Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 280 of 356
Found at i:91345397 original size:50 final size:50
Alignment explanation
Indices: 91345312--91345408 Score: 116
Period size: 50 Copynumber: 2.0 Consensus size: 50
91345302 CTTTTATATA
* *
91345312 TTATTTGAAA-TTGTCTTATA-TA-TT-TTTT-ATTTTTTTATATATTAT
1 TTATTTTAAACTTGTTTTATATTATTTATTTTAATTTTTTTATATATTAT
*
91345357 TTATTTTAAACTT-TTTGTATATTATTTACTTTAATTTTTTTATATATTAT
1 TTATTTTAAACTTGTTT-TATATTATTTATTTTAATTTTTTTATATATTAT
91345407 TT
1 TT
91345409 TGTTTCATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
45 11 0.26
46 6 0.14
47 2 0.05
48 2 0.05
49 3 0.07
50 19 0.44
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (50 bp):
TTATTTTAAACTTGTTTTATATTATTTATTTTAATTTTTTTATATATTAT
Found at i:91345418 original size:25 final size:24
Alignment explanation
Indices: 91345200--91345421 Score: 102
Period size: 25 Copynumber: 9.1 Consensus size: 24
91345190 CCATTTTAAA
* *
91345200 TTTTATATATTATTTATTTTAAACTG
1 TTTTATATATTATTT-TTTT-AATTT
* * *
91345226 TTATATGTATTATTTATTTTTAAATTG
1 TTTTATATATTA-TT-TTTTT-AATTT
*
91345253 TTTTGTATATTATTTATTTTAAATTT
1 TTTTATATATTATTT-TTTT-AATTT
* * **
91345279 ATTTT-TACATAATTTATTTTAA-AC
1 -TTTTATATATTATTT-TTTTAATTT
* *
91345303 TTTTATATATTA---TTTGAAATT
1 TTTTATATATTATTTTTTTAATTT
* *
91345324 GTCT-TATA-TA-TTTTTT-ATTT
1 TTTTATATATTATTTTTTTAATTT
**
91345344 TTTTATATATTATTTATTTTAAACT
1 TTTTATATATTATTT-TTTTAATTT
* *
91345369 TTTTGTATATTATTTACTTTAATTT
1 TTTTATATATTATTT-TTTTAATTT
*
91345394 TTTTATATATTATTTTGTTTCATTT
1 TTTTATATATTATTTT-TTTAATTT
91345419 TTT
1 TTT
91345422 GTGATTATTA
Statistics
Matches: 151, Mismatches: 31, Indels: 29
0.72 0.15 0.14
Matches are distributed among these distances:
19 2 0.01
20 14 0.09
21 9 0.06
22 2 0.01
23 6 0.04
24 9 0.06
25 50 0.33
26 34 0.23
27 24 0.16
28 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTATATATTATTTTTTTAATTT
Found at i:91346874 original size:10 final size:11
Alignment explanation
Indices: 91346849--91346881 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
91346839 AAAAGGATAT
91346849 AAATAAATGGTA
1 AAATAAAT-GTA
91346861 AAATAAAT-TA
1 AAATAAATGTA
91346871 AAATAAATGTA
1 AAATAAATGTA
91346882 TGTGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 2 0.10
12 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (11 bp):
AAATAAATGTA
Found at i:91347353 original size:3 final size:3
Alignment explanation
Indices: 91347345--91347386 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
91347335 AAAAGAAAAT
* *
91347345 ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91347387 GGTTTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:91347469 original size:18 final size:18
Alignment explanation
Indices: 91347441--91347483 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
91347431 CAAAAAAGAG
*
91347441 TGATAAATAAACGAATAGA
1 TGAT-AATAAAAGAATAGA
*
91347460 TGATAATAAAATAATAGA
1 TGATAATAAAAGAATAGA
*
91347478 TAATAA
1 TGATAA
91347484 GGTAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (18 bp):
TGATAATAAAAGAATAGA
Found at i:91352987 original size:38 final size:39
Alignment explanation
Indices: 91352885--91352987 Score: 95
Period size: 38 Copynumber: 2.6 Consensus size: 39
91352875 GACCTCGAGT
* **
91352885 CGATGAGACACTAGGTGTCACTATTTTACTTTGGATAGATT
1 CGATGAGACACTAGGTGTCA--ACTTTACTTTGGATAGAGC
** * *
91352926 CGATGAGGTACT-GG-GTACCACTTTACTTTGGCTAG-GC
1 CGATGAGACACTAGGTGT-CAACTTTACTTTGGATAGAGC
91352963 CGATGAGACACTAGGTGTCAACTTT
1 CGATGAGACACTAGGTGTCAACTTT
91352988 GCTTCGAACT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
37 10 0.20
38 22 0.45
39 4 0.08
40 3 0.06
41 10 0.20
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTAGGTGTCAACTTTACTTTGGATAGAGC
Found at i:91358398 original size:19 final size:18
Alignment explanation
Indices: 91358366--91358417 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 18
91358356 AATCAGTTAA
91358366 AATTTATAAT-AATAAAAAT
1 AATTT-TAATAAAT-AAAAT
91358385 AATTTTAATAAATAAAAT
1 AATTTTAATAAATAAAAT
91358403 -ATTTT--TAAATAAAAT
1 AATTTTAATAAATAAAAT
91358418 GAAGAGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 10 0.31
17 5 0.16
18 9 0.28
19 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTTAATAAATAAAAT
Found at i:91361602 original size:19 final size:19
Alignment explanation
Indices: 91361565--91361622 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
91361555 CTTACAAATC
91361565 ATAAAATTTATAAAGAAAAAA
1 ATAAAATTTAT--AGAAAAAA
**
91361586 ATAAAATTTATAGAAAATC
1 ATAAAATTTATAGAAAAAA
* *
91361605 ATAAAAATTATACAAAAA
1 ATAAAATTTATAGAAAAA
91361623 TTATTAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 21 0.66
21 11 0.34
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
ATAAAATTTATAGAAAAAA
Found at i:91361856 original size:20 final size:20
Alignment explanation
Indices: 91361810--91361868 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
91361800 TTAGATAAAT
*
91361810 TATGAAAAA-AATTTAAAAA
1 TATGAAAAACTATTTAAAAA
91361829 -ATGAAAAACTATTTAAAAA
1 TATGAAAAACTATTTAAAAA
*
91361848 TAT-AGAAAATTA-TTAAAAA
1 TATGA-AAAACTATTTAAAAA
91361867 TA
1 TA
91361869 ATTTAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.23
19 19 0.54
20 8 0.23
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
TATGAAAAACTATTTAAAAA
Found at i:91361873 original size:30 final size:30
Alignment explanation
Indices: 91361839--91361896 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
91361829 ATGAAAAACT
91361839 ATTTAAAAA-TATAGAAAATTATTAAAAATA
1 ATTTAAAAATTA-AGAAAATTATTAAAAATA
* *
91361869 ATTTAAATATTAATAAAATTATTAAAAA
1 ATTTAAAAATTAAGAAAATTATTAAAAA
91361897 GTTTAAGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
ATTTAAAAATTAAGAAAATTATTAAAAATA
Found at i:91362208 original size:9 final size:9
Alignment explanation
Indices: 91362196--91362238 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
91362186 CAAAAAAATT
91362196 AAAAATTAC
1 AAAAATTAC
*
91362205 AAAAATTAT
1 AAAAATTAC
* *
91362214 AAAAAGATAA
1 AAAAA-TTAC
91362224 AAAAATTAC
1 AAAAATTAC
91362233 AAAAAT
1 AAAAAT
91362239 CATTATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAAATTAC
Found at i:91362253 original size:28 final size:28
Alignment explanation
Indices: 91362196--91362284 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
91362186 CAAAAAAATT
*
91362196 AAAAATTACAAAAATTATAAAAAGATAA
1 AAAAATTACAAAAATCATAAAAAGATAA
* * *
91362224 AAAAATTACAAAAATCATTATAA-AT-G
1 AAAAATTACAAAAATCATAAAAAGATAA
* *
91362250 AAAATTTATAAAAATCATTTAAAAAG-TAA
1 AAAAATTACAAAAATCA--TAAAAAGATAA
91362279 AAAAAT
1 AAAAAT
91362285 AAAAATTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
26 15 0.32
27 2 0.04
28 25 0.53
29 5 0.11
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.26
Consensus pattern (28 bp):
AAAAATTACAAAAATCATAAAAAGATAA
Found at i:91362262 original size:26 final size:25
Alignment explanation
Indices: 91362224--91362272 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
91362214 AAAAAGATAA
91362224 AAAAATTACAAAAATCATTATAAATG
1 AAAAATTACAAAAATCATT-TAAATG
* *
91362250 AAAATTTATAAAAATCATTTAAA
1 AAAAATTACAAAAATCATTTAAA
91362273 AAGTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAATTACAAAAATCATTTAAATG
Found at i:91362311 original size:21 final size:21
Alignment explanation
Indices: 91362285--91362340 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
91362275 GTAAAAAAAT
*
91362285 AAAAATTAT-ATAATTATGAA
1 AAAAATTATAAAAATTATGAA
*
91362305 GAAAAATTGTAAAAATTATG-A
1 -AAAAATTATAAAAATTATGAA
*
91362326 AAAAATTTTAAAAAT
1 AAAAATTATAAAAAT
91362341 AAAAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.45
21 9 0.29
22 8 0.26
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATTATAAAAATTATGAA
Found at i:91362331 original size:20 final size:22
Alignment explanation
Indices: 91362296--91362340 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
91362286 AAAATTATAT
91362296 AATTATGAAGAAAAATTGTAAA
1 AATTATGAAGAAAAATTGTAAA
*
91362318 AATTATG-A-AAAAATTTTAAA
1 AATTATGAAGAAAAATTGTAAA
91362338 AAT
1 AAT
91362341 AAAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 1 0.05
22 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (22 bp):
AATTATGAAGAAAAATTGTAAA
Found at i:91362361 original size:14 final size:15
Alignment explanation
Indices: 91362326--91362359 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
91362316 AAAATTATGA
*
91362326 AAAAATTTTAAAAAT
1 AAAAATATTAAAAAT
*
91362341 AAAAATATTAAAAAG
1 AAAAATATTAAAAAT
91362356 AAAA
1 AAAA
91362360 TAAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAAATATTAAAAAT
Found at i:91362981 original size:19 final size:19
Alignment explanation
Indices: 91362944--91362985 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
91362934 AGTTTTTCAT
* *
91362944 TTTTCTATATTTTTTATTA
1 TTTTCTATATTTCTAATTA
91362963 TTTTCTATATTTCTAATTA
1 TTTTCTATATTTCTAATTA
91362982 TTTT
1 TTTT
