Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014720.1 Kokia drynarioides strain JFW-HI SEQ_129759, 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: 41513
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:2438 original size:17 final size:16
Alignment explanation
Indices: 2363--2428 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 16
2353 CCTAATAAAC
**
2363 TTAAATTTATTTTTATT
1 TTAAATTTAAATTTA-T
*
2380 TTAAATTTAAATTTGGT
1 TTAAATTTAAATTT-AT
* *
2397 TGAAATTTAAGTTTAT
1 TTAAATTTAAATTTAT
2413 TATAAATTTAAATTTA
1 T-TAAATTTAAATTTA
2429 AAGTTTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 2 0.05
17 37 0.95
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:4214 original size:29 final size:30
Alignment explanation
Indices: 4180--4546 Score: 279
Period size: 29 Copynumber: 12.5 Consensus size: 30
4170 TAAACTTTCT
4180 AAAAATTACCATTTTACCCCCGAA-CTTCC
1 AAAAATTACCATTTTACCCCCGAACCTTCC
* *
4209 AAAAA-TCCCATTTTTGA-CCCCGAACCTTCT
1 AAAAATTACCA-TTTT-ACCCCCGAACCTTCC
*
4239 AAAAATTACCATTTTACTCCCGAA-CTTCC
1 AAAAATTACCATTTTACCCCCGAACCTTCC
* * *
4268 AAAAA-TCCCATTTTTAACCCCGAACCTTCT
1 AAAAATTACCA-TTTTACCCCCGAACCTTCC
*
4298 AAAAATTACCATTTTACCCTCGAA-CTTCC
1 AAAAATTACCATTTTACCCCCGAACCTTCC
*
4327 AAAAA-T-CTCATTTTTGA-CCCCGAACCTTCT
1 AAAAATTAC-CA-TTTT-ACCCCCGAACCTTCC
* * * *
4357 AAAAGTTACCGTTTTACCCTC-AAACTTCC
1 AAAAATTACCATTTTACCCCCGAACCTTCC
** *
4386 AAAAA-CCCCATTTTTGA-CCCCGAACCTTCT
1 AAAAATTACCA-TTTT-ACCCCCGAACCTTCC
* *
4416 AAAAATTACCATTTTACCCTC-AAACTTCC
1 AAAAATTACCATTTTACCCCCGAACCTTCC
* *
4445 AAAAATCTA--TTTTTGA-CCCCGAACCTTCT
1 AAAAAT-TACCATTTT-ACCCCCGAACCTTCC
*
4474 AAAAATTACCACTTTACCCCCGAA-CTTCC
1 AAAAATTACCATTTTACCCCCGAACCTTCC
* *
4503 AAAAA-TCCCATTTTTGA-CTCCGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCCCGAACCTTCC
*
4533 -AAAACTACCATTTT
1 AAAAATTACCATTTT
4547 GCCCTCGTGC
Statistics
Matches: 265, Mismatches: 43, Indels: 60
0.72 0.12 0.16
Matches are distributed among these distances:
27 1 0.00
28 26 0.10
29 127 0.48
30 97 0.37
31 13 0.05
32 1 0.00
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (30 bp):
AAAAATTACCATTTTACCCCCGAACCTTCC
Found at i:4268 original size:59 final size:59
Alignment explanation
Indices: 4176--4553 Score: 591
Period size: 59 Copynumber: 6.4 Consensus size: 59
4166 ACTCTAAACT
*
4176 TTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
*
4235 TTCTAAAAATTACCATTTTACTCC-CGAACTTCCAAAAATCCCATTTTTAACCCCGAACC
1 TTCTAAAAATTACCATTTTAC-CCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
*
4294 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCTCATTTTTGACCCCGAACC
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
* * * *
4353 TTCTAAAAGTTACCGTTTTACCCTCAAACTTCCAAAAACCCCATTTTTGACCCCGAACC
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
* *
4412 TTCTAAAAATTACCATTTTACCCTCAAACTTCCAAAAAT-CTATTTTTGACCCCGAACC
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
* * *
4470 TTCTAAAAATTACCACTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACTCCGAACC
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
* * *
4529 TTC-CAAAACTACCATTTTGCCCTCG
1 TTCTAAAAATTACCATTTTACCCTCG
4554 TGCATCCGAA
Statistics
Matches: 294, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 73 0.25
59 219 0.74
60 2 0.01
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (59 bp):
TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
Found at i:7499 original size:20 final size:20
Alignment explanation
Indices: 7474--7519 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7464 AATAAGGCTG
*
7474 AAGAAGATCTGAGCAGCCTA
1 AAGAAGATCTGAGCAACCTA
*
7494 AAGAAGATTTGAGCAACCTA
