Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009296.1 Hibiscus syriacus cultivar Beakdansim tig00113005_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: 71993
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Found at i:9270 original size:12 final size:12
Alignment explanation
Indices: 9253--9287 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
9243 TTTTCAGAAC
9253 CGAACCGGTCAG
1 CGAACCGGTCAG
9265 CGAACCGGTCAG
1 CGAACCGGTCAG
9277 CGAACCGGTCA
1 CGAACCGGTCA
9288 TGCTACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.34, G:0.31, T:0.09
Consensus pattern (12 bp):
CGAACCGGTCAG
Found at i:9502 original size:22 final size:22
Alignment explanation
Indices: 9466--9507 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9456 AAAAACCATA
*
9466 AAATCAAGTGAAACAAAATAAT
1 AAATCAACTGAAACAAAATAAT
* *
9488 AAATCAACTGCAACATAATA
1 AAATCAACTGAAACAAAATA
9508 TTTAAGGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (22 bp):
AAATCAACTGAAACAAAATAAT
Found at i:10131 original size:11 final size:11
Alignment explanation
Indices: 10094--10133 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
10084 AACTCAAGAC
*
10094 TCAAACTCGAT
1 TCAAGCTCGAT
10105 TCATA-CTCGAT
1 TCA-AGCTCGAT
10116 TCAAGCTCGAT
1 TCAAGCTCGAT
10127 TCAAGCT
1 TCAAGCT
10134 AATTTTGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (11 bp):
TCAAGCTCGAT
Found at i:10144 original size:22 final size:23
Alignment explanation
Indices: 10119--10170 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
10109 ACTCGATTCA
10119 AGCTCGATTCAAGCT-AATTTTG
1 AGCTCGATTCAAGCTAAATTTTG
10141 AGCTCGA-TCAAGCTAAATTTTG
1 AGCTCGATTCAAGCTAAATTTTG
10163 AGCTCGAT
1 AGCTCGAT
10171 GTCTAAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (23 bp):
AGCTCGATTCAAGCTAAATTTTG
Found at i:11404 original size:7 final size:7
Alignment explanation
Indices: 11392--11473 Score: 74
Period size: 7 Copynumber: 11.7 Consensus size: 7
11382 AATCAAATTA
11392 AGGGTTT
1 AGGGTTT
11399 AGGGTTT
1 AGGGTTT
* *
11406 AAGATTT
1 AGGGTTT
* *
11413 AAGGCTT
1 AGGGTTT
*
11420 AAGGTTT
1 AGGGTTT
*
11427 ATGGTTT
1 AGGGTTT
*
11434 AGGTTTT
1 AGGGTTT
11441 AGGGTTT
1 AGGGTTT
**
11448 AGTATTT
1 AGGGTTT
*
11455 AAGGTTT
1 AGGGTTT
11462 AGGGTTT
1 AGGGTTT
11469 AGGGT
1 AGGGT
11474 GTAATCTAAC
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:11446 original size:21 final size:20
Alignment explanation
Indices: 11389--11470 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 20
11379 CATAATCAAA
11389 TTAAGGGTTTAGGGTTTAAGAT
1 TTAA-GGTTTAGGGTTT-AGAT
* * *
11411 TTAAGGCTTAAGGTTTATGGT
1 TTAAGGTTTAGGGTTTA-GAT
11432 TT-AGGTTTTAGGGTTTAGTAT
1 TTAAGG-TTTAGGGTTTAG-AT
11453 TTAAGGTTTAGGGTTTAG
1 TTAAGGTTTAGGGTTTAG
11471 GGTGTAATCT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.10
21 38 0.76
22 7 0.14
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.45
Consensus pattern (20 bp):
TTAAGGTTTAGGGTTTAGAT
Found at i:18942 original size:21 final size:22
Alignment explanation
Indices: 18889--18942 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
18879 TGGTGCTGAC
* *
18889 ATGATAGTTCACAAGTATTGAT
1 ATGACAGTTCACAAGTATTAAT
*
18911 GTGAC-GTTTCACAA-TATTAAT
1 ATGACAG-TTCACAAGTATTAAT
18932 ATGACAGTTCA
1 ATGACAGTTCA
18943 TATGTCATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (22 bp):
ATGACAGTTCACAAGTATTAAT
