Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 44 of 205
Found at i:13107451 original size:17 final size:16
Alignment explanation
Indices: 13107423--13107478 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
13107413 GATGTTATAG
* *
13107423 ATTTGGGGATTTCATA
1 ATTTGGGGATTTAAAA
*
13107439 ATTTGGGGAATTTAACA
1 ATTTGGGG-ATTTAAAA
* *
13107456 AGTTGGGGATTTTAAA
1 ATTTGGGGATTTAAAA
13107472 ATTTGGG
1 ATTTGGG
13107479 AAAAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (16 bp):
ATTTGGGGATTTAAAA
Found at i:13107892 original size:15 final size:15
Alignment explanation
Indices: 13107872--13107902 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13107862 GTATATATAT
13107872 ATGAGATTTATCAAG
1 ATGAGATTTATCAAG
13107887 ATGAGATTTATCAAG
1 ATGAGATTTATCAAG
13107902 A
1 A
13107903 CAAGGGCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
ATGAGATTTATCAAG
Found at i:13108517 original size:25 final size:24
Alignment explanation
Indices: 13108487--13108558 Score: 101
Period size: 23 Copynumber: 3.0 Consensus size: 24
13108477 CCCGGCCCAT
*
13108487 ATTAAATATATATAATATATATTTG
1 ATTAAAAATA-ATAATATATATTTG
13108512 ATTAAAAATAAT-ATATATATTTG
1 ATTAAAAATAATAATATATATTTG
*
13108535 ATTAAAAATAAAAAATATATATTT
1 ATTAAAAAT-AATAATATATATTT
13108559 AATATATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.47
24 4 0.09
25 19 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
ATTAAAAATAATAATATATATTTG
Found at i:13108906 original size:27 final size:27
Alignment explanation
Indices: 13108868--13108924 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
13108858 GCTATTGTGG
13108868 CCCTAATAGGGTTTCAGTGAATAGGCT
1 CCCTAATAGGGTTTCAGTGAATAGGCT
13108895 CCCTAATAGGGTTTCAGTGAATAGGCT
1 CCCTAATAGGGTTTCAGTGAATAGGCT
13108922 CCC
1 CCC
13108925 CTTGAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (27 bp):
CCCTAATAGGGTTTCAGTGAATAGGCT
Found at i:13108978 original size:110 final size:110
Alignment explanation
Indices: 13108785--13109007 Score: 410
Period size: 110 Copynumber: 2.0 Consensus size: 110
13108775 GCTATTGTGA
13108785 CCCTAATAGGGTTTCAATGAATAGGCTCCCCTCGAAAACAAGAGAGAAACTCTCTCTCAAACAAC
1 CCCTAATAGGGTTTCAATGAATAGGCTCCCCTCGAAAACAAGAGAGAAACTCTCTCTCAAACAAC
*
13108850 TTCAAATTGCTATTGTGGCCCTAATAGGGTTTCAGTGAATAGGCT
66 TTCAAATTGCTATTGTGGCCCTAATAGGGTTTCAATGAATAGGCT
* * *
13108895 CCCTAATAGGGTTTCAGTGAATAGGCTCCCCTTGAAAACAAGAGAGAAACTTTCTCTCAAACAAC
1 CCCTAATAGGGTTTCAATGAATAGGCTCCCCTCGAAAACAAGAGAGAAACTCTCTCTCAAACAAC
13108960 TTCAAATTGCTATTGTGGCCCTAATAGGGTTTCAATGAATAGGCT
66 TTCAAATTGCTATTGTGGCCCTAATAGGGTTTCAATGAATAGGCT
13109005 CCC
1 CCC
13109008 CTCGAAAACA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (110 bp):
CCCTAATAGGGTTTCAATGAATAGGCTCCCCTCGAAAACAAGAGAGAAACTCTCTCTCAAACAAC
TTCAAATTGCTATTGTGGCCCTAATAGGGTTTCAATGAATAGGCT
Found at i:13111984 original size:24 final size:26
Alignment explanation
Indices: 13111949--13112004 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
13111939 TGCCACATGC
*
13111949 AAATTAAGTTT-ACTT-AAAACAAAA
1 AAATTAAGTTTAAATTAAAAACAAAA
*
13111973 AAATTACA-TTTAAATTAAAAACTAAA
1 AAATTA-AGTTTAAATTAAAAACAAAA
13111999 AAATTA
1 AAATTA
13112005 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.33
25 4 0.15
26 14 0.52
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATTAAGTTTAAATTAAAAACAAAA
Found at i:13112012 original size:28 final size:26
Alignment explanation
Indices: 13111964--13112015 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
13111954 AAGTTTACTT
*
13111964 AAAACAAAAAAATTACATTTAAATTA
1 AAAACAAAAAAATTAAATTTAAATTA
*
13111990 AAAACTAAAAAATTATAATTTTAAAT
1 AAAACAAAAAAATTA-AA-TTTAAAT
13112016 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 1 0.05
28 7 0.32
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAACAAAAAAATTAAATTTAAATTA
Found at i:13112314 original size:27 final size:27
Alignment explanation
Indices: 13112277--13112328 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
13112267 TAATTGTATG
*
13112277 TTTTAGAATTTTATAAAAATATTTTAT
1 TTTTAAAATTTTATAAAAATATTTTAT
*
13112304 TTTTAAAATTTTTTAAAAATATTTT
1 TTTTAAAATTTTATAAAAATATTTT
13112329 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTAAAATTTTATAAAAATATTTTAT
Found at i:13112342 original size:13 final size:13
Alignment explanation
Indices: 13112284--13112343 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
13112274 ATGTTTTAGA
*
13112284 ATTTTATAAAAAT
1 ATTTTTTAAAAAT
**
13112297 ATTTTATTTTTAAA-
1 A-TTT-TTTAAAAAT
13112311 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
13112324 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
13112337 ATTTTTT
1 ATTTTTT
13112344 TTACAATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 6 0.15
13 24 0.62
14 4 0.10
15 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:13112353 original size:11 final size:11
Alignment explanation
Indices: 13112339--13112385 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
13112329 TTAAAAATAT
13112339 TTTTTTTACAA
1 TTTTTTTACAA
*
13112350 TTTTTTTA-TA
1 TTTTTTTACAA
13112360 -TTTTTTACAA
1 TTTTTTTACAA
13112370 TTTTTTTAC-A
1 TTTTTTTACAA
13112380 TTTTTT
1 TTTTTT
13112386 GTAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 7 0.22
10 9 0.28
11 16 0.50
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTTTACAA
Found at i:13112365 original size:20 final size:20
Alignment explanation
Indices: 13112340--13112385 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
13112330 TAAAAATATT
*
13112340 TTTTTTACAATTTTTTTATA
1 TTTTTTACAATTTTTTTACA
13112360 TTTTTTACAATTTTTTTACA
1 TTTTTTACAATTTTTTTACA
13112380 TTTTTT
1 TTTTTT
13112386 GTAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTACAATTTTTTTACA
Found at i:13112503 original size:21 final size:21
Alignment explanation
Indices: 13112479--13112524 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13112469 TTTATATTTT
13112479 ATTTTTCT-AGATTTTATATAA
1 ATTTTTCTGA-ATTTTATATAA
* *
13112500 ATTTTTCTGAATTTTTTATAT
1 ATTTTTCTGAATTTTATATAA
13112521 ATTT
1 ATTT
13112525 ATTTACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
ATTTTTCTGAATTTTATATAA
Found at i:13115636 original size:24 final size:25
Alignment explanation
Indices: 13115609--13115655 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13115599 TTGAAGGTGT
* *
13115609 ATACTTGT-TTTTTTGGAATATAGA
1 ATACTTGTATTATTTAGAATATAGA
13115633 ATACTTGTATTATTTAGAATATA
1 ATACTTGTATTATTTAGAATATA
13115656 TTATACACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (25 bp):
ATACTTGTATTATTTAGAATATAGA
Found at i:13115661 original size:25 final size:24
Alignment explanation
Indices: 13115607--13115661 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
13115597 TTTTGAAGGT
* *
13115607 GTATACTTGTTTTTTTGGAATATA
1 GTATACTTGTTTATTTAGAATATA
*
13115631 GAATACTTGTATTATTTAGAATATA
1 GTATACTTGT-TTATTTAGAATATA
*
13115656 TTATAC
1 GTATAC
13115662 ACTTTAATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (24 bp):
GTATACTTGTTTATTTAGAATATA
Found at i:13118308 original size:22 final size:23
Alignment explanation
Indices: 13118278--13118322 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13118268 AATAGTAAAA
*
13118278 AAAAAATT-ATTTTAGTTAAATT
1 AAAAAATTAATTGTAGTTAAATT
*
13118300 AAAATATTAATTGTAGTTAAATT
1 AAAAAATTAATTGTAGTTAAATT
13118323 TTTTCCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (23 bp):
AAAAAATTAATTGTAGTTAAATT
Found at i:13119023 original size:16 final size:16
Alignment explanation
Indices: 13119004--13119034 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13118994 GCTCTAATGG
*
13119004 AATAGAACTGTAATAA
1 AATAGAACTATAATAA
13119020 AATAGAACTATAATA
1 AATAGAACTATAATA
13119035 GTAATTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (16 bp):
AATAGAACTATAATAA
Found at i:13119105 original size:44 final size:45
Alignment explanation
Indices: 13119015--13119106 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
13119005 ATAGAACTGT
13119015 AATAAAATAGAACTATAATAGTAATTTAATTGTTTGGTTGAATGG
1 AATAAAATAGAACTATAATAGTAATTTAATTGTTTGGTTGAATGG
* * *
13119060 AATAGAATAGAACTGTAATAGT-A-TTATTGTGTTTGGTTGAATGG
1 AATAAAATAGAACTATAATAGTAATTTAAT-TGTTTGGTTGAATGG
13119104 AAT
1 AAT
13119107 GATATTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 4 0.09
44 19 0.44
45 20 0.47
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (45 bp):
AATAAAATAGAACTATAATAGTAATTTAATTGTTTGGTTGAATGG
Found at i:13120462 original size:38 final size:38
Alignment explanation
Indices: 13120413--13120485 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
13120403 GAAAGGGAAA
* *
13120413 AAAAAAAAGCAATTACTTTACCAAAATGGATCCCAGGG
1 AAAAAAAAGCAACTACTTTACCAAAATGGAACCCAGGG
*
13120451 AAAAAAGAGCAACTACTTTACCAAAATGGAACCCA
1 AAAAAAAAGCAACTACTTTACCAAAATGGAACCCA
13120486 ATACAAGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.49, C:0.21, G:0.14, T:0.16
Consensus pattern (38 bp):
AAAAAAAAGCAACTACTTTACCAAAATGGAACCCAGGG
Found at i:13127539 original size:18 final size:18
Alignment explanation
Indices: 13127516--13127557 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
13127506 CTACATCTTG
13127516 TTCCTTA-CCTGCATTTTC
1 TTCCTTAGCC-GCATTTTC
*
13127534 TTCCTTAGCCGTATTTTC
1 TTCCTTAGCCGCATTTTC
13127552 TTCCTT
1 TTCCTT
13127558 GTCGGTCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.10, C:0.31, G:0.07, T:0.52
Consensus pattern (18 bp):
TTCCTTAGCCGCATTTTC
Found at i:13146277 original size:19 final size:19
Alignment explanation
Indices: 13146253--13146380 Score: 211
Period size: 19 Copynumber: 6.7 Consensus size: 19
13146243 AATCTTCAAG
13146253 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * *
13146272 GATATGTAATATTAGACAT
1 GATATGCAATCTTAGATAT
13146291 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13146310 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13146329 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13146348 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13146367 GATATGCAATCTTA
1 GATATGCAATCTTA
13146381 AAATATATGA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 99 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13146295 original size:38 final size:38
Alignment explanation
Indices: 13146253--13146380 Score: 238
Period size: 38 Copynumber: 3.4 Consensus size: 38
13146243 AATCTTCAAG
* *
13146253 GATATGCAATCTTAGATATGATATGTAATATTAGACAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
13146291 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
13146329 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