91362986 AAATATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCTATATTTCTAATTA
Found at i:91371268 original size:40 final size:38
Alignment explanation
Indices: 91371223--91371356 Score: 133
Period size: 38 Copynumber: 3.5 Consensus size: 38
91371213 ATCCAGTCAT
* **
91371223 CAGCACAAAACCTGCGGGACTTTAAGCTTAGATATAATAC
1 CAGCACAAAGCCTGCGGGA-TTTAA-CCCAGATATAATAC
* * * * *
91371263 TAGCACTAGGCCTGCGAGATTTAACCCGGATATAATAC
1 CAGCACAAAGCCTGCGGGATTTAACCCAGATATAATAC
* * *
91371301 CAGCACGAAGCCTGCGGGATTTAACCCGGATATATTAC
1 CAGCACAAAGCCTGCGGGATTTAACCCAGATATAATAC
* *
91371339 CAGCGCGAAGCCTGCGGG
1 CAGCACAAAGCCTGCGGG
91371357 TCTTTAAGCC
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 61 0.76
39 5 0.06
40 14 0.17
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (38 bp):
CAGCACAAAGCCTGCGGGATTTAACCCAGATATAATAC
Found at i:91371355 original size:38 final size:38
Alignment explanation
Indices: 91371253--91371356 Score: 154
Period size: 38 Copynumber: 2.7 Consensus size: 38
91371243 TTTAAGCTTA
* * * *
91371253 GATATAATACTAGCACTAGGCCTGCGAGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
91371291 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* *
91371329 GATATATTACCAGCGCGAAGCCTGCGGG
1 GATATAATACCAGCACGAAGCCTGCGGG
91371357 TCTTTAAGCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:91377269 original size:38 final size:38
Alignment explanation
Indices: 91377140--91377273 Score: 151
Period size: 38 Copynumber: 3.5 Consensus size: 38
91377130 ATCTAGTCAT
* * * *
91377140 CAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATAC
1 CAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATAC
* * * *
91377180 CAGCACTAGGCCTACGAGATTTAACCCGGATATAATAC
1 CAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
* * *
91377218 TAGCACGAAGCCTGCGGGATTTAACCCGGATGTATTAC
1 CAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
91377256 CAGCACGAAGCCTGCGGG
1 CAGCACGAAGCCTGCGGG
91377274 TCTTTAAGCC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 60 0.76
39 5 0.06
40 14 0.18
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.19
Consensus pattern (38 bp):
CAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
Found at i:91379795 original size:15 final size:14
Alignment explanation
Indices: 91379765--91379827 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
91379755 ATTGTTATTA
*
91379765 TTATTAATAT-TA-
1 TTATTAGTATATAT
*
91379777 TTATTAGTATATGTT
1 TTATTAGTATAT-AT
91379792 TTATTATGTATATAT
1 TTATTA-GTATATAT
91379807 TTATGTAGTAT-TA-
1 TTAT-TAGTATATAT
91379820 TTATTAGT
1 TTATTAGT
91379828 CGTTTTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 13 0.30
13 5 0.12
14 2 0.05
15 15 0.35
16 8 0.19
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (14 bp):
TTATTAGTATATAT
Found at i:91379827 original size:12 final size:12
Alignment explanation
Indices: 91379760--91379827 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 12
91379750 TTTATATTGT
*
91379760 TATTATTATTAA
1 TATTATTATTAG
91379772 TATTATTATTAG
1 TATTATTATTAG
*
91379784 TATATGTTTTATTATG
1 --TAT-TATTATTA-G
91379800 TATATATTTATGTAG
1 TAT-TA-TTAT-TAG
91379815 TATTATTATTAG
1 TATTATTATTAG
91379827 T
1 T
91379828 CGTTTTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
12 15 0.33
13 4 0.09
14 9 0.20
15 15 0.33
16 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:91379909 original size:15 final size:14
Alignment explanation
Indices: 91379891--91379948 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
91379881 TATATTTTTC
*
91379891 ATATATGTTATGTAT
1 ATATATATTA-GTAT
*
91379906 ATATATATTAATAT
1 ATATATATTAGTAT
91379920 -TATAT-TTA-TAT
1 ATATATATTAGTAT
91379931 ATAT-TATTATGTAT
1 ATATATATTA-GTAT
91379945 ATAT
1 ATAT
91379949 TTTAATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 4 0.11
12 9 0.24
13 5 0.14
14 10 0.27
15 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
ATATATATTAGTAT
Found at i:91379920 original size:43 final size:37
Alignment explanation
Indices: 91379881--91379970 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 37
91379871 CTATATTATA
* *
91379881 TATATTTTTCATATA-TGTTATGTATATATATATTAATAT
1 TATATTTAT-ATATATTATTATGTATATAT-T-TTAATAT
91379920 TATATTTATATATATTATTATGTATATATTTTAATAT
1 TATATTTATATATATTATTATGTATATATTTTAATAT
*
91379957 TATTAGTTATATAT
1 TA-TATTTATATAT
91379971 CTTTTATACT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
37 9 0.20
38 16 0.35
39 21 0.46
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (37 bp):
TATATTTATATATATTATTATGTATATATTTTAATAT
Found at i:91379966 original size:26 final size:25
Alignment explanation
Indices: 91379920--91379993 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 25
91379910 ATATTAATAT
91379920 TATA-TTTATATATATTA-TTATGTA
1 TATATTTTATAT-TATTAGTTATGTA
91379944 TATATTTTAATATTATTAGTTA--TA
1 TATATTTT-ATATTATTAGTTATGTA
* *
91379968 TATCTTTTATACTATT-G-TATGTA
1 TATATTTTATATTATTAGTTATGTA
91379991 TAT
1 TAT
91379994 TTCTAATGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 12 0.28
24 13 0.30
25 8 0.19
26 7 0.16
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (25 bp):
TATATTTTATATTATTAGTTATGTA
Found at i:91380113 original size:9 final size:9
Alignment explanation
Indices: 91380099--91380141 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
91380089 CTAACATATG
91380099 TATATATTA
1 TATATATTA
91380108 TATATATTA
1 TATATATTA
*
91380117 TGTATA-TA
1 TATATATTA
91380125 T-TATTATTA
1 TATA-TATTA
91380134 TATATATT
1 TATATATT
91380142 TTTATCCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
7 2 0.07
8 5 0.17
9 21 0.70
10 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TATATATTA
Found at i:91380122 original size:11 final size:11
Alignment explanation
Indices: 91380095--91380128 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
91380085 ATTTCTAACA
91380095 TATGTATATAT
1 TATGTATATAT
91380106 TA--TATATAT
1 TATGTATATAT
91380115 TATGTATATAT
1 TATGTATATAT
91380126 TAT
1 TAT
91380129 TATTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:91380141 original size:15 final size:15
Alignment explanation
Indices: 91380106--91380146 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
91380096 ATGTATATAT
*
91380106 TATATA-TATTA-TG
1 TATATATTATTATTA
91380119 TATATATTATTATTA
1 TATATATTATTATTA
*
91380134 TATATATTTTTAT
1 TATATATTATTAT
91380147 CCCTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.25
14 5 0.21
15 13 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATATATTATTATTA
Found at i:91380370 original size:3 final size:3
Alignment explanation
Indices: 91380320--91380355 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
91380310 TATATACATC
*
91380320 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91380356 GTATATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:91380387 original size:21 final size:21
Alignment explanation
Indices: 91380344--91380403 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
91380334 ATTATAATTA
*
91380344 TTATTAT-TAT-TAGTATATGT
1 TTATTATATATGTA-TATATCT
91380364 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
91380385 TTAATATATATATGTATAT
1 TT-AT-TATATATGTATAT
91380404 GTTTATGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 4 0.11
23 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:91380408 original size:21 final size:21
Alignment explanation
Indices: 91380356--91380408 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
91380346 ATTATTATTA
* *
91380356 GTATATGTTTATTATATATGT
1 GTATATGTTTAATATATATAT
* *
91380377 ATATATCTTTAATATATATAT
1 GTATATGTTTAATATATATAT
91380398 GTATATGTTTA
1 GTATATGTTTA
91380409 TGCAATGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (21 bp):
GTATATGTTTAATATATATAT
Found at i:91389250 original size:21 final size:21
Alignment explanation
Indices: 91389224--91389286 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
91389214 CTGATGTTAG
91389224 TACCTCCAACTCCAGGAAGAC
1 TACCTCCAACTCCAGGAAGAC
*
91389245 TACCTCCAACTCCAAGAAGAC
1 TACCTCCAACTCCAGGAAGAC
91389266 TACCTCCAACTCCAGGAAGAC
1 TACCTCCAACTCCAGGAAGAC
91389287 CGTTAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.35, C:0.38, G:0.13, T:0.14
Consensus pattern (21 bp):
TACCTCCAACTCCAGGAAGAC
Found at i:91392555 original size:75 final size:76
Alignment explanation
Indices: 91392338--91392557 Score: 256
Period size: 75 Copynumber: 2.9 Consensus size: 76
91392328 TTCTGTTTTC
* *
91392338 AAAAAATCAACTCATATTGCT-AGAGGTGAGTTGAGCCTCA--AGATGCATTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTG-TGAGAGGTGAGTTGAGCCTCAGGACATGCA--GAAGTATTTTCAA
* *
91392400 TTTCTG-TCTTTCA
63 TTTCTGTTCTATAA
* * * *
91392413 AAAAAATCAACTTATATTGTGAGAGATAAGTTGAGCCTCAGGACACGCAGAAGTAATTTT-AATT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCAGAAGT-ATTTTCAATT
91392477 TCTGTTC-ATAA
65 TCTGTTCTATAA
* *
91392488 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCCA-ATGTATTTTCAAAT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATG-CAGAAGTATTTTCAATT
