Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold88
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: 1260485
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 1 of 8
Found at i:64 original size:20 final size:21
Alignment explanation
Indices: 31--70 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21 AATATTATAA
31 TTTAAATTAATTAATTAATTT
1 TTTAAATTAATTAATTAATTT
*
52 TTTAAATT-TTTAATTAATT
1 TTTAAATTAATTAATTAATT
71 AAATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAAATTAATTAATTAATTT
Found at i:72 original size:16 final size:16
Alignment explanation
Indices: 35--88 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
25 TTATAATTTA
35 AATT-AATTAATTAATT
1 AATTAAATT-ATTAATT
** *
51 TTTTAAATTTTTAATT
1 AATTAAATTATTAATT
*
67 AATTAAATTATTATTT
1 AATTAAATTATTAATT
83 AATTAA
1 AATTAA
89 TAAAAATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTAAATTATTAATT
Found at i:83 original size:20 final size:20
Alignment explanation
Indices: 60--104 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
50 TTTTTAAATT
*
60 TTTAATTAAT-TAAATTATTA
1 TTTAATTAATAAAAATT-TTA
80 TTTAATTAATAAAAATTTTA
1 TTTAATTAATAAAAATTTTA
100 TTTAA
1 TTTAA
105 ATTTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATTAATAAAAATTTTA
Found at i:616 original size:15 final size:16
Alignment explanation
Indices: 596--630 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
586 TTTTAAAATA
596 ATTAAAT-ATATTTAT
1 ATTAAATAATATTTAT
611 ATTAAATACATATTTAT
1 ATTAAATA-ATATTTAT
628 ATT
1 ATT
631 TGATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
17 11 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTAAATAATATTTAT
Found at i:834 original size:2 final size:2
Alignment explanation
Indices: 827--878 Score: 88
Period size: 2 Copynumber: 26.0 Consensus size: 2
817 CATCTCCTTT
827 TA TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA
869 T- TGA TA TA TA
1 TA T-A TA TA TA
879 AAAGTAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 46 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1949 original size:23 final size:20
Alignment explanation
Indices: 1923--1972 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 20
1913 AATTACTTCA
1923 ATATGAAAATTCACAAAATCAT
1 ATATGAAAATTCA-AAAAT-AT
1945 CATAT-AGAAATTCAAAAATAT
1 -ATATGA-AAATTCAAAAATAT
1966 ATATGAA
1 ATATGAA
1973 TATTATTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 6 0.24
23 11 0.44
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (20 bp):
ATATGAAAATTCAAAAATAT
Found at i:2359 original size:19 final size:18
Alignment explanation
Indices: 2326--2364 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
2316 CATAATTATT
2326 ATATAATAAAATATATAA
1 ATATAATAAAATATATAA
*
2344 ATATAATATGAATATATAA
1 ATATAATA-AAATATATAA
2363 AT
1 AT
2365 GATTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATAATAAAATATATAA
Found at i:3678 original size:17 final size:17
Alignment explanation
Indices: 3617--3678 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
3607 TTTATATTAT
*
3617 TTTATATTTATATAAAA
1 TTTAAATTTATATAAAA
3634 TTT-AATTTA-ATAATAA
1 TTTAAATTTATATAA-AA
* *
3650 TTTATA-TTATATAAAT
1 TTTAAATTTATATAAAA
*
3666 TTTAAATTCATAT
1 TTTAAATTTATAT
3679 TATATTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 4 0.11
16 19 0.53
17 13 0.36
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATATAAAA
Found at i:3686 original size:33 final size:34
Alignment explanation
Indices: 3610--3687 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
3600 GATAATTTTT
*
3610 ATATTAT-TTTATATTTATATAAAATTTAATTTA
1 ATATTATATTTATATTTATATAAAATTTAAATTA
* * *
3643 ATAATA-ATTTATA-TTATATAAATTTTAAATTC
1 ATATTATATTTATATTTATATAAAATTTAAATTA
3675 ATATTATATTTAT
1 ATATTATATTTAT
3688 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 21 0.55
33 17 0.45
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
ATATTATATTTATATTTATATAAAATTTAAATTA
Found at i:4598 original size:20 final size:20
Alignment explanation
Indices: 4564--4603 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4554 TTGATGCAAC
* * *
4564 CTAGTAATTAGTATTTGTTT
1 CTAGTAATAAATATTGGTTT
4584 CTAGTAATAAATATTGGTTT
1 CTAGTAATAAATATTGGTTT
4604 AGGATTTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (20 bp):
CTAGTAATAAATATTGGTTT
Found at i:7452 original size:31 final size:29
Alignment explanation
Indices: 7416--7476 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
7406 TTTGATAATT
*
7416 TTAAATATAATTATATAATATGTATAAAATA
1 TTAAATATAATT-T-TAAAATGTATAAAATA
*
7447 TTAAATATAATTTTAAAATTTATAAAATA
1 TTAAATATAATTTTAAAATGTATAAAATA
7476 T
1 T
7477 GAATTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.54
30 1 0.04
31 12 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TTAAATATAATTTTAAAATGTATAAAATA
Found at i:7524 original size:49 final size:52
Alignment explanation
Indices: 7414--7546 Score: 139
Period size: 49 Copynumber: 2.5 Consensus size: 52
7404 TATTTGATAA
* *
7414 TTTTAAATATAATTATATAATATGTATAAAATATTAAATATAATTTTAAAATT
1 TTTTAAATATAATTATATAATATATATAAAATATT-AATATAATTATAAAATT
* * *
7467 TATAAAATATGAATTAT-TAATATAT-TAAAAT-TT-ATATAATTATAAATTT
1 TTTTAAATAT-AATTATATAATATATATAAAATATTAATATAATTATAAAATT
*
7516 TTTTAAATATTATTATGATATAATATATATA
1 TTTTAAATA-TA--ATTATATAATATATATA
7547 TTAAGTTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
49 22 0.33
50 1 0.02
51 6 0.09
52 14 0.21
53 17 0.26
54 6 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (52 bp):
TTTTAAATATAATTATATAATATATATAAAATATTAATATAATTATAAAATT
Found at i:8812 original size:2 final size:2
Alignment explanation
Indices: 8805--8843 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8795 CATCAGAAAC
8805 TA TA 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 TA TA T
8844 TAAGTTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13499 original size:2 final size:2
Alignment explanation
Indices: 13492--13522 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13482 GTTTCAAATC
13492 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13523 AGGACCTATT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13943 original size:19 final size:19
Alignment explanation
Indices: 13892--13943 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
13882 TTTCAATATC
*
13892 AATAAA-TTTGATTTTAAT
1 AATAAAGTTTGATTTGAAT
* *
13910 AATAAAGTTTAATTTGGAT
1 AATAAAGTTTGATTTGAAT
**
13929 AATAATTTTTGATTT
1 AATAAAGTTTGATTT
13944 TATTAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (19 bp):
AATAAAGTTTGATTTGAAT
Found at i:13964 original size:21 final size:22
Alignment explanation
Indices: 13940--13989 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
13930 ATAATTTTTG
*
13940 ATTTTATTAAAATTATTATTT-
1 ATTTTAATAAAATTATTATTTA
*
13961 A-TTTAATAAAATTTTTATTTA
1 ATTTTAATAAAATTATTATTTA
13982 ATTTTAAT
1 ATTTTAAT
13990 TTTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 2 0.08
22 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTAATAAAATTATTATTTA
Found at i:16578 original size:53 final size:53
Alignment explanation
Indices: 16514--16624 Score: 179
Period size: 53 Copynumber: 2.1 Consensus size: 53
16504 CAATAGTTTT
* *
16514 TCTTTGGATGATTATTAACGAGTTAAATGGATCGCTGAGAAATTCATTTTGTA
1 TCTTTGAATGATTATTAAAGAGTTAAATGGATCGCTGAGAAATTCATTTTGTA
* *
16567 TCTTTGAATGATTTTTAAAGAGTTAAATGGATTGCTGAGAAATTCATTTTGTA
1 TCTTTGAATGATTATTAAAGAGTTAAATGGATCGCTGAGAAATTCATTTTGTA
16620 -CTTTG
1 TCTTTG
16625 TCATCATTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
52 5 0.09
53 49 0.91
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (53 bp):
TCTTTGAATGATTATTAAAGAGTTAAATGGATCGCTGAGAAATTCATTTTGTA
Found at i:20937 original size:17 final size:17
Alignment explanation
Indices: 20917--20952 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20907 ATTTAGTGCT
20917 TACGAAAATGCAATTGG
1 TACGAAAATGCAATTGG
**
20934 TACGACGATGCAATTGG
1 TACGAAAATGCAATTGG
