGATATAGGTG-
1 TGATAT-GGTGA
67031 TGATAATGGTGA
1 TGAT-ATGGTGA
67043 TG
1 TG
67045 GACAGATTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 39
0.73 0.04 0.24
Matches are distributed among these distances:
10 3 0.03
11 47 0.39
12 28 0.24
13 37 0.31
14 4 0.03
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.32
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:66934 original size:23 final size:23
Alignment explanation
Indices: 66906--67009 Score: 74
Period size: 23 Copynumber: 4.4 Consensus size: 23
66896 GTGATGGAAT
66906 ATGGTGATGATATAGGCGTGATA
1 ATGGTGATGATATAGGCGTGATA
*
66929 ATGGTGATGGACTAT-GGTGATGAT-
1 ATGGTGAT-GA-TATAGGCG-TGATA
* *
66953 ATAGGCG-TGATA-ATG-GTGATGGAA
1 AT-GGTGATGATATAGGCGTGAT---A
66977 TATGGTGATGATATAGGCGTGATA
1 -ATGGTGATGATATAGGCGTGATA
67001 ATGGTGATG
1 ATGGTGATG
67010 GACTATGGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 26
0.67 0.05 0.28
Matches are distributed among these distances:
20 4 0.06
21 1 0.02
22 3 0.05
23 19 0.30
24 12 0.19
25 17 0.27
26 2 0.03
27 5 0.08
ACGTcount: A:0.29, C:0.04, G:0.37, T:0.31
Consensus pattern (23 bp):
ATGGTGATGATATAGGCGTGATA
Found at i:66945 original size:36 final size:36
Alignment explanation
Indices: 66872--67047 Score: 302
Period size: 36 Copynumber: 4.9 Consensus size: 36
66862 ATTTATAAGT
* *
66872 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
66907 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
66943 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
66979 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
67015 TGGTG-TGATATAGGTGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
67048 AGATTGTATC
Statistics
Matches: 135, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 47 0.35
36 88 0.65
ACGTcount: A:0.28, C:0.04, G:0.36, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Done.