91392552 TCTGTT
65 TCTGTT
91392558 TAAATATCTA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
74 6 0.05
75 104 0.84
76 9 0.07
77 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCAGAAGTATTTTCAATTT
CTGTTCTATAA
Found at i:91392872 original size:91 final size:87
Alignment explanation
Indices: 91392488--91392966 Score: 407
Period size: 87 Copynumber: 5.4 Consensus size: 87
91392478 CTGTTCATAA
* * * * *
91392488 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG---ACATGCCAATG-TATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCCGA-GCTATTCTCA
* * * * *
91392549 AATTCT-GTTTAAATATCTATTTTT
64 ATTTCTATTTTTAATGTCT-GTTTT
* * * * *
91392573 CAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTTGGCTCACACACCGAGGTATT-TCA
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCGAGCTATTCTCA
*
91392637 ATTTCTGTTTTTAATGTCTGTTTT
64 ATTTCTATTTTTAATGTCTGTTTT
* * * * * *
91392661 CAAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCGAGCTATTCTCAAT
* * *
91392726 TCCTGTTTCTCAAT-TAC-GTTTT
66 TTCTATTT-TTAATGT-CTGTTTT
* ** *
91392748 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTCTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCGAGCTATTCTCAAT
* *
91392813 TTTTATTTTTAATGTCTTTTTTTT
66 TTCTATTTTTAATGTC--TGTTTT
* ** **
91392837 AAAAAGAGTCAACTCTTATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGCTATTCTCA
1 AAAAA-A-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCGAGCTATTCTCA
*
91392902 ATTTCTATTTTTAATGTCTATTTTTT
64 ATTTCTATTTTTAATGTC--TGTTTT
* *
91392928 AAAAAAGAGTCAGCTCATATTGCGAGAAGTGAGTTGAGC
1 -AAAAA-A-TCAACTCATATTGCGAGAGGTGAGTTGAGC
91392967 TTAGGATTAC
Statistics
Matches: 333, Mismatches: 44, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
86 58 0.17
87 115 0.35
88 18 0.05
89 27 0.08
90 1 0.00
91 79 0.24
92 35 0.11
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCGAGCTATTCTCAAT
TTCTATTTTTAATGTCTGTTTT
Found at i:91394590 original size:3 final size:3
Alignment explanation
Indices: 91394577--91394654 Score: 59
Period size: 3 Copynumber: 24.7 Consensus size: 3
91394567 CCATTATTTA
* * * *
91394577 TAT TGT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAG TA- TAT GTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
91394622 TAT TAT GTAT ATATT TAT GTAG TAT TAT TAT TA
1 TAT TAT -TAT -TA-T TAT -TAT TAT TAT TAT TA
91394655 GTCGCTTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 2 0.03
3 46 0.77
4 11 0.18
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:91394745 original size:26 final size:24
Alignment explanation
Indices: 91394694--91394768 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
91394684 ATTGTAAATA
* *
91394694 TTTAATACTATATTATATATATATT
1 TTTAATATTATA-TGTATATATATT
91394719 TTTCATATATGT-TATGTATATATATT
1 TTT-A-ATAT-TATATGTATATATATT
*
91394745 TTTAATATTATATTTATATATATT
1 TTTAATATTATATGTATATATATT
91394769 ATTATGTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 4 0.09
26 15 0.35
27 5 0.12
28 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTAATATTATATGTATATATATT
Found at i:91394752 original size:24 final size:26
Alignment explanation
Indices: 91394709--91394768 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 26
91394699 TACTATATTA
91394709 TATATATATTTTTCATATATGT-TATG
1 TATATATATTTTTCATATAT-TATATG
*
91394735 TATATATATTTTT-A-ATATTATATT
1 TATATATATTTTTCATATATTATATG
91394759 TATATATATT
1 TATATATATT
91394769 ATTATGTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 17 0.53
25 1 0.03
26 13 0.41
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (26 bp):
TATATATATTTTTCATATATTATATG
Found at i:91394755 original size:22 final size:22
Alignment explanation
Indices: 91394709--91394833 Score: 61
Period size: 23 Copynumber: 5.7 Consensus size: 22
91394699 TACTATATTA
91394709 TATATATATTTTTCATATATGTTATG
1 TATATATATTTTT-A-ATA--TTATG
91394735 TATATATATTTTTAATATTA--
1 TATATATATTTTTAATATTATG
* * *
91394755 TAT-T-TATATATATTATTATG
1 TATATATATTTTTAATATTATG
91394775 --TATATA-TTTTAATATTAT-
1 TATATATATTTTTAATATTATG
*
91394793 TAGTTATATATCTTTT-ATACTATTG
1 TA--TATATAT-TTTTAATATTA-TG
* *
91394818 TATGTATATTTCTAAT
1 TATATATATTTTTAAT
91394834 GCTATATTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
18 12 0.16
19 11 0.14
20 5 0.06
22 12 0.16
23 13 0.17
24 8 0.10
25 3 0.04
26 13 0.17
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (22 bp):
TATATATATTTTTAATATTATG
Found at i:91394780 original size:24 final size:24
Alignment explanation
Indices: 91394702--91394826 Score: 80
Period size: 24 Copynumber: 5.1 Consensus size: 24
91394692 TATTTAATAC
* *
91394702 TATATTATATATATATTTTTCATATA
1 TATATT-TATATATATTATT-ATGTA
* * * *
91394728 TGTTATGTATATATATTTTTA-ATA
1 T-ATATTTATATATATTATTATGTA
91394752 TTATATTTATATATATTATTATGTA
1 -TATATTTATATATATTATTATGTA
91394777 TATATTT-TA-ATATTATTA-GTTA
1 TATATTTATATATATTATTATG-TA
* *
91394799 TATATCTTTTATACTATT-GTATGTA
1 TATAT-TTATATA-TATTATTATGTA
91394824 TAT
1 TAT
91394827 TTCTAATGCT
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
21 1 0.01
22 16 0.19
23 4 0.05
24 28 0.34
25 12 0.14
26 19 0.23
27 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (24 bp):
TATATTTATATATATTATTATGTA
Found at i:91394794 original size:40 final size:40
Alignment explanation
Indices: 91394708--91394794 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 40
91394698 ATACTATATT
* * *
91394708 ATATATATATTTTTCATATATGTTATGTATATATATTTTTA
1 ATAT-TATATTTATCATATATATTATGTATATATATTTATA
91394749 ATATTATATTTAT-ATATATTATTATGTATATAT-TTTAATA
1 ATATTATATTTATCATATA-TATTATGTATATATATTT-ATA
*
91394789 TTATTA
1 ATATTA
91394795 GTTATATATC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 8 0.20
40 28 0.70
41 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (40 bp):
ATATTATATTTATCATATATATTATGTATATATATTTATA
Found at i:91394803 original size:40 final size:37
Alignment explanation
Indices: 91394723--91394803 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
91394713 TATATTTTTC
*
91394723 ATATATGTTATGTATATATATTTTTAATATTATATTT
1 ATATATATTATGTATATATATTTTTAATATTATATTT
* *
91394760 ATATATATTAT-TATGTATATATTTTAATATTATTAGTT
1 ATATATATTATGTATATATAT-TTTTAATATTA-TATTT
91394798 ATATAT
1 ATATAT
91394804 CTTTTATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 8 0.21
37 21 0.54
38 10 0.26
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (37 bp):
ATATATATTATGTATATATATTTTTAATATTATATTT
Found at i:91394825 original size:23 final size:25
Alignment explanation
Indices: 91394753--91394873 Score: 73
Period size: 24 Copynumber: 5.2 Consensus size: 25
91394743 TTTTTAATAT
*
91394753 TATA-TTTATATA-TATTATTATGTA
1 TATATTTTA-ATACTATTAGTATGTA
* *
91394777 TATATTTTAATATTATTAGT-TATA
1 TATATTTTAATACTATTAGTATGTA
*
91394801 TATCTTTT-ATACTATT-GTATGTA
1 TATATTTTAATACTATTAGTATGTA
* *
91394824 TAT-TTCTAATGCTA-TA-T-TGTA
1 TATATTTTAATACTATTAGTATGTA
* * * *
91394845 TAT-TTCTAATACCATTATTATTTA
1 TATATTTTAATACTATTAGTATGTA
91394869 TATAT
1 TATAT
91394874 ATATGTACGT
Statistics
Matches: 78, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
21 16 0.21
22 9 0.12
23 19 0.24
24 23 0.29
25 11 0.14
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTTTAATACTATTAGTATGTA
Found at i:91394958 original size:11 final size:11
Alignment explanation
Indices: 91394938--91394981 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
91394928 CTAACATATG
91394938 TATATATTATA
1 TATATATTATA
*
91394949 TATATTTTATA
1 TATATATTATA
91394960 TAT-TATGTATA
1 TATATAT-TATA
91394971 TAT-TATTATA
1 TATATATTATA
91394981 T
1 T
91394982 CGATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 7 0.23
11 23 0.77
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
TATATATTATA
Found at i:91394961 original size:18 final size:18
Alignment explanation
Indices: 91394933--91394981 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
91394923 CATTTCTAAC
91394933 ATATGTATATATTATATAT
1 ATAT-TATATATTATATAT
* *
91394952 ATTTTATATATTATGTAT
1 ATATTATATATTATATAT
91394970 ATATTATTATAT
1 ATATTA-TATAT
91394982 CGATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
ATATTATATATTATATAT
Found at i:91395193 original size:23 final size:21
Alignment explanation
Indices: 91395171--91395236 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
91395161 CATCTTTTTA
91395171 TTATTAT-TATTAGTATATGT
1 TTATTATATATTAGTATATGT
*
91395191 TTATTATATATGTA-TATATCT
1 TTATTATATAT-TAGTATATGT
*
91395212 TTAATATATA-TATGTATATGT
1 TTATTATATATTA-GTATATGT
91395233 TTAT
1 TTAT
91395237 GCAATGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.05
20 7 0.18
21 27 0.71
22 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (21 bp):
TTATTATATATTAGTATATGT
Found at i:91395214 original size:21 final size:21
Alignment explanation
Indices: 91395171--91395230 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
91395161 CATCTTTTTA
*
91395171 TTATTAT-TAT-TAGTATATGT
1 TTATTATATATGTA-TATATCT
91395191 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