20951 TA
1 TA
20953 GGGTCAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (17 bp):
TACGAAAATGCAATTGG
Found at i:21116 original size:5 final size:5
Alignment explanation
Indices: 21099--21257 Score: 73
Period size: 5 Copynumber: 31.8 Consensus size: 5
21089 AGATAAAAAA
* * *
21099 ATTAT ATTTT ATTAT ATT-T A-TAT ATTTT ATTAT ATTAT AATTAT ATTTTAA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT A--TTAT
* * * *
21150 AATAT ATTAT ATT-T ATTTAA ATTTT AATAT ATTAAT AATTAAT ATTAT
1 ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT ATT-AT -ATT-AT ATTAT
* * * * * *
21198 ATAAT TTTAA AATAT -TTAT ATTTAT GTTAT ATTTT ATT-T -TTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT ATTAT ATTAT ATTAT
21246 A-TA- ATTAT ATTA
1 ATTAT ATTAT ATTA
21258 AATTTTATAT
Statistics
Matches: 114, Mismatches: 25, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
3 4 0.04
4 15 0.13
5 70 0.61
6 15 0.13
7 10 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:21124 original size:18 final size:18
Alignment explanation
Indices: 21101--21270 Score: 72
Period size: 17 Copynumber: 9.4 Consensus size: 18
21091 ATAAAAAAAT
21101 TATATTTTATTATATTTA
1 TATATTTTATTATATTTA
21119 TATATTTTATTATATTATAA
1 TATATTTTATTATATT-T-A
** *
21139 TTATATTTTAAAATATAT-
1 -TATATTTTATTATATTTA
*
21157 TATA-TTTATTTAAATTTTAA
1 TATATTTTA-TTATA-TTT-A
*
21177 TATATTAATAATTA-ATATTA
1 TATATT--TTATTATAT-TTA
**
21197 TATAATTTTAAAATATTTA
1 TAT-ATTTTATTATATTTA
* *
21216 TAT-TTATGTTATATTT-
1 TATATTTTATTATATTTA
*
21232 TAT-TTTTA-TAT-TATA
1 TATATTTTATTATATTTA
* *
21247 TA-ATTATATTAAATTT-
1 TATATTTTATTATATTTA
21263 TATATTTT
1 TATATTTT
21271 TGGTTTTCTC
Statistics
Matches: 112, Mismatches: 22, Indels: 37
0.65 0.13 0.22
Matches are distributed among these distances:
14 2 0.02
15 9 0.08
16 14 0.12
17 21 0.19
18 18 0.16
19 10 0.09
20 13 0.12
21 20 0.18
22 3 0.03
23 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
TATATTTTATTATATTTA
Found at i:21229 original size:48 final size:49
Alignment explanation
Indices: 21177--21269 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 49
21167 TAAATTTTAA
21177 TATATTA-ATAATTAATATTATATAATT-T-TAAAATATTTATATTTATGT
1 TATATTATAT-ATTAATATTATATAATTATATAAAAT-TTTATATTTATGT
* * * *
21225 TATATTTTATTTTTATATTATATAATTATATTAAATTTTATATTT
1 TATATTATATATTAATATTATATAATTATATAAAATTTTATATTT
21270 TTGGTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
48 21 0.55
49 12 0.32
50 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (49 bp):
TATATTATATATTAATATTATATAATTATATAAAATTTTATATTTATGT
Found at i:21262 original size:58 final size:57
Alignment explanation
Indices: 21103--21264 Score: 154
Period size: 58 Copynumber: 2.8 Consensus size: 57
21093 AAAAAAATTA
* * *
21103 TATTT-TATTATATTTATATATTTTATTATATTATAATTATATTTTAAAATATATTATATT
1 TATTTATATTTTATTT-TATATTATA-TA-ATTAT-ATTAAATTTTAAAATATATTATATT
* *
21163 TATTTAAATTTTA--ATATATTA-ATAATTAATATTATATAATTTTAAAATAT-TTATATT
1 TATTTATATTTTATTTTATATTATATAATT-ATA-T-TA-AATTTTAAAATATATTATATT
21220 TATGTTATATTTTATTTTTATATTATATAATTATATTAAATTTTA
1 TAT-TTATATTTTA-TTTTATATTATATAATTATATTAAATTTTA
21265 TATTTTTGGT
Statistics
Matches: 85, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
55 4 0.05
56 5 0.06
57 13 0.15
58 34 0.40
59 2 0.02
60 6 0.07
61 15 0.18
62 6 0.07
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (57 bp):
TATTTATATTTTATTTTATATTATATAATTATATTAAATTTTAAAATATATTATATT
Found at i:21263 original size:31 final size:31
Alignment explanation
Indices: 21209--21270 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
21199 TAATTTTAAA
* * *
21209 ATATTTATATTTATGTTATATTTTAT-TTTT
1 ATATTTATAATTATATTAAATTTTATATTTT
21239 ATATTATATAATTATATTAAATTTTATATTTT
1 ATATT-TATAATTATATTAAATTTTATATTTT
21271 TGGTTTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 5 0.19
31 18 0.67
32 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (31 bp):
ATATTTATAATTATATTAAATTTTATATTTT
Found at i:21505 original size:2 final size:2
Alignment explanation
Indices: 21498--21529 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21488 GTCATTTTAC
*
21498 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21530 TTTTTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21789 original size:4 final size:4
Alignment explanation
Indices: 21776--21811 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
21766 TCGAACTAAG
21776 TTAA -TAA TTAA TTAA TTAA TTAA TTAA TTACA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA-A TTAA
21812 ATTATAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:21900 original size:30 final size:28
Alignment explanation
Indices: 21853--21933 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 28
21843 TTTATATTAA
21853 ATTAAATTT-A-AAT-AAAATTTTTTAT
1 ATTAAATTTAATAATAAAAATTTTTTAT
21878 ATTAATATTTATATAATAAAAATAATTTTTAT
1 ATTAA-ATTTA-ATAATAAAAAT--TTTTTAT
* *
21910 TTTAAATTTAATAATTAAAATTTT
1 ATTAAATTTAATAATAAAAATTTT
21934 AAATAAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
25 5 0.11
26 4 0.09
28 4 0.09
29 3 0.06
30 15 0.32
31 5 0.11
32 11 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAAATTTAATAATAAAAATTTTTTAT
Found at i:22366 original size:16 final size:15
Alignment explanation
Indices: 22332--22405 Score: 53
Period size: 16 Copynumber: 4.8 Consensus size: 15
22322 TAAAATTTAA
*
22332 ATTTATATAA-AAAT
1 ATTTATTTAATAAAT
22346 AATATTATTTAATAAAT
1 -AT-TTATTTAATAAAT
* *
22363 ATATT-TTTATTAATT
1 AT-TTATTTAATAAAT
* *
22378 ATTTATTATATTTAAT
1 ATTTATT-TAATAAAT
22394 ATTTATTTAATA
1 ATTTATTTAATA
22406 TTAAAATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
14 2 0.04
15 17 0.35
16 25 0.52
17 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTATTTAATAAAT
Found at i:22392 original size:17 final size:17
Alignment explanation
Indices: 22372--22431 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
22362 TATATTTTTA
22372 TTAATTATTTATTATAT
1 TTAATTATTTATTATAT
22389 TTAA-TATTTATTTAATAT
1 TTAATTATTTA-TT-ATAT
* *
22407 TAAAATT-TTTAAATATAT
1 T-TAATTATTT-ATTATAT
22425 TTAATTA
1 TTAATTA
22432 AATTCAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
16 6 0.18
17 10 0.29
18 10 0.29
19 6 0.18
20 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTATTTATTATAT
Found at i:22838 original size:23 final size:21
Alignment explanation
Indices: 22784--22852 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 21
22774 TAATATTATG
* * *
22784 AAAATAATATTAATTTAATTA
1 AAAATTATAATAATTTAAATA
22805 AAAATTATAATAATTATAAATA
1 AAAATTATAATAATT-TAAATA
* **
22827 ATAAATTTTAATTTTTTAAAATA
1 A-AAATTATAATAATTT-AAATA
22850 AAA
1 AAA
22853 TTTTTATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 13 0.33
22 9 0.23
23 17 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTATAATAATTTAAATA
Found at i:22995 original size:13 final size:15
Alignment explanation
Indices: 22979--23015 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
22969 ATCATAATTT
22979 TATTAT-TTTAT-TA
1 TATTATATTTATATA
22992 TATTATATTTATATA
1 TATTATATTTATATA
23007 TATATATAT
1 TAT-TATAT
23016 ATAAATCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 5 0.24
15 5 0.24
16 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATATTTATATA
Found at i:23149 original size:52 final size:52
Alignment explanation
Indices: 23079--23193 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 52
23069 AAAAGGTTAC
*
23079 ATTAATGTTTACATATGAATCATGATAATAGCTTTCTTATTTCTCATAAGAT
1 ATTAATGTTTACACATGAATCATGATAATAGCTTTCTTATTTCTCATAAGAT
* * * *
23131 ATTAAAGTTTACACATGAATCATGATAATGGCTTTCTTATTTCTTATCAGAT
1 ATTAATGTTTACACATGAATCATGATAATAGCTTTCTTATTTCTCATAAGAT
23183 ATTAATGTTTA
1 ATTAATGTTTA
23194 GGAGTCAAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (52 bp):
ATTAATGTTTACACATGAATCATGATAATAGCTTTCTTATTTCTCATAAGAT
Found at i:23383 original size:20 final size:20
Alignment explanation
