Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167861.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_130, 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: 71190
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Warning! 1000 characters in sequence are not A, C, G, or T
Found at i:1353 original size:1 final size:1
Alignment explanation
Indices: 1344--1379 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
1334 AAGTTTAAGC
* *
1344 TTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1380 GAGATAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:4687 original size:19 final size:20
Alignment explanation
Indices: 4665--4736 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 20
4655 GTTTTTAATT
4665 TTTTATAAAAAAATTATT-A
1 TTTTATAAAAAAATTATTAA
4684 TTTTACATAAAAATAATTTATTAA
1 TTTT--ATAAAAA-AA-TTATTAA
* *
4708 TTTT-TAAATAATTTATTAA
1 TTTTATAAAAAAATTATTAA
4727 TTTTATAAAA
1 TTTTATAAAA
4737 TGTTAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
19 15 0.34
20 5 0.11
21 12 0.27
22 2 0.05
23 5 0.11
24 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTATAAAAAAATTATTAA
Found at i:6707 original size:18 final size:18
Alignment explanation
Indices: 6686--6722 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6676 TTTGTTTTTA
*
6686 TGTAAATCCTTGTAGAAT
1 TGTAAATCCTTATAGAAT
6704 TGTAAATCCTTATAGAAT
1 TGTAAATCCTTATAGAAT
6722 T
1 T
6723 TTAACTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTAAATCCTTATAGAAT
Found at i:7624 original size:18 final size:18
Alignment explanation
Indices: 7598--7632 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7588 TCATACTATA
*
7598 TATTTTTGTATTTATTGC
1 TATTGTTGTATTTATTGC
*
7616 TATTGTTGTTTTTATTG
1 TATTGTTGTATTTATTG
7633 ATATCATACG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (18 bp):
TATTGTTGTATTTATTGC
Found at i:8668 original size:25 final size:25
Alignment explanation
Indices: 8623--8676 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
8613 ATAAATAAAT
* *
8623 AAAATTATTATTATCTTATTA-ACTA
1 AAAATTATTATTATATCATTATA-TA
*
8648 AAAATTATTATTTTATCATTATATA
1 AAAATTATTATTATATCATTATATA
8673 AAAA
1 AAAA
8677 ATTAATAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATTATTATTATATCATTATATA
Found at i:11038 original size:15 final size:16
Alignment explanation
Indices: 11007--11039 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10997 GATGTATTAG
*
11007 ATAATTTTCATTTAAA
1 ATAATTATCATTTAAA
11023 ATAATTATCA-TTAAA
1 ATAATTATCATTTAAA
11038 AT
1 AT
11040 TTTTTAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATTATCATTTAAA
Found at i:11483 original size:14 final size:15
Alignment explanation
Indices: 11464--11496 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11454 AATTTATTTC
11464 AAAAAT-ATTAAACA
1 AAAAATGATTAAACA
*
11478 AAAAATGATTAAATA
1 AAAAATGATTAAACA
11493 AAAA
1 AAAA
11497 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAATGATTAAACA
Found at i:13961 original size:12 final size:12
Alignment explanation
Indices: 13947--13996 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
13937 ATTTAAATAT
*
13947 ATTAAAAATTAT
1 ATTAAAAATTAA
*
13959 ATTAAAATAATAA
1 ATTAAAA-ATTAA
*
13972 ATAAAAAATTAA
1 ATTAAAAATTAA
13984 ATTTAAAAATTAA
1 A-TTAAAAATTAA
13997 TGAACCGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAAAAATTAA
Found at i:15472 original size:23 final size:23
Alignment explanation
Indices: 15446--15520 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
15436 ATATTAATTC
15446 AAAATTTAATTTAATTATTTTAT
1 AAAATTTAATTTAATTATTTTAT
* *
15469 AAAA-TTATTTTTAA-TATTAATT-C
1 AAAATTTA-ATTTAATTATT--TTAT
*
15492 AAAATTTAATTTAATTAATTTAT
1 AAAATTTAATTTAATTATTTTAT
15515 AAAATT
1 AAAATT
15521 ATTTTTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
22 9 0.22
23 24 0.59
24 8 0.20
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATTTAATTTAATTATTTTAT
Found at i:15503 original size:46 final size:46