91395212 TTAATATATATATGTATAT
1 TT-AT-TATATATGTATAT
91395231 GTTTATGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 4 0.11
23 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:91403749 original size:43 final size:43
Alignment explanation
Indices: 91403688--91403774 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
91403678 TAATCCATAC
*
91403688 CCTTCTCTTAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
1 CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
91403731 CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
1 CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
91403774 C
1 C
91403775 GTCCTCTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.40, G:0.05, T:0.31
Consensus pattern (43 bp):
CCTTCTCTAAGATTCTCAATCAAACCACCCTTCTCACCAGCTT
Found at i:91404569 original size:2 final size:2
Alignment explanation
Indices: 91404562--91404592 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91404552 GACCCAAGGG
91404562 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
91404593 GTCTGGGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:91407980 original size:30 final size:30
Alignment explanation
Indices: 91407946--91408008 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
91407936 ACTTAACAAG
91407946 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
91407976 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
91408006 CAA
1 CAA
91408009 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:91414490 original size:243 final size:243
Alignment explanation
Indices: 91414048--91414523 Score: 781
Period size: 243 Copynumber: 2.0 Consensus size: 243
91414038 ACAACATGCC
* *
91414048 TTGGAGCCTTATCCTATTTCTTCATTTTCTATTTGAGTTTTGTTCATATGTTCGAGATTTTCCTC
1 TTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTTCGAGATTTTCCTC
* * * * * * *
91414113 GCCAGAGACTTGTACTAACAATTTTAAGGTTATATTTCATGATGGCTACCACAACATATGAAAGT
66 ACCAGAGACTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCACAACACATAAAAGC
* * * *
91414178 GGAATACTAAGGGAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATGGTGGCAGTTTCCG
131 GGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATAGTGGCAATTTCCG
*
91414243 ACGATGGCAGAAAAAGATGCATTTCTTATTGTCAACTTGATACAAGCG
196 ACGATGGCAGAAAAAGATGCATTTCTTATTATCAACTTGATACAAGCG
*
91414291 TTGGAGCCTTATCCTATTTCTTCATTTTCTGTTCGAGTTTCGTTCATATGTTCGAGATTTTCCTC
1 TTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTTCGAGATTTTCCTC
* *
91414356 ACCAGATATTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCACAACACATAAAAGC
66 ACCAGAGACTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCACAACACATAAAAGC
*
91414421 GGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATAGTGGCAATTTTCG
131 GGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATAGTGGCAATTTCCG
*
91414486 ACGATGGCAGAAAAAGATGCATTTTTTATTATCAACTT
196 ACGATGGCAGAAAAAGATGCATTTCTTATTATCAACTT
91414524 TGAAGATTGC
Statistics
Matches: 214, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
243 214 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (243 bp):
TTGGAGCCTTATCCTATTTCTTCATTTTCTATTCGAGTTTCGTTCATATGTTCGAGATTTTCCTC
ACCAGAGACTTGTAATAACAATTTTAAGGTTATATTTCATAATGGCCACCACAACACATAAAAGC
GGAACACTAAGGAAGTTGGCTTCCAACTTTGTCAAACTTGATCGGTTTGATAGTGGCAATTTCCG
ACGATGGCAGAAAAAGATGCATTTCTTATTATCAACTTGATACAAGCG
Found at i:91417201 original size:20 final size:18
Alignment explanation
Indices: 91417160--91417203 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
91417150 CTTTAGCCAT
* *
91417160 AATTTTTATTTTTTATTT
1 AATTTTTATTTTTTACTA
91417178 AATTTTGTATTTATTTACTA
1 AATTTT-TATTT-TTTACTA
91417198 AATTTT
1 AATTTT
91417204 CTTTTTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
20 11 0.50
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
AATTTTTATTTTTTACTA
Found at i:91423782 original size:14 final size:14
Alignment explanation
Indices: 91423763--91423799 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
91423753 CCCCACGCCC
91423763 CACCATCGCACCAG
1 CACCATCGCACCAG
91423777 CACCATCGCACCAG
1 CACCATCGCACCAG
91423791 CACCATCGC
1 CACCATCGC
91423800 CGCTGTCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.51, G:0.14, T:0.08
Consensus pattern (14 bp):
CACCATCGCACCAG
Found at i:91423921 original size:16 final size:16
Alignment explanation
Indices: 91423887--91423958 Score: 67
Period size: 17 Copynumber: 4.5 Consensus size: 16
91423877 TATCATCCTC
*
91423887 TTCTTTT-CTTTGA-T
1 TTCTTTTACTTTTATT
91423901 TTCTTTTACTTTTATT
1 TTCTTTTACTTTTATT
*
91423917 TTCTTTTATTCTTTATT
1 TTCTTTTACT-TTTATT
* *
91423934 TTATTTTAATTTTATCT
1 TTCTTTTACTTTTAT-T
*
91423951 CTCTTTTA
1 TTCTTTTA
91423959 TTAATCCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
14 7 0.15
15 5 0.10
16 15 0.31
17 21 0.44
ACGTcount: A:0.14, C:0.12, G:0.01, T:0.72
Consensus pattern (16 bp):
TTCTTTTACTTTTATT
Found at i:91423946 original size:23 final size:23
Alignment explanation
Indices: 91423905--91423960 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
91423895 TTTGATTTCT
*
91423905 TTTACTTTTATTTTCTTTTATTC
1 TTTACTTTTATTTTATTTTATTC
91423928 TTTA-TTTTATTTTAATTTTA-TC
1 TTTACTTTTATTTT-ATTTTATTC
*
91423950 TCT-CTTTTATT
1 TTTACTTTTATT
91423961 AATCCTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTACTTTTATTTTATTTTATTC
Found at i:91434838 original size:27 final size:26
Alignment explanation
Indices: 91434807--91434984 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 26
91434797 TAAATTGTAC
91434807 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
91434834 TGCACTAAGTGTGCGAAATGGA-TATG-
1 AGCACTAAGTGTGCG--ATTGACTATGT
* *
91434860 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
91434888 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGC--GATTGACTATGT
* * *
91434916 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
91434943 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
91434970 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
91434985 GGCTCAATAA
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.06
27 92 0.73
28 24 0.19
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:91434868 original size:54 final size:54
Alignment explanation
Indices: 91434808--91434958 Score: 189
Period size: 54 Copynumber: 2.8 Consensus size: 54
91434798 AAATTGTACA
*
91434808 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGA-TATGAT-
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGGACTATG-TG
* ** *
91434862 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
* *
91434917 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGA
91434959 GTTGATTATA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
54 42 0.50
55 42 0.50
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
Found at i:91434948 original size:82 final size:81
Alignment explanation
Indices: 91434808--91434963 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
91434798 AAATTGTACA
* * *
91434808 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
91434873 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * *
91434889 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-ATCGACTATGTGGCACTAAGTGTGCGAAATGGA-TACGAT-GCACTAAG
*
91434952 TGTGCGAGTTGA
63 TGTGCGAATTGA
91434964 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:91434975 original size:82 final size:81
Alignment explanation
Indices: 91434804--91434984 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
91434794 GATTAAATTG
* * *
91434804 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAA
91434869 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * *
91434885 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCG-ATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-ATCGACTATGTGGCACTAAGTGTGCGAAATGGA-TACGAT-GCAC
* **
91434948 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
91434967 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
91434985 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 22 0.27
82 60 0.73
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:91442800 original size:26 final size:27
Alignment explanation
Indices: 91442691--91442864 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
91442681 AAATTGTACA
* * *
91442691 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGAATGGACTATGAT
91442718 GCACTAAGTGTGCGAAATGGA-TATGAT
1 GCACTAAGTGTGCG-AATGGACTATGAT
* * *
91442745 GCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAATGGACTATGAT
91442771 GCACTAAGTG-GCGAGATGGACTATG-T
1 GCACTAAGTGTGCGA-ATGGACTATGAT
* * * *
91442797 GCACTAAGTGTGCGATTTGATTACG-T
1 GCACTAAGTGTGCGAATGGACTATGAT
* * *
91442823 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGAATGGACTATGAT
*
91442850 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
91442865 GGCTCAATAA
Statistics
Matches: 125, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.03
26 40 0.32
27 77 0.62
28 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATGGACTATGAT
Found at i:91442805 original size:52 final size:54
Alignment explanation
Indices: 91442691--91442838 Score: 178
Period size: 52 Copynumber: 2.8 Consensus size: 54
91442681 AAATTGTACA
* *
91442691 GCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGAT
1 GCACTAAGTGTGCGAATT-GACCATGTCGCACTAAGTGTGCGAAATGGATATGAT
*
91442745 GCACTAAGTGTGCGAATTGACCATG-CGCACTAAGTG-GCGAGATGGACTATG-T
1 GCACTAAGTGTGCGAATTGACCATGTCGCACTAAGTGTGCGAAATGGA-TATGAT
* ** * *
91442797 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGA
1 GCACTAAGTGTGCGAATTGACCATGTCGCACTAAGTGTGCGA
91442839 GTTGATTATA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
52 31 0.38
53 24 0.29
54 24 0.29
55 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCATGTCGCACTAAGTGTGCGAAATGGATATGAT
Found at i:91442828 original size:79 final size:80
Alignment explanation
Indices: 91442691--91442843 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 80
91442681 AAATTGTACA
* *
91442691 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAATCGACTATGTTGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
91442756 GCGAATTGACCATGC
66 GCGAATTGACCATGC
* * *
91442771 GCACTAAGTG-GCGAGATGGACTATG-TGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-ATCGACTATGTTGCACTAAGTGTGCGAAATGGA-TACGAT-GCACTAAG
*
91442832 TGTGCGAGTTGA
63 TGTGCGAATTGA
91442844 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.08
79 41 0.64
80 18 0.28
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (80 bp):
GCACTAAGTGTGCGAATCGACTATGTTGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAATTGACCATGC
Found at i:91459437 original size:90 final size:88
Alignment explanation
Indices: 91459270--91459486 Score: 239
Period size: 90 Copynumber: 2.5 Consensus size: 88
91459260 TTAAGTATGC
* * * * * *
91459270 AAAAAGCCATCAAACTTTTTCAAAAAAACAATTAAA-T--CCCCTTTTTTTTTGCACTCATTTGA
1 AAAAAGCC-TCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGA
* *
91459332 GTATTTGAACTTTCAAAATACATAA
65 GTACTTGAACCTTCAAAATACAT-A
* *
91459357 AAAAAGTCCTCAAACATTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGG
1 AAAAAG-CCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGA
* *
91459422 GTACTTGAACCTTCAAAATGCATC
65 GTACTTGAACCTTCAAAATACATA
*
91459446 AATAAGCCCTCAAACTTTTTC--AAAAAAAAG-AAATTAAGCCC
1 AAAAAG-CCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCC
91459487 CTGCTTTTAT
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
86 11 0.10
87 39 0.35
88 3 0.03
89 18 0.16
90 40 0.36
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (88 bp):
AAAAAGCCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGAG
TACTTGAACCTTCAAAATACATA
Found at i:91459472 original size:89 final size:90
Alignment explanation
Indices: 91459270--91459486 Score: 250
Period size: 87 Copynumber: 2.5 Consensus size: 90
91459260 TTAAGTATGC
* * * * * * *
91459270 AAAAAGCCATCAAACTTTTTCAAAAAAACAATTAAA-T--CCCCTTTTTTTTTGCACTCATTTGA
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGA
* *
91459332 GTATTTGAACTTTCAAAATACATAA
66 GTACTTGAACCTTCAAAATACATAA
* * *
91459357 AAAAAGTCCTCAAACATTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGA
* *
91459422 GTACTTGAACCTTCAAAATGCAT-C
66 GTACTTGAACCTTCAAAATACATAA
*
91459446 AATAAGCCCTCAAACTTTTTC--AAAAAAAAG-AAATTAAGCCC
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCC
91459487 CTGCTTTTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
86 11 0.10
87 40 0.36
88 1 0.01
89 18 0.16
90 40 0.36
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (90 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAAAAGTAAATTAAGCCCTCTTTTTTGGCACTCAATTGA
GTACTTGAACCTTCAAAATACATAA
Found at i:91459660 original size:9 final size:9
Alignment explanation
Indices: 91459565--91459670 Score: 58
Period size: 10 Copynumber: 11.7 Consensus size: 9
91459555 TTAAATGTTA
91459565 ATAAAAATT
1 ATAAAAATT
* *
91459574 TTAAACA-T
1 ATAAAAATT
91459582 -TAAAAATT
1 ATAAAAATT
* *
91459590 AGAAAAAAAT
1 A-TAAAAATT
*
91459600 ATAAAAATC
1 ATAAAAATT
91459609 ATAAAAATT
1 ATAAAAATT
*
91459618 A-AAAATTT
1 ATAAAAATT
* *
91459626 GTAAAATTTT
1 ATAAAA-ATT
91459636 ATAAAAATCGT
1 ATAAAAAT--T
91459647 A-AAAAATT
1 ATAAAAATT
*
91459655 ATAAAATTTT
1 ATAAAA-ATT
91459665 ATAAAA
1 ATAAAA
91459671 TCTTAAAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
7 5 0.07
8 10 0.14
9 28 0.38
10 29 0.39
11 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:91459892 original size:9 final size:9
Alignment explanation
Indices: 91459878--91459930 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
91459868 TCATTAATTT
91459878 TTTTTATAA
1 TTTTTATAA
91459887 TTTTTATAAA
1 TTTTTAT-AA
* *
91459897 ATTTTACAA
1 TTTTTATAA
*
91459906 TTTTT-TAT
1 TTTTTATAA
*
91459914 TTTTTATGA
1 TTTTTATAA
91459923 TTTTTATA
1 TTTTTATA
91459931 TAAAAATTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:91459933 original size:38 final size:36
Alignment explanation
Indices: 91459877--91459948 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
91459867 GTCATTAATT
*
91459877 TTTTTTATAATTTTTATAAAATTTTAC-AATTTTTTA
1 TTTTTTATAATTTTTATAAAAATTT-CTAATTTTTTA
*
91459913 TTTTTTATGATTTTTATATAAAAATTTCTAATTTTT
1 TTTTTTAT-AATTTT-TATAAAAATTTCTAATTTTT
91459949 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 8 0.26
37 6 0.19
38 17 0.55
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TTTTTTATAATTTTTATAAAAATTTCTAATTTTTTA
Found at i:91459956 original size:19 final size:19
Alignment explanation
Indices: 91459922--91459975 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
91459912 ATTTTTTATG
*
91459922 ATTTTTATATAAAAATTTCTA
1 ATTTTTA-A-AAAAATTACTA
91459943 ATTTTTAAAAAAATTACTA
1 ATTTTTAAAAAAATTACTA
91459962 ATTTTTTAAAAAAA
1 A-TTTTTAAAAAAA
91459976 CTATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 11 0.35
20 13 0.42
21 7 0.23
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTTAAAAAAATTACTA
Found at i:91459978 original size:17 final size:18
Alignment explanation
Indices: 91459940--91459987 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
91459930 ATAAAAATTT
*
91459940 CTAATTTTTAAAAAAATTA
1 CTAATTTTTTAAAAAA-TA
91459959 CTAATTTTTTAAAAAA-A
1 CTAATTTTTTAAAAAATA
*
91459976 CTATTTTTTTAA
1 CTAATTTTTTAA
91459988 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
19 15 0.56
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
CTAATTTTTTAAAAAATA
Found at i:91460010 original size:20 final size:20
Alignment explanation
Indices: 91459985--91460034 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
91459975 ACTATTTTTT
91459985 TAATTTTTATTAAAATTTAA
1 TAATTTTTATTAAAATTTAA
* *
91460005 TAATTTTT-CTAAAATTTAT
1 TAATTTTTATTAAAATTTAA
*
91460024 TATTTTTTATT
1 TAATTTTTATT
91460035 TTTCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTATTAAAATTTAA
Found at i:91461399 original size:17 final size:17
Alignment explanation
Indices: 91461377--91461410 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
91461367 GGAGTTCTAC
91461377 AAATAAAAATAATTATA
1 AAATAAAAATAATTATA
*
91461394 AAATAAGAATAATTATA
1 AAATAAAAATAATTATA
91461411 TAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATAATTATA
Found at i:91465105 original size:24 final size:24
Alignment explanation
Indices: 91465071--91465124 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
91465061 AGACACACAG
*
91465071 TCAGAAGCAGATAC-AGTTTCAGAT
1 TCAGAAGCAGAT-CTAGATTCAGAT
*
91465095 TCAGAATCAGATCTAGATTCAGAT
1 TCAGAAGCAGATCTAGATTCAGAT
91465119 TACAGA
1 T-CAGA
91465125 TACAAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (24 bp):
TCAGAAGCAGATCTAGATTCAGAT
Found at i:91468355 original size:3 final size:3
Alignment explanation
Indices: 91468347--91468398 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
91468337 CTTTAGATCT
* * * * *
91468347 TTA TTA TTA -TA TTA TTA TTA CTA TCA TCA TCA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91468394 TTA TT
1 TTA TT
91468399 TTTAATTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:91468396 original size:15 final size:15
Alignment explanation
Indices: 91468347--91468404 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
91468337 CTTTAGATCT
91468347 TTATTATT-ATATTA
1 TTATTATTAATATTA
* *
91468361 TTATTACTATCATCATCA
1 TTATTA-T-TAAT-ATTA
91468379 TTATTATTAATATTA
1 TTATTATTAATATTA
*
91468394 TTATTTTTAAT
1 TTATTATTAAT
91468405 TTGTTTTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 6 0.17
15 14 0.39
16 4 0.11
17 3 0.08
18 9 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATTAATATTA
Found at i:91470592 original size:41 final size:41
Alignment explanation
Indices: 91470547--91470647 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
91470537 GCAGCGTTTG
91470547 CGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTT
1 CGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTT
* * *
91470588 CGGTAAAACGCCACTAAAAACCAGAGCATTAGTGGCGCTTT
1 CGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTT
* *
91470629 TGCTAAAACGCCGCTAAAA