Indices: 23360--23397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23350 ATTTTTAAAA
23360 TTATATAATATATATTAATT
1 TTATATAATATATATTAATT
**
23380 TTATATTTTATATATTAA
1 TTATATAATATATATTAA
23398 ATAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATAATATATATTAATT
Found at i:23489 original size:42 final size:40
Alignment explanation
Indices: 23453--23533 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
23443 TTTAAACATT
*
23453 AAAAAATATATTAAGTTATTTAAATTTTAAAATTTAATAA
1 AAAAAATATATTAAATTATTTAAATTTTAAAATTTAATAA
** *
23493 AAAAAATATATTAAATTA-TTAAAAATT-AAATTTATTAA
1 AAAAAATATATTAAATTATTTAAATTTTAAAATTTAATAA
23531 AAA
1 AAA
23534 TATATTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 13 0.35
39 7 0.19
40 17 0.46
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (40 bp):
AAAAAATATATTAAATTATTTAAATTTTAAAATTTAATAA
Found at i:23507 original size:24 final size:24
Alignment explanation
Indices: 23479--23532 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
23469 TATTTAAATT
23479 TTAAAATTTAATAAAAA-AAATATA
1 TTAAAA-TTAATAAAAATAAATATA
* *
23503 TT-AAATTATTAAAAATTAAATTTA
1 TTAAAATTAATAAAAA-TAAATATA
23527 TTAAAA
1 TTAAAA
23533 ATATATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 9 0.36
23 3 0.12
24 10 0.40
25 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAAATTAATAAAAATAAATATA
Found at i:23529 original size:16 final size:16
Alignment explanation
Indices: 23502--23547 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
23492 AAAAAAATAT
23502 ATTAAA-TTATTAAAA
1 ATTAAATTTATTAAAA
23517 ATTAAATTTATTAAAA
1 ATTAAATTTATTAAAA
* *
23533 A-TATATTTAATAAAA
1 ATTAAATTTATTAAAA
23548 TAAGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAATTTATTAAAA
Found at i:26805 original size:15 final size:15
Alignment explanation
Indices: 26787--26828 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
26777 ATTAAATTAC
*
26787 TAAAAATTAAATTTT
1 TAAAAAATAAATTTT
*
26802 TAAAAAAT-AAGTTT
1 TAAAAAATAAATTTT
26816 TAAAAAATAAATT
1 TAAAAAATAAATT
26829 AAAAAAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TAAAAAATAAATTTT
Found at i:28327 original size:18 final size:18
Alignment explanation
Indices: 28304--28340 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
28294 TTGGAAACGA
28304 AATG-AAAAAATAAAATAC
1 AATGAAAAAAAT-AAATAC
28322 AATGAAAAAAATAAATAC
1 AATGAAAAAAATAAATAC
28340 A
1 A
28341 CTGCATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AATGAAAAAAATAAATAC
Found at i:29721 original size:17 final size:17
Alignment explanation
Indices: 29699--29820 Score: 68
Period size: 17 Copynumber: 6.6 Consensus size: 17
29689 ATTTTAAATG
29699 ATAAAATTTAAATTTAT
1 ATAAAATTTAAATTTAT
*
29716 ATAAAATTTAATATTATTT
1 ATAAAATTTAA-ATT-TAT
* * **
29735 AATTAAATATATTTTTAT
1 -ATAAAATTTAAATTTAT
29753 -TAAATATTTATAATATTTAAT
1 ATAAA-A-TT-TAA-ATTT-AT
*
29774 ATTAAAATTTTAAATATA-
1 A-TAAAA-TTTAAATTTAT
29792 ATTAAAATTTAAATTTAT
1 A-TAAAATTTAAATTTAT
*
29810 ATAAAAATTAA
1 ATAAAATTTAA
29821 TATTATTTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
16 3 0.04
17 30 0.37
18 14 0.17
19 7 0.09
20 14 0.17
21 5 0.06
22 4 0.05
23 4 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAAAATTTAAATTTAT
Found at i:29741 original size:31 final size:31
Alignment explanation
Indices: 29706--29842 Score: 97
Period size: 31 Copynumber: 4.4 Consensus size: 31
29696 ATGATAAAAT
29706 TTAAATTTATATAAAATTTAATATTATTTAA
1 TTAAATTTATATAAAATTTAATATTATTTAA
* ***
29737 TTAAATATAT-TTTTA-TTAA-A-TATTT-A
1 TTAAATTTATATAAAATTTAATATTATTTAA
* *
29763 -TAATATTTAATATTAAAATTTTAAATATAATTAAAA
1 TTAA-ATTT-ATA-TAAAA-TTT-AATATTATT-TAA
*
29799 TTTAAATTTATATAAAAATTAATATTATTTAA
1 -TTAAATTTATATAAAATTTAATATTATTTAA
*
29831 TTAAATATATAT
1 TTAAATTTATAT
29843 TTTATTAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
25 3 0.04
26 4 0.05
27 7 0.09
28 1 0.01
29 6 0.08
30 2 0.03
31 22 0.28
32 4 0.05
33 9 0.11
34 5 0.06
35 5 0.06
36 4 0.05
37 4 0.05
38 3 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
TTAAATTTATATAAAATTTAATATTATTTAA
Found at i:29743 original size:15 final size:16
Alignment explanation
Indices: 29720--29760 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
29710 ATTTATATAA
*
29720 AATTTAATATTA-TTT
1 AATTAAATATTATTTT
29735 AATTAAATA-TATTTT
1 AATTAAATATTATTTT
*
29750 TATTAAATATT
1 AATTAAATATT
29761 TATAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 19 0.86
16 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTAAATATTATTTT
Found at i:29810 original size:94 final size:95
Alignment explanation
Indices: 29700--29888 Score: 353
Period size: 94 Copynumber: 2.0 Consensus size: 95
29690 TTTTAAATGA
*
29700 TAAAATTTAAATTTATATAAAATTTAATATTATTTAATTAAATATAT-TTTTATTAAATATTTAT
1 TAAAATTTAAATTTATATAAAAATTAATATTATTTAATTAAATATATATTTTATTAAATATTTAT
29764 AATATTTAATATTAAAATTTTAAATATAAT
66 AATATTTAATATTAAAATTTTAAATATAAT
29794 TAAAATTTAAATTTATATAAAAATTAATATTATTTAATTAAATATATATTTTATTAAATATTTAT
1 TAAAATTTAAATTTATATAAAAATTAATATTATTTAATTAAATATATATTTTATTAAATATTTAT
*
29859 AATCTTTAATATTAAAATTTTAAATATAAT
66 AATATTTAATATTAAAATTTTAAATATAAT
29889 CAACTCAAAT
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 46 0.50
95 46 0.50
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (95 bp):
TAAAATTTAAATTTATATAAAAATTAATATTATTTAATTAAATATATATTTTATTAAATATTTAT
AATATTTAATATTAAAATTTTAAATATAAT
Found at i:29834 original size:14 final size:15
Alignment explanation
Indices: 29815--29855 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
29805 TTTATATAAA
29815 AATT-AATATTATTT
1 AATTAAATATTATTT
29829 AATTAAATATATATTT
1 AATTAAATAT-TATTT
*
29845 TATTAAATATT
1 AATTAAATATT
29856 TATAATCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAAATATTATTT
Found at i:29882 original size:31 final size:30
Alignment explanation
Indices: 29752--29885 Score: 87
Period size: 31 Copynumber: 4.3 Consensus size: 30
29742 TATATTTTTA
*
29752 TTAAATATTTATAATATTTAATATTAAAATT
1 TTAAATATTTATAAT-TTAAATATTAAAATT
* *
29783 TTAAATATAATTAAAATTTAAATTTATATAAAA-A
1 TTAAATAT--TTATAATTTAAA--TAT-TAAAATT
* **
29817 TT-AATATTATTTAA-TTAAATA-TATATTTT
1 TTAAATATT-TATAATTTAAATATTA-AAATT
*
29846 ATTAAATATTTATAATCTTTAATATTAAAATT
1 -TTAAATATTTATAAT-TTAAATATTAAAATT
29878 TTAAATAT
1 TTAAATAT
29886 AATCAACTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 26
0.67 0.10 0.22
Matches are distributed among these distances:
27 2 0.03
28 1 0.01
29 2 0.03
30 6 0.08
31 28 0.36
32 16 0.21
33 13 0.17
34 5 0.06
35 5 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
TTAAATATTTATAATTTAAATATTAAAATT
Found at i:30327 original size:23 final size:22
Alignment explanation
Indices: 30297--30342 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
30287 TTTAAATAAA
**
30297 ATTTTTATTTTAAAAATTTATCT
1 ATTTTTATACTAAAAA-TTATCT
30320 ATTTTTATACTAAAAATTATCT
1 ATTTTTATACTAAAAATTATCT
30342 A
1 A
30343 ATAAGCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTTATACTAAAAATTATCT
Found at i:30795 original size:29 final size:27
Alignment explanation
Indices: 30769--30826 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 27
30759 GTATAAATAC
*
30769 TAAAAAATATGTTAAATTACTTAAAATTTA
1 TAAAAAAAAT-TTAAATTA-TTAAAA-TTA
30799 TAAAAAAAATTTAAATTATTAAAGATTA
1 TAAAAAAAATTTAAATTATTAAA-ATTA
30827 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
29 9 0.35
30 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (27 bp):
TAAAAAAAATTTAAATTATTAAAATTA
Found at i:32381 original size:4 final size:4
Alignment explanation
Indices: 32372--32396 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32362 AGTTAAGAAT
32372 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
32397 TGCCCTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:33311 original size:3 final size:3
Alignment explanation
Indices: 33303--33339 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
33293 GCATTCTTTC