Alignment explanation
Indices: 15436--15528 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
15426 TTATACGACG
*
15436 ATATTAATTCAAAATTTAATTTAATTATTTTATAAAATTATTTTTA
1 ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
15482 ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
1 ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
15528 A
1 A
15529 AAAATAACAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (46 bp):
ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
Found at i:15527 original size:23 final size:23
Alignment explanation
Indices: 15455--15528 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
15445 CAAAATTTAA
*
15455 TTTAATTATTTTATAAAATTATT
1 TTTAATTAATTTATAAAATTATT
* * *
15478 TTTAATATTAATTCA-AAATTTA-A
1 TTT-A-ATTAATTTATAAAATTATT
15501 TTTAATTAATTTATAAAATTATT
1 TTTAATTAATTTATAAAATTATT
15524 TTTAA
1 TTTAA
15529 AAAATAACAC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 11 0.28
24 7 0.17
25 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAATTAATTTATAAAATTATT
Found at i:16511 original size:20 final size:20
Alignment explanation
Indices: 16486--16530 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
16476 GTTGAATCAA
*
16486 TTATATATGTTTATT-AATTT
1 TTATATATATTT-TTAAATTT
*
16506 TTATATCTATTTTTAAATTT
1 TTATATATATTTTTAAATTT
16526 TTATA
1 TTATA
16531 AAATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATATATATTTTTAAATTT
Found at i:16788 original size:22 final size:21
Alignment explanation
Indices: 16763--16806 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16753 CAATTTAAAT
*
16763 TATTATCACTCCTAAAAAAAAA
1 TATTATCAC-CCAAAAAAAAAA
*
16785 TATTATTACCCAAAAAAAAAA
1 TATTATCACCCAAAAAAAAAA
16806 T
1 T
16807 CCATGCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (21 bp):
TATTATCACCCAAAAAAAAAA
Found at i:19780 original size:72 final size:72
Alignment explanation
Indices: 19608--19770 Score: 256
Period size: 72 Copynumber: 2.3 Consensus size: 72
19598 AATAATCTCA
* *
19608 CTGGTGTC-ATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCTACTCTCTACCTTTATAAAAA
1 CTGGT-TCAATCCCTGCTTCCATAGGAAACTTGACCAGCTGATCTACTCTCTACCTTGATAAAAA
*
19672 TATGTTTT
65 TATGTTCT
* * *
19680 CTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTGATCTGCTCTCTACCTTGGTGAAAAT
1 CTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTGATCTACTCTCTACCTTGATAAAAAT
19745 ATGTTCT
66 ATGTTCT
19752 CTGGTTCAATCCCTGCTTC
1 CTGGTTCAATCCCTGCTTC
19771 AGTTGGAAAC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 2 0.02
72 82 0.98
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (72 bp):
CTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTGATCTACTCTCTACCTTGATAAAAAT
ATGTTCT
Found at i:25248 original size:17 final size:18
Alignment explanation
Indices: 25216--25250 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25206 TAGGTCTTAG
25216 ATTAATTATATAATTAAT
1 ATTAATTATATAATTAAT
*
25234 ATTAA-TATTTAATTAAT
1 ATTAATTATATAATTAAT
25251 GGCACTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAATTATATAATTAAT
Found at i:28556 original size:161 final size:162
Alignment explanation
Indices: 28291--28620 Score: 581
Period size: 161 Copynumber: 2.0 Consensus size: 162
28281 AATATTGTGA
*
28291 TTTTATTGTATTGATCAAACTTAATATAAGTAAATTAAATTGTTCTATTTTATTATTCTTTTTCA
1 TTTTATTGTATTGATAAAACTTAATATAAGTAAATTAAATTGTTCTATTTTATTATTCTTTTTCA
* *
28356 TAATCTATCCATGATTGTATGTTATGAAAGTGGATTTAGGTGAATGTATATTCT-TAATGAATAT
66 TAATCTATCCATGAATGTATGTTATGAAAGTGGATTTAGGTAAATGTATATTCTATAATGAATAT
28420 GATTTTTTATTCATTTTCATCATACTAACTTG
131 GATTTTTTATTCATTTTCATCATACTAACTTG
*
28452 TTTTATTGTATTGATAAAACTTAATATAAGTAAATTAAATTGTTCTATTTTATTCTTCTTTTTCA
1 TTTTATTGTATTGATAAAACTTAATATAAGTAAATTAAATTGTTCTATTTTATTATTCTTTTTCA
***
28517 TAATCTATTTGTGAATGTATGTTATGAAAGTGGATTTAGGTAAATGTATATTCTATAATGAATAT
66 TAATCTATCCATGAATGTATGTTATGAAAGTGGATTTAGGTAAATGTATATTCTATAATGAATAT
28582 GATTTTTTATTCATTTTCATCATACTAACTTG
131 GATTTTTTATTCATTTTCATCATACTAACTTG
