Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 56 of 135
Found at i:19437833 original size:20 final size:21
Alignment explanation
Indices: 19437808--19437846 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19437798 AACTTCCCTT
*
19437808 CAATACTT-GTTTTATCTCCA
1 CAATACTTACTTTTATCTCCA
19437828 CAATACTTACTTTTATCTC
1 CAATACTTACTTTTATCTC
19437847 AAGCATTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.46
Consensus pattern (21 bp):
CAATACTTACTTTTATCTCCA
Found at i:19444230 original size:18 final size:17
Alignment explanation
Indices: 19444192--19444230 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19444182 GCTGTCTTAG
**
19444192 TTTTCCCTTTTTTTGGT
1 TTTTCCCTTTTTTTGCA
19444209 TTTTCCCTTTTTCTTGCA
1 TTTTCCCTTTTT-TTGCA
19444227 TTTT
1 TTTT
19444231 GAGCTTCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TTTTCCCTTTTTTTGCA
Found at i:19444892 original size:20 final size:21
Alignment explanation
Indices: 19444867--19444906 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19444857 TGCATTTTTA
*
19444867 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
19444887 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
19444907 GCTCTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:19447173 original size:15 final size:16
Alignment explanation
Indices: 19447141--19447180 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
19447131 TTATATTAGC
*
19447141 ATTTAATTTTTATTTTT
1 ATTT-ATTTTTATGTTT
19447158 ATTTATTTTT-TGTTT
1 ATTTATTTTTATGTTT
19447173 ATTTATTT
1 ATTTATTT
19447181 ATCATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.55
16 6 0.27
17 4 0.18
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTATTTTTATGTTT
Found at i:19447377 original size:20 final size:20
Alignment explanation
Indices: 19447352--19447389 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19447342 CTTTTATTTA
19447352 ATTTTATTTATTTATTATGT
1 ATTTTATTTATTTATTATGT
*
19447372 ATTTTATTTATTTGTTAT
1 ATTTTATTTATTTATTAT
19447390 TTTTATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
ATTTTATTTATTTATTATGT
Found at i:19447411 original size:26 final size:26
Alignment explanation
Indices: 19447346--19447419 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
19447336 TTCTCGCTTT
19447346 TATTTA-ATTTTAT-TTATTTATTATG
1 TATTTATATTTT-TGTTATTTATTATG
19447371 TATTT-TATTTATTTGTTATTT-TTATG
1 TATTTATA-TT-TTTGTTATTTATTATG
*
19447397 CTATTTATATTTTTG-CATTTATT
1 -TATTTATATTTTTGTTATTTATT
19447420 TAATTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
25 10 0.24
26 14 0.34
27 15 0.37
28 2 0.05
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (26 bp):
TATTTATATTTTTGTTATTTATTATG
Found at i:19447437 original size:22 final size:23
Alignment explanation
Indices: 19447399--19447442 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19447389 TTTTTATGCT
*
19447399 ATTTATATTTTTGCATTTATTTA
1 ATTTATATTTTTGCATTGATTTA
19447422 ATTT-TATTTATT-CATTGATTT
1 ATTTATATTT-TTGCATTGATTT
19447443 TTTATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTATATTTTTGCATTGATTTA
Found at i:19447450 original size:33 final size:33
Alignment explanation
Indices: 19447344--19447454 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
19447334 CATTCTCGCT
* *
19447344 TTTATTTAATTTTATTTATTTATTATGTATTTTA
1 TTTATTTAATTTTATTTATTCATTATAT-TTTTA
* *
19447378 TTTATTT-GTTATT-TTTATGCTATTTATATTTTTGCA
1 TTTATTTAATT-TTATTTATTC-A-TTATATTTTT--A
19447414 TTTATTTAATTTTATTTATTCATTGAT-TTTTTA
1 TTTATTTAATTTTATTTATTCATT-ATATTTTTA
19447447 TTTATTTA
1 TTTATTTA
19447455 TATGCCATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
33 16 0.25
34 14 0.22
35 12 0.19
36 13 0.21
37 8 0.13
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (33 bp):
TTTATTTAATTTTATTTATTCATTATATTTTTA
Found at i:19447470 original size:4 final size:4
Alignment explanation
Indices: 19447344--19447455 Score: 59
Period size: 4 Copynumber: 26.2 Consensus size: 4
19447334 CATTCTCGCT
* * *
19447344 TTTA TTTAA TTTTA TTTA TTTA -TTA TGTA TTTTA TTTA TTTG TTATT
1 TTTA TTT-A -TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TT-TA
* * *
19447391 TTTA TGCTA TTTA TATT- TTTGCA TTTA TTTAA TTTTA TTTA TTCA TTGA
1 TTTA T-TTA TTTA T-TTA TTT--A TTTA TTT-A -TTTA TTTA TTTA TTTA
19447440 TTT- TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA T
19447456 ATGCCATATT
Statistics
Matches: 85, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
3 8 0.09
4 53 0.62
5 15 0.18
6 9 0.11
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:19455512 original size:25 final size:25
Alignment explanation
Indices: 19455466--19455526 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
19455456 GATTTACACA
*
19455466 CTTTCAAGCCAGACAAAATTACGCT
1 CTTTCGAGCCAGACAAAATTACGCT
* * *
19455491 CTTTTGAGCCAGACAGATTTACGCT
1 CTTTCGAGCCAGACAAAATTACGCT
19455516 CTTTCGAGCCA
1 CTTTCGAGCCA
19455527 AAATCTGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (25 bp):
CTTTCGAGCCAGACAAAATTACGCT
Found at i:19462840 original size:21 final size:21
Alignment explanation
Indices: 19462814--19462863 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
19462804 TAACTTCTAT
19462814 CGATACAAGAATTGTAACTAC
1 CGATACAAGAATTGTAACTAC
19462835 CGATACAAGAATTGTAACTAC
1 CGATACAAGAATTGTAACTAC
19462856 CGATACAA
1 CGATACAA
19462864 ACATGCACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (21 bp):
CGATACAAGAATTGTAACTAC
Found at i:19471818 original size:26 final size:26
Alignment explanation
Indices: 19471777--19471839 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
19471767 GTCTTCTAGA
*
19471777 AATTTAGCTCAAACGAGCGCAGATAG
1 AATTTAGCTCTAACGAGCGCAGATAG
* * **
19471803 AGTTTAGCTCTTACGAGCTTAGATAG
1 AATTTAGCTCTAACGAGCGCAGATAG
*
19471829 AATTTTGCTCT
1 AATTTAGCTCT
19471840 CTTGAGCTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (26 bp):
AATTTAGCTCTAACGAGCGCAGATAG
Found at i:19471871 original size:25 final size:25
Alignment explanation
Indices: 19471805--19471925 Score: 95
Period size: 25 Copynumber: 4.8 Consensus size: 25
19471795 GCAGATAGAG
* *
19471805 TTTA-GCTCTTACGAGCTTAGATAGAA
1 TTTACGCTCTTTCGAGC-TAGACA-AA
* *
19471831 TTT-TGCTCTCTT-GAGCTAGATAAA
1 TTTACGCTCT-TTCGAGCTAGACAAA
* * *
19471855 TTTATGCTCTTTCGAGCCAAACAAA
1 TTTACGCTCTTTCGAGCTAGACAAA
* * * *
19471880 ATTACGCTCTTTCGAGCCAAACAGA
1 TTTACGCTCTTTCGAGCTAGACAAA
19471905 TTTACGCTCTTTCGAGCTAGA
1 TTTACGCTCTTTCGAGCTAGA
19471926 ATCTAAAGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
24 7 0.09
25 61 0.75
26 12 0.15
27 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (25 bp):
TTTACGCTCTTTCGAGCTAGACAAA
Found at i:19475317 original size:8 final size:8
Alignment explanation
Indices: 19475301--19475346 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
19475291 TTATTTAATC
19475301 AATTA-AA
1 AATTATAA
19475308 AATTATAA
1 AATTATAA
*
19475316 AAATAT-A
1 AATTATAA
19475323 AATTATTAA
1 AATTA-TAA
*
19475332 AATAATAA
1 AATTATAA
19475340 AATTATA
1 AATTATA
19475347 TTTTTATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
7 10 0.31
8 17 0.53
9 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTATAA
Found at i:19475327 original size:15 final size:17
Alignment explanation
Indices: 19475306--19475346 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
19475296 TAATCAATTA
19475306 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
19475322 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
19475338 AAAATTATA
1 AAAATTATA
19475347 TTTTTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:19475378 original size:23 final size:22
Alignment explanation
Indices: 19475338--19475380 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
19475328 TTAAAATAAT
* *
19475338 AAAATTATATTTTTATTTCGTA
1 AAAATTATAATTTAATTTCGTA
19475360 AAAATATATAATTTAATTTCG
1 AAAAT-TATAATTTAATTTCG
19475381 ACTCCTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
AAAATTATAATTTAATTTCGTA
Found at i:19479351 original size:23 final size:25
Alignment explanation
Indices: 19479325--19479370 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19479315 CCAATTAGGG
19479325 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
19479348 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
19479371 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:19480477 original size:28 final size:28
Alignment explanation
Indices: 19480436--19480489 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
19480426 CTTTAGCCAT
*
19480436 TTTATTATTATTATTTGCATTTTTTTAA
1 TTTATTATTATTATTTGAATTTTTTTAA
*
19480464 TTTATTTATT-TTATTTTAATTTTTTT
1 TTTA-TTATTATTATTTGAATTTTTTT
19480490 CCTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTATTATTATTATTTGAATTTTTTTAA
Found at i:19489216 original size:28 final size:29
Alignment explanation
Indices: 19489155--19489210 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19489145 ATATAATATT
* *
19489155 ATAAAAATTTAATTTTAACAATTTTAACA
1 ATAAAAAATTAATTTTAACAATTATAACA
19489184 ATAAAAAATTAA-TTTAACAATATATAA
1 ATAAAAAATTAATTTTAACAAT-TATAA
19489211 ACTAAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
ATAAAAAATTAATTTTAACAATTATAACA
Found at i:19492106 original size:4 final size:4
Alignment explanation
Indices: 19492099--19492125 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19492089 AGTGGTTTTT
19492099 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
19492126 TGTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:19497374 original size:19 final size:19