33303 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
33340 ATCTTGTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:34689 original size:10 final size:10
Alignment explanation
Indices: 34674--34699 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34664 AGTGTAATTA
34674 TTAAAAATAT
1 TTAAAAATAT
34684 TTAAAAATAT
1 TTAAAAATAT
34694 TTAAAA
1 TTAAAA
34700 TTTAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:36232 original size:2 final size:2
Alignment explanation
Indices: 36225--36256 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36215 TGAATAATTT
36225 TA TA TA TA 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 TA
36257 AAACAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36574 original size:28 final size:27
Alignment explanation
Indices: 36543--36599 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
36533 TTGTATGAAA
36543 AAATA-ATATAAATATAATATATATATAT
1 AAATATAT-TAAATATAATATATATA-AT
* * *
36571 AAATTTATTAAATTTTATATATATAAT
1 AAATATATTAAATATAATATATATAAT
36598 AA
1 AA
36600 TACGAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 19 0.76
29 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATATATTAAATATAATATATATAAT
Found at i:36591 original size:39 final size:37
Alignment explanation
Indices: 36548--36645 Score: 108
Period size: 39 Copynumber: 2.6 Consensus size: 37
36538 TGAAAAAATA
* *
36548 ATATAAATATAATATATATATATAAATTTATTAAATTTT
1 ATATAAATATAATATA-AT-TATAAATATATTAAAATTT
* * *
36587 ATATATATAATAATACGAATTATTAATATATTAAAATTT
1 ATATAAAT-ATAATA-TAATTATAAATATATTAAAATTT
36626 ATATAAATAT-ATATAATTAT
1 ATATAAATATAATATAATTAT
36646 TTAAACAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
36 6 0.12
37 3 0.06
38 2 0.04
39 30 0.60
40 8 0.16
41 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (37 bp):
ATATAAATATAATATAATTATAAATATATTAAAATTT
Found at i:37895 original size:14 final size:13
Alignment explanation
Indices: 37876--37916 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
37866 TATTAGATAT
37876 AAATATTATCTTTA
1 AAATATTAT-TTTA
*
37890 AAATA-T-TTTAA
1 AAATATTATTTTA
37901 AAATATTATTTTA
1 AAATATTATTTTA
37914 AAA
1 AAA
37917 GATGAGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 8 0.35
14 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTATTTTA
Found at i:37968 original size:23 final size:23
Alignment explanation
Indices: 37941--37986 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37931 ATAATTTTTT
37941 ATTTTTAAAAT-TTTTAAAAATAA
1 ATTTTT-AAATCTTTTAAAAATAA
**
37964 ATTTTTTTATCTTTTAAAAATAA
1 ATTTTTAAATCTTTTAAAAATAA
37987 TTATTAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTAAATCTTTTAAAAATAA
Found at i:38175 original size:18 final size:18
Alignment explanation
Indices: 38152--38219 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
38142 TAAAAATATG
38152 ATATAAATATATAAATTT
1 ATATAAATATATAAATTT
* *
38170 ATATAAAAATA-AAAATT
1 ATATAAATATATAAATTT
* *
38187 AT-TAATATGTTTAAATTT
1 ATATAA-ATATATAAATTT
38205 ATATAAATAATATAA
1 ATATAAAT-ATATAA
38220 TACCTTAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 3 0.08
17 9 0.24
18 19 0.50
19 7 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAAATATATAAATTT
Found at i:38209 original size:35 final size:37
Alignment explanation
Indices: 38137--38216 Score: 103
Period size: 35 Copynumber: 2.2 Consensus size: 37
38127 GCACTATGAA
38137 AAAAATAAAAATATGATATAAATATATAAATTTATAT
1 AAAAATAAAAATATGATATAAATATATAAATTTATAT
* *
38174 AAAAATAAAAAT-T-AT-TAATATGTTTAAATTTATAT
1 AAAAATAAAAATATGATATAA-ATATATAAATTTATAT
38209 AAATAATA
1 AAA-AATA
38217 TAATACCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 3 0.08
35 19 0.49
36 5 0.13
37 12 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (37 bp):
AAAAATAAAAATATGATATAAATATATAAATTTATAT
Found at i:38591 original size:18 final size:18
Alignment explanation
Indices: 38560--38594 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38550 ACTTTTTTAA
**
38560 AAATTTAATTATTTATTT
1 AAATTTAAAAATTTATTT
38578 AAATTTAAAAATTTATT
1 AAATTTAAAAATTTATT
38595 CTATATTAAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTTAAAAATTTATTT
Found at i:38601 original size:25 final size:25
Alignment explanation
Indices: 38555--38609 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
38545 TATAAACTTT
*
38555 TTTAAAAATTTAATTATTTATTTAAA
1 TTTAAAAATTTAATTATATA-TTAAA
*
38581 TTTAAAAATTT-ATTCTATATTAAA
1 TTTAAAAATTTAATTATATATTAAA
38605 TTTAA
1 TTTAA
38610 TAAAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 10 0.37
25 6 0.22
26 11 0.41
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAAAAATTTAATTATATATTAAA
Found at i:38619 original size:25 final size:22
Alignment explanation
Indices: 38569--38619 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
38559 AAAATTTAAT
**
38569 TATTTATTTAAATTTAAAAATT
1 TATTTATTTAAATTTAAAAAAA
38591 TATTCTATATTAAATTTAATAAAAA
1 TATT-TAT-TTAAATTTAA-AAAAA
38616 TATT
1 TATT
38620 GAGTAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 3 0.12
24 10 0.42
25 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTATTTAAATTTAAAAAAA
Found at i:39218 original size:21 final size:21
Alignment explanation
Indices: 39184--39224 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
39174 AGATTAATTT
*
39184 AATTTAAAATAATAT-TTTTA
1 AATTAAAAATAATATATTTTA
39204 AATTAAAATATAATATATTTT
1 AATTAAAA-ATAATATATTTT
39225 TATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAAAAATAATATATTTTA
Found at i:39233 original size:21 final size:21
Alignment explanation
Indices: 39184--39233 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
39174 AGATTAATTT
39184 AATTTAAA-ATAATATTTTTA
1 AATTTAAATATAATATTTTTA
*
39204 AATTAAAATATAATATATTTT-
1 AATTTAAATATAATAT-TTTTA
*
39225 TATTTAAAT
1 AATTTAAAT
39234 TTACTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTAAATATAATATTTTTA
Found at i:41441 original size:17 final size:20
Alignment explanation
Indices: 41416--41468 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
41406 TATATTAAAA
41416 TTATT-TAAAAATTAC-A-T
1 TTATTATAAAAATTACTATT
*
41433 TT-TTATAAAAATAACTATT
1 TTATTATAAAAATTACTATT
*
41452 TTATTACAAAAATTACT
1 TTATTATAAAAATTACT
41469 CACCTATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.07
17 11 0.38
18 1 0.03
19 3 0.10
20 12 0.41
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATTATAAAAATTACTATT
Found at i:42625 original size:14 final size:15
Alignment explanation
Indices: 42606--42639 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
42596 TTATTTTATT
42606 AATAAATAAAATA-A
1 AATAAATAAAATATA
*
42620 AATAAATAAATTATA
1 AATAAATAAAATATA
42635 AATAA
1 AATAA
42640 TTATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAATAAAATATA
Found at i:43628 original size:38 final size:37
Alignment explanation
Indices: 43551--43658 Score: 98
Period size: 37 Copynumber: 2.9 Consensus size: 37
43541 TATAATTTTA
43551 TTTAAAATATTTTATTAATAATTTATATTATATAAAT
1 TTTAAAATATTTTATTAATAATTTATATTATATAAAT
*
43588 TTTAAAATA-TTTATATATTAATATTATA-TACT-TAATAT
1 TTTAAAATATTTTAT-TAATAAT-TTATATTA-TATAA-AT
* * * **
43626 TTTATATTATATT-TTAATTTTTTATATTATATA
1 TTTAAAATATTTTATTAATAATTTATATTATATA
43659 GTTATATTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
36 11 0.19
37 28 0.49
38 16 0.28
39 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (37 bp):
TTTAAAATATTTTATTAATAATTTATATTATATAAAT
Found at i:43642 original size:20 final size:21
Alignment explanation
Indices: 43608--43666 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
43598 TTATATATTA
43608 ATATTATATACTTAATATTTT
1 ATATTATATACTTAATATTTT
* *
43629 ATATTATAT-TTTAATTTTTT
1 ATATTATATACTTAATATTTT
*
43649 ATATTATATAGTT-ATATT
1 ATATTATATACTTAATATT
43667 ATATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATTATATACTTAATATTTT
Found at i:43658 original size:7 final size:7
Alignment explanation
Indices: 43594--43680 Score: 71