*
28614 CTTTATT
1 TTTTATT
28621 TTCCATTTCA
Statistics
Matches: 160, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
161 112 0.70
162 48 0.30
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (162 bp):
TTTTATTGTATTGATAAAACTTAATATAAGTAAATTAAATTGTTCTATTTTATTATTCTTTTTCA
TAATCTATCCATGAATGTATGTTATGAAAGTGGATTTAGGTAAATGTATATTCTATAATGAATAT
GATTTTTTATTCATTTTCATCATACTAACTTG
Found at i:30343 original size:21 final size:21
Alignment explanation
Indices: 30320--30358 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30310 GTTTATTATT
30320 TTTTAT-TTATTTACTTTAGC
1 TTTTATGTTATTTACTTTAGC
*
30340 TTTTATGTTATTTTCTTTA
1 TTTTATGTTATTTACTTTA
30359 TCCCTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTATGTTATTTACTTTAGC
Found at i:35379 original size:3 final size:3
Alignment explanation
Indices: 35371--35424 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
35361 TATCTTCACT
35371 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35419 TAA TAA
1 TAA TAA
35425 CATTGTTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35436 original size:3 final size:3
Alignment explanation
Indices: 35430--35463 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
35420 AATAACATTG
35430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35464 ATGATAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36255 original size:13 final size:13
Alignment explanation
Indices: 36237--36262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36227 TAAAGTTTAG
36237 CAATTTAGATTTT
1 CAATTTAGATTTT
36250 CAATTTAGATTTT
1 CAATTTAGATTTT
36263 TATTTAANNN
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
CAATTTAGATTTT
Found at i:38643 original size:16 final size:17
Alignment explanation
Indices: 38614--38674 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
38604 AAGTATTAAA
38614 TCTTAAATTCCAAAATC
1 TCTTAAATTCCAAAATC
38631 TCTTAAA-TCC-AAA-C
1 TCTTAAATTCCAAAATC
*
38645 TCTTAAATTTCAAAATC
1 TCTTAAATTCCAAAATC
*
38662 TCCTAAA-TCCAAA
1 TCTTAAATTCCAAA
38675 CCCCTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.21
15 5 0.13
16 11 0.29
17 14 0.37
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.33
Consensus pattern (17 bp):
TCTTAAATTCCAAAATC
Found at i:38649 original size:31 final size:31
Alignment explanation
Indices: 38614--38719 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
38604 AAGTATTAAA
*
38614 TCTTAAATTCCAAAATCTCTTAAATCCAAAC
1 TCTTAAAATCCAAAATCTCTTAAATCCAAAC
* * *
38645 TCTTAAATTTCAAAATCTCCTAAATCCAAAC
1 TCTTAAAATCCAAAATCTCTTAAATCCAAAC
* * * *
38676 CCCTAAAATCCAAAA-C-CATAAAATCCAAGC
1 TCTTAAAATCCAAAATCTC-TTAAATCCAAAC
38706 TCTTAAAATCCAAA
1 TCTTAAAATCCAAA
38720 CTCTAAACCT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 22 0.35
31 40 0.63
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.26
Consensus pattern (31 bp):
TCTTAAAATCCAAAATCTCTTAAATCCAAAC
Found at i:38723 original size:15 final size:15
Alignment explanation
Indices: 38614--38723 Score: 82
Period size: 15 Copynumber: 7.2 Consensus size: 15
38604 AAGTATTAAA
*
38614 TCTTAAATTCCAAAATC
1 TCTTAAAATCC-AAA-C
38631 TCTT-AAATCCAAAC
1 TCTTAAAATCCAAAC
* *
38645 TCTTAAATTTCAAAATC
1 TCTTAAA-ATCCAAA-C
*
38662 TCCT-AAATCCAAAC
1 TCTTAAAATCCAAAC
* *
38676 CCCTAAAATCCAAAAC
1 TCTTAAAATCC-AAAC
* *
38692 -CATAAAATCCAAGC
1 TCTTAAAATCCAAAC
38706 TCTTAAAATCCAAAC
1 TCTTAAAATCCAAAC
38721 TCT
1 TCT
38724 AAACCTTCCA
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
14 12 0.16
15 40 0.53
16 16 0.21
17 8 0.11
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (15 bp):
TCTTAAAATCCAAAC
Found at i:40448 original size:18 final size:18
Alignment explanation
Indices: 40422--40456 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40412 TCATACTATA
*
40422 TATTTTTGTATTTATTGC
1 TATTGTTGTATTTATTGC
*
40440 TATTGTTGTTTTTATTG
1 TATTGTTGTATTTATTG
40457 ATATCATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (18 bp):
TATTGTTGTATTTATTGC