Alignment explanation
Indices: 19497350--19497386 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19497340 TATTATTAAG
*
19497350 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
19497369 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
19497387 TTAATAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:19497387 original size:15 final size:15
Alignment explanation
Indices: 19497332--19497388 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
19497322 TTTATATTAC
*
19497332 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
19497347 AAGATATTTATAATTATA
1 AAAATA-TT-T-ATTATT
19497365 ATAAATATTTATTATT
1 A-AAATATTTATTATT
19497381 AAAATATT
1 AAAATATT
19497389 AATAATTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 11 0.33
16 8 0.24
17 2 0.06
18 8 0.24
19 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:19497493 original size:16 final size:19
Alignment explanation
Indices: 19497468--19497523 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
19497458 AAAAATTGAA
19497468 ATATTAAATAATTTATTAA-
1 ATATT-AATAATTTATTAAT
19497487 A-A-TAATAAATTATATTAATT
1 ATATTAAT-AATT-TATTAA-T
19497507 ATATTAATAATTTATTA
1 ATATTAATAATTTATTA
19497524 TATGACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 5 0.16
18 7 0.23
19 1 0.03
20 6 0.19
21 5 0.16
22 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTAATAATTTATTAAT
Found at i:19497595 original size:28 final size:28
Alignment explanation
Indices: 19497556--19497621 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
19497546 AATATGTATG
19497556 TTTAATAATA-TTGAAAAATATAATATT
1 TTTAATAATATTTGAAAAATATAATATT
* * *
19497583 TTATAATAATATTTTAAATATTTAATATT
1 TT-TAATAATATTTGAAAAATATAATATT
*
19497612 TTTAAAAATA
1 TTTAATAATA
19497622 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.06
28 15 0.45
29 16 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TTTAATAATATTTGAAAAATATAATATT
Found at i:19501605 original size:22 final size:23
Alignment explanation
Indices: 19501580--19501634 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
19501570 TATAGATTAT
*
19501580 TTATTTAATATATATTGTT-AAA
1 TTATTTAATATATAATGTTAAAA
* *
19501602 TTATTTTAT-TTTAATGTTAAAA
1 TTATTTAATATATAATGTTAAAA
19501624 TTA-TTAATATA
1 TTATTTAATATA
19501635 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TTATTTAATATATAATGTTAAAA
Found at i:19506803 original size:21 final size:24
Alignment explanation
Indices: 19506778--19506831 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
19506768 TAGGTGATTT
19506778 TTTTTA-TTT-TTAGTTGAAATAA
1 TTTTTATTTTATTAGTTGAAATAA
19506800 TTTTTATTTTAGTTAGTTGAAATAA
1 TTTTTATTTTA-TTAGTTGAAATAA
19506825 TTTTTAT
1 TTTTTAT
19506832 ATAAATGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.21
23 3 0.10
25 20 0.69
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (24 bp):
TTTTTATTTTATTAGTTGAAATAA
Found at i:19509065 original size:15 final size:15
Alignment explanation
Indices: 19509027--19509067 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
19509017 ATTTAATTTA
*
19509027 ATTTATTATTTTTTT
1 ATTTGTTATTTTTTT
*
19509042 A--TGTAATTTTTTT
1 ATTTGTTATTTTTTT
19509055 ATTTGTTATTTTT
1 ATTTGTTATTTTT
19509068 ATGCTAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 11 0.52
15 10 0.48
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
ATTTGTTATTTTTTT
Found at i:19521396 original size:29 final size:29
Alignment explanation
Indices: 19521349--19521502 Score: 121
Period size: 30 Copynumber: 5.2 Consensus size: 29
19521339 AAAATTATGT
**
19521349 TTTGACCCACGAACTTTTTAAAAATTTAAA
1 TTTGACCCTTGAAC-TTTTAAAAATTTAAA
*
19521379 TTTGACCCTTGAACTTTTTAAAAATTCAAA
1 TTTGACCCTTGAAC-TTTTAAAAATTTAAA
* * * * *
19521409 TTTAACCTTTAAACTTTCCAAAAATTTGAA
1 TTTGACCCTTGAACTTT-TAAAAATTTAAA
* * * **
19521439 TTTAATCC-TAAACTTTTCAAAAATTCCAA
1 TTTGACCCTTGAACTTTT-AAAAATTTAAA
**
19521468 TTTGACCCTTGAACTTTCCAAAATTTAAA
1 TTTGACCCTTGAACTTTTAAAAATTTAAA
*
19521497 TGTGAC
1 TTTGAC
19521503 TCGATTTTAA
Statistics
Matches: 99, Mismatches: 22, Indels: 7
0.77 0.17 0.05
Matches are distributed among these distances:
29 39 0.39
30 60 0.61
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTGACCCTTGAACTTTTAAAAATTTAAA
Found at i:19521424 original size:30 final size:30
Alignment explanation
Indices: 19521360--19521490 Score: 129
Period size: 30 Copynumber: 4.4 Consensus size: 30
19521350 TTGACCCACG
* * * *
19521360 AACTTTTTAAAAATTTAAATTTGACCCTTG
1 AACTTTTCAAAAATTCAAATTTAACCCTTA
* *
19521390 AACTTTTTAAAAATTCAAATTTAACCTTTA
1 AACTTTTCAAAAATTCAAATTTAACCCTTA
* ** *
19521420 AACTTTCCAAAAATTTGAATTTAATCC-TA
1 AACTTTTCAAAAATTCAAATTTAACCCTTA
* * *
19521449 AACTTTTCAAAAATTCCAATTTGACCCTTG
1 AACTTTTCAAAAATTCAAATTTAACCCTTA
*
19521479 AACTTTCCAAAA
1 AACTTTTCAAAA
19521491 TTTAAATGTG
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
29 24 0.29
30 59 0.71
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (30 bp):
AACTTTTCAAAAATTCAAATTTAACCCTTA
Found at i:19532807 original size:50 final size:48
Alignment explanation
Indices: 19532732--19532859 Score: 130
Period size: 49 Copynumber: 2.6 Consensus size: 48
19532722 GATAGAACAT
* * * *
19532732 CAAATCTTATACCCCTAAATCTGTAGAGGAACGGATTGAAACCGCAATGA
1 CAAATCTCATACACCTAAAACTGTAGAGGAA--GATTGAAACCACAATGA
* * *
19532782 CAAATCTCATACACCTAAAACTGTAGGGGGAAGATTGAAGCCACAATGG
1 CAAATCTCATACACCTAAAACTGTA-GAGGAAGATTGAAACCACAATGA
* * **
19532831 CGAATCTCATTCACCTAAAGTTGTAGAGG
1 CAAATCTCATACACCTAAAACTGTAGAGG
19532860 GGCAGATTGA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.05
49 35 0.54
50 22 0.34
51 5 0.08
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (48 bp):
CAAATCTCATACACCTAAAACTGTAGAGGAAGATTGAAACCACAATGA
Found at i:19532837 original size:49 final size:49
Alignment explanation
Indices: 19532734--19532892 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 49
19532724 TAGAACATCA
* * * * * * * *
19532734 AATCTTATACCCCTAAATCTGTA-GAGGAACGGATTGAAACCGCAATGACA
1 AATCTCATACACCTAAAACTGTAGGGGGAA--GATTGAAGCCACAATGGCG
19532784 AATCTCATACACCTAAAACTGTAGGGGGAAGATTGAAGCCACAATGGCG
1 AATCTCATACACCTAAAACTGTAGGGGGAAGATTGAAGCCACAATGGCG
* ** * *
19532833 AATCTCATTCACCTAAAGTTGTAGAGGGGCAGATTGAAGCTACAA-GAGCG
1 AATCTCATACACCTAAAACTGTAG-GGGGAAGATTGAAGCCACAATG-GCG
*
19532883 AATCTTATAC
1 AATCTCATAC
19532893 TCATGAAGCT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
49 37 0.41
50 49 0.54
51 5 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (49 bp):
AATCTCATACACCTAAAACTGTAGGGGGAAGATTGAAGCCACAATGGCG
Found at i:19533141 original size:40 final size:39
Alignment explanation
Indices: 19533084--19533324 Score: 232
Period size: 39 Copynumber: 6.1 Consensus size: 39
19533074 TCTAATCTCC
* * *
19533084 TACCCCAATCAT-GGGTAGATTGAAGACCATCCAATCTTT
1 TACCCCAACCATGGGGCAGATTGAAG-CAATCCAATCTTT
* *
19533123 TACCCCCACCATGGGGTAGATTGAAGCAATCCAATCTTT
1 TACCCCAACCATGGGGCAGATTGAAGCAATCCAATCTTT
* *
19533162 TACCCTAACCATGGGGCAGATTGAAGCAATCAAATCTTTT
1 TACCCCAACCATGGGGCAGATTGAAGCAATCCAATC-TTT
* * * * * *
19533202 TACCTCAATCATGGGGCAAATTGAAAACCATACAATCTTT
1 TACCCCAACCATGGGGCAGATTG-AAGCAATCCAATCTTT
* * * * *
19533242 TACCCCGATCATAGGGCAGATTAAAGCAATCCAGTCTTT
1 TACCCCAACCATGGGGCAGATTGAAGCAATCCAATCTTT
** * * * *
19533281 TACCCTGACCATGGGGCAAATTGAAACCATCCAATCCTT
1 TACCCCAACCATGGGGCAGATTGAAGCAATCCAATCTTT
19533320 TACCC
1 TACCC
19533325 TAATTAGAAG
Statistics
Matches: 166, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
39 101 0.61
40 56 0.34
41 9 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (39 bp):
TACCCCAACCATGGGGCAGATTGAAGCAATCCAATCTTT
Found at i:19533239 original size:119 final size:118
Alignment explanation
Indices: 19533084--19533365 Score: 320
Period size: 119 Copynumber: 2.4 Consensus size: 118
19533074 TCTAATCTCC
* * * * * * *
19533084 TACCCCAATCATGGGTAGATTGAAGACCATCCAATCTTTTACCCCCACCATGGGGTAGATTGAAG
1 TACCCCAATCATGGGCAAATTGAAAACCATACAATCTTTTACCCCCACCATAGGGCAGATTAAAG
*
19533149 CAATCCAATCTTTTACCCTAACCATGGGGCAGATTGAAGCAATCAAATCTTTT
66 CAATCCAATCTTTTACCCTAACCATGGGGCAAATTGAAGCAATCAAATCTTTT
* * *
19533202 TACCTCAATCATGGGGCAAATTGAAAACCATACAATCTTTTACCCCGATCATAGGGCAGATTAAA
1 TACCCCAATCAT-GGGCAAATTGAAAACCATACAATCTTTTACCCCCACCATAGGGCAGATTAAA
* * * * * *
19533267 GCAATCCAGTCTTTTACCCTGACCATGGGGCAAATTGAAACCATCCAATC-CTT
65 GCAATCCAATCTTTTACCCTAACCATGGGGCAAATTGAAGCAATCAAATCTTTT
* *
19533320 TACCCTAATTA-GAAGGCAAATT-AAAGACCAT-CAAGTCTTTTACCCC
1 TACCCCAATCATG--GGCAAATTGAAA-ACCATACAA-TCTTTTACCCC
19533366 TAAATCTATG
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
116 1 0.01
117 6 0.04
118 45 0.32
119 87 0.63
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (118 bp):
TACCCCAATCATGGGCAAATTGAAAACCATACAATCTTTTACCCCCACCATAGGGCAGATTAAAG
CAATCCAATCTTTTACCCTAACCATGGGGCAAATTGAAGCAATCAAATCTTTT
Found at i:19533269 original size:80 final size:78
Alignment explanation
Indices: 19533084--19533324 Score: 225
Period size: 79 Copynumber: 3.1 Consensus size: 78
19533074 TCTAATCTCC
* * * * * ** * *
19533084 TACCCCAATCAT-GGGTAGATTGAAGACCATCCAATCTTTTACCCCCACCATGGGGTAGATTGAA
1 TACCCCAACCATAGGGCAGATTAAAG-CAATCAAATCTTTTACCCTAACCATGGGGCAAATTGAA
* * *
19533148 GCAATCCAATCTTT
65 ACCATACAATCTTT
* * * *
19533162 TACCCTAACCATGGGGCAGATTGAAGCAATCAAATCTTTTTA-CCTCAATCATGGGGCAAATTGA
1 TACCCCAACCATAGGGCAGATTAAAGCAATCAAATC-TTTTACCCT-AACCATGGGGCAAATTG-
19533226 AAACCATACAATCTTT
63 AAACCATACAATCTTT
* * * * *