Period size: 7 Copynumber: 13.3 Consensus size: 7
43584 AAATTTTAAA
43594 ATAT-TT
1 ATATATT
43600 ATATATT
1 ATATATT
43607 A-ATATT
1 ATATATT
43613 ATATACTT
1 ATATA-TT
43621 A-ATATT
1 ATATATT
*
43627 TTATATT
1 ATATATT
*
43634 ATATTTT
1 ATATATT
*
43641 A-ATTTT
1 ATATATT
*
43647 TTATATT
1 ATATATT
*
43654 ATATAGT
1 ATATATT
43661 -TATATT
1 ATATATT
43667 ATAT-TT
1 ATATATT
43673 A-ATATT
1 ATATATT
43679 AT
1 AT
43681 TAAAATTTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
5 2 0.03
6 28 0.43
7 32 0.49
8 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (7 bp):
ATATATT
Found at i:43665 original size:13 final size:12
Alignment explanation
Indices: 43598--43680 Score: 60
Period size: 13 Copynumber: 6.3 Consensus size: 12
43588 TTTAAAATAT
43598 TTATATATTAATA
1 TTATATATT-ATA
43611 TTATATACTTAATA
1 TTATATA-TT-ATA
*
43625 TTTTATATTATA
1 TTATATATTATA
* *
43637 TTTTAATTTTTTATA
1 --TT-ATATATTATA
43652 TTATATAGTTATA
1 TTATATA-TTATA
43665 TTATAT-TTAATA
1 TTATATATT-ATA
43677 TTAT
1 TTAT
43681 TAAAATTTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.03
12 13 0.22
13 22 0.38
14 14 0.24
15 7 0.12
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (12 bp):
TTATATATTATA
Found at i:43672 original size:27 final size:26
Alignment explanation
Indices: 43565--43680 Score: 87
Period size: 27 Copynumber: 4.4 Consensus size: 26
43555 AAATATTTTA
*
43565 TTAATAATT-TATATTATA-TAAATTT
1 TTAAT-ATTATATATTATATTATATTT
* **
43590 TAAAATATTTATATATTAATATTATATAC
1 T-TAATA-TTATATATT-ATATTATATTT
* *
43619 TTAATATTTTATATTATATTTTAATTT
1 TTAATATTATATATTATATTAT-ATTT
*
43646 TTTATATTATATAGTTATATTATA--T
1 TTAATATTATATA-TTATATTATATTT
43671 TTAATATTAT
1 TTAATATTAT
43681 TAAAATTTAC
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
25 12 0.17
26 11 0.15
27 28 0.39
28 15 0.21
29 5 0.07
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (26 bp):
TTAATATTATATATTATATTATATTT
Found at i:47474 original size:24 final size:25
Alignment explanation
Indices: 47440--47486 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
47430 ATTACGTTCA
47440 ATAATATAATATA-ATATATTTAAAT
1 ATAATATAATA-AGATATATTTAAAT
47465 ATAAT-TAATAAGATATATTTAA
1 ATAATATAATAAGATATATTTAA
47487 TACTTATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 15 0.71
25 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAATATAATAAGATATATTTAAAT
Found at i:48988 original size:6 final size:6
Alignment explanation
Indices: 48977--49023 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
48967 GTCTTCATTA
* * *
48977 TATATG TATATG TATATA TATATA TATATG CATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATAT
49024 ATTTTTACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:49005 original size:24 final size:24
Alignment explanation
Indices: 48975--49025 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
48965 GAGTCTTCAT
*
48975 TATATATGTATATGTATATATATA
1 TATATATGCATATGTATATATATA
*
48999 TATATATGCATATGTATATGTATA
1 TATATATGCATATGTATATATATA
49023 TAT
1 TAT
49026 TTTTACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (24 bp):
TATATATGCATATGTATATATATA
Found at i:50427 original size:29 final size:31
Alignment explanation
Indices: 50361--50430 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
50351 TTTAAAGTGT
*
50361 TTTATAATTATATAAATTTTGATATGTTAATA
1 TTTAT-ATTATATAAATTTTGAGATGTTAATA
* * *
50393 ATTATATTATATAGATTTTGAGAT-TT-GTA
1 TTTATATTATATAAATTTTGAGATGTTAATA
50422 TTTATATTA
1 TTTATATTA
50431 CATATTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 2 0.06
31 17 0.52
32 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (31 bp):
TTTATATTATATAAATTTTGAGATGTTAATA
Found at i:50982 original size:19 final size:18
Alignment explanation
Indices: 50960--51001 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
50950 ATATACATAT
50960 ATATATTATAAATAAAGAC
1 ATATA-TATAAATAAAGAC
50979 --ATATATAAATAAAGAC
1 ATATATATAAATAAAGAC
*
50995 ATGTATA
1 ATATATA
51002 CTCTTAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
16 13 0.65
17 3 0.15
18 4 0.20
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
ATATATATAAATAAAGAC
Found at i:50987 original size:16 final size:16
Alignment explanation
Indices: 50966--51001 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50956 ATATATATAT
50966 TATAAATAAAGACATA
1 TATAAATAAAGACATA
*
50982 TATAAATAAAGACATG
1 TATAAATAAAGACATA
50998 TATA
1 TATA
51002 CTCTTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (16 bp):
TATAAATAAAGACATA
Found at i:53340 original size:30 final size:29
Alignment explanation
Indices: 53269--53328 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
53259 GTTTAATTAA
*
53269 AGATA-AATTAAAGGTTAAAGATTTATTT
1 AGATACAATTAAAGATTAAAGATTTATTT
53297 AGATACAAGTTAAAGATT-AAGTATTTATTT
1 AGATACAA-TTAAAGATTAAAG-ATTTATTT
53327 AG
1 AG
53329 GTATGAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.18
29 5 0.18
30 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (29 bp):
AGATACAATTAAAGATTAAAGATTTATTT
Found at i:53614 original size:22 final size:20
Alignment explanation
Indices: 53581--53620 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
53571 TATTCAATAA
53581 ATTTAAATTTAAATTTTAAT
1 ATTTAAATTTAAATTTTAAT
*
53601 ATTTATAATCTTAATTTTTA
1 ATTTA-AAT-TTAAATTTTA
53621 TTTTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAAATTTAAATTTTAAT
Found at i:54272 original size:10 final size:10
Alignment explanation
Indices: 54243--54325 Score: 50
Period size: 10 Copynumber: 8.5 Consensus size: 10
54233 ATGAATTGTT
54243 AATATATTAAA
1 AATATA-TAAA
*
54254 ATTTATATAAA
1 A-ATATATAAA
54265 AATATAT-AA
1 AATATATAAA
*
54274 AAT-T-T-TA
1 AATATATAAA
* *
54281 AATATGATTAT
1 AATAT-ATAAA
54292 AATATATAAA
1 AATATATAAA
54302 AATATATAAA
1 AATATATAAA
* *
54312 TATA-ATCAA
1 AATATATAAA
54321 AATAT
1 AATAT
54326 TTGAATTCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 12 0.21
10 22 0.39
11 11 0.20
12 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
AATATATAAA
Found at i:54325 original size:27 final size:27
Alignment explanation
Indices: 54263--54325 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
54253 AATTTATATA
* * *
54263 AAAATATATAAAATTTTAAATATGATT
1 AAAATATATAAAATTATAAATATAATC
*
54290 ATAATATATAAAAATATATAAATATAATC
1 AAAATATAT-AAAAT-TATAAATATAATC
54319 AAAATAT
1 AAAATAT
54326 TTGAATTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 8 0.28
28 5 0.17
29 16 0.55
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATATATAAAATTATAAATATAATC
Found at i:55028 original size:13 final size:13
Alignment explanation
Indices: 55007--55037 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
54997 TTCACAATTC
55007 TTTTT-GTTGTTG
1 TTTTTAGTTGTTG
55019 TTTTTAGTTGTTG
1 TTTTTAGTTGTTG
55032 TTTTTA
1 TTTTTA
55038 CTTTTACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.06, C:0.00, G:0.19, T:0.74
Consensus pattern (13 bp):
TTTTTAGTTGTTG
Found at i:56341 original size:2 final size:2
Alignment explanation
Indices: 56334--56358 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56324 TACGTAAATT
56334 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
56359 GATTTTACAT
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:57328 original size:21 final size:22
Alignment explanation
Indices: 57304--57359 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
57294 AAAAAATAAT
57304 ATTTATAA-ATTTAAAAT-TCAA
1 ATTT-TAATATTTAAAATCTCAA
*
57325 ATTTTAATATTTATAATCTC-A
1 ATTTTAATATTTAAAATCTCAA
*
57346 ATTTTTAT-TTTAAA
1 ATTTTAATATTTAAA
57360 CTACGATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAATATTTAAAATCTCAA
Found at i:57330 original size:22 final size:23
Alignment explanation
Indices: 57305--57353 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
57295 AAAAATAATA
57305 TTTATAAATTTAAAAT-TCAAAT
1 TTTATAAATTTAAAATCTCAAAT
* * *
57327 TTTA-ATATTTATAATCTCAATT
1 TTTATAAATTTAAAATCTCAAAT