1 CGGTAAAACGCCGCTAAAA
91470648 GTCATATAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (41 bp):
CGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTT
Found at i:91470865 original size:14 final size:14
Alignment explanation
Indices: 91470814--91470858 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
91470804 TTAATTATCA
*
91470814 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
91470828 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
*
91470842 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
91470856 TTA
1 TTA
91470859 ATGTTTAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:91470930 original size:7 final size:7
Alignment explanation
Indices: 91470903--91471031 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
91470893 GATGAATTAT
91470903 GGGTTTA
1 GGGTTTA
* *
91470910 GAGATTA
1 GGGTTTA
*
91470917 TGGTTTA
1 GGGTTTA
91470924 GGGTTTA
1 GGGTTTA
91470931 GGG-TT-
1 GGGTTTA
91470936 GGAGTTTA
1 GG-GTTTA
* *
91470944 AGGTGTAA
1 GGGT-TTA
*
91470952 GGGTTTG
1 GGGTTTA
*
91470959 GGGTTAA
1 GGGTTTA
*
91470966 GGGTTAA
1 GGGTTTA
91470973 GGGTTTA
1 GGGTTTA
* *
91470980 AGGTTAA
1 GGGTTTA
*
91470987 GTGTTTA
1 GGGTTTA
*
91470994 GTGTTTA
1 GGGTTTA
*
91471001 TGGG-ATA
1 -GGGTTTA
*
91471008 GGGGTTAA
1 -GGGTTTA
91471016 GAGGTTTA
1 G-GGTTTA
91471024 GGGTTTA
1 GGGTTTA
91471031 G
1 G
91471032 ATTAATTAGT
Statistics
Matches: 90, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 70 0.78
8 15 0.17
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:91470978 original size:21 final size:21
Alignment explanation
Indices: 91470941--91471028 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
91470931 GGGTTGGAGT
*
91470941 TTAA-GGTGTAAGGGTTTGGGG
1 TTAAGGGT-TAAGGGTTTAGGG
*
91470962 TTAAGGGTTAAGGGTTTAAGG
1 TTAAGGGTTAAGGGTTTAGGG
* * *
91470983 TTAAGTGTTTAGTGTTTATGGG
1 TTAAGGGTTAAGGGTTTA-GGG
* *
91471005 ATAGGGGTTAAGAGGTTTAGGG
1 TTAAGGGTTAAG-GGTTTAGGG
91471027 TT
1 TT
91471029 TAGATTAATT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
21 30 0.58
22 17 0.33
23 5 0.10
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTTAGGG
Found at i:91475261 original size:46 final size:46
Alignment explanation
Indices: 91475208--91475302 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
91475198 TCCTGTTTTT
91475208 TTCTTGTTTTATATGATATTATTAGCATTTGGAGTTTCTTACTTTA
1 TTCTTGTTTTATATGATATTATTAGCATTTGGAGTTTCTTACTTTA
91475254 TTCTTGTTTTATATGATATTATTAGCATTTGGAGTTTCTTACTTTA
1 TTCTTGTTTTATATGATATTATTAGCATTTGGAGTTTCTTACTTTA
91475300 TTC
1 TTC
91475303 CATTGAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (46 bp):
TTCTTGTTTTATATGATATTATTAGCATTTGGAGTTTCTTACTTTA
Found at i:91477190 original size:21 final size:21
Alignment explanation
Indices: 91477166--91477218 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
91477156 CGCTGTTTCT
* *
91477166 AATCTCACTGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
91477187 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
91477208 AATCTCACCGC
1 AATCTCACCGC
91477219 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:91479439 original size:29 final size:29
Alignment explanation
Indices: 91479401--91479491 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
91479391 GAGTCTGGAT
*
91479401 TTCAGCAATTTTTAAATGTAGTCAATGTTA
1 TTCAG-AATTTTTTAATGTAGTCAATGTTA
91479431 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
91479460 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
91479489 TTC
1 TTC
91479492 CGGTATAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 55 0.92
30 5 0.08
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (29 bp):
TTCAGAATTTTTTAATGTAGTCAATGTTA
Found at i:91481215 original size:27 final size:28
Alignment explanation
Indices: 91481106--91481228 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
91481096 GAGATTGGCG
* * * *
91481106 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
91481135 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
91481163 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
91481191 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
91481218 CTGAGTGTGCG
1 CTAAGTGTGCG
91481229 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.26
28 49 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:91481239 original size:27 final size:27
Alignment explanation
Indices: 91481131--91481241 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
91481121 TAAATTGTAC
*
91481131 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
* *
91481159 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
91481187 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
91481214 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
91481241 A
1 A
91481242 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 29 0.38
28 47 0.62
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:91489175 original size:28 final size:28
Alignment explanation
Indices: 91489110--91489232 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
91489100 GAGATTGGCG
* * * *
91489110 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
91489139 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
91489167 CTAAGTGTGCGAGTTTTATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
91489195 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
91489222 CTGAGTGTGCG
1 CTAAGTGTGCG
91489233 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.26
28 48 0.56
29 15 0.18
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:91489243 original size:27 final size:27
Alignment explanation
Indices: 91489135--91489245 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 27
91489125 TAAATTGTAC
*
91489135 AGCACTAAGTGTGC-GAGTTTGATTATAT
1 AGCACTAAGTGTGCGGA-CTT-ATTATAT
** *
91489163 AGCACTAAGTGTGCGAGTTTTATTACAT
1 AGCACTAAGTGTGCG-GACTTATTATAT
*
91489191 AGCACTAAGTGTGC-GAGTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
91489218 AGCACTGAGTGTGCGGACTTAATATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
91489245 A
1 A
91489246 CTTTTGAATC
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 26 0.37
28 38 0.54
29 3 0.04
30 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:91491233 original size:22 final size:21
Alignment explanation
Indices: 91491201--91491243 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
91491191 GATTAATATT
*
91491201 TTATATTTAATATTTATAAATA
1 TTATATATAAT-TTTATAAATA
*
91491223 TTATATATAATTTTTTAAATA
1 TTATATATAATTTTATAAATA
91491244 ACAATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATATAATTTTATAAATA
Found at i:91492476 original size:28 final size:28
Alignment explanation
Indices: 91492436--91492490 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
91492426 AGAAGTGGCA
91492436 TTTGTGGGAGAAGCG-CTGCTAAAGGTCG
1 TTTGTGGGAGAAGCGTC-GCTAAAGGTCG
91492464 TTTGTGGGAGAAGCGTCGCTAAAGGTC
1 TTTGTGGGAGAAGCGTCGCTAAAGGTC
91492491 ATGACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.22, C:0.15, G:0.38, T:0.25
Consensus pattern (28 bp):
TTTGTGGGAGAAGCGTCGCTAAAGGTCG
Found at i:91497777 original size:22 final size:22
Alignment explanation
Indices: 91497729--91497789 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
91497719 ACCACACCAG
* ** *
91497729 TAGGCATCGAAGTGCTTTAACAG
1 TAGGCACCGAAGTGC-AAAACAA
*
91497752 TAGGCACCGTAGTGCAAAACAA
1 TAGGCACCGAAGTGCAAAACAA
*
91497774 TAGGCACTGAAGTGCA
1 TAGGCACCGAAGTGCA
91497790 GAATAGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (22 bp):
TAGGCACCGAAGTGCAAAACAA
Found at i:91505510 original size:27 final size:27
Alignment explanation
Indices: 91505480--91505677 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
91505470 TATTGAAATG
**
91505480 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
91505507 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
91505534 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
91505561 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
91505588 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
91505615 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * **
91505642 CCTTCAATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
91505669 CCATCGATT
1 CCCTCGATT
91505678 GTGAAATTAT
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:91505604 original size:81 final size:81
Alignment explanation
Indices: 91505480--91505677 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
91505470 TATTGAAATG
* * *
91505480 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTA
*
91505545 CAAAATTATCATTTTA
66 CAAAATTACCATTTTA
*
91505561 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTA
91505626 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * ** *
91505642 CCTTCAATTTACAAAATTACTGTTTTACCATCGATT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATT
91505678 GTGAAATTAT
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:91505721 original size:28 final size:27
Alignment explanation