19533242 TACCCCGATCATAGGGCAGATTAAAGCAATCCAGTCTTTTACCCTGACCATGGGGCAAATTGAAA
1 TACCCCAACCATAGGGCAGATTAAAGCAATCAAATCTTTTACCCTAACCATGGGGCAAATTGAAA
* *
19533307 CCATCCAATCCTT
66 CCATACAATCTTT
19533320 TACCC
1 TACCC
19533325 TAATTAGAAG
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 39 0.29
79 50 0.37
80 45 0.34
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (78 bp):
TACCCCAACCATAGGGCAGATTAAAGCAATCAAATCTTTTACCCTAACCATGGGGCAAATTGAAA
CCATACAATCTTT
Found at i:19533362 original size:40 final size:45
Alignment explanation
Indices: 19533294--19533413 Score: 114
Period size: 44 Copynumber: 2.8 Consensus size: 45
19533284 CCTGACCATG
*
19533294 GGGCAAATTGAA-ACCATCCAATCCTTTA-CCCT-AAT-TA-GAA
1 GGGCAAATTAAAGACCATCCAATCCTTTACCCCTAAATCTAGGAA
*
19533334 -GGCAAATTAAAGACCAT-CAAGTCTTTTACCCCTAAATCTATGGAA
1 GGGCAAATTAAAGACCATCCAA-TCCTTTACCCCTAAATCTA-GGAA
* * *
19533379 GGGCAAATTAAAGA--AGCAAATCCTATACCCCTAAA
1 GGGCAAATTAAAGACCATCCAATCCTTTACCCCTAAA
19533414 GTTGTAGAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
39 13 0.20
40 11 0.17
41 4 0.06
42 3 0.05
43 2 0.03
44 14 0.22
45 5 0.08
46 13 0.20
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (45 bp):
GGGCAAATTAAAGACCATCCAATCCTTTACCCCTAAATCTAGGAA
Found at i:19534021 original size:4 final size:4
Alignment explanation
Indices: 19534012--19534038 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19534002 TTTTATGAAT
19534012 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
19534039 TAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:19534100 original size:75 final size:77
Alignment explanation
Indices: 19533977--19534118 Score: 234
Period size: 75 Copynumber: 1.9 Consensus size: 77
19533967 TTTTCATATT
19533977 TTTTATTTTATTTATTTATTTACTATTTTATGAATATAAATAAATAAATAAATAAATAAAT-ATA
1 TTTTATTTTATTTATTTATTTACTATTTTATGAATATAAATAAATAAATAAATAAATAAATGATA
19534041 AAATAATATTAA
66 AAATAATATTAA
* * * *
19534053 TTTTGTTTTA-TTATTTATTTATTATTTTATGAATATAGATAAATAAATACATAAATAAATGATA
1 TTTTATTTTATTTATTTATTTACTATTTTATGAATATAAATAAATAAATAAATAAATAAATGATA
19534117 AA
66 AA
19534119 CCCAAATTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 47 0.77
76 14 0.23
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (77 bp):
TTTTATTTTATTTATTTATTTACTATTTTATGAATATAAATAAATAAATAAATAAATAAATGATA
AAATAATATTAA
Found at i:19534207 original size:28 final size:28
Alignment explanation
Indices: 19534175--19534232 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
19534165 GCCCAAAACT
19534175 TTAACTCAAACACAAAAAACCCTAGCCC
1 TTAACTCAAACACAAAAAACCCTAGCCC
19534203 TTAACTCAAACACAAAAAACCCTAGCCC
1 TTAACTCAAACACAAAAAACCCTAGCCC
19534231 TT
1 TT
19534233 TTTGTTACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.17
Consensus pattern (28 bp):
TTAACTCAAACACAAAAAACCCTAGCCC
Found at i:19535241 original size:61 final size:61
Alignment explanation
Indices: 19535165--19535339 Score: 187
Period size: 61 Copynumber: 2.9 Consensus size: 61
19535155 AAAAATATGT
* *
19535165 TTTGACCTC-TAAACTTTTCAAAAATTTAAATTTAACCCATAAACTTTCTAAAAATCCAAA
1 TTTGACCCCTTAAACTTTTCAAAAATTTAAATTTAACCCATAAACTTTCCAAAAATCCAAA
* * * * **
19535225 TTTGACCCCTTAAACTTTCCAAAAATTCAAATTTGACCCCTAAACTTTCCAAAAATTTAAA
1 TTTGACCCCTTAAACTTTTCAAAAATTTAAATTTAACCCATAAACTTTCCAAAAATCCAAA
** * * * *
19535286 TTTGA-CCCTCGAAC-TTTCCAAAATTTCTAATTTAACCCTTGAAC-TTCCAAAAAT
1 TTTGACCCCTTAAACTTTTCAAAAATTT-AAATTTAACCCATAAACTTTCCAAAAAT
19535340 TTAAATGTGA
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
59 19 0.20
60 28 0.29
61 49 0.51
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.34
Consensus pattern (61 bp):
TTTGACCCCTTAAACTTTTCAAAAATTTAAATTTAACCCATAAACTTTCCAAAAATCCAAA
Found at i:19535242 original size:31 final size:30
Alignment explanation
Indices: 19535165--19535352 Score: 200
Period size: 30 Copynumber: 6.3 Consensus size: 30
19535155 AAAAATATGT
* * *
19535165 TTTGACCTCTAAACTTTTCAAAAATTTAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
* * * *
19535195 TTTAACCCATAAACTTTCTAAAAATCCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
19535225 TTTGACCCCTTAAACTTTCCAAAAATTCAAA
1 TTTGACCCC-TAAACTTTCCAAAAATTCAAA
*
19535256 TTTGACCCCTAAACTTTCCAAAAATTTAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
* * *
19535286 TTTGA-CCCTCGAACTTTCCAAAATTTCTAA
1 TTTGACCCCT-AAACTTTCCAAAAATTCAAA
* * * *
19535316 TTTAACCCTTGAAC-TTCCAAAAATTTAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAAA
*
19535345 TGTGACCC
1 TTTGACCC
19535353 AGTTTTAATG
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
29 22 0.17
30 79 0.60
31 31 0.23
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCCAAAAATTCAAA
Found at i:19549167 original size:245 final size:247
Alignment explanation
Indices: 19548732--19549218 Score: 780
Period size: 245 Copynumber: 2.0 Consensus size: 247
19548722 ACCCTTAGGT
* * * *
19548732 ATATTCATAGATTTCTTGCTTTTAACTATTTTGGCTGTAATGATTCTTCAACTGTCTTAACTAAG
1 ATATTCATAGATTTCTTGCTTGTAACTATTTCGGCTATAATGATTCTTCAACTATCTTAACTAAG
* * *
19548797 ACGAAATTATTTTTTGTGTGGTGTATGTATTATGGATATAGAGTAAGCCTAGGATATTGGTTTGC
66 ACGAAAGTATTTTTTGTGTGGTGTATGTATTATGAATATAGAGTAAACCTAGGATATTGGTTTGC
* * * * *
19548862 ATGTAGTTTCCACATCGTAATCAGGGCCCGTCGACCTCTCATACTAGGCTCATTCATCACGCTTA
131 ACGTAGTTTCCACACCATAATCAGGGCCCGTCGACCTCTCATACTAGGCCCATACATCACGCTTA
19548927 GCCACAACCATTAATTCATCAATTGATTTATCATCTCTCACACATGCTTATA
196 GCCACAACCATTAATTCATCAATTGATTTATCATCTCTCACACATGCTTATA
*
19548979 ATATTCATAGATTTCTTGCTTGTAACTATTTCGGCTATAATGATTCTT-AGCTATCTTAACTAAG
1 ATATTCATAGATTTCTTGCTTGTAACTATTTCGGCTATAATGATTCTTCAACTATCTTAACTAAG
*
19549043 ACGAAAGTA-TTTTTGTGTGGTGTATGTATTATGAATATAGAGTAAACTTAGGATATTGGTTTGC
66 ACGAAAGTATTTTTTGTGTGGTGTATGTATTATGAATATAGAGTAAACCTAGGATATTGGTTTGC
* *
19549107 ACGTAGTTTCCATACCATAATCAGGGCTCGTCGACCTCTCATACTAGGCCCATACATCACGCTTA
131 ACGTAGTTTCCACACCATAATCAGGGCCCGTCGACCTCTCATACTAGGCCCATACATCACGCTTA
* * * *
19549172 GCCGCGACCATTTATTCATCAATTGATTTATCATCTCTTACACATGC
196 GCCACAACCATTAATTCATCAATTGATTTATCATCTCTCACACATGC
19549219 GTAGATCAAT
Statistics
Matches: 220, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
245 153 0.70
246 22 0.10
247 45 0.20
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (247 bp):
ATATTCATAGATTTCTTGCTTGTAACTATTTCGGCTATAATGATTCTTCAACTATCTTAACTAAG
ACGAAAGTATTTTTTGTGTGGTGTATGTATTATGAATATAGAGTAAACCTAGGATATTGGTTTGC
ACGTAGTTTCCACACCATAATCAGGGCCCGTCGACCTCTCATACTAGGCCCATACATCACGCTTA
GCCACAACCATTAATTCATCAATTGATTTATCATCTCTCACACATGCTTATA
Found at i:19551367 original size:52 final size:52
Alignment explanation
Indices: 19551293--19551573 Score: 393
Period size: 52 Copynumber: 5.4 Consensus size: 52
19551283 AATATTCATA
* * * * ** **
19551293 ATGATACATGGTCATCGGACCTCTTAATTTGTAAATAATTCATATACTCACG
1 ATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACG
*
19551345 ATGACACATAGTCATCAAACCTCATAATCCGTAAAGGATTCATATACTCACG
1 ATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACG
* * * *
19551397 ATGACACATAGTCATTGGAGCTCATAATCCGTAAAGCATTCATATACTCACG
1 ATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACG
* *
19551449 ATGACACATAGTCATCGAACCTCATAACCCGTAAATGATTCATATACTCACG
1 ATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACG
* *
19551501 ATGACACATAGTCATCAAACTTCATAATCCGTAAAGGATTCATATACTCA-G
1 ATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACG
*
19551552 ATGACACATAGTCATCGGACCT
1 ATGACACATAGTCATCGAACCT
19551574 ATTTCATTTA
Statistics
Matches: 202, Mismatches: 27, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
51 20 0.10
52 182 0.90
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (52 bp):
ATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCATATACTCACG
Found at i:19557343 original size:21 final size:21
Alignment explanation
Indices: 19557317--19557362 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
19557307 CCACCGATAT
19557317 AAGTGACAGTTCTACCAATAC
1 AAGTGACAGTTCTACCAATAC
*** *
19557338 AAGTGATTTTTCTACCGATAC
1 AAGTGACAGTTCTACCAATAC
19557359 AAGT
1 AAGT
19557363 CTTAATTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
AAGTGACAGTTCTACCAATAC
Found at i:19557778 original size:52 final size:52
Alignment explanation
Indices: 19557696--19557922 Score: 339
Period size: 52 Copynumber: 4.4 Consensus size: 52
19557686 AAACCTATAA
* * * *
19557696 ACACATGGTCATCGAACCTCTTAATCCGTAAAGGATTCATATACTCACAATG
1 ACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCATATACTCACGATG
* *
19557748 ATAAATAGTCATCGAACCTCATAATTCGTAAAGGATTCATATACTCACGATG
1 ACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCATATACTCACGATG
* *
19557800 ACACATCGTCATCGAACCTTATAATTCGTAAAGGATTCATATACTCACGATG
1 ACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCATATACTCACGATG
* *
19557852 ACACATAGTTATCGGACCTCATAA-TCTGTAAAGGATTCATATACTCACGATG
1 ACACATAGTCATCGAACCTCATAATTC-GTAAAGGATTCATATACTCACGATG
*
19557904 ACACATAGTCATCGGACCT
1 ACACATAGTCATCGAACCT
19557923 ATTTCATTTA
Statistics
Matches: 159, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
51 2 0.01
52 157 0.99
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (52 bp):
ACACATAGTCATCGAACCTCATAATTCGTAAAGGATTCATATACTCACGATG
Found at i:19562329 original size:139 final size:139
Alignment explanation
Indices: 19562076--19562573 Score: 933
Period size: 139 Copynumber: 3.6 Consensus size: 139
19562066 AGAGATATGG
*
19562076 TAAAACATGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
1 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
* * * * *