57349 TTTAT
1 TTTAT
57354 TTTAAACTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATAAATTTAAAATCTCAAAT
Found at i:61824 original size:16 final size:16
Alignment explanation
Indices: 61803--61849 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
61793 AAACAAATCC
61803 GAATCTAAAATGATCT
1 GAATCTAAAATGATCT
*
61819 GAATCTCAAATGA-CT
1 GAATCTAAAATGATCT
* *
61834 CAAACTCAAAATGATC
1 GAATCT-AAAATGATC
61850 AAACTCGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 6 0.24
16 18 0.72
17 1 0.04
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (16 bp):
GAATCTAAAATGATCT
Found at i:61843 original size:15 final size:15
Alignment explanation
Indices: 61826--61855 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
61816 TCTGAATCTC
61826 AAATGACTCAAACTCA
1 AAATGA-TCAAACTCA
61842 AAATGATCAAACTC
1 AAATGATCAAACTC
61856 GATAAACCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (15 bp):
AAATGATCAAACTCA
Found at i:62193 original size:24 final size:24
Alignment explanation
Indices: 62164--62243 Score: 126
Period size: 24 Copynumber: 3.3 Consensus size: 24
62154 CAAGCATGAC
* *
62164 GCATGCATATATACATGTATG-GAA
1 GCATGCATATCTACAAGTATGCG-A
62188 GCATGCATATCTACAAGTATGCGA
1 GCATGCATATCTACAAGTATGCGA
62212 GCATGCATATCTACAAGTATGCGA
1 GCATGCATATCTACAAGTATGCGA
62236 GCATGCAT
1 GCATGCAT
62244 GTATGCAAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
24 52 0.98
25 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
GCATGCATATCTACAAGTATGCGA
Found at i:62247 original size:16 final size:15
Alignment explanation
Indices: 62228--62282 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
62218 ATATCTACAA
62228 GTATGCGAGCATGCAT
1 GTATGC-AGCATGCAT
*
62244 GTATGCAAGCACGCAT
1 GTATGC-AGCATGCAT
*
62260 ATATGCATGCATGCAT
1 GTATGCA-GCATGCAT
62276 GTATGCA
1 GTATGCA
62283 TACATAATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (15 bp):
GTATGCAGCATGCAT
Found at i:62252 original size:24 final size:23
Alignment explanation
Indices: 62164--62252 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 23
62154 CAAGCATGAC
*
62164 GCATGCATATATACATGTATGGAA
1 GCATGCATATATACAAGTATGG-A
*
62188 GCATGCATATCTACAAGTATGCGA
1 GCATGCATATATACAAGTATG-GA
*
62212 GCATGCATATCTACAAGTATGCGA
1 GCATGCATATATACAAGTATG-GA
* *
62236 GCATGCATGTATGCAAG
1 GCATGCATATATACAAG
62253 CACGCATATA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 58 0.98
25 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (23 bp):
GCATGCATATATACAAGTATGGA
Found at i:62283 original size:16 final size:16
Alignment explanation
Indices: 62236--62283 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
62226 AAGTATGCGA
*
62236 GCATGCATGTATGCAA
1 GCATGCATGTATGCAT
* *
62252 GCACGCATATATGCAT
1 GCATGCATGTATGCAT
62268 GCATGCATGTATGCAT
1 GCATGCATGTATGCAT
62284 ACATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (16 bp):
GCATGCATGTATGCAT
Found at i:63490 original size:8 final size:8
Alignment explanation
Indices: 63477--63507 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
63467 GGAACTTACT
63477 AACAAAAA
1 AACAAAAA
63485 AACAAAAA
1 AACAAAAA
63493 AACAAAAA
1 AACAAAAA
63501 AA-AAAAA
1 AACAAAAA
63508 GAAAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAAAAA
Found at i:64037 original size:57 final size:57
Alignment explanation
Indices: 63938--64057 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 57
63928 CATCTCCATT
* * * * *
63938 ACTTTCTTCTTGACCGGCAGTGCCATTAACACGGGTTATTGAAGTAGAGACTGAACC
1 ACTTTCGTCATGACCAGCAGTACCATTAACACGGGTTATTGAAGTAGAGACCGAACC
* * * *
63995 GCTTTCGTCATGACCAGCAGTACCATTAACATGGTTTGTTGAAGTAGAGACCGAACC
1 ACTTTCGTCATGACCAGCAGTACCATTAACACGGGTTATTGAAGTAGAGACCGAACC
64052 ACTTTC
1 ACTTTC
64058 TTGAGCTCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (57 bp):
ACTTTCGTCATGACCAGCAGTACCATTAACACGGGTTATTGAAGTAGAGACCGAACC
Found at i:66158 original size:3 final size:3
Alignment explanation
Indices: 66145--66182 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
66135 AACAGTAGCT
*
66145 TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
66183 TTCCCCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:66462 original size:15 final size:15
Alignment explanation
Indices: 66442--66472 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66432 AAATCCATTA
*
66442 TTTATTTTTTCATAT
1 TTTATTTTTTAATAT
66457 TTTATTTTTTAATAT
1 TTTATTTTTTAATAT
66472 T
1 T
66473 AAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTAATAT
Found at i:66488 original size:22 final size:23
Alignment explanation
Indices: 66462--66509 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
66452 CATATTTTAT
66462 TTTTTAATATTAAAAAATATATA
1 TTTTTAATATTAAAAAATATATA
* * *
66485 TTTTTACT-TTTAAAAATTTATA
1 TTTTTAATATTAAAAAATATATA
66507 TTT
1 TTT
66510 AATAGTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTAATATTAAAAAATATATA
Found at i:66747 original size:20 final size:20
Alignment explanation
Indices: 66712--66749 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66702 TAAATAAGTT
* *
66712 AAATAAAATTATAATATTAA
1 AAATAAAATAAAAATATTAA
66732 AAATAAAATAAAAATATT
1 AAATAAAATAAAAATATT
66750 TATATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAAAATAAAAATATTAA
Found at i:70737 original size:2 final size:2
Alignment explanation
Indices: 70730--70772 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
70720 TTGAAAGGCA
70730 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
70772 T
1 T
70773 GCATGACCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:76611 original size:2 final size:2
Alignment explanation
Indices: 76604--76633 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
76594 GCTTATAATA
76604 AT AT AT AT AT 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
76634 CAAATGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76865 original size:18 final size:18
Alignment explanation
Indices: 76805--76865 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
76795 ATCCAGCCGA
* *
76805 TTAA-TAATTTTAATGAT
1 TTAATTAATTTAAATTAT
76822 TTAATTTAATTTAAATTAT
1 TTAA-TTAATTTAAATTAT
*
76841 TT-TTTAATTTTAAATT-T
1 TTAATTAA-TTTAAATTAT
76858 TTAATTAA
1 TTAATTAA
76866 AAAATAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 11 0.31
18 12 0.33
19 13 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTAATTAATTTAAATTAT
Found at i:77350 original size:5 final size:5
Alignment explanation
Indices: 77340--77421 Score: 66
Period size: 5 Copynumber: 17.0 Consensus size: 5
77330 TTCAATTTTA
* *
77340 AATAT AATAT AAT-T -ACAT AATAT AATAT AATAAT AAAAT AATTAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AA-TAT AATAT
* * *
77390 AATAT -ATA- AA-AT AATAA AATAA AAAAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT
77422 GATTATGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
3 2 0.03
4 8 0.13
5 44 0.71
6 8 0.13
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:77361 original size:13 final size:13
Alignment explanation
Indices: 77343--77421 Score: 73
Period size: 13 Copynumber: 6.5 Consensus size: 13
77333 AATTTTAAAT
77343 ATAATATAAT-TA
1 ATAATATAATATA
77355 CATAATATAATATA
1 -ATAATATAATATA
77369 ATAATA-AA-ATA
1 ATAATATAATATA
77380 AT--TATAATATA
1 ATAATATAATATA
*
77391 AT-ATATAAAATA
1 ATAATATAATATA
* *
77403 ATAAAATAA-AAA
1 ATAATATAATATA
77415 ATAATAT
1 ATAATAT
77422 GATTATGTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.04
10 2 0.04
11 10 0.18
12 20 0.35
13 21 0.37
14 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:77372 original size:8 final size:8
Alignment explanation
Indices: 77343--77421 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
77333 AATTTTAAAT
77343 ATAATATA
1 ATAATATA
77351 ATTACATA-A
1 A-TA-ATATA
77360 TATAATATA
1 -ATAATATA
*
77369 ATAATAAA
1 ATAATATA
77377 ATAAT-T-
1 ATAATATA
77383 ATAATATA
1 ATAATATA
*
77391 ATATATAAA
1 ATA-ATATA
*
77400 ATAATAAA
1 ATAATATA
*