1 AAGAAGATCTGAGCAACCTA
7514 AAGAAG
1 AAGAAG
7520 GACTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (20 bp):
AAGAAGATCTGAGCAACCTA
Found at i:15801 original size:28 final size:27
Alignment explanation
Indices: 15769--15829 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
15759 CAATTTTCAA
* *
15769 TTAATGATTGTTTCCTTTAATCCTCCTT
1 TTAATAATTGTTTCCTTCAATCCT-CTT
*
15797 TTAATAATTGTTTCCTTCGATCCTCTT
1 TTAATAATTGTTTCCTTCAATCCTCTT
15824 TTAATA
1 TTAATA
15830 GAATTCTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.21, C:0.20, G:0.07, T:0.52
Consensus pattern (27 bp):
TTAATAATTGTTTCCTTCAATCCTCTT
Found at i:16552 original size:49 final size:49
Alignment explanation
Indices: 16478--16598 Score: 179
Period size: 49 Copynumber: 2.5 Consensus size: 49
16468 ACCAAATTCG
* **
16478 TCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCGACGCGGTCA
1 TCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGCGACGCAATCA
* *
16527 TTTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGTGACGCAATCA
1 TCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGCGACGCAATCA
* *
16576 TCTTCCTGATAAGATACTGAGAA
1 TCTTCCTGATGAGATACAGAGAA
16599 TAAGACCAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (49 bp):
TCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGCGACGCAATCA
Found at i:16863 original size:193 final size:194
Alignment explanation
Indices: 16524--17197 Score: 845
Period size: 193 Copynumber: 3.4 Consensus size: 194
16514 AGCGACGCGG
* * **
16524 TCATTTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGTGACGCAATCATCTTCCTGATAAG
1 TCATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGACGCGGTCATCTTCC--AT--G
* * *
16589 ATACTGAGAATAAGACCAAACCAAATCCATGCTCGACATGAGCAAATCTTCGAACCATAGCTCCC
62 ATACTGAGAAGAAGACCAAACCAAACCCATGCTCGACATGAGCAAATCTTCGAACCATAGCTTCC
16654 TGATGAGATACTGAGAAGCGTGTCGAAGTAATTAGCTTCCTGATGAGATATGGAGAAGTAGACCA
127 TGATGAGATACTGAGAAGCGTGTCGAAGTAATTAGCTTCCTGATGAGATATGGAGAAGTAGACCA
16719 AAT
192 AAT
* *
16722 TCATCTTCCTGATGAGATATAGAGAAGCGGATTGAAACAAGTGACGCGGTAATCTTCC-TGATAC
1 TCATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGACGCGGTCATCTTCCATGATAC
**
16786 TGAGAAGAAGACCAAACCAAACCCATGCTCGACATGAGCAAATCTTCGAACCATAGCTTCCAAAT
66 TGAGAAGAAGACCAAACCAAACCCATGCTCGACATGAGCAAATCTTCGAACCATAGCTTCCTGAT
*
16851 GAGATACTGAGAAGCGTGTCGAAGTAATTAGCTTCCTGATGAGATACGGAGAAGTAGACCAAAT
131 GAGATACTGAGAAGCGTGTCGAAGTAATTAGCTTCCTGATGAGATATGGAGAAGTAGACCAAAT
* *** *
16915 TCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAACAATGCGGTCATCTTCCTGATGAG
1 TCATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGACGCGGTCATCTTCC--ATGA-
16980 GTACTGAGAAGAAGACCAAACCAAACCCATGCTCGACATGAGCAAATCTTCGAACCACT-GCTTC
63 -TACTGAGAAGAAGACCAAACCAAACCCATGCTCGACATGAGCAAATCTTCGAACCA-TAGCTTC
* * * * ** **
17044 CTGATAAGACACTAAGAGGCAG-GGGGAAGCAATAAATGGTTAGCTTCCAAATGAGATACT-GAG
126 CTGATGAGATACTGAGAAGC-GTGTCGAAG---T-AA---TTAGCTTCCTGATGAGATA-TGGAG
17107 AAGT-GAACCAAAT
182 AAGTAG-ACCAAAT
* * * *
17120 TCGTCTTCCTGATGGGATACAGAGAAGCGGATCGAAACAAGTGACGCGGTCATTTTCCAGATGAG
1 TCATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGACGCGGTCATCTTCC--AT--G
17185 ATACTGAGAAGAA
62 ATACTGAGAAGAA
17198 AGCCAAGTTA
Statistics
Matches: 420, Mismatches: 38, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
193 179 0.43
195 1 0.00
196 3 0.01
198 132 0.31
199 2 0.00
201 1 0.00
202 2 0.00
204 1 0.00
205 97 0.23
207 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (194 bp):
TCATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGACGCGGTCATCTTCCATGATAC
TGAGAAGAAGACCAAACCAAACCCATGCTCGACATGAGCAAATCTTCGAACCATAGCTTCCTGAT