13146367 GATATGCAATCTTA
1 GATATGCAATCTTA
13146381 AAATATATGA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 88 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:13149642 original size:32 final size:32
Alignment explanation
Indices: 13149601--13149664 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
13149591 CAGAGGAGAA
13149601 GAAAATTTACTATGTCGAATTCAAATAAATAC
1 GAAAATTTACTATGTCGAATTCAAATAAATAC
13149633 GAAAATTTACTATGTCGAATTCAAATAAATAC
1 GAAAATTTACTATGTCGAATTCAAATAAATAC
13149665 AAGGAGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
GAAAATTTACTATGTCGAATTCAAATAAATAC
Found at i:13151901 original size:15 final size:16
Alignment explanation
Indices: 13151883--13151919 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
13151873 ATTTTGGAGG
13151883 ATTTCT-TTTTATTTT
1 ATTTCTATTTTATTTT
13151898 ATTT-TATTTTATTTT
1 ATTTCTATTTTATTTT
13151913 -TTTCTAT
1 ATTTCTAT
13151920 AATTCTGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTCTATTTTATTTT
Found at i:13152758 original size:3 final size:3
Alignment explanation
Indices: 13152689--13152742 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
13152679 GTTTTGTTAC
* * * *
13152689 TAT TAT TAT TAT CAT TAT AAT TA- AAT T-T CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13152735 TAT TAT TA
1 TAT TAT TA
13152743 CCGCTTTGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:13154485 original size:29 final size:29
Alignment explanation
Indices: 13154444--13154501 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13154434 TTATAGAGAC
*
13154444 TGGATAAAATTAGT-TCCTCTATTATTAAA
1 TGGATAAAATTAGTCT-CTATATTATTAAA
* *
13154473 TGGATCAATTTAGTCTCTATATTATTAAA
1 TGGATAAAATTAGTCTCTATATTATTAAA
13154502 AATAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (29 bp):
TGGATAAAATTAGTCTCTATATTATTAAA
Found at i:13155245 original size:3 final size:3
Alignment explanation
Indices: 13155233--13155325 Score: 179
Period size: 3 Copynumber: 31.3 Consensus size: 3
13155223 GCATCTCCAT
13155233 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
13155280 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
13155326 ACTGTTAACT
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 87 0.98
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:13156170 original size:20 final size:20
Alignment explanation
Indices: 13156145--13156184 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13156135 CGTAAAATGA
*
13156145 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
13156165 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13156185 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13156174 original size:34 final size:35
Alignment explanation
Indices: 13156130--13156196 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13156120 CAGTAAAATA
*
13156130 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
13156164 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
13156197 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:13156200 original size:14 final size:15
Alignment explanation
Indices: 13156124--13156200 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
13156114 GATTGCCAGT
* *
13156124 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
13156138 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
13156152 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
13156172 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
13156187 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
13156201 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:13157811 original size:34 final size:33
Alignment explanation
Indices: 13157773--13157836 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
13157763 CCACTCTGTG
*
13157773 AGTGAAAAGTAATAAAAATTATTACAAAATAAAA
1 AGTGAAAAATAATAAAAATTATTA-AAAATAAAA
* *
13157807 AGTGAAAAATAATGAATATTATTAAAAATA
1 AGTGAAAAATAATAAAAATTATTAAAAATA
13157837 GGGGAAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (33 bp):
AGTGAAAAATAATAAAAATTATTAAAAATAAAA
Found at i:13161161 original size:42 final size:42
Alignment explanation
Indices: 13161114--13161233 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 42
13161104 TTCTGAGGTG
*
13161114 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCG-TATA
1 TGATTTCATGTAAGACCATATCTGGGACA-TGGCATCGATATA
*
13161156 TGATTTCATGTAAGACCCTATCTGGGACAGTGGCATCGATATA
1 TGATTTCATGTAAGACCATATCTGGGACA-TGGCATCGATATA
* ** * *
13161199 TTATAACATGTAAGACTATATCTGGGATATGGCAT
1 TGATTTCATGTAAGACCATATCTGGGACATGGCAT
13161234 TGTACAAGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 41 0.60
43 27 0.40
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATATA
Found at i:13161831 original size:25 final size:25
Alignment explanation
Indices: 13161802--13161877 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
13161792 GCTTAATTGT
13161802 TGTCCATTTTTGAGCATATTAATGC
1 TGTCCATTTTTGAGCATATTAATGC
** * * *
13161827 TGTCCAAATTAGTGC-T-TAAATGC
1 TGTCCATTTTTGAGCATATTAATGC
13161850 TGTCCATTTTTGAGCATATTAATGC
1 TGTCCATTTTTGAGCATATTAATGC
13161875 TGT
1 TGT
13161878 TCAAATTAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 17 0.44
24 2 0.05
25 20 0.51
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (25 bp):
TGTCCATTTTTGAGCATATTAATGC
Found at i:13161831 original size:48 final size:48
Alignment explanation
Indices: 13161775--13162030 Score: 298
Period size: 48 Copynumber: 5.3 Consensus size: 48
13161765 TGATGATAAG
* *
13161775 ATGCTGTCCAAATTGGTGCTTAATTGTTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
*
13161823 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
* * ** *
13161871 ATGCTGTTCAAATTAGTGCTTAAATGCTGTTTATTTTTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA---TTTTTGAGCATATTA
* * * * * *
13161922 ATTCTGTCCAAATTGATTCTTAATTGCTGTCCATTTTTTAGTATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
* * * *
13161970 ATGCTATCCAAATTGGTGCTTAAATGATGTCCATTTTTGTA-CAAATCA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTG-AGCATATTA
*
13162018 ATGCTATCCAAAT
1 ATGCTGTCCAAAT
13162031 GTTGTTACTA
Statistics
Matches: 178, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 138 0.78
49 1 0.01
51 39 0.22
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (48 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
Found at i:13161901 original size:23 final size:23
Alignment explanation
Indices: 13161775--13161900 Score: 90
Period size: 23 Copynumber: 5.3 Consensus size: 23
13161765 TGATGATAAG
*
13161775 ATGCTGTCCAAATTGGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** * * *
13161798 TTGTTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGC-T-TAA
13161823 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
** * * *
13161846 ATGCTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGC-T-TAA
*
13161871 ATGCTGTTCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
13161894 ATGCTGT
1 ATGCTGT
13161901 TTATTTTTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 8
0.69 0.23 0.07
Matches are distributed among these distances:
23 39 0.53
24 4 0.05
25 31 0.42
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:13162006 original size:99 final size:99
Alignment explanation
Indices: 13161775--13162007 Score: 303
Period size: 99 Copynumber: 2.4 Consensus size: 99
13161765 TGATGATAAG
* *
13161775 ATGCTGTCCAAATTGGTGCTTAATTGTTGTCCA---TTTTTGAGCATATTAATGCTGTCCAAATT
1 ATGCTGTCCAAATTGGTGCTTAAATGATGTCCATTTTTTTTGAGCATATTAATGCTGTCCAAATT
13161837 AGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
66 AGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
* * * ** * *
13161871 ATGCTGTTCAAATTAGTGCTTAAATGCTGTTTATTTTTTTTTAGCATATTAATTCTGTCCAAATT
1 ATGCTGTCCAAATTGGTGCTTAAATGATGTCCATTTTTTTTGAGCATATTAATGCTGTCCAAATT
* * * *
13161936 -GATTCTTAATTGCTGTCCATTTTTTAGTATATTA
66 AG-TGCTTAAATGCTGTCCATTTTTGAGCATATTA
*
13161970 ATGCTATCCAAATTGGTGCTTAAATGATGTCCATTTTT
1 ATGCTGTCCAAATTGGTGCTTAAATGATGTCCATTTTT
13162008 GTACAAATCA
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
96 27 0.23
98 1 0.01
99 87 0.76
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (99 bp):
ATGCTGTCCAAATTGGTGCTTAAATGATGTCCATTTTTTTTGAGCATATTAATGCTGTCCAAATT
AGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
Found at i:13163452 original size:3 final size:3
Alignment explanation
Indices: 13163439--13163473 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13163429 ATGAATATAT
*
13163439 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
13163474 CCCCTCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13163851 original size:37 final size:37
Alignment explanation
Indices: 13163806--13163887 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
13163796 ATGAGTTGTG
* * *
13163806 TGGA-GTTGCAATCTTCAATCAGCTAACTCAAATAAT
1 TGGAGGTTGCAATCTTAAATCAGCGAACCCAAATAAT
* *
13163842 TGGAGGTTGCGATCTTAAATCAGCGAGCCCAAATAAT
1 TGGAGGTTGCAATCTTAAATCAGCGAACCCAAATAAT
13163879 TGGAGGTTG
1 TGGAGGTTG
13163888 TGAGCTCAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 4 0.10
37 36 0.90
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (37 bp):
TGGAGGTTGCAATCTTAAATCAGCGAACCCAAATAAT
Found at i:13163994 original size:69 final size:69
Alignment explanation
Indices: 13163915--13164195 Score: 323
Period size: 69 Copynumber: 4.1 Consensus size: 69
13163905 ACCTTTAATC
* *
13163915 ATCAGCTAGGAACGTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAGCAAGCCTTTA
1 ATCAGCTAGGAGCGTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAGCGAGCCTTTA
13163980 CAAT
66 CAAT
* * * * ** *
13163984 ATCAGCTAGGAGCGTAGGTCAGCAAGCTATTTTAGAGGCTGTGATCTTGCATCCGCGAGCCTTTA
1 ATCAGCTAGGAGCGTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAGCGAGCCTTTA
13164049 CAAT
66 CAAT
* * * * * * *
13164053 ATCAACTGGGAGTGTAGGTCCGCGAGCTGTTTC-GAAGGTTGCGATCTTAAATCAACGAGCCTTT
1 ATCAGCTAGGAGCGTAGGTCTGCGAGCTATTTCAG-AGGCTGCGATCTTAAATCAGCGAGCCTTT
13164117 ACAAT
65 ACAAT
* ** * * * *
13164122 ATTAGCT-GAGAGCGTAGGTCTGCGAGCTATTTTGGAAGCTGTGATATTAAATCAGTGAGCCTTT
1 ATCAGCTAG-GAGCGTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAGCGAGCCTTT
13164186 ACAAT
65 ACAAT
13164191 ATCAG
1 ATCAG
13164196 TCTGGATCAT
Statistics
Matches: 174, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
68 2 0.01
69 171 0.98
70 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (69 bp):
ATCAGCTAGGAGCGTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAGCGAGCCTTTA
CAAT
Found at i:13164182 original size:138 final size:138
Alignment explanation