19562141 ACTACACCACGACACCTCATGTGCGATGCGTCATATTTTCTACTTATAGAATTAATAATACTAAG
66 ACTACACCACGACACCTTATGTGCTATGCGTCATTTTTTTTACTAATAGAATTAATAATACTAAG
19562206 CATAAAAAT
131 CATAAAAAT
19562215 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
1 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
*
19562280 ACTACACCACGACACCTTATGTGCTATGCGTCATTTTTTTTACTAATAGAATTAATAATAGTAAG
66 ACTACACCACGACACCTTATGTGCTATGCGTCATTTTTTTTACTAATAGAATTAATAATACTAAG
19562345 CATAAAAAT
131 CATAAAAAT
19562354 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
1 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
19562419 ACTACACCACGACACCTTATGTGCTATGCGTCATTTTTTTTACTAATAGAATTAATAATACTAAG
66 ACTACACCACGACACCTTATGTGCTATGCGTCATTTTTTTTACTAATAGAATTAATAATACTAAG
19562484 CATAAAAAT
131 CATAAAAAT
19562493 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
1 TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
19562558 ACTACACCACGACACC
66 ACTACACCACGACACC
19562574 ACTATTATCA
Statistics
Matches: 351, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 351 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (139 bp):
TAAAACTTGGCGTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCA
ACTACACCACGACACCTTATGTGCTATGCGTCATTTTTTTTACTAATAGAATTAATAATACTAAG
CATAAAAAT
Found at i:19563356 original size:27 final size:28
Alignment explanation
Indices: 19563305--19563358 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
19563295 AATTTAATGT
*
19563305 ATAATTTTATATATAAATTTCGATTTGG
1 ATAATTTTATACATAAATTTCGATTTGG
* *
19563333 ATAATTTTTTACA-AAATTTTGATTTG
1 ATAATTTTATACATAAATTTCGATTTG
19563359 AATGCAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (28 bp):
ATAATTTTATACATAAATTTCGATTTGG
Found at i:19564768 original size:23 final size:26
Alignment explanation
Indices: 19564726--19564773 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
19564716 AAATCATAAT
19564726 GAAAAATAATAATTAGAATGCAACAC
1 GAAAAATAATAATTAGAATGCAACAC
19564752 GAAAAATAA-AA-TA-AATGCAACA
1 GAAAAATAATAATTAGAATGCAACA
19564774 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 2 0.09
25 2 0.09
26 9 0.41
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (26 bp):
GAAAAATAATAATTAGAATGCAACAC
Found at i:19565181 original size:23 final size:23
Alignment explanation
Indices: 19565154--19565206 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
19565144 AATAATTATT
*
19565154 TATATAATATTTATATATT-TTCA
1 TATATAATAATTATAT-TTATTCA
19565177 TATATAAATAATTATATTTATTCA
1 TATAT-AATAATTATATTTATTCA
19565201 -ATATAA
1 TATATAA
19565207 ATATAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 11 0.41
24 14 0.52
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATAATAATTATATTTATTCA
Found at i:19565208 original size:23 final size:24
Alignment explanation
Indices: 19565154--19565209 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
19565144 AATAATTATT
*
19565154 TATAT-AATATTTATATATTTTCA
1 TATATAAATAATTATATATTTTCA
19565177 TATATAAATAATTATAT-TTATTCA
1 TATATAAATAATTATATATT-TTCA
19565201 -ATATAAATA
1 TATATAAATA
19565210 TAAATTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TATATAAATAATTATATATTTTCA
Found at i:19567870 original size:5 final size:5
Alignment explanation
Indices: 19567860--19567886 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19567850 AATAGTCAAA
19567860 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
19567887 ACTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:19569434 original size:15 final size:14
Alignment explanation
Indices: 19569415--19569476 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
19569405 AGCTTTTTGC
19569415 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
* *
19569429 TATTT-TTC-GTTT
1 TTTTTCTTCTTTTT
19569441 TTTTTCTTCCTTTTT
1 TTTTTCTT-CTTTTT
* *
19569456 CTTTTCTACTTTTT
1 TTTTTCTTCTTTTT
19569470 CTTTTTC
1 -TTTTTC
19569477 CTAACCTAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
12 7 0.19
13 5 0.14
14 11 0.30
15 14 0.38
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:19569455 original size:14 final size:13
Alignment explanation
Indices: 19569415--19569474 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
19569405 AGCTTTTTGC
19569415 TTTTTCTTCTTTT
1 TTTTTCTTCTTTT
*
19569428 TTATTT-TTCGTTT
1 TT-TTTCTTCTTTT
19569441 TTTTTCTTCCTTTT
1 TTTTTCTT-CTTTT
*
19569455 TCTTTTCTACTTTT
1 T-TTTTCTTCTTTT
19569469 TCTTTT
1 T-TTTT
19569475 TCCTAACCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 3 0.08
13 12 0.30
14 19 0.47
15 6 0.15
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTCTTCTTTT
Found at i:19570135 original size:31 final size:31
Alignment explanation
Indices: 19570090--19570154 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
19570080 ATAGAACTAA
* * *
19570090 AATAAATAAAAATAAGTTCACATCAAT-ATT
1 AATAAATAAAAATAAATTCAAAACAATGATT
*
19570120 AATAAGTAAACAATAAATTCAAAACAATGATT
1 AATAAATAAA-AATAAATTCAAAACAATGATT
19570152 AAT
1 AAT
19570155 TCCATCTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 9 0.31
31 14 0.48
32 6 0.21
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (31 bp):
AATAAATAAAAATAAATTCAAAACAATGATT
Found at i:19576350 original size:21 final size:21
Alignment explanation
Indices: 19576312--19576384 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
19576302 GTTTTTAGTA
*
19576312 TCGGTAGAAGCATGACTTGTT
1 TCGGTAGAAGCATCACTTGTT
*
19576333 TCGGTAGAAG-AGTCACTTGTA
1 TCGGTAGAAGCA-TCACTTGTT
* * *
19576354 CCGATAGAA-CTATCACTTGTA
1 TCGGTAGAAGC-ATCACTTGTT
*
19576375 TCGATAGAAG
1 TCGGTAGAAG
19576385 TCTGCACTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (21 bp):
TCGGTAGAAGCATCACTTGTT
Found at i:19578890 original size:21 final size:21
Alignment explanation
Indices: 19578849--19578899 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
19578839 GGAGTTTTTA
*
19578849 GTATCGGTAGAAGCATGACTT
1 GTATCGGTAGAAGCATCACTT
* **
19578870 GTTTCGGTAGAAGTTTCACTT
1 GTATCGGTAGAAGCATCACTT
19578891 GTATCGGTA
1 GTATCGGTA
19578900 AAAATGTCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGCATCACTT
Found at i:19578909 original size:21 final size:21
Alignment explanation
Indices: 19578866--19578919 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
19578856 TAGAAGCATG
* * * *
19578866 ACTTGTTTCGGTAGAAGTTTC
1 ACTTGTATCGGTAAAAATGTC
19578887 ACTTGTATCGGTAAAAATGTC
1 ACTTGTATCGGTAAAAATGTC
**
19578908 ACAGGTATCGGT
1 ACTTGTATCGGT
19578920 TGAAGTTTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (21 bp):
ACTTGTATCGGTAAAAATGTC
Found at i:19580112 original size:15 final size:16
Alignment explanation
Indices: 19580078--19580110 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19580068 TGCGAATGTA
*
19580078 GGGTTCGCAAGTT-TG
1 GGGTTCGCATGTTGTG
19580093 GGGTTCGCATGTTGTG
1 GGGTTCGCATGTTGTG
19580109 GG
1 GG
19580111 TTTGCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.09, C:0.12, G:0.45, T:0.33
Consensus pattern (16 bp):
GGGTTCGCATGTTGTG
Found at i:19580279 original size:34 final size:34
Alignment explanation
Indices: 19580218--19580303 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
19580208 GGGCTCGCAT
** * **
19580218 AACATATAGGCTAACATGCACCTAGGGTTTGCAC
1 AACATATAGGCTCGCATGCACCAAGGGTTCACAC
* * *
19580252 AACATATAGGCTCGCATGTAGCAAGGGTTCACAT
1 AACATATAGGCTCGCATGCACCAAGGGTTCACAC
*
19580286 AACAGATAGGCTCGCATG
1 AACATATAGGCTCGCATG
19580304 ATTATCCTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (34 bp):
AACATATAGGCTCGCATGCACCAAGGGTTCACAC
Found at i:19584678 original size:18 final size:18
Alignment explanation
Indices: 19584655--19584689 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19584645 ATTTGAGTTG
*
19584655 ACTCAAATAACTCGATTA
1 ACTCAAACAACTCGATTA
19584673 ACTCAAACAACTCGATT
1 ACTCAAACAACTCGATT
19584690 CGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (18 bp):
ACTCAAACAACTCGATTA
Found at i:19587118 original size:9 final size:9
Alignment explanation
Indices: 19587104--19587135 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
19587094 TAACGAGACT
*
19587104 ATAATAATA
1 ATAATAACA
19587113 ATAATAACA
1 ATAATAACA
19587122 ATAATAACA
1 ATAATAACA
19587131 ATAAT
1 ATAAT
19587136 TATCGAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAATAACA
Found at i:19587768 original size:97 final size:93
Alignment explanation
Indices: 19587602--19587791 Score: 244
Period size: 97 Copynumber: 2.0 Consensus size: 93
19587592 AACCTTTAAA
* * * *
19587602 AAGGGTATTTGATTATCCCAGTTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCATAATTTTTTA
1 AAGGGTATTTGATTATCCCAGTTTGAAGAAAAATAGCGCATAGTAAGTTAAGGCATAATTTTTCA
19587667 AAACCCGAAATAAAGGAATATTGCCTCGATTT
66 AAACCC----TAAAGGAATATTGCCTCGATTT
19587699 AAGGGTATTCT-ATTATCCC-GATTTGAAGAAAAATAGCGCATAGTACA-TTAAGGCATGAA-TT
1 AAGGGTATT-TGATTATCCCAG-TTTGAAGAAAAATAGCGCATAGTA-AGTTAAGGCAT-AATTT
19587760 TTCAAAACCCTAAAGGAATATTGCCTCGATTT
62 TTCAAAACCCTAAAGGAATATTGCCTCGATTT
19587792 TAAATATTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
93 22 0.26
96 1 0.01
97 58 0.68
98 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (93 bp):
AAGGGTATTTGATTATCCCAGTTTGAAGAAAAATAGCGCATAGTAAGTTAAGGCATAATTTTTCA
AAACCCTAAAGGAATATTGCCTCGATTT
Found at i:19588063 original size:16 final size:17
Alignment explanation
Indices: 19588030--19588063 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19588020 CGAAAATGAA
*
19588030 GTTTTGGAGAGTTTGGG
1 GTTTTGGAGAGTTCGGG
19588047 GTTTTGGA-AGTTCGGG
1 GTTTTGGAGAGTTCGGG
19588063 G