Found at i:21470 original size:18 final size:18
Alignment explanation
Indices: 21432--21470 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21422 GGAAGACAAG
*
21432 TGATTATCAAGGCATACT
1 TGATTATCAAGGCATAAT
*
21450 TGATTATCAAGGCCTAAT
1 TGATTATCAAGGCATAAT
21468 TGA
1 TGA
21471 GAAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (18 bp):
TGATTATCAAGGCATAAT
Found at i:24727 original size:37 final size:37
Alignment explanation
Indices: 24657--24731 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
24647 TCATTAAACT
* *
24657 TTTTATATTTTATATTTTTGTAAAAAAATTATATAAA
1 TTTTATAATTTAAATTTTTGTAAAAAAATTATATAAA
24694 TTTTATGAATTTAAATTTTT-TAAAGAAAA-TATATAAA
1 TTTTAT-AATTTAAATTTTTGTAAA-AAAATTATATAAA
24731 T
1 T
24732 ATTTTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 19 0.56
38 15 0.44
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (37 bp):
TTTTATAATTTAAATTTTTGTAAAAAAATTATATAAA
Found at i:28199 original size:5 final size:5
Alignment explanation
Indices: 28189--28213 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
28179 AAATATTTTT
28189 TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA
28214 AAATAACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:28645 original size:14 final size:14
Alignment explanation
Indices: 28626--28652 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28616 TCATCCTCTC
28626 ATTTCCATTTTCTT
1 ATTTCCATTTTCTT
28640 ATTTCCATTTTCT
1 ATTTCCATTTTCT
28653 CTCTTGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTCCATTTTCTT
Found at i:29358 original size:21 final size:21
Alignment explanation
Indices: 29323--29362 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
29313 AAACATAAAA
29323 AAAAATAAAACTATACTTTTTT
1 AAAAATAAAACTATA-TTTTTT
*
29345 AAAATTAAAA-TATATTTT
1 AAAAATAAAACTATATTTT
29363 ATCATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATAAAACTATATTTTTT
Found at i:30995 original size:19 final size:19
Alignment explanation
Indices: 30971--31020 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
30961 TGTTCTGCCC
30971 AGTTTCGAAACTTTCTAGG
1 AGTTTCGAAACTTTCTAGG
*
30990 AGTTTCGAAACTTTCTGGG
1 AGTTTCGAAACTTTCTAGG
*
31009 AGTTTTGAAACT
1 AGTTTCGAAACT
31021 ATGACCCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (19 bp):
AGTTTCGAAACTTTCTAGG
Found at i:31051 original size:17 final size:17
Alignment explanation
Indices: 31029--31061 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31019 CTATGACCCA
31029 GAGTATCGATACTCTTT
1 GAGTATCGATACTCTTT
31046 GAGTATCGATACTCTT
1 GAGTATCGATACTCTT
31062 GCCCAGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (17 bp):
GAGTATCGATACTCTTT
Found at i:32187 original size:29 final size:29
Alignment explanation
Indices: 32145--32235 Score: 155
Period size: 29 Copynumber: 3.1 Consensus size: 29
32135 TAGTCAGGAC
*
32145 AAAACCTTAAAATCAAGAGGGTAACCAAG
1 AAAACCTTAAAATCGAGAGGGTAACCAAG
* *
32174 AAAACCTTAAAATCGAGAGGGTAGCCATG
1 AAAACCTTAAAATCGAGAGGGTAACCAAG
32203 AAAACCTTAAAATCGAGAGGGTAACCAAG
1 AAAACCTTAAAATCGAGAGGGTAACCAAG
32232 AAAA
1 AAAA
32236 TTAAAAATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (29 bp):
AAAACCTTAAAATCGAGAGGGTAACCAAG
Found at i:33306 original size:21 final size:21
Alignment explanation
Indices: 33282--33328 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
33272 TCTTCACTTA
* *
33282 AAACTCTAAATTATAAACC-CT
