Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 98 of 130
Found at i:19113057 original size:19 final size:19
Alignment explanation
Indices: 19113019--19113058 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19113009 GTTATTACTG
*
19113019 ATTTACTATTATATTGTCA
1 ATTTACTATTATATTATCA
19113038 ATTTACTATT-TAGTTATCA
1 ATTTACTATTATA-TTATCA
19113057 AT
1 AT
19113059 AATCTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTACTATTATATTATCA
Found at i:19113104 original size:22 final size:22
Alignment explanation
Indices: 19113051--19113106 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
19113041 TACTATTTAG
* * *
19113051 TTATCAATAATCTATTACTAAA
1 TTATCAATGATTTATTACAAAA
19113073 TTATCAATGATTTATTACAAAA
1 TTATCAATGATTTATTACAAAA
*
19113095 TTATCCATGATT
1 TTATCAATGATT
19113107 CATTGTCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (22 bp):
TTATCAATGATTTATTACAAAA
Found at i:19113167 original size:39 final size:39
Alignment explanation
Indices: 19113092--19113167 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
19113082 ATTTATTACA
* * ** *
19113092 AAATTATCCATGATTCATTGTCAAATTATTATTGATTTT
1 AAATTATCCATGATTCACTATCAAATTACCACTGATTTT
* *
19113131 AAATTATCCATGATTTACTATCAAGTTACCACTGATT
1 AAATTATCCATGATTCACTATCAAATTACCACTGATT
19113168 AACTATTAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.43
Consensus pattern (39 bp):
AAATTATCCATGATTCACTATCAAATTACCACTGATTTT
Found at i:19113188 original size:22 final size:22
Alignment explanation
Indices: 19113140--19113203 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
19113130 TAAATTATCC
* **
19113140 ATGATTTACTATCAAGTTACCA
1 ATGATTTACTATTAAGTTATAA
* *
19113162 CTGATTAACTATTAAGTTATAA
1 ATGATTTACTATTAAGTTATAA
* *
19113184 ATGATTTACTACTAAATTAT
1 ATGATTTACTATTAAGTTAT
19113204 CCTAATTTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (22 bp):
ATGATTTACTATTAAGTTATAA
Found at i:19113306 original size:22 final size:22
Alignment explanation
Indices: 19113184--19113306 Score: 69
Period size: 22 Copynumber: 5.6 Consensus size: 22
19113174 TAAGTTATAA
*
19113184 ATGATTTACTACTAAATTATCCT
1 ATGATTTACTACTAAATTAT-TT
**
19113207 A--ATTTA-TGTTTAAATT-TTT
1 ATGATTTACT-ACTAAATTATTT
* **
19113226 AATGATTAACTACTAAATTATAA
1 -ATGATTTACTACTAAATTATTT
* * * *
19113249 ATTATTTACTGCTAATTTA-TC
1 ATGATTTACTACTAAATTATTT
19113270 ATTGATTTA-TCACTAAATTATTT
1 A-TGATTTACT-ACTAAATTATTT
19113293 ATGATTTACTACTA
1 ATGATTTACTACTA
19113307 TCAATTAATT
Statistics
Matches: 72, Mismatches: 18, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
19 1 0.01
20 3 0.04
21 13 0.18
22 49 0.68
23 6 0.08
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.48
Consensus pattern (22 bp):
ATGATTTACTACTAAATTATTT
Found at i:19113493 original size:44 final size:44
Alignment explanation
Indices: 19113429--19113522 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
19113419 TATCACTATT
* *
19113429 TTATTATGCATTTACAATTATATTGTAATTGATTTACTACTAAG
1 TTATTATACATTTACAATTATATTATAATTGATTTACTACTAAG
* * *
19113473 TTATTATACATTTACTATTATATTATTATTGATTTACTATTAAG
1 TTATTATACATTTACAATTATATTATAATTGATTTACTACTAAG
19113517 TTATTA
1 TTATTA
19113523 ATTAATGACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.52
Consensus pattern (44 bp):
TTATTATACATTTACAATTATATTATAATTGATTTACTACTAAG
Found at i:19113551 original size:110 final size:110
Alignment explanation
Indices: 19113437--19113636 Score: 262
Period size: 110 Copynumber: 1.8 Consensus size: 110
19113427 TTTTATTATG
* *
19113437 CATTTACAATTATA-TTGTAATTGATTTACTACTAAGTTATT-ATACATTTACTATTATAT-TAT
1 CATTTACAATTA-AGTTGTAACTAATTTACTACTAAGTTATTCAT-CATTTACTATTA-ATCTAT
* * * *
19113499 TATTGATTTACTATTAAGTTATTAATTAATGACTACAAAATTATCATT
63 TACTGATTAACTATTAAATTATCAATTAATGACTACAAAATTATCATT
* * *
19113547 CATTTACTATTAAGTTGTCACTAATTTACTACTAAGTTATTCATGATTTACTATTAATCTATTAC
1 CATTTACAATTAAGTTGTAACTAATTTACTACTAAGTTATTCATCATTTACTATTAATCTATTAC
*
19113612 TGATTAATTATTAAATTATCAATTA
66 TGATTAACTATTAAATTATCAATTA
19113637 CTACTATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
109 3 0.04
110 72 0.94
111 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (110 bp):
CATTTACAATTAAGTTGTAACTAATTTACTACTAAGTTATTCATCATTTACTATTAATCTATTAC
TGATTAACTATTAAATTATCAATTAATGACTACAAAATTATCATT
Found at i:19113578 original size:44 final size:44
Alignment explanation
Indices: 19113494--19113603 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
19113484 TTACTATTAT
* * *
19113494 ATTATTATTGATTTACTATTAAGTTATTAATTAATGACTACAAA
1 ATTATCATTGATTTACTATTAAGTTAGTAACTAATGACTACAAA
* * * *
19113538 ATTATCATTCATTTACTATTAAGTT-GTCACTAATTTACTACTAA
1 ATTATCATTGATTTACTATTAAGTTAGTAACTAA-TGACTACAAA
*
19113582 GTTATTCA-TGATTTACTATTAA
1 ATTA-TCATTGATTTACTATTAA
19113604 TCTATTACTG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 5 0.09
44 47 0.85
45 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.46
Consensus pattern (44 bp):
ATTATCATTGATTTACTATTAAGTTAGTAACTAATGACTACAAA
Found at i:19113615 original size:22 final size:22
Alignment explanation
Indices: 19113458--19113630 Score: 102
Period size: 22 Copynumber: 7.9 Consensus size: 22
19113448 ATATTGTAAT
*
19113458 TGATTTACTACTAAGTTATTA-
1 TGATTTACTATTAAGTTATTAC
* *
19113479 TACATTTACTATTATA-TTATTAT
1 T-GATTTACTATTA-AGTTATTAC
*
19113502 TGATTTACTATTAAGTTATTAA
1 TGATTTACTATTAAGTTATTAC
* * * ** * * *
19113524 TTAATGACTACAAAATTATCAT
1 TGATTTACTATTAAGTTATTAC
* * *
19113546 TCATTTACTATTAAGTTGTCAC
1 TGATTTACTATTAAGTTATTAC
* *
19113568 TAATTTACTACTAAGTTATT-C
1 TGATTTACTATTAAGTTATTAC
19113589 ATGATTTACTATTAA-TCTATTAC
1 -TGATTTACTATTAAGT-TATTAC
* * *
19113612 TGATTAATTATTAAATTAT
1 TGATTTACTATTAAGTTAT
19113631 CAATTACTAC
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
21 4 0.03
22 108 0.93
23 4 0.03
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (22 bp):
TGATTTACTATTAAGTTATTAC
Found at i:19114223 original size:13 final size:13
Alignment explanation
Indices: 19114191--19114222 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19114181 AAAAGTAATG
19114191 AAAAAAATTTACT
1 AAAAAAATTTACT
19114204 AAAAAAATTTA-T
1 AAAAAAATTTACT
19114216 AAAAAAA
1 AAAAAAA
19114223 AAAAACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAAATTTACT
Found at i:19116412 original size:41 final size:41
Alignment explanation
Indices: 19116352--19116429 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
19116342 TTGGTGGAAT
* *
19116352 GTGTGTATGATTTGTATTTGATTTGATATTAGTTTTTGTAA
1 GTGTGTATGATTTGCATTTGATTTGATATTAATTTTTGTAA
19116393 GTGTGTATGATTTGCATTTGATTTGATATTAATTTTT
1 GTGTGTATGATTTGCATTTGATTTGATATTAATTTTT
19116430 ATTCATTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.22, C:0.01, G:0.21, T:0.56
Consensus pattern (41 bp):
GTGTGTATGATTTGCATTTGATTTGATATTAATTTTTGTAA
Found at i:19116678 original size:15 final size:14
Alignment explanation
Indices: 19116640--19116679 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
19116630 TTAGTGAATC
19116640 AATTAAAACAAAAAA
1 AATTAAAA-AAAAAA
*
19116655 AATTGAAAAGAAAAA
1 AATT-AAAAAAAAAA
19116670 AATTAAAAAA
1 AATTAAAAAA
19116680 TGTTTTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (14 bp):
AATTAAAAAAAAAA
Found at i:19122991 original size:2 final size:2
Alignment explanation
Indices: 19122984--19123017 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
19122974 AATAATGCAC
*
19122984 AT AT AT AT AT AT GT 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 AT AT
19123018 GGAGAGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19123995 original size:17 final size:16
Alignment explanation
Indices: 19123968--19124007 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
19123958 TTAAAATTTT
19123968 TTAAAATA-TTTAAATA
1 TTAAAATATTTTAAA-A
19123984 TTAAATATATTTTAAAA
1 TTAAA-ATATTTTAAAA
19124001 TTAAAAT
1 TTAAAAT
19124008 TAAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 9 0.41
18 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATTTTAAAA
Found at i:19139019 original size:26 final size:23
Alignment explanation
Indices: 19138989--19139046 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 23
19138979 AATTTATTCG
19138989 TTTATTTATATTCATGAATAAATTTA
1 TTTATTTAT-TT-ATGAA-AAATTTA
**
19139015 TTTA-TTATTTATTTAAAATTTA
1 TTTATTTATTTATGAAAAATTTA
19139037 TTTATTTATT
1 TTTATTTATT
19139047 ATTTGTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 11 0.38
23 8 0.28
24 2 0.07
25 4 0.14
26 4 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTATTTATTTATGAAAAATTTA
Found at i:19139050 original size:15 final size:15
Alignment explanation
Indices: 19139010--19139056 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
19139000 TCATGAATAA
19139010 ATTTATT-TATTATTT
1 ATTTATTAT-TTATTT
**
19139025 ATTTAAAATTTATTT
1 ATTTATTATTTATTT
*
19139040 ATTTATTATTTGTTT
1 ATTTATTATTTATTT
19139055 AT
1 AT
19139057 AATAATATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
ATTTATTATTTATTT
Found at i:19139113 original size:10 final size:10
Alignment explanation
Indices: 19139098--19139197 Score: 53
Period size: 10 Copynumber: 9.9 Consensus size: 10
19139088 TTATTTTAAA
19139098 ATTTATTTAT
1 ATTTATTTAT
*
19139108 ATTTATTTAA
1 ATTTATTTAT
19139118 ATTTATTTAT
1 ATTTATTTAT
* ** *
19139128 GTGCATTTAAA
1 ATTTATTT-AT
*
19139139 ATTTATTTGT
1 ATTTATTTAT
*
19139149 -TTAAATTTAT
1 ATT-TATTTAT
*
19139159 TTATTATTTAT
1 AT-TTATTTAT
*
19139170 GAATTA-TT-T
1 -ATTTATTTAT
*
19139179 ATTTATATAT
1 ATTTATTTAT
19139189 ATTTATTTA
1 ATTTATTTA
19139198 ATGTTTATAA
Statistics
Matches: 64, Mismatches: 19, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
8 4 0.06
9 4 0.06
10 39 0.61
11 16 0.25
12 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTATTTAT
Found at i:19139156 original size:21 final size:20
Alignment explanation
Indices: 19139087--19139157 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
19139077 ATTTTTATCT
*
19139087 TTTATTTTAAAATTTATTTA
1 TTTAATTTAAAATTTATTTA
*
19139107 TATTTATTT-AAATTTATTTA
1 T-TTAATTTAAAATTTATTTA
** *
19139127 TGTGCATTTAAAATTTATTTG
1 T-TTAATTTAAAATTTATTTA
19139148 TTTAAATTTA
1 TTT-AATTTA
19139158 TTTATTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
20 19 0.47
21 21 0.52
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTAATTTAAAATTTATTTA
Found at i:19139169 original size:11 final size:11
Alignment explanation
Indices: 19139153--19139195 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
19139143 ATTTGTTTAA
19139153 ATTTATTTATT
1 ATTTATTTATT
**
19139164 ATTTATGAATT
1 ATTTATTTATT
19139175 ATTTATTTA-T
1 ATTTATTTATT
*
19139185 ATATATTTATT
1 ATTTATTTATT
19139196 TAATGTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:19141394 original size:3 final size:3
Alignment explanation
Indices: 19141386--19141412 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19141376 ACACCGACAG
19141386 GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA
19141413 TTAGAACCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:19145529 original size:23 final size:22
Alignment explanation
Indices: 19145487--19145533 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
19145477 ATTTTTCCCA
*
19145487 TTTGTTTTCTTTCTTAATTTCC
1 TTTGTTTTCTTACTTAATTTCC
*
19145509 TTTGCTTTTCCTTACTTATTTTCC
1 TTTG-TTTT-CTTACTTAATTTCC
19145533 T
1 T
19145534 ACTTGTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.09, C:0.21, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTGTTTTCTTACTTAATTTCC
Found at i:19146472 original size:16 final size:16
Alignment explanation
Indices: 19146453--19146497 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
19146443 TTTTAAGTAT
**
19146453 TTTAATTTTCATGTTA
1 TTTAATTTTCATGAAA
* *
19146469 TTTAAATTTCTTGAAA
1 TTTAATTTTCATGAAA
19146485 TTTAATTTTCATG
1 TTTAATTTTCATG
19146498 CACTTAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (16 bp):
TTTAATTTTCATGAAA
Found at i:19146594 original size:16 final size:16
Alignment explanation
Indices: 19146560--19146597 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19146550 TAGTTTTATG
*
19146560 TTTTATTTAATTTTTA
1 TTTTATTTAATTTTAA
19146576 TTTTATTGTAA-TTTAA
1 TTTTATT-TAATTTTAA
19146592 TTTTAT
1 TTTTAT
19146598 ACAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTATTTAATTTTAA
Found at i:19168503 original size:20 final size:21
Alignment explanation
Indices: 19168453--19168496 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
19168443 ACTGTTATTA
*
19168453 TTTAATTTTTATATACTTGGT
1 TTTAATTGTTATATACTTGGT
19168474 TTTAATTGTTATATA-TTGGT
1 TTTAATTGTTATATACTTGGT
19168494 TTT
1 TTT
19168497 GAATGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (21 bp):
TTTAATTGTTATATACTTGGT
Found at i:19170708 original size:20 final size:22
Alignment explanation
Indices: 19170683--19170723 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19170673 TAATCATGAG
19170683 TTTTATT-C-TTTTTCTTTGTA
1 TTTTATTCCTTTTTTCTTTGTA
19170703 TTTTATTCCTTTTTTCTTTGT
1 TTTTATTCCTTTTTTCTTTGT
19170724 TGTTAGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTATTCCTTTTTTCTTTGTA
Found at i:19171869 original size:16 final size:15
Alignment explanation
Indices: 19171845--19171888 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
19171835 AGATATTAAT
*
19171845 AAAGAAAAGGAAAGA
1 AAAGAAAAGAAAAGA
19171860 AAATGAAAAGAAAAGA
1 AAA-GAAAAGAAAAGA
19171876 AAAG-AAAGAAAAG
1 AAAGAAAAGAAAAG
19171889 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 14 0.52
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAGA
Found at i:19171906 original size:4 final size:5
Alignment explanation
Indices: 19171845--19171888 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
19171835 AGATATTAAT
*
19171845 AAAGA AAAGG AAAGA AAATGA AAAGA AAAGA AAAG- AAAGA AAAG
1 AAAGA AAAGA AAAGA AAA-GA AAAGA AAAGA AAAGA AAAGA AAAG
19171889 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 26 0.74
6 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:19173387 original size:5 final size:5
Alignment explanation
Indices: 19173371--19173435 Score: 51
Period size: 5 Copynumber: 12.2 Consensus size: 5
19173361 TGGGTGTAAC
* *
19173371 TATTT ATATTT TATTT TATTT TATTA T-TTT TATTCT TGATTT AATTT
1 TATTT -TATTT TATTT TATTT TATTT TATTT TATT-T T-ATTT TATTT
*
19173418 TAATAT TATTT TAATTT T
1 T-ATTT TATTT T-ATTT T
19173436 GTTAATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
4 3 0.06
5 25 0.52
6 17 0.35
7 3 0.06
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (5 bp):
TATTT
Found at i:19173412 original size:26 final size:24
Alignment explanation
Indices: 19173371--19173424 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
19173361 TGGGTGTAAC
* *
19173371 TATTTATATTTTATTTTATTTTAT
1 TATTTATATTTTATTTAATTTTAA
*
19173395 TATTTTTATTCTTGATTTAATTTTAA
1 TATTTATATT-TT-ATTTAATTTTAA
19173421 TATT
1 TATT
19173425 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 2 0.08
26 14 0.56
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TATTTATATTTTATTTAATTTTAA
Found at i:19173669 original size:13 final size:13
Alignment explanation
Indices: 19173645--19173683 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19173635 TAGGGTTTTA
*
19173645 TTTAAGGATTTCAT
1 TTTAAGG-TTTCAC
19173659 TTTAAGGTTTCAC
1 TTTAAGGTTTCAC
*
19173672 ATTAAGGTTTCA
1 TTTAAGGTTTCA
19173684 GGTTTCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTAAGGTTTCAC
Found at i:19173708 original size:20 final size:20
Alignment explanation
Indices: 19173663--19173701 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19173653 TTTCATTTTA
* *
19173663 AGGTTTCACATTAAGGTTTC
1 AGGTTTCACAATAAGATTTC
19173683 AGGTTTCACAATAAGATTT
1 AGGTTTCACAATAAGATTT
19173702 TGGGTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
AGGTTTCACAATAAGATTTC
Found at i:19174009 original size:24 final size:22
Alignment explanation
Indices: 19173981--19174025 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
19173971 TTCATTGAAA
*
19173981 TTTTATTCTTATTATTTATTAATC
1 TTTTATTATT-TTATTT-TTAATC
19174005 TTTTATTATTTTATTTTTAAT
1 TTTTATTATTTTATTTTTAAT
19174026 TATTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 6 0.30
24 9 0.45
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATTATTTTATTTTTAATC
Found at i:19174031 original size:33 final size:31
Alignment explanation
Indices: 19173980--19174040 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
19173970 TTTCATTGAA
*
19173980 ATTTTATTCTTATTATTTATTAATCTTTTATT
1 ATTTTATTCTTATTATTTAATAAT-TTTTATT
*
19174012 ATTTTATTTTTAATTATTTAATAATTTTT
1 ATTTTATTCTT-ATTATTTAATAATTTTT
19174041 CAACATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (31 bp):
ATTTTATTCTTATTATTTAATAATTTTTATT
Found at i:19176034 original size:17 final size:16
Alignment explanation
Indices: 19176005--19176036 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
19175995 CTTTTTTTAT
19176005 TTTTTATTTTTATTTC
1 TTTTTATTTTTATTTC
19176021 TTTTTATTTATTATTT
1 TTTTTATTT-TTATTT
19176037 TATTATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTTATTTC
Found at i:19176039 original size:12 final size:12
Alignment explanation
Indices: 19175999--19176071 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
19175989 GCAAAGCTTT
*
19175999 TTTTATTTTTTA
1 TTTTATTTATTA
*
19176011 TTTTTATTT-CT-
1 -TTTTATTTATTA
19176022 TTTTATTTATTA
1 TTTTATTTATTA
19176034 TTTTA-TTATTA
1 TTTTATTTATTA
*
19176045 TATTTA-CTATTA
1 T-TTTATTTATTA
19176057 TATTT-TTTATTA
1 T-TTTATTTATTA
19176069 TTT
1 TTT
19176072 ATAATTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 8 0.15
11 10 0.19
12 26 0.50
13 8 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:19176048 original size:8 final size:7
Alignment explanation
Indices: 19176000--19176095 Score: 60
Period size: 7 Copynumber: 14.1 Consensus size: 7
19175990 CAAAGCTTTT
*
19176000 TTTATTT
1 TTTATTA
19176007 TTTATT-
1 TTTATTA
19176013 TTTATT-
1 TTTATTA
*
19176019 TCTTTTTA
1 T-TTATTA
19176027 TTTATTA
1 TTTATTA
19176034 TTTTATTA
1 -TTTATTA
19176042 -TTA-TA
1 TTTATTA
*
19176047 TTTACTA
1 TTTATTA
*
19176054 TTATATTT
1 TT-TATTA
19176062 TTTATTA
1 TTTATTA
*
19176069 TTTATAA
1 TTTATTA
19176076 TTT-TTA
1 TTTATTA
*
19176082 TATA-TA
1 TTTATTA
*
19176088 TTTTTTA
1 TTTATTA
19176095 T
1 T
19176096 GGCTAACAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
5 2 0.03
6 21 0.30
7 35 0.49
8 13 0.18
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:19184093 original size:20 final size:20
Alignment explanation
Indices: 19184035--19184099 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
19184025 AACATTCGAG
*
19184035 TTTCTGGGTTTAGGTTTGAG
1 TTTCTGGGTTTAGGTTTGAA
* *
19184055 TTTTTAGGTTTAGGTTTGAA
1 TTTCTGGGTTTAGGTTTGAA
19184075 TTTCTGGGTTTAGAG-TTGAA
1 TTTCTGGGTTTAG-GTTTGAA
19184095 TTTCT
1 TTTCT
19184100 AGGAAATTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 38 0.97
21 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.28, T:0.52
Consensus pattern (20 bp):
TTTCTGGGTTTAGGTTTGAA
Found at i:19184181 original size:101 final size:101
Alignment explanation
Indices: 19184063--19184259 Score: 324
Period size: 101 Copynumber: 2.0 Consensus size: 101
19184053 AGTTTTTAGG
*
19184063 TTTAGGTTTGAATTTCTGGGTTTAGAGTTGAATTTCTAGGAAATTTGAAAAAAATCTAGGCTTGT
1 TTTAGGTTTGAATTTCTGGGTTTAGAGTTGAATTTCTAGGAAATTTGAAAAAAATATAGGCTTGT
* *
19184128 GTTTGAAT-CTTTGATTTTTTTGGTTGAATTTCTACA
66 GTTTGAATAATTT-ATTTTTTTGGTTAAATTTCTACA
* * *
19184164 TTTAGGTTTGAATTTCTGGGTTTGGAGTTGAATTTCTAGGAAATTTGAAAAAAATATGGGTTTGT
1 TTTAGGTTTGAATTTCTGGGTTTAGAGTTGAATTTCTAGGAAATTTGAAAAAAATATAGGCTTGT
19184229 GTTTGAATAATTTATTTTTTTGGTTAAATTT
66 GTTTGAATAATTTATTTTTTTGGTTAAATTT
19184260 TTTCAACGGA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 86 0.97
102 3 0.03
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (101 bp):
TTTAGGTTTGAATTTCTGGGTTTAGAGTTGAATTTCTAGGAAATTTGAAAAAAATATAGGCTTGT
GTTTGAATAATTTATTTTTTTGGTTAAATTTCTACA
Found at i:19184547 original size:6 final size:6
Alignment explanation
Indices: 19184536--19184602 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
19184526 GATCGCATAT
*
19184536 TTTTTA TTTTTA TTTTTA ---TTA TTTTTA TCTTTT- TTCTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
19184580 TTTTTA TTTATTTA TTTATTA TT
1 TTTTTA -TT-TTTA TTT-TTA TT
19184603 ATCATCATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
3 3 0.06
5 7 0.14
6 23 0.46
7 13 0.26
8 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:19184559 original size:15 final size:15
Alignment explanation
Indices: 19184535--19184604 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
19184525 TGATCGCATA
19184535 TTTT-TTATTTTTAT
1 TTTTATTATTTTTAT
19184549 TTTTATTATTTTTAT
1 TTTTATTATTTTTAT
*
19184564 CTTTT-TTCTTATTTTAT
1 -TTTTATT-AT-TTTTAT
*
19184581 TTTTATT-TATTTAT
1 TTTTATTATTTTTAT
19184595 TTATTATTAT
1 TT-TTATTAT
19184605 CATCATTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
14 11 0.23
15 18 0.38
16 10 0.21
17 8 0.17
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTATTTTTAT
Found at i:19191317 original size:4 final size:4
Alignment explanation
Indices: 19191308--19191362 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
19191298 AAGTATTGAA
* * * *
19191308 AAAT AAAT AAAT AAAT AAAC AAAT GAAT GAAT AAAT AAAT AGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
19191356 AAAT AAA
1 AAAT AAA
19191363 AATACCTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:19192818 original size:43 final size:43
Alignment explanation
Indices: 19192757--19192919 Score: 231
Period size: 43 Copynumber: 3.8 Consensus size: 43
19192747 TGGACTCTGC
*
19192757 TATACAAAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTT
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTT
** *
19192800 TATACAGAGGCTAAGCAACTTTAAATTAAGAAA-TGGACTCCTT
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAG-CTCTTT
* *
19192843 TATACATAGGCTAATCAACTTTAAATTAAGAAACAAGCTCTTT
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTT
* *
19192886 TATATAGGGGCTAAGCAAC-TTAAATTAAGAAACA
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACA
19192920 GACTCCTCTA
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
42 16 0.15
43 88 0.84
44 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (43 bp):
TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTT
Found at i:19192889 original size:86 final size:85
Alignment explanation
Indices: 19192744--19192952 Score: 303
Period size: 86 Copynumber: 2.4 Consensus size: 85
19192734 AGGCTCAACA
*
19192744 AAATGGACT-CTGCTATACAAAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTTTATACAGA
1 AAATGGACTCCT-CTATACAAAGGCTAAACAACTTTAAATTAAGAAACAAGCTCTTTTATACAGA
19192808 GGCTAAGCAACTTTAAATTAAG
65 GGCTAAGCAAC-TTAAATTAAG
* * * * *
19192830 AAATGGACTCCTTTATACATAGGCTAATCAACTTTAAATTAAGAAACAAGCTCTTTTATATAGGG
1 AAATGGACTCCTCTATACAAAGGCTAAACAACTTTAAATTAAGAAACAAGCTCTTTTATACAGAG
19192895 GCTAAGCAACTTAAATTAAG
66 GCTAAGCAACTTAAATTAAG
** * *
19192915 AAACAGACTCCTCTATATAAAGGCTAAACAATTTTAAA
1 AAATGGACTCCTCTATACAAAGGCTAAACAACTTTAAA
19192953 ATGAGAAATG
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
85 41 0.37
86 67 0.61
87 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (85 bp):
AAATGGACTCCTCTATACAAAGGCTAAACAACTTTAAATTAAGAAACAAGCTCTTTTATACAGAG
GCTAAGCAACTTAAATTAAG
Found at i:19192932 original size:42 final size:43
Alignment explanation
Indices: 19192757--19192952 Score: 227
Period size: 43 Copynumber: 4.6 Consensus size: 43
19192747 TGGACTCTGC
* *
19192757 TATACAAAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTT
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCCTT
**
19192800 TATACAGAGGCTAAGCAACTTTAAATTAAGAAA-TGGACTCCTT
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAG-CTCCTT
* * *
19192843 TATACATAGGCTAATCAACTTTAAATTAAGAAACAAGCTCTTT
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCCTT
* * *
19192886 TATATAGGGGCTAAGCAAC-TTAAATTAAGAAAC-AGACTCCTC
1 TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAG-CTCCTT
* * * *
19192928 TATATAAAGGCTAAACAATTTTAAA
1 TATACAGAGGCTAAGCAACTTTAAA
19192953 ATGAGAAATG
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 34 0.26
43 93 0.72
44 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (43 bp):
TATACAGAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCCTT
Found at i:19192983 original size:85 final size:86
Alignment explanation
Indices: 19192756--19192995 Score: 248
Period size: 85 Copynumber: 2.8 Consensus size: 86
19192746 ATGGACTCTG
* * * * * *
19192756 CTATACAAAGGCTAAGCAACTTTAAATTAAGAAACAAGCTCTTTTATACAGAGGCTAAGCAACTT
1 CTATACAAAGGCTAAACAACTTTAAAATAAGAAACAAGCTCCTCTATATAAAGGCTAAGCAACTT
**
19192821 TAAATTAAGAAATGGACTCCT
66 TAAATTAAGAAACAGACTCCT
* * * * * * **
19192842 TTATACATAGGCTAATCAACTTTAAATTAAGAAACAAGCTCTTTTATATAGGGGCTAAGCAAC-T
1 CTATACAAAGGCTAAACAACTTTAAAATAAGAAACAAGCTCCTCTATATAAAGGCTAAGCAACTT
19192906 TAAATTAAGAAACAGACTCCT
66 TAAATTAAGAAACAGACTCCT
* * * *** * * *
19192927 CTATATAAAGGCTAAACAATTTTAAAATGAGAAATGGGCTCCTCTATGTAAAGGCTAAACAAATT
1 CTATACAAAGGCTAAACAACTTTAAAATAAGAAACAAGCTCCTCTATATAAAGGCTAAGCAACTT
19192992 TAAA
66 TAAA
19192996 ATGGAATCAT
Statistics
Matches: 129, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
85 66 0.51
86 63 0.49
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (86 bp):
CTATACAAAGGCTAAACAACTTTAAAATAAGAAACAAGCTCCTCTATATAAAGGCTAAGCAACTT
TAAATTAAGAAACAGACTCCT
Found at i:19197373 original size:33 final size:34
Alignment explanation