1 G
19588064 GTAAAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.03, G:0.47, T:0.38
Consensus pattern (17 bp):
GTTTTGGAGAGTTCGGG
Found at i:19588123 original size:30 final size:29
Alignment explanation
Indices: 19588048--19588426 Score: 266
Period size: 29 Copynumber: 12.8 Consensus size: 29
19588038 GAGTTTGGGG
* * * *
19588048 TTTTGGAAGTTCGGGGGTAAAAATGTGA-
1 TTTTGGAAGTTTGAGGGTCAAAATGTAAT
* *
19588076 TTTTGGAAAAGTAT-AGGGGTCAAAATGTGAT
1 TTTTGG--AAGTTTGA-GGGTCAAAATGTAAT
* *
19588107 TTTTGGAAGTTTTAGGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTCAAAATGTAAT
* *
19588136 TTTTGGAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTCAAAATGTAAT
* * ** ** *
19588165 ATTTGAAAGTTAAAGGGAAAAAATATAAT
1 TTTTGGAAGTTTGAGGGTCAAAATGTAAT
19588194 TTTTGGAAGTTTGAGGG-CAAAAATGTAA-
1 TTTTGGAAGTTTGAGGGTC-AAAATGTAAT
* *
19588222 TTTTGAGAAGTTTAAGGGTCAAAATGTGAT
1 TTTTG-GAAGTTTGAGGGTCAAAATGTAAT
*
19588252 TTTTGGAAGTTTGAAGG-CAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTC-AAAATGTAAT
* * *
19588281 TTTTAAGAAGTTTCGGGGGTCAAAATGTTAT
1 TTTT-GGAAGTTT-GAGGGTCAAAATGTAAT
* * * *
19588312 TTTTAGAAGTTCGAAGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTCAAAATGTAAT
* * * *
19588341 TTTTGGAAGTTCAGGGGGTAAAAATATAAT
1 TTTTGGAAGTT-TGAGGGTCAAAATGTAAT
* * * *
19588371 TTTTGAGAAGTTCGGGGGGTCAAGATGTGA-
1 TTTTG-GAAGTT-TGAGGGTCAAAATGTAAT
* *
19588401 TTTTGGAAAAGTGTAAGGGTCAAAAT
1 TTTTGG--AAGTTTGAGGGTCAAAAT
19588427 ATGATTTTCG
Statistics
Matches: 284, Mismatches: 50, Indels: 32
0.78 0.14 0.09
Matches are distributed among these distances:
28 12 0.04
29 155 0.55
30 71 0.25
31 45 0.16
32 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
TTTTGGAAGTTTGAGGGTCAAAATGTAAT
Found at i:19588129 original size:29 final size:29
Alignment explanation
Indices: 19588048--19588382 Score: 307
Period size: 29 Copynumber: 11.4 Consensus size: 29
19588038 GAGTTTGGGG
* * *
19588048 TTTTGGAAGTTCGGGGGTAAAAATGTGA-
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
* * *
19588076 TTTTGGAAAAGTAT-AGGGGTCAAAATGTGAT
1 TTTTGG--AAGTTTGA-GGGTAAAAATGTAAT
*
19588107 TTTTGGAAGTTTTAGGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
*
19588136 TTTTGGAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
* * ** * *
19588165 ATTTGAAAGTTAAAGGGAAAAAATATAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
*
19588194 TTTTGGAAGTTTGAGGGCAAAAATGTAA-
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
* * *
19588222 TTTTGAGAAGTTTAAGGGTCAAAATGTGAT
1 TTTTG-GAAGTTTGAGGGTAAAAATGTAAT
* *
19588252 TTTTGGAAGTTTGAAGGCAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
* * * *
19588281 TTTTAAGAAGTTTCGGGGGTCAAAATGTTAT
1 TTTT-GGAAGTTT-GAGGGTAAAAATGTAAT
* * *
19588312 TTTTAGAAGTTCGAAGGTAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGTAAT
* * *
19588341 TTTTGGAAGTTCAGGGGGTAAAAATATAAT
1 TTTTGGAAGTT-TGAGGGTAAAAATGTAAT
19588371 TTTTGAGAAGTT
1 TTTTG-GAAGTT
19588383 CGGGGGGTCA
Statistics
Matches: 250, Mismatches: 46, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
28 11 0.04
29 155 0.62
30 56 0.22
31 28 0.11
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
TTTTGGAAGTTTGAGGGTAAAAATGTAAT
Found at i:19589900 original size:17 final size:17
Alignment explanation
Indices: 19589876--19589970 Score: 109
Period size: 17 Copynumber: 5.5 Consensus size: 17
19589866 GGACATTATT
*
19589876 AATTTAAATTTAGAATA
1 AATTTAAATTTAAAATA
*
19589893 ATTTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
* * *
19589911 AATTTAAACTTATATTA
1 AATTTAAATTTAAAATA
*
19589928 AATTTAAATTTTAAAACA
1 AATTTAAA-TTTAAAATA
*
19589946 AATTTAAACTTAAAATA
1 AATTTAAATTTAAAATA
19589963 AATTTAAA
1 AATTTAAA
19589971 AACAAATGGG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
17 37 0.58
18 27 0.42
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:19589913 original size:29 final size:29
Alignment explanation
Indices: 19589880--19589935 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19589870 ATTATTAATT
*
19589880 TAAATTTAGAA-TAATTTTAAATTTAAAAA
1 TAAATTTA-AACTAATATTAAATTTAAAAA
*
19589909 TAAATTTAAACTTATATTAAATTTAAA
1 TAAATTTAAACTAATATTAAATTTAAA
19589936 TTTTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TAAATTTAAACTAATATTAAATTTAAAAA
Found at i:19589917 original size:35 final size:35
Alignment explanation
Indices: 19589876--19589970 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
19589866 GGACATTATT
* * * *
19589876 AATTTAAATTTAGAATAATTTTAAATTTAAAAATA
1 AATTTAAACTTAAAATAAATTTAAATTTAAAAACA
* * *
19589911 AATTTAAACTTATATTAAATTTAAATTTTAAAACA
1 AATTTAAACTTAAAATAAATTTAAATTTAAAAACA
19589946 AATTTAAACTTAAAATAAATTTAAA
1 AATTTAAACTTAAAATAAATTTAAA
19589971 AACAAATGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (35 bp):
AATTTAAACTTAAAATAAATTTAAATTTAAAAACA
Found at i:19589942 original size:7 final size:6
Alignment explanation
Indices: 19589876--19589970 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
19589866 GGACATTATT
* ** *
19589876 AATTTA AATTTA GAA--TA ATTTTA AATTTA AAAATA AATTTA AACTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* ** * *
19589923 TA-TTA AATTTA AATTTTA AA-ACA AATTTA AACTTA AA-ATA AATTTA
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA
19589969 AA
1 AA
19589971 AACAAATGGG
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
4 1 0.02
5 13 0.20
6 44 0.67
7 8 0.12
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:19590042 original size:3 final size:3
Alignment explanation
Indices: 19590029--19590112 Score: 114
Period size: 3 Copynumber: 28.0 Consensus size: 3
19590019 CAACAACAAC
* * * ** *
19590029 AAT AAT GAT AAT AAT AAT AAT GAT AAT AAT AGT GGT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19590077 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19590113 CACACCTCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19595370 original size:26 final size:26
Alignment explanation
Indices: 19595341--19595392 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
19595331 CCCGAAGCTT
19595341 CTCCCCCATTTCCCCTTTCCCTTTCC
1 CTCCCCCATTTCCCCTTTCCCTTTCC
* * *
19595367 CTCCCCCCTTTCTCCTTTCCTTTTCC
1 CTCCCCCATTTCCCCTTTCCCTTTCC
19595393 TTGCCACACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.42
Consensus pattern (26 bp):
CTCCCCCATTTCCCCTTTCCCTTTCC
Found at i:19597279 original size:40 final size:40
Alignment explanation
Indices: 19597235--19597464 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
19597225 CACCGGCTCA
* *
19597235 TAGCCTACTAAGCCGAAGCTTGAATGTATTCATCTG-CTTG
1 TAGCCTACTAAGCCGAAGCTTGAATTTATTCA-CCGACTTG
*
19597275 TAGCCTACTAAGCCGAAGCTTCAATTTATTCACCGACTCT-
1 TAGCCTACTAAGCCGAAGCTTGAATTTATTCACCGACT-TG
* * *
19597315 TAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTT
1 TAGCCTACTAAGCCGAAGCTTGAATTTATTCACCGACTTG
* *
19597355 TAGCCTACTAAGCTGAAGCTTGAATTTATTCACCGACTCG
1 TAGCCTACTAAGCCGAAGCTTGAATTTATTCACCGACTTG
* * * *
19597395 TAGCCTGCTAAGCCGAAGTTTGAATTTATCCACC-AGCTCG
1 TAGCCTACTAAGCCGAAGCTTGAATTTATTCACCGA-CTTG
*
19597435 TAGCCTGCTAAGCCGAAGCTTGAATTTATT
1 TAGCCTACTAAGCCGAAGCTTGAATTTATT
19597465 GAAACATAAC
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.02
40 164 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
TAGCCTACTAAGCCGAAGCTTGAATTTATTCACCGACTTG
Found at i:19597359 original size:80 final size:80
Alignment explanation
Indices: 19597222--19597464 Score: 337
Period size: 80 Copynumber: 3.0 Consensus size: 80
19597212 TTACTAATCC
* * *
19597222 ATTCACCGGCTCATAGCCTACTAAGCCGAAGCTTGAATGTATTCATCTG-CTTGTAGCCTACTAA
1 ATTCACCGACTCATAGCCTGCTAAGCCGAAGCTTGAATTTATTCATC-GACTTGTAGCCTACTAA
*
19597286 GCCGAAGCTTCAATTT
65 GCCGAAGCTTGAATTT
* *
19597302 ATTCACCGACTCTTAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTTTAGCCTACTAAG
1 ATTCACCGACTCATAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTGTAGCCTACTAAG
*
19597367 CTGAAGCTTGAATTT
66 CCGAAGCTTGAATTT
* * * * * *
19597382 ATTCACCGACTCGTAGCCTGCTAAGCCGAAGTTTGAATTTATCCA-CCAGCTCGTAGCCTGCTAA
1 ATTCACCGACTCATAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGA-CTTGTAGCCTACTAA
19597446 GCCGAAGCTTGAATTT
65 GCCGAAGCTTGAATTT
19597462 ATT
1 ATT
19597465 GAAACATAAC
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
79 3 0.02
80 143 0.98
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (80 bp):
ATTCACCGACTCATAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTGTAGCCTACTAAG
CCGAAGCTTGAATTT
Found at i:19597439 original size:120 final size:120
Alignment explanation
Indices: 19597235--19597464 Score: 347
Period size: 120 Copynumber: 1.9 Consensus size: 120
19597225 CACCGGCTCA
* *
19597235 TAGCCTACTAAGCCGAAGCTTGAATGTATTCATCTGCTTGTAGCCTACTAAGCCGAAGCTTCAAT
1 TAGCCTACTAAGCCGAAGCTTGAATGTATTCATCCGCTCGTAGCCTACTAAGCCGAAGCTTCAAT
* *
19597300 TTATTCACCGACTCTTAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTT
66 TTATCCACCGACTCGTAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTT
* * * * *
19597355 TAGCCTACTAAGCTGAAGCTTGAATTTATTCA-CCGACTCGTAGCCTGCTAAGCCGAAGTTTGAA
1 TAGCCTACTAAGCCGAAGCTTGAATGTATTCATCCG-CTCGTAGCCTACTAAGCCGAAGCTTCAA
19597419 TTTATCCACC-AGCTCGTAGCCTGCTAAGCCGAAGCTTGAATTTATT
65 TTTATCCACCGA-CTCGTAGCCTGCTAAGCCGAAGCTTGAATTTATT
19597465 GAAACATAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 3 0.03
120 96 0.97
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (120 bp):
TAGCCTACTAAGCCGAAGCTTGAATGTATTCATCCGCTCGTAGCCTACTAAGCCGAAGCTTCAAT
TTATCCACCGACTCGTAGCCTGCTAAGCCGAAGCTTGAATTTATTCATCGACTTT