GAGATACTGAGAAGCGTGTCGAAGTAATTAGCTTCCTGATGAGATATGGAGAAGTAGACCAAAT
Found at i:17589 original size:17 final size:16
Alignment explanation
Indices: 17514--17579 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 16
17504 GCCAGTAAAC
**
17514 TTAAATTTATTTTTATT
1 TTAAATTTAAATTTA-T
*
17531 TTAAATTTAAATTTGGT
1 TTAAATTTAAATTT-AT
* *
17548 TGAAATTTAAGTTTAT
1 TTAAATTTAAATTTAT
17564 TATAAATTTAAATTTA
1 T-TAAATTTAAATTTA
17580 AAGTTTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 2 0.05
17 37 0.95
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:19432 original size:59 final size:59
Alignment explanation
Indices: 19340--19890 Score: 754
Period size: 59 Copynumber: 9.4 Consensus size: 59
19330 CTAAACTTTT
* *
19340 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCCGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
* **
19399 TAAAAATTACCATTTTACCCCCGAACTTTCAAAAATAACATTTTTGACCCCGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
*
19458 TAAAAATTACCA-TTTACCCCCAAACTTCCAAAAA-CACCATTTTTGACCCCGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATC-CCATTTTTGACCCCGAACCTTC
* * *
19516 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAACCCCATTTTTGACCCTGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
* * * *
19575 TAAAAATTACCGTTTTACCCCCAAACTTCCAAAAACCCCATTTTTGACCCCAAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
*
19634 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAA-CTCCATTTTTGACCTCGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATC-CCATTTTTGACCCCGAACCTTC
* * * *
19693 TTAAAATTACCATTTTACCCTCGAACTTCCAAAAA-CCTCATTTTTAACCCCAAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCC-CATTTTTGACCCCGAACCTTC
* * * *
19752 TAAAAATTATCATTTTAACCCCGAACTTCCAAAAAT-CCATTTTTAACCCTGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
* ** * *
19810 TAAAAATTACCACTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACTCAGAACCTTC
1 TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
** * *
19869 -CGAAACTACCATTTTGCCCCCG
1 TAAAAATTACCATTTTACCCCCG
19891 TGCATCTGAA
Statistics
Matches: 438, Mismatches: 47, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
58 120 0.27
59 317 0.72
60 1 0.00
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (59 bp):
TAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTC
Found at i:19634 original size:176 final size:175
Alignment explanation
Indices: 19340--19868 Score: 790
Period size: 176 Copynumber: 3.0 Consensus size: 175
19330 CTAAACTTTT
* *
19340 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCCGAACCTTCTAAAAA
1 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAACCCCATTTTTAACCCCGAACCTTCTAAAAA
* *
19405 TTACCATTTTACCCCCGAACTTTCAAAAATAACATTTTTGACCCCGAACCTTCTAAAAATTACCA
66 TTACCATTTTACCCCCGAACTTCCAAAAA-ACCATTTTTGACCCCGAACCTTCTAAAAATTACCA
19470 -TTTACCCCCAAACTTCCAAAAACACCATTTTTGACCCCGAACCTTC
130 CTTTACCCCCAAACTTCCAAAAAC-CCATTTTTGACCCCGAACCTTC
* *
19516 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAACCCCATTTTTGACCCTGAACCTTCTAAAAA
1 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAACCCCATTTTTAACCCCGAACCTTCTAAAAA
* * * *
19581 TTACCGTTTTACCCCCAAACTTCCAAAAACCCCATTTTTGACCCCAAACCTTCTAAAAATTACCA
66 TTACCATTTTACCCCCGAACTTCCAAAAA-ACCATTTTTGACCCCGAACCTTCTAAAAATTACCA
* * *
19646 TTTTACCCCCGAACTTCCAAAAACTCCATTTTTGACCTCGAACCTTC
130 CTTTACCCCCAAACTTCCAAAAAC-CCATTTTTGACCCCGAACCTTC
* * *
19693 TTAAAATTACCATTTTACCCTCGAACTTCCAAAAACCTCATTTTTAACCCCAAACCTTCTAAAAA
1 TAAAAATTACCATTTTACCCTCGAACTTCCAAAAACCCCATTTTTAACCCCGAACCTTCTAAAAA
* * * * *
19758 TTATCATTTTAACCCCGAACTTCCAAAAATCCATTTTTAACCCTGAACCTTCTAAAAATTACCAC
66 TTACCATTTTACCCCCGAACTTCCAAAAAACCATTTTTGACCCCGAACCTTCTAAAAATTACCAC
* * *
19823 TTTACCCCTAAACTTCCAAAAATCCCATTTTTGACTCAGAACCTTC
131 TTTACCCCCAAACTTCCAAAAA-CCCATTTTTGACCCCGAACCTTC
19869 CGAAACTACC
Statistics
Matches: 319, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
176 190 0.60
177 129 0.40
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (175 bp):
TAAAAATTACCATTTTACCCTCGAACTTCCAAAAACCCCATTTTTAACCCCGAACCTTCTAAAAA
TTACCATTTTACCCCCGAACTTCCAAAAAACCATTTTTGACCCCGAACCTTCTAAAAATTACCAC
TTTACCCCCAAACTTCCAAAAACCCATTTTTGACCCCGAACCTTC
Found at i:22128 original size:13 final size:15
Alignment explanation
Indices: 22094--22130 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
22084 AAAAAGTTAT
22094 ATTATTTATTTTTAA
1 ATTATTTATTTTTAA
*
22109 ATGATTT-TTTTT-A
1 ATTATTTATTTTTAA
22122 ATTATTTAT
1 ATTATTTAT
22131 ATGATAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTATTTATTTTTAA
Found at i:36468 original size:25 final size:25
Alignment explanation
Indices: 36431--36559 Score: 119
Period size: 23 Copynumber: 5.4 Consensus size: 25
36421 ACACTAGCGC
36431 GCTCTCTG--ATTAGCAC-GTCTCGT
1 GCTCTCTGTTATTAGCACTGTCT-GT
* *
36454 GCTCTTTGTTATTAGCACTGTGTGT
1 GCTCTCTGTTATTAGCACTGTCTGT
* *
36479 GCTCTCTGTTATTAGCACTTTGTGT
1 GCTCTCTGTTATTAGCACTGTCTGT
* * * *
36504 GCTCTCTG--ACTAGTACTTTGTGT
1 GCTCTCTGTTATTAGCACTGTCTGT
*
36527 GCTCTCTG-T-TTAGCACTGTGTGT
1 GCTCTCTGTTATTAGCACTGTCTGT
36550 GCTCTCTGTT
1 GCTCTCTGTT
36560 GCCCAGCACT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
23 47 0.51
24 1 0.01
25 41 0.45
26 3 0.03
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (25 bp):
GCTCTCTGTTATTAGCACTGTCTGT
Found at i:36558 original size:23 final size:23
Alignment explanation
Indices: 36431--36585 Score: 134
Period size: 25 Copynumber: 6.5 Consensus size: 23
36421 ACACTAGCGC
* *
36431 GCTCTCTGATTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
*
36454 GCTCTTTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
*
36479 GCTCTCTGTTATTAGCACTTTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
** * *
36504 GCTCTCTGACTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
36527 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
36550 GCTCTCTGTTGCCCAGCACT-TATGT
1 GCTCTCTGTT---TAGCACTGTGTGT
36575 GCTCTCTGTTT
1 GCTCTCTGTTT
36586 GTTCCGTATA
Statistics
Matches: 111, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
23 48 0.43
25 54 0.49
26 9 0.08
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:36576 original size:48 final size:45
Alignment explanation
Indices: 36467--36585 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 45
36457 CTTTGTTATT
* *
36467 AGCACTGTGTGTGCTCTCTGTTATTAGCACTTTGTGTGCTCTCTGACT
1 AGCACT-TGTGTGCTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGACC
* *
36515 AGTACTTTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCC
1 AGCAC-TTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTC---TGACC
*
36564 AGCACTTATGTGCTCTCTGTTT
1 AGCACTTGTGTGCTCTCTGTTT
36586 GTTCCGTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
46 19 0.31
47 1 0.02
48 33 0.54
49 8 0.13
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.43
Consensus pattern (45 bp):
AGCACTTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGACC
Found at i:38186 original size:22 final size:23
Alignment explanation
Indices: 38141--38186 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
38131 CGAAGGATTG
* *
38141 AAGTTAAATTATATATTTTTATAA
1 AAGTTAAA-TATATAATTTAATAA
38165 AAGTTAAA-ATATAATTTAATAA
1 AAGTTAAATATATAATTTAATAA
38187 TTATATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAGTTAAATATATAATTTAATAA
Done.