Indices: 91505690--91505835 Score: 87
Period size: 27 Copynumber: 5.4 Consensus size: 27
91505680 GAAATTATTG
* *
91505690 AAATACCCCTTGTAGGATAGAATTACCA
1 AAATACCCCTAGTAGG-TAAAATTACCA
**
91505718 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTAGGTAAAATTACCA
* ** * **
91505745 AAATACCCGTAGTTTGTGAAATTACTG
1 AAATACCCCTAGTAGGTAAAATTACCA
** ** * *
91505772 AAATACCATTAGTTTGTGAAATTACCG
1 AAATACCCCTAGTAGGTAAAATTACCA
* * **
91505799 AAATA-CCTTCAATTTGTAAAATTACCA
1 AAATACCCCT-AGTAGGTAAAATTACCA
91505826 AAATACCCCT
1 AAATACCCCT
91505836 GATTTACAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 3 0.03
27 81 0.81
28 16 0.16
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATACCCCTAGTAGGTAAAATTACCA
Found at i:91505746 original size:27 final size:27
Alignment explanation
Indices: 91505710--91505945 Score: 183
Period size: 27 Copynumber: 8.7 Consensus size: 27
91505700 TGTAGGATAG
*
91505710 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
91505737 AATTACCAAAATACCCGTAGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAA
** * *
91505764 AATTACTGAAATACCATTAGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
91505791 AATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCTT-AGTTTGTAA
* **
91505818 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* *
91505845 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AA
* * * **
91505874 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
**
91505901 AATTACTGAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
91505928 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
91505946 GTAGGATGAA
Statistics
Matches: 167, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.03
27 134 0.80
28 10 0.06
29 18 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:91507101 original size:42 final size:42
Alignment explanation
Indices: 91507042--91507175 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
91507032 TAGTCTCCCC
91507042 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
91507084 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
91507126 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
91507168 AAATGGGC
1 AAATGGGC
91507176 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:91507235 original size:31 final size:31
Alignment explanation
Indices: 91507199--91507344 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
91507189 CGTTTACAGT
*
91507199 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
91507230 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
91507261 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
91507292 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
91507323 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
91507345 TCAAGACTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.05
31 104 0.95
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:91513052 original size:27 final size:27
Alignment explanation
Indices: 91512998--91513108 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
91512988 AGCATGGCTG
* * *
91512998 CCAGAAAAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
91513024 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
91513051 CCAGAACAGGT-ATATGTGGTAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
91513078 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
91513105 CCAG
1 CCAG
91513109 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.19
27 57 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:91513515 original size:8 final size:8
Alignment explanation
Indices: 91513489--91513518 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
91513479 CAAAATACTA
91513489 GCTTTTCG
1 GCTTTTCG
*
91513497 GCATTTCG
1 GCTTTTCG
91513505 GCTTTTCG
1 GCTTTTCG
91513513 GCTTTT
1 GCTTTT
91513519 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:91514534 original size:24 final size:24
Alignment explanation
Indices: 91514502--91514575 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
91514492 TGATTTTCTC
91514502 CCCTTATCAACTCCTAAATCCTCT
1 CCCTTATCAACTCCTAAATCCTCT
* *
91514526 CCCTTATCAGCTCCTAAATCCTAT
1 CCCTTATCAACTCCTAAATCCTCT
*
91514550 CCCTTATCAACTCCTAAATCCCCT
1 CCCTTATCAACTCCTAAATCCTCT
91514574 CC
1 CC
91514576 TGGCATACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.24, C:0.43, G:0.01, T:0.31
Consensus pattern (24 bp):
CCCTTATCAACTCCTAAATCCTCT
Found at i:91523939 original size:55 final size:54
Alignment explanation
Indices: 91523844--91523993 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
91523834 CTACTTTGTT
* ** * *
91523844 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
91523898 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
91523953 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
91523994 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:91523956 original size:27 final size:27
Alignment explanation
Indices: 91523816--91523993 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
91523806 TAAATTGTAC
91523816 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
91523843 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
91523869 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
91523897 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
91523925 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
91523952 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
91523979 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
91523994 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:91523957 original size:82 final size:81
Alignment explanation
Indices: 91523817--91523972 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
91523807 AAATTGTACA
* * * *
91523817 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
91523882 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
91523898 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
91523961 TGTGCGAGTTGA
63 TGTGCGAATTGA
91523973 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:91531944 original size:55 final size:54
Alignment explanation
Indices: 91531849--91531998 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
91531839 CTACTTTGTT
* ** * *
91531849 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
91531903 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
91531958 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
91531999 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:91531961 original size:27 final size:27
Alignment explanation
Indices: 91531821--91531998 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
91531811 TAAATTGTAC
91531821 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
91531848 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
91531874 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
91531902 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
91531930 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
91531957 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
91531984 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
91531999 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:91531962 original size:82 final size:81
Alignment explanation
Indices: 91531822--91531977 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
91531812 AAATTGTACA
* * * *
91531822 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
91531887 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
91531903 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
91531966 TGTGCGAGTTGA
63 TGTGCGAATTGA
91531978 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:91540574 original size:40 final size:40
Alignment explanation
Indices: 91540496--91540719 Score: 285
Period size: 40 Copynumber: 5.5 Consensus size: 40
91540486 ACCCAAGTAT
* *
91540496 CTTCGGGATTTAG-CCGGATATA-TCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
**
91540535 CTTC-GGATCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
91540575 CTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
91540615 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
91540658 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
91540698 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
91540720 CATCCGAATA
Statistics
Matches: 162, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.02
39 9 0.06
40 110 0.68
41 5 0.03
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:91540692 original size:83 final size:80
Alignment explanation
Indices: 91540496--91540719 Score: 285
Period size: 83 Copynumber: 2.8 Consensus size: 80
91540486 ACCCAAGTAT
* *
91540496 CTTCGGGATTTAG-CCGGATATA-TCAACTCGCACAAATGCCTTC-GGATCTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATAGT-AACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATA
**
91540558 GTCACTAGCATGAATGC
64 GTCACTAGCACAAATGC
* * *
91540575 CTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
91540639 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