Indices: 19197326--19197391 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
19197316 AATTGAAAAA
19197326 AATAGAAAAAATGAATGAAAATGCATACTCCTAT
1 AATAGAAAAAATGAATGAAAATGCATACTCCTAT
19197360 AATA-AAAAAATGAATGAAAATGCATACTCCTA
1 AATAGAAAAAATGAATGAAAATGCATACTCCTA
19197392 CTCTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.55, C:0.12, G:0.11, T:0.23
Consensus pattern (34 bp):
AATAGAAAAAATGAATGAAAATGCATACTCCTAT
Found at i:19202365 original size:16 final size:15
Alignment explanation
Indices: 19202347--19202386 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
19202337 ATTTTTGAAA
*
19202347 AAAAATTATTTTTTT
1 AAAAATTATTTTATT
*
19202362 AAAACTTGATTTTATT
1 AAAAATT-ATTTTATT
19202378 AAAAATTAT
1 AAAAATTAT
19202387 AAGGTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
AAAAATTATTTTATT
Found at i:19204193 original size:24 final size:24
Alignment explanation
Indices: 19204156--19204212 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
19204146 AAGTGTGTGT
*
19204156 TGTATATATATATATATGA-ATGTA
1 TGTATGTATATATATAT-ATATGTA
*
19204180 TGTATGTATGTATATATATATGTA
1 TGTATGTATATATATATATATGTA
*
19204204 TTTATGTAT
1 TGTATGTAT
19204213 TCCTTATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (24 bp):
TGTATGTATATATATATATATGTA
Found at i:19204213 original size:8 final size:8
Alignment explanation
Indices: 19204156--19204212 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
19204146 AAGTGTGTGT
*
19204156 TGTATATA
1 TGTATGTA
* *
19204164 TATATATA
1 TGTATGTA
*
19204172 TGAATGTA
1 TGTATGTA
19204180 TGTATGTA
1 TGTATGTA
*
19204188 TGTATATA
1 TGTATGTA
*
19204196 TATATGTA
1 TGTATGTA
*
19204204 TTTATGTA
1 TGTATGTA
19204212 T
1 T
19204213 TCCTTATCAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (8 bp):
TGTATGTA
Found at i:19207993 original size:21 final size:22
Alignment explanation
Indices: 19207952--19208000 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
19207942 TTAAAAAAAG
19207952 TATTATTGACGAAAATATTAAC
1 TATTATTGACGAAAATATTAAC
* *
19207974 TATTATTGATG-AAATTTTAAC
1 TATTATTGACGAAAATATTAAC
19207995 TATTAT
1 TATTAT
19208001 CAATGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (22 bp):
TATTATTGACGAAAATATTAAC
Found at i:19211196 original size:30 final size:32
Alignment explanation
Indices: 19211145--19211203 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
19211135 TCTCTGTACT
19211145 AAAATAATTCTCTTATTGATTTT-TTTTTGTC
1 AAAATAATTCTCTTATTGATTTTATTTTTGTC
19211176 AAAATAATTCTAC-T-TTGATTTTATTTTT
1 AAAATAATTCT-CTTATTGATTTTATTTTT
19211204 TGAAATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 8 0.31
31 17 0.65
32 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (32 bp):
AAAATAATTCTCTTATTGATTTTATTTTTGTC
Found at i:19212713 original size:22 final size:22
Alignment explanation
Indices: 19212682--19212723 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19212672 AAGGAACTGT
19212682 GCTAGATTCTGGAGGCAGTCAA
1 GCTAGATTCTGGAGGCAGTCAA
* * *
19212704 GCTAGTTTCTTGATGCAGTC
1 GCTAGATTCTGGAGGCAGTC
19212724 GTATACTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (22 bp):
GCTAGATTCTGGAGGCAGTCAA
Found at i:19215276 original size:17 final size:17
Alignment explanation
Indices: 19215250--19215300 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
19215240 GGTAGAATGC
*
19215250 AAAAACTGCAGACCCAA
1 AAAAATTGCAGACCCAA
*
19215267 AAAAATTGCATG-CCCAT
1 AAAAATTGCA-GACCCAA
* *
19215284 AAAAATTACATACCCAA
1 AAAAATTGCAGACCCAA
19215301 CATCAATACG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.51, C:0.25, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAAATTGCAGACCCAA
Found at i:19215718 original size:14 final size:14
Alignment explanation
Indices: 19215699--19215726 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19215689 ATCAGTGGAG
19215699 AAGATAGGATTTAA
1 AAGATAGGATTTAA
19215713 AAGATAGGATTTAA
1 AAGATAGGATTTAA
19215727 GAGTTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
AAGATAGGATTTAA
Found at i:19221225 original size:18 final size:18
Alignment explanation
Indices: 19221194--19221228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19221184 TTTTAATTTA
*
19221194 ATATAAATATATTTATAG
1 ATATAAATAAATTTATAG
*
19221212 ATATACATAAATTTATA
1 ATATAAATAAATTTATA
19221229 TAAAATAATA
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:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATAAATAAATTTATAG
Found at i:19221271 original size:32 final size:32
Alignment explanation
Indices: 19221231--19221292 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
19221221 AATTTATATA
*
19221231 AAATAATATTATTAATAATTTAAA-AAATAAAT
1 AAATAATATTATTAA-AATATAAATAAATAAAT
*
19221263 AAATAATATTTTTAAAATATAAATAAATAA
1 AAATAATATTATTAAAATATAAATAAATAA
19221293 GTTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
AAATAATATTATTAAAATATAAATAAATAAAT
Found at i:19221273 original size:22 final size:22
Alignment explanation
Indices: 19221196--19221317 Score: 92
Period size: 22 Copynumber: 5.5 Consensus size: 22
19221186 TTAATTTAAT
* *
19221196 ATAAAT-ATATTTATAGATATAC
1 ATAAATAATATTTA-AAATATAA
* * *
19221218 ATAAAT-TTATATAAAATA-AT
1 ATAAATAATATTTAAAATATAA
* * *
19221238 ATTATTAATAATTTAAAAAATAA
1 ATAAATAAT-ATTTAAAATATAA
19221261 ATAAATAATATTTTTAAAATATAA
1 ATAAATAATA--TTTAAAATATAA
19221285 ATAAATAAGT-TTTAAAATATAA
1 ATAAATAA-TATTTAAAATATAA
19221307 A-AAATAATATT
1 ATAAATAATATT
19221318 ATTAATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
20 6 0.08
21 13 0.16
22 33 0.41
23 8 0.10
24 19 0.24
25 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (22 bp):
ATAAATAATATTTAAAATATAA
Found at i:19221276 original size:24 final size:24
Alignment explanation
Indices: 19221249--19221322 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
19221239 TTATTAATAA
*
19221249 TTTAAAAAATAAATAAATAATATT
1 TTTAAAATATAAATAAATAATATT
*
19221273 TTTAAAATATAAATAAAT-A-AGT
1 TTTAAAATATAAATAAATAATATT
19221295 TTTAAAATATAAA-AAATAATATT
1 TTTAAAATATAAATAAATAATATT
*
19221318 ATTAA
1 TTTAA
19221323 TTTATAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 4 0.09
22 16 0.36
23 7 0.16
24 17 0.39
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (24 bp):
TTTAAAATATAAATAAATAATATT
Found at i:19221720 original size:19 final size:19
Alignment explanation
Indices: 19221679--19221727 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
19221669 AAATAAATCT
*
19221679 ATCAAAATTTATCAAAACAA
1 ATCAAAA-TTAACAAAACAA
19221699 ATCAAAATTAACAAAA-ACA
1 ATCAAAATTAACAAAACA-A
*
19221718 ATCAATATTA
1 ATCAAAATTA
19221728 TTTATTGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.69
20 7 0.27
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.24
Consensus pattern (19 bp):
ATCAAAATTAACAAAACAA
Found at i:19223171 original size:26 final size:26
Alignment explanation
Indices: 19223116--19223172 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
19223106 ATTAATTTAT
**
19223116 TTAAATTTTCATATTCAATTTTAACT
1 TTAAATTTTCATATTCAATTTTAAAA
19223142 TTAAATTTT-ATATT-AATATTTAAAAA
1 TTAAATTTTCATATTCAAT-TTT-AAAA
19223168 TTAAA
1 TTAAA
19223173 AAAAACTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 8 0.30
26 16 0.59
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAAATTTTCATATTCAATTTTAAAA
Found at i:19223570 original size:16 final size:16
Alignment explanation
Indices: 19223520--19223571 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
19223510 AAAAAAAGCG
*
19223520 TATTAAAAATATATTAT
1 TATTAAAAATATA-AAT
19223537 ATATTTAAAAATATAAAT
1 -TA-TTAAAAATATAAAT
19223555 TATTAAATAATA-AAAT
1 TATTAAA-AATATAAAT
19223571 T
1 T
19223572 TTGAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 10 0.32
17 6 0.19
18 4 0.13
19 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAAAAATATAAAT
Found at i:19223685 original size:102 final size:105
Alignment explanation
Indices: 19223559--19223823 Score: 305
Period size: 102 Copynumber: 2.6 Consensus size: 105
19223549 ATAAATTATT
* * *
19223559 AAATAATAAAATTTTGAAATTTATTTATTTTAAA-TATAATATTTGATAAAACATATTAAAAATA
1 AAATAA-AAAATTTTAAAACTTATTTATTTTAAATTATAATATTTGATAAAATATATTAAAAATA
* *
19223623 TATATTATA-TTTGAAAAATAAAAAAACA-AAAACT-TCTTA
65 TATATTA-AGATTAAAAAATAAAAAAACATAAAACTATCTTA
* * *
19223662 AAA-AAGAAATTTTAAAAACTTATTTA-TTTAAATTATAATATTTG-T-AAATATGTTAAAAATC
1 AAATAAAAAATTTT-AAAACTTATTTATTTTAAATTATAATATTTGATAAAATATATTAAAAATA
** *
19223723 TATATTAAGATTAAAAAATAAAAAAACATAAATTTATTTTA
65 TATATTAAGATTAAAAAATAAAAAAACATAAAACTATCTTA
* * *