Indices: 13163928--13164194 Score: 367
Period size: 138 Copynumber: 1.9 Consensus size: 138
13163918 AGCTAGGAAC
* *
13163928 GTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAGCAAGCCTTTACAATATCAGCTAG
1 GTAGGTCCGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAACAAGCCTTTACAATATCAGCTAG
* * ** *
13163993 GAGCGTAGGTCAGCAAGCTATTTTAGAGGCTGTGATCTTGCATCCGCGAGCCTTTACAATATCAA
66 GAGCGTAGGTCAGCAAGCTATTTTAGAAGCTGTGATATTAAATCAGCGAGCCTTTACAATATCAA
13164058 CTGGGAGT
131 CTGGGAGT
* * * *
13164066 GTAGGTCCGCGAGCTGTTTC-GAAGGTTGCGATCTTAAATCAACGAGCCTTTACAATATTAGCT-
1 GTAGGTCCGCGAGCTATTTCAG-AGGCTGCGATCTTAAATCAACAAGCCTTTACAATATCAGCTA
* * * *
13164129 GAGAGCGTAGGTCTGCGAGCTATTTTGGAAGCTGTGATATTAAATCAGTGAGCCTTTACAATATC
65 G-GAGCGTAGGTCAGCAAGCTATTTTAGAAGCTGTGATATTAAATCAGCGAGCCTTTACAATATC
13164194 A
129 A
13164195 GTCTGGATCA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
137 2 0.02
138 110 0.98
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (138 bp):
GTAGGTCCGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAACAAGCCTTTACAATATCAGCTAG
GAGCGTAGGTCAGCAAGCTATTTTAGAAGCTGTGATATTAAATCAGCGAGCCTTTACAATATCAA
CTGGGAGT
Found at i:13172935 original size:19 final size:19
Alignment explanation
Indices: 13172892--13172935 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13172882 GAATATTTTT
*
13172892 TATTTTTATAAATTATAAT
1 TATTTTTATAAATTATAAA
* *
13172911 TTTTTTTATAAATTTTAAA
1 TATTTTTATAAATTATAAA
13172930 TATTTT
1 TATTTT
13172936 ATGATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTATAAATTATAAA
Found at i:13173558 original size:43 final size:43
Alignment explanation
Indices: 13173491--13173630 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
13173481 GCTAACATTT
*
13173491 GCGGCGCTTTTCCCAAAAATGCCGCTATAGACCATGACCTTTA
1 GCGGCGCTTTTCCCACAAATGCCGCTATAGACCATGACCTTTA
* * * *
13173534 GCGGCGCTTTTTCCACAAACGCCGCTTTAGAACATGACCTTTA
1 GCGGCGCTTTTCCCACAAATGCCGCTATAGACCATGACCTTTA
* * *
13173577 GCGACGCTTTTCCCACAATTGTCGCTATAGACCATGACCTTTA
1 GCGGCGCTTTTCCCACAAATGCCGCTATAGACCATGACCTTTA
13173620 GCGGCGCTTTT
1 GCGGCGCTTTT
13173631 ATAAAAAACG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (43 bp):
GCGGCGCTTTTCCCACAAATGCCGCTATAGACCATGACCTTTA
Found at i:13174106 original size:66 final size:66
Alignment explanation
Indices: 13173972--13174140 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 66
13173962 CTCGCTGCTG
* * * * * *
13173972 CCTCTGCTTCCCTCGCTGCCGCATCTACTTTAAGCTG-CGCTGGAGTTCTTCATACTTCCTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTCCTTTGA
13174036 A
66 A
*
13174037 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTT-TTTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTCCTTTG
13174101 AA
65 AA
* * * * *
13174103 CCTCAACTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
13174141 GTAATTTGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 32 0.36
66 55 0.61
67 3 0.03
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTCCTTTGA
A
Found at i:13175754 original size:9 final size:9
Alignment explanation
Indices: 13175740--13175999 Score: 145
Period size: 9 Copynumber: 30.7 Consensus size: 9
13175730 ATAGCACATA
13175740 TAAGTTATG
1 TAAGTTATG
13175749 TAAGTTATG
1 TAAGTTATG
13175758 T-A-TTATG
1 TAAGTTATG
*
13175765 TAAGCTATG
1 TAAGTTATG
13175774 T-A-TTATG
1 TAAGTTATG
13175781 TAAGTTATG
1 TAAGTTATG
13175790 T-A-TTATG
1 TAAGTTATG
*
13175797 TAAGTTACG
1 TAAGTTATG
* * *
13175806 TATGTAATA
1 TAAGTTATG
13175815 T-A-TTATG
1 TAAGTTATG
*
13175822 TATGTTATG
1 TAAGTTATG
*
13175831 TAAGTTGTG
1 TAAGTTATG
*
13175840 TATAATGTAAT-
1 --TAA-GTTATG
13175851 TAAGTTATG
1 TAAGTTATG
13175860 TAAG-T-TG
1 TAAGTTATG
13175867 TAAGTTATG
1 TAAGTTATG
*
13175876 TAAGTTATA
1 TAAGTTATG
*
13175885 TATA-ATAT-
1 TA-AGTTATG
13175893 TAA-TTAAT-
1 TAAGTT-ATG
13175901 TAAGTTATG
1 TAAGTTATG
*
13175910 TAAGTTGTG
1 TAAGTTATG
*
13175919 T-A-TAATG
1 TAAGTTATG
13175926 TAAGTTATG
1 TAAGTTATG
13175935 T-A-TTATG
1 TAAGTTATG
13175942 TAAGTTAT-
1 TAAGTTATG
*
13175950 TATGTTATTATG
1 TAAG---TTATG
13175962 TAAGTTATG
1 TAAGTTATG
*
13175971 CAAGTT-T-
1 TAAGTTATG
13175978 T-A-TTATG
1 TAAGTTATG
13175985 TAAGTTATG
1 TAAGTTATG
*
13175994 CAAGTT
1 TAAGTT
13176000 TATATATAAG
Statistics
Matches: 193, Mismatches: 28, Indels: 60
0.69 0.10 0.21
Matches are distributed among these distances:
5 2 0.01
6 2 0.01
7 40 0.21
8 30 0.16
9 105 0.54
10 1 0.01
11 7 0.04
12 6 0.03
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13175765 original size:16 final size:16
Alignment explanation
Indices: 13175744--13175970 Score: 168
Period size: 16 Copynumber: 13.9 Consensus size: 16
13175734 CACATATAAG
13175744 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
13175760 TTATGTAAGCTATGTA
1 TTATGTAAGTTATGTA
13175776 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
13175792 TTATGTAAGTTACGTA
1 TTATGTAAGTTATGTA
*
13175808 TGTA-ATATA-TTATGTA
1 T-TATGTA-AGTTATGTA
*
13175824 TGTTATGTAAGTTGTGTA
1 --TTATGTAAGTTATGTA
* *
13175842 TAATGTAA-TTAAG--
1 TTATGTAAGTTATGTA
13175855 TTATGTAAG-T-TGTAA
1 TTATGTAAGTTATGT-A
*
13175870 GTTATGTAAGTTATATA
1 -TTATGTAAGTTATGTA
13175887 TAATAT-TAA-TTAAT-TAA
1 T--TATGTAAGTT-ATGT-A
*
13175904 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
13175921 TAATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
13175937 TTATGTAAGTTATTATGTTA
1 TTATGTAAG---TTATG-TA
13175957 TTATGTAAGTTATG
1 TTATGTAAGTTATG
13175971 CAAGTTTTAT
Statistics
Matches: 169, Mismatches: 17, Indels: 49
0.72 0.07 0.21
Matches are distributed among these distances:
12 1 0.01
13 8 0.05
15 3 0.02
16 99 0.59
17 24 0.14
18 18 0.11
19 5 0.03
20 11 0.07
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:13175952 original size:12 final size:12
Alignment explanation
Indices: 13175935--13176065 Score: 60
Period size: 12 Copynumber: 11.7 Consensus size: 12
13175925 GTAAGTTATG
13175935 TATTATGTAAGT
1 TATTATGTAAGT
13175947 TATTA--T--GT
1 TATTATGTAAGT
13175955 TATTATGTAAG-
1 TATTATGTAAGT
*
13175966 --TTATGCAAGTTT
1 TATTATGTAAG--T
13175978 TATTATGTAAG-
1 TATTATGTAAGT
*
13175989 --TTATGCAAGT
1 TATTATGTAAGT
*
13175999 T-TATATATAAGT
1 TAT-TATGTAAGT
13176011 TATTA--T--GT
1 TATTATGTAAGT
13176019 TATTATGTAAGT
1 TATTATGTAAGT
13176031 TATTATGTTATTATGT
1 TATTATG-TA--A-GT
13176047 TATTATGTAAGT
1 TATTATGTAAGT
13176059 TA-TATGT
1 TATTATGT
13176066 TACAAAATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 43
0.66 0.04 0.30
Matches are distributed among these distances:
8 14 0.15
9 16 0.17
10 4 0.04
11 6 0.06
12 29 0.31
13 4 0.04
14 8 0.09
15 3 0.03
16 9 0.10
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (12 bp):
TATTATGTAAGT
Found at i:13175984 original size:23 final size:23
Alignment explanation
Indices: 13175954--13176033 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
13175944 AGTTATTATG
13175954 TTATTATGTAAGTTATGCAAGTT
1 TTATTATGTAAGTTATGCAAGTT
13175977 TTATTATGTAAGTTATGCAAG-T
1 TTATTATGTAAGTTATGCAAGTT
* * *
13175999 TTA-TATATAAGTTAT--TA-TG
1 TTATTATGTAAGTTATGCAAGTT
13176018 TTATTATGTAAGTTAT
1 TTATTATGTAAGTTAT
13176034 TATGTTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
19 4 0.08
20 11 0.22
21 11 0.22
22 4 0.08
23 21 0.41
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (23 bp):
TTATTATGTAAGTTATGCAAGTT
Found at i:13176022 original size:8 final size:8
Alignment explanation
Indices: 13176009--13176054 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
13175999 TTATATATAA
13176009 GTTATTAT
1 GTTATTAT
13176017 GTTATTAT
1 GTTATTAT
13176025 G-TA--A-
1 GTTATTAT
13176029 GTTATTAT
1 GTTATTAT
13176037 GTTATTAT
1 GTTATTAT
13176045 GTTATTAT
1 GTTATTAT
13176053 GT
1 GT
13176055 AAGTTATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.03
5 3 0.09
7 3 0.09
8 27 0.79
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (8 bp):
GTTATTAT
Found at i:13176061 original size:20 final size:20
Alignment explanation
Indices: 13175930--13176046 Score: 130
Period size: 20 Copynumber: 5.7 Consensus size: 20
13175920 ATAATGTAAG
13175930 TTATG-TATTATGTAAGTTA
1 TTATGTTATTATGTAAGTTA
13175949 TTATGTTATTATGTAAGTTA
1 TTATGTTATTATGTAAGTTA
* *
13175969 TGCAAGTTTTATTATGTAAGTTA
1 T--TA-TGTTATTATGTAAGTTA
* * *
13175992 TGCAAGTT-TATATATAAGTTA
1 T-TATGTTAT-TATGTAAGTTA
13176013 TTATGTTATTATGTAAGTTA
1 TTATGTTATTATGTAAGTTA
13176033 TTATGTTATTATGT
1 TTATGTTATTATGT
13176047 TATTATGTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
19 5 0.06
20 44 0.54
21 14 0.17
22 2 0.02
23 17 0.21
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (20 bp):
TTATGTTATTATGTAAGTTA
Found at i:13176300 original size:69 final size:69
Alignment explanation
Indices: 13176210--13176353 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 69
13176200 TGGGGTGATA
* * *
13176210 TATTAAAAATATAGGTGTTAATATTTAAAAAATATCATTTACAATTATTTTTAAAATTATAAAAT
1 TATTAAAAATATAGGTGTTAATATTTAAAAAATAACATGTACAATTATTTTTAAAAGTATAAAAT
13176275 TTAT
66 TTAT
* *
13176279 TATTGAAAATATAGGTTTTAATATTTAAAAAATAACATGTACAATTATTTTTAAAAGTATAAAAT
1 TATTAAAAATATAGGTGTTAATATTTAAAAAATAACATGTACAATTATTTTTAAAAGTATAAAAT
13176344 TTAT
66 TTAT
13176348 TATTAA
1 TATTAA
13176354 TAAAATTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (69 bp):
TATTAAAAATATAGGTGTTAATATTTAAAAAATAACATGTACAATTATTTTTAAAAGTATAAAAT
TTAT
Found at i:13177431 original size:12 final size:12
Alignment explanation
Indices: 13177414--13177438 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13177404 CAGGATAATG
13177414 AAAATTATGAAC
1 AAAATTATGAAC
13177426 AAAATTATGAAC
1 AAAATTATGAAC
13177438 A
1 A
13177439 GTTTCAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTATGAAC
Found at i:13177843 original size:24 final size:24
Alignment explanation
Indices: 13177816--13177865 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
13177806 TCTAGATTTG
*
13177816 GGGGAATTTTGGGGAAATATTGGA
1 GGGGAATTTTGGGGAAAAATTGGA
*
13177840 GGGGAATTTTGGGGAAAAATTTGA
1 GGGGAATTTTGGGGAAAAATTGGA
13177864 GG
1 GG
13177866 AGAAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.42, T:0.28
Consensus pattern (24 bp):
GGGGAATTTTGGGGAAAAATTGGA
Found at i:13178723 original size:19 final size:19
Alignment explanation
Indices: 13178693--13178741 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
13178683 TAAAATTAAA
*
13178693 AATTTTAGTTTTTTTATTTC
1 AATTTTA-TTTTTGTATTTC
* *
13178713 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTTGTATTTC
13178732 AATTTTATTT
1 AATTTTATTT
13178742 CTTATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (19 bp):
AATTTTATTTTTGTATTTC
Found at i:13178731 original size:25 final size:26
Alignment explanation
Indices: 13178694--13178746 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
13178684 AAAATTAAAA
* *
13178694 ATTTTAGTTTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
13178719 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
13178745 AT
1 AT
13178747 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:13179222 original size:15 final size:14
Alignment explanation
Indices: 13179179--13179214 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
13179169 CCACTAACAT
13179179 CTAACCCCTAATCC
1 CTAACCCCTAATCC
13179193 CTAAACCCCTAATCC
1 CT-AACCCCTAATCC
13179208 CTAACCC
1 CTAACCC
13179215 TTAAATCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAACCCCTAATCC
Found at i:13179537 original size:22 final size:22
Alignment explanation
Indices: 13179492--13179545 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
13179482 CTTAACTCTT
** *
13179492 AACCCCTAATGTCTAACCCCTA
1 AACCCCTAACCTCTAAACCCTA
*
13179514 AACCCCTAACCTCTAAACCTTA
1 AACCCCTAACCTCTAAACCCTA
*
13179536 AATCCC-AACC
1 AACCCCTAACC
13179546 CTTAATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.35, C:0.43, G:0.02, T:0.20
Consensus pattern (22 bp):
AACCCCTAACCTCTAAACCCTA
Found at i:13179851 original size:311 final size:310
Alignment explanation
Indices: 13179050--13179980 Score: 1132
Period size: 311 Copynumber: 2.9 Consensus size: 310
13179040 ATACATTAAA
** * *
13179050 TTTATTATTATCTCTTTTACAA-GGCATAAAAACATATTTAAAATCTAAATTAAAAA-AA-TCTA
1 TTTATTATTATCTCTTTTACAATTACATAAAAACATATTTAAAATATAAATAAAAAATAATTCTA
*
13179112 AACCCAAAACCCTAACCCGACCTTTGAAATCCTAAACCCTAAATCCTTAACTCTTAACCACTAAC
66 AACCCAAAACCCTAACCCGACCCTT-AAATCCTAAACCCTAAATCCTTAACTCTTAACCACTAAC
*
13179177 ATCTAACCCCTAATCCCTAAACCCCTAATCCC-TAACCCTTAAATCCTAACTAACCCTTAATTAA
130 ATCTAA---C----CCCTAAACCCCTAA-CCCTTAAACCTTAAATCC---C-AACCCTTAATTAA
13179241 AA-CATAATCCCTAATCCCTAATCCATAAATCCATATATAGTACTCCATAAACCTTAAAATATGA
183 AACCATAATCCCTAATCCCTAATCC-TAAATCC--ATATA-TACTCCATAAACCTTAAAATATGA
* *
13179305 ACTCCTAAACCGACTTTAAATCTAAAATTTATCATATACCCCT-AACTAATTAAAAACCCTAAAC
244 ACTCCTAAACCGACCTTAAATCTTAAATTTATCATATA-CCCTAAACTAATTAAAAACCCTAAAC
13179369 AAT
308 AAT
* *
13179372 TTTATTATTA--TCTTTTACAATTACATAATAACATATTTAAAATATAAATAAATAATAATAATC
1 TTTATTATTATCTCTTTTACAATTACATAAAAACATATTTAAAATATAAATAAAAAATAAT--TC
* * * * *
13179435 TAAACCTAAAACCCTAACCCGACCCCTAAAACCCTAAACCTTAAATCCTTAACTCTTAACCCCTA
64 TAAACCCAAAACCCTAACCCGA-CCCTTAAATCCTAAACCCTAAATCCTTAACTCTTAACCACTA
**
13179500 ATGTCTAACCCCTAAACCCCTAA-CCTCTAAACCTTAAATCCCAACCCTTAATTAAAACCATAAT
128 ACATCTAACCCCTAAACCCCTAACCCT-TAAACCTTAAATCCCAACCCTTAATTAAAACCATAAT
* *
13179564 CCCTAATCCCT-A-CCTAAATCCATATATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGG
192 CCCTAATCCCTAATCCTAAATCCATATATACTCCATAAACCTTAAAATATGAACTCCTAAACCGA
* * *
13179627 CCTTAAATCTTAAGTTTATCATATACCCTAAACTAATTCAAAATCCTAAACAAT
257 CCTTAAATCTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAAT
* *
13179681 TTTATTATTATCTCTTTTACAATTACATAAGAACATATTTAAAATATTAATAAAAAATAATTC-A
1 TTTATTATTATCTCTTTTACAATTACATAAAAACATATTTAAAATATAAATAAAAAATAATTCTA
* * ** * * *
13179745 AACCCGAAACCCTAAGTACCTGACCCTTAAATTCAAAAACCCCAAATCCCTAACTCTTAACCTCT
66 AACCCAAAACCCT-A--ACCCGACCCTTAAA-TCCTAAACCCTAAATCCTTAACTCTTAACCACT
*
13179810 AACATCTAACCCCTAAACCCCTAACCCTTAAACCTTAAATCCCAACCCTTCATT-AAACCATAAT
127 AACATCTAACCCCTAAACCCCTAACCCTTAAACCTTAAATCCCAACCCTTAATTAAAACCATAAT
* * * *
13179874 TCGTAATCCATAATCCCTAAATCCATATATACTCCTTAATTAAAACCTTAAAATATGAACTCTTA
192 CCCTAATCCCTAAT-CCTAAATCCATATATACTCC---A-T-AAACCTTAAAATATGAACTCCTA
**
13179939 AACCGACCTTAAATCTTAAATAAAATCATATACCCTAAACTA
251 AACCGACCTTAAATCTTAAAT-TTATCATATACCCTAAACTA
13179981 TAGTGATAAT
Statistics
Matches: 535, Mismatches: 48, Indels: 55
0.84 0.08 0.09
Matches are distributed among these distances:
308 16 0.03
309 92 0.17
310 30 0.06
311 125 0.23
312 10 0.02
313 22 0.04
314 16 0.03
315 18 0.03
316 2 0.00
317 1 0.00
318 68 0.13
319 18 0.03
320 10 0.02
321 28 0.05
322 13 0.02
325 63 0.12
326 3 0.01
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (310 bp):
TTTATTATTATCTCTTTTACAATTACATAAAAACATATTTAAAATATAAATAAAAAATAATTCTA
AACCCAAAACCCTAACCCGACCCTTAAATCCTAAACCCTAAATCCTTAACTCTTAACCACTAACA
TCTAACCCCTAAACCCCTAACCCTTAAACCTTAAATCCCAACCCTTAATTAAAACCATAATCCCT
AATCCCTAATCCTAAATCCATATATACTCCATAAACCTTAAAATATGAACTCCTAAACCGACCTT
AAATCTTAAATTTATCATATACCCTAAACTAATTAAAAACCCTAAACAAT
Found at i:13179857 original size:36 final size:35
Alignment explanation
Indices: 13179782--13179857 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 35
13179772 TAAATTCAAA
* * *
13179782 AACCCCAAATCCCTAACTCTTAACCTCTAACATCT
1 AACCCCAAACCCCTAACCCTTAACCTCTAACATCC
13179817 AACCCCTAAACCCCTAACCCTTAAACCT-TAA-ATCCC
1 AACCCC-AAACCCCTAACCCTT-AACCTCTAACAT-CC
13179853 AACCC
1 AACCC
13179858 TTCATTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 8 0.23
36 22 0.63
37 5 0.14
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (35 bp):
AACCCCAAACCCCTAACCCTTAACCTCTAACATCC
Found at i:13180316 original size:41 final size:41
Alignment explanation
Indices: 13180271--13180719 Score: 537
Period size: 41 Copynumber: 10.9 Consensus size: 41
13180261 CGCTTTAATA
* ** **
13180271 AAAACGCCACTAAAACCCCTAGCATTAGCGGCGCAATTCAG
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
* *
13180312 AAAACGCCTCTAAAACCCAAAGCATTAGCGGCGCTTTTCAG
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
*
13180353 AAAACGCCGCTAAAACCCAGAGCATTAGCGGTGCTTTTCAG
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
* * *
13180394 AAAACGCCACTAAACCCCTAGAGCATTAGCGGCGCTTTTTAG
1 AAAACGCCGCTAAAACCC-AGAGCATTAGCGGCGCTTTTCAG
*
13180436 AAAACGCCGCTAAAACCCCTTAGAGCATTAGCGGCGCCTTTCAG
1 AAAACGCCGCTAAAA-CCC--AGAGCATTAGCGGCGCTTTTCAG
* *
13180480 AAAACGCCGCTAAAACCCAGACCATTAACGGCGCTTTTCAG
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
* * * *
13180521 AAAATGCCGCTAAAACGCAGAGCATTAGCAGCGCTTTTTAG
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
* *
13180562 AAAACGCCGCTAAAACGCAAAGCATTAGCGGCGCTTTTCAG
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
* * * * **
13180603 AAAACGCTGCTAAAACCCAGAGCATTAGTGGCACACTCCCA-
1 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGC-TTTTCAG
*
13180644 AAAACGCCACTAAAACCCAGAGCCA-TAGCGGCGCTTTCTCA-
1 AAAACGCCGCTAAAACCCAGAG-CATTAGCGGCGCTTT-TCAG
* *
13180685 AAAACACCGCTAAAA-CCACGATCATTAGCGGCGCT
1 AAAACGCCGCTAAAACCCA-GAGCATTAGCGGCGCT
13180720 AGTAAAAAAA
Statistics
Matches: 353, Mismatches: 47, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
40 6 0.02
41 265 0.75
42 39 0.11
43 6 0.02
44 37 0.10
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCAG
Found at i:13186584 original size:27 final size:27
Alignment explanation
Indices: 13186553--13186604 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13186543 GGTAGGTAGC
** *
13186553 GCCTATCTGGTAGGCGCGACTGGTGGA
1 GCCTATCTGACAGGCACGACTGGTGGA
13186580 GCCTATCTGACAGGCACGACTGGTG
1 GCCTATCTGACAGGCACGACTGGTG
13186605 CATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.21
Consensus pattern (27 bp):
GCCTATCTGACAGGCACGACTGGTGGA
Found at i:13191253 original size:51 final size:52
Alignment explanation
Indices: 13191198--13191391 Score: 193
Period size: 51 Copynumber: 3.8 Consensus size: 52
13191188 ATGTGAAAGT
* * * * * *
13191198 GAAAGTGAT-GGTTACGTGTGTAATACTATGTGTAGGCTACTACGTGTACCA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
* * * *
13191249 GAAA--GATAGGTCGCATGTGTATTACTATGTGCAGGCTACTATGCGTATCG
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
* * * *
13191299 GATAGCT--TCGATCACATGTGCAGTACTATGTGCAGGCTACTACGTGTATCG
1 GAAAG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
* *
13191350 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
13191392 TGTGAACTCG
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.03
50 37 0.32
51 76 0.65
52 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (52 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
Found at i:13191476 original size:43 final size:43
Alignment explanation
Indices: 13191400--13191607 Score: 200
Period size: 42 Copynumber: 5.0 Consensus size: 43
13191390 TATGTGAACT
*
13191400 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGTTGATTCCAC
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCC-C
* *
13191442 CGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCCC
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCC
* * *
13191484 CGTATCATTGATTAT--AAGGTGGTTACTAAGTGATGATTCCAC
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCC-C
* * * * * *
13191526 CATATCCTTTATTGTGAAAGG-GGTTGCTATGTGTTAACTCCC
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCC
* *
13191568 CGTATCATTGA-T-T-ACAAGGTGGTTGCTAAATGCTGATTCC
1 CGTATCATTGATTGTGA-AAGGTGGTTGCTAAGTGTTGATTCC
13191608 ACCGGGATCC
Statistics
Matches: 133, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
39 1 0.01
40 9 0.07
41 33 0.25
42 48 0.36
43 34 0.26
44 8 0.06
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (43 bp):
CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCC
Found at i:13191487 original size:42 final size:44
Alignment explanation
Indices: 13191400--13191700 Score: 218
Period size: 44 Copynumber: 7.1 Consensus size: 44
13191390 TATGTGAACT
*
13191400 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGTTGATTCCAC
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
* *
13191442 CGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-C
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
* * *
13191484 CGTATCATTGATTAT--AAGGTGGTTACTAAGTGATGATTCCAC
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
* * * * * *
13191526 CATATCCTTTATTGTGAAAGG-GGTTGCTATGTGTTAACTCC-C
1 CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
* *
13191568 CGTATCATTGA-T-T-ACAAGGTGGTTGCTAAATGCTGATTCCAC
1 CGTATCATTGATTGTGA-AAGGTGGTTGCTAAGTGTTGATTCCAC
* * *** *
13191610 CGGGATCCTTTGAACATG--AGGTGGTTGCTAAGTGCTGATTCCAC
1 C-GTAT-CATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
* * *** *
13191654 CGGGATCCTTTGAACATG--AGGTGGTTGCTAAGTGCTGATTCCAC
1 C-GTAT-CATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
13191698 CGT
1 CGT
13191701 GTAAGGGTTG
Statistics
Matches: 215, Mismatches: 30, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.00
40 9 0.04
41 33 0.15
42 50 0.23
43 38 0.18
44 83 0.39
46 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (44 bp):
CGTATCATTGATTGTGAAAGGTGGTTGCTAAGTGTTGATTCCAC