1 AAACCCTAAATCAT-AACCACT
33303 AAACCCTAAATCATAACCACT
1 AAACCCTAAATCATAACCACT
33324 AAACC
1 AAACC
33329 ATAATCCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAATCATAACCACT
Found at i:42709 original size:15 final size:16
Alignment explanation
Indices: 42689--42727 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
42679 GTTTACTTCA
*
42689 GAATGATT-AAGTGCT
1 GAATGATTCAAATGCT
*
42704 GAATGATTCAAATGTT
1 GAATGATTCAAATGCT
42720 GAATGATT
1 GAATGATT
42728 TAGAGGTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (16 bp):
GAATGATTCAAATGCT
Found at i:44298 original size:9 final size:10
Alignment explanation
Indices: 44280--44337 Score: 68
Period size: 9 Copynumber: 5.8 Consensus size: 10
44270 GTCTTTTTTA
44280 TATTATTTAAT
1 TATTA-TTAAT
44291 T-TTATTAAT
1 TATTATTAAT
44300 TATTATT-AT
1 TATTATTAAT
44309 TATTATT-AT
1 TATTATTAAT
44318 TATTATTAAAT
1 TATTATT-AAT
44329 TATATATTA
1 TAT-TATTA
44338 CAAATTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
9 24 0.56
10 8 0.19
11 7 0.16
12 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTAAT
Found at i:44304 original size:3 final size:3
Alignment explanation
Indices: 44280--44325 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
44270 GTCTTTTTTA
*
44280 TAT TAT T-T AAT T-T TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
44324 TA
1 TA
44326 AATTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:44483 original size:25 final size:25
Alignment explanation
Indices: 44454--44552 Score: 166
Period size: 25 Copynumber: 4.0 Consensus size: 25
44444 GAACCAACCC
44454 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
44479 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
44504 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
44529 AACA-ATTTAGGGTTTC-AACCCTAA
1 ATCAGA-TTAGGGTTTCAAACCCTAA
44553 TCCCCTAACT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
24 9 0.12
25 63 0.88
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:47869 original size:17 final size:17
Alignment explanation
Indices: 47847--47890 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
47837 GCATGTGAAA
*
47847 TAGAATTTAGGTGCAGT
1 TAGAATTTAAGTGCAGT
47864 TAGAATTTAAGTGCAGT
1 TAGAATTTAAGTGCAGT
47881 TAGAATTTAA
1 TAGAATTTAA
47891 TTAATTTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (17 bp):
TAGAATTTAAGTGCAGT
Found at i:57870 original size:7 final size:6
Alignment explanation
Indices: 57849--57901 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
57839 TATTACACTT
* *
57849 AAAAGA AAAAAA AAAAGGAA AAAAGA GAAAGA AAGAAGA AAAATGA AAAAGA
1 AAAAGA AAAAGA AAAA-G-A AAAAGA AAAAGA AA-AAGA AAAA-GA AAAAGA
57901 A
1 A
57902 GAAAATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 21 0.54
7 13 0.33
8 5 0.13
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:57897 original size:26 final size:27
Alignment explanation
Indices: 57850--57905 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
57840 ATTACACTTA
57850 AAAGAAAAAAAAAAAGGAAAAAAG-AG
1 AAAGAAAAAAAAAAAGGAAAAAAGAAG
* *
57876 AAAGAAAGAAGAAAAATG-AAAAAGAAG
1 AAAGAAA-AAAAAAAAGGAAAAAAGAAG
57903 AAA
1 AAA
57906 ATTAATAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (27 bp):
AAAGAAAAAAAAAAAGGAAAAAAGAAG
Found at i:57899 original size:20 final size:20
Alignment explanation
Indices: 57849--57906 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
