Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014634.1 Kokia drynarioides strain JFW-HI SEQ_129673, 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: 41975
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Warning! 3 characters in sequence are not A, C, G, or T
Found at i:7022 original size:13 final size:14
Alignment explanation
Indices: 7000--7028 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6990 GTGGGCCTGT
7000 TTTTTACCTTTTCC
1 TTTTTACCTTTTCC
7014 TTTTT-CCTTTTCC
1 TTTTTACCTTTTCC
7027 TT
1 TT
7029 GGAGGTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTACCTTTTCC
Found at i:17826 original size:16 final size:16
Alignment explanation
Indices: 17805--17835 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17795 AAATTTATTA
17805 AAAAGAAAAAATATAG
1 AAAAGAAAAAATATAG
17821 AAAAGAAAAAATATA
1 AAAAGAAAAAATATA
17836 TATACATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAAGAAAAAATATAG
Found at i:27961 original size:94 final size:94
Alignment explanation
Indices: 27800--27984 Score: 316
Period size: 94 Copynumber: 2.0 Consensus size: 94
27790 TGCGAAAGGA
* ** *
27800 TATTCGATTATCTCGATTTGAAGAAAGGTTTCACCTAGTAAGTTAAGGTGCAATATTTCAGAATC
1 TATTCGATTATCTCGATTTAAAGAAAAATTACACCTAGTAAGTTAAGGTGCAATATTTCAGAATC
27865 GAAGATAAGGAAACATTGCCTCGATTAAG
66 GAAGATAAGGAAACATTGCCTCGATTAAG
* *
27894 TATTCGATTATTTCGATTTAAAGAAAAATTACGCCTAGTAAGTTAAGGTGCAATATTTCAGAATC
1 TATTCGATTATCTCGATTTAAAGAAAAATTACACCTAGTAAGTTAAGGTGCAATATTTCAGAATC
27959 GAAGATAAGGAAACATTGCCTCGATT
66 GAAGATAAGGAAACATTGCCTCGATT
27985 TTTAAAGTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (94 bp):
TATTCGATTATCTCGATTTAAAGAAAAATTACACCTAGTAAGTTAAGGTGCAATATTTCAGAATC
GAAGATAAGGAAACATTGCCTCGATTAAG
Found at i:28323 original size:58 final size:58
Alignment explanation
Indices: 28251--28643 Score: 269
Period size: 59 Copynumber: 6.7 Consensus size: 58
28241 GAATATTCGT
* **
28251 GGTAAAAGGGTAATTTTTAG-AGTTTCGAGGTTGAAAAT-GGAGTCTTTGGACATCCGG
1 GGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGA-TCTTTGGACATCCGG
* * * ** *
28308 GAGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTGGATGTTCGG
1 G-GTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGATCTTTGGACATCCGG
* * * * * **
28367 GGTAAAATGGTAATTTTTGGAAATTTTG-GGATCAAAAATGGGAT-TTTTGAAAGTTAGGG
1 GGTAAAATGGTAATTTTTAGAAGTTTCGAGG-TCAAAAATGGGATCTTTGGACA--TCCGG
* * * * **
28426 GGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTTGGA-AGTTTAGG
1 GGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGA-TCTTTGGACA--TCCGG
* * * * * * * *
28486 GTTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGA-AGTTCGG
1 GGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGATCTTTGGACA-TCCGG
* * * *
28544 TGGTAAAATGGTAATTTTTGGATGTTTCGAGGTCAAAAATGGGATTTTTGGA-AGTTCGAG
1 -GGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGATCTTTGGACA-TCCG-G
* * * * * *
28604 GGTGAAATGGTATTTTTTGGAAGTTTTGGGGTTAAAAATG
1 GGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATG
28644 AGAATTTTAG
Statistics
Matches: 288, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
57 8 0.03
58 59 0.20
59 163 0.57
60 53 0.18
61 5 0.02
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.37
Consensus pattern (58 bp):
GGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGATCTTTGGACATCCGG
Found at i:28347 original size:59 final size:58
Alignment explanation
Indices: 28305--28663 Score: 484
Period size: 59 Copynumber: 6.1 Consensus size: 58
28295 TTTGGACATC
* *
28305 CGGGAGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTGGATGTT
1 CGGG-GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT
* * *
28364 CGGGGTAAAATGGTAATTTTTGGAAATTTTGGGATCAAAAATGGGATTTTTGAAAGTT
1 CGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT
*
28422 AGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTTGGAAGTTT
1 -CGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGA-TTTTTGGAAG-TT
* * * *
28483 AGGGTTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTT
1 CGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT
* * *
28541 CGGTGGTAAAATGGTAATTTTTGGATGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
1 CGG-GGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT
* * * * * *
28600 CGAGGGTGAAATGGTATTTTTTGGAAGTTTTGGGGTTAAAAATGAGAATTTTAGAAGTT
1 CG-GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT
*
28659 TGGGG
1 CGGGG
28664 GTCAAAAATA
Statistics
Matches: 265, Mismatches: 30, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
58 56 0.21
59 155 0.58
60 52 0.20
61 2 0.01
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.37
Consensus pattern (58 bp):
CGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTT
Found at i:28357 original size:30 final size:29
Alignment explanation
Indices: 28312--28720 Score: 320
Period size: 30 Copynumber: 13.8 Consensus size: 29
28302 ATCCGGGAGT
28312 AAAATGGTAATTTTTGGAAGTTTCGGGGTCA
1 AAAATGG-AATTTTTGGAAGTTTCGGGGT-A
* *
28343 AAAATGGGATTTTTGGATG-TTCGGGGT-
1 AAAATGGAATTTTTGGAAGTTTCGGGGTA
* * *
28370 AAAATGGTAATTTTTGGAAATTTTGGGATCA
1 AAAATGG-AATTTTTGGAAGTTTCGGGGT-A
* * **
28401 AAAATGGGATTTTTGAAAGTTAGGGGGT-
1 AAAATGGAATTTTTGGAAGTTTCGGGGTA
*
28429 AAAATGGTAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGG-AATTTTTGGAAGTTTCGGGGT-A
* * *
28460 AAAATGGGATTTTTTGGAAGTTT-AGGGTT
1 AAAAT-GGAATTTTTGGAAGTTTCGGGGTA
*
28489 AAAATGGTAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGG-AATTTTTGGAAGTTTCGGGG-TA
28520 AAAATGGAATTTTTGGAAG-TTCGGTGGT-
1 AAAATGGAATTTTTGGAAGTTTCGG-GGTA
* *
28548 AAAATGGTAATTTTTGGATGTTTCGAGGTCA
1 AAAATGG-AATTTTTGGAAGTTTCGGGGT-A
*
28579 AAAATGGGATTTTTGGAAG-TTCGAGGGT-
1 AAAATGGAATTTTTGGAAGTTTCG-GGGTA
* * *
28607 GAAATGGTATTTTTTGGAAGTTTTGGGGTTA
1 AAAATGG-AATTTTTGGAAGTTTCGGGG-TA
* *
28638 AAAATGAGAA-TTTTAGAAGTTTGGGGGTCA
1 AAAATG-GAATTTTTGGAAGTTTCGGGGT-A
*
28668 AAAATAGG-ATTTTTAGAAG-TTCGGGGGGT-
1 AAAAT-GGAATTTTTGGAAGTTTC--GGGGTA
*
28697 AAAATGGTAATTTTTAGACAGTTT
1 AAAATGG-AATTTTTGGA-AGTTT
28721 AGGGACCTCC
Statistics
Matches: 309, Mismatches: 38, Indels: 61
0.76 0.09 0.15
Matches are distributed among these distances:
27 7 0.02
28 33 0.11
29 95 0.31
30 107 0.35
31 62 0.20
32 5 0.02
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.37
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTCGGGGTA
Found at i:29833 original size:21 final size:21
Alignment explanation
Indices: 29795--29848 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
29785 ATTAATATTG
* ** *
29795 TTAATGATATTAGTAATATTA
1 TTAATAATATTACCAATATAA
* *
29816 TTATTATTATTACCAATATAA
1 TTAATAATATTACCAATATAA
29837 TTAATAATATTA
1 TTAATAATATTA
29849 TTAATGACAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TTAATAATATTACCAATATAA
Found at i:30566 original size:6 final size:6
Alignment explanation
Indices: 30555--30637 Score: 62
Period size: 6 Copynumber: 13.8 Consensus size: 6
30545 TCAAATTTGA
** * *
30555 TTAAAT TTAAAT TTAAA- ACAAAT TTAAAT TTAAAAAG ATAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT--AAAT TTAAAT TTAAAT
* * * *
30604 TT-AAT ATAAAT TTAAAT TCAAAA ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
30638 CCAATTTAAA
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
5 7 0.12
6 46 0.81
8 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:30579 original size:17 final size:17
Alignment explanation
Indices: 30556--30637 Score: 101
Period size: 17 Copynumber: 4.6 Consensus size: 17
30546 CAAATTTGAT
30556 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
30573 CAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTT--AAA-A
*
30593 TAAATTTAAATTTAATA
1 TAAATTTAAATTTAAAA
*
30610 TAAATTTAAATTCAAAAA
1 TAAATTTAAATT-TAAAA
30628 TAAATTTAAA
1 TAAATTTAAA
30638 CCAATTTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
17 25 0.45
18 15 0.27
19 3 0.05
20 13 0.23
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:30599 original size:37 final size:35
Alignment explanation
Indices: 30556--30637 Score: 119
Period size: 37 Copynumber: 2.3 Consensus size: 35
30546 CAAATTTGAT
30556 TAAATTTAAATTTAAAACAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTTAAAACAAATTTAAA-TTAAAAA-A
* * *
30593 TAAATTTAAATTTAATATAAATTTAAATTCAAAAA
1 TAAATTTAAATTTAAAACAAATTTAAATTAAAAAA
30628 TAAATTTAAA
1 TAAATTTAAA
30638 CCAATTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
35 11 0.26
36 6 0.14
37 25 0.60
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (35 bp):
TAAATTTAAATTTAAAACAAATTTAAATTAAAAAA
Found at i:31446 original size:2 final size:2
Alignment explanation
Indices: 31439--31469 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31429 TTTATTATTC
31439 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
31470 TTATCAAATT
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:32521 original size:12 final size:12
Alignment explanation
Indices: 32500--32546 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
32490 TTATTACAAA
32500 TTCTTCTTCTTT
1 TTCTTCTTCTTT
* *
32512 TTCTTTTTCTCT
1 TTCTTCTTCTTT
*
32524 TTCTTCTTCTCTC
1 TTCTTCTTCT-TT
32537 TTCTT-TTCTT
1 TTCTTCTTCTT
32547 CCTCAACTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 1 0.03
12 23 0.79
13 5 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTCTTCTTCTTT
Found at i:32527 original size:18 final size:18
Alignment explanation
Indices: 32500--32547 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
32490 TTATTACAAA
* *
32500 TTCTTCTTCTTTTTCT-TT
1 TTCTT-TTCTTCTTCTCTC
32518 TTCTCTTTCTTCTTCTCTC
1 TTCT-TTTCTTCTTCTCTC
32537 TTCTTTTCTTC
1 TTCTTTTCTTC
32548 CTCAACTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTTTTCTTCTTCTCTC
Found at i:39833 original size:27 final size:27
Alignment explanation
Indices: 39802--39861 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 27
39792 AATTTTCAAA
39802 TTAATATTGTTTCCTTTGATCCTCCTT-
1 TTAATATTGTTTCCTTTGATCCT-CTTC
39829 TTAATATTGTTTCCTTTGATCCTCTTC
1 TTAATATTGTTTCCTTTGATCCTCTTC
39856 TTAATA
1 TTAATA
39862 GAATTTTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.18, C:0.20, G:0.07, T:0.55
Consensus pattern (27 bp):
TTAATATTGTTTCCTTTGATCCTCTTC
Found at i:40870 original size:218 final size:218
Alignment explanation
Indices: 40483--40883 Score: 606
Period size: 218 Copynumber: 1.8 Consensus size: 218
40473 AAAAGGTTAG
* * * * **
40483 CTTCCTGATGAAATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
1 CTTCCTGATGAAATACGGAGAAGTGGACCAAATTCGTCTTCCCGATAAGATACAGAGAAACAAAT
* * * *
40548 TGAAACAAACGACGCAGTCATCTTCCTGGTGAAATATTGAGAAGAAGACCAAATCAAACCCACGC
66 TGAAACAAACGACGCAGTCATCTTCCCGATGAAATACTGAGAAGAAGACCAAATAAAACCCACGC
** * *
40613 TGGATGTGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCAAGTCAAAGTGAT
131 CCGATGTGAGCAAATCTTCAAACCACAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGTGAT
40678 AAAACGGTTAGCTTTCTGACCAT
196 AAAACGGTTAGCTTTCTGACCAT
* *
40701 CTTCCTGATGAGATACGGAGAAGTGGACCAAATTCGTTTTCCCGATAAGATACAGAGAAACAAAT
1 CTTCCTGATGAAATACGGAGAAGTGGACCAAATTCGTCTTCCCGATAAGATACAGAGAAACAAAT
* *
40766 TGAAACAAACGACGCAGTCATCTTCCCGATGAGATACTGAGAAGAAGACCAAATAAAACTCACGC
66 TGAAACAAACGACGCAGTCATCTTCCCGATGAAATACTGAGAAGAAGACCAAATAAAACCCACGC
* *
40831 CCGATGTGAGCAAATCTTCAAACTC-TAGCTTCTTGATGAGACACTGAGAAGCA
131 CCGATGTGAGCAAATCTTCAAAC-CACAGCTTCCTGATGAGACACTGAGAAGCA
40884 GGTCGAAACA
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
218 161 0.99
219 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (218 bp):
CTTCCTGATGAAATACGGAGAAGTGGACCAAATTCGTCTTCCCGATAAGATACAGAGAAACAAAT
TGAAACAAACGACGCAGTCATCTTCCCGATGAAATACTGAGAAGAAGACCAAATAAAACCCACGC
CCGATGTGAGCAAATCTTCAAACCACAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGTGAT
AAAACGGTTAGCTTTCTGACCAT
Found at i:41407 original size:6 final size:6
Alignment explanation
Indices: 41382--41447 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
41372 TTTAAATTGG
** * * **
41382 TTTAAA TTTATT TTTGAA TTTAAA TTTATATT TTTAAA TTTAAA TTT-GC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA-A-A TTTAAA TTTAAA TTTAAA
41431 TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAA
41448 TCAAATTTGA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
5 3 0.07
6 36 0.80
7 2 0.04
8 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:41415 original size:20 final size:19
Alignment explanation
Indices: 41382--41445 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 19
41372 TTTAAATTGG
*
41382 TTTAAA-TTTATTTTTGAA
1 TTTAAATTTTATTTTTAAA
41400 TTTAAATTTATATTTTTAAA
1 TTTAAATTT-TATTTTTAAA
**
41420 TTTAAA-TTT-GCTTTAAA
1 TTTAAATTTTATTTTTAAA
41437 TTTAAATTT
1 TTTAAATTT
41446 AATCAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.30
18 9 0.22
19 4 0.10
20 15 0.38
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTAAATTTTATTTTTAAA
Found at i:41417 original size:14 final size:14
Alignment explanation
Indices: 41400--41445 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
41390 TATTTTTGAA
*
41400 TTTAAATTTATATT
1 TTTAAATTTAAATT
41414 TTTAAATTTAAATTT
1 TTTAAATTTAAA-TT
41429 GCTTTAAATTTAAATT
1 --TTTAAATTTAAATT
41445 T
1 T
41446 AATCAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.43
15 2 0.07
16 2 0.07
17 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
TTTAAATTTAAATT
Found at i:41436 original size:17 final size:16
Alignment explanation
Indices: 41372--41445 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 16
41362 TAAAATTAGG
*
41372 TTTAAATTGGTTTAAA
1 TTTAAATTTGTTTAAA
**
41388 TTTATTTTTGAATTTAAA
1 TTTAAATTTG--TTTAAA
*
41406 TTTATA-TT-TTTAAA
1 TTTAAATTTGTTTAAA
41420 TTTAAATTTGCTTTAAA
1 TTTAAATTTG-TTTAAA
41437 TTTAAATTT
1 TTTAAATTT
41446 AATCAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
14 11 0.23
15 2 0.04
16 7 0.15
17 17 0.35
18 11 0.23
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (16 bp):
TTTAAATTTGTTTAAA
Found at i:41438 original size:31 final size:32
Alignment explanation
Indices: 41372--41445 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
41362 TAAAATTAGG
**
41372 TTTAAATTGGTTTAAATTTATTTTTGAATTTAAA
1 TTTAAATT--TTTAAATTTAAATTTGAATTTAAA
* *
41406 TTTATATTTTTAAATTTAAATTTG-CTTTAAA
1 TTTAAATTTTTAAATTTAAATTTGAATTTAAA
41437 TTTAAATTT
1 TTTAAATTT
41446 AATCAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 14 0.40
32 14 0.40
34 7 0.20
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (32 bp):
TTTAAATTTTTAAATTTAAATTTGAATTTAAA
Done.