Found at i:13191541 original size:84 final size:84
Alignment explanation
Indices: 13191400--13191610 Score: 341
Period size: 84 Copynumber: 2.5 Consensus size: 84
13191390 TATGTGAACT
* *
13191400 CGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGATGATTCCACCATATCCTTGATTGTGAAAGGGG
* *
13191465 TTGCTATGTGTTGATTCCC
66 TTGCTATGTGTTAACTCCC
* *
13191484 CGTATCATTGATTATAAGGTGGTTACTAAGTGATGATTCCACCATATCCTTTATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGATGATTCCACCATATCCTTGATTGTGAAAGGGG
13191549 TTGCTATGTGTTAACTCCC
66 TTGCTATGTGTTAACTCCC
* * *
13191568 CGTATCATTGATTACAAGGTGGTTGCTAAATGCTGATTCCACC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGATGATTCCACC
13191611 GGGATCCTTT
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 117 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (84 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGATGATTCCACCATATCCTTGATTGTGAAAGGGG
TTGCTATGTGTTAACTCCC
Found at i:13191635 original size:44 final size:44
Alignment explanation
Indices: 13191584--13191699 Score: 223
Period size: 44 Copynumber: 2.6 Consensus size: 44
13191574 ATTGATTACA
*
13191584 AGGTGGTTGCTAAATGCTGATTCCACCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
13191628 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
13191672 AGGTGGTTGCTAAGTGCTGATTCCACCG
1 AGGTGGTTGCTAAGTGCTGATTCCACCG
13191700 TGTAAGGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
Found at i:13196120 original size:50 final size:50
Alignment explanation
Indices: 13196065--13196258 Score: 230
Period size: 50 Copynumber: 3.9 Consensus size: 50
13196055 CATTGACATT
* *
13196065 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * *
13196115 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * *
13196165 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
13196214 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13196259 TGTTATTATC
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.32
50 83 0.67
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:13198172 original size:98 final size:103
Alignment explanation
Indices: 13198038--13198323 Score: 367
Period size: 98 Copynumber: 2.8 Consensus size: 103
13198028 ACATTATATA
*
13198038 AAAATTACATTA--AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAATCTAATC
1 AAAATTACATTACTAAAAAATCACAAAACACT-AACTAAACACTAACAATTTATATAACCTAATC
13198101 ATAAATTACTAACAAAATAACTAT-AAA-T-AT-TTTTT
65 ATAAATTACTAACAAAATAACTATAAAATTGATGTTTTT
* *
13198136 -AAA-TACATTACTAAAAAATCCCAGAACACATAACTAAACACTAACAATTTATATAACCTAATC
1 AAAATTACATTACTAAAAAATCACAAAACAC-TAACTAAACACTAACAATTTATATAACCTAATC
*
13198199 ATAAATTACTAACAAAATAACTATAAAATTGTTGTTTTT
65 ATAAATTACTAACAAAATAACTATAAAATTGATGTTTTT
* * * * *
13198238 AAAAATTACATTACTAAAAAATTACAAAACCCTATCCTCAACACTAACAA-TT-TGTAACCTAAT
1 -AAAATTACATTACTAAAAAATCACAAAACACTA-ACTAAACACTAACAATTTATATAACCTAA-
13198301 CTCATAAATTACTAACAAAATAA
63 -TCATAAATTACTAACAAAATAA
13198324 ATAACTATAA
Statistics
Matches: 164, Mismatches: 11, Indels: 19
0.85 0.06 0.10
Matches are distributed among these distances:
96 7 0.04
97 3 0.02
98 70 0.43
99 4 0.02
100 1 0.01
101 1 0.01
102 5 0.03
103 9 0.05
104 7 0.04
105 57 0.35
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.29
Consensus pattern (103 bp):
AAAATTACATTACTAAAAAATCACAAAACACTAACTAAACACTAACAATTTATATAACCTAATCA
TAAATTACTAACAAAATAACTATAAAATTGATGTTTTT
Found at i:13198597 original size:60 final size:61
Alignment explanation
Indices: 13198519--13198646 Score: 206
Period size: 60 Copynumber: 2.1 Consensus size: 61
13198509 ATACTAAACT
* *
13198519 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATACTTA-C
1 AAACACAACAACTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATC
* *
13198579 AAACCCAACAACTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTATC
1 AAACACAACAACTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATC
13198640 AAA-ACAA
1 AAACACAA
13198647 AAAAATTTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 58 0.94
61 4 0.06
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (61 bp):
AAACACAACAACTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATC
Found at i:13198821 original size:12 final size:12
Alignment explanation
Indices: 13198800--13198882 Score: 58
Period size: 9 Copynumber: 7.3 Consensus size: 12
13198790 AATACATTAC
13198800 CTTT-TTTCTTT
1 CTTTCTTTCTTT
13198811 CTTTCTTTCTTT
1 CTTTCTTTCTTT
13198823 CTTTC-TTC-TT
1 CTTTCTTTCTTT
13198833 C-TTC-TTC-TT
1 CTTTCTTTCTTT
13198842 C-TTC-TTC-TT
1 CTTTCTTTCTTT
13198851 CTTTCTTCTCCTTT
1 CTTTCTT-T-CTTT
*
13198865 CTCTCATTTCTTTT
1 CTTTC-TTTC-TTT
13198879 CTTT
1 CTTT
13198883 TTCGGTGCAC
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
9 18 0.29
10 6 0.10
11 8 0.13
12 13 0.21
13 2 0.03
14 13 0.21
15 2 0.03
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (12 bp):
CTTTCTTTCTTT
Found at i:13198833 original size:3 final size:3
Alignment explanation
Indices: 13198825--13198859 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
13198815 CTTTCTTTCT
13198825 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC T
13198860 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:13199359 original size:13 final size:13
Alignment explanation
Indices: 13199341--13199370 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13199331 ACCTGATATT
13199341 TTATCTATAAAAA
1 TTATCTATAAAAA
13199354 TTATCTATAAAAA
1 TTATCTATAAAAA
13199367 TTAT
1 TTAT
13199371 GTTAGAATTG
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:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
TTATCTATAAAAA
Found at i:13200908 original size:14 final size:14
Alignment explanation
Indices: 13200889--13200970 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
13200879 TCTGTGGATC
13200889 GGTGGAGGTCGATT
1 GGTGGAGGTCGATT
*
13200903 GGTGGAGGACGATT
1 GGTGGAGGTCGATT
* * *
13200917 GGTGGAAGACGGAGGT
1 GGTGGAGGTC-GA-TT
* * *
13200933 GGCTTGATGGTGGATC
1 GG-TGGA-GGTCGATT
13200949 GGTGGAGGTCGATT
1 GGTGGAGGTCGATT
13200963 GGTGGAGG
1 GGTGGAGG
13200971 ACGGAGGTGG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
14 36 0.69
15 5 0.10
16 5 0.10
17 5 0.10
18 1 0.02
ACGTcount: A:0.17, C:0.07, G:0.52, T:0.23
Consensus pattern (14 bp):
GGTGGAGGTCGATT
Found at i:13201112 original size:6 final size:6
Alignment explanation
Indices: 13201096--13201131 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
13201086 AAAACAAAAC
13201096 AAAACTT AAAATT AAAATT AAAACTT AAAATT AAAA
1 AAAA-TT AAAATT AAAATT AAAA-TT AAAATT AAAA
13201132 ACTAAATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:13201123 original size:13 final size:12
Alignment explanation
Indices: 13201096--13201131 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
13201086 AAAACAAAAC
13201096 AAAACTTAAAATT
1 AAAA-TTAAAATT
13201109 AAAATTAAAACTT
1 AAAATTAAAA-TT
13201122 AAAATTAAAA
1 AAAATTAAAA
13201132 ACTAAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:13201137 original size:13 final size:12
Alignment explanation
Indices: 13201091--13201137 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
13201081 CAAGTAAAAC
13201091 AAAAC-AAAACTT
1 AAAACTAAAA-TT
*
13201103 AAAATTAAAATT
1 AAAACTAAAATT
13201115 AAAACTTAAAATT
1 AAAAC-TAAAATT
13201128 AAAAACTAAA
1 -AAAACTAAA
13201138 TGTAGTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 10 0.33
13 15 0.50
14 5 0.17
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAACTAAAATT
Found at i:13201359 original size:20 final size:19
Alignment explanation
Indices: 13201313--13201361 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
13201303 CTCTAAAATA
*
13201313 AAATAATAATATTTTATTT
1 AAATAAAAATATTTTATTT
13201332 AAAGTAAAAATATATTT-TTT
1 AAA-TAAAAATAT-TTTATTT
13201352 AATATAAAAA
1 AA-ATAAAAA
13201362 AAGTGGTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAATAAAAATATTTTATTT
Found at i:13209000 original size:43 final size:42
Alignment explanation
Indices: 13208952--13209039 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 42
13208942 TTATGTGATT
* * *
13208952 AATATTGAAATGGCAAAA-ATGGGAAATGAATATGAGATGAGAA
1 AATATTGAAATGG-AAAAGATGAGAAATGAATACGAAATGA-AA
13208995 AATATTGAAATGGAAAAGATGAGAAATGAATACGAAATGAAA
1 AATATTGAAATGGAAAAGATGAGAAATGAATACGAAATGAAA
13209037 AAT
1 AAT
13209040 GAAATATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
42 9 0.22
43 32 0.78
ACGTcount: A:0.55, C:0.02, G:0.23, T:0.20
Consensus pattern (42 bp):
AATATTGAAATGGAAAAGATGAGAAATGAATACGAAATGAAA
Found at i:13209039 original size:18 final size:19
Alignment explanation
Indices: 13209013--13209053 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13209003 AATGGAAAAG
*
13209013 ATGAGAAATG-AATACGAA
1 ATGAAAAATGAAATACGAA
*
13209031 ATGAAAAATGAAATATGAA
1 ATGAAAAATGAAATACGAA
13209050 ATGA
1 ATGA
13209054 TGAAATGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.59, C:0.02, G:0.20, T:0.20
Consensus pattern (19 bp):
ATGAAAAATGAAATACGAA
Found at i:13211014 original size:25 final size:25
Alignment explanation
Indices: 13210978--13211091 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
13210968 ATACAGGTAT
*
13210978 GCTCATGCGAG-CATGTAATCGGGAA
1 GCTCATGTGAGCCATGTAA-CGGGAA
* * * *
13211003 GCTCTTTTGAGCCATATAACGGAAA
1 GCTCATGTGAGCCATGTAACGGGAA
* *
13211028 GCTCATGTGAGTCATGTAACAGGAA
1 GCTCATGTGAGCCATGTAACGGGAA
* * *
13211053 GCTCATGCGAGCCAT-TATCGAGAA
1 GCTCATGTGAGCCATGTAACGGGAA
**
13211077 GCTCATACGAGCCAT
1 GCTCATGTGAGCCAT
13211092 AAATGGGAAG
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
24 20 0.28
25 45 0.63
26 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (25 bp):
GCTCATGTGAGCCATGTAACGGGAA
Found at i:13211101 original size:24 final size:24
Alignment explanation
Indices: 13211049--13211152 Score: 81
Period size: 24 Copynumber: 4.3 Consensus size: 24
13211039 TCATGTAACA
* *
13211049 GGAAGCTCATGCGAGCCATTATCG
1 GGAAGCTCATACGAGCCATAATCG
*
13211073 AGAAGCTCATACGAGCCATAAAT-G
1 GGAAGCTCATACGAGCCAT-AATCG
* *
13211097 GGAAGCTTA-AGAGAGCCA-AATTCG
1 GGAAGCTCATA-CGAGCCATAA-TCG
* *
13211121 GGAAGCTCATATGAGCTA-ATATCG
1 GGAAGCTCATACGAGCCATA-ATCG
13211145 GGAAGCTC
1 GGAAGCTC
13211153 TGGAGAGCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 57 0.88
25 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATACGAGCCATAATCG
Found at i:13211176 original size:25 final size:24
Alignment explanation
Indices: 13211145--13211211 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
13211135 GCTAATATCG
13211145 GGAAGCTCTGGAGAGCCT-TTAATTT