77408 ATAA-AAA
1 ATAATATA
77415 ATAATAT
1 ATAATAT
77422 GATTATGTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
6 5 0.08
7 8 0.14
8 29 0.49
9 13 0.22
10 4 0.07
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAATATA
Found at i:77374 original size:3 final size:3
Alignment explanation
Indices: 77343--77420 Score: 57
Period size: 3 Copynumber: 28.0 Consensus size: 3
77333 AATTTTAAAT
*
77343 ATA AT- ATA ATTA CATA AT- ATA AT- ATA ATA ATA A-A ATA ATT ATA
1 ATA ATA ATA A-TA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77386 AT- ATA ATA TATA A-A ATA ATA A-A ATA A-A A-A ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77421 TGATTATGTC
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
2 18 0.29
3 36 0.58
4 7 0.11
5 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:77415 original size:7 final size:8
Alignment explanation
Indices: 77356--77420 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
77346 ATATAATTAC
*
77356 ATAATATA
1 ATAAAATA
*
77364 ATATAATA
1 ATAAAATA
77372 ATAAAATA
1 ATAAAATA
*
77380 AT--TATA
1 ATAAAATA
*
77386 ATATAATA
1 ATAAAATA
77394 TATAAAATA
1 -ATAAAATA
77403 ATAAAATA
1 ATAAAATA
77411 A-AAAATA
1 ATAAAATA
77418 ATA
1 ATA
77421 TGATTATGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 5 0.11
7 7 0.15
8 28 0.60
9 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAAAATA
Found at i:78012 original size:27 final size:27
Alignment explanation
Indices: 77976--78037 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
77966 TTAAATTTTA
*
77976 TTTATTAATATTTATTATAATTATAAT
1 TTTAATAATATTTATTATAATTATAAT
* *
78003 TTTGATAATATTTATTATGATTATAAT
1 TTTAATAATATTTATTATAATTATAAT
78030 TTTAATAA
1 TTTAATAA
78038 ATATGATGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTAATAATATTTATTATAATTATAAT
Found at i:79090 original size:27 final size:29
Alignment explanation
Indices: 79029--79090 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
79019 AATATTTATA
*
79029 TATTT-AATAATTAAAATTTTTTTATATT
1 TATTTAAATAATTAAAATTATTTTATATT
*
79057 TA-ATAAATAATT-AAATTATTTTAT-TT
1 TATTTAAATAATTAAAATTATTTTATATT
79083 TATTTAAA
1 TATTTAAA
79091 ACTCTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 16 0.55
28 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TATTTAAATAATTAAAATTATTTTATATT
Found at i:80247 original size:23 final size:23
Alignment explanation
Indices: 80221--80272 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
80211 TGATATTATT
* *
80221 TTTATTCTTTATTTTCATTTTTC
1 TTTAATCTTTATTTTCATCTTTC
80244 TTTAATCTTTATTTTCATCTTTC
1 TTTAATCTTTATTTTCATCTTTC
80267 TTTAAT
1 TTTAAT
80273 TAATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTAATCTTTATTTTCATCTTTC
Found at i:80265 original size:12 final size:12
Alignment explanation
Indices: 80216--80265 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
80206 ATGTTTGATA
*
80216 TTATTTTTATTCT
1 TTATTTTCA-TCT
80229 TTATTTTCAT-T
1 TTATTTTCATCT
*
80240 TT-TCTTTAATCT
1 TTAT-TTTCATCT
80252 TTATTTTCATCT
1 TTATTTTCATCT
80264 TT
1 TT
80266 CTTTAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
10 1 0.03
11 8 0.26
12 13 0.42
13 9 0.29
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTTCATCT
Found at i:80506 original size:15 final size:16
Alignment explanation
Indices: 80476--80508 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
80466 AAATTTTAAT
80476 TATTTTGCAATAAAAA
1 TATTTTGCAATAAAAA
*
80492 TATTTTG-AGTAAAAA
1 TATTTTGCAATAAAAA
80507 TA
1 TA
80509 ATAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (16 bp):
TATTTTGCAATAAAAA
Found at i:85977 original size:20 final size:20
Alignment explanation
Indices: 85952--85998 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
85942 CCAAACAAAT
*
85952 AAAATAAATA-TAAAATATTA
1 AAAATAAATACT-AAATATAA
*
85972 AAAATATATACTAAATATAA
1 AAAATAAATACTAAATATAA
85992 AAAATAA
1 AAAATAA
85999 TCATGCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATAAATACTAAATATAA
Found at i:86284 original size:69 final size:69
Alignment explanation
Indices: 86173--86313 Score: 246
Period size: 69 Copynumber: 2.0 Consensus size: 69
86163 AGCTACCCAA
* *
86173 TTAACCTCAAAATCTCACTTCCGATATTTAAAAAAGTTTAGGTAAAAATGTGAAGTATGAAAAAT
1 TTAACCTCAAAATCTCACTTCCGATATTTAAAAAAATTTAGGTAAAAATGTGAAATATGAAAAAT
86238 AAGT
66 AAGT
* *
86242 TTAACTTCAAAATCTCACTTTCGATATTTAAAAAAATTTAGGTAAAAATGTGAAATATGAAAAAT
1 TTAACCTCAAAATCTCACTTCCGATATTTAAAAAAATTTAGGTAAAAATGTGAAATATGAAAAAT
86307 AAGT
66 AAGT
86311 TTA
1 TTA
86314 GACACAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (69 bp):
TTAACCTCAAAATCTCACTTCCGATATTTAAAAAAATTTAGGTAAAAATGTGAAATATGAAAAAT
AAGT
Found at i:87559 original size:3 final size:3
Alignment explanation
Indices: 87543--87697 Score: 96
Period size: 3 Copynumber: 51.0 Consensus size: 3
87533 TCTCCCCTGT
* * * * * * *
87543 CTG CTG TTG TTG CTG CTG CTG TTG CAG TTG TTG CTG CTG CTCG AGTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CT-G -CTG
* * * * *
87590 CTG CTG CTG CTG CTG CTG CTG TTG CAG TTG TTG CTG CTG CT- CGAG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C-TG
* * * * * *
87635 TTG CTG CTG CTG CTG CTG CTG CTG TTG CAG TTG TTG CTG CTG CTG TTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
* *
87683 CAG TTG CTG CTG CTG
1 CTG CTG CTG CTG CTG
87698 TTGCAGTTGT
Statistics
Matches: 116, Mismatches: 32, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
2 1 0.01
3 112 0.97
4 2 0.02
5 1 0.01
ACGTcount: A:0.04, C:0.24, G:0.34, T:0.39
Consensus pattern (3 bp):
CTG
Found at i:87577 original size:18 final size:18
Alignment explanation
Indices: 87551--87733 Score: 149
Period size: 18 Copynumber: 10.7 Consensus size: 18
87541 GTCTGCTGTT
*
87551 GTTGCTGCTGCTGTTGCA
1 GTTGTTGCTGCTGTTGCA
*
87569 GTTGTTGCTGCTGCT-C-
1 GTTGTTGCTGCTGTTGCA
* *
87585 G-AG-TGCTGCTGCTGC-
1 GTTGTTGCTGCTGTTGCA
*
87600 --TGCTGCTGCTGTTGCA
1 GTTGTTGCTGCTGTTGCA
*
87616 GTTGTTGCTGCTGCT-C-
1 GTTGTTGCTGCTGTTGCA
* *
87632 G-AGTTGCTGCTGCTGC-
1 GTTGTTGCTGCTGTTGCA
*
87648 --TGCTGCTGCTGTTGCA
1 GTTGTTGCTGCTGTTGCA
87664 GTTGTTGCTGCTGCTGTTGCA
1 GTTG-T--TGCTGCTGTTGCA
*
87685 GTTGCTGCTGCTGTTGCA
1 GTTGTTGCTGCTGTTGCA
*
87703 GTTGTTGCTGCTGTTGTA
1 GTTGTTGCTGCTGTTGCA
87721 GTTGTTGCTGCTG
1 GTTGTTGCTGCTG
87734 AAGCTGATGC
Statistics
Matches: 138, Mismatches: 15, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
14 11 0.08
15 37 0.27
16 3 0.02
17 2 0.01
18 68 0.49
21 17 0.12
ACGTcount: A:0.04, C:0.22, G:0.34, T:0.40
Consensus pattern (18 bp):
GTTGTTGCTGCTGTTGCA
Found at i:87728 original size:39 final size:39
Alignment explanation
Indices: 87648--87733 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
87638 CTGCTGCTGC
*
87648 TGCTGCTGCTGTTGCAGTTGTTGCTGCTGCTGTTGCAGT
1 TGCTGCTGCTGTTGCAGTTGTTGCTGCTGCTGTAGCAGT
* **
87687 TGCTGCTGCTGTTGCAGTTGTTGCTGCTGTTGTAGTTGT
1 TGCTGCTGCTGTTGCAGTTGTTGCTGCTGCTGTAGCAGT
87726 TGCTGCTG
1 TGCTGCTG
87734 AAGCTGATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.05, C:0.19, G:0.34, T:0.43
Consensus pattern (39 bp):
TGCTGCTGCTGTTGCAGTTGTTGCTGCTGCTGTAGCAGT
Found at i:91869 original size:636 final size:632
Alignment explanation
Indices: 90359--92123 Score: 2058
Period size: 636 Copynumber: 2.8 Consensus size: 632
90349 ATTTCATCCC
* *
90359 ATCCAAAGACCTCCACATGATCTTTCAAATTTCAAGACTTTCTTTTTCTTCAATATATAGCTCAA
1 ATCCAAAGACTTCCACATGATCTTTCAAATTTCAAGACTTTCTTTATCTTCAATATATAGCTCAA
*
90424 -AGACTCCTTTCTTTTTCTCCAATCAATTAAGTGATTTTCTTCCTTTCTTTAGTTGTGGTCCTTC
66 CA-ACTCCTTTCTTTTTCTCCAATCAATTAAGTGATTTTCTTCCTTTCTTTAGTTGTGCTCCTTC
* * *
90488 CTCCAGAATACTCACTCTCGGATGAAAGCAAAAGAGTTCAATTTTGTTTCACTCGTCAAACCT-A
130 CTCCAGAATACTCAC-CTCGGATGAAAGCAAAAGAGTTCAATTTT-TTTCTCTCGACAAACTTGA
* * * *
90552 CACCTACAGTGCATCAATGCCATCATTCAACCAACACTAGCAACTCATGGACTATGGAATGGGTG
193 -ACCTACAGAGCATCAATGCCTTCATTCAACCCACACTAGCAACTCATGGATTATGGAATGGGTG
* * * ** *
90617 TCACTACTTTCAAGTCTCACGTTTCAACACAACTTTGCAATGATTCCAAATTGAAATAGGTAATT