19223764 AAATAAAAAATTTTGAAATTTATTTATTTTAAATTATAATA-TTAATAAAAATATATTAAA
1 AAATAAAAAATTTTAAAACTTATTTATTTTAAATTATAATATTTGAT-AAAATATATTAAA
19223824 TTATTTTTAC
Statistics
Matches: 136, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
99 1 0.01
100 37 0.27
101 18 0.13
102 42 0.31
103 27 0.20
105 11 0.08
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (105 bp):
AAATAAAAAATTTTAAAACTTATTTATTTTAAATTATAATATTTGATAAAATATATTAAAAATAT
ATATTAAGATTAAAAAATAAAAAAACATAAAACTATCTTA
Found at i:19223894 original size:26 final size:24
Alignment explanation
Indices: 19223846--19223895 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19223836 AACATCCATA
**
19223846 TTTTTTTTCTTTTTCTTTTCTGTC
1 TTTTTTTTCTTTTTCTTAACTGTC
19223870 TTTTCTTTTCTTTTCTCTTAACTGTC
1 TTTT-TTTTCTTTT-TCTTAACTGTC
19223896 ACATCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 9 0.41
26 9 0.41
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTTTTCTTTTTCTTAACTGTC
Found at i:19226652 original size:17 final size:17
Alignment explanation
Indices: 19226621--19226663 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
19226611 ACATTTAATC
19226621 TTATTTATT--AATTTT
1 TTATTTATTAAAATTTT
*
19226636 TTATTTTTTAAAATTTT
1 TTATTTATTAAAATTTT
19226653 TTATTTATTAA
1 TTATTTATTAA
19226664 CTTTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.33
17 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTATTAAAATTTT
Found at i:19226669 original size:17 final size:15
Alignment explanation
Indices: 19226621--19226670 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
19226611 ACATTTAATC
19226621 TTATTTATTAATTTT
1 TTATTTATTAATTTT
*
19226636 TTATTTTTTAAAATTTT
1 TTATTTATT--AATTTT
*
19226653 TTATTTATTAACTTT
1 TTATTTATTAATTTT
19226668 TTA
1 TTA
19226671 AATATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.53
17 14 0.47
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTATTAATTTT
Found at i:19226809 original size:18 final size:19
Alignment explanation
Indices: 19226788--19226823 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19226778 CTAAATAAGC
19226788 TTATTTTAATA-AAAATAA
1 TTATTTTAATATAAAATAA
19226806 TTATTTTAATATAAAATA
1 TTATTTTAATATAAAATA
19226824 TCATAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTTTAATATAAAATAA
Found at i:19226829 original size:24 final size:24
Alignment explanation
Indices: 19226802--19226890 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
19226792 TTTAATAAAA
* *
19226802 ATAATTATTTTAATATAAAATATC
1 ATAACTATTTAAATATAAAATATC
**
19226826 ATAACTATTTAAATAT-AAATAAA
1 ATAACTATTTAAATATAAAATATC
* *
19226849 ATAATTATTTTAATATAAAA-ACTC
1 ATAACTATTTAAATATAAAATA-TC
19226873 ATAACTATTTAAATATAA
1 ATAACTATTTAAATATAA
19226891 TTATTTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 20 0.38
24 33 0.62
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAACTATTTAAATATAAAATATC
Found at i:19226852 original size:47 final size:47
Alignment explanation
Indices: 19226799--19226890 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
19226789 TATTTTAATA
19226799 AAAATAATTATTTTAATATAAAATA-TCATAACTATTTAAATATAAAT
1 AAAATAATTATTTTAATATAAAA-ACTCATAACTATTTAAATATAAAT
19226846 AAAATAATTATTTTAATATAAAAACTCATAACTATTTAAATATAA
1 AAAATAATTATTTTAATATAAAAACTCATAACTATTTAAATATAA
19226891 TTATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (47 bp):
AAAATAATTATTTTAATATAAAAACTCATAACTATTTAAATATAAAT
Found at i:19226906 original size:17 final size:17
Alignment explanation
Indices: 19226884--19226918 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19226874 TAACTATTTA
19226884 AATATAATTATTTAAAT
1 AATATAATTATTTAAAT
*
19226901 AATATAATTATTTGAAT
1 AATATAATTATTTAAAT
19226918 A
1 A
19226919 GAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
AATATAATTATTTAAAT
Found at i:19231257 original size:2 final size:2
Alignment explanation
Indices: 19231206--19231241 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
19231196 TCCCCACTCT
*
19231206 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19231242 CACACACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19231262 original size:6 final size:6
Alignment explanation
Indices: 19231253--19231283 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
19231243 ACACACACAT
19231253 ATATAC ATATAC ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC ATATAC ATATAC A
19231284 CATATTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:19231590 original size:21 final size:21
Alignment explanation
Indices: 19231566--19231642 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
19231556 TAGCAATTTA
19231566 TGATATAATTTTTATAATCAT
1 TGATATAATTTTTATAATCAT
* **
19231587 TGATAT-AGTTTTAGTAATTTT
1 TGATATAATTTTTA-TAATCAT
* * *
19231608 TGATAAAATTTTGATAATCTCT
1 TGATATAATTTTTATAATC-AT
*
19231630 TGATGTAATTTTT
1 TGATATAATTTTT
19231643 GTAAACTTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
20 6 0.14
21 20 0.48
22 16 0.38
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.53
Consensus pattern (21 bp):
TGATATAATTTTTATAATCAT
Found at i:19232013 original size:22 final size:22
Alignment explanation
Indices: 19231983--19232064 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 22
19231973 TTTTATTATG
19231983 TTATCAATTATTTACTACTAAA
1 TTATCAATTATTTACTACTAAA
* * *
19232005 TTATGAATTATTTATTATTAAA
1 TTATCAATTATTTACTACTAAA
* * *
19232027 TTATCAATGATATACTATTAAA
1 TTATCAATTATTTACTACTAAA
* *
19232049 TTGT-TATTATTTACTA
1 TTATCAATTATTTACTA
19232065 TCGTATTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 9 0.18
22 40 0.82
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (22 bp):
TTATCAATTATTTACTACTAAA
Found at i:19232166 original size:21 final size:19
Alignment explanation
Indices: 19232129--19232179 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
19232119 ACTGATATAC
*
19232129 TACTAATTTATCGATAATT
1 TACTAATTTATCAATAATT
19232148 TACTACATGTTATCAATAATT
1 TACTA-AT-TTATCAATAATT
*
19232169 AACTAATTTAT
1 TACTAATTTAT
19232180 TACTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.32
20 4 0.14
21 15 0.54
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (19 bp):
TACTAATTTATCAATAATT
Found at i:19232167 original size:87 final size:86
Alignment explanation
Indices: 19231980--19232173 Score: 191
Period size: 87 Copynumber: 2.2 Consensus size: 86
19231970 TTTTTTTATT
* *
19231980 ATGTTATCAATTATTTACTACTAAATTATGAATTATTTATTATTAAATTATCAATGATATACTAT
1 ATGTTATCAATAATTTACTACTAAATTATGAA-TATTTATTATTAAATTATCAATGATATACTAC
* * *
19232045 TAAATTGTTATTATTTACTATC
65 TAAATTATGATAATTTACTATC
* * **
19232067 GTATTATTGATAATTTACTACTAAATTGCTAT-AA-ATTTATTA-TAAAGTTAT-AACTGATATA
1 ATGTTATCAATAATTTACTACTAAA-T--TATGAATATTTATTATTAAA-TTATCAA-TGATATA
*
19232128 CTACTAATTTATCGATAATTTACTA-C
61 CTACTAAATTAT-GATAATTTACTATC
*
19232154 ATGTTATCAATAATTAACTA
1 ATGTTATCAATAATTTACTA
19232174 ATTTATTACT
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
86 6 0.07
87 64 0.74
88 11 0.13
89 2 0.02
90 3 0.03
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (86 bp):
ATGTTATCAATAATTTACTACTAAATTATGAATATTTATTATTAAATTATCAATGATATACTACT
AAATTATGATAATTTACTATC
Found at i:19232291 original size:22 final size:22
Alignment explanation
Indices: 19232174--19232315 Score: 88
Period size: 22 Copynumber: 6.5 Consensus size: 22
19232164 TAATTAACTA
* * *
19232174 ATTTATTACTAAATTATCACTA
1 ATTTACTACTAAATTATCAATG
* * * *
19232196 ATTTACAATTAAATTATTAGTG
1 ATTTACTACTAAATTATCAATG
* ** *
19232218 ATTTACTGCTATGTTATTAATG
1 ATTTACTACTAAATTATCAATG
* * * * *
19232240 ATTTATTTCTAAGTTACCAATA
1 ATTTACTACTAAATTATCAATG
*
19232262 ACTTACTACTAAATTATCAATG
1 ATTTACTACTAAATTATCAATG
* * *
19232284 ATTTACTATTATATTAT-TATG
1 ATTTACTACTAAATTATCAATG
19232305 CATTTACTACT
1 -ATTTACTACT
19232316 TAGGTTTTTA
Statistics
Matches: 90, Mismatches: 29, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
21 3 0.03
22 87 0.97
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATG
Found at i:19232419 original size:33 final size:33
Alignment explanation
Indices: 19232372--19232445 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
19232362 ATTTGTATTA
* *
19232372 AATTATCTA-TAATTTACTATTAAGTTTTCAAT
1 AATTAACTATTAATTTAATATTAAGTTTTCAAT
* *
19232404 AATTTACTATTAATTTAATTTTAAGTTTTCAAT
1 AATTAACTATTAATTTAATATTAAGTTTTCAAT
*
19232437 GATTAACTA
1 AATTAACTA
19232446 CTAAATTATC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
32 7 0.20
33 28 0.80
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (33 bp):
AATTAACTATTAATTTAATATTAAGTTTTCAAT