1 GGAAGCTCTGGAGAGCCTATT-A-TT
13211170 GGAAGCTCAT-GAGAGCCTATTATT
1 GGAAGCTC-TGGAGAGCCTATTATT
*
13211194 GGAAAGCTCCGGAGAGCC
1 GG-AAGCTCTGGAGAGCC
13211212 AAATAACGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
24 4 0.11
25 30 0.81
26 3 0.08
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (24 bp):
GGAAGCTCTGGAGAGCCTATTATT
Found at i:13213155 original size:25 final size:25
Alignment explanation
Indices: 13213117--13213174 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
13213107 TTCGAGAATT
*
13213117 ACACGGCCTGGCACATGGGCGTGTG
1 ACACGGCCTGGCACACGGGCGTGTG
*
13213142 ACATGGCCTGGCACACGGGCGTGTG
1 ACACGGCCTGGCACACGGGCGTGTG
13213167 ACACGGCC
1 ACACGGCC
13213175 ATGTGACCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.17, C:0.31, G:0.38, T:0.14
Consensus pattern (25 bp):
ACACGGCCTGGCACACGGGCGTGTG
Found at i:13216070 original size:25 final size:26
Alignment explanation
Indices: 13216016--13216073 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
13216006 ATTATATATT
*
13216016 AAAAAATTCAATATAAATTTAATTAT
1 AAAAAATTCAATATAAATTTAATTAG
* **
13216042 AAAATATT-AATATAAATTTTTTTAG
1 AAAAAATTCAATATAAATTTAATTAG
13216067 AAAAAAT
1 AAAAAAT
13216074 GAAGCAACTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAAAATTCAATATAAATTTAATTAG
Found at i:13226918 original size:49 final size:49
Alignment explanation
Indices: 13226850--13226945 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
13226840 CCATCTACTG
*
13226850 TTTTTCTGATGGAAACTAAGCAAAAGAACTCT-ATATTGGATAGACTTT
1 TTTTTCTGATGGAAACTAAGCAAAAGAACTCTCAGATTGGATAGACTTT
* ** * *
13226898 TTTTTCCTTATGGAAACTAAGTTAAAGAAGTGTCAGATTGGATAGACT
1 TTTTT-CTGATGGAAACTAAGCAAAAGAACTCTCAGATTGGATAGACT
13226946 CAGAAACATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 5 0.12
49 22 0.55
50 13 0.32
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (49 bp):
TTTTTCTGATGGAAACTAAGCAAAAGAACTCTCAGATTGGATAGACTTT
Found at i:13236440 original size:15 final size:15
Alignment explanation
Indices: 13236417--13236452 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
13236407 GATGTTGGCC
13236417 ATTAAAATTAAAATA
1 ATTAAAATTAAAATA
*
13236432 ATTATAATTAAAATA
1 ATTAAAATTAAAATA
13236447 ATTAAA
1 ATTAAA
13236453 TAAGATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAAAATTAAAATA
Found at i:13237544 original size:42 final size:42
Alignment explanation
Indices: 13237498--13237605 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 42
13237488 AGTTTAGCCG
* * * *
13237498 ATGATGCACTTATGTGCTAGTATGATTGCTTT-GGTTTGTCCA
1 ATGATGCACTTATGTGCTAGTATAATTG-TTTCGATTCGACCA
* *
13237540 ATGATGCACTATGTGTGCTAGTATAATTGTTTCGATTCGACCG
1 ATGATGCACT-TATGTGCTAGTATAATTGTTTCGATTCGACCA
*
13237583 ATGATGCACTTAGGTGCTAGTAT
1 ATGATGCACTTATGTGCTAGTAT
13237606 TTTTTCTTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (42 bp):
ATGATGCACTTATGTGCTAGTATAATTGTTTCGATTCGACCA
Found at i:13239153 original size:30 final size:32
Alignment explanation
Indices: 13239102--13239162 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
13239092 CTCAAAAAAT
* *
13239102 TTTTCCCTTCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTCAAAACTTTTACTCCCTTCCCAC
13239133 TTTTCCCCT-AAAACTTTTACTCCCTTCCCA
1 TTTTCCCCTCAAAACTTTTACTCCCTTCCCA
13239163 TCCTACCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (32 bp):
TTTTCCCCTCAAAACTTTTACTCCCTTCCCAC
Found at i:13243403 original size:41 final size:41
Alignment explanation
Indices: 13243341--13243538 Score: 204
Period size: 41 Copynumber: 4.8 Consensus size: 41
13243331 GAATGTAATA
* * *
13243341 CAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAATT
1 CAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATACAATT
* * *
13243382 CAGACTTTACGTCTAGTAGGCTTAATGCCGGTGGTACATTT
1 CAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATACAATT
* * *
13243423 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATACAATT
* *
13243464 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TACTGAA-T
1 CAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGATAC--AATT
* * * **
13243505 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA
13243539 ATCTGTTTAA
Statistics
Matches: 133, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
40 5 0.04
41 125 0.94
42 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATACAATT
Found at i:13243478 original size:82 final size:81
Alignment explanation
Indices: 13243336--13243539 Score: 232
Period size: 82 Copynumber: 2.5 Consensus size: 81
13243326 TGATCGAATG
* ** * * *
13243336 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAATTCAGACTTTACGTCTAGTAG
1 TAAT-CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGAAACAATTCAGACTATACGTCTAGCAG
13243401 GCTTAA-TGCCGGTGGTAC
65 GC-TAAGTGCCGGT-GTAC
* * * *
13243419 -ATTTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTTCAGACTATATGTCTAGCAG
1 TA-ATCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGAAACAATTCAGACTATACGTCTAGCAG
13243483 GCTAAGTGCCGGTGTAC
65 GCTAAGTGCCGGTGTAC
* * *
13243500 TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGAA
1 T-AATCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGAA
13243540 TCTGTTTAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
81 7 0.07
82 93 0.91
83 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (81 bp):
TAATCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGAAACAATTCAGACTATACGTCTAGCAGG
CTAAGTGCCGGTGTAC
Found at i:13251087 original size:27 final size:27
Alignment explanation
Indices: 13251051--13251352 Score: 274
Period size: 27 Copynumber: 11.2 Consensus size: 27
13251041 AGAGGTTGAT
*
13251051 AAATGACCGAATTACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCCA-AGGGTA
* *
13251078 AAATGGCCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCCAAGGGTA
* *
13251105 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCCAAGGGTA
* * *
13251132 AAATAACTGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCCAAGGGTA
* * *
13251159 AAATGATCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCCAAGGGTA
* ** **
13251186 AATTGATTGAAATACCCT-TGAGGGTA
1 AAATGACCGAAATACCCTCCAAGGGTA
* * * *
13251212 GAATGATCGAAATAACCTCGAAGGGTA
1 AAATGACCGAAATACCCTCCAAGGGTA
* *
13251239 AAATGATCGAAATACCC-CCGAAGAGTA
1 AAATGACCGAAATACCCTCC-AAGGGTA
* *
13251266 AAATGATCGAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-CAAGGGTA
** *
13251293 AAATGATTGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-CAAGGGTA
13251320 AAATGACCGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCCA-AGGGTA
13251347 AAATGA
1 AAATGA
13251353 TTTTTATACC
Statistics
Matches: 234, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
26 22 0.09
27 210 0.90
28 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCCAAGGGTA
Found at i:13251121 original size:54 final size:53
Alignment explanation
Indices: 13251051--13251354 Score: 351
Period size: 54 Copynumber: 5.6 Consensus size: 53
13251041 AGAGGTTGAT
* * * ***
13251051 AAATGACCGAATTACCCCCATAGGGTAAAATGGCCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCCGA-AGGGTAAAATGATTGAAATACCCTCGAAGGGTA
* * *
13251105 AAATGATCGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCTCAAAGGGTA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTA
* * *
13251159 AAATGATCAAAATACCCTCGAAGGGTAAATTGATTGAAATACCCTTG-AGGGTA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTA
* * * * *
13251212 GAATGATCGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGAGTA
1 AAATGATCGAAAT-ACCCCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTA
*
13251266 AAATGATCGAAATACCCCTGAAGGGTAAAATGATTGAAATACCC-CTAAAGGGTA
1 AAATGATCGAAATACCCC-GAAGGGTAAAATGATTGAAATACCCTC-GAAGGGTA
* *
13251320 AAATGACCGAAATACCCCCATAGGGTAAAATGATT
1 AAATGATCGAAATACCCCGA-AGGGTAAAATGATT
13251355 TTTATACCCC
Statistics
Matches: 216, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
53 48 0.22
54 166 0.77
55 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.19
Consensus pattern (53 bp):
AAATGATCGAAATACCCCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTA
Found at i:13251198 original size:81 final size:80
Alignment explanation
Indices: 13251063--13251353 Score: 356
Period size: 81 Copynumber: 3.6 Consensus size: 80
13251053 ATGACCGAAT
* * *
13251063 TACCCCCATAGGGTAAAATGGCCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAG
1 TACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAG
*
13251128 GGTAAAATAACTGAAA
66 GGTAAAATGA-TGAAA
* * * * *
13251144 TACCCTCAAAGGGTAAAATGATCAAAATACCCTCGAAGGGTAAATTGATTGAAATACCCTTG-AG
1 TACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAG
*
13251208 GGTAGAATGATCGAAA
66 GGTAAAATGAT-GAAA
* * * * *
13251224 TAACCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGAGTAAAATGATCGAAATACCC-CTGAA
1 TACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTC-GAA
13251288 GGGTAAAATGATTGAAA
65 GGGTAAAATGA-TGAAA
*
13251305 TACCC-CTAAAGGGTAAAATGACCGAAATACCC-CCATAGGGTAAAATGAT
1 TACCCTC-AAAGGGTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGAT
13251354 TTTTATACCC
Statistics
Matches: 180, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 70 0.39
81 108 0.60
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (80 bp):
TACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAG
GGTAAAATGATGAAA
Found at i:13251290 original size:134 final size:134
Alignment explanation
Indices: 13251085--13251336 Score: 357
Period size: 134 Copynumber: 1.9 Consensus size: 134
13251075 GTAAAATGGC
* * *
13251085 CGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCT
1 CGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGAGTAAAATAACTGAAATACCCT
* * **
13251150 CAAAGGGTAAAATGATCAAAATA-CCCTCGAAGGGTAAATTGATTGAAATACCCTTGAGGGTAGA
66 CAAAGGGTAAAATGATCAAAATACCCCT-AAAGGGTAAAATGACCGAAATACCCTTGAGGGTAGA
13251214 ATGAT
130 ATGAT
*
13251219 CGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGAGTAAAATGA-TCGAAATACCC
1 CGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGAGTAAAATAACT-GAAATACCC
* **
13251283 -CTGAAGGGTAAAATGATTGAAATACCCCTAAAGGGTAAAATGACCGAAATACCC
65 TC-AAAGGGTAAAATGATCAAAATACCCCTAAAGGGTAAAATGACCGAAATACCC
13251337 CCATAGGGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
133 2 0.02
134 98 0.94
135 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (134 bp):
CGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGAGTAAAATAACTGAAATACCCT
CAAAGGGTAAAATGATCAAAATACCCCTAAAGGGTAAAATGACCGAAATACCCTTGAGGGTAGAA
TGAT
Found at i:13251575 original size:26 final size:26
Alignment explanation
Indices: 13251546--13251645 Score: 148