257 TCACTCCTATCAAGTCTCACGTTTCAACACAACTTTGAAACAATTCCAAAATGAAATAGGTAATT
* * * *
90682 TTAAGGTTTTTAAAAGTATAACTCATCTTCTTTTGAAGATTTTTGTTTGATTTTGAATTTTTGTT
322 TTAAAGTTTTTAATAGTATAACT--TCTTCTTCTGAAGTTTTTTGTTTGATTTTGAATTTTT-TT
* *
90747 TAAGCTAATCTAATAAATTGACAAATCAAGGTTTGTTA-CTTCGTTTTTTTTCGATTTATTTTTC
384 TAAGCTAATTTAATAAGTTGACAAATCAAGGTTTGTTACCTT-G-TTTTTTT-GATTTATTTTTC
* *
90811 TATTTTGACTTTTGGGGCTAATTTACATTTTTTTTTTTTGTTGTGAAGCTGAATTGCTACATGGA
446 TATTTTG-CTTTTGGGGCTAATTTAC-----------TT-TT-TGAAGCTGAATTGCTAAAGGGA
** * * * *
90876 AAAGGTAGGTAACAACTTAATGTCACCATTCGGGTGTTGCCATGAAAAGTTGAGCTTGGACTTGG
497 AAAGGTAGGTAACAACTTAATGTCACCATTCAAGTGTTGCAATGAAAAGCTGAGCTTCGACTTAG
* * * *
90941 AAGAGTACATTCCTGGGTTCAAGTGCCGCACATGCTTAGAGCTTGAGTCTCGGCCCATGACATTT
562 AAGAGTACATTCCTGGGTTCAAGTGCCACACATGCTTAAAGCTTGAGTCTCGACCCATAACATTT
*
91006 TGTCCT
627 TGTACT
*
91012 ATCCAAAGACTTCCACATGATCTTTCAAATTTCAAG-CTTTCTTTCTCTTCAATATATAGCTCAA
1 ATCCAAAGACTTCCACATGATCTTTCAAATTTCAAGACTTTCTTTATCTTCAATATATAGCTCAA
* * * *
91076 CGACTCCTTTCTTTTTCTCCAATCAATTAAGAGATTTTCTT-CTCTTCTTTAGTTGCGTTCCTTC
66 CAACTCCTTTCTTTTTCTCCAATCAATTAAGTGATTTTCTTCCT-TTCTTTAGTTGTGCTCCTTC
* * * *
91140 CTCCGGAATACTCACTCTCGGATGAAAGCAAAAGAGTTC-ATTTTTTTCTCTCAACAAGCTTGCA
130 CTCCAGAATACTCAC-CTCGGATGAAAGCAAAAGAGTTCAATTTTTTTCTCTCGACAAACTTGAA
* **
91204 CCTACAGGGCATCAATGCCTTCATTCAACCCACACTAGCAACAAATGGATTATGGAATGGGTGTC
194 CCTACAGAGCATCAATGCCTTCATTCAACCCACACTAGCAACTCATGGATTATGGAATGGGTGTC
* ** *** *
91269 ACTCCTATCAGGTCTCACGTTTCAATGCAACACGGAAACAATTCCAAAATCAAATAGGTAATTTT
259 ACTCCTATCAAGTCTCACGTTTCAACACAACTTTGAAACAATTCCAAAATGAAATAGGTAATTTT
*
91334 AAAGTTTTTAATAGTATAACTTGATTCTTCTGAAGTTTTTTGTTTGATTTTGAATTTTTATTTAA
324 AAAGTTTTTAATAGTATAACTT-CTTCTTCTGAAGTTTTTTGTTTGATTTTGAATTTTT-TTTAA
* * * *
91399 GCTAATTTAATAAGTTGACAAATCAACGTTTATTACCTTGTTTTTTTAATTTATTTTTTTATTTT
387 GCTAATTTAATAAGTTGACAAATCAAGGTTTGTTACCTTGTTTTTTTGATTTATTTTTCTATTTT
* * * * * *
91464 GCCTTTTGTGGCTAATTTACTTTTTGAGGCTTGAGTT-CTTAAAGGGAAATGGTGGGTAACAATT
452 G-CTTTTGGGGCTAATTTACTTTTTGAAGC-TGAATTGC-TAAAGGGAAAAGGTAGGTAACAACT
* * *
91528 TACTGTCACCA-TCAAGTG-T-CAAGGTGAAAGGCTGAGCTTCGACTTAGAAGAGTGCATT-CTC
514 TAATGTCACCATTCAAGTGTTGCAA--TGAAAAGCTGAGCTTCGACTTAGAAGAGTACATTCCT-
* *
91589 GGGTTCAAGTGCCACAC-TAGCTTAAAGCTTGAGTCTCGATCGATAACCATTTTGTACT
576 GGGTTCAAGTGCCACACAT-GCTTAAAGCTTGAGTCTCGACCCATAA-CATTTTGTACT
* * * *
91647 ATCCAAGGACTTCCACATAATCTTTCAAATTTCAAGACTTTCTTTATCTTCAATATCTAGCTTAA
1 ATCCAAAGACTTCCACATGATCTTTCAAATTTCAAGACTTTCTTTATCTTCAATATATAGCTCAA
* * * * * *
91712 CAACTCCTTTCTTCTTCTCTAGTTAATTATGTGATTTTCTTCCTTTCTTTAGTTGTGCTCATTCC
66 CAACTCCTTTCTTTTTCTCCAATCAATTAAGTGATTTTCTTCCTTTCTTTAGTTGTGCTCCTTCC
* ** *
91777 TCCAAAATACTCA-CTCAAAT-AAGAGCAGTAA-AGTTCAATTTTCTTTCTCTCGACAAACTTGA
131 TCCAGAATACTCACCTCGGATGAA-AGCA-AAAGAGTTCAATTTT-TTTCTCTCGACAAACTTGA
* * *
91839 ACCTACAGAGCATCAATGGCTTCATTCAACCCTACA-TCAGCAGCTCATGGATTATGGAATAGGT
193 ACCTACAGAGCATCAATGCCTTCATTCAACCC-ACACT-AGCAACTCATGGATTATGGAATGGGT
* * * *
91903 GTCACTCCTCTCAAGTCTCATGTTTCAACACAACTTTGTAACAATTCCAAAATGAAA-AGGCAAT
256 GTCACTCCTATCAAGTCTCACGTTTCAACACAACTTTGAAACAATTCCAAAATGAAATAGGTAAT
** * * *
91967 TTTAAAGTTTTGGATAGTACAAGTCATCTTCTTCTGGAA-TTTTTTGTTTGATTTTGAATTTTTG
321 TTTAAAGTTTTTAATAGTATAA--CTTCTTCTTCT-GAAGTTTTTTGTTTGATTTTGAATTTTTT
* * * * * * *
92031 TTAAGCTAATTTAATAAGTAGA-AAATGAGGGTTTGTTACTTTG-TTTTTCGATTTACTTTTCCA
383 TTAAGCTAATTTAATAAGTTGACAAATCAAGGTTTGTTACCTTGTTTTTTTGATTTATTTTTCTA
92094 TTTTAGCTTTTGGGGCTAATTTACTTTTTG
448 TTTT-GCTTTTGGGGCTAATTTACTTTTTG
92124 TTTTAAGATT
Statistics
Matches: 961, Mismatches: 127, Indels: 67
0.83 0.11 0.06
Matches are distributed among these distances:
632 2 0.00
633 6 0.01
634 134 0.14
635 105 0.11
636 183 0.19
637 105 0.11
638 5 0.01
647 34 0.04
648 8 0.01
649 70 0.07
650 146 0.15
651 7 0.01
652 121 0.13
653 35 0.04
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (632 bp):
ATCCAAAGACTTCCACATGATCTTTCAAATTTCAAGACTTTCTTTATCTTCAATATATAGCTCAA
CAACTCCTTTCTTTTTCTCCAATCAATTAAGTGATTTTCTTCCTTTCTTTAGTTGTGCTCCTTCC
TCCAGAATACTCACCTCGGATGAAAGCAAAAGAGTTCAATTTTTTTCTCTCGACAAACTTGAACC
TACAGAGCATCAATGCCTTCATTCAACCCACACTAGCAACTCATGGATTATGGAATGGGTGTCAC
TCCTATCAAGTCTCACGTTTCAACACAACTTTGAAACAATTCCAAAATGAAATAGGTAATTTTAA
AGTTTTTAATAGTATAACTTCTTCTTCTGAAGTTTTTTGTTTGATTTTGAATTTTTTTTAAGCTA
ATTTAATAAGTTGACAAATCAAGGTTTGTTACCTTGTTTTTTTGATTTATTTTTCTATTTTGCTT
TTGGGGCTAATTTACTTTTTGAAGCTGAATTGCTAAAGGGAAAAGGTAGGTAACAACTTAATGTC
ACCATTCAAGTGTTGCAATGAAAAGCTGAGCTTCGACTTAGAAGAGTACATTCCTGGGTTCAAGT
GCCACACATGCTTAAAGCTTGAGTCTCGACCCATAACATTTTGTACT
Found at i:96670 original size:22 final size:21
Alignment explanation
Indices: 96645--96686 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
96635 ATAATTTTTA
96645 TAATATAAAAATATAATATATC
1 TAATATAAAAATATAA-ATATC
* *
96667 TAATATTATAATATAAATAT
1 TAATATAAAAATATAAATAT
96687 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATAAAAATATAAATATC
Found at i:96685 original size:14 final size:14
Alignment explanation
Indices: 96642--96702 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
96632 TAAATAATTT
96642 TTATAATATAAA-A
1 TTATAATATAAATA
*
96655 ATATAATATATCTAATA
1 TTATAATATA---AATA
96672 TTATAATATAAATA
1 TTATAATATAAATA
* * *
96686 TTAAAAAATATATA
1 TTATAATATAAATA
96700 TTA
1 TTA
96703 ATTTATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 9 0.23
14 18 0.46
16 2 0.05
17 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TTATAATATAAATA
Found at i:96735 original size:18 final size:18
Alignment explanation
Indices: 96714--96748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96704 TTTATTTAAA
96714 TTTTAAAATTAATAAAAT
1 TTTTAAAATTAATAAAAT
* *
96732 TTTTTAAATTATTAAAA
1 TTTTAAAATTAATAAAA
96749 AATAAAATTT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAATTAATAAAAT
Found at i:96758 original size:25 final size:25
Alignment explanation
Indices: 96702--96759 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 25
96692 AATATATATT
96702 AATTTATTTAAATTTTAAAATTAATAA
1 AATTT-TTTAAATTTTAAAA-TAATAA
96729 AATTTTTTAAATTATTAAAA-AATAA
1 AATTTTTTAAATT-TTAAAATAATAA
96754 AATTTT
1 AATTTT
96760 AAAAAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.37
26 8 0.27
27 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATTTTTTAAATTTTAAAATAATAA
Found at i:96952 original size:16 final size:16
Alignment explanation
Indices: 96933--96972 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
96923 TATGATATAA
*
96933 ATATATATTTTAAAAT
1 ATATATAATTTAAAAT
*
96949 ATATATAATTTAATAT
1 ATATATAATTTAAAAT
*
96965 AAATATAA
1 ATATATAA
96973 AATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATAATTTAAAAT
Found at i:97932 original size:2 final size:2
Alignment explanation
Indices: 97925--97967 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
97915 TCTATCTCTT
*
97925 TA TA TA TA AA TA TA TA TA 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 TA TA TA TA TA TA
97967 T
1 T
97968 GTATCATTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:103785 original size:7 final size:8
Alignment explanation
Indices: 103745--103798 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
103735 TTTATAAATT
103745 TTTATATA
1 TTTATATA
*
103753 TTAATA-A
1 TTTATATA
103760 TTTATATA
1 TTTATATA
* *
103768 -ATATAAAA
1 TTTAT-ATA
103776 TTTA-ATA
1 TTTATATA
103783 TTTATATA
1 TTTATATA
103791 TTTATATA
1 TTTATATA
103799 ATAATTTGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
7 15 0.42
8 19 0.53
9 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTATATA
Found at i:103848 original size:2 final size:2
Alignment explanation
Indices: 103841--103877 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
103831 GAGTAATTTG
103841 TA 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 TA T
103878 GTCCTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.