Found at i:19601255 original size:29 final size:28
Alignment explanation
Indices: 19601131--19601609 Score: 339
Period size: 29 Copynumber: 16.5 Consensus size: 28
19601121 AATGGAGTCA
*** *
19601131 AAAATGTAATTTTTGGATGCCGA-GGAT
1 AAAATGTAATTTTTGGATGTTTAGGGGT
* **
19601158 AAAATGATAATTTTTGGAT-ATCCGAGGGT
1 AAAATG-TAATTTTTGGATGTTTAG-GGGT
** *
19601187 AAAACTGTAATTTTTGGAT-ACTCGAGGGT
1 AAAA-TGTAATTTTTGGATGTTTAG-GGGT
*
19601216 AAAATATAATTTTTGGATGTTTAGGGGT
1 AAAATGTAATTTTTGGATGTTTAGGGGT
* *
19601244 AAAATGGTAATTTTTAGAAAGTTTA-GGGT
1 AAAAT-GTAATTTTT-GGATGTTTAGGGGT
* *
19601273 CAAAAATGTAATTTTTGAATGTTCAGGGGT
1 --AAAATGTAATTTTTGGATGTTTAGGGGT
* * *
19601303 AAAATGGTAATTTTTGAATGTTCAAGGGT
1 AAAAT-GTAATTTTTGGATGTTTAGGGGT
*
19601332 AAAATAGTAA-TTTTGGAAAGTTTAGGGGTT
1 AAAAT-GTAATTTTTGG-ATGTTTAGGGG-T
* * *
19601362 AAAGTGTACTTTTTGGAAAG-TTAGGGGT
1 AAAATGTAATTTTTGG-ATGTTTAGGGGT
**
19601390 CAAAATGTAATTTTTGGACATCTT-GTGGG-
1 -AAAATGTAATTTTTGGATGT-TTAG-GGGT
* * *
19601419 AAAATGGTAATATTTGGATG-CTCGAGGGT
1 AAAAT-GTAATTTTTGGATGTTTAG-GGGT
* *
19601448 AAAATGTAATTTTTGAGAAGTTTAAGGGT
1 AAAATGTAATTTTTG-GATGTTTAGGGGT
*
19601477 CAAAATGTAATTTTTGGCAAGTTTAGGGGTT
1 -AAAATGTAATTTTTGG-ATGTTTAGGGG-T
* *
19601508 AAAATGTAATTTTTAGAAAG-TTAGGGGTT
1 AAAATGTAATTTTT-GGATGTTTAGGGG-T
*
19601537 AAAATGTAATTTTTGGAAAGTTTAGGGGT
1 AAAATGTAATTTTTGG-ATGTTTAGGGGT
*
19601566 CAAAATGTAATTTTTGGAATGTTTAGGGTT
1 -AAAATGTAATTTTTGG-ATGTTTAGGGGT
19601596 AAAATGTAATTTTT
1 AAAATGTAATTTTT
19601610 AGAGAGTTTT
Statistics
Matches: 379, Mismatches: 43, Indels: 58
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.02
28 65 0.17
29 181 0.48
30 119 0.31
31 7 0.02
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (28 bp):
AAAATGTAATTTTTGGATGTTTAGGGGT
Found at i:19601270 original size:30 final size:29
Alignment explanation
Indices: 19601183--19601618 Score: 387
Period size: 29 Copynumber: 14.9 Consensus size: 29
19601173 GGATATCCGA
* * **
19601183 GGGTAAAACTGTAATTTTTGGATACTCGA-
1 GGGTAAAA-TGTAATTTTTGGAAAGTTTAG
* *
19601212 GGGTAAAATATAATTTTTGG-ATGTTTAG
1 GGGTAAAATGTAATTTTTGGAAAGTTTAG
*
19601240 GGGTAAAATGGTAATTTTTAGAAAGTTTA-
1 GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
* *
19601269 GGGTCAAAAATGTAATTTTT-GAATGTTCAG
1 GGGT--AAAATGTAATTTTTGGAAAGTTTAG
* * *
19601299 GGGTAAAATGGTAATTTTT-GAATGTTCAA
1 GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
19601328 GGGTAAAATAGTAA-TTTTGGAAAGTTTAG
1 GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
* *
19601357 GGGTTAAAGTGTACTTTTTGGAAAG-TTAG
1 GGG-TAAAATGTAATTTTTGGAAAGTTTAG
*
19601386 GGGTCAAAATGTAATTTTTGGACA-TCTT-G
1 GGGT-AAAATGTAATTTTTGGAAAGT-TTAG
* * * *
19601415 TGGG-AAAATGGTAATATTTGG-ATG-CTCG
1 -GGGTAAAAT-GTAATTTTTGGAAAGTTTAG
*
19601443 AGGGTAAAATGTAATTTTT-GAGAAGTTTAA
1 -GGGTAAAATGTAATTTTTGGA-AAGTTTAG
*
19601473 GGGTCAAAATGTAATTTTTGGCAAGTTTAG
1 GGGT-AAAATGTAATTTTTGGAAAGTTTAG
*
19601503 GGGTTAAAATGTAATTTTTAGAAAG-TTAG
1 GGG-TAAAATGTAATTTTTGGAAAGTTTAG
19601532 GGGTTAAAATGTAATTTTTGGAAAGTTTAG
1 GGG-TAAAATGTAATTTTTGGAAAGTTTAG
*
19601562 GGGTCAAAATGTAATTTTTGGAATGTTTAG
1 GGGT-AAAATGTAATTTTTGGAAAGTTTAG
* * *
19601592 GGTTAAAATGTAATTTTTAGAGAGTTT
1 GGGTAAAATGTAATTTTTGGAAAGTTT
19601619 TAAGGTCAAA
Statistics
Matches: 340, Mismatches: 41, Indels: 52
0.79 0.09 0.12
Matches are distributed among these distances:
27 4 0.01
28 47 0.14
29 166 0.49
30 116 0.34
31 7 0.02
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
GGGTAAAATGTAATTTTTGGAAAGTTTAG
Found at i:19601301 original size:59 final size:58
Alignment explanation
Indices: 19601183--19601629 Score: 375
Period size: 59 Copynumber: 7.7 Consensus size: 58
19601173 GGATATCCGA
* * ** * *
19601183 GGGTAAAACT-GTAATTTTTGGATACTCGAGGGT-AAAATATAATTTTTGGATGTTTAG
1 GGGTAAAA-TGGTAATTTTTGGAAAGTTTAGGGTCAAAATGTAATTTTTGAATGTTTAG
* *
19601240 GGGTAAAATGGTAATTTTTAGAAAGTTTAGGGTCAAAAATGTAATTTTTGAATGTTCAG
1 GGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTC-AAAATGTAATTTTTGAATGTTTAG
* * * *
19601299 GGGTAAAATGGTAATTTTT-GAATGTTCAAGGGT-AAAATAGTAATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGAAAGTT-TAGGGTCAAAAT-GTAATTTTTGAATGTTTAG
* * *
19601357 GGGTTAAA-GTGTACTTTTTGGAAAG-TTAGGGGTCAAAATGTAATTTTTGGACAT-CTT-G
1 GGGTAAAATG-GTAATTTTTGGAAAGTTTA-GGGTCAAAATGTAATTTTT-GA-ATGTTTAG
* * ** * *
19601415 TGGG-AAAATGGTAATATTTGG-ATGCTCGAGGGT-AAAATGTAATTTTTGAGAAGTTTAA
1 -GGGTAAAATGGTAATTTTTGGAAAG-TTTAGGGTCAAAATGTAATTTTTGA-ATGTTTAG
* * *
19601473 GGGTCAAAAT-GTAATTTTTGGCAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAG-TTAG
1 GGGT-AAAATGGTAATTTTTGGAAAGTTTA-GGGTCAAAATGTAATTTTT-GAATGTTTAG
19601532 GGGTTAAAAT-GTAATTTTTGGAAAGTTTAGGGGTCAAAATGTAATTTTTGGAATGTTTAG
1 GGG-TAAAATGGTAATTTTTGGAAAGTTTA-GGGTCAAAATGTAATTTTT-GAATGTTTAG
* * * *
19601592 GGTTAAAAT-GTAATTTTTAGAGAGTTTTAAGGTCAAAA
1 GGGTAAAATGGTAATTTTTGGAAAG-TTTAGGGTCAAAA
19601630 CATGATTTTT
Statistics
Matches: 321, Mismatches: 43, Indels: 50
0.78 0.10 0.12
Matches are distributed among these distances:
56 4 0.01
57 54 0.17
58 79 0.25
59 153 0.48
60 29 0.09
61 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.37
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAATGTAATTTTTGAATGTTTAG
Found at i:19611633 original size:38 final size:38
Alignment explanation
Indices: 19611582--19611659 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
19611572 ATTTTATTTG
19611582 ATATTGTTGAGAAAGATAATCACGTACCCTAAACATGA
1 ATATTGTTGAGAAAGATAATCACGTACCCTAAACATGA
*
19611620 ATATTGTTGAGAAAGATAATCACGTATCCTAAACATGA
1 ATATTGTTGAGAAAGATAATCACGTACCCTAAACATGA
19611658 AT
1 AT
19611660 CATAAAACGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (38 bp):
ATATTGTTGAGAAAGATAATCACGTACCCTAAACATGA
Found at i:19612454 original size:15 final size:15
Alignment explanation
Indices: 19612434--19612463 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19612424 GTGGAAACCA
19612434 TTTATGAAGATGAAG
1 TTTATGAAGATGAAG
*
19612449 TTTATGATGATGAAG
1 TTTATGAAGATGAAG
19612464 AAGAAGATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (15 bp):
TTTATGAAGATGAAG
Found at i:19615249 original size:31 final size:30
Alignment explanation
Indices: 19615214--19615277 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
19615204 ATTTATTTTA
*
19615214 ATTACATTTTTA-ATATTATTTTTTATAAAAT
1 ATTAC-TTTTTAGATATTATTATTT-TAAAAT
*
19615245 ATTACTTTTTAGGTTATTATTATTTTAAAAT
1 ATTACTTTTTA-GATATTATTATTTTAAAAT
19615276 AT
1 AT
19615278 AGTCTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 6 0.21
31 13 0.45
32 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (30 bp):
ATTACTTTTTAGATATTATTATTTTAAAAT
Found at i:19615529 original size:16 final size:17
Alignment explanation
Indices: 19615499--19615533 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
19615489 AGAAAGTAAC
19615499 AAGTATTTCAATCGAAT
1 AAGTATTTCAATCGAAT
19615516 AAGTATTT-AATCGAAT
1 AAGTATTTCAATCGAAT
19615532 AA
1 AA
19615534 TAATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (17 bp):
AAGTATTTCAATCGAAT
Found at i:19615554 original size:19 final size:19
Alignment explanation
Indices: 19615513--19615554 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19615503 ATTTCAATCG
* *
19615513 AATAAGTATTTAATCGAAT
1 AATAAGTATTTAATAGAAA
19615532 AATAA-TATTTAAATAGAAA
1 AATAAGTATTT-AATAGAAA
19615551 AATA
1 AATA
19615555 TAACTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (19 bp):
AATAAGTATTTAATAGAAA
Found at i:19619094 original size:24 final size:24
Alignment explanation
Indices: 19619067--19619114 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19619057 CAGCGATGAT
19619067 TGGCGGTGGCCGACGATCGGTGGG
1 TGGCGGTGGCCGACGATCGGTGGG
19619091 TGGCGGTGGCCGACGATCGGTGGG
1 TGGCGGTGGCCGACGATCGGTGGG
19619115 ACTCTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.21, G:0.54, T:0.17
Consensus pattern (24 bp):
TGGCGGTGGCCGACGATCGGTGGG
Found at i:19619615 original size:30 final size:29
Alignment explanation
Indices: 19619515--19619663 Score: 144
Period size: 30 Copynumber: 5.0 Consensus size: 29
19619505 TAAGAGGTCC
*
19619515 CTAAAATTTCCAAAAATT-CAATTTTGACC-
1 CTAAACTTTCC-AAAATTAC-ATTTTGACCT
* **
19619544 CTTAAATTTTCCAAAATTACATTTAAACCT
1 C-TAAACTTTCCAAAATTACATTTTGACCT
*
19619574 C-AAACTTTTCCAAAATTATATTTTGA-CT
1 CTAAAC-TTTCCAAAATTACATTTTGACCT
*
19619602 CCTAAACTCTTCCAAAATTACATTTTAACCT
1 -CTAAACT-TTCCAAAATTACATTTTGACCT
*
19619633 CTAAACTTTCTCAAAATCACATTTTGACCT
1 CTAAACTTTC-CAAAATTACATTTTGACCT
19619663 C
1 C
19619664 AAAATTCTCA
Statistics
Matches: 100, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
28 5 0.05
29 36 0.36
30 57 0.57
31 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (29 bp):
CTAAACTTTCCAAAATTACATTTTGACCT
Found at i:19619615 original size:59 final size:57
Alignment explanation
Indices: 19619515--19619661 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 57
19619505 TAAGAGGTCC
* *
19619515 CTAAAATTTCCAAAAATTCAATTTTGACCCTTAAATTTTCCAAAATTACATTTAAACCT
1 CTAAACTTTCC-AAAATT-AATTTTGACCCTTAAATCTTCCAAAATTACATTTAAACCT
*
19619574 C-AAACTTTTCCAAAATTATATTTTGACTCC-TAAACTCTTCCAAAATTACATTTTAACCT
1 CTAAAC-TTTCCAAAATTA-ATTTTGAC-CCTTAAA-TCTTCCAAAATTACATTTAAACCT
*
19619633 CTAAACTTTCTCAAAATCACATTTTGACC
1 CTAAACTTTC-CAAAATTA-ATTTTGACC
19619662 TCAAAATTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
57 1 0.01
58 21 0.27
59 36 0.47
60 19 0.25
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (57 bp):