91540658 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
91540720 CATCCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 12 0.10
80 45 0.36
81 4 0.03
83 65 0.52
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:91549226 original size:21 final size:21
Alignment explanation
Indices: 91549200--91549240 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
91549190 ATCTTATGGC
91549200 AAAA-GGTTAAAAGATATTTGG
1 AAAAGGGTT-AAAGATATTTGG
91549221 AAAAGGGTTAAAGATATTTG
1 AAAAGGGTTAAAGATATTTG
91549241 ACAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
AAAAGGGTTAAAGATATTTGG
Found at i:91557341 original size:28 final size:28
Alignment explanation
Indices: 91557304--91557370 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
91557294 AATATATAAC
91557304 ATAAATTATTTTTTAATATTTTAGTAAA
1 ATAAATTATTTTTTAATATTTTAGTAAA
*
91557332 ATAGATTATTTTTTAATATTTTAGTAAA
1 ATAAATTATTTTTTAATATTTTAGTAAA
91557360 ATAAATT-TTTT
1 ATAAATTATTTT
91557371 GAGGGAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 4 0.11
28 33 0.89
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
ATAAATTATTTTTTAATATTTTAGTAAA
Found at i:91557837 original size:19 final size:19
Alignment explanation
Indices: 91557813--91557873 Score: 86
Period size: 20 Copynumber: 3.1 Consensus size: 19
91557803 ATTTGATCCT
91557813 AATTTTAAAAATACATAAA
1 AATTTTAAAAATACATAAA
*
91557832 AATTTTAAAAATAAAATAAA
1 AATTTTAAAAAT-ACATAAA
*
91557852 AATATTAAAAATACATTAAA
1 AATTTTAAAAATACA-TAAA
91557872 AA
1 AA
91557874 ACTTCAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTTTAAAAATACATAAA
Found at i:91564443 original size:7 final size:7
Alignment explanation
Indices: 91564437--91564491 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
91564427 TTTTTGATTT
*
91564437 TCAATTT
1 TCAATTC
* *
91564444 TCATTTT
1 TCAATTC
*
91564451 TCAATTT
1 TCAATTC
*
91564458 TCAATCC
1 TCAATTC
*
91564465 TCAATCC
1 TCAATTC
91564472 TCAATTC
1 TCAATTC
91564479 TCAATTC
1 TCAATTC
91564486 TCAATT
1 TCAATT
91564492 ATTTTTTTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.47
Consensus pattern (7 bp):
TCAATTC
Found at i:91564459 original size:14 final size:14
Alignment explanation
Indices: 91564434--91564460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91564424 TGGTTTTTGA
91564434 TTTTCAATTTTCAT
1 TTTTCAATTTTCAT
91564448 TTTTCAATTTTCA
1 TTTTCAATTTTCA
91564461 ATCCTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTTCAT
Found at i:91564475 original size:21 final size:21
Alignment explanation
Indices: 91564451--91564490 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91564441 TTTTCATTTT
*
91564451 TCAATTTTCAATCCTCAATCC
1 TCAATTCTCAATCCTCAATCC
*
91564472 TCAATTCTCAATTCTCAAT
1 TCAATTCTCAATCCTCAAT
91564491 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAATTCTCAATCCTCAATCC
Found at i:91564538 original size:20 final size:20
Alignment explanation
Indices: 91564515--91564563 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
91564505 CTTTTTCTGA
91564515 ATTTTATTCTCTTCTATTTT
1 ATTTTATTCTCTTCTATTTT
91564535 ATTTTATTCTCTTCTATTTT
1 ATTTTATTCTCTTCTATTTT
91564555 ATTTTATTC
1 ATTTTATTC
91564564 CTTACAAGTT
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:0.16, C:0.14, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTATTCTCTTCTATTTT
Found at i:91569319 original size:67 final size:68
Alignment explanation
Indices: 91569199--91569438 Score: 263
Period size: 67 Copynumber: 3.6 Consensus size: 68
91569189 GCTGAACAAA
** * *
91569199 GGTTACAAGGTGTAAGAGTATAGCTCGACTATGGCAACTAATAGTG-TCTACCAGGACATTAAAC
1 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTC-ACCAGGACATTAAAC
91569263 ATGG
65 ATGG
* * * **
91569267 GGTTAC-ATGTGTAAGACCATAGCTCAACTATGGCAACGAATAGAGTTCACCAGGATGTTAAACA
1 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTCACCAGGACATTAAACA
91569331 TGG
66 TGG
* * * ** * * * *
91569334 AGATACAAGGTGTAAGCCCATAGCTCGACTATGAAAACCTATAGAGTCCACAAGGACATTAAGCA
1 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTCACCAGGACATTAAACA
91569399 TGG
66 TGG
*
91569402 GGTTATATA--TGTAAGACCATAGCTCGACTATGGCAAC
1 GGTTACA-AGGTGTAAGACCATAGCTCGACTATGGCAAC
91569439 ATGTTGATTT
Statistics
Matches: 141, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
67 79 0.56
68 61 0.43
69 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (68 bp):
GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTTCACCAGGACATTAAACA
TGG
Found at i:91573233 original size:67 final size:64
Alignment explanation
Indices: 91573109--91573281 Score: 179
Period size: 64 Copynumber: 2.7 Consensus size: 64
91573099 TCTCTTGTAC
* * * * * * *
91573109 ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAACCA-ATTTATCTCGTAGCTCTCTTATCT
1 ACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCT
* * * *
91573172 ACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGT
1 ACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTAT
91573237 CT
63 CT
* *
91573239 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATA
1 ACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATA
91573282 ATAATGTCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
63 8 0.09
64 30 0.33
66 22 0.24
67 30 0.33
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (64 bp):
ACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCT
Found at i:91573530 original size:29 final size:29
Alignment explanation
Indices: 91573497--91573558 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
91573487 GTATTACTTA
*
91573497 CATATAAGCTTACAATATCCCATAATATC
1 CATATAAACTTACAATATCCCATAATATC
91573526 CATATAAACTTACAATATCCCATAATATC
1 CATATAAACTTACAATATCCCATAATATC
91573555 CATA
1 CATA
91573559 ATCATAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.31
Consensus pattern (29 bp):
CATATAAACTTACAATATCCCATAATATC
Found at i:91577663 original size:23 final size:22
Alignment explanation
Indices: 91577618--91577661 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
91577608 AATGAGAAAG
* *
91577618 ATGATAATTTTTTTTCATCTTT
1 ATGACAATTTTTTTTAATCTTT
91577640 ATGACAATTTTTTTTAATCTTT
1 ATGACAATTTTTTTTAATCTTT
91577662 TAATTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (22 bp):
ATGACAATTTTTTTTAATCTTT
Found at i:91579385 original size:57 final size:58
Alignment explanation
Indices: 91579290--91579430 Score: 142
Period size: 57 Copynumber: 2.4 Consensus size: 58
91579280 ATCATATAAC
** * * * **
91579290 AGGATTACTTGTCCAAGCTAAATCCTATGTCCAACATATGCTTATA-AGAGCTTA-ATT
1 AGGATTACCAGTCCAGGCTAAATCCTATCTACAACATATGCCCA-AGAGAGCTTATATT
* ** * *
91579347 AGGATTACCCGTCTGGGCTAAATCCTATCTATATCATATGCCCAAGAGAGCTTATATT
1 AGGATTACCAGTCCAGGCTAAATCCTATCTACAACATATGCCCAAGAGAGCTTATATT
*
91579405 AGGATTACTAGTCCAGGCTAAATCCT
1 AGGATTACCAGTCCAGGCTAAATCCT
91579431 TACTGTAATG
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
56 1 0.01
57 41 0.61
58 25 0.37
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (58 bp):
AGGATTACCAGTCCAGGCTAAATCCTATCTACAACATATGCCCAAGAGAGCTTATATT
Found at i:91583804 original size:22 final size:22
Alignment explanation
Indices: 91583786--91583834 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
91583776 TTGGGCCATG
91583786 TGGGTCCACACGGCAGGCCACA
1 TGGGTCCACACGGCAGGCCACA
91583808 TGGGTCCACACGGCAGGCCACA
1 TGGGTCCACACGGCAGGCCACA
91583830 TGGGT
1 TGGGT
91583835 GTGTGAGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.33, G:0.35, T:0.12
Consensus pattern (22 bp):
TGGGTCCACACGGCAGGCCACA
Found at i:91590499 original size:57 final size:58
Alignment explanation
Indices: 91590419--91590527 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
91590409 TACTTGTCCA
* * * *
91590419 AGCTAAATCCTATGTCCAACATATGCTCATAAGAGCTTA-ATCAGGATTACCCATCTG
1 AGCTAAATCCTATCTACAACATATGCTCAAAAGAGCTTATATCAAGATTACCCATCTG
* *
91590476 AGCTAAATCCTATCTATATCATATGCTCAAAAGAGCTTATATCAAGATTACC
1 AGCTAAATCCTATCTACAACATATGCTCAAAAGAGCTTATATCAAGATTACC
91590528 AGTCCAGACT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 34 0.76
58 11 0.24
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (58 bp):
AGCTAAATCCTATCTACAACATATGCTCAAAAGAGCTTATATCAAGATTACCCATCTG
Found at i:91593989 original size:12 final size:12
Alignment explanation
Indices: 91593974--91594003 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
91593964 GGCTATGTAA
91593974 CAGGCCATGTCC
1 CAGGCCATGTCC
91593986 CAGGCCATGTCC
1 CAGGCCATGTCC
91593998 CAGGCC
1 CAGGCC
91594004 GTGTGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.43, G:0.27, T:0.13
Consensus pattern (12 bp):
CAGGCCATGTCC
Found at i:91600040 original size:23 final size:22
Alignment explanation
Indices: 91600009--91600060 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
91599999 TATCTAATCT
* *
91600009 TTCTTTTTTTATATCTTTTCTC
1 TTCTTTTTTCATATCATTTCTC
*
91600031 TTCTTCTTTTCATTTCATTTCTC
1 TTCTT-TTTTCATATCATTTCTC
91600054 TTCTTTT
1 TTCTTTT
91600061 GATCTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (22 bp):
TTCTTTTTTCATATCATTTCTC
Done.