Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002469.1 Hibiscus syriacus cultivar Beakdansim tig00005049_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: 84073
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:3161 original size:2 final size:2
Alignment explanation
Indices: 3156--3181 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3146 ATATATATAT
3156 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
3182 TCACACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5603 original size:18 final size:18
Alignment explanation
Indices: 5582--5616 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5572 TAAAGGTCAA
5582 AATAAATATAAACAAATG
1 AATAAATATAAACAAATG
*
5600 AATAAATCTAAACAAAT
1 AATAAATATAAACAAAT
5617 CTATTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAATATAAACAAATG
Found at i:13255 original size:119 final size:119
Alignment explanation
Indices: 13044--13270 Score: 454
Period size: 119 Copynumber: 1.9 Consensus size: 119
13034 AGGAATTTTG
13044 CCTTACCGGAGGAAATTTATGACATTTTCTATTCCAAGTTTTTCAATATTTCCCAGAATTGAATG
1 CCTTACCGGAGGAAATTTATGACATTTTCTATTCCAAGTTTTTCAATATTTCCCAGAATTGAATG
13109 TGCTTTTATTATGTTTCCATGGCTGGCATTGCACATTTTGCTTTTATTATGTTT
66 TGCTTTTATTATGTTTCCATGGCTGGCATTGCACATTTTGCTTTTATTATGTTT
13163 CCTTACCGGAGGAAATTTATGACATTTTCTATTCCAAGTTTTTCAATATTTCCCAGAATTGAATG
1 CCTTACCGGAGGAAATTTATGACATTTTCTATTCCAAGTTTTTCAATATTTCCCAGAATTGAATG
13228 TGCTTTTATTATGTTTCCATGGCTGGCATTGCACATTTTGCTT
66 TGCTTTTATTATGTTTCCATGGCTGGCATTGCACATTTTGCTT
13271 AAATATTTTT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 108 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (119 bp):
CCTTACCGGAGGAAATTTATGACATTTTCTATTCCAAGTTTTTCAATATTTCCCAGAATTGAATG
TGCTTTTATTATGTTTCCATGGCTGGCATTGCACATTTTGCTTTTATTATGTTT
Found at i:15206 original size:23 final size:21
Alignment explanation
Indices: 15178--15220 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
15168 GATATAAAAA
15178 TTAT-TTTTTATTAAATGTTTT
1 TTATATTTTTATTAAAT-TTTT
*
15199 TTATATTTTTATTTAATTTTT
1 TTATATTTTTATTAAATTTTT
15220 T
1 T
15221 AAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTTT
Found at i:21246 original size:6 final size:6
Alignment explanation
Indices: 21235--21265 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
21225 TCGAAGACAC
21235 CTATTA CTATTA CTATTA CTATTA CTATTA C
1 CTATTA CTATTA CTATTA CTATTA CTATTA C
21266 CACGACCACG
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:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (6 bp):
CTATTA
Found at i:21273 original size:6 final size:6
Alignment explanation
Indices: 21264--21302 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
21254 TATTACTATT
21264 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
21303 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:22302 original size:2 final size:2
Alignment explanation
Indices: 22295--22325 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22285 ATCTTGCACC
22295 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22326 CAGCTGCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23401 original size:12 final size:12
Alignment explanation
Indices: 23384--23416 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23374 AACGGGTACT
23384 AAAATAAACCAA
1 AAAATAAACCAA
23396 AAAATAAACCAA
1 AAAATAAACCAA
*
23408 AAACTAAAC
1 AAAATAAAC
23417 GTTAGGTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.73, C:0.18, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAATAAACCAA
Found at i:40694 original size:26 final size:25
Alignment explanation
Indices: 40664--40721 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
40654 TATCTAATAA
40664 TATATATATATATATAAT-TTTATTT
1 TATATATATATATATAATATTT-TTT
* * *
40689 TCATATATGTTTTTATAATATTTTTT
1 T-ATATATATATATATAATATTTTTT
40715 TATATAT
1 TATATAT
40722 TGTGAGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.25
26 18 0.64
27 3 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TATATATATATATATAATATTTTTT
Found at i:40831 original size:32 final size:31
Alignment explanation
Indices: 40795--40856 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
40785 TCGAGGTAAA
*
40795 TTATGTGTCTAGTATTTAAATTGTTAATTTTG
1 TTATGT-TCTAGTACTTAAATTGTTAATTTTG
* * *
40827 TTATGTTTTTGTACTTAAATTTTTAATTTT
1 TTATGTTCTAGTACTTAAATTGTTAATTTT
40857 TTAAAATCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.61
Consensus pattern (31 bp):
TTATGTTCTAGTACTTAAATTGTTAATTTTG
Found at i:42406 original size:49 final size:49
Alignment explanation
Indices: 42349--42445 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
42339 TCTGTAACTG
42349 TGTATCTTTTACTGTTATATAGTCAATAGAATTCATTTTATGTTTTTTC
1 TGTATCTTTTACTGTTATATAGTCAATAGAATTCATTTTATGTTTTTTC
42398 TGTATCTTTTACTGTTATATAGTCAATAGAATTCATTTTATGTTTTTT
1 TGTATCTTTTACTGTTATATAGTCAATAGAATTCATTTTATGTTTTTT
42446 TCTCTTTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (49 bp):
TGTATCTTTTACTGTTATATAGTCAATAGAATTCATTTTATGTTTTTTC
Found at i:46831 original size:18 final size:19
Alignment explanation
Indices: 46789--46828 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
46779 TTTAGTTCAC
*
46789 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATTACCAG-G
46809 GGAATGTAAGATTACCAGG
1 GGAATGTAAGATTACCAGG
46828 G
1 G
46829 AATAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:47003 original size:22 final size:21
Alignment explanation
Indices: 46973--47023 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
46963 AACAAGTTGG
* *
46973 AAAATATTTATATATTTTCTTT
1 AAAAAATTTATATAATTT-TTT
46995 AAAAAATTTATATAATTTTTT
1 AAAAAATTTATATAATTTTTT
*
47016 ACAAAATT
1 AAAAAATT
47024 GAAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAAAATTTATATAATTTTTT
Found at i:47626 original size:18 final size:18
Alignment explanation
Indices: 47599--47633 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47589 TGTGAAAGTC
*
47599 AATTTTTATGAAAATTTA
1 AATTTATATGAAAATTTA
47617 AATTTATATGAAAATTT
1 AATTTATATGAAAATTT
47634 TAAACATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AATTTATATGAAAATTTA
Found at i:55593 original size:24 final size:24
Alignment explanation
Indices: 55547--55601 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
55537 AAAAAATACC
* *
55547 AAAAGACAGAAGACACTGTGTCAT
1 AAAAGACAGAAGAAACTGAGTCAT
55571 AAAAGACAGAAGAAAAC-GAGTCAT
1 AAAAGACAGAAG-AAACTGAGTCAT
55595 -AAAGACA
1 AAAAGACA
55602 AATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.55, C:0.15, G:0.20, T:0.11
Consensus pattern (24 bp):
AAAAGACAGAAGAAACTGAGTCAT
Found at i:56307 original size:112 final size:112
Alignment explanation
Indices: 56110--56508 Score: 703
Period size: 112 Copynumber: 3.6 Consensus size: 112
56100 TTGTCGGTTT
* * * *
56110 GTGTCAATACTTTATAAAAATATATTGATCTATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
56175 GGTATATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
56222 GTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
56287 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATACATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
56334 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC-AGATAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAG-TAAAAAAATGACAAAAC
56398 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
56446 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAAC
56509 AGGTAAAGCG
Statistics
Matches: 275, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
111 17 0.06
112 257 0.93
113 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:56829 original size:70 final size:70
Alignment explanation
Indices: 56716--56873 Score: 262
Period size: 70 Copynumber: 2.3 Consensus size: 70
56706 GGATATGTTG
* *
56716 AAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAACAGAAGAAATTATAGCG
1 AAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAACAAAAGAAATTATAGCA
56781 CCAAT
66 CCAAT
* *
56786 AAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCA
1 AAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAACAAAAGAAATTATAGCA
*
56851 TCAAT
66 CCAAT
*
56856 AAAGTATCGATACTTTAT
1 AAAGTGTCGATACTTTAT
56874 AAAAATGTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 82 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (70 bp):
AAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAACAAAAGAAATTATAGCA
CCAAT
Found at i:58376 original size:28 final size:28
Alignment explanation
Indices: 58344--58437 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
58334 GATAAATGTT
*
58344 TTTAAAATACAAATTATATTATTCGAAA
1 TTTAAAATAAAAATTATATTATTCGAAA
58372 TTTAAAATAAAAATAAAAATAATATTATTC-AAA
1 TTTAAAATAAAAAT-----T-ATATTATTCGAAA
* *
58405 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATAAAAATTATATTATTCGAAA
58433 TTTAA
1 TTTAA
58438 CATTAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
27 8 0.14
28 22 0.39
33 17 0.30
34 9 0.16
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (28 bp):
TTTAAAATAAAAATTATATTATTCGAAA
Found at i:58406 original size:33 final size:34
Alignment explanation
Indices: 58347--58418 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
58337 AAATGTTTTT
* *
58347 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATAATATTATTCGAAATTTAAAATA
58381 AAAATAAAAATAATATTATTC-AAATTTAAAATA
1 AAAATAAAAATAATATTATTCGAAATTTAAAATA
*
58414 TAAAT
1 AAAAT
58419 TATAGTATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (34 bp):
AAAATAAAAATAATATTATTCGAAATTTAAAATA
Found at i:58444 original size:27 final size:27
Alignment explanation
Indices: 58381--58446 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
58371 ATTTAAAATA
* * *
58381 AAAATAAAAATAATATTATTCAAATTT
1 AAAATATAAATTATAGTATTCAAATTT
58408 AAAATATAAATTATAGTATTCGAAATTT
1 AAAATATAAATTATAGTATTC-AAATTT
*
58436 AACAT-TAAATT
1 AAAATATAAATT
58447 TCAACTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (27 bp):
AAAATATAAATTATAGTATTCAAATTT
Found at i:61914 original size:34 final size:34
Alignment explanation
Indices: 61874--61956 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
61864 CCCGAACCCG
*
61874 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
*
61908 AAAATATTATATATATAATTAATATATAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
*
61942 --TATATTATATATATA
1 AAAATATTATATATATA
61957 TATAATCGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 14 0.30
34 32 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:62027 original size:13 final size:14
Alignment explanation
Indices: 62009--62037 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61999 CCGAACCCGA
62009 CCTG-AAAAAAATC
1 CCTGAAAAAAAATC
62022 CCTGAAAAAAAATC
1 CCTGAAAAAAAATC
62036 CC
1 CC
62038 CAAACCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.52, C:0.28, G:0.07, T:0.14
Consensus pattern (14 bp):
CCTGAAAAAAAATC
Found at i:62625 original size:21 final size:22
Alignment explanation
Indices: 62583--62625 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62573 TTGTATGTGG
*
62583 TTTAAAAAAAAGGATTACATTA
1 TTTAAAAAAAAGGATTAAATTA
*
62605 TTTAAAAAAAGGGA-TAAATTA
1 TTTAAAAAAAAGGATTAAATTA
62626 AATAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (22 bp):
TTTAAAAAAAAGGATTAAATTA
Found at i:63234 original size:17 final size:18
Alignment explanation
Indices: 63212--63251 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
63202 TTTAATCTCG
63212 TAATTTTACATTTTATT-
1 TAATTTTACATTTTATTA
**
63229 TAATTTTATTTTTTATTA
1 TAATTTTACATTTTATTA
63247 TAATT
1 TAATT
63252 ATAATTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TAATTTTACATTTTATTA
Found at i:77419 original size:2 final size:2
Alignment explanation
Indices: 77412--77442 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
77402 ATTATAACAT
77412 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77443 TATTGTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77742 original size:12 final size:11
Alignment explanation
Indices: 77677--77742 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
77667 GGTTATATTG
77677 AATAAAATTAA
1 AATAAAATTAA
* *
77688 AATTAAGACTAA
1 AA-TAAAATTAA
*
77700 TTAATAAAATGAA
1 --AATAAAATTAA
*
77713 TA-AAAATTAA
1 AATAAAATTAA
77723 AATAAAATTAAA
1 AATAAAATT-AA
77735 AATAAAAT
1 AATAAAAT
77743 ATACAATTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
10 8 0.19
11 9 0.21
12 17 0.40
13 6 0.14
14 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (11 bp):
AATAAAATTAA
Found at i:78376 original size:16 final size:16
Alignment explanation
Indices: 78355--78385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78345 TTTAGTCAAA
*
78355 GATTAAATTAATATAT
1 GATTAAAGTAATATAT
78371 GATTAAAGTAATATA
1 GATTAAAGTAATATA
78386 CAACCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
GATTAAAGTAATATAT
Found at i:78478 original size:2 final size:2
Alignment explanation
Indices: 78473--78512 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
78463 TTTTCTTTGA
78473 AT AT AT AT A- AT AT AT AT AT -T 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 AT AT
78513 GTGTGTGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82796 original size:2 final size:2
Alignment explanation
Indices: 82787--82815 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
82777 TGTGTGTGTC
82787 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82816 CAAGAACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.