Found at i:19232476 original size:22 final size:22
Alignment explanation
Indices: 19232425--19232476 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
19232415 AATTTAATTT
*
19232425 TAAGTTTTCAATGATTAACTAC
1 TAAGTTATCAATGATTAACTAC
* * *
19232447 TAAATTATCATTGATTTACTAC
1 TAAGTTATCAATGATTAACTAC
*
19232469 TTAGTTAT
1 TAAGTTAT
19232477 TTACAATTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (22 bp):
TAAGTTATCAATGATTAACTAC
Found at i:19232535 original size:22 final size:22
Alignment explanation
Indices: 19232507--19232560 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
19232497 TATCAATTAA
19232507 TTACTATTAAACTAAAACTAAT
1 TTACTATTAAACTAAAACTAAT
* **
19232529 TTACTATTAAATTATCACTAAT
1 TTACTATTAAACTAAAACTAAT
19232551 TTACTATTAA
1 TTACTATTAA
19232561 GTTGTAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (22 bp):
TTACTATTAAACTAAAACTAAT
Found at i:19232600 original size:22 final size:22
Alignment explanation
Indices: 19232555--19232609 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19232545 ACTAATTTAC
* *
19232555 TATTAAGTTGTAATTGATTTAT
1 TATTAAGTTATAATTGATTAAT
19232577 TATTAAGTTATCAATT-ATTAAT
1 TATTAAGTTAT-AATTGATTAAT
*
19232599 TACTAAGTTAT
1 TATTAAGTTAT
19232610 TACGTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (22 bp):
TATTAAGTTATAATTGATTAAT
Found at i:19232929 original size:22 final size:21
Alignment explanation
Indices: 19232900--19233008 Score: 103
Period size: 22 Copynumber: 5.0 Consensus size: 21
19232890 GTTGTCAGTA
19232900 ATTTATTACTAAATTATCAATG
1 ATTTATTA-TAAATTATCAATG
* * *
19232922 GTTTATTACTAATTTATGAATG
1 ATTTATTA-TAAATTATCAATG
*
19232944 ATTTATTGTAAAGTTAT-AACTG
1 ATTTATTATAAA-TTATCAA-TG
* *
19232966 ATTTATTATTAATGTATCAATA
1 ATTTATTATAAAT-TATCAATG
19232988 ATTTATTATAAAATTATCAAT
1 ATTTATTAT-AAATTATCAAT
19233009 AATTAACTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
21 6 0.08
22 61 0.85
23 5 0.07
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTTATTATAAATTATCAATG
Found at i:19232948 original size:44 final size:43
Alignment explanation
Indices: 19232898--19233008 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 43
19232888 ATGTTGTCAG
* * *
19232898 TAATTTATTACTAAATTATCAATGGTTTATTACTAATTTATGAA
1 TAATTTATTA-TAAATTATCAATGATTTATTACTAATGTATCAA
* * *
19232942 TGATTTATTGTAAAGTTAT-AACTGATTTATTATTAATGTATCAA
1 TAATTTATTATAAA-TTATCAA-TGATTTATTACTAATGTATCAA
19232986 TAATTTATTATAAAATTATCAAT
1 TAATTTATTAT-AAATTATCAAT
19233009 AATTAACTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
43 6 0.11
44 44 0.80
45 5 0.09
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (43 bp):
TAATTTATTATAAATTATCAATGATTTATTACTAATGTATCAA
Found at i:19233087 original size:22 final size:22
Alignment explanation
Indices: 19233059--19233126 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
19233049 TATGTTATTA
* *
19233059 ATTAGTAATTTACTACTACGTT
1 ATTAGTAATTTATTACTAAGTT
*
19233081 ATTAGTAATTTATTATTAAGTT
1 ATTAGTAATTTATTACTAAGTT
* *
19233103 ATCAATAATTTATTACTAAGTT
1 ATTAGTAATTTATTACTAAGTT
19233125 AT
1 AT
19233127 CAAAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTAGTAATTTATTACTAAGTT
Found at i:19233271 original size:21 final size:21
Alignment explanation
Indices: 19233196--19233298 Score: 82
Period size: 22 Copynumber: 4.8 Consensus size: 21
19233186 TTTTTGAATG
** *
19233196 TTTACTACAAAATTATTATTGA
1 TTTACTATTAAATTATCA-TGA
*
19233218 TTTTCTATTAAATTATCAATGA
1 TTTACTATTAAATTATC-ATGA
* *
19233240 TTCACTATTAAGTTATCACTGA
1 TTTACTATTAAATTATCA-TGA
*
19233262 TTTA-TATTAAATTATTTATGA
1 TTTACTATTAAATTA-TCATGA
* *
19233283 TTTATTATTAAGTTAT
1 TTTACTATTAAATTAT
19233299 TACTTGTTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
21 18 0.27
22 47 0.71
23 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (21 bp):
TTTACTATTAAATTATCATGA
Found at i:19233425 original size:22 final size:22
Alignment explanation
Indices: 19233215--19233443 Score: 133
Period size: 22 Copynumber: 10.5 Consensus size: 22
19233205 AAATTATTAT
* *
19233215 TGATTTTCTATTAAATTATCAA
1 TGATTTACTATTAAGTTATCAA
* *
19233237 TGATTCACTATTAAGTTATCAC
1 TGATTTACTATTAAGTTATCAA
* **
19233259 TGATTTA-TATTAAATTATTTA
1 TGATTTACTATTAAGTTATCAA
* * *
19233280 TGATTTATTATTAAGTTATTACT
1 TGATTTACTATTAAGTTATCA-A
* * *
19233303 TG-TTAACTATTATGTTATCGA
1 TGATTTACTATTAAGTTATCAA
* *
19233324 T-TTTTCACTATGAAGTTAT-AA
1 TGATTT-ACTATTAAGTTATCAA
* * *
19233345 TGATTTACTTTTAAGTTTTTAA
1 TGATTTACTATTAAGTTATCAA
* * * * *
19233367 TAATTAATTACTAAATTATCAA
1 TGATTTACTATTAAGTTATCAA
* * * *
19233389 TTATTTATTACTAAGTTATCAC
1 TGATTTACTATTAAGTTATCAA
* **
19233411 TGATTTACTATTAAGATATTTA
1 TGATTTACTATTAAGTTATCAA
*
19233433 TTATTTACTAT
1 TGATTTACTAT
19233444 ATTAGTTAAT
Statistics
Matches: 155, Mismatches: 46, Indels: 12
0.73 0.22 0.06
Matches are distributed among these distances:
21 32 0.21
22 121 0.78
23 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (22 bp):
TGATTTACTATTAAGTTATCAA
Found at i:19233518 original size:22 final size:22
Alignment explanation
Indices: 19233473--19233581 Score: 96
Period size: 22 Copynumber: 5.0 Consensus size: 22
19233463 TCTGTTTCAC
* * * *
19233473 TATTAAATTATCACTAATTCAT
1 TATTAAGTTATCATTGATTTAT
19233495 TATTAAGTTATCATTGATTTAT
1 TATTAAGTTATCATTGATTTAT
* *
19233517 TATTAAGTTATCAAT-ATTTAAC
1 TATTAAGTTATCATTGATTT-AT
* * * *
19233539 TACTAAGTTATTATTTATTTTT
1 TATTAAGTTATCATTGATTTAT
19233561 TAGTT-AGTTATCATTGATTTA
1 TA-TTAAGTTATCATTGATTTA
19233582 CTACTATGTT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
21 4 0.06
22 60 0.87
23 5 0.07
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.52
Consensus pattern (22 bp):
TATTAAGTTATCATTGATTTAT
Found at i:19233528 original size:44 final size:44
Alignment explanation
Indices: 19233473--19233587 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 44
19233463 TCTGTTTCAC
* * * * *
19233473 TATTAAATTATCACTAATTCATTATTAAGTTATCATTGATTTAT
1 TATTAAGTTATCAATAATTAACTACTAAGTTATCATTGATTTAT
* * * *
19233517 TATTAAGTTATCAATATTTAACTACTAAGTTATTATTTATTTTT
1 TATTAAGTTATCAATAATTAACTACTAAGTTATCATTGATTTAT
* * *
19233561 TAGTT-AGTTATCATTGATTTACTACTA
1 TA-TTAAGTTATCAATAATTAACTACTA
19233588 TGTTGTTATG
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 55 0.96
45 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (44 bp):
TATTAAGTTATCAATAATTAACTACTAAGTTATCATTGATTTAT
Found at i:19233602 original size:44 final size:45
Alignment explanation
Indices: 19233522--19233640 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 45
19233512 TTTATTATTA
* * * * *
19233522 AGTTATCAAT-ATTTAACTACTAAGTTATTATTTATTTTTTAGT-T
1 AGTTATCATTGATTT-ACTACTAAGTTGTTATGTATTTGTAAGTGT
* *
19233566 AGTTATCATTGATTTACTACTATGTTGTTATGTATTTGTAATTGT
1 AGTTATCATTGATTTACTACTAAGTTGTTATGTATTTGTAAGTGT
* *
19233611 A-TTATAATTGATTTATTACTAAGTTGTTAT
1 AGTTATCATTGATTTACTACTAAGTTGTTAT
19233641 ACATTTACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 57 0.90
45 6 0.10
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (45 bp):
AGTTATCATTGATTTACTACTAAGTTGTTATGTATTTGTAAGTGT
Found at i:19233692 original size:22 final size:22
Alignment explanation
Indices: 19233664--19233790 Score: 105
Period size: 22 Copynumber: 5.8 Consensus size: 22
19233654 TGTTTTACTG
* *
19233664 ATTTACTACTAAGTTATCAATT
1 ATTTACTATTAAATTATCAATT
19233686 ATTTACTATTAAATTATC-ATT
1 ATTTACTATTAAATTATCAATT
* * * *
19233707 ATTTGCTATTAAATTATTACTA
1 ATTTACTATTAAATTATCAATT
* * *
19233729 ATTTACTACTAAATTATGC-GTA
1 ATTTACTATTAAATTAT-CAATT
* * *
19233751 ATTTACTATTAAGTTATTATTT
1 ATTTACTATTAAATTATCAATT
* *
19233773 ATTAACTATTAAGTTATC
1 ATTTACTATTAAATTATC
19233791 GATGATTATA
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
21 19 0.22
22 66 0.78
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATT
Found at i:19233798 original size:22 final size:22
Alignment explanation
Indices: 19233755--19233798 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19233745 TGCGTAATTT
* *
19233755 ACTATTAAGTTATTATTTATTA
1 ACTATTAAGTTATGATTGATTA
19233777 ACTATTAAGTTATCGA-TGATTA
1 ACTATTAAGTTAT-GATTGATTA
19233799 TAAATCGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (22 bp):
ACTATTAAGTTATGATTGATTA
Found at i:19233926 original size:22 final size:22
Alignment explanation
Indices: 19233890--19234012 Score: 115
Period size: 22 Copynumber: 5.6 Consensus size: 22
19233880 TTATGCATTT
* * *
19233890 ACTATTTATATTATCATTGATTT
1 ACTA-TTAAATTATCATTAATTA
*
19233913 ACAATTAAATTATCAATT-ATTA
1 ACTATTAAATTATC-ATTAATTA
*
19233935 ACTATTAAATT-TCTTTAATTA
1 ACTATTAAATTATCATTAATTA
* *
19233956 ACTATTAAATTATTATTAATTT
1 ACTATTAAATTATCATTAATTA
* *
19233978 ACTATTAAGTTATCACTAATTA
1 ACTATTAAATTATCATTAATTA
* *
19234000 ATTATTAAGTTAT
1 ACTATTAAATTAT
19234013 TGATGATTAT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.02
21 17 0.20
22 59 0.70
23 6 0.07
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (22 bp):
ACTATTAAATTATCATTAATTA
Found at i:19233957 original size:21 final size:22
Alignment explanation
Indices: 19233848--19234013 Score: 97
Period size: 22 Copynumber: 7.5 Consensus size: 22
19233838 ATTATTAAGT
* *
19233848 TATTATATTATAATTAATCT-AC
1 TATTAAATTATTATTAAT-TAAC
* * ** *
19233870 TACTAAGTTATTATGCATTTAC
1 TATTAAATTATTATTAATTAAC
* * * *
19233892 TATTTATATTATCATTGATTTAC
1 TA-TTAAATTATTATTAATTAAC
* *
19233915 AATTAAATTATCAATT-ATTAAC
1 TATTAAATTAT-TATTAATTAAC
19233937 TATTAAATT-TCT-TTAATTAAC
1 TATTAAATTAT-TATTAATTAAC
*
19233958 TATTAAATTATTATTAATTTAC
1 TATTAAATTATTATTAATTAAC
* * * *
19233980 TATTAAGTTATCACTAATTAAT
1 TATTAAATTATTATTAATTAAC
*
19234002 TATTAAGTTATT
1 TATTAAATTATT
19234014 GATGATTATT
Statistics
Matches: 113, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.02
21 19 0.17
22 74 0.65
23 18 0.16
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (22 bp):
TATTAAATTATTATTAATTAAC
Found at i:19234091 original size:22 final size:22
Alignment explanation
Indices: 19234038--19234098 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
19234028 AGTTATACCG
** *
19234038 ATTTACTTTTAAGTTTTCAATT
1 ATTTACTACTAAGTTATCAATT
* * *
19234060 AATAATTACTAAGTTATCAATT
1 ATTTACTACTAAGTTATCAATT
*
19234082 ATTTACTACTAAATTAT
1 ATTTACTACTAAGTTAT
19234099 TATTGATTTG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAGTTATCAATT
Found at i:19234714 original size:19 final size:19
Alignment explanation
Indices: 19234690--19234726 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19234680 ATTAAATTAA
19234690 ATTTTATTGTGATTATTTT
1 ATTTTATTGTGATTATTTT
*
19234709 ATTTTATTGTTATTATTT
1 ATTTTATTGTGATTATTT
19234727 ACTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (19 bp):
ATTTTATTGTGATTATTTT
Found at i:19234752 original size:14 final size:14
Alignment explanation
Indices: 19234691--19234753 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
19234681 TTAAATTAAA
*
19234691 TTTTATTGTGATTA-
1 TTTTATT-TTATTAT
*
19234705 TTTTATTTTATTGT
1 TTTTATTTTATTAT
* *
19234719 TATTA-TTTACTAT
1 TTTTATTTTATTAT
19234732 TTATTATTTTATTAT
1 TT-TTATTTTATTAT
19234747 TTTTATT
1 TTTTATT
19234754 ATTTAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
13 11 0.28
14 19 0.49
15 9 0.23
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTTATTTTATTAT
Found at i:19234916 original size:16 final size:16
Alignment explanation
Indices: 19234888--19234920 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19234878 AAACACTTTA
19234888 ATTTATTTTTATTTTT
1 ATTTATTTTTATTTTT
19234904 ATTT-TTTTATATTTTT
1 ATTTATTTT-TATTTTT
19234920 A
1 A
19234921 AATAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTATTTTTATTTTT
Found at i:19235090 original size:3 final size:3
Alignment explanation
Indices: 19235082--19235119 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
19235072 TTAGTTTTCA
*
19235082 TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19235120 GCAAAAATTA
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:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19236524 original size:17 final size:18
Alignment explanation
Indices: 19236489--19236526 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19236479 TATTACATAG
19236489 TTTAATTATTTTTTATAT
1 TTTAATTATTTTTTATAT
*
19236507 TTTATTTATTTTTT-TAT
1 TTTAATTATTTTTTATAT
19236524 TTT
1 TTT
19236527 GTAATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTAATTATTTTTTATAT
Found at i:19236775 original size:18 final size:17
Alignment explanation
Indices: 19236754--19236807 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
19236744 ATTTTAAATT
19236754 TTTGTTGAATTTGTGAAA
1 TTTG-TGAATTTGTGAAA
*
19236772 TTTGTGGAAATTGTGAAA
1 TTTGT-GAATTTGTGAAA
* *
19236790 ATTG-GAATTTATGAAA
1 TTTGTGAATTTGTGAAA
19236806 TT
1 TT
19236808 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 11 0.37
17 1 0.03
18 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTGTGAATTTGTGAAA
Found at i:19236845 original size:44 final size:43
Alignment explanation
Indices: 19236779--19236863 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 43
19236769 AAATTTGTGG
19236779 AAATTGTGAAAATTGGAATTTATGAAATTATTATGAAAATTGA
1 AAATTGTGAAAATTGGAATTTATGAAATTATTATGAAAATTGA
* * *
19236822 AAATTGTGGAACTTGTGAATTTATGAAATTATTGTGAAAATT
1 AAATTGTGAAAATTG-GAATTTATGAAATTATTATGAAAATT
19236864 ATAAAGTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 13 0.34
44 25 0.66
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.39
Consensus pattern (43 bp):
AAATTGTGAAAATTGGAATTTATGAAATTATTATGAAAATTGA
Found at i:19242024 original size:15 final size:15
Alignment explanation
Indices: 19242004--19242037 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19241994 ACTCGGCAAA
*
19242004 TATTGAGATCATATC
1 TATTGAAATCATATC
19242019 TATTGAAATCATATC
1 TATTGAAATCATATC
19242034 TATT
1 TATT
19242038 AAACATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (15 bp):
TATTGAAATCATATC
Found at i:19243536 original size:2 final size:2
Alignment explanation
Indices: 19243529--19243592 Score: 65
Period size: 2 Copynumber: 31.5 Consensus size: 2
19243519 GTTGAAATCA
* * * *
19243529 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AA AC AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
19243571 AT AT AT GT AT GT ACT AT AT AT A
1 AT AT AT AT AT AT A-T AT AT AT A
19243593 GAAGTATGCG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:19245820 original size:242 final size:236
Alignment explanation
Indices: 19245377--19245827 Score: 544
Period size: 242 Copynumber: 1.9 Consensus size: 236
19245367 TCTCCCTAAC
* ** * * *
19245377 TGGAAATTGAAGCCATTAAGGCAATAGATCTGAATTGTTATTAAGATATTAACTTTCATGACCAT
1 TGGAAATTGAAACCACGAAGGCAACAGATCTGAATTGGTAATAAGATATTAACTTTCATGACCAT
* * * * * * *
19245442 ATGCGATCTGCACCACCAAATTGAACTCAACTAGAGAGATAATGATATATATCATGGAAGGTTCA
66 ATGCGATCTGCACCACCAAATTCAACCCAACAAGAAAGATAATGATATAGATCATGAAAAGTTCA
* * * * *
19245507 AGCAAAACCATTGAATGATCAAATGACATTTACTTTCCCAAATTTTGAAATGCCTGTTGCAGTAG
131 AACAAAACCATTGAATGATCAAATGACATTTACTATCCCAAATTTTGAAATGCCTATGGCAGTAA
*
19245572 GTAGTAAATACAGTGGCTATTCCATATCCTTCACTGGAAAG
196 GTAGTAAAAACAGTGGCTATTCCATATCCTTCACTGGAAAG
* *
19245613 TGGAAATTGAAACCAACGAAGGCAACAGATAGTGAATTGGTAATAAGATATTAACTTTCATGACT
1 TGGAAATTGAAACC-ACGAAGGCAACAGAT-CTGAATTGGTAATAAGATATTAACTTTCATGACC
* * * * *
19245678 GTATGTGATGTTGCTACCACCAAATTCAGCCCAACAAGAAAGATAATGATATAGATCATGAAAAT
64 ATATGCGAT-CTGC-ACCACCAAATTCAACCCAACAAGAAAGATAATGATATAGATCATGAAAAG
* * * * **
19245743 TTCAAATAACATTCCATTGAATGGTCAAGTGTTATTTAC-ATCCACAAATTTTGAAATGCCTATG
127 TTCAAACAA-A-ACCATTGAATGATCAAATGACATTTACTATCC-CAAATTTTGAAATGCCTATG
19245807 GCAGTAAGTAGTAAAAACAGT
189 GCAGTAAGTAGTAAAAACAGT
19245828 AGCAATTATT
Statistics
Matches: 176, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
236 13 0.07
237 12 0.07
238 37 0.21
239 3 0.02
240 48 0.27
241 4 0.02
242 59 0.34
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (236 bp):
TGGAAATTGAAACCACGAAGGCAACAGATCTGAATTGGTAATAAGATATTAACTTTCATGACCAT
ATGCGATCTGCACCACCAAATTCAACCCAACAAGAAAGATAATGATATAGATCATGAAAAGTTCA
AACAAAACCATTGAATGATCAAATGACATTTACTATCCCAAATTTTGAAATGCCTATGGCAGTAA
GTAGTAAAAACAGTGGCTATTCCATATCCTTCACTGGAAAG
Found at i:19252559 original size:3 final size:3
Alignment explanation
Indices: 19252551--19252580 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
19252541 CCCATAGCTA
19252551 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
19252581 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:19252740 original size:12 final size:11
Alignment explanation
Indices: 19252716--19252745 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
19252706 ATAAAAAATC
19252716 TATATATTAAA
1 TATATATTAAA
19252727 TATATATATAAA
1 TATATAT-TAAA
19252739 TATATAT
1 TATATAT
19252746 GTAGGGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATATTAAA
Found at i:19257497 original size:30 final size:31
Alignment explanation
Indices: 19257455--19257512 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
19257445 TGAAGAGCTC
*
19257455 AATTGGAGTGAAAATAGATGTTTAAGGGTTT
1 AATTGGAGTGAAAATAAATGTTTAAGGGTTT
19257486 AATTGG-GTGAAAATAAATGTTTAAGGG
1 AATTGGAGTGAAAATAAATGTTTAAGGG
19257513 CTCAACTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (31 bp):
AATTGGAGTGAAAATAAATGTTTAAGGGTTT
Found at i:19260802 original size:18 final size:18
Alignment explanation
Indices: 19260779--19260828 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
19260769 GAAGTGGATA
*
19260779 CTTTGTCTTAGAGATAAG
1 CTTTGTCTCAGAGATAAG
19260797 CTTTGTCTCAGAGATAAG
1 CTTTGTCTCAGAGATAAG
19260815 CTTTGTCTCA-AGAT
1 CTTTGTCTCAGAGAT
19260829 GAAATATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (18 bp):
CTTTGTCTCAGAGATAAG
Found at i:19261997 original size:22 final size:22
Alignment explanation
Indices: 19261972--19262015 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19261962 TAATCATAAA
*
19261972 TATTAATATAGTAAATAATATT
1 TATTAATATACTAAATAATATT
* *
19261994 TATTATTTTACTAAATAATATT
1 TATTAATATACTAAATAATATT
19262016 ATTTAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTAATATACTAAATAATATT
Found at i:19262294 original size:20 final size:20
Alignment explanation
Indices: 19262271--19262310 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19262261 TTATCATATC
19262271 AATAGAAATAATATTTTAAA
1 AATAGAAATAATATTTTAAA
* *
19262291 AATAGTAATACTATTTTAAA
1 AATAGAAATAATATTTTAAA
19262311 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAGAAATAATATTTTAAA
Found at i:19263048 original size:167 final size:167
Alignment explanation
Indices: 19262761--19263070 Score: 543
Period size: 167 Copynumber: 1.9 Consensus size: 167
19262751 AGGCAAATAG
*
19262761 CAAAATTTCTTTAAAACTAAATTATGCATAACAAACATTTTAGGTAAGTGTATCAGAACCATTTT
1 CAAAATTTCTTTAAAACTAAATTATGCATAACAAACATTCTAGGTAAGTGTATCAGAACCATTTT
**
19262826 ATCATAAGGCTTTTTCATAGTCTATATCCATCCATTTTTGCTCTTAATAAGCTTTTTCTTTCAAT
66 ATCATAAGGCTTTTTCATAGTCTATATCCATCCAAATTTGCTCTTAATAAGCTTTTTCTTTCAAT
19262891 CATATGGCATCAAATAAATGGAGCCTTAATGTGATTT
131 CATATGGCATCAAATAAATGGAGCCTTAATGTGATTT
19262928 CAAAATTTCTTTAAAACTAAATTATGCATAACAAACATTCTAGGTAAGTGTCAT-AGAACCATTT
1 CAAAATTTCTTTAAAACTAAATTATGCATAACAAACATTCTAGGTAAGTGT-ATCAGAACCATTT
* *
19262992 TATCATAAGGCTTTTTCATAGTCTATATCCATCCAAATTTGCT-TTGAATGAGCTTTTTTTTTCA
65 TATCATAAGGCTTTTTCATAGTCTATATCCATCCAAATTTGCTCTT-AATAAGCTTTTTCTTTCA
19263056 ATCATATGGCATCAA
129 ATCATATGGCATCAA
19263071 CAGGTCCTGA
Statistics
Matches: 136, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
166 2 0.01
167 132 0.97
168 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (167 bp):
CAAAATTTCTTTAAAACTAAATTATGCATAACAAACATTCTAGGTAAGTGTATCAGAACCATTTT
ATCATAAGGCTTTTTCATAGTCTATATCCATCCAAATTTGCTCTTAATAAGCTTTTTCTTTCAAT
CATATGGCATCAAATAAATGGAGCCTTAATGTGATTT
Found at i:19264947 original size:22 final size:22
Alignment explanation
Indices: 19264882--19264931 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
19264872 CTGTATGTTT
*
19264882 ATATTTATAT-ATCTAAAATTAA
1 ATATTTATATCCT-TAAAATTAA
19264904 ATATTTATATCCTTAAAATTAA
1 ATATTTATATCCTTAAAATTAA
19264926 ATATTT
1 ATATTT
19264932 GTATTCCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTATATCCTTAAAATTAA
Found at i:19269512 original size:22 final size:22
Alignment explanation
Indices: 19269484--19269534 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
19269474 TGTAAATGAA
19269484 GCATCTACACGTCATTGATATG
1 GCATCTACACGTCATTGATATG
*
19269506 GCATCTACATGTCATTGATATG
1 GCATCTACACGTCATTGATATG
19269528 GCATCTA
1 GCATCTA
19269535 TATGGATGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (22 bp):
GCATCTACACGTCATTGATATG
Found at i:19277738 original size:4 final size:4
Alignment explanation
Indices: 19277729--19277780 Score: 61
Period size: 4 Copynumber: 13.0 Consensus size: 4
19277719 TTGATAATGA
* * *
19277729 TATT TATT TACT TAAT TATT TATT TGATT TA-T TATT TATG TATT TATT
1 TATT TATT TATT TATT TATT TATT T-ATT TATT TATT TATT TATT TATT
19277777 TATT
1 TATT
19277781 ATCTCATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
3 3 0.07
4 34 0.83
5 4 0.10
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TATT
Found at i:19278611 original size:10 final size:11
Alignment explanation
Indices: 19278589--19278616 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19278579 TTATATCATT
19278589 AAAAATTTAAA
1 AAAAATTTAAA
19278600 AAAAATTTAAA
1 AAAAATTTAAA
19278611 AAAAAT
1 AAAAAT
19278617 CAAATAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:19279472 original size:21 final size:21
Alignment explanation
Indices: 19279429--19279471 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19279419 AAAATTATCT
* *
19279429 AATTAAAAATAAATTAACAAA
1 AATTAAAAAGAAAATAACAAA
19279450 AATTAAAAAGAAAAT-ACAAA
1 AATTAAAAAGAAAATAACAAA
19279470 AA
1 AA
19279472 AGCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (21 bp):
AATTAAAAAGAAAATAACAAA
Found at i:19281939 original size:28 final size:26
Alignment explanation
Indices: 19281880--19281947 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
19281870 AATATATATT
*
19281880 TAAAAATATAAAA-AATAACAAAAAA
1 TAAAAATATAAAAGAAAAACAAAAAA
*
19281905 TAGAAAATGTAAAAGAAAAACTAAAAAA
1 TA-AAAATATAAAAGAAAAAC-AAAAAA
*
19281933 CTAAAAATCTAAAAG
1 -TAAAAATATAAAAG
19281948 GTAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.06
26 10 0.28
27 5 0.14
28 17 0.47
29 2 0.06
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (26 bp):
TAAAAATATAAAAGAAAAACAAAAAA
Found at i:19284409 original size:22 final size:22
Alignment explanation
Indices: 19284381--19284451 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
19284371 ATGAAGTGTC
*
19284381 GAAATTTAAAAATTCACAATTT
1 GAAATTTAAAGATTCACAATTT
*
19284403 GAAATTTCAAGATT-AGCAATTT
1 GAAATTTAAAGATTCA-CAATTT
* *
19284425 GAACTTCAAAGATTCACAATCTT
1 GAAATTTAAAGATTCACAAT-TT
19284448 GAAA
1 GAAA
19284452 GTCAAAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 33 0.82
23 6 0.15
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (22 bp):
GAAATTTAAAGATTCACAATTT
Found at i:19284604 original size:43 final size:43
Alignment explanation
Indices: 19284552--19284734 Score: 149
Period size: 43 Copynumber: 4.2 Consensus size: 43
19284542 TTCAAAGATT
* *
19284552 CATCTAAATTCAAAAGTTTACATTTGAAAATTTTAAAGACTCA
1 CATCTAAATTCAAAAGTTTTCATTTGAAAAATTTAAAGACTCA
* * * *
19284595 CATATAAATTC-AAAGATTTTCATTTG-AAAATTGTAGAGATTTA
1 CATCTAAATTCAAAAG-TTTTCATTTGAAAAATT-TAAAGACTCA
* * * * *
19284638 CA-CTTAGATTTCAAAATTTTTCATTTAAACAAATTTAAAGATTTA
1 CATC-TA-AATTCAAAAGTTTTCATTTGAA-AAATTTAAAGACTCA
** *
19284683 CATCTAAAATTCAAATA-TTCCCATTTGAAAAATTTGAAGACTCA
1 CATCT-AAATTCAAA-AGTTTTCATTTGAAAAATTTAAAGACTCA
19284727 CATCTAAA
1 CATCTAAA
19284735 ATTAAAAAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
42 9 0.08
43 33 0.29
44 30 0.27
45 32 0.29
46 8 0.07
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (43 bp):
CATCTAAATTCAAAAGTTTTCATTTGAAAAATTTAAAGACTCA
Found at i:19284696 original size:45 final size:43
Alignment explanation
Indices: 19284538--19284783 Score: 148
Period size: 44 Copynumber: 5.6 Consensus size: 43
19284528 ATTCACATCT
* * *
19284538 AAAATTCAAAGA-TT-CATCT-AAATTCAAAAGTTTACATTTGA
1 AAAATTTAAAGATTTACATCTAAAATTCAAAATTTTTCATTT-A
* * * * *
19284579 AAATTTTAAAGACTCACATAT-AAATTCAAAGA-TTTTCATTTG
1 AAAATTTAAAGATTTACATCTAAAATTCAAA-ATTTTTCATTTA
* * *
19284621 AAAATTGTAGAGATTTACA-CTTAGATTTCAAAATTTTTCATTTAA
1 AAAATT-TAAAGATTTACATC-TAAAATTCAAAATTTTTCATTT-A
**
19284666 ACAAATTTAAAGATTTACATCTAAAATTC-AAATATTCCCATTTGA
1 A-AAATTTAAAGATTTACATCTAAAATTCAAAAT-TTTTCATTT-A
* * * * *
19284711 AAAATTTGAAGACTCACATCTAAAATTAAAAAAATTCTT-ATTTA
1 AAAATTTAAAGATTTACATCTAAAATT--CAAAATTTTTCATTTA
* *
19284755 CAAAGTTTTAGAGATTTACATCTAAAATT
1 -AAA-ATTTAAAGATTTACATCTAAAATT
19284784 TAAATATTAG
Statistics
Matches: 157, Mismatches: 32, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
41 10 0.06
42 6 0.04
43 32 0.20
44 45 0.29
45 34 0.22
46 26 0.17
47 4 0.03
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (43 bp):
AAAATTTAAAGATTTACATCTAAAATTCAAAATTTTTCATTTA
Found at i:19287089 original size:17 final size:17
Alignment explanation
Indices: 19287062--19287105 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
19287052 TTAAAAGTAT
*
19287062 ACAAATGCAATGTTTAA
1 ACAAATACAATGTTTAA
*
19287079 TCAAATACAATGTTTAA
1 ACAAATACAATGTTTAA
*
19287096 ACATATACAA
1 ACAAATACAA
19287106 ACGTAGTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (17 bp):
ACAAATACAATGTTTAA
Done.