Found at i:41558 original size:25 final size:27
Alignment explanation
Indices: 41513--41566 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 27
41503 TAAAATTATT
41513 ATTATTATTATTATCTTATTA-ACTAAAA
1 ATTATTATTATTATC-TATTATA-TAAAA
41541 ATTATTATT-TTATC-ATTATATAAAA
1 ATTATTATTATTATCTATTATATAAAA
41566 A
1 A
41567 ATTAGTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.40
26 1 0.04
27 5 0.20
28 9 0.36
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTATTATTATTATCTATTATATAAAA
Found at i:41749 original size:18 final size:19
Alignment explanation
Indices: 41711--41752 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
41701 TTTTATTTTT
41711 TAATTATTTATCAATAAAA
1 TAATTATTTATCAATAAAA
41730 TAATTATTTGAT-AA-AAAA
1 TAATTATTT-ATCAATAAAA
41748 TAATT
1 TAATT
41753 TGATGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 11 0.50
20 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATTATTTATCAATAAAA
Found at i:41753 original size:15 final size:16
Alignment explanation
Indices: 41724--41756 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
41714 TTATTTATCA
*
41724 ATAAAATAATTATTTG
1 ATAAAATAATAATTTG
41740 ATAAAA-AATAATTTG
1 ATAAAATAATAATTTG
41755 AT
1 AT
41757 GATTTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATAAAATAATAATTTG
Found at i:43416 original size:19 final size:19
Alignment explanation
Indices: 43381--43419 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43371 ACTTTTAATT
43381 TTTTAATTTAAATTTTTAA
1 TTTTAATTTAAATTTTTAA
*
43400 TTTT-ATTTAATTATTTTAA
1 TTTTAATTTAAAT-TTTTAA
43419 T
1 T
43420 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATTTAAATTTTTAA
Found at i:44397 original size:14 final size:15
Alignment explanation
Indices: 44378--44410 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44368 AATTTATTTC
44378 AAAAAT-ATTAAACA
1 AAAAATGATTAAACA
*
44392 AAAAATGATTAAATA
1 AAAAATGATTAAACA
44407 AAAA
1 AAAA
44411 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAATGATTAAACA
Found at i:48441 original size:23 final size:23
Alignment explanation
Indices: 48415--48489 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
48405 ATATTAATTC
48415 AAAATTTAATTTAATTATTTTAT
1 AAAATTTAATTTAATTATTTTAT
* *
48438 AAAA-TTATTTTTAA-TATTAATT-C
1 AAAATTTA-ATTTAATTATT--TTAT
*
48461 AAAATTTAATTTAATTAATTTAT
1 AAAATTTAATTTAATTATTTTAT
48484 AAAATT
1 AAAATT
48490 ATTTTTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
22 9 0.22
23 24 0.59
24 8 0.20
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATTTAATTTAATTATTTTAT
Found at i:48472 original size:46 final size:46
Alignment explanation
Indices: 48405--48497 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
48395 TTATACGACG
*
48405 ATATTAATTCAAAATTTAATTTAATTATTTTATAAAATTATTTTTA
1 ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
48451 ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
1 ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
48497 A
1 A
48498 AAAATAACAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (46 bp):
ATATTAATTCAAAATTTAATTTAATTAATTTATAAAATTATTTTTA
Found at i:48496 original size:23 final size:23
Alignment explanation
Indices: 48424--48497 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
48414 CAAAATTTAA
*
48424 TTTAATTATTTTATAAAATTATT
1 TTTAATTAATTTATAAAATTATT
* * *
48447 TTTAATATTAATTCA-AAATTTA-A
1 TTT-A-ATTAATTTATAAAATTATT
48470 TTTAATTAATTTATAAAATTATT
1 TTTAATTAATTTATAAAATTATT
48493 TTTAA
1 TTTAA
48498 AAAATAACAC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 11 0.28
24 7 0.17
25 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAATTAATTTATAAAATTATT
Found at i:48737 original size:21 final size:22
Alignment explanation
Indices: 48713--48762 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
48703 AATTATAAAA
*
48713 ATTTA-AATTTAAATATTTTA-C
1 ATTTATAATTTAAA-ATTTAACC
*
48734 ATTTATATTTTAAAATTTAACC
1 ATTTATAATTTAAAATTTAACC
48756 ATTTATA
1 ATTTATA