CTAAACTTTCCAAAATTAATTTTGACCCTTAAATCTTCCAAAATTACATTTAAACCT
Found at i:19624048 original size:15 final size:14
Alignment explanation
Indices: 19624007--19624048 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
19623997 GACGTGTTAT
*
19624007 AAAAAAGAAAATAA
1 AAAAAAGAAAAGAA
*
19624021 AAAAAAGAGAAGAA
1 AAAAAAGAAAAGAA
19624035 AAAAGAAGAAAAGA
1 AAAA-AAGAAAAGA
19624049 TGGGTCGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAGAA
Found at i:19624994 original size:8 final size:8
Alignment explanation
Indices: 19624983--19625029 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
19624973 AATAAATAAG
19624983 AAAGAAAA
1 AAAGAAAA
*
19624991 AAAGAAGA
1 AAAGAAAA
*
19624999 AAA-ATAA
1 AAAGAAAA
*
19625006 AAATAAAA
1 AAAGAAAA
*
19625014 AGAGAAAA
1 AAAGAAAA
19625022 AAAGAAAA
1 AAAGAAAA
19625030 GGAGAGGTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (8 bp):
AAAGAAAA
Found at i:19624999 original size:31 final size:31
Alignment explanation
Indices: 19624963--19625027 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
19624953 CGGACCTGAT
*
19624963 GAAG-AAAATAAATAAATAAGAA-AGAAAAAAA
1 GAAGAAAAAT-AA-AAATAAAAAGAGAAAAAAA
19624994 GAAGAAAAATAAAAATAAAAAGAGAAAAAAA
1 GAAGAAAAATAAAAATAAAAAGAGAAAAAAA
19625025 GAA
1 GAA
19625028 AAGGAGAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 8 0.26
31 18 0.58
32 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (31 bp):
GAAGAAAAATAAAAATAAAAAGAGAAAAAAA
Found at i:19625029 original size:21 final size:22
Alignment explanation
Indices: 19624980--19625029 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
19624970 ATAAATAAAT
19624980 AAGAAAGAAAAAAAGAAGAAAAA
1 AAGAAA-AAAAAAAGAAGAAAAA
* *
19625003 TA-AAAATAAAAAG-AGAAAAA
1 AAGAAAAAAAAAAGAAGAAAAA
19625023 AAGAAAA
1 AAGAAAA
19625030 GGAGAGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 3 0.13
23 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (22 bp):
AAGAAAAAAAAAAGAAGAAAAA
Found at i:19626695 original size:48 final size:49
Alignment explanation
Indices: 19626592--19626733 Score: 148
Period size: 48 Copynumber: 2.9 Consensus size: 49
19626582 TTCAAACCCC
* * ** * *
19626592 CATCCTCCTAATGAGATACAGAGAAGTAGG-TCAAAGCAATAAAAC-GTT
1 CATCTTCCTGATGAGATACAGAGAAGT-GGATCAAATTAATGAAGCAGTT
*
19626640 CAGCTTCCTGATGAGATACAGAGAAGTGGATCAAATTAATGAAGCAG-T
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAATTAATGAAGCAGTT
* * *
19626688 CATCTTCCTGATAAGATGA-AGAGAAGTAGACCAAATTAATGAAGCA
1 CATCTTCCTGATGAGAT-ACAGAGAAGTGGATCAAATTAATGAAGCA
19626734 AAGCTCAATG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
47 2 0.03
48 76 0.95
49 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (49 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAATTAATGAAGCAGTT
Found at i:19626756 original size:172 final size:173
Alignment explanation
Indices: 19626473--19626846 Score: 515
Period size: 172 Copynumber: 2.2 Consensus size: 173
19626463 ATCTGTCTTT
* * * * *
19626473 CTGATTAGATATAGAGAAGTGGATTAAATCAATGAAGCGACTATCTTCCTGATGAGATATATAGA
1 CTGATGAGATACAGAGAAGTGGATCAAATCAATGAAGCGACTATCTTCCTGATAAGATAGATAGA
*
19626538 GAAGTAGACCAAATCAATAAAATGAAACTCAATGTGAGTGAAACTTCAAACCCCCATCCTCCTAA
66 GAAGTAGACCAAATCAATAAAATGAAACTCAATGTGAGTAAAACTTCAAACCCCCATCCTCCTAA
* *
19626603 TGAGATACAGAGAAGTAGGTCAAAGCAATAAAACGTTCAGCTTC
131 TGAGATACAGAGAAATAGGT-AAAGCAATAAAACGGTCAGCTTC
* *
19626647 CTGATGAGATACAGAGAAGTGGATCAAATTAATGAAGC-AGTCATCTTCCTGATAAGAT-GA-AG
1 CTGATGAGATACAGAGAAGTGGATCAAATCAATGAAGCGACT-ATCTTCCTGATAAGATAGATAG
* * *
19626709 AGAAGTAGACCAAATTAAT-GAA-GCAAAGCTCAATGTGAGTAAAACTTCAAACCCCCATCTTCC
65 AGAAGTAGACCAAATCAATAAAATG-AAA-CTCAATGTGAGTAAAACTTCAAACCCCCATCCTCC
* * * *
19626772 TGATGAGATACAGAGAAATGGGTAAAGCAATAAAGCGGTCATCTTC
128 TAATGAGATACAGAGAAATAGGTAAAGCAATAAAACGGTCAGCTTC
*
19626818 CTGATGAGATACAGAGAAGTGGACCAAAT
1 CTGATGAGATACAGAGAAGTGGATCAAAT
19626847 ACACCTTCTT
Statistics
Matches: 179, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
170 1 0.01
171 53 0.30
172 73 0.41
173 3 0.02
174 49 0.27
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (173 bp):
CTGATGAGATACAGAGAAGTGGATCAAATCAATGAAGCGACTATCTTCCTGATAAGATAGATAGA
GAAGTAGACCAAATCAATAAAATGAAACTCAATGTGAGTAAAACTTCAAACCCCCATCCTCCTAA
TGAGATACAGAGAAATAGGTAAAGCAATAAAACGGTCAGCTTC
Found at i:19626929 original size:85 final size:84
Alignment explanation
Indices: 19626767--19626931 Score: 204
Period size: 85 Copynumber: 2.0 Consensus size: 84
19626757 AAACCCCCAT
* * *
19626767 CTTCCTGATGAGATACAGAGAAATGGGTAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAG
1 CTTCCTGATGAGATACAGAGAAATGGATAAAGCAATAAAGCAGACATCTTCCTGATGAGATACAG
**
19626832 AGAAGTGGACCAAATACAC
66 AGAAGTACACCAAATACAC
* * * * * * *
19626851 CTTCTTGATGAGATGCAGAGAAGTGGATCAAATCAATGAAGCAGACATCTTCTTGATGAGATATA
1 CTTCCTGATGAGATACAGAGAAATGGAT-AAAGCAATAAAGCAGACATCTTCCTGATGAGATACA
*
19626916 GAGAATTACACCAAAT
65 GAGAAGTACACCAAAT
19626932 CAATGAACCA
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 24 0.36
85 43 0.64
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (84 bp):
CTTCCTGATGAGATACAGAGAAATGGATAAAGCAATAAAGCAGACATCTTCCTGATGAGATACAG
AGAAGTACACCAAATACAC
Found at i:19626987 original size:76 final size:76
Alignment explanation
Indices: 19626896--19627073 Score: 239
Period size: 76 Copynumber: 2.3 Consensus size: 76
19626886 ATGAAGCAGA
* * *
19626896 CATCTTCTTGATGAGATATAGAGAATTACACCAAATCAATGAACCAAAGCTCAATGTAAGTGAAA
1 CATCTTCTTGATGAGATATAGAGAAGTACACCAAATCAATAAAACAAAGCTCAATGTAAGTGAAA
* ***
19626961 CTTTAAACGGT
66 CTTCAAACCCC
* * * * *
19626972 CATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATAAAACGAAGCTCAATGTGAGTGAAA
1 CATCTTCTTGATGAGATATAGAGAAGTACACCAAATCAATAAAACAAAGCTCAATGTAAGTGAAA
19627037 CTTCAAACCCC
66 CTTCAAACCCC
*
19627048 CATTTTCTTGATGAGATATAGAGAAG
1 CATCTTCTTGATGAGATATAGAGAAG
19627074 CGAGTCAAAG
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 87 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (76 bp):
CATCTTCTTGATGAGATATAGAGAAGTACACCAAATCAATAAAACAAAGCTCAATGTAAGTGAAA
CTTCAAACCCC
Found at i:19627170 original size:48 final size:47
Alignment explanation
Indices: 19627056--19627255 Score: 204
Period size: 48 Copynumber: 4.4 Consensus size: 47
19627046 CCCATTTTCT
* * * * *
19627056 TGATGAGATATAGAGAAGCGAGTCAAAGCAATAAAGTGGTCATCTTCC
1 TGATGAGATACAGAGAAGTG-GTCAAAGTAATAAAGCGATCATCTTCC
19627104 TGATGAGATACAGAGAAGTGAGTCAAAGTAATAAAGCGATCATCTTCC
1 TGATGAGATACAGAGAAGTG-GTCAAAGTAATAAAGCGATCATCTTCC
* * *
19627152 TGATGAGATACAGAGAAGTGGAC-CA--AAT---CCG--C--CTTCC
1 TGATGAGATACAGAGAAGTGGTCAAAGTAATAAAGCGATCATCTTCC
* * *
19627189 TGATGAGATACAGAGAAGTGGATCAAATTAATGAAGCGATCATCTTTC
1 TGATGAGATACAGAGAAGTGG-TCAAAGTAATAAAGCGATCATCTTCC
19627237 TGATGAGATACAGAGAAGT
1 TGATGAGATACAGAGAAGT
19627256 AGACCTAATC
Statistics
Matches: 129, Mismatches: 12, Indels: 22
0.79 0.07 0.13
Matches are distributed among these distances:
37 26 0.20
38 1 0.01
39 2 0.02
41 5 0.04
44 5 0.04
46 2 0.02
47 2 0.02
48 86 0.67
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (47 bp):
TGATGAGATACAGAGAAGTGGTCAAAGTAATAAAGCGATCATCTTCC
Found at i:19627242 original size:85 final size:85
Alignment explanation
Indices: 19627099--19627265 Score: 273
Period size: 85 Copynumber: 2.0 Consensus size: 85
19627089 AAGTGGTCAT
19627099 CTTCCTGATGAGATACAGAGAAGTGAGTCAAAGTAATAAAGCGATCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGAGTCAAAGTAATAAAGCGATCATCTTCCTGATGAGATACA
*
19627164 GAGAAGTGGACCAAATCCGC
66 GAGAAGTAGACCAAATCCGC
* * *
19627184 CTTCCTGATGAGATACAGAGAAGTG-GATCAAATTAATGAAGCGATCATCTTTCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTGAG-TCAAAGTAATAAAGCGATCATCTTCCTGATGAGATAC
*
19627248 AGAGAAGTAGACCTAATC
65 AGAGAAGTAGACCAAATC
19627266 AATAAAGCAA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 1 0.01
85 75 0.99
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTGAGTCAAAGTAATAAAGCGATCATCTTCCTGATGAGATACA
GAGAAGTAGACCAAATCCGC
Found at i:19627364 original size:209 final size:210
Alignment explanation
Indices: 19627096--19627750 Score: 915
Period size: 209 Copynumber: 3.1 Consensus size: 210
19627086 ATAAAGTGGT
* *
19627096 CATCTTCCTGATGAGATACAGAGAAGTGAGTCAAAGTAATAAAGCGATCATCTTCCTGATGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGAGAGTCAAAGTAATAAAGCGGTCATCTTCCTGATGAGAT
*
19627161 ACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATCAAATTAATGAAGC
66 ACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATGAAGC
*
19627226 GATCATCTTTCTGATGAGATACAGAGAAGTAGACCT-AATCAATAAAGCAAAGCTCAATGTGAGT
131 GATCATCTTTCTGATGAGATACAGAGAAGTAGACCTAAATCAATGAAGCAAAGCTCAATGTGAGT
19627290 GAAACTTCAAACCCC
196 GAAACTTCAAACCCC
* * *
19627305 CATCTTCCTAATGAGATACAAAGAAGAGGGTCAAAGTAATAAAGCGGTCATCTTCCTGATGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGAGAGTCAAAGTAATAAAGCGGTCATCTTCCTGATGAGAT
* * *
19627370 ACAGAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAAGT
66 ACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATGAAGC
* * * * *
19627435 GGTCATCTTTCTGATAAGATACAGAGAACTAAACCTAAATCAATGAAGTAAAGCTCAATGTGAGT
131 GATCATCTTTCTGATGAGATACAGAGAAGTAGACCTAAATCAATGAAGCAAAGCTCAATGTGAGT
19627500 GAAACTTCAAACCCC
196 GAAACTTCAAACCCC
* * * * * *
19627515 CATCTTTCTGATGTGATACAGAGAAGTGAGTCAAAGCAATAAA-CTGGTTATCTTCCTGATAAGA
1 CATCTTCCTGATGAGATACAGAGAAGAGAGTCAAAGTAATAAAGC-GGTCATCTTCCTGATGAGA
* * * * * * *
19627579 TACAAAAAAGTGGACTAAATCTGCCTTCTTGATGAGATATAGAGAAGTGGATCAAAACAATGAAG
65 TACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATGAAG
* * * * **
19627644 CAACCATCTTCCTTATGAGATACAGAGAAGTAGA-CTAAATCAATGAAGCTAAA-CTCAATACGA
130 CGATCATCTTTCTGATGAGATACAGAGAAGTAGACCTAAATCAATGAAGC-AAAGCTCAATGTGA
*
19627707 GTAAAACTTCAAA-CCC
194 GTGAAACTTCAAACCCC
* * *
19627723 CATATTCCTGATAAGATTCAGAGAAGAG
1 CATCTTCCTGATGAGATACAGAGAAGAG
19627751 GACCAAAAAA
Statistics
Matches: 391, Mismatches: 52, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
208 25 0.06
209 188 0.48
210 178 0.46
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (210 bp):
CATCTTCCTGATGAGATACAGAGAAGAGAGTCAAAGTAATAAAGCGGTCATCTTCCTGATGAGAT
ACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATCAAATCAATGAAGC
GATCATCTTTCTGATGAGATACAGAGAAGTAGACCTAAATCAATGAAGCAAAGCTCAATGTGAGT
GAAACTTCAAACCCC
Found at i:19631655 original size:16 final size:16
Alignment explanation
Indices: 19631617--19631648 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19631607 TCCAAATTCT
*
19631617 CAATTAAACCCAAACC
1 CAATTACACCCAAACC
19631633 CAATTACACCCAAACC
1 CAATTACACCCAAACC
19631649 TAGTTACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (16 bp):
CAATTACACCCAAACC
Found at i:19632748 original size:30 final size:29
Alignment explanation
Indices: 19632714--19632954 Score: 245
Period size: 30 Copynumber: 8.1 Consensus size: 29
19632704 CTTAAGAGGT
19632714 CCCTAAACTTTCCAAAAATTTA-ATTTTAAC
1 CCCTAAACTTTCC-AAAA-TTACATTTTAAC
* *
19632744 CCCTAAACTTTTCTAAAATTATATTTTAAC
1 CCCTAAAC-TTTCCAAAATTACATTTTAAC
* * *
19632774 CCTTAAACTTTTTCAAAATTACATTTTAAA
1 CCCTAAAC-TTTCCAAAATTACATTTTAAC
* *
19632804 CCTTAAACTTTTTCAAAATTACA-TTTAAC
1 CCCTAAAC-TTTCCAAAATTACATTTTAAC
* *
19632833 CCTTAAACTCTTCTAAAATTACATTTTAA-
1 CCCTAAACT-TTCCAAAATTACATTTTAAC
* *
19632862 CCCTAAATTTTCCTAAATTTACATTTTAAC
1 CCCTAAACTTTCC-AAAATTACATTTTAAC
* *
19632892 CCTTAAACTTCTCCAAAATTGCATTTTAAC
1 CCCTAAACTT-TCCAAAATTACATTTTAAC
* *
19632922 TCCTAAACTTTCCCAAAATCACATTTTAAC
1 CCCTAAACTTT-CCAAAATTACATTTTAAC
19632952 CCC
1 CCC
19632955 AAAATTCTCA
Statistics
Matches: 181, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.02
29 49 0.27
30 121 0.67
31 7 0.04
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTACATTTTAAC
Found at i:19632854 original size:59 final size:59
Alignment explanation
Indices: 19632717--19632953 Score: 270
Period size: 60 Copynumber: 4.0 Consensus size: 59
19632707 AAGAGGTCCC
* *
19632717 TAAACTTTCCAAAAATTTA-ATTTTAACCCCTAAACTTTT-CTAAAATTATATTTTAACCCT
1 TAAACTTT-CTAAAA-TTACATTTTAA-CCCTAAACTTTTCCTAAAATTACATTTTAACCCT
* * *
19632777 TAAACTTTTTCAAAATTACATTTTAAACCTTAAACTTTTTC-AAAATTACA-TTTAACCCT
1 TAAACTTTCT-AAAATTACATTTT-AACCCTAAACTTTTCCTAAAATTACATTTTAACCCT
*
19632836 TAAACTCTTCTAAAATTACATTTTAACCCTAAA-TTTTCCTAAATTTACATTTTAACCCT
1 TAAACT-TTCTAAAATTACATTTTAACCCTAAACTTTTCCTAAAATTACATTTTAACCCT
* * * *
19632895 TAAACTTCTCCAAAATTGCATTTTAACTCCTAAAC-TTTCCCAAAATCACATTTTAACCC
1 TAAACTT-TCTAAAATTACATTTTAAC-CCTAAACTTTTCCTAAAATTACATTTTAACCC
19632954 CAAAATTCTC
Statistics
Matches: 154, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
57 5 0.03
58 17 0.11
59 63 0.41
60 66 0.43
61 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.40
Consensus pattern (59 bp):
TAAACTTTCTAAAATTACATTTTAACCCTAAACTTTTCCTAAAATTACATTTTAACCCT
Found at i:19632963 original size:59 final size:59
Alignment explanation
Indices: 19632728--19632968 Score: 238
Period size: 59 Copynumber: 4.1 Consensus size: 59
19632718 AAACTTTCCA
* * * * * *
19632728 AAAATTTA-ATTTTAACCCCTAAACTTTTCTAAAATTATATTTTAACCCTTAAACTTTTTC
1 AAAA-TTACATTTTAA-CCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAAATTCTCC
* ** * *
19632788 AAAATTACATTTTAAACCTTAAACTTTTTCAAAATTACA-TTTAACCCTT-AAACTCTTCT
1 AAAATTACATTTT-AACCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAAATTC-TCC
* * * *
19632847 AAAATTACATTTTAACCCTAAATTTTCCTAAATTTACATTTTAACCCTTAAACTTCTCC
1 AAAATTACATTTTAACCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAAATTCTCC
* * * *
19632906 AAAATTGCATTTTAACTCCTAAACTTTCCCAAAATCACATTTTAACCC-CAAAATTCTCA
1 AAAATTACATTTTAAC-CCTAAACTTTCCCAAAATTACATTTTAACCCTTAAAATTCTCC
19632965 AAAA
1 AAAA
19632969 CTTCACTTTT
Statistics
Matches: 149, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
58 22 0.15
59 66 0.44
60 59 0.40
61 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTTAACCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAAATTCTCC
Found at i:19638626 original size:55 final size:56
Alignment explanation
Indices: 19638512--19638645 Score: 162
Period size: 55 Copynumber: 2.4 Consensus size: 56
19638502 GAAACCAAAC
* * * * * *
19638512 CAAAGCTCTACTCGAGCTATAAACAAGTCAAAGCTCTACCCGAGTTATAAATGATT
1 CAAAGCTCTACCCGAGCTATAAACAAGTAAAAACTCTACCCAAGCTATAAATGAAT
* * * *
19638568 CAAAGCTCTACCCGAGCTGT-AATAGGTAAAAACTCTACCCAAGCTATTAATGAAT
1 CAAAGCTCTACCCGAGCTATAAACAAGTAAAAACTCTACCCAAGCTATAAATGAAT
*
19638623 CAAAGCTCTACCCGAGTTATAAA
1 CAAAGCTCTACCCGAGCTATAAA
19638646 TGAATTAGAG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 45 0.69
56 20 0.31
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (56 bp):
CAAAGCTCTACCCGAGCTATAAACAAGTAAAAACTCTACCCAAGCTATAAATGAAT
Found at i:19638647 original size:28 final size:28
Alignment explanation
Indices: 19638512--19638663 Score: 150
Period size: 28 Copynumber: 5.5 Consensus size: 28
19638502 GAAACCAAAC
* *
19638512 CAAAGCTCTACTCGAGCTATAAA-CAAGT
1 CAAAGCTCTACCCGAGCTATAAATGAA-T
* *
19638540 CAAAGCTCTACCCGAGTTATAAATGATT
1 CAAAGCTCTACCCGAGCTATAAATGAAT
* *
19638568 CAAAGCTCTACCCGAGCTGTAATAGGTAA-
1 CAAAGCTCTACCCGAGCTATAA-ATG-AAT
* *
19638597 -AAA-CTCTACCCAAGCTATTAATGAAT
1 CAAAGCTCTACCCGAGCTATAAATGAAT
*
19638623 CAAAGCTCTACCCGAGTTATAAATGAAT
1 CAAAGCTCTACCCGAGCTATAAATGAAT
* *
19638651 TAGAGCTCTACCC
1 CAAAGCTCTACCC
19638664 TAGCCACCAT
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 17 0.17
28 76 0.75
29 3 0.03
30 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (28 bp):
CAAAGCTCTACCCGAGCTATAAATGAAT
Found at i:19642376 original size:26 final size:26
Alignment explanation
Indices: 19642347--19642400 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
19642337 GCTTACTTAG
19642347 TTTTATCATTCTTTGATATATTACAC
1 TTTTATCATTCTTTGATATATTACAC
19642373 TTTTATCATTCTTTGATATATTACAC
1 TTTTATCATTCTTTGATATATTACAC
19642399 TT
1 TT
19642401 ACCTTTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTATCATTCTTTGATATATTACAC
Found at i:19642778 original size:6 final size:6
Alignment explanation
Indices: 19642767--19642795 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19642757 CAATTTATAA
19642767 TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
1 TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
19642796 ATTTTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTCAC
Found at i:19645430 original size:19 final size:19
Alignment explanation
Indices: 19645403--19645443 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19645393 AAAAATATAA
* *
19645403 TATTTATTTTAATTAATTT
1 TATTAATTTAAATTAATTT
*
19645422 TATTAATTTAAATTTATTT
1 TATTAATTTAAATTAATTT
19645441 TAT
1 TAT
19645444 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTAATTTAAATTAATTT
Found at i:19652593 original size:10 final size:9
Alignment explanation
Indices: 19652578--19652699 Score: 77
Period size: 10 Copynumber: 12.8 Consensus size: 9
19652568 TAAAAATCAA
19652578 ATAAAAATT
1 ATAAAAATT
19652587 ATGAAAAA-T
1 AT-AAAAATT
19652596 ATAAAAATAT
1 ATAAAAAT-T
* * *
19652606 TTTAAAATC
1 ATAAAAATT
19652615 ATAAAAATT
1 ATAAAAATT
19652624 ATAGAAAATT
1 ATA-AAAATT
**
19652634 ATTTAAATT
1 ATAAAAATT
*
19652643 ATATAAATAT
1 ATAAAAAT-T
19652653 ATTATAAAA-T
1 A-TA-AAAATT
19652663 ATAAAAATGT
1 ATAAAAAT-T
*
19652673 AGAAAAAATT
1 A-TAAAAATT
*
19652683 ATAAAGATTT
1 ATAAA-AATT
19652693 ATAAAAA
1 ATAAAAA
19652700 AAATCATAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
8 9 0.10
9 32 0.36
10 36 0.41
11 8 0.09
12 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:19652602 original size:19 final size:19
Alignment explanation
Indices: 19652560--19652631 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 19
19652550 CATGTGACGG
*
19652560 AAAAATAAT-AAAAATCAAAT
1 AAAAATTATGAAAAATC--AT
19652580 AAAAATTATGAAAAAT-AT
1 AAAAATTATGAAAAATCAT
**
19652598 AAAAA-TATTTTAAAATCAT
1 AAAAATTA-TGAAAAATCAT
19652617 AAAAATTATAGAAAA
1 AAAAATTAT-GAAAA
19652632 TTATTTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 2 0.05
18 13 0.31
19 8 0.19
20 13 0.31
21 6 0.14
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAATTATGAAAAATCAT
Found at i:19652613 original size:28 final size:28
Alignment explanation
Indices: 19652581--19652653 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
19652571 AAATCAAATA
19652581 AAAATTATGAAAAATATA-AAAA-TATTTT
1 AAAATTAT-AAAAATATAGAAAATTA-TTT
*
19652609 AAAATCATAAAAATTATAGAAAATTATTT
1 AAAATTATAAAAA-TATAGAAAATTATTT
*
19652638 -AAATTATATAAATATA
1 AAAATTATAAAAATATA
19652654 TTATAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 9 0.23
28 21 0.54
29 7 0.18
30 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTATAAAAATATAGAAAATTATTT
Found at i:19652651 original size:47 final size:49
Alignment explanation
Indices: 19652580--19652684 Score: 126
Period size: 47 Copynumber: 2.2 Consensus size: 49
19652570 AAAATCAAAT
*
19652580 AAAAATTATGAAAAATATAAAAATAT-TT-TAAAATCATAAAAAT-TATA
1 AAAAATTATGAAAAATATAAAAATATATTATAAAAT-ATAAAAATGTAGA
* ** * *
19652627 GAAAATTATTTAAATTATATAAATATATTATAAAATATAAAAATGTAGA
1 AAAAATTATGAAAAATATAAAