Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 47 of 74
Found at i:9647743 original size:57 final size:56
Alignment explanation
Indices: 9647682--9647963 Score: 248
Period size: 57 Copynumber: 4.9 Consensus size: 56
9647672 TATTTTTTTA
* * * *
9647682 ATGGTGGTATTCGAGTTTCTTTTGGTGGTAATATCCAAACTCATTTGTATTATCTC
1 ATGGTGATATTCGAGTTTCTTTTGGTGGTGATATCCAAACTCATTTGCATTTTCTC
* * * *** * * *
9647738 GATGGTCATATTCAAATTT-TCTTTGGTGGTGATATTTGAACTCATTTACATGTTCTAG
1 -ATGGTGATATTCGAGTTTCT-TTTGGTGGTGATATCCAAACTCATTTGCATTTTCT-C
* * *
9647796 ATGGTGATATTCAAATTT-TTATCGGTGGTGATATCCAAACTCATTTGCATTTTCTC
1 ATGGTGATATTCGAGTTTCTT-TTGGTGGTGATATCCAAACTCATTTGCATTTTCTC
* * *
9647852 AGTGGTGATATTCGAGTTTCTTTCGCG-GGTGATATTCGAAA-TTATTTGCATTTTCTC
1 A-TGGTGATATTCGAGTTTCTTTTG-GTGGTGATA-TCCAAACTCATTTGCATTTTCTC
** * *
9647909 AGTGGTGATATTCGAGTTTCCTTTTCATGGTGATATTCAAAATCATTTGCATTTT
1 A-TGGTGATATTCGAGTTT-CTTTTGGTGGTGATATCCAAACTCATTTGCATTTT
9647964 TTTGGTAGTA
Statistics
Matches: 184, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
56 3 0.02
57 150 0.82
58 31 0.17
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (56 bp):
ATGGTGATATTCGAGTTTCTTTTGGTGGTGATATCCAAACTCATTTGCATTTTCTC
Found at i:9647883 original size:114 final size:115
Alignment explanation
Indices: 9647683--9647963 Score: 279
Period size: 114 Copynumber: 2.5 Consensus size: 115
9647673 ATTTTTTTAA
* * * * * * *
9647683 TGGTGGTATTCGAGTTTCTT-TTGGTGGTAATATCCAAACTCATTTGTATTATCTCGATGGTCAT
1 TGGTGATATTCAAATTTCTTATCGGTGGTGATATCCAAACTCATTTGCATTTTCTCGATGGTCAT
* * *
9647747 ATTCAAATTTTCTTTGGTGGTGATATTTGAACTCATTTACATGTTCT-AG
66 ATTCAAAGTTTCTTTGGTGGTGATATTCGAAATCATTTACATGTTCTCAG
*
9647796 ATGGTGATATTCAAATTT-TTATCGGTGGTGATATCCAAACTCATTTGCATTTTCTC-AGTGGTG
1 -TGGTGATATTCAAATTTCTTATCGGTGGTGATATCCAAACTCATTTGCATTTTCTCGA-TGGTC
* * * *
9647859 ATATTC-GAGTTTCTTTCGCG-GGTGATATTCGAAATTATTTGCATTTTCTCAG
64 ATATTCAAAGTTTCTTT-G-GTGGTGATATTCGAAATCATTTACATGTTCTCAG
* * * * * *
9647911 TGGTGATATTCGAGTTTCCTTTTC-ATGGTGATATTCAAAATCATTTGCATTTT
1 TGGTGATATTCAAATTT-CTTATCGGTGGTGATATCCAAACTCATTTGCATTTT
9647964 TTTGGTAGTA
Statistics
Matches: 139, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
113 11 0.08
114 95 0.68
115 29 0.21
116 4 0.03
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (115 bp):
TGGTGATATTCAAATTTCTTATCGGTGGTGATATCCAAACTCATTTGCATTTTCTCGATGGTCAT
ATTCAAAGTTTCTTTGGTGGTGATATTCGAAATCATTTACATGTTCTCAG
Found at i:9647985 original size:58 final size:58
Alignment explanation
Indices: 9647821--9647989 Score: 162
Period size: 57 Copynumber: 2.9 Consensus size: 58
9647811 TTTTTATCGG
* * * * * * *
9647821 TGGTGATATCCAAACTCATTTGCATTTTCTCAGTGGTGATATTCGAGTTT-C-TTTCGC
1 TGGTGATATTCAAAATCATTTGCATTTTCTCAGTAGTAATATCCAAGTTTCCTTTTC-A
* * * * * * *
9647878 GGGTGATATTCGAAATTATTTGCATTTTCTCAGTGGTGATATTCGAGTTTCCTTTTCA
1 TGGTGATATTCAAAATCATTTGCATTTTCTCAGTAGTAATATCCAAGTTTCCTTTTCA
* **
9647936 TGGTGATATTCAAAATCATTTGCATTTTTTTGGTAGTAATATCCAAGTTTCCTT
1 TGGTGATATTCAAAATCATTTGCATTTTCTCAGTAGTAATATCCAAGTTTCCTT
9647990 CGGTGGTAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
57 45 0.48
58 45 0.48
59 4 0.04
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.44
Consensus pattern (58 bp):
TGGTGATATTCAAAATCATTTGCATTTTCTCAGTAGTAATATCCAAGTTTCCTTTTCA
Found at i:9652415 original size:27 final size:26
Alignment explanation
Indices: 9652346--9652422 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
9652336 ATTTATAAAA
9652346 ATATTTAAATAATATTAT--TTT-AT
1 ATATTTAAATAATATTATAATTTAAT
*
9652369 -TATTT-AATTATATT-TGAATTTAAT
1 ATATTTAAATAATATTAT-AATTTAAT
*
9652393 ATCATTTAAATAATATTATAATTAAAT
1 AT-ATTTAAATAATATTATAATTTAAT
9652420 ATA
1 ATA
9652423 AATTAGATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 1 0.02
21 8 0.19
22 5 0.12
23 3 0.07
24 2 0.05
25 1 0.02
26 5 0.12
27 17 0.40
28 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
ATATTTAAATAATATTATAATTTAAT
Found at i:9654129 original size:21 final size:22
Alignment explanation
Indices: 9654090--9654130 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9654080 TTATGAGTTT
9654090 TTAGGTTTGTTGATGGTTGTCC
1 TTAGGTTTGTTGATGGTTGTCC
*
9654112 TTAGGTTT-TTGGTGGTTGT
1 TTAGGTTTGTTGATGGTTGT
9654131 TGAATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.07, C:0.05, G:0.34, T:0.54
Consensus pattern (22 bp):
TTAGGTTTGTTGATGGTTGTCC
Found at i:9659884 original size:112 final size:116
Alignment explanation
Indices: 9659704--9659931 Score: 315
Period size: 112 Copynumber: 2.0 Consensus size: 116
9659694 ATTTTACATC
* * *
9659704 CATTACTTTGTTAGGATTGAAAAATGATAAAAAAAAATAACATAAAATTATACTAGTTGTAAGTT
1 CATTACTTTGTTAGGATTGAAAAA-GAT-AAAAAAAATAAAAGAAAATTATACTAGTAGTAAGTT
*
9659769 AAAAAAAAAGGATAAAATTTT-AAAAA-ATATAAATAAATTTGTAAATATACGTT
64 --AAAAAAAGGAGAAAATTTTAAAAAATATATAAATAAATTTGTAAATATACGTT
*
9659822 CATTAC-TTGTTAGGATTG-AAAA-AT-AATAAAATAAAAGAAAATTATACTAGTAGTAAGTTAA
1 CATTACTTTGTTAGGATTGAAAAAGATAAAAAAAATAAAAGAAAATTATACTAGTAGTAAGTTAA
*
9659883 AAAAAGGAGAAAATTTTAAAAAAATATATAAATAATTTTGTAAATATAC
66 AAAAAGGAGAAAATTTT-AAAAAATATATAAATAAATTTGTAAATATAC
9659932 ATATTTGATT
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
110 18 0.18
112 36 0.36
113 23 0.23
114 2 0.02
116 4 0.04
117 12 0.12
118 6 0.06
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (116 bp):
CATTACTTTGTTAGGATTGAAAAAGATAAAAAAAATAAAAGAAAATTATACTAGTAGTAAGTTAA
AAAAAGGAGAAAATTTTAAAAAATATATAAATAAATTTGTAAATATACGTT
Found at i:9664526 original size:57 final size:58
Alignment explanation
Indices: 9664464--9664602 Score: 178
Period size: 57 Copynumber: 2.4 Consensus size: 58
9664454 AAAATTTGTG
*
9664464 TAATTTATTAATAAAGTAT-TACAT-TTTTAATTCTAATGATCATAATTTAAATTCGGA
1 TAATTT-TTAAGAAAGTATATACATATTTTAATTCTAATGATCATAATTTAAATTCGGA
* * *
9664521 TAA-TTTTAAGCACGTATATATATATTTTAATTCTAATGATCATAATTTAAATTCGGA
1 TAATTTTTAAGAAAGTATATACATATTTTAATTCTAATGATCATAATTTAAATTCGGA
* * *
9664578 TAA-TTTTAAGCATGTATATATATAT
1 TAATTTTTAAGAAAGTATATACATAT
9664603 ATATATAGAT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
55 9 0.12
56 6 0.08
57 60 0.80
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (58 bp):
TAATTTTTAAGAAAGTATATACATATTTTAATTCTAATGATCATAATTTAAATTCGGA
Found at i:9668023 original size:16 final size:16
Alignment explanation
Indices: 9668004--9668068 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
9667994 TTTTGCATGA
9668004 ATTTGCATGATAATTT
1 ATTTGCATGATAATTT
* * *
9668020 ATTTGCCTAATATTTT
1 ATTTGCATGATAATTT
* *
9668036 ATTTACATGATTAATAT
1 ATTTGCATGA-TAATTT
9668053 ATTTG--TG-TAATTT
1 ATTTGCATGATAATTT
9668066 ATT
1 ATT
9668069 AATATATTTG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 8 0.21
15 2 0.05
16 20 0.53
17 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (16 bp):
ATTTGCATGATAATTT
Found at i:9668121 original size:20 final size:20
Alignment explanation
Indices: 9668045--9668137 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
9668035 TATTTACATG
** *
9668045 ATTAATATATTTGTGTAATTT
1 ATTAATATATTTGCATGA-TT
* *
9668066 ATTAATATATTTGCAAGACT
1 ATTAATATATTTGCATGATT
*
9668086 ATTAATATGTTTGCATGATT
1 ATTAATATATTTGCATGATT
*
9668106 ATTAATTTATTTGCATGATT
1 ATTAATATATTTGCATGATT
* *
9668126 ATCAATTTATTT
1 ATTAATATATTT
9668138 ATTTATGTGA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTAATATATTTGCATGATT
Found at i:9668215 original size:52 final size:55
Alignment explanation
Indices: 9668157--9668283 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 55
9668147 ATTTCATGGT
*
9668157 TATTATTATATATTTAATTACATGTTTATTT-GA-ATGATT-ATATTATTACTTG
1 TATTATTATATATTTAATTACATGTTTATTTACACATGATTAATATTATTACTTG
* * *
9668209 TATTATTATATATTTAATTACTTGTTTATTTACATCATTATTAATATTATTATTTG
1 TATTATTATATATTTAATTACATGTTTATTTACA-CATGATTAATATTATTACTTG
* *
9668265 CATGATTATATATTTAATT
1 TATTATTATATATTTAATT
9668284 GCATCTCTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 30 0.46
53 1 0.02
55 5 0.08
56 29 0.45
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.57
Consensus pattern (55 bp):
TATTATTATATATTTAATTACATGTTTATTTACACATGATTAATATTATTACTTG
Found at i:9668281 original size:56 final size:52
Alignment explanation
Indices: 9668161--9668283 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 52
9668151 CATGGTTATT
* * *
9668161 ATTATATATTTAATTACATGTTTATTTGAATGATTATATTATTACTTGTATT
1 ATTATATATTTAATTACATGTTTATTTCAATGATTATATTATTACTTGCATG
* * *
9668213 ATTATATATTTAATTACTTGTTTATTTACATCATTATTAATATTATTATTTGCATG
1 ATTATATATTTAATTACATGTTTATTT-CA--ATGATT-ATATTATTACTTGCATG
9668269 ATTATATATTTAATT
1 ATTATATATTTAATT
9668284 GCATCTCTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
52 26 0.43
53 1 0.02
55 5 0.08
56 29 0.48
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (52 bp):
ATTATATATTTAATTACATGTTTATTTCAATGATTATATTATTACTTGCATG
Found at i:9668306 original size:56 final size:56
Alignment explanation
Indices: 9668196--9668314 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 56
9668186 TTGAATGATT
* * * * * *
9668196 ATATTATTACTTGTATTATTATATATTTAATTACTTGTTTATTTACATCATTATTA
1 ATATTATTACTTGCATGATTATATATTTAATTACATCTCTAATTACATCATTATTA
* * * **
9668252 ATATTATTATTTGCATGATTATATATTTAATTGCATCTCTAATTGCATGGTTATTA
1 ATATTATTACTTGCATGATTATATATTTAATTACATCTCTAATTACATCATTATTA
9668308 AT-TTATT
1 ATATTATT
9668315 TGTTTGTGTG
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
55 5 0.10
56 47 0.90
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.55
Consensus pattern (56 bp):
ATATTATTACTTGCATGATTATATATTTAATTACATCTCTAATTACATCATTATTA
Found at i:9668382 original size:32 final size:33
Alignment explanation
Indices: 9668333--9668414 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 33
9668323 TGATTGTATG
* *
9668333 TTTATTAATA-TACTTATTTACATGGTT-ATTTA
1 TTTATTATTATTA-TTATTTACATGATTGATTTA
*
9668365 TTTATTATTATTATTA-TTGCATGATTGATTTA
1 TTTATTATTATTATTATTTACATGATTGATTTA
*
9668397 TATATTATT-TGTATTATT
1 TTTATTATTAT-TATTATT
9668415 ATATATCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 9 0.21
32 30 0.71
33 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (33 bp):
TTTATTATTATTATTATTTACATGATTGATTTA
Found at i:9668429 original size:29 final size:31
Alignment explanation
Indices: 9668394--9668459 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
9668384 CATGATTGAT
*
9668394 TTATATATTATTTGTATTA-TTATATATCTAA
1 TTATAT-TTATTTGTATGATTTATATATCTAA
*
9668425 TTATATGTTTATTTGTATGATTTATATATTTAA
1 TTATA--TTTATTTGTATGATTTATATATCTAA
9668458 TT
1 TT
9668460 GCATGATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 5 0.17
32 11 0.37
33 14 0.47
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.61
Consensus pattern (31 bp):
TTATATTTATTTGTATGATTTATATATCTAA
Found at i:9668473 original size:20 final size:20
Alignment explanation
Indices: 9668424--9668566 Score: 128
Period size: 20 Copynumber: 7.0 Consensus size: 20
9668414 TATATATCTA
* * *
9668424 ATTATATGTTTATTTGTATG
1 ATTATATATTTAATTGCATG
9668444 ATTTATATATTTAATTGCATG
1 A-TTATATATTTAATTGCATG
*
9668465 ATCATATATTTAATTGCAT-
1 ATTATATATTTAATTGCATG
* *
9668484 ATTTTACATTATTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
* *
9668506 ATTAGATATTTAATGGCATG
1 ATTATATATTTAATTGCATG
* * *
9668526 -TTTTACATTGTTAATTGGATG
1 ATTATATA-T-TTAATTGCATG
9668547 ATTATATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
9668567 TCTATTTGCA
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
19 9 0.09
20 40 0.41
21 38 0.39
22 10 0.10
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (20 bp):
ATTATATATTTAATTGCATG
Found at i:9668566 original size:41 final size:41
Alignment explanation
Indices: 9668454--9668567 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
9668444 ATTTATATAT
* *
9668454 TTAATTGCATGATCATATATTTAATTGCATATTTTACATTA
1 TTAATTGCATGATTATATATTTAATTGCATGTTTTACATTA
* * *
9668495 TTAATTGCATGATTAGATATTTAATGGCATGTTTTACATTG
1 TTAATTGCATGATTATATATTTAATTGCATGTTTTACATTA
*
9668536 TTAATTGGATGATTATATATTTAATTGCATGT
1 TTAATTGCATGATTATATATTTAATTGCATGT
9668568 CTATTTGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (41 bp):
TTAATTGCATGATTATATATTTAATTGCATGTTTTACATTA
Found at i:9668637 original size:32 final size:32
Alignment explanation
Indices: 9668577--9668637 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
9668567 TCTATTTGCA
* **
9668577 TGATTATTAATTTATTTATTTATGTGATTTTT
1 TGATTATTAATATATTTATTTACATGATTTTT
*
9668609 TGATTATTAATATATTTATTTGCATGATT
1 TGATTATTAATATATTTATTTACATGATT
9668638 ATTATTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.61
Consensus pattern (32 bp):
TGATTATTAATATATTTATTTACATGATTTTT
Found at i:9668848 original size:20 final size:20
Alignment explanation
Indices: 9668795--9668850 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
9668785 ATGAATGGTT
* *
9668795 ATTAATATATTTGTATGATA
1 ATTAATATATTTGCATAATA
* *
9668815 TTTTATAT-TATTGCATAATA
1 ATTAATATAT-TTGCATAATA
9668835 ATTAATATATTTGCAT
1 ATTAATATATTTGCAT
9668851 GACATTCTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTAATATATTTGCATAATA
Found at i:9675733 original size:20 final size:18
Alignment explanation
Indices: 9675702--9675753 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
9675692 ATTTTTATTA
9675702 CATGAT-ATTTATTTTTG
1 CATGATAATTTATTTTTG
*
9675719 CATGACTAATATTATATTTG
1 CATGA-TAAT-TTATTTTTG
9675739 CATGATAATTTATTT
1 CATGATAATTTATTT
9675754 GCCTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 6 0.20
20 13 0.43
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.52
Consensus pattern (18 bp):
CATGATAATTTATTTTTG
Found at i:9675768 original size:31 final size:33
Alignment explanation
Indices: 9675724--9675786 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
9675714 TTTTGCATGA
* *
9675724 CTAATATTATATTTGCATGA-TAATTTATTTGC
1 CTAATATTATATTTACATGATTAATATATTTGC
*
9675756 CTAAT-TTTTATTTACATGATTAATATATTTG
1 CTAATATTATATTTACATGATTAATATATTTG
9675787 TGTGATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (33 bp):
CTAATATTATATTTACATGATTAATATATTTGC
Found at i:9675819 original size:20 final size:20
Alignment explanation
Indices: 9675774--9675866 Score: 123
Period size: 20 Copynumber: 4.6 Consensus size: 20
9675764 TATTTACATG
**
9675774 ATTAATATATTTGTGTGATTT
1 ATTAATATATTTGCATGA-TT
*
9675795 ATTAATATATTTGCATGACT
1 ATTAATATATTTGCATGATT
*
9675815 ATTAATATGTTTGCATGATT
1 ATTAATATATTTGCATGATT
9675835 ATTAATATATTTGCATGATT
1 ATTAATATATTTGCATGATT
* *
9675855 ATCAATTTATTT
1 ATTAATATATTT
9675867 ATTTGTGTGA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
20 48 0.75
21 16 0.25
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (20 bp):
ATTAATATATTTGCATGATT
Found at i:9675947 original size:53 final size:54
Alignment explanation
Indices: 9675889--9676204 Score: 207
Period size: 56 Copynumber: 5.7 Consensus size: 54
9675879 GCATGATTAT
* *
9675889 TATTATTATATATTTATTTACATTTTTATTTGCATGATTT-ATATTATTATTTG
1 TATTATTATATATTTAATTACATATTTATTTGCATGATTTAATATTATTATTTG
*
9675942 TATTATTATATATTTAATTACATATTTATTTACATGATTATTAATATTATTATTTG
1 TATTATTATATATTTAATTACATATTTATTTGCATGA-T-TTAATATTATTATTTG
* * * * * * *
9675998 CATGATTATATATTTAATTGCATGTCTAATTGCATGATTATTAAT-TGATTTATTTG
1 TATTATTATATATTTAATTACATATTTATTTGCATGA-T-TTAATATTA-TTATTTG
* * ** * * *
9676054 TGCGATTGCATGATTATATTTAATTGCATATTTATTTGTGTGGTTT-ATATTGTTAATTG
1 T---ATT--ATTA-TATATTTAATTACATATTTATTTGCATGATTTAATATTATTATTTG
* * * *
9676113 CATGATTATATATTTAATTGCA-AGTCTATTTGCATGATTATTAAT-TTATTTATTTG
1 TATTATTATATATTTAATTACATA-TTTATTTGCATGA-T-TTAATATTA-TTATTTG
* *
9676169 TATGATTGTATGA-TT-ATTA-ATATACTTATTTGCATG
1 TATTATTATAT-ATTTAATTACATAT--TTATTTGCATG
9676205 GTTATTTATT
Statistics
Matches: 207, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
52 1 0.00
53 57 0.28
54 7 0.03
55 12 0.06
56 89 0.43
57 1 0.00
59 10 0.05
60 3 0.01
61 4 0.02
62 23 0.11
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (54 bp):
TATTATTATATATTTAATTACATATTTATTTGCATGATTTAATATTATTATTTG
Found at i:9676018 original size:20 final size:20
Alignment explanation
Indices: 9675958--9676021 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
9675948 TATATATTTA
* *
9675958 ATTACATATTTATTTACATG
1 ATTATATATTTATTTGCATG
9675978 ATTATTAATATTATTATTTGCATG
1 ATTA-T-ATA-T-TTATTTGCATG
*
9676002 ATTATATATTTAATTGCATG
1 ATTATATATTTATTTGCATG
9676022 TCTAATTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 6 0.16
23 2 0.05
24 14 0.38
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (20 bp):
ATTATATATTTATTTGCATG
Found at i:9676204 original size:171 final size:171
Alignment explanation
Indices: 9675897--9676222 Score: 383
Period size: 171 Copynumber: 1.9 Consensus size: 171
9675887 ATTATTATTA
* * * * *
9675897 TATATTTATTTACATTTTTATTTGCATGATTTATATTATTATTTGTATTATTATATATTTAATTA
1 TATATTTAATTACATATTTATTTGCATGATTTATATTATTAATTGCATGATTATATATTTAATTA
* * *
9675962 CATATTTATTTACATGATTATTAATATTATTATTTGCATGATTATATATTTAATTGCATGTCTAA
66 CATATCTATTTACATGATTATTAATATTATTATTTGCATGATTATATATTTAATTGAATATCTAA
9676027 TTGCATGATTATTAATTGATTTATTTGTGCGATTGCATGAT
131 TTGCATGATTATTAATTGATTTATTTGTGCGATTGCATGAT
* ** * * *
9676068 TATATTTAATTGCATATTTATTTGTGTGGTTTATATTGTTAATTGCATGATTATATATTTAATTG
1 TATATTTAATTACATATTTATTTGCATGATTTATATTATTAATTGCATGATTATATATTTAATTA
* * *
9676133 CA-AGTCTATTTGCATGATTATTAAT-TTATTTATTTGTATGATTGTATGA-TT-ATT-AATATA
66 CATA-TCTATTTACATGATTATTAATATTA-TTATTTGCATGATTATAT-ATTTAATTGAATAT-
* * * *
9676193 CTTATTTGCATGGTTATTTATTTATTTATT
127 C-TAATTGCATGATTATTAATTGATTTATT
9676223 ATTATTGCAT
Statistics
Matches: 129, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
169 3 0.02
170 8 0.06
171 117 0.91
172 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (171 bp):
TATATTTAATTACATATTTATTTGCATGATTTATATTATTAATTGCATGATTATATATTTAATTA
CATATCTATTTACATGATTATTAATATTATTATTTGCATGATTATATATTTAATTGAATATCTAA
TTGCATGATTATTAATTGATTTATTTGTGCGATTGCATGAT
Found at i:9676306 original size:33 final size:32
Alignment explanation
Indices: 9676248--9676314 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
9676238 ATTTATATTA
* *
9676248 TTATTTGTATTATTATATATCTAATTGTATGT
1 TTATTTGTATGATTATATATCTAATTGCATGT
*
9676280 TTATTTGTATGATTTATATATTTAATTGCATGT
1 TTATTTGTATGA-TTATATATCTAATTGCATGT
9676313 TT
1 TT
9676315 TACATTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (32 bp):
TTATTTGTATGATTATATATCTAATTGCATGT
Found at i:9676316 original size:21 final size:21
Alignment explanation
Indices: 9676292--9676353 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
9676282 ATTTGTATGA
9676292 TTTATATATTTAATTGCATGT
1 TTTATATATTTAATTGCATGT
* *
9676313 TTTACAT-TGTTAATTGCAT-A
1 TTTATATAT-TTAATTGCATGT
*
9676333 ATTATATATTTAATTGCATGT
1 TTTATATATTTAATTGCATGT
9676354 CTATTTGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (21 bp):
TTTATATATTTAATTGCATGT
Found at i:9676347 original size:20 final size:19
Alignment explanation
Indices: 9676293--9676351 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
9676283 TTTGTATGAT
*
9676293 TTATATATTTAATTGCATG
1 TTATATATTTAATTGCATA
* *
9676312 TTTTACATTGTTAATTGCATAA
1 TTATATA-T-TTAATTGCAT-A
9676334 TTATATATTTAATTGCAT
1 TTATATATTTAATTGCAT
9676352 GTCTATTTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.16
20 11 0.34
21 11 0.34
22 5 0.16
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (19 bp):
TTATATATTTAATTGCATA
Found at i:9676398 original size:32 final size:32
Alignment explanation
Indices: 9676362--9676432 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
9676352 GTCTATTTGC
*
9676362 ATGATTATTAATTTATTTATTT-CTGTGATTAT
1 ATGATTATTAATATATTTATTTGC-GTGATTAT
9676394 ATGATTATTAATATATTTATTTGCGTGATTAT
1 ATGATTATTAATATATTTATTTGCGTGATTAT
9676426 -T-ATTATT
1 ATGATTATT
9676433 GCATGATATG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 6 0.16
31 1 0.03
32 29 0.78
33 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (32 bp):
ATGATTATTAATATATTTATTTGCGTGATTAT
Found at i:9676651 original size:20 final size:19
Alignment explanation
Indices: 9676585--9676653 Score: 81
Period size: 18 Copynumber: 3.7 Consensus size: 19
9676575 ATGGTTATTA
*
9676585 ATATATTTGCATAAT-ATT
1 ATATATTTGCATGATAATT
* *
9676603 ATATATTTACATGATAGTT
1 ATATATTTGCATGATAATT
9676622 AT-TA-TTGCATGATAATT
1 ATATATTTGCATGATAATT
9676639 AATATATTTGCATGA
1 -ATATATTTGCATGA
9676654 CATTCTTACA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
17 11 0.26
18 17 0.40
19 6 0.14
20 8 0.19
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (19 bp):
ATATATTTGCATGATAATT
Found at i:9677784 original size:21 final size:21
Alignment explanation
Indices: 9677768--9677808 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9677758 TTTTATATTG
* *
9677768 TTCCTTGTATATATTATGCTA
1 TTCCTTGTATACATTATACTA
9677789 TTCCTTGTATACATTA-ACTA
1 TTCCTTGTATACATTATACTA
9677809 ACCTTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (21 bp):
TTCCTTGTATACATTATACTA
Found at i:9679834 original size:8 final size:8
Alignment explanation
Indices: 9679817--9679853 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
9679807 TCCTCTTTAT
*
9679817 TGCATTCA
1 TGCATCCA
9679825 TGCATCCA
1 TGCATCCA
9679833 TGCATCCA
1 TGCATCCA
9679841 TGCATCCA
1 TGCATCCA
9679849 TGCAT
1 TGCAT
9679854 TCATATCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (8 bp):
TGCATCCA
Found at i:9685591 original size:30 final size:30
Alignment explanation
Indices: 9685557--9685649 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 30
9685547 AAGCTTATTT
9685557 TCAAAGAAAATTGATACTTTCAACTTTTTC
1 TCAAAGAAAATTGATACTTTCAACTTTTTC
* *
9685587 TCAAA-AATATT--T--TTTAGAAAACTTATTT-
1 TCAAAGAAAATTGATACTTT---CAACTT-TTTC
* *
9685615 TCAAGGAAAATTGATACTTTCAACTTTTCC
1 TCAAAGAAAATTGATACTTTCAACTTTTTC
9685645 TCAAA
1 TCAAA
9685650 AATTTACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 20
0.63 0.10 0.27
Matches are distributed among these distances:
25 3 0.07
27 1 0.02
28 9 0.20
29 15 0.33
30 14 0.30
31 1 0.02
33 3 0.07
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (30 bp):
TCAAAGAAAATTGATACTTTCAACTTTTTC
Found at i:9685628 original size:58 final size:58
Alignment explanation
Indices: 9685447--9685714 Score: 348
Period size: 58 Copynumber: 4.6 Consensus size: 58
9685437 TTGTGTAGGA
* * *
9685447 AAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTAG-AAACTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAC-TTATTTTCAAGG
* * * * *
9685504 AAAATTAATACTTTCAACTTTTCCTCAAAAACATTTTTTTGGAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAACTTATTTTCAAGG
*
9685563 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGG
*
9685621 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTACTTTT-GAAAACTTATTTTTAA-G
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATT--TTTTAGAAAACTTATTTTCAAGG
* *
9685678 AAATTTTGATACTTTTAACTTTTCCTCAAAAATATTT
1 AAA-ATTGATACTTTCAACTTTTCCTCAAAAATATTT
9685715 CAAAACATAT
Statistics
Matches: 186, Mismatches: 18, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
57 30 0.16
58 101 0.54
59 52 0.28
60 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGG
Found at i:9687838 original size:44 final size:44
Alignment explanation
Indices: 9687717--9688023 Score: 307
Period size: 44 Copynumber: 7.0 Consensus size: 44
9687707 AAATTGTGAT
* * * * *
9687717 CAAAGCTCCTCTAAGT-AGAGGCTTAATGACTTTAAGAAACATATA
1 CAAAGCTCCTCTAA-TCAGAGGCTCAACGACTTT-TGAAAAATAAA
* * * * * ** *
9687762 CAAAACTTCTCAAATCAGAGACTCAACAACTTTTGGGAATTAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
* * *
9687806 TAAGGCTCCTCTAATTAGAGGCTCAACGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
*
9687850 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGGAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
* **
9687894 CAAAGCTCTTCTAATCAGAGGCTCAATAACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
* *
9687938 CAAAGCTCTTCTAATTAGAGGCTCAACGA-TTTTGAAAAA-ATAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATA-AA
** * * * *
9687981 -ATGGCTCCTCTAATCAAAAGCTTAACGACTTTAGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
9688024 TTGCTTCTCT
Statistics
Matches: 215, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
42 22 0.10
43 23 0.11
44 146 0.68
45 24 0.11
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (44 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
Found at i:9687955 original size:132 final size:131
Alignment explanation
Indices: 9687717--9688023 Score: 361
Period size: 132 Copynumber: 2.3 Consensus size: 131
9687707 AAATTGTGAT
* * *
9687717 CAAAGCTCCTCTAAGT-AGAGGCTTAATGACTTTAAGAAACATATACAAAACTTCTCAAATCAGA
1 CAAAGCTCCTCTAA-TCAGAGGCTTAACGACTTTAGGAAA-ATAAACAAAACTTCTCAAATCAGA
** * * *
9687781 GACTCAACAACTTTTGGGAATTAAATAAGGCTCCTCTAATTAGAGGCTCAACGACTTTTG-AAAA
64 GACTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGCTCAACGA-TTTTGAAAAA
9687845 ATAAA
128 AT-AA
* * * *
9687850 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGGAAAATAAACAAAGC-TCTTCTAATCAGAG
1 CAAAGCTCCTCTAATCAGAGGCTTAACGACTTTAGGAAAATAAACAAAACTTC-TCAAATCAGAG
* * *
9687914 GCTCAATAACTTTTGAAAAATAAACAAAGCTCTTCTAATTAGAGGCTCAACGATTTTGAAAAAAT
65 ACTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGCTCAACGATTTTGAAAAAAT
9687979 AA
130 AA
** * * *
9687981 -ATGGCTCCTCTAATCAAAAGCTTAACGACTTTAGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAACGACTTTAGGAAAATAAA
9688024 TTGCTTCTCT
Statistics
Matches: 149, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
130 36 0.24
131 9 0.06
132 71 0.48
133 33 0.22
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (131 bp):
CAAAGCTCCTCTAATCAGAGGCTTAACGACTTTAGGAAAATAAACAAAACTTCTCAAATCAGAGA
CTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGCTCAACGATTTTGAAAAAATA
A
Found at i:9688702 original size:22 final size:21
Alignment explanation
Indices: 9688655--9688713 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
9688645 GGTTTCACTC
9688655 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
* **
9688677 CTCAAAGATTTTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
9688699 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
9688714 CAAAATATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:9689854 original size:7 final size:7
Alignment explanation
Indices: 9689844--9689923 Score: 56
Period size: 8 Copynumber: 10.7 Consensus size: 7
9689834 TCCTTTTCAT
9689844 TTTTTTC
1 TTTTTTC
9689851 TTTTTTC
1 TTTTTTC
*
9689858 ATTTTTC
1 TTTTTTC
9689865 ATTCTTTCTC
1 -TT-TTT-TC
9689875 TTTTTTC
1 TTTTTTC
9689882 ATTTTTT-
1 -TTTTTTC
**
9689889 TTTCAT-
1 TTTTTTC
9689895 TTTTTTC
1 TTTTTTC
9689902 ATTTTTTC
1 -TTTTTTC
9689910 ATTTTTCTC
1 -TTTTT-TC
9689919 TTTTT
1 TTTTT
9689924 GCCTTCCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
6 8 0.13
7 15 0.25
8 28 0.47
9 7 0.12
10 2 0.03
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:9689854 original size:8 final size:8
Alignment explanation
Indices: 9689837--9689923 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 8
9689827 TTGTCTCTCC
9689837 TTTTCATTT
1 TTTTC-TTT
9689846 TTTTC-TT
1 TTTTCTTT
*
9689853 TTTTC-AT
1 TTTTCTTT
9689860 TTTTCATTCT
1 TTTTC-TT-T
*
9689870 TTCTCTTT
1 TTTTCTTT
*
9689878 TTTCATTTTT
1 TTT--TCTTT
9689888 TTTTCATTT
1 TTTTC-TTT
*
9689897 TTTTCATT
1 TTTTCTTT
9689905 TTTTCATTT
1 TTTTC-TTT
*
9689914 TTCTCTTT
1 TTTTCTTT
9689922 TT
1 TT
9689924 GCCTTCCTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 13 0.21
8 16 0.26
9 21 0.34
10 12 0.19
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCTTT
Found at i:9689879 original size:17 final size:16
Alignment explanation
Indices: 9689837--9689923 Score: 77
Period size: 17 Copynumber: 5.2 Consensus size: 16
9689827 TTGTCTCTCC
*
9689837 TTTTCATTTTTTTCTT
1 TTTTCATTTTTCTCTT
9689853 TTTTCATTTTTCAT-TCT
1 TTTTCATTTTTC-TCT-T
* * *
9689870 TTCTCTTTTTTCATTTTT
1 TTTTCATTTTTC--TCTT
*
9689888 TTTTCATTTTTTTCATT
1 TTTTCATTTTTCTC-TT
9689905 TTTTCATTTTTCTCTT
1 TTTTCATTTTTCTCTT
9689921 TTT
1 TTT
9689924 GCCTTCCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
16 18 0.32
17 27 0.47
18 11 0.19
19 1 0.02
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCATTTTTCTCTT
Found at i:9689906 original size:28 final size:28
Alignment explanation
Indices: 9689859--9689915 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
9689849 TCTTTTTTCA
9689859 TTTTTCATTCTTTCTCTTTTTTCATTTT
1 TTTTTCATTCTTTCTCTTTTTTCATTTT
*
9689887 TTTTTCATT-TTTTTCATTTTTTCATTTT
1 TTTTTCATTCTTTCTC-TTTTTTCATTTT
9689915 T
1 T
9689916 CTCTTTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTCATTCTTTCTCTTTTTTCATTTT
Found at i:9693976 original size:19 final size:19
Alignment explanation
Indices: 9693952--9693995 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
9693942 AAAAGCTTAT
9693952 TTTCAAGAAAAATTGATAC
1 TTTCAAGAAAAATTGATAC
9693971 TTTCAAGAAAAATTGATAC
1 TTTCAAGAAAAATTGATAC
9693990 TTTCAA
1 TTTCAA
9693996 CTTTTTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (19 bp):
TTTCAAGAAAAATTGATAC
Found at i:9696988 original size:12 final size:12
Alignment explanation
Indices: 9696971--9697007 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
9696961 TAAAAAATTT
9696971 TATACATATATA
1 TATACATATATA
9696983 TATACATATATA
1 TATACATATATA
9696995 TATACATATATA
1 TATACATATATA
9697007 T
1 T
9697008 CGTGTATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (12 bp):
TATACATATATA
Found at i:9697422 original size:21 final size:20
Alignment explanation
Indices: 9697398--9697439 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
9697388 TCTAATTAAT
9697398 TTAAAATAAAATTTTATATTA
1 TTAAAATAAAATTTTAT-TTA
*
9697419 TTAAATTAAAATTTTATTTA
1 TTAAAATAAAATTTTATTTA
9697439 T
1 T
9697440 CAAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAAATAAAATTTTATTTA
Found at i:9697424 original size:20 final size:19
Alignment explanation
Indices: 9697401--9697445 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
9697391 AATTAATTTA
*
9697401 AAATAAAATTTTATATTATT
1 AAATAAAATTTTAT-TTATC
9697421 AAATTAAAATTTTATTTATC
1 AAA-TAAAATTTTATTTATC
9697441 AAATA
1 AAATA
9697446 TATATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 11 0.48
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAAAATTTTATTTATC
Found at i:9698199 original size:8 final size:7
Alignment explanation
Indices: 9698173--9698197 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9698163 CCAAAAAAAA
9698173 AAAATTG
1 AAAATTG
9698180 AAAATTG
1 AAAATTG
9698187 AAAATTG
1 AAAATTG
9698194 AAAA
1 AAAA
9698198 ATGGGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAATTG
Found at i:9703945 original size:16 final size:16
Alignment explanation
Indices: 9703926--9703973 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
9703916 TAATTCGAAA
9703926 TAATTTAAATTTAAAT
1 TAATTTAAATTTAAAT
*
9703942 TAATTTATATTTAAA-
1 TAATTTAAATTTAAAT
*
9703957 -AATTAACAATTTAAAT
1 TAATTTA-AATTTAAAT
9703973 T
1 T
9703974 TAAAATAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.19
15 7 0.27
16 14 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTAAATTTAAAT
Found at i:9705446 original size:6 final size:6
Alignment explanation
Indices: 9705432--9705465 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
9705422 AAAAAGTAGA
*
9705432 TTATCT TTATAT TTATCT TTATCT TTATCT TTAT
1 TTATCT TTATCT TTATCT TTATCT TTATCT TTAT
9705466 ATTTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATCT
Found at i:9705449 original size:12 final size:12
Alignment explanation
Indices: 9705432--9705469 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
9705422 AAAAAGTAGA
9705432 TTATCTTTATAT
1 TTATCTTTATAT
*
9705444 TTATCTTTATCT
1 TTATCTTTATAT
9705456 TTATCTTTATAT
1 TTATCTTTATAT
9705468 TT
1 TT
9705470 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATCTTTATAT
Found at i:9706584 original size:13 final size:13
Alignment explanation
Indices: 9706566--9706598 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9706556 TGCCAGTTGG
9706566 CCTAACATGATGA
1 CCTAACATGATGA
9706579 CCTAACATGATGA
1 CCTAACATGATGA
*
9706592 TCTAACA
1 CCTAACA
9706599 GTATTGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (13 bp):
CCTAACATGATGA
Found at i:9707899 original size:14 final size:14
Alignment explanation
Indices: 9707875--9707916 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9707865 AGGTGTTATA
9707875 TTTTGATTTTTTTTT
1 TTTTGA-TTTTTTTT
* *
9707890 TTTTGCTTTTTGTT
1 TTTTGATTTTTTTT
9707904 TTTTGATTTTTTT
1 TTTTGATTTTTTT
9707917 CTTTAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (14 bp):
TTTTGATTTTTTTT
Found at i:9707900 original size:22 final size:21
Alignment explanation
Indices: 9707875--9707920 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
9707865 AGGTGTTATA
9707875 TTTTGATTTTTT-TTTTTTTGCT
1 TTTTG-TTTTTTATTTTTTT-CT
9707897 TTTTGTTTTTTGATTTTTTTCT
1 TTTTGTTTTTT-ATTTTTTTCT
9707919 TT
1 TT
9707921 AAAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 9 0.41
23 7 0.32
ACGTcount: A:0.04, C:0.04, G:0.09, T:0.83
Consensus pattern (21 bp):
TTTTGTTTTTTATTTTTTTCT
Found at i:9709434 original size:30 final size:29
Alignment explanation
Indices: 9709360--9709470 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 29
9709350 ATACTCTTCA
* * ** *
9709360 ATTTTTAGGAATTTAGTTCAAATAGTATT
1 ATTTTTAAGAATTTAGTCCTTATAATATT
**
9709389 ATTTAAAAGAATTTAGTCCTTATAATATT
1 ATTTTTAAGAATTTAGTCCTTATAATATT
* * *
9709418 ATTTTTAAGAAATTTAGTCCCTATAGTTTT
1 ATTTTTAAG-AATTTAGTCCTTATAATATT
9709448 ATTTTTTAAGGAATTTAGTCCTT
1 A-TTTTTAA-GAATTTAGTCCTT
9709471 GTGTATTGTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
29 29 0.44
30 18 0.27
31 18 0.27
32 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (29 bp):
ATTTTTAAGAATTTAGTCCTTATAATATT
Found at i:9709454 original size:31 final size:30
Alignment explanation
Indices: 9709385--9709468 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
9709375 GTTCAAATAG
** *
9709385 TATTATTTAAAAG-AATTTAGTCCTTATAA
1 TATTATTTTTAAGAAATTTAGTCCCTATAA
*
9709414 TATTATTTTTAAGAAATTTAGTCCCTATAG
1 TATTATTTTTAAGAAATTTAGTCCCTATAA
* *
9709444 TTTTATTTTTTAAGGAATTTAGTCC
1 TATTA-TTTTTAAGAAATTTAGTCC
9709469 TTGTGTATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 11 0.23
30 18 0.38
31 18 0.38
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (30 bp):
TATTATTTTTAAGAAATTTAGTCCCTATAA
Found at i:9709534 original size:32 final size:31
Alignment explanation
Indices: 9709493--9709565 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 31
9709483 CAATTGAATT
*
9709493 TAAA-TCTTTAAAAAATAATACTATAAGGAC
1 TAAATTCTTTAAAAAATAATACTAGAAGGAC
*
9709523 TAAATTCCTTT---AAATAATACTAGAGGGAC
1 TAAATT-CTTTAAAAAATAATACTAGAAGGAC
9709552 TAAATTC-TTAAAAA
1 TAAATTCTTTAAAAA
9709566 TCGAAGAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 22 0.61
30 6 0.17
31 1 0.03
32 4 0.11
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (31 bp):
TAAATTCTTTAAAAAATAATACTAGAAGGAC
Found at i:9709566 original size:29 final size:30
Alignment explanation
Indices: 9709503--9709566 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
9709493 TAAATCTTTA
*
9709503 AAAAATAATACTATAAGGACTAAATTCCTT
1 AAAAATAATACTAGAAGGACTAAATTCCTT
* *
9709533 -TAAATAATACTAGAGGGACTAAATT-CTT
1 AAAAATAATACTAGAAGGACTAAATTCCTT
9709561 AAAAAT
1 AAAAAT
9709567 CGAAGAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (30 bp):
AAAAATAATACTAGAAGGACTAAATTCCTT
Found at i:9710424 original size:61 final size:60
Alignment explanation
Indices: 9710354--9710488 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 60
9710344 TAATTTATCG
** * *
9710354 AAATTATTATAATACCTT-T-TAACCATAATTACGAAAATA-CTTCTCATATTGTAATTGGCTA
1 AAATTATTATAATA--TTCTCTAA-CATAATTACGAAAATAGCCAC-CATATTATAATTGACTA
* *
9710415 AAATTATTATAATATTCTCTAACGTAATTATGAAAATAGCCACCATATTATAATTGACTA
1 AAATTATTATAATATTCTCTAACATAATTACGAAAATAGCCACCATATTATAATTGACTA
9710475 AAATTATTATAATA
1 AAATTATTATAATA
9710489 AATATAAACA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 2 0.03
60 44 0.68
61 19 0.29
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.39
Consensus pattern (60 bp):
AAATTATTATAATATTCTCTAACATAATTACGAAAATAGCCACCATATTATAATTGACTA
Found at i:9710511 original size:60 final size:60
Alignment explanation
Indices: 9710398--9710512 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
9710388 AAATACTTCT
* * * * * * * *
9710398 CATATTGTAATTGGCTAAAATTATTATAATATTCTCTAACGTAATTATGAAAATAGCCAC
1 CATATTATAATTGACTAAAATTATTATAATAATATCAAACATAATGATAAAAATAGCCAC
*
9710458 CATATTATAATTGACTAAAATTATTATAATAAATAT-AAACATAGTGATAAAAATA
1 CATATTATAATTGACTAAAATTATTATAAT-AATATCAAACATAATGATAAAAATA
9710513 CCTATTTAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
60 42 0.93
61 3 0.07
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (60 bp):
CATATTATAATTGACTAAAATTATTATAATAATATCAAACATAATGATAAAAATAGCCAC
Found at i:9714923 original size:26 final size:27
Alignment explanation
Indices: 9714868--9714929 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
9714858 CAATAATATT
*
9714868 AAAA-AATACGAAATACAAAAAATACCA
1 AAAATAATACAAAATACAAAAAATA-CA
9714895 AAAATAATACAAAATACAAAACAA-A-A
1 AAAATAATACAAAATACAAAA-AATACA
9714921 AAAATAATA
1 AAAATAATA
9714930 AATACCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 4 0.12
28 16 0.50
29 2 0.06
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (27 bp):
AAAATAATACAAAATACAAAAAATACA
Found at i:9714926 original size:23 final size:24
Alignment explanation
Indices: 9714893--9714948 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
9714883 CAAAAAATAC
*
9714893 CAAAAATAATACA-AAATA-CAAAA
1 CAAAAAAAATA-ATAAATACCAAAA
9714916 CAAAAAAAATAATAAATACCAAAA
1 CAAAAAAAATAATAAATACCAAAA
*
9714940 AAAAAAAAA
1 CAAAAAAAA
9714949 AAAAGAGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.03
23 15 0.52
24 13 0.45
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (24 bp):
CAAAAAAAATAATAAATACCAAAA
Found at i:9715222 original size:14 final size:13
Alignment explanation
Indices: 9715203--9715240 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
9715193 ATCAACCAAA
9715203 AAAAAAAGAAAACC
1 AAAAAAA-AAAACC
9715217 -AAAAAAAAAACC
1 AAAAAAAAAAACC
9715229 ATAAAAAAAAAA
1 A-AAAAAAAAAA
9715241 TCAATCAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 6 0.27
14 10 0.45
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAACC
Found at i:9715226 original size:12 final size:12
Alignment explanation
Indices: 9715204--9715239 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
9715194 TCAACCAAAA
9715204 AAAAAAGAAAACC
1 AAAAAA-AAAACC
9715217 AAAAAAAAAACC
1 AAAAAAAAAACC
9715229 ATAAAAAAAAA
1 A-AAAAAAAAA
9715240 ATCAATCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.83, C:0.11, G:0.03, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAACC
Found at i:9715865 original size:13 final size:13
Alignment explanation
Indices: 9715847--9715871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9715837 CGCTCCCAGA
9715847 CCGAACCGAACCG
1 CCGAACCGAACCG
9715860 CCGAACCGAACC
1 CCGAACCGAACC
9715872 ATCCAGCCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.48, G:0.20, T:0.00
Consensus pattern (13 bp):
CCGAACCGAACCG
Found at i:9715869 original size:18 final size:18
Alignment explanation
Indices: 9715846--9715884 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9715836 CCGCTCCCAG
9715846 ACCGAACCGAACC-GCCGA
1 ACCGAACC-AACCAGCCGA
*
9715864 ACCGAACCATCCAGCCGA
1 ACCGAACCAACCAGCCGA
9715882 ACC
1 ACC
9715885 ACCGTTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.33, C:0.46, G:0.18, T:0.03
Consensus pattern (18 bp):
ACCGAACCAACCAGCCGA
Found at i:9716346 original size:13 final size:13
Alignment explanation
Indices: 9716328--9716357 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9716318 GCGTTTTAAT
9716328 TAAACTTAAACCC
1 TAAACTTAAACCC
9716341 TAAACTTAAACCC
1 TAAACTTAAACCC
9716354 TAAA
1 TAAA
9716358 ATTTTACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAACTTAAACCC
Found at i:9717247 original size:23 final size:23
Alignment explanation
Indices: 9717194--9717239 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9717184 TTTTTGATAA
9717194 ACTTTAAACTCGTTTTTATAGTT
1 ACTTTAAACTCGTTTTTATAGTT
9717217 ACTTTAAACTCGTTTTTATAGTT
1 ACTTTAAACTCGTTTTTATAGTT
9717240 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.52
Consensus pattern (23 bp):
ACTTTAAACTCGTTTTTATAGTT
Found at i:9727723 original size:9 final size:9
Alignment explanation
Indices: 9727709--9727778 Score: 81
Period size: 9 Copynumber: 7.9 Consensus size: 9
9727699 TATTTTGCTT
9727709 AAAAAAATA
1 AAAAAAATA
9727718 AAAAAAATA
1 AAAAAAATA
9727727 AAAAAAA-A
1 AAAAAAATA
9727735 TAAAAAAATA
1 -AAAAAAATA
* *
9727745 ACAACAA-A
1 AAAAAAATA
*
9727753 AATAAAATA
1 AAAAAAATA
*
9727762 ACAAAAATA
1 AAAAAAATA
9727771 AAAAAAAT
1 AAAAAAAT
9727779 GAAATGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 6 0.12
9 43 0.86
10 1 0.02
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATA
Found at i:9727734 original size:14 final size:14
Alignment explanation
Indices: 9727711--9727794 Score: 71
Period size: 14 Copynumber: 5.7 Consensus size: 14
9727701 TTTTGCTTAA
9727711 AAAAATAAAAAAAAT
1 AAAAA-AAAAAAAAT
9727726 AAAAAAAAATAAAA-
1 AAAAAAAAA-AAAAT
*
9727740 AAATAACAACAAAAAT
1 AAA-AA-AAAAAAAAT
* *
9727756 AAAATAACAAAAAT
1 AAAAAAAAAAAAAT
**
9727770 AAAAAAAATGAAAT
1 AAAAAAAAAAAAAT
9727784 GAAAAAAAAAA
1 -AAAAAAAAAA
9727795 TGAGAAAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
14 26 0.46
15 24 0.43
16 6 0.11
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:9728836 original size:35 final size:35
Alignment explanation
Indices: 9728797--9728975 Score: 112
Period size: 35 Copynumber: 5.0 Consensus size: 35
9728787 TTATATAATT
* *
9728797 TTTTGACTTACGGTTTAGTCCCAATCATCTTTACC
1 TTTTGACTTGCGGTTTAGTCCCAATCATCTTTAAC
* * * * * * *
9728832 TTTTGGCTCGTGGTTTAATCCCGATCATTTCATTAAT
1 TTTTGACTTGCGGTTTAGTCCCAATCA--TCTTTAAC
*
9728869 TTCTTGACTTGCGATTTAGTCCCAATCATCTTTAA-
1 TT-TTGACTTGCGGTTTAGTCCCAATCATCTTTAAC
* * ** *
9728904 TCTTTGACTCGCGGTTTAATCCCGGTCAT-TTCATTA-
1 T-TTTGACTTGCGGTTTAGTCCCAATCATCTT--TAAC
* *
9728940 TTTCCTGACTTGCAGTTTAGTCCCAGTCATCTTTAA
1 TTT--TGACTTGCGGTTTAGTCCCAATCATCTTTAA
9728976 TCCTTGACTC
Statistics
Matches: 108, Mismatches: 27, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
34 2 0.02
35 45 0.42
36 12 0.11
37 28 0.26
38 21 0.19
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (35 bp):
TTTTGACTTGCGGTTTAGTCCCAATCATCTTTAAC
Found at i:9728958 original size:37 final size:35
Alignment explanation
Indices: 9728844--9728969 Score: 87
Period size: 37 Copynumber: 3.5 Consensus size: 35
9728834 TTGGCTCGTG
*
9728844 GTTTAATCCCGATCATTTCATTAATTTCTTGACTTGC
1 GTTTAATCCCAATCATTTCATT-ATTTC-TGACTTGC
* * *
9728881 GATTTAGTCCCAATCATCTT--TAATCTT-TGACTCGC
1 G-TTTAATCCCAATCAT-TTCATTAT-TTCTGACTTGC
**
9728916 GGTTTAATCCCGGTCATTTCATTATTTCCTGACTTGC
1 -GTTTAATCCCAATCATTTCATTATTT-CTGACTTGC
* *
9728953 AGTTTAGTCCCAGTCAT
1 -GTTTAATCCCAATCAT
9728970 CTTTAATCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
34 2 0.03
35 21 0.30
36 6 0.09
37 25 0.36
38 13 0.19
39 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (35 bp):
GTTTAATCCCAATCATTTCATTATTTCTGACTTGC
Found at i:9729003 original size:34 final size:34
Alignment explanation
Indices: 9728871--9729558 Score: 155
Period size: 34 Copynumber: 19.5 Consensus size: 34
9728861 TCATTAATTT
* * *
9728871 CTTGACTTGCGATTTAGTCCCAATCATCTTTAATC
1 CTTGACTCGCGGTTTA-TCCCAGTCATCTTTAATC
* * * *
9728906 TTTGACTCGCGGTTTAATCCCGGTCATTTCATTATTTC
1 CTTGACTCGCGGTTT-ATCCCAGTCA--TCTTTA-ATC
* *
9728944 C-TGACTTGCAGTTTAGTCCCAGTCATCTTTAATC
1 CTTGACTCGCGGTTTA-TCCCAGTCATCTTTAATC
* * *
9728978 CTTGACTCGTGGTTTATCCCAGTCATTTCATTAATTT
1 CTTGACTCGCGGTTTATCCCAGTCA--TCTTTAA-TC
** *
9729015 CTTGAACTTACGGTTTAACCCCAGTCATCTTTAATC
1 CTTG-ACTCGCGGTTT-ATCCCAGTCATCTTTAATC
* * * *
9729051 CTTGACTCGTGGTTTAATTCCCGGTTCATTTTATTAATT
1 CTTGACTCGCGGTTT-A-TCCCAG-TCA-TCT-TTAATC
** * * *
9729090 CTCTGACTTACGGTTCAAT-CCAATTATCTTTAATC
1 CT-TGACTCGCGGTT-TATCCCAGTCATCTTTAATC
* * *
9729125 TTTGACTCGTGGTTTAATCCC-GATCATTTCATTAAT-
1 CTTGACTCGCGGTTT-ATCCCAG-TCA--TCTTTAATC
* *
9729161 -TTCTACTTGCGGTTTAGTCCCAGTCATCTTTAATC
1 CTT-GACTCGCGGTTTA-TCCCAGTCATCTTTAATC
* * * *
9729196 TTTGACTCGTGGTTTAATCCC-GATCATTTCATTAATTT
1 CTTGACTCGCGGTTT-ATCCCAG-TCA--TCTTTAA-TC
* ** *
9729234 TTTGA-TTACGGTTCAAT-CCAGTCATCTTTAATC
1 CTTGACTCGCGGTT-TATCCCAGTCATCTTTAATC
* * * * *
9729267 TTTGACTCGTGGTTTAATCTCA-TCA--TTTCATT
1 CTTGACTCGCGGTTT-ATCCCAGTCATCTTTAATC
* *
9729299 CTCTGACTTGCGGTTCAAT-CC-GTCATCTTTAAT-
1 CT-TGACTCGCGGTT-TATCCCAGTCATCTTTAATC
* ** *
9729332 CTTTACTCATGGTTTAATCCC-GATCATTTCATTAAT-
1 CTTGACTCGCGGTTT-ATCCCAG-TCA--TCTTTAATC
* * *
9729368 -TT-ACTTGCAGTTCAAT-CCAGTCATCTTTAATC
1 CTTGACTCGCGGTT-TATCCCAGTCATCTTTAATC
* * * * *
9729400 TTTAACTCGTGGTTTAATCCC-GTCATTTCATTAATT
1 CTTGACTCGCGGTTT-ATCCCAGTCA--TCTTTAATC
* * * *
9729436 CTCTGACTTGCGGTTCAATTCCAGTAATCATTTAATC
1 CT-TGACTCGCGGTT-TATCCCAGTCATC-TTTAATC
* * * *
9729473 TTTGACTCGTGGTTTAATCCGA-TCATTTCATTAATTTC
1 CTTGACTCGCGGTTT-ATCCCAGTCA--TCTTTAA--TC
*
9729511 C-T-ACTTGCGGTTTAGTCCCAGTCAT-TTTAATC
1 CTTGACTCGCGGTTTA-TCCCAGTCATCTTTAATC
* *
9729543 TTTGACTCGTGGTTTA
1 CTTGACTCGCGGTTTA
9729559 ATCCGATTAT
Statistics
Matches: 465, Mismatches: 119, Indels: 139
0.64 0.16 0.19
Matches are distributed among these distances:
31 7 0.02
32 22 0.05
33 31 0.07
34 91 0.20
35 84 0.18
36 91 0.20
37 87 0.19
38 25 0.05
39 17 0.04
40 10 0.02
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (34 bp):
CTTGACTCGCGGTTTATCCCAGTCATCTTTAATC
Found at i:9729049 original size:37 final size:35
Alignment explanation
Indices: 9728961--9729058 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 35
9728951 GCAGTTTAGT
** *
9728961 CCCAGTCATCTTTAA-TCCTTGACTCGTGGTTTAT
1 CCCAGTCATCTTTAATTCCTTGACTCACGGTTTAC
* * *
9728995 CCCAGTCATTTCATTAATTTCTTGAACTTACGGTTTAAC
1 CCCAGTCA--TCTTTAATTCCTTG-ACTCACGGTTT-AC
9729034 CCCAGTCATCTTTAA-TCCTTGACTC
1 CCCAGTCATCTTTAATTCCTTGACTC
9729059 GTGGTTTAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
34 8 0.16
35 3 0.06
36 11 0.22
37 11 0.22
38 8 0.16
39 9 0.18
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (35 bp):
CCCAGTCATCTTTAATTCCTTGACTCACGGTTTAC
Found at i:9729065 original size:145 final size:143
Alignment explanation
Indices: 9728800--9729636 Score: 933
Period size: 145 Copynumber: 5.9 Consensus size: 143
9728790 TATAATTTTT
* * * * *
9728800 TGACTTACGGTTTAGTCCCAATCATCTTT-ACCTTTTGGCTCGTGGTTTAATCCCGATCATTTCA
1 TGACTTACGGTTCAAT-CCAGTCATCTTTAATC-TTTGACTCGTGGTTTAATCCCG-TCATTTCA
* * * * * *
9728864 TTAATTTCTTGACTTGCGATTTAGTCCCAATCATCTTTAATCTTTGACTCGCGGTTTAATCCCGG
63 TTAATTTCTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
9728929 TCATTTCATTATTTCC
128 TCATTTCATTATTTCC
* * * * *
9728945 TGACTTGCAGTTTAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTT-ATCCCAGTCATTTCAT
1 TGACTTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC-GTCATTTCAT
* * * *
9729009 TAATTTCTTGAACTTACGGTTTAACCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATTCCCG
64 TAATTTCTTG-ACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA-TCCC-
* * *
9729074 GTTCATTTTATTAATTCTC
126 GATCATTTCATTATTTC-C
* *
9729093 TGACTTACGGTTCAATCCAATTATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
1 TGACTTACGGTTCAATCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCG-TCATTTCATT
* *
9729158 AATTTC-T-ACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
65 AATTTCTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
**
9729221 ATTTCATTAATTTTT
130 ATTTCATT-ATTTCC
* *
9729236 TGA-TTACGGTTCAATCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTCATCATTTCA-T-
1 TGACTTACGGTTCAATCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGTCATTTCATTA
* *
9729298 -TCTC-TGACTTGCGGTTCAAT-CC-GTCATCTTTAATCTTT-ACTCATGGTTTAATCCCGATCA
66 ATTTCTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
*
9729358 TTTCATTAATT--
131 TTTCATTATTTCC
* * *
9729369 T-ACTTGCAGTTCAATCCAGTCATCTTTAATCTTTAACTCGTGGTTTAATCCCGTCATTTCATTA
1 TGACTTACGGTTCAATCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGTCATTTCATTA
* *
9729433 A-TTCTCTGACTTGCGGTTCAATTCCAGTAATCATTTAATCTTTGACTCGTGGTTTAAT-CCGAT
66 ATTTCT-TGACTTGCGGTTCAATCCCAGTCATC-TTTAATCTTTGACTCGTGGTTTAATCCCGAT
9729496 CATTTCATTAATTTCC
129 CATTTCATT-ATTTCC
* * * *
9729512 T-ACTTGCGGTTTAGTCCCAGTCAT-TTTAATCTTTGACTCGTGGTTTAAT-CCGATTATTTCAT
1 TGACTTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCG-TCATTTCAT
* * * * *
9729574 TAATTTCCTCGATTTACGGTTCAATCCCAGTCAT-TGTTAATATTTGATTCGTGGTTTAATCCC
64 TAATTT-CTTGACTTGCGGTTCAATCCCAGTCATCT-TTAATCTTTGACTCGTGGTTTAATCCC
9729637 AATCTTCTTA
Statistics
Matches: 601, Mismatches: 62, Indels: 59
0.83 0.09 0.08
Matches are distributed among these distances:
132 1 0.00
133 54 0.09
134 1 0.00
135 5 0.01
136 28 0.05
137 32 0.05
138 8 0.01
139 17 0.03
140 25 0.04
141 24 0.04
142 50 0.08
143 82 0.14
144 63 0.10
145 127 0.21
146 6 0.01
147 44 0.07
148 34 0.06
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.43
Consensus pattern (143 bp):
TGACTTACGGTTCAATCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGTCATTTCATTA
ATTTCTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
TTTCATTATTTCC
Found at i:9729202 original size:71 final size:72
Alignment explanation
Indices: 9728800--9729636 Score: 968
Period size: 73 Copynumber: 11.8 Consensus size: 72
9728790 TATAATTTTT
* * * * * *
9728800 TGACTTACGGTTTAGTCCCAATCATCTTT-ACCTTTTGGCTCGTGGTTTAATCCCGATCATTTCA
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATC-TTTGACTCGTGGTTTAATCCCGATCATTTCA
9728864 TTAATTTC
65 TTAATTTC
* * * * * *
9728872 TTGACTTGCGATTTAGTCCCAATCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCA
1 -TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
9728937 TT-ATTTCC
65 TTAATTT-C
* * * *
9728945 TGACTTGCAGTTTAGTCCCAGTCATCTTTAATCCTTGACTCGTGGTTT-ATCCC-AGTCATTTCA
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTTCA
9729008 TTAATTTC
65 TTAATTTC
* * * * *
9729016 TTGAACTTACGGTTTAACCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATTCCCGGTTCATT
1 -TG-ACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA-TCCC-GATCATT
*
9729081 TTATTAATTCTC
62 TCATTAATT-TC
* * *
9729093 TGACTTACGGTTCAAT-CCAATTATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
9729157 TAATTTC
66 TAATTTC
* *
9729164 T-ACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
9729228 TAATTTTT
66 TAA-TTTC
* *
9729236 TGA-TTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTC-ATCATTTCA-
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
9729297 T--TCTC
66 TAATTTC
*
9729302 TGACTTGCGGTTCAAT-CC-GTCATCTTTAATCTTT-ACTCATGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
9729364 TAA-TT-
66 TAATTTC
* *
9729369 T-ACTTGCAGTTCAAT-CCAGTCATCTTTAATCTTTAACTCGTGGTTTAATCCCG-TCATTTCAT
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
9729431 TAATTCTC
66 TAATT-TC
* *
9729439 TGACTTGCGGTTCAATTCCAGTAATCATTTAATCTTTGACTCGTGGTTTAAT-CCGATCATTTCA
1 TGACTTGCGGTTCAATCCCAGTCATC-TTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
9729503 TTAATTTCC
65 TTAATTT-C
* * *
9729512 T-ACTTGCGGTTTAGTCCCAGTCAT-TTTAATCTTTGACTCGTGGTTTAAT-CCGATTATTTCAT
1 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
9729574 TAATTTCC
66 TAATTT-C
* * * *
9729582 TCGATTTACGGTTCAATCCCAGTCAT-TGTTAATATTTGATTCGTGGTTTAATCCC
1 T-GACTTGCGGTTCAATCCCAGTCATCT-TTAATCTTTGACTCGTGGTTTAATCCC
9729637 AATCTTCTTA
Statistics
Matches: 674, Mismatches: 57, Indels: 65
0.85 0.07 0.08
Matches are distributed among these distances:
65 15 0.02
66 45 0.07
67 43 0.06
68 19 0.03
69 2 0.00
70 67 0.10
71 117 0.17
72 131 0.19
73 167 0.25
74 35 0.05
75 16 0.02
76 15 0.02
77 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.43
Consensus pattern (72 bp):
TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
TAATTTC
Found at i:9729271 original size:33 final size:33
Alignment explanation
Indices: 9729101--9729492 Score: 165
Period size: 34 Copynumber: 11.3 Consensus size: 33
9729091 TCTGACTTAC
* *
9729101 GGTTCAATCCAATTATCTTTAATCTTTGACTCG
1 GGTTCAATCCAGTCATCTTTAATCTTTGACTCG
* * * *
9729134 TGGTTTAATCCCGATCATTTCATTAAT-TTCT-ACTTG
1 -GGTTCAATCCAG-TCA--TCTTTAATCTT-TGACTCG
* *
9729170 CGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCG
1 -GGTTCAAT-CCAGTCATCTTTAATCTTTGACTCG
* * * * *
9729205 TGGTTTAATCCCGATCATTTCATTAATTTTTTGATTAC-
1 -GGTTCAATCCAG-TCA--TCTTTAA-TCTTTGACT-CG
9729243 GGTTCAATCCAGTCATCTTTAATCTTTGACTCG
1 GGTTCAATCCAGTCATCTTTAATCTTTGACTCG
* * * * *
9729276 TGGTTTAATCTCA-TCAT-TTCATTCTCTGACTTG
1 -GGTTCAATC-CAGTCATCTTTAATCTTTGACTCG
*
9729309 CGGTTCAATCC-GTCATCTTTAATCTTT-ACTCAT
1 -GGTTCAATCCAGTCATCTTTAATCTTTGACTC-G
* * * *
9729342 GGTTTAATCCCGATCATTTCATTAA--TTT-ACTTG
1 GGTTCAATCCAG-TCA--TCTTTAATCTTTGACTCG
* *
9729375 CAGTTCAATCCAGTCATCTTTAATCTTTAACTCG
1 -GGTTCAATCCAGTCATCTTTAATCTTTGACTCG
* * * * *
9729409 TGGTTTAATCCCGTCATTTCATTAATTCTCTGACTTG
1 -GGTTCAATCCAGTCA--TCTTTAA-TCTTTGACTCG
*
9729446 CGGTTCAATTCCAGTAATCATTTAATCTTTGACTCG
1 -GGTTCAA-TCCAGTCATC-TTTAATCTTTGACTCG
*
9729482 TGGTTTAATCC
1 -GGTTCAATCC
9729493 GATCATTTCA
Statistics
Matches: 267, Mismatches: 60, Indels: 61
0.69 0.15 0.16
Matches are distributed among these distances:
31 6 0.02
32 18 0.07
33 41 0.15
34 72 0.27
35 23 0.09
36 48 0.18
37 45 0.17
38 13 0.05
39 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (33 bp):
GGTTCAATCCAGTCATCTTTAATCTTTGACTCG
Found at i:9730089 original size:12 final size:11
Alignment explanation
Indices: 9730071--9730129 Score: 54
Period size: 10 Copynumber: 5.5 Consensus size: 11
9730061 ACAAAATACG
9730071 AAATACAAAAA
1 AAATACAAAAA
9730082 ATAATACAAAATA
1 A-AATACAAAA-A
9730095 CAAA-AC-AAAA
1 -AAATACAAAAA
9730105 AAAT-CAAAAA
1 AAATACAAAAA
*
9730115 ATATA-AAAAA
1 AAATACAAAAA
9730125 AAATA
1 AAATA
9730130 AAAGACAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
9 4 0.10
10 17 0.43
11 4 0.10
12 11 0.28
13 3 0.08
14 1 0.03
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:9730107 original size:26 final size:26
Alignment explanation
Indices: 9730055--9730107 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9730045 TAAAAACAAT
* * * *
9730055 AATATTACAAAATACGAAATACAAAA
1 AATAATACAAAATACAAAACAAAAAA
9730081 AATAATACAAAATACAAAACAAAAAA
1 AATAATACAAAATACAAAACAAAAAA
9730107 A
1 A
9730108 TCAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (26 bp):
AATAATACAAAATACAAAACAAAAAA
Found at i:9733168 original size:3 final size:3
Alignment explanation
Indices: 9733155--9733186 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9733145 GTTTAATCGT
*
9733155 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9733187 TGTTGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9733845 original size:198 final size:196
Alignment explanation
Indices: 9733487--9733853 Score: 512
Period size: 198 Copynumber: 1.9 Consensus size: 196
9733477 CAAATTTTTA
9733487 TTTGAAAAATAATACAATTACTTATATTGAAACCTTATCTAAATTATTCCACCATTTGGGACAAA
1 TTTGAAAAATAATACAATTACTTATATTGAAACCTTATCTAAATTATTCCACCATTTGGGACAAA
* * *
9733552 TTTAAATAAAATTTTCACCTAGAGATTTCTTAGGAATTTATCATTTGAAATTTCTATGAATCTCA
66 TTTAAATAAAATTTTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTCTATAAATCTCA
* **
9733617 TCCTTGGATAATTTGTATTTAATTCCAAAATTTATTTTTATTTTTTTATTTTTTATTATTTTTTG
131 TCATTGGATAATTAATATTTAATTCCAAAATTTATTTTTATTTTTTTATTTTTTATTATTTTTTG
9733682 G
196 G
* *
9733683 TTTGAAAAATAA-ACATTAATTAC-TATTATTGAAACTTTATCT-AATTATTCTACCATTTGGGA
1 TTTGAAAAATAATAC---AATTACTTA-TATTGAAACCTTATCTAAATTATTCCACCATTTGGGA
* *
9733745 CAAATTTAGATAAACTTTCTCACCTA-AGAATTT-TATAGAAATTTACCATTTGAAATTTCTATA
62 CAAATTTAAATAAAATTT-TCACCTAGAG-ATTTCT-TAGAAATTTACCATTTGAAATTTCTATA
* *
9733808 AATTTCATCATTGGATAATTAATCTTT-ATTCCCAAAATTTATTTTT
124 AATCTCATCATTGGATAATTAATATTTAATT-CCAAAATTTATTTTT
9733854 TAAATTAAAT
Statistics
Matches: 151, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
195 2 0.01
196 12 0.08
197 43 0.28
198 94 0.62
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (196 bp):
TTTGAAAAATAATACAATTACTTATATTGAAACCTTATCTAAATTATTCCACCATTTGGGACAAA
TTTAAATAAAATTTTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTCTATAAATCTCA
TCATTGGATAATTAATATTTAATTCCAAAATTTATTTTTATTTTTTTATTTTTTATTATTTTTTG
G
Found at i:9734651 original size:12 final size:13
Alignment explanation
Indices: 9734634--9734667 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9734624 TTATTTCTCC
9734634 AAATAATAATT-A
1 AAATAATAATTCA
*
9734646 AAATAAAAATTCA
1 AAATAATAATTCA
9734659 AAATAATAA
1 AAATAATAA
9734668 AATAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAATAATTCA
Found at i:9735407 original size:14 final size:17
Alignment explanation
Indices: 9735374--9735413 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
9735364 ATGATTCTTG
9735374 GATTTGAAAATAAAAGT
1 GATTTGAAAATAAAAGT
9735391 GATTT-AAAA-AAAA-T
1 GATTTGAAAATAAAAGT
9735405 GATATTGAA
1 GAT-TTGAA
9735414 GGAAGAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 6 0.29
16 6 0.29
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (17 bp):
GATTTGAAAATAAAAGT
Found at i:9736827 original size:73 final size:73
Alignment explanation
Indices: 9736677--9737208 Score: 646
Period size: 73 Copynumber: 7.3 Consensus size: 73
9736667 NNNNNNNNNN
* * * * * *
9736677 TTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT-ATTTCCTGACTTGCAGTTTAGTCC
1 TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCTTGACTTACGGTTCAATCC
9736741 CAGTCATC
66 CAGTCATC
* * * *
9736749 TTTAATCCTTGACTCGTGGTTTAATCCCAGTCATTTCATTAATTTCTTGACTTACGGTTTAACCC
1 TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCTTGACTTACGGTTCAATCC
9736814 CAGTCATC
66 CAGTCATC
* *
9736822 TTTAATCCTTGACTCGTGGTTTAATCCCGGTCATTTTATTAA-TTCTCTGACTTACGGTTCAATC
1 TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCT-TGACTTACGGTTCAATC
* *
9736886 CCAATTATC
65 CCAGTCATC
* * * * * *
9736895 TTTAATCTTTAACTCGCGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGGTTTAGTCC
1 TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCTTGACTTACGGTTCAATCC
9736960 CAGTCATC
66 CAGTCATC
** * **
9736968 TTTAAT-TCTTGACTCGTGGTTTAATCTTGGTCATTTCATTAATCTCTTGACTTAAAGTTCAATC
1 TTTAATCT-TTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCTTGACTTACGGTTCAATC
9737032 CCAGTCATC
65 CCAGTCATC
* *
9737041 TTTAATCTTTGACTCGTGATTTAATCCCGGTCATTTCA-T--TCTC-TGACTTACGGTTCAATCC
1 TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCTTGACTTACGGTTCAATCC
*
9737102 CAGTCATT
66 CAGTCATC
* * * * * * *
9737110 TTTAATCTTTGGCTCGTGGTTTAATTCTGATCATTTCATTAATTTTTTTGATTTACGGTTCAGTC
1 TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAA-TTTCTTGACTTACGGTTCAATC
9737175 CCAGTCATC
65 CCAGTCATC
* * *
9737184 GTTAATATTTGATTCGTGGTTTAAT
1 TTTAATCTTTGACTCGTGGTTTAAT
9737209 TTCGATCTTC
Statistics
Matches: 395, Mismatches: 55, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
69 56 0.14
70 5 0.01
72 43 0.11
73 242 0.61
74 49 0.12
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (73 bp):
TTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTTCTTGACTTACGGTTCAATCC
CAGTCATC
Found at i:9737055 original size:219 final size:215
Alignment explanation
Indices: 9736677--9737208 Score: 735
Period size: 219 Copynumber: 2.5 Consensus size: 215
9736667 NNNNNNNNNN
* * *
9736677 TTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT-ATTTCCTGACTTGCAGTTTAGTCC
1 TTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGGTTTAGTCC
* * **
9736741 CAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCAGTCATTTCATTAATTTCTTGACTTACGG
66 CAGTCATCTTTAATTCTTGACTCGTGGTTTAATCCCAGTCATTTCATTAATCTCTTGACTTAAAG
* *
9736806 TTTAACCCCAGTCATCTTTAATCCTTGACTCGTGGTTTAATCCCGGTCATTTTATTAATTCTCTG
131 TTCAACCCCAGTCATCTTTAATCCTTGACTCGTGATTTAATCCCGGTCA---T-TTAATTCTCTG
*
9736871 ACTTACGGTTCAATCCCAATTATC
192 ACTTACGGTTCAATCCCAATCATC
*
9736895 TTTAATCTTTAACTCGCGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGGTTTAGTCC
1 TTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGGTTTAGTCC
***
9736960 CAGTCATCTTTAATTCTTGACTCGTGGTTTAATCTTGGTCATTTCATTAATCTCTTGACTTAAAG
66 CAGTCATCTTTAATTCTTGACTCGTGGTTTAATCCCAGTCATTTCATTAATCTCTTGACTTAAAG
* * *
9737025 TTCAATCCCAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGGTCATTTCATTCTCTGACTT
131 TTCAACCCCAGTCATCTTTAATCCTTGACTCGTGATTTAATCCCGGTCATTTAATTCTCTGACTT
* *
9737090 ACGGTTCAATCCCAGTCATT
196 ACGGTTCAATCCCAATCATC
* * * * * * * *
9737110 TTTAATCTTTGGCTCGTGGTTTAATTCTGATCATTTCATTAATTTTTTTGATTTACGGTTCAGTC
1 TTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAA-TTTCTTGACTTGCGGTTTAGTC
* *
9737175 CCAGTCATCGTTAATAT-TTGATTCGTGGTTTAAT
65 CCAGTCATCTTTAAT-TCTTGACTCGTGGTTTAAT
9737209 TTCGATCTTC
Statistics
Matches: 281, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
215 68 0.24
216 49 0.17
217 1 0.00
218 38 0.14
219 125 0.44
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (215 bp):
TTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGGTTTAGTCC
CAGTCATCTTTAATTCTTGACTCGTGGTTTAATCCCAGTCATTTCATTAATCTCTTGACTTAAAG
TTCAACCCCAGTCATCTTTAATCCTTGACTCGTGATTTAATCCCGGTCATTTAATTCTCTGACTT
ACGGTTCAATCCCAATCATC
Found at i:9737696 original size:22 final size:22
Alignment explanation
Indices: 9737664--9737715 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
9737654 CAAAAAATAC
9737664 CAAAAATAATACA-AAATACAAAA
1 CAAAAA-AATA-ATAAATACAAAA
*
9737687 CAAAAAAATAATAAATACTAAA
1 CAAAAAAATAATAAATACAAAA
9737709 -AAAAAAA
1 CAAAAAAA
9737716 GAGAACAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
22 13 0.48
23 6 0.22
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (22 bp):
CAAAAAAATAATAAATACAAAA
Found at i:9737711 original size:25 final size:24
Alignment explanation
Indices: 9737665--9737715 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
9737655 AAAAAATACC
*
9737665 AAAAATAATACAAAATACAAAACAA
1 AAAAATAATACAAAATA-AAAAAAA
*
9737690 AAAAATAATA-AATACTAAAAAAAA
1 AAAAATAATACAA-AATAAAAAAAA
9737714 AA
1 AA
9737716 GAGAACAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (24 bp):
AAAAATAATACAAAATAAAAAAAA
Found at i:9739990 original size:22 final size:21
Alignment explanation
Indices: 9739964--9740016 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
9739954 GAAAATTATC
9739964 TTTTTGATA-AACTTTAAACTCG
1 TTTTT-ATAGAACTTT-AACTCG
*
9739986 TTTTTATAGTTACTTTAACTCG
1 TTTTTATAG-AACTTTAACTCG
9740008 TTTTTATAG
1 TTTTTATAG
9740017 TTTTATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.11
22 20 0.71
23 5 0.18
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTTTATAGAACTTTAACTCG
Found at i:9740017 original size:22 final size:23
Alignment explanation
Indices: 9739974--9740018 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
9739964 TTTTTGATAA
9739974 ACTTTAAACTCGTTTTTATAGTT
1 ACTTTAAACTCGTTTTTATAGTT
9739997 ACTTT-AACTCGTTTTTATAGTT
1 ACTTTAAACTCGTTTTTATAGTT
9740019 TTATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
ACTTTAAACTCGTTTTTATAGTT
Found at i:9746425 original size:24 final size:25
Alignment explanation
Indices: 9746392--9746453 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
9746382 ATATATTTAA
9746392 TTTTAAAATAT-AT-TTAAAATAATT
1 TTTTAAAATATAATATT-AAATAATT
*
9746416 TTTTATAATATAATATTAAATAATT
1 TTTTAAAATATAATATTAAATAATT
*
9746441 TATTAACAATATA
1 TTTTAA-AATATA
9746454 TAACATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 10 0.31
25 14 0.44
26 8 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTAAAATATAATATTAAATAATT
Found at i:9746452 original size:21 final size:23
Alignment explanation
Indices: 9746427--9746477 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
9746417 TTTATAATAT
*
9746427 AATAT-TAA-ATAATTTATTAAC
1 AATATATAACATAATATATTAAC
* *
9746448 AATATATAACATTATATATTAAT
1 AATATATAACATAATATATTAAC
9746471 AATATAT
1 AATATAT
9746478 CAAATATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.20
22 3 0.12
23 17 0.68
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATATAACATAATATATTAAC
Found at i:9746627 original size:73 final size:73
Alignment explanation
Indices: 9746508--9746652 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
9746498 TACATAATAA
*
9746508 TTTTTAATATTGCTCGTAGAATTTAAATTCCATGAACCATGTATAAGAAACAAATTCTGTATTTT
1 TTTTTAATATTGCTCGTAGAATTTAAATTCCATGAACCATGTATAAGAAACAAATTCTATATTTT
9746573 TATTGGTG
66 TATTGGTG
9746581 TTTTTAATATTGCTCGTAGAATTTAAATTCCATGAACCATGTATAAGAAACAAATTCTATATTTT
1 TTTTTAATATTGCTCGTAGAATTTAAATTCCATGAACCATGTATAAGAAACAAATTCTATATTTT
9746646 TATTGGT
66 TATTGGT
9746653 TTTGTAAATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (73 bp):
TTTTTAATATTGCTCGTAGAATTTAAATTCCATGAACCATGTATAAGAAACAAATTCTATATTTT
TATTGGTG
Found at i:9749351 original size:82 final size:81
Alignment explanation
Indices: 9749203--9749354 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 81
9749193 TTTAAAAAAG
* ** * * *
9749203 ATTATTTAAGGTGTTTTTTATTTAAAAACGCCTTAAATAATCTCTTTTAAAATATGTGAGGGGAT
1 ATTATTTAAGGTGTTTTTTATCTAAAAAAACCTTAAATAATCTATTTTAAAATATATGAGGAGAT
9749268 TATTTGAGGTGAATGA
66 TATTTGAGGTGAATGA
* * * *
9749284 ATTATTTAAGACGT-TTTTTTGTCTAAAAAAACCTTAAATAATCTATTTTAACATGTATTAGGAG
1 ATTATTTAAG--GTGTTTTTTATCTAAAAAAACCTTAAATAATCTATTTTAAAATATATGAGGAG
9749348 ATTATTT
64 ATTATTT
9749355 AAGGCTAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 10 0.17
82 47 0.80
83 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (81 bp):
ATTATTTAAGGTGTTTTTTATCTAAAAAAACCTTAAATAATCTATTTTAAAATATATGAGGAGAT
TATTTGAGGTGAATGA
Found at i:9749925 original size:24 final size:25
Alignment explanation
Indices: 9749894--9749944 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
9749884 TAATGGCTTA
9749894 TTTTTTGAG-GATTATTTATAAG-AT
1 TTTTTTGAGAGATTATTTA-AAGCAT
9749918 TTTTTTGAGAGATTATTTAAAGCAT
1 TTTTTTGAGAGATTATTTAAAGCAT
9749943 TT
1 TT
9749945 CTGGTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (25 bp):
TTTTTTGAGAGATTATTTAAAGCAT
Found at i:9751780 original size:20 final size:20
Alignment explanation
Indices: 9751744--9751781 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9751734 CAAATATTGG
*
9751744 ATTTTATAAGATCAAAAAAC
1 ATTTTATAAGAACAAAAAAC
9751764 ATTTTAT-AGAACGAAAAA
1 ATTTTATAAGAAC-AAAAA
9751782 GCCAAAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (20 bp):
ATTTTATAAGAACAAAAAAC
Found at i:9753628 original size:16 final size:17
Alignment explanation
Indices: 9753594--9753629 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9753584 TTGTTTTTTA
*
9753594 AAAAATGAAATTTTAAT
1 AAAAATGAAATATTAAT
9753611 AAAAATGAAATATT-AT
1 AAAAATGAAATATTAAT
9753627 AAA
1 AAA
9753630 TTAATTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
AAAAATGAAATATTAAT
Found at i:9761010 original size:24 final size:25
Alignment explanation
Indices: 9760979--9761028 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
9760969 TAATGGCTTA
9760979 TTTTTGAG-GATTATTTATAAG-ATT
1 TTTTTGAGAGATTATTTA-AAGCATT
9761003 TTTTTGAGAGATTATTTAAAGCATT
1 TTTTTGAGAGATTATTTAAAGCATT
9761028 T
1 T
9761029 CTGGTTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (25 bp):
TTTTTGAGAGATTATTTAAAGCATT
Found at i:9764719 original size:16 final size:16
Alignment explanation
Indices: 9764679--9764720 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
9764669 CCATTTTGTT
*
9764679 TATTAAAAAAATGAAA
1 TATTATAAAAATGAAA
*
9764695 TTTTAATAAAAATGAAA
1 TATT-ATAAAAATGAAA
9764712 TATTATAAA
1 TATTATAAA
9764721 TTAATTCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TATTATAAAAATGAAA
Found at i:9770403 original size:2 final size:2
Alignment explanation
Indices: 9770384--9770442 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
9770374 TCATTATGAT
* *
9770384 AG AG AA AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9770426 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
9770443 TAAGCCATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9771092 original size:19 final size:19
Alignment explanation
Indices: 9771047--9771085 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9771037 ATAGAATTTG
*
9771047 ACACACGTTTGGGCAATTA
1 ACACACATTTGGGCAATTA
9771066 ACACACATTTGGGCAATTA
1 ACACACATTTGGGCAATTA
9771085 A
1 A
9771086 TGTACATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (19 bp):
ACACACATTTGGGCAATTA
Found at i:9771997 original size:22 final size:22
Alignment explanation
Indices: 9771911--9771998 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 22
9771901 GAGAGAAATA
* *
9771911 TATAT-ATATGTACATAGTATT
1 TATATGATATGTACATAATACT
* * * *
9771932 TATAGGATTTATACATAATGCT
1 TATATGATATGTACATAATACT
* *
9771954 TATA-GAATTTGTATA-AAGTACT
1 TATATG-ATATGTACATAA-TACT
9771976 TATATGATATGTACATAATACT
1 TATATGATATGTACATAATACT
9771998 T
1 T
9771999 TTGAGTTGTG
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
21 7 0.14
22 41 0.80
23 3 0.06
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
TATATGATATGTACATAATACT
Found at i:9772245 original size:22 final size:22
Alignment explanation
Indices: 9772219--9772273 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
9772209 TTACTTTTAT
*
9772219 GATATGTATATAGTGCTTATAGA
1 GATATGTATATAATGCTT-TAGA
*
9772242 -ATATGTATATAATGCTTTGGA
1 GATATGTATATAATGCTTTAGA
9772263 GATATGTATAT
1 GATATGTATAT
9772274 TGTATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.42
Consensus pattern (22 bp):
GATATGTATATAATGCTTTAGA
Found at i:9772494 original size:42 final size:43
Alignment explanation
Indices: 9772446--9772551 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 43
9772436 ATGTGCATAT
9772446 TACTTATAAGATATATACATATAGCTTATAGGACA-TATATAG
1 TACTTATAAGATATATACATATAGCTTATAGGACAGTATATAG
* * * * * *
9772488 TACTTATATA-ATATGTACTTATTGTTTTTAGGATATGTATATAG
1 TACTTATA-AGATATATACATATAGCTTATAGGACA-GTATATAG
* *
9772532 TAATTATAGGATATATACAT
1 TACTTATAAGATATATACAT
9772552 CTAAATATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.54
43 1 0.02
44 22 0.44
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (43 bp):
TACTTATAAGATATATACATATAGCTTATAGGACAGTATATAG
Found at i:9773967 original size:144 final size:138
Alignment explanation
Indices: 9773728--9773994 Score: 299
Period size: 144 Copynumber: 1.9 Consensus size: 138
9773718 ACACTTTGAA
*
9773728 AGGTGTGAAATTACCAAAATGCCTTTAAAGGTAATTTCGTAATTTGACCATCTCGAGGTCGATTT
1 AGGTGTGAAATTACCAAAATGCCTTTAAAGGTAATTTCGTAATTTGACCATCTCAAGGTCGATTT
* * *
9773793 TTCACAAAACTTTCTAGATCATATTTTTATAATATT-TGATATTTTTGGTGTTTTCAAAATCACA
66 TTCACAAAACTTTCAACATCATATTATTAT-AT-TTATGA-A-TTTTGGTGTTTT-AAAATCACA
9773857 ATAGTAACCCGAG
126 ATAGTAACCCGAG
* ** * * * *
9773870 AGGTGTGAAATTACCAAAATATGTCTTTAGGGGTATTTTCGTAATTTGATC-TTTCAAGGTGGA-
1 AGGTGTGAAATTACC-AAA-ATGCCTTTAAAGGTAATTTCGTAATTTGACCATCTCAAGGTCGAT
*
9773933 TTTTCACGAAAATTTTCAAACATCA-ATCTATTATATTTCATGAATTTTGGTGTTTTAAAATC
64 TTTTCAC-AAAACTTTC-AACATCATAT-TATTATATTT-ATGAATTTTGGTGTTTTAAAATC
9773995 TCAAAAAATG
Statistics
Matches: 106, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
141 6 0.06
142 36 0.34
143 25 0.24
144 39 0.37
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (138 bp):
AGGTGTGAAATTACCAAAATGCCTTTAAAGGTAATTTCGTAATTTGACCATCTCAAGGTCGATTT
TTCACAAAACTTTCAACATCATATTATTATATTTATGAATTTTGGTGTTTTAAAATCACAATAGT
AACCCGAG
Found at i:9775994 original size:10 final size:10
Alignment explanation
Indices: 9775981--9776012 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
9775971 GTTTTTGTTT
9775981 GAAAAAAAAA
1 GAAAAAAAAA
9775991 GAAAAAAAAA
1 GAAAAAAAAA
*
9776001 TAAAAAAAAA
1 GAAAAAAAAA
9776011 GA
1 GA
9776013 GTTTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:9776036 original size:63 final size:60
Alignment explanation
Indices: 9775944--9776060 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 60
9775934 AAAAAAAGGT
* * *
9775944 AAAAAAGTTTTGTTTTAAATTTGATTTGTTTTTGTTTGAAAAAAAAAGAAAAAAAAATAAAA
1 AAAAAAGTTTTGTTTTAAATTGGAATTG-TTTTGTTTCAAAAAAAAA-AAAAAAAAATAAAA
*
9776006 AAAAAGAGTTTTGTTTTAAATTGGAATTGTTTTGTTTCAAAAAAGAAAAAAAAAA
1 AAAAA-AGTTTTGTTTTAAATTGGAATTGTTTTGTTTCAAAAAAAAAAAAAAAAA
9776061 GTGAAAATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 8 0.16
62 21 0.42
63 21 0.42
ACGTcount: A:0.50, C:0.01, G:0.13, T:0.36
Consensus pattern (60 bp):
AAAAAAGTTTTGTTTTAAATTGGAATTGTTTTGTTTCAAAAAAAAAAAAAAAAAATAAAA
Found at i:9776072 original size:20 final size:20
Alignment explanation
Indices: 9776044--9776081 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9776034 GTTTTGTTTC
9776044 AAAAAAGAAAAAAAAAAGTG
1 AAAAAAGAAAAAAAAAAGTG
*
9776064 AAAATAGAAAAAAAAAAG
1 AAAAAAGAAAAAAAAAAG
9776082 GGAATTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAAGTG
Found at i:9776708 original size:23 final size:24
Alignment explanation
Indices: 9776678--9776722 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9776668 CCTTGTTTAA
9776678 AAAAAAATCAAA-AACAAAAAAAT
1 AAAAAAATCAAATAACAAAAAAAT
*
9776701 AAAAAAATCAAATAAGAAAAAA
1 AAAAAAATCAAATAACAAAAAA
9776723 TTCAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (24 bp):
AAAAAAATCAAATAACAAAAAAAT
Found at i:9787790 original size:47 final size:46
Alignment explanation
Indices: 9787716--9787852 Score: 157
Period size: 47 Copynumber: 3.0 Consensus size: 46
9787706 AAATCAAATC
* * * *
9787716 ATTTTTTCCTAACATATTTTTTTAAGTTTAATGCCTATTTCATAGG
1 ATTTTTTCCAAACAAATTTTTTAAAGTTTGATGCCTATTTCATAGG
* *
9787762 AGTTTTTTCCAAACAAAATTTTTAAAGTTTGATACCTATTTCATAGG
1 A-TTTTTTCCAAACAAATTTTTTAAAGTTTGATGCCTATTTCATAGG
*** * * *
9787809 AACCTTTCCAAACGAATTTTTTAGAGTTTGATGTCTATTTCATA
1 ATTTTTTCCAAACAAATTTTTTAAAGTTTGATGCCTATTTCATA
9787853 AAAACCTTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 36 0.47
47 40 0.53
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (46 bp):
ATTTTTTCCAAACAAATTTTTTAAAGTTTGATGCCTATTTCATAGG
Found at i:9787818 original size:46 final size:46
Alignment explanation
Indices: 9787733--9787864 Score: 147
Period size: 46 Copynumber: 2.8 Consensus size: 46
9787723 CCTAACATAT
* * ***
9787733 TTTTTTAAGTTTAATGCCTATTTCATAGGAGTTTTTTCCAAACAAAA
1 TTTTTAAAGTTTGATGCCTATTTCATAGGA-ACCTTTCCAAACAAAA
* * *
9787780 TTTTTAAAGTTTGATACCTATTTCATAGGAACCTTTCCAAACGAAT
1 TTTTTAAAGTTTGATGCCTATTTCATAGGAACCTTTCCAAACAAAA
* * **
9787826 TTTTTAGAGTTTGATGTCTATTTCATAAAAACCTTTCCA
1 TTTTTAAAGTTTGATGCCTATTTCATAGGAACCTTTCCA
9787865 GACAGATTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 45 0.62
47 27 0.38
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (46 bp):
TTTTTAAAGTTTGATGCCTATTTCATAGGAACCTTTCCAAACAAAA
Found at i:9787874 original size:46 final size:46
Alignment explanation
Indices: 9787767--9787880 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
9787757 ATAGGAGTTT
* * **
9787767 TTTCCAAACAAAATTTTTAAAGTTTGATACCTATTTCATAGGAACC
1 TTTCCAAACGAATTTTTTAAAGTTTGATACCTATTTCATAAAAACC
* **
9787813 TTTCCAAACGAATTTTTTAGAGTTTGATGTCTATTTCATAAAAACC
1 TTTCCAAACGAATTTTTTAAAGTTTGATACCTATTTCATAAAAACC
* *
9787859 TTTCCAGACAGATTTTTTTAAA
1 TTTCCAAAC-GAATTTTTTAAA
9787881 ATTCATTGTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 47 0.82
47 10 0.18
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (46 bp):
TTTCCAAACGAATTTTTTAAAGTTTGATACCTATTTCATAAAAACC
Found at i:9788456 original size:19 final size:19
Alignment explanation
Indices: 9788434--9788471 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9788424 TCAAACTTGG
9788434 TCAACAAAGCCAAAATTAC
1 TCAACAAAGCCAAAATTAC
* *
9788453 TCAATAAAGTCAAAATTAC
1 TCAACAAAGCCAAAATTAC
9788472 ATAAAACTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (19 bp):
TCAACAAAGCCAAAATTAC
Found at i:9788487 original size:21 final size:21
Alignment explanation
Indices: 9788461--9788505 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
9788451 ACTCAATAAA
9788461 GTCAAAATTACATAAAA-CTTG
1 GTCAAAATT-CATAAAACCTTG
*
9788482 GTCAAAATTGATAAAACCTTG
1 GTCAAAATTCATAAAACCTTG
9788503 GTC
1 GTC
9788506 GATTCTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (21 bp):
GTCAAAATTCATAAAACCTTG
Found at i:9790602 original size:13 final size:13
Alignment explanation
Indices: 9790584--9790642 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
9790574 CACCAAATTT
9790584 CCTAAACCAAAAC
1 CCTAAACCAAAAC
9790597 CCTAAACCCTAAAA-
1 CCTAAA-CC-AAAAC
* *
9790611 CCTAACCCTAAAC
1 CCTAAACCAAAAC
*
9790624 CCTAAAACC-TAAC
1 CCT-AAACCAAAAC
9790637 CCTAAA
1 CCTAAA
9790643 TCATTAACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
12 6 0.16
13 17 0.45
14 11 0.29
15 4 0.11
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (13 bp):
CCTAAACCAAAAC
Found at i:9790605 original size:7 final size:7
Alignment explanation
Indices: 9790584--9790672 Score: 78
Period size: 7 Copynumber: 13.3 Consensus size: 7
9790574 CACCAAATTT
9790584 CCTAAA-
1 CCTAAAC
*
9790590 CCAAAAC
1 CCTAAAC
9790597 CCTAAAC
1 CCTAAAC
*
9790604 CCTAAAA
1 CCTAAAC
9790611 CCT-AAC
1 CCTAAAC
9790617 CCTAAAC
1 CCTAAAC
*
9790624 CCTAAAA
1 CCTAAAC
9790631 CCT-AAC
1 CCTAAAC
*
9790637 CCTAAAT
1 CCTAAAC
* *
9790644 CATTAAC
1 CCTAAAC
9790651 CCT-AAC
1 CCTAAAC
*
9790657 CTTAAAC
1 CCTAAAC
*
9790664 CTTAAAC
1 CCTAAAC
9790671 CC
1 CC
9790673 CTAATCTAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
6 20 0.30
7 46 0.70
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:9790609 original size:20 final size:20
Alignment explanation
Indices: 9790594--9790642 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
9790584 CCTAAACCAA
9790594 AACCCTAAACCCTAAAACCT
1 AACCCTAAACCCTAAAACCT
9790614 AACCCTAAACCCTAAAACCT
1 AACCCTAAACCCTAAAACCT
9790634 AACCCTAAA
1 AACCCTAAA
9790643 TCATTAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (20 bp):
AACCCTAAACCCTAAAACCT
Found at i:9790654 original size:20 final size:20
Alignment explanation
Indices: 9790594--9790669 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
9790584 CCTAAACCAA
*
9790594 AACCCTAAACCCTAAAACCT
1 AACCCTAAACCATAAAACCT
*
9790614 AACCCTAAACCCTAAAACCT
1 AACCCTAAACCATAAAACCT
* * *
9790634 AACCCTAAATCATTAACCCT
1 AACCCTAAACCATAAAACCT
* *
9790654 AACCTTAAACCTTAAA
1 AACCCTAAACCATAAA
9790670 CCCCTAATCT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCTAAACCATAAAACCT
Found at i:9790759 original size:22 final size:22
Alignment explanation
Indices: 9790717--9790759 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9790707 ATTTGCATTT
* *
9790717 CATTTTATATTGTTATGACATG
1 CATTTTATATTATCATGACATG
9790739 CATTTTCATATTATCAT-ACAT
1 CATTTT-ATATTATCATGACAT
9790760 TTACACTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (22 bp):
CATTTTATATTATCATGACATG
Found at i:9796649 original size:19 final size:18
Alignment explanation
Indices: 9796601--9796660 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
9796591 AACATTCAAG
*
9796601 AATATT-TAT-ATTTTAA
1 AATATTATATAATATTAA
*
9796617 TAATAATATATAATATTAA
1 -AATATTATATAATATTAA
9796636 AATATTATATTAATA-TAGA
1 AATATTATA-TAATATTA-A
9796655 AATATT
1 AATATT
9796661 TAAAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.14
18 13 0.36
19 18 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATTATATAATATTAA
Found at i:9797277 original size:24 final size:23
Alignment explanation
Indices: 9797237--9797284 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
9797227 ACTTGAGTAT
9797237 AAATATAAAAATATTTAATATTA
1 AAATATAAAAATATTTAATATTA
9797260 AAATATTAAAAACT-TTTAATATTA
1 AAATA-TAAAAA-TATTTAATATTA
9797284 A
1 A
9797285 TATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 17 0.74
25 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATAAAAATATTTAATATTA
Found at i:9797650 original size:8 final size:8
Alignment explanation
Indices: 9797637--9797665 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9797627 TGTCTAGCAA
9797637 TGTGGCAG
1 TGTGGCAG
9797645 TGTGGCAG
1 TGTGGCAG
9797653 TGTGGCAG
1 TGTGGCAG
9797661 TGTGG
1 TGTGG
9797666 TGGGGGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.52, T:0.28
Consensus pattern (8 bp):
TGTGGCAG
Found at i:9797925 original size:8 final size:7
Alignment explanation
Indices: 9797912--9797944 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
9797902 AATTAATTAG
*
9797912 TTTTTCC
1 TTTTTTC
9797919 TTTTTTC
1 TTTTTTC
9797926 TTTTTTC
1 TTTTTTC
9797933 TTTTTT-
1 TTTTTTC
9797939 TTTTTT
1 TTTTTT
9797945 ACATTTGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:9798119 original size:15 final size:16
Alignment explanation
Indices: 9798099--9798128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9798089 ATACTTACTT
9798099 ATTTTA-ACAAATATA
1 ATTTTAGACAAATATA
9798114 ATTTTAGACAAATAT
1 ATTTTAGACAAATAT
9798129 TATTAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTTTAGACAAATATA
Done.