48763 TCGATCTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATAATTTAAAATTTAACC
Found at i:48758 original size:22 final size:22
Alignment explanation
Indices: 48720--48763 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
48710 AAAATTTAAA
*
48720 TTTAAATATTTTACATTTATAT
1 TTTAAATATTTAACATTTATAT
48742 TTTAAA-ATTTAACCATTTATAT
1 TTTAAATATTTAA-CATTTATAT
48764 CGATCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAAATATTTAACATTTATAT
Found at i:49480 original size:20 final size:20
Alignment explanation
Indices: 49455--49499 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
49445 GTTGAATCAA
*
49455 TTATATATGTTTATT-AATTT
1 TTATATATATTT-TTAAATTT
*
49475 TTATATCTATTTTTAAATTT
1 TTATATATATTTTTAAATTT
49495 TTATA
1 TTATA
49500 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATATATATTTTTAAATTT
Found at i:49778 original size:22 final size:22
Alignment explanation
Indices: 49732--49777 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49722 AATCCAATTT
*
49732 AAATTATTATCACTCCTAAAAA
1 AAATTATTATCACTCCAAAAAA
*
49754 AAATTATTATTAC-CCAAAAAA
1 AAATTATTATCACTCCAAAAAA
49775 AAA
1 AAA
49778 AATCCATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATTATTATCACTCCAAAAAA
Found at i:52172 original size:9 final size:9
Alignment explanation
Indices: 52160--52215 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
52150 TACCATTTCT
52160 AAAAAC-AA
1 AAAAACAAA
52168 AAAAACAAA
1 AAAAACAAA
52177 AAAAAC-AA
1 AAAAACAAA
*
52185 ACAAACAAA
1 AAAAACAAA
*
52194 ACAAACAAA
1 AAAAACAAA
*
52203 ACAAACAAA
1 AAAAACAAA
52212 AAAA
1 AAAA
52216 TAAAACGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
8 13 0.30
9 31 0.70
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:52186 original size:4 final size:4
Alignment explanation
Indices: 52162--52211 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
52152 CCATTTCTAA
* *
52162 AAAC AAAA AAAC AAAAA AAAC AAAC AAAC AAAAC AAAC AAAAC AAAC AAA
1 AAAC AAAC AAAC -AAAC AAAC AAAC AAAC -AAAC AAAC -AAAC AAAC AAA
52212 AAAATAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 28 0.72
5 11 0.28
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:52186 original size:13 final size:13
Alignment explanation
Indices: 52160--52221 Score: 72
Period size: 13 Copynumber: 4.7 Consensus size: 13
52150 TACCATTTCT
*
52160 AAAAACAAAAAAAC
1 AAAAA-AAACAAAC
52174 AAAAAAAACAAAC
1 AAAAAAAACAAAC
*
52187 AAACAAAACAAAC
1 AAAAAAAACAAAC
*
52200 AAAACAAACAAA-
1 AAAAAAAACAAAC
52212 AAAATAAAAC
1 AAAA-AAAAC
52222 GAAAATAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
12 4 0.10
13 33 0.79
14 5 0.12
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:52220 original size:17 final size:17
Alignment explanation
Indices: 52160--52221 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
52150 TACCATTTCT
52160 AAAAACAAAA-AAACAA
1 AAAAACAAAACAAACAA
52176 AAAAA-ACAAACAAACAA
1 AAAAACA-AAACAAACAA
52193 AACAAACAAAACAAACAA
1 AA-AAACAAAACAAACAA
*
52211 AAAAATAAAAC
1 AAAAACAAAAC
52222 GAAAATAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
15 1 0.02
16 8 0.20
17 16 0.39
18 15 0.37
19 1 0.02
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAACAAAACAAACAA
Found at i:52294 original size:12 final size:11
Alignment explanation
Indices: 52270--52311 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
52260 AACTGGTCCA
*
52270 ACCAACCCCCG
1 ACCAGCCCCCG
52281 ACCAGCCTCCCG
1 ACCAGCC-CCCG
52293 ACCAGCCCTCCG
1 ACCAGCCC-CCG
52305 ACCAGCC
1 ACCAGCC
52312 ACCCTATAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.21, C:0.60, G:0.14, T:0.05
Consensus pattern (11 bp):
ACCAGCCCCCG
Found at i:52544 original size:21 final size:21
Alignment explanation
Indices: 52518--52558 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52508 ACACCAACAG
*
52518 AAAAAAAAGAAACGCAAAAAA
1 AAAAAAAAGAAACACAAAAAA
*
52539 AAAAAACAGAAACACAAAAA
1 AAAAAAAAGAAACACAAAAA
52559 CAGAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.12, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAACACAAAAAA
Found at i:52557 original size:14 final size:13
Alignment explanation
Indices: 52539--52570 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
52529 ACGCAAAAAA
52539 AAAAAACAGAAAC
1 AAAAAACAGAAAC
52552 ACAAAAACAGAAAC
1 A-AAAAACAGAAAC
52566 AAAAA
1 AAAAA
52571 CCAAAACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.78, C:0.16, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAACAGAAAC
Found at i:53180 original size:21 final size:21
Alignment explanation
Indices: 53146--53186 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53136 GAACCGGTCA
* *
53146 GATCGCCCGGACCGCCGATCC
1 GATCGCCAGAACCGCCGATCC
*
53167 GATCGCCAGAACCGTCGATC
1 GATCGCCAGAACCGCCGATC
53187 TAACCGTCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.41, G:0.27, T:0.12
Consensus pattern (21 bp):
GATCGCCAGAACCGCCGATCC
Found at i:53676 original size:17 final size:16
Alignment explanation
Indices: 53656--53724 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
53646 CTAGGTTTCT
53656 AAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
53673 AAAACCCATTAAATCC
1 AAAACCCCTAAAATCC
**
53689 AAAACCCCCCGAAATCC
1 AAAA-CCCCTAAAATCC
* * *
53706 AAAATCCTTGAAATCC
1 AAAACCCCTAAAATCC
53722 AAA
1 AAA
53725 GTCTTAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
16 22 0.51
17 21 0.49
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:53694 original size:33 final size:33
Alignment explanation
Indices: 53656--53724 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
53646 CTAGGTTTCT
*
53656 AAAACCCCTAAAAATCCAAAACCCATT-AAATCC
1 AAAACCCCCAAAAATCCAAAACCC-TTGAAATCC
** *
53689 AAAACCCCCCGAAATCCAAAATCCTTGAAATCC
1 AAAACCCCCAAAAATCCAAAACCCTTGAAATCC
53722 AAA
1 AAA
53725 GTCTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.14
Consensus pattern (33 bp):
AAAACCCCCAAAAATCCAAAACCCTTGAAATCC
Found at i:53720 original size:16 final size:16
Alignment explanation
Indices: 53667--53724 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
53657 AAACCCCTAA
53667 AAATCCAAAACCCATT-
1 AAATCCAAAACCC-TTG
**
53683 AAATCCAAAACCCCCCG
1 AAATCCAAAA-CCCTTG
*
53700 AAATCCAAAATCCTTG
1 AAATCCAAAACCCTTG
53716 AAATCCAAA
1 AAATCCAAA
53725 GTCTTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 22 0.63
17 13 0.37
ACGTcount: A:0.48, C:0.33, G:0.03, T:0.16
Consensus pattern (16 bp):
AAATCCAAAACCCTTG
Found at i:54018 original size:141 final size:142
Alignment explanation
Indices: 53857--54139 Score: 550
Period size: 142 Copynumber: 2.0 Consensus size: 142
53847 TCTTAATTCG
53857 TATTAATAATAAGATTAATAAAT-AAAAAGTATAATAAAATTAGGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTAGGATCTTAAATATAAACAGTCG
53921 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
53986 TAAATTGCATTT
131 TAAATTGCATTT
*
53998 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTAGGATCTTAAATATAAACAGTCG
54063 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
54128 TAAATTGCATTT
131 TAAATTGCATTT
54140 CATTTTACAT
Statistics
Matches: 140, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
141 23 0.16
142 117 0.84
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (142 bp):
TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTAGGATCTTAAATATAAACAGTCG
CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
TAAATTGCATTT
Found at i:60728 original size:72 final size:72
Alignment explanation
Indices: 60556--60718 Score: 265
Period size: 72 Copynumber: 2.3 Consensus size: 72
60546 AATAATCTCA
*
60556 CTGGTGTC-ATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCTACTCTCTACCTTTATAAAAA
1 CTGGT-TCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCTACTCTCTACCTTGATAAAAA
*
60620 TATGTTTT
65 TATGTTCT
* * *
60628 CTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCTGCTCTCTACCTTGGTGAAAAT
1 CTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCTACTCTCTACCTTGATAAAAAT
60693 ATGTTCT
66 ATGTTCT
60700 CTGGTTCAATCCCTGCTTC
1 CTGGTTCAATCCCTGCTTC
60719 AGTTGGAAAC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
71 2 0.02
72 83 0.98
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (72 bp):
CTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCTACTCTCTACCTTGATAAAAAT
ATGTTCT
Found at i:63042 original size:6 final size:6
Alignment explanation
Indices: 63028--63073 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
63018 GTTTACCATT
* *
63028 ATCGTC ATCGGC ATCGAC ATCGAC ATCGAC ATCGAC ATCGAC ATCG
1 ATCGAC ATCGAC ATCGAC ATCGAC ATCGAC ATCGAC ATCGAC ATCG
63074 GTACCAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCGAC
Found at i:64257 original size:2 final size:2
Alignment explanation
Indices: 64250--64279 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
64240 ATTTGGCAAG
*
64250 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64280 TGCAGTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:67482 original size:19 final size:20
Alignment explanation
Indices: 67443--67480 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
67433 TACGTATAAA
67443 ATATGAAATACAAAAAAAAT
1 ATATGAAATACAAAAAAAAT
67463 ATATGAAATACAAAAAAA
1 ATATGAAATACAAAAAAA
67481 TACGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
ATATGAAATACAAAAAAAAT
Found at i:68884 original size:24 final size:24
Alignment explanation
Indices: 68832--68886 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
68822 AATCTTCAAT
* *
68832 ATAATAAAAATTTCATTTTTCTTC
1 ATAATAAAAATTTCATTTTTCATA
*
68856 A-AATAAAAATTTTATTTTTCATA
1 ATAATAAAAATTTCATTTTTCATA
68879 ATAATAAA
1 ATAATAAA
68887 TAAAAATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATAAAAATTTCATTTTTCATA
Found at i:69113 original size:12 final size:12
Alignment explanation
Indices: 69098--69130 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
69088 AATTTTAATT
69098 TTAATTAAAA-AA
1 TTAA-TAAAACAA
69110 TTAATAAAACAA
1 TTAATAAAACAA
69122 TTAATAAAA
1 TTAATAAAA
69131 TTTTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
TTAATAAAACAA
Found at i:69757 original size:193 final size:193
Alignment explanation
Indices: 69188--69754 Score: 892
Period size: 191 Copynumber: 3.0 Consensus size: 193
69178 ACATGACATA
* * *
69188 ATTTTTTTACGAAAAGTAAATT-TAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGA
1 ATTTTCTTACGAAAAATAAATTCGAG-CCT-CCAAAGATGAGATTCTAAAAGTATTCCGAGTAGA
69252 GATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTT
64 GATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTT
* *
69317 TAAGAATTATTTCAATAAAAAAGTTTTAATTTATTTTTCTCGAGAATAA-ATTTTT-AACATGAC
129 TAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTAAACATGAC
* *
69380 ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTTCGAGTAGATA
1 ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
*
69445 TGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACATACTGGAACATTTTA
66 TGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTA
*
69510 AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTAAACATGAT
131 AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTAAACATGAC
* * * *
69573 ATTTTCTTACGAAAAATAAATTCGAGCCTCCGAAGATGAGATTCT-AAGGTATTCCGAGAAGCGA
1 ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
* * * * *
69637 TGC-CTAAGAAATCTTTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGAAACATTTTA
66 TGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTA
* * *
69701 AGAATTGTTTCAATAAAAAGGTTTTGATTTATTTTTCTCAAGAATAATTTTTTT
131 AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTT
69755 TTATAAATAA
Statistics
Matches: 348, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
191 250 0.72
192 45 0.13
193 53 0.15
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (193 bp):
ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
TGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTA
AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTAAACATGAC
Done.