57839 TATTACACTT
57849 AAAAGAAAAA-AAAAAAGGAA
1 AAAAGAAAAAGAAAAAAGG-A
* *
57869 AAAAGAGAAAGAAAGAA-GA
1 AAAAGAAAAAGAAAAAAGGA
57888 AAAATGAAAAAGAAGAAAA
1 AAAA-GAAAAAGAA-AAAA
57907 TTAATAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 5 0.16
20 18 0.58
21 8 0.26
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAAAGGA
Found at i:57900 original size:13 final size:12
Alignment explanation
Indices: 57849--57901 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
57839 TATTACACTT
*
57849 AAAAGAAAAAAA
1 AAAAGAAAAAGA
57861 AAAAGGAAAAAAGA
1 AAAA-G-AAAAAGA
*
57875 GAAAGAAAGAAGA
1 AAAAGAAA-AAGA
57888 AAAATGAAAAAGA
1 AAAA-GAAAAAGA
57901 A
1 A
57902 GAAAATTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.21
13 14 0.41
14 13 0.38
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:59357 original size:3 final size:3
Alignment explanation
Indices: 59343--59383 Score: 64
Period size: 3 Copynumber: 13.0 Consensus size: 3
59333 ATATTTAATT
59343 TTA TTAA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
59384 AATATATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:59359 original size:13 final size:12
Alignment explanation
Indices: 59343--59383 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
59333 ATATTTAATT
59343 TTATTAATTATTA
1 TTATT-ATTATTA
59356 TTATTTATTATTA
1 TTA-TTATTATTA
59369 TTATTATTATTA
1 TTATTATTATTA
59381 TTA
1 TTA
59384 AATATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.44
13 13 0.48
14 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:59543 original size:25 final size:25
Alignment explanation
Indices: 59512--59604 Score: 152
Period size: 25 Copynumber: 3.7 Consensus size: 25
59502 AACCAAACCC
*
59512 ATCAGATTATGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
59537 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
59562 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
59587 AACA-ATTTAGGGTTTCAA
1 ATCAGA-TTAGGGTTTCAA
59605 CCTAATCCCC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 1 0.02
25 64 0.98
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:61946 original size:15 final size:16
Alignment explanation
Indices: 61916--61953 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
61906 GTAGACCAAA
61916 ATTTTGTCTATAAAATT
1 ATTTT-TCTATAAAATT
61933 ATTTTTCT-TAAAATT
1 ATTTTTCTATAAAATT
61948 ATTTTT
1 ATTTTT
61954 AAAAGACGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
16 3 0.14
17 5 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTTTCTATAAAATT
Found at i:66830 original size:20 final size:20
Alignment explanation
Indices: 66805--66851 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
66795 TATTTCTTGG
66805 TAATCTTTTATTCCCACTGA
1 TAATCTTTTATTCCCACTGA
*
66825 TAATCTTTTATTCTCACTGA
1 TAATCTTTTATTCCCACTGA
66845 TAATCTT
1 TAATCTT
66852 ACATTCTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.49
Consensus pattern (20 bp):
TAATCTTTTATTCCCACTGA
Found at i:66857 original size:20 final size:20
Alignment explanation
Indices: 66814--66858 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66804 GTAATCTTTT
* **
66814 ATTCCCACTGATAATCTTTT
1 ATTCTCACTGATAATCTTAC
66834 ATTCTCACTGATAATCTTAC
1 ATTCTCACTGATAATCTTAC
66854 ATTCT
1 ATTCT
66859 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.44
Consensus pattern (20 bp):
ATTCTCACTGATAATCTTAC
Done.