Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002024.1 Hibiscus syriacus cultivar Beakdansim tig00004133_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: 76685
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Found at i:114 original size:23 final size:21
Alignment explanation
Indices: 82--150 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
72 ATAAATAGGT
* *
82 TAATTAAATATATATTTTTAA
1 TAATTTAATATATAATTTTAA
*
103 TAATCTTGAATATTTAATTTTAA
1 TAAT-TT-AATATATAATTTTAA
126 TTAA-TTAA-ATATAATTTTAA
1 -TAATTTAATATATAATTTTAA
146 TAATT
1 TAATT
151 GAAATAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.08
20 12 0.30
21 6 0.15
22 3 0.08
23 13 0.32
24 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
TAATTTAATATATAATTTTAA
Found at i:140 original size:20 final size:20
Alignment explanation
Indices: 82--156 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 20
72 ATAAATAGGT
82 TAATT-AAATATATATTTTTAA
1 TAATTGAAATATA-A-TTTTAA
*
103 TAATCTTGAATATTTAATTTTAA
1 TAA--TTGAA-ATATAATTTTAA
126 TTAATT-AAATATAATTTTAA
1 -TAATTGAAATATAATTTTAA
146 TAATTGAAATA
1 TAATTGAAATA
157 ATAAACCCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
19 5 0.11
20 16 0.35
21 5 0.11
22 2 0.04
23 8 0.17
24 6 0.13
25 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATTGAAATATAATTTTAA
Found at i:220 original size:18 final size:18
Alignment explanation
Indices: 197--236 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
187 ATAGGATTAT
197 TAATTTCAATTAATT-AAA
1 TAATTT-AATTAATTGAAA
*
215 TAATTTAATTATTTGAAA
1 TAATTTAATTAATTGAAA
233 TAAT
1 TAAT
237 AAAACCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTTAATTAATTGAAA
Found at i:9721 original size:31 final size:30
Alignment explanation
Indices: 9686--9743 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
9676 GGAGTGTTGA
* *
9686 AGTTAAGAGTTAGTTAGAAAGTTTGTTAATT
1 AGTTAAGAGTCAGTTAG-AAGTTAGTTAATT
*
9717 AGTTAATAGTCAGTTAGAAGTTAGTTA
1 AGTTAAGAGTCAGTTAGAAGTTAGTTA
9744 GTGCATTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (30 bp):
AGTTAAGAGTCAGTTAGAAGTTAGTTAATT
Found at i:14313 original size:172 final size:168
Alignment explanation
Indices: 13895--14324 Score: 501
Period size: 170 Copynumber: 2.5 Consensus size: 168
13885 GATATCAACA
* * *
13895 CAAACAGAC-TTCTGCTGCAA-ATAAAATTCAGAGCCATTTCCGGAGTTGTCCTTTAAGGAGAAA
1 CAAACAGACATT-TGCTGCAACA-AAAATTCAGAGCCATTTCCGG-GTTGGCATTTAAGGAGAAG
* * *
13958 TTTTATGAAGCAAAAGCAAGCAATAATAAAAATTCAAAGTATTTCCGACTACTGAAATCTTGGAG
63 TTTTATGAAGCAGAAGCAAGCAATAATAAAAATCCAAAGTATTTCCGACAACTGAAATCTTGGAG
* * ** *
14023 GCCTTTCAGACTGCTCAGAAGGATTTGTCTGTAGATATATC
128 GCCTTCCAGACTGCTCAGAAGGATTTGCCCATAGATACATC
* *
14064 CAAAATCAGACATTTGCTGCAAC-TAAATTCAGAGCCATTACCAGGGTTGGCATTTAAGGAGAAG
1 C-AAA-CAGACATTTGCTGCAACAAAAATTCAGAGCCATTTCC-GGGTTGGCATTTAAGGAGAAG
* * *
14128 TTTTATGAAGCAGAAGCAAGCTATAAT-AAAGTCCAAAGTAATTAT-CGACAACTGAAATGTTGG
63 TTTTATGAAGCAGAAGCAAGCAATAATAAAAATCCAAAGT-ATT-TCCGACAACTGAAATCTTGG
** * *
14191 AGGGCCTTCCAGGTTGCTCAGAAGGAATTTGCCCATAGATCCCTC
126 A-GGCCTTCCAGACTGCTCAGAAGG-ATTTGCCCATAGATACATC
* * *
14236 CAAAGCAGACATTTGCTGCAACAAAAATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGGAGTAGT
1 CAAA-CAGACATTTGCTGCAACAAAAATTCAGAGCCATTTCCG-GGTTGGCATTTAAGGAGAAGT
*
14301 TTTATCAAGCAGAAGCAAGCAATA
64 TTTATGAAGCAGAAGCAAGCAATA
14325 CTACCTATTC
Statistics
Matches: 222, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
169 11 0.05
170 81 0.36
171 57 0.26
172 73 0.33
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (168 bp):
CAAACAGACATTTGCTGCAACAAAAATTCAGAGCCATTTCCGGGTTGGCATTTAAGGAGAAGTTT
TATGAAGCAGAAGCAAGCAATAATAAAAATCCAAAGTATTTCCGACAACTGAAATCTTGGAGGCC
TTCCAGACTGCTCAGAAGGATTTGCCCATAGATACATC
Found at i:26933 original size:2 final size:2
Alignment explanation
Indices: 26926--26950 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26916 TCGATCAAAT
26926 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 T
26951 TGCAAGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30194 original size:30 final size:30
Alignment explanation
Indices: 30160--30232 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
30150 TGATCAAATT
*
30160 GAATTAGTTCGGTTAATTCGGTCAGTCACC
1 GAATTAGTTCGGTTAATTCGGTCAGCCACC
*
30190 GAATTAGTTCGGTTAATTCGGTCGGCCACC
1 GAATTAGTTCGGTTAATTCGGTCAGCCACC
30220 GAATTAGTTCGGT
1 GAATTAGTTCGGT
30233 CGAAGAACAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (30 bp):
GAATTAGTTCGGTTAATTCGGTCAGCCACC
Found at i:30484 original size:17 final size:17
Alignment explanation
Indices: 30464--30502 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
30454 TGAATCAAAT
30464 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
30481 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
30498 -AATTA
1 TAATTA
30503 ATTGTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:32072 original size:23 final size:23
Alignment explanation
Indices: 32026--32089 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
32016 AGTGTTATAT
* *
32026 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAATATATTAACTAG
* *
32049 TATATTTTAAATATCTTTACTAG
1 TATATTTTAAATATATTAACTAG
32072 TATATGTTTTAAATATAT
1 TATA--TTTTAAATATAT
32090 AAATAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 23 0.68
25 11 0.32
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTAAATATATTAACTAG
Found at i:32112 original size:28 final size:29
Alignment explanation
Indices: 32072--32175 Score: 92
Period size: 29 Copynumber: 3.6 Consensus size: 29
32062 TCTTTACTAG
*
32072 TATATGTT-TTAAATATATAAATAA-TAT
1 TATATATTATTAAATATATAAATAATTAT
*
32099 TAT-TCATTATTAAATATATAAAAAATTTAT
1 TATAT-ATTATTAAATATATAAATAA-TTAT
* *
32129 TATATATTATTAAA-ATAAAAATATAATAT
1 TATATATTATTAAATATATAAATA-ATTAT
32158 CT-TATATTATTACAATAT
1 -TATATATTATTA-AATAT
32176 TATTGATTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 5 0.08
28 15 0.24
29 20 0.32
30 19 0.30
31 3 0.05
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (29 bp):
TATATATTATTAAATATATAAATAATTAT
Found at i:32200 original size:52 final size:51
Alignment explanation
Indices: 32131--32228 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 51
32121 AAATTTATTA
*
32131 TATATTATTAAAATAAAAATATAATATCTTATATTATTA-CAATATTATTGAT
1 TATATTATTAAAATAAAAATATAATA--TTATATTATTATAAATATTATTGAT
*
32183 TATATTATTAAACTAAAAATATAATATTATATTATTATAAATATTA
1 TATATTATTAAAATAAAAATATAATATTATATTATTATAAATATTA
32229 ATAAATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 11 0.26
51 7 0.16
52 25 0.58
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (51 bp):
TATATTATTAAAATAAAAATATAATATTATATTATTATAAATATTATTGAT
Found at i:32224 original size:22 final size:20
Alignment explanation
Indices: 32199--32247 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
32189 ATTAAACTAA
*
32199 AAATATAATATTATATTATTAT
1 AAATATAATA-AATA-TATTAT
*
32221 AAATATTAATAAATATATTTT
1 AAATA-TAATAAATATATTAT
32242 AAATAT
1 AAATAT
32248 TTTAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATAATAAATATATTAT
Found at i:32236 original size:27 final size:27
Alignment explanation
Indices: 32131--32225 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
32121 AAATTTATTA
32131 TATATTATTAAAATAAAAATATAATATCT
1 TATATTATTAAAATAAAAATATAATA--T
* *
32160 TATATTATTACAAT----AT-TATTGAT
1 TATATTATTAAAATAAAAATATAAT-AT
*
32183 TATATTATTAAACTAAAAATATAATAT
1 TATATTATTAAAATAAAAATATAATAT
32210 TATATTATTATAAATA
1 TATATTATTA-AAATA
32226 TTAATAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
23 13 0.25
24 3 0.06
25 3 0.06
27 14 0.26
28 7 0.13
29 13 0.25
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (27 bp):
TATATTATTAAAATAAAAATATAATAT
Found at i:32457 original size:14 final size:14
Alignment explanation
Indices: 32438--32464 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32428 ATGAATTACG
32438 TTCCGGAAAACGAT
1 TTCCGGAAAACGAT
32452 TTCCGGAAAACGA
1 TTCCGGAAAACGA
32465 ATTACGTGAA
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:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (14 bp):
TTCCGGAAAACGAT
Found at i:36558 original size:2 final size:2
Alignment explanation
Indices: 36551--36585 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
36541 ACAGATAGTT
*
36551 TA TA TA TA TA AA 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 TA TA T
36586 CATAGTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:36978 original size:20 final size:21
Alignment explanation
Indices: 36950--37011 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
36940 TCGGTAGAAC
*
36950 GTTACCTAAAATATTAAT-TT
1 GTTATCTAAAATATTAATCTT
* *
36970 GTTATCTAATATGTTAATCTT
1 GTTATCTAAAATATTAATCTT
* *
36991 GTTATCTAATATGTTAATCTT
1 GTTATCTAAAATATTAATCTT
37012 TTAACTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (21 bp):
GTTATCTAAAATATTAATCTT
Found at i:36994 original size:21 final size:21
Alignment explanation
Indices: 36963--37011 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
36953 ACCTAAAATA
36963 TTAAT-TTGTTATCTAATATG
1 TTAATCTTGTTATCTAATATG
36983 TTAATCTTGTTATCTAATATG
1 TTAATCTTGTTATCTAATATG
37004 TTAATCTT
1 TTAATCTT
37012 TTAACTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (21 bp):
TTAATCTTGTTATCTAATATG
Found at i:38334 original size:19 final size:18
Alignment explanation
Indices: 38310--38345 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38300 GTAACTTTTG
38310 AAATTTCACTTTAAATATA
1 AAATTTCA-TTTAAATATA
*
38329 AAATTTTATTTAAATAT
1 AAATTTCATTTAAATAT
38346 TTTTTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTCATTTAAATATA
Found at i:40679 original size:2 final size:2
Alignment explanation
Indices: 40672--40706 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
40662 TTCATTTCAA
40672 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40707 TTATTCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:46097 original size:2 final size:2
Alignment explanation
Indices: 46090--46120 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46080 TTTGCATGGG
46090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46121 ACTAGATACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51885 original size:2 final size:2
Alignment explanation
Indices: 51842--51876 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
51832 ATGCATGCAT
51842 TA TA 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 TA TA T
51877 GTGTATATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61599 original size:19 final size:19
Alignment explanation
Indices: 61575--61625 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
61565 TTAATAGTTG
61575 TTAATATCAATTGATCAAT-
1 TTAATATCAATTGAT-AATA
*
61594 TTAATA-CAAATCGATAATA
1 TTAATATC-AATTGATAATA
61613 TTAATGATCAATT
1 TTAAT-ATCAATT
61626 TGTTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 4 0.15
19 17 0.65
20 4 0.15
21 1 0.04
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (19 bp):
TTAATATCAATTGATAATA
Found at i:61622 original size:31 final size:32
Alignment explanation
Indices: 61576--61646 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
61566 TAATAGTTGT
*
61576 TAATATCAATTGATCAATTTAATACAAATCGA
1 TAATATCAATTGATCAATTTAATACAAATCAA
* ** *
61608 TAATATTAA-TGATCAATTTGTTATAAATCAA
1 TAATATCAATTGATCAATTTAATACAAATCAA
61639 TAATATCA
1 TAATATCA
61647 TTAATTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 25 0.76
32 8 0.24
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (32 bp):
TAATATCAATTGATCAATTTAATACAAATCAA
Found at i:66459 original size:2 final size:2
Alignment explanation
Indices: 66452--66480 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
66442 TTTGTCCTCT
66452 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66481 GCTGCATAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70715 original size:12 final size:11
Alignment explanation
Indices: 70694--70724 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
70684 TGTGATGTTT
70694 TTTAATTATTA
1 TTTAATTATTA
70705 TTTATATTATTA
1 TTTA-ATTATTA
70717 TTTAATTA
1 TTTAATTA
70725 GTTTTAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:71316 original size:21 final size:21
Alignment explanation
Indices: 71292--71336 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
71282 ATAATTATTT
71292 AATTATCTTAA-ATTAAAATAA
1 AATTAT-TTAATATTAAAATAA
* *
71313 AATTATTTAATTTTAAATTAA
1 AATTATTTAATATTAAAATAA
71334 AAT
1 AAT
71337 AAGTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTATTTAATATTAAAATAA
Found at i:71328 original size:26 final size:29
Alignment explanation
Indices: 71284--71338 Score: 89
Period size: 26 Copynumber: 2.0 Consensus size: 29
71274 ATATATAAAT
71284 AATTATTTAATTATCTTAAATTAAAATAA
1 AATTATTTAATTATCTTAAATTAAAATAA
71313 AATTATTTAA-T-T-TTAAATTAAAATAA
1 AATTATTTAATTATCTTAAATTAAAATAA
71339 GTTAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 14 0.54
27 1 0.04
28 1 0.04
29 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATTATTTAATTATCTTAAATTAAAATAA
Found at i:71343 original size:21 final size:21
Alignment explanation
Indices: 71304--71343 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
71294 TTATCTTAAA
* *
71304 TTAAAATAAAATTATTTAATT
1 TTAAAATAAAATAAGTTAATT
*
71325 TTAAATTAAAATAAGTTAA
1 TTAAAATAAAATAAGTTAA
71344 ATAATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TTAAAATAAAATAAGTTAATT
Done.