Period size: 26 Copynumber: 3.8 Consensus size: 26
13251536 TTGCCACAAA
13251546 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
13251572 TACTGATACTGGCAG-TTCTGCTGCAT
1 TACTGTTACTGGCAGCTT-TGCTGCGT
13251598 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
13251624 TACTATTACTGACAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
13251646 ACGATATTGG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.03
26 62 0.94
27 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:13251824 original size:30 final size:30
Alignment explanation
Indices: 13251761--13251841 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
13251751 TTGCACTGTC
** *
13251761 ACTGTATTAGGCTAAGGCCCACACTTTGTT
1 ACTGTATTAGGCTAAGGCCCACACACTGCT
* * *
13251791 ACTGTATTGGGCTATGGCCCATACACTGCT
1 ACTGTATTAGGCTAAGGCCCACACACTGCT
*
13251821 ACTGTA-TAGGACTCAGGCCCA
1 ACTGTATTAGG-CTAAGGCCCA
13251842 GACTGATTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 3 0.07
30 38 0.93
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (30 bp):
ACTGTATTAGGCTAAGGCCCACACACTGCT
Found at i:13252759 original size:37 final size:37
Alignment explanation
Indices: 13252666--13252803 Score: 118
Period size: 37 Copynumber: 3.7 Consensus size: 37
13252656 TCTATCGAGC
13252666 CAAATCTTACTGTTATACTGAATGAAGCTTAATCAAG
1 CAAATCTTACTGTTATACTGAATGAAGCTTAATCAAG
* * * *
13252703 CAAATCATACCGTTATACTGAATGGAGCTTAA-CTAGG
1 CAAATCTTACTGTTATACTGAATGAAGCTTAATC-AAG
* * * * * * * *
13252740 TAAATCTTACTATTTTACTGACTGATGTTTAAATCGAT
1 CAAATCTTACTGTTATACTGAATGAAGCTT-AATCAAG
*
13252778 CAAAT-TCTACTGTTATACTGAGTGAA
1 CAAATCT-TACTGTTATACTGAATGAA
13252804 ACTCAAATGA
Statistics
Matches: 76, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
36 1 0.01
37 53 0.70
38 21 0.28
39 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (37 bp):
CAAATCTTACTGTTATACTGAATGAAGCTTAATCAAG
Found at i:13267810 original size:23 final size:24
Alignment explanation
Indices: 13267776--13268111 Score: 157
Period size: 23 Copynumber: 13.9 Consensus size: 24
13267766 TGTACAGCTC
* * *
13267776 TTATACATC-AAATTGGATAGCAT
1 TTATACACCAAAATTGAACAGCAT
13267799 TTATACACCAAAATTGAACAGCAT
1 TTATACACCAAAATTGAACAGCAT
* * **
13267823 TTATACA-CTAATTTGGGCAGCAT
1 TTATACACCAAAATTGAACAGCAT
* ** *
13267846 GTATATATATATATCAAATTGAACAACATTT
1 -T-TATACA-CCA--AAATTGAACAGCA--T
* * * *
13267877 TTTTACACCAAAATTTAACGGCAA
1 TTATACACCAAAATTGAACAGCAT
* **
13267901 ATATACACC-AAATTGGGCAGCAT
1 TTATACACCAAAATTGAACAGCAT
* * *
13267924 ATATATATCTC-AAATTGGACAGCAT
1 TTATACA-C-CAAAATTGAACAGCAT
* * *
13267949 TTTTACACCAAAATTGGACAGAAT
1 TTATACACCAAAATTGAACAGCAT
* * **
13267973 ATAGACACC-AAATTGGGCAGCAT
1 TTATACACCAAAATTGAACAGCAT
* *
13267996 TTTTACACCAAAATTGGACAGCAT
1 TTATACACCAAAATTGAACAGCAT
* * **
13268020 ATAGACACC-AAATTGGGCAGCAT
1 TTATACACCAAAATTGAACAGCAT
* *
13268043 TTTTACACCAAAAATTGGACAGCAT
1 TTATACACC-AAAATTGAACAGCAT
* * *
13268068 TTTTACACC-AAATTGGAC-TCAT
1 TTATACACCAAAATTGAACAGCAT
* *
13268090 TTTTACACCAAAATTGGACAGC
1 TTATACACCAAAATTGAACAGC
13268112 GTATAGACAC
Statistics
Matches: 242, Mismatches: 54, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
22 12 0.05
23 91 0.38
24 68 0.28
25 45 0.19
26 10 0.04
28 1 0.00
29 13 0.05
30 1 0.00
31 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (24 bp):
TTATACACCAAAATTGAACAGCAT
Found at i:13267827 original size:47 final size:47
Alignment explanation
Indices: 13267776--13268131 Score: 277
Period size: 47 Copynumber: 7.4 Consensus size: 47
13267766 TGTACAGCTC
* * * *
13267776 TTATACATCAAATTGGATAGCATTTATACACCAAAATTGAACAGCAT
1 TTATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCAT
* * * * * * *
13267823 TTATACACTAATTTGGGCAGCATGTATATATATA-TATCAAATTGAACAACATTT
1 TTATACACCAAATTGGACAGCAT-T-T-T-TACACCA--AAATTGGACAGCA--T
* ** * ** * *
13267877 TTTTACACCAAAATTTAACGGCAAATATACACC-AAATTGGGCAGCAT
1 TTATACACC-AAATTGGACAGCATTTTTACACCAAAATTGGACAGCAT
* * *
13267924 ATATATATCTCAAATTGGACAGCATTTTTACACCAAAATTGGACAGAAT
1 TTATACA-C-CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCAT
* * *
13267973 ATAGACACCAAATTGGGCAGCATTTTTACACCAAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCAT
* * *
13268020 ATAGACACCAAATTGGGCAGCATTTTTACACCAAAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCATTTTTACACC-AAAATTGGACAGCAT
* * *
13268068 TTTTACACCAAATTGGAC-TCATTTTTACACCAAAATTGGACAGCGT
1 TTATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCAT
* * *
13268114 ATAGACACCGAATTGGAC
1 TTATACACCAAATTGGAC
13268132 TTGAATCGAA
Statistics
Matches: 246, Mismatches: 49, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
46 28 0.11
47 104 0.42
48 49 0.20
49 29 0.12
50 1 0.00
51 6 0.02
52 12 0.05
53 1 0.00
54 8 0.03
55 8 0.03
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (47 bp):
TTATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCAT
Found at i:13267917 original size:78 final size:74
Alignment explanation
Indices: 13267777--13267995 Score: 228
Period size: 72 Copynumber: 2.9 Consensus size: 74
13267767 GTACAGCTCT
* * * * * ** * *
13267777 TATACATCAAATTGGATAGCATTTATACACCAAAATTGAACAGCATTTATACACTAATTTGGGCA
1 TATATATCAAATTGAACAACATTTTTACACCAAAATTGAACAGCAAATATACACCAAATTGGGCA
13267842 GCATGTATATA
66 GCA--TATATA
* *
13267853 TATATATCAAATTGAACAACATTTTTTTACACCAAAATTTAACGGCAAATATACACCAAATTGGG
1 TATATATCAAATTGAACAACA--TTTTTACACCAAAATTGAACAGCAAATATACACCAAATTGGG
13267918 CAGC--ATATA
64 CAGCATATATA
* * * * *
13267927 TATATCTCAAATTGGACAGCATTTTTACACCAAAATTGGACAG-AATATAGACACCAAATTGGGC
1 TATATATCAAATTGAACAACATTTTTACACCAAAATTGAACAGCAA-ATATACACCAAATTGGGC
13267991 AGCAT
65 AGCAT
13267996 TTTTACACCA
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 39 0.32
74 23 0.19
76 17 0.14
78 39 0.32
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (74 bp):
TATATATCAAATTGAACAACATTTTTACACCAAAATTGAACAGCAAATATACACCAAATTGGGCA
GCATATATA
Found at i:13268047 original size:94 final size:94
Alignment explanation
Indices: 13267904--13268131 Score: 307
Period size: 94 Copynumber: 2.4 Consensus size: 94
13267894 ACGGCAAATA
* * *
13267904 TACACC-AAATTGGGCAGCATATATATATCTCAAATTGGACAGCATTTTTACACC-AAAATTGGA
1 TACACCAAAATTGGACAGCATATAGACA-C-CAAATTGGACAGCATTTTTACACCAAAAATTGGA
*
13267967 CAGAATATAGACACCAAATTGGGCAGCATTTT
64 CAGAATATAGACACCAAATTGGAC-GCATTTT
*
13267999 TACACCAAAATTGGACAGCATATAGACACCAAATTGGGCAGCATTTTTACACCAAAAATTGGACA
1 TACACCAAAATTGGACAGCATATAGACACCAAATTGGACAGCATTTTTACACCAAAAATTGGACA
* * ** *
13268064 GCATTTTTACACCAAATTGGACTCATTTT
66 GAATATAGACACCAAATTGGACGCATTTT
* *
13268093 TACACCAAAATTGGACAGCGTATAGACACCGAATTGGAC
1 TACACCAAAATTGGACAGCATATAGACACCAAATTGGAC
13268132 TTGAATCGAA
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
94 65 0.55
95 35 0.30
96 18 0.15
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (94 bp):
TACACCAAAATTGGACAGCATATAGACACCAAATTGGACAGCATTTTTACACCAAAAATTGGACA
GAATATAGACACCAAATTGGACGCATTTT
Found at i:13269014 original size:42 final size:42
Alignment explanation
Indices: 13268962--13269101 Score: 246
Period size: 42 Copynumber: 3.3 Consensus size: 42
13268952 GCTCTCGGTA
* *
13268962 TCGCAAACTTAGTGCAC-GTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGC-CTATTATTCAACATCATCATTTTAATT
13269004 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
13269046 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
13269088 TCGCACACTTAGTG
1 TCGCACACTTAGTG
13269102 TTGTTCATAT
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
41 1 0.01
42 94 0.99
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
Found at i:13269181 original size:16 final size:16
Alignment explanation
Indices: 13269160--13269228 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
13269150 TTGGTTCGCT
13269160 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
13269176 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
*
13269192 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
13269208 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
13269224 GTAAT
1 GTAAT
13269229 AGCAATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:13269395 original size:21 final size:20
Alignment explanation
Indices: 13269371--13269457 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
13269361 AATAAGATTA
13269371 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
13269392 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
13269412 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
13269429 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
13269448 TTAATA-AAAT
1 TTAATATAAAT
13269458 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:13269400 original size:11 final size:11
Alignment explanation
Indices: 13269381--13269413 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13269371 TTAATATAAA
13269381 TAATAAATAATT
1 TAAT-AATAATT
13269393 TAATAATAATT
1 TAATAATAATT
13269404 TAA-AATAATT
1 TAATAATAATT
13269414 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:13269434 original size:24 final size:21
Alignment explanation
Indices: 13269358--13269470 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
13269348 GTTATTAAAT
13269358 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
13269380 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
13269402 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
13269428 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
13269447 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
13269469 TT
1 TT
13269471 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:13269437 original size:29 final size:28
Alignment explanation
Indices: 13269404--13269494 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
13269394 AATAATAATT
13269404 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
13269433 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
13269461 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
13269488 CTAAAAT
1 -TAAAAT
13269495 CATAATATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:13269447 original size:56 final size:57
Alignment explanation
Indices: 13269371--13269499 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
13269361 AATAAGATTA
13269371 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
13269429 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
13269485 TTACTAAAATCATAA
1 TTAATAAAATAATAA
13269500 TATATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 24 0.39
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:13271325 original size:19 final size:20
Alignment explanation
Indices: 13271291--13271329 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13271281 TTTCCTAAAC
*
13271291 ATCCATCCACTACACACCAT
1 ATCCAACCACTACACACCAT
13271311 ATCCAACCA-TACACACCAT
1 ATCCAACCACTACACACCAT
13271330 GTCAGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (20 bp):
ATCCAACCACTACACACCAT
Found at i:13276760 original size:21 final size:21
Alignment explanation
Indices: 13276736--13276777 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13276726 AACTTTGACC
13276736 TACAATAATTTTGACTTCACA
1 TACAATAATTTTGACTTCACA
13276757 TACAATAATTTTGACTTCACA
1 TACAATAATTTTGACTTCACA
13276778 CGTGAAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAATAATTTTGACTTCACA
Found at i:13278725 original size:31 final size:33
Alignment explanation
Indices: 13278690--13278754 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
13278680 AAAATTTGAA
*
13278690 TTTT-ATTAAAATTTGCCAC-CAAT-TTAGATTT
1 TTTTAATTAAAATTTACCACTCAATATTA-ATTT
*
13278721 TTTTAATTAAATTTTACCACTCAATATTAATTT
1 TTTTAATTAAAATTTACCACTCAATATTAATTT
13278754 T
1 T
13278755 ATGATTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.14
32 13 0.45
33 9 0.31
34 3 0.10
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.51
Consensus pattern (33 bp):
TTTTAATTAAAATTTACCACTCAATATTAATTT
Found at i:13279416 original size:54 final size:54
Alignment explanation
Indices: 13279244--13279406 Score: 326
Period size: 54 Copynumber: 3.0 Consensus size: 54
13279234 AAAAATCTAA
13279244 GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
1 GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
13279298 GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
1 GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
13279352 GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
1 GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
13279406 G
1 G
13279407 GACCGAACTT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (54 bp):
GTATAAAACTTCACTAATAGATAAAATTCAGCCGAACTATATGAATGGGCTATT
Found at i:13281511 original size:511 final size:511
Alignment explanation
Indices: 13280550--13281571 Score: 2044
Period size: 511 Copynumber: 2.0 Consensus size: 511
13280540 GAAAGATTTA
13280550 ATCATAATTGGGAACTTACAAGTCCCATTAGATGGATCTTCCTTGACAATCTTAGCTAAACCTTG
1 ATCATAATTGGGAACTTACAAGTCCCATTAGATGGATCTTCCTTGACAATCTTAGCTAAACCTTG
13280615 AAAATCACATGCAACTTTAGTTTGATTGGCCATTTGGTAGTACATGTTGAAGGCAACCGACGCAT
66 AAAATCACATGCAACTTTAGTTTGATTGGCCATTTGGTAGTACATGTTGAAGGCAACCGACGCAT
13280680 TCACGTCAACGCCCATACCAGAACATGAAGCCCCAGGTACCAAGGTCGTGCAATCGGTATTATTG
131 TCACGTCAACGCCCATACCAGAACATGAAGCCCCAGGTACCAAGGTCGTGCAATCGGTATTATTG
13280745 CAAGCCCATGCGACCTTTACAGCCAAATCTTTTTTGTTGGAAGCATCCTTGTTATACACACACCA
196 CAAGCCCATGCGACCTTTACAGCCAAATCTTTTTTGTTGGAAGCATCCTTGTTATACACACACCA
13280810 TTGCTTTTCCATGTATGGGACATTTTTTCCACCAACAAGCGACTTGTTTTGTCCTTTCCCTGACA
261 TTGCTTTTCCATGTATGGGACATTTTTTCCACCAACAAGCGACTTGTTTTGTCCTTTCCCTGACA
13280875 AATCAAGGGGAAACTTAGGTTGTCCATCAAAGCTGAAAATTCCCCAATGCCTCTCAAACATTCCT
326 AATCAAGGGGAAACTTAGGTTGTCCATCAAAGCTGAAAATTCCCCAATGCCTCTCAAACATTCCT
13280940 GGATCAATACTCTTAAGATCTTCATCCAACAAAGAGAATATATACACTTCAGGATATTGTTTCGG
391 GGATCAATACTCTTAAGATCTTCATCCAACAAAGAGAATATATACACTTCAGGATATTGTTTCGG
13281005 GCGAAGTGGAGTTCCTTCATTTTTTGCCATTCTCTTTAGCAACCCATTATAGAACC
456 GCGAAGTGGAGTTCCTTCATTTTTTGCCATTCTCTTTAGCAACCCATTATAGAACC
13281061 ATCATAATTGGGAACTTACAAGTCCCATTAGATGGATCTTCCTTGACAATCTTAGCTAAACCTTG
1 ATCATAATTGGGAACTTACAAGTCCCATTAGATGGATCTTCCTTGACAATCTTAGCTAAACCTTG
13281126 AAAATCACATGCAACTTTAGTTTGATTGGCCATTTGGTAGTACATGTTGAAGGCAACCGACGCAT
66 AAAATCACATGCAACTTTAGTTTGATTGGCCATTTGGTAGTACATGTTGAAGGCAACCGACGCAT
13281191 TCACGTCAACGCCCATACCAGAACATGAAGCCCCAGGTACCAAGGTCGTGCAATCGGTATTATTG
131 TCACGTCAACGCCCATACCAGAACATGAAGCCCCAGGTACCAAGGTCGTGCAATCGGTATTATTG
13281256 CAAGCCCATGCGACCTTTACAGCCAAATCTTTTTTGTTGGAAGCATCCTTGTTATACACACACCA
196 CAAGCCCATGCGACCTTTACAGCCAAATCTTTTTTGTTGGAAGCATCCTTGTTATACACACACCA
13281321 TTGCTTTTCCATGTATGGGACATTTTTTCCACCAACAAGCGACTTGTTTTGTCCTTTCCCTGACA
261 TTGCTTTTCCATGTATGGGACATTTTTTCCACCAACAAGCGACTTGTTTTGTCCTTTCCCTGACA
13281386 AATCAAGGGGAAACTTAGGTTGTCCATCAAAGCTGAAAATTCCCCAATGCCTCTCAAACATTCCT
326 AATCAAGGGGAAACTTAGGTTGTCCATCAAAGCTGAAAATTCCCCAATGCCTCTCAAACATTCCT
13281451 GGATCAATACTCTTAAGATCTTCATCCAACAAAGAGAATATATACACTTCAGGATATTGTTTCGG
391 GGATCAATACTCTTAAGATCTTCATCCAACAAAGAGAATATATACACTTCAGGATATTGTTTCGG
13281516 GCGAAGTGGAGTTCCTTCATTTTTTGCCATTCTCTTTAGCAACCCATTATAGAACC
456 GCGAAGTGGAGTTCCTTCATTTTTTGCCATTCTCTTTAGCAACCCATTATAGAACC
13281572 TTTTAGCATT
Statistics
Matches: 511, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
511 511 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (511 bp):
ATCATAATTGGGAACTTACAAGTCCCATTAGATGGATCTTCCTTGACAATCTTAGCTAAACCTTG
AAAATCACATGCAACTTTAGTTTGATTGGCCATTTGGTAGTACATGTTGAAGGCAACCGACGCAT
TCACGTCAACGCCCATACCAGAACATGAAGCCCCAGGTACCAAGGTCGTGCAATCGGTATTATTG
CAAGCCCATGCGACCTTTACAGCCAAATCTTTTTTGTTGGAAGCATCCTTGTTATACACACACCA
TTGCTTTTCCATGTATGGGACATTTTTTCCACCAACAAGCGACTTGTTTTGTCCTTTCCCTGACA
AATCAAGGGGAAACTTAGGTTGTCCATCAAAGCTGAAAATTCCCCAATGCCTCTCAAACATTCCT
GGATCAATACTCTTAAGATCTTCATCCAACAAAGAGAATATATACACTTCAGGATATTGTTTCGG
GCGAAGTGGAGTTCCTTCATTTTTTGCCATTCTCTTTAGCAACCCATTATAGAACC
Found at i:13282758 original size:26 final size:26
Alignment explanation
Indices: 13282724--13282780 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
13282714 TGTAAACATT
13282724 AAAA-TAATGTTAACATGGTCATATA
1 AAAATTAATGTTAACATGGTCATATA
13282749 AAAATTAATGTTAACATGGTCATATA
1 AAAATTAATGTTAACATGGTCATATA
13282775 AAAATT
1 AAAATT
13282781 TTCAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (26 bp):
AAAATTAATGTTAACATGGTCATATA
Found at i:13286776 original size:19 final size:18
Alignment explanation
Indices: 13286749--13286794 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
13286739 CTTTGATTAA
**
13286749 TAACTAATTAATTATAAT
1 TAACTAATTAAACATAAT
13286767 TAACCTAATTAAACATAAT
1 TAA-CTAATTAAACATAAT
13286786 TAACTAATT
1 TAACTAATT
13286795 TTAAGCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TAACTAATTAAACATAAT
Found at i:13293726 original size:48 final size:48
Alignment explanation
Indices: 13293673--13293820 Score: 122
Period size: 48 Copynumber: 3.1 Consensus size: 48
13293663 TCTTTTTAAT
*
13293673 TAATAACTCTTTTATTTATATAAATAAAATAATAGATATGTAATTATA
1 TAATAACTCATTTATTTATATAAATAAAATAATAGATATGTAATTATA
* * * ** * * ***
13293721 TAATAAAATCATATATTT-TATATATATCATTAT-GTTAAAAAAATTA-A
1 TAAT-AACTCATTTATTTATATAAATAAAATAATAGAT-ATGTAATTATA
* * *
13293768 TTAATAACTCCTTTATTTATATAAATAAATTAATAAATATGTAATTATA
1 -TAATAACTCATTTATTTATATAAATAAAATAATAGATATGTAATTATA
13293817 TAAT
1 TAAT
13293821 GATAAATAAA
Statistics
Matches: 70, Mismatches: 24, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
47 13 0.19
48 45 0.64
49 12 0.17
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (48 bp):
TAATAACTCATTTATTTATATAAATAAAATAATAGATATGTAATTATA
Found at i:13293941 original size:101 final size:96
Alignment explanation
Indices: 13293828--13294018 Score: 247
Period size: 96 Copynumber: 1.9 Consensus size: 96
13293818 AATGATAAAT
* *
13293828 AAAATATATTTAAGAAAATGATAAATATAAAAAATATATAATTTCATTATATAACTACATTTTTA
1 AAAATATATTTAACAAAATGAT--ATAT--AAAATATAT-ATTTCATTATATAACTACATATTTA
*
13293893 TTAATTTATTTATATAAATAAAGGAGTTATGAATTA
61 TTAATTTATTTATATAAATAAAAGAGTTATGAATTA
* * * * * *
13293929 AAAATATTTTTAACATAATGATATATATAATATATATTTTATTATATAATTACATATTTATTATT
1 AAAATATATTTAACAAAATGATATATAAAATATATATTTCATTATATAACTACATATTTATTAAT
*
13293994 TTATTTATATAAGTAAAAGAGTTAT
66 TTATTTATATAAATAAAAGAGTTAT
13294019 TACAATTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 49 0.61
97 8 0.10
99 4 0.05
101 19 0.24
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (96 bp):
AAAATATATTTAACAAAATGATATATAAAATATATATTTCATTATATAACTACATATTTATTAAT
TTATTTATATAAATAAAAGAGTTATGAATTA
Found at i:13293976 original size:19 final size:19
Alignment explanation
Indices: 13293952--13293992 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13293942 CATAATGATA
*
13293952 TATATAA-TATATATTTTAT
1 TATATAATTACATA-TTTAT
13293971 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
13293990 TAT
1 TAT
13293993 TTTATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:13294127 original size:13 final size:12
Alignment explanation
Indices: 13294109--13294147 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
13294099 TAAAATATTT
13294109 ATTAATTAAAAA
1 ATTAATTAAAAA
13294121 CATTAATTAAAAA
1 -ATTAATTAAAAA
*
13294134 ATTAA-AAAAAA
1 ATTAATTAAAAA
13294145 ATT
1 ATT
13294148 GAACAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
12 5 0.20
13 12 0.48
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
ATTAATTAAAAA
Found at i:13295080 original size:16 final size:18
Alignment explanation
Indices: 13295061--13295098 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
13295051 TTACTAAAAT
13295061 AAAAACCTTA-TG-AGAA
1 AAAAACCTTAGTGAAGAA
*
13295077 AAAAATCTTAGTGAAGAA
1 AAAAACCTTAGTGAAGAA
13295095 AAAA
1 AAAA
13295099 GAATATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 2 0.11
18 8 0.42
ACGTcount: A:0.61, C:0.08, G:0.13, T:0.18
Consensus pattern (18 bp):
AAAAACCTTAGTGAAGAA
Found at i:13296063 original size:11 final size:11
Alignment explanation
Indices: 13296049--13296092 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
13296039 AGATAAATAT
13296049 TATTTTATTAA
1 TATTTTATTAA
*
13296060 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
13296073 TATTTTATTAT
1 TATTTTATTAA
13296084 TATTTTATT
1 TATTTTATT
13296093 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:13298090 original size:33 final size:32
Alignment explanation
Indices: 13298047--13298207 Score: 106
Period size: 33 Copynumber: 4.8 Consensus size: 32
13298037 CAGTGTTTAT
*
13298047 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTTTG
* * * * *
13298079 ATGATAAGACCATAACTAGGTTATGGCACTATG
1 ATG-TAAGACCATAGCTGGGCTATGGCATTTTG
* * * * * * * *
13298112 AACGTAAGACTATGGTTGGACCATGACAATGTTTAT
1 -ATGTAAGACCATAGCTGGGCTATGGC-AT-TTT-G
* *
13298148 ATGTAAAACCATAGTTGGGCTATGGCATTTTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTTTG
* *
13298180 ATGATAAGACCATAACTGGGTTATGGCA
1 ATG-TAAGACCATAGCTGGGCTATGGCA
13298208 CTACGAATGT
Statistics
Matches: 93, Mismatches: 30, Indels: 11
0.69 0.22 0.08
Matches are distributed among these distances:
32 6 0.06
33 61 0.66
34 5 0.05
35 21 0.23
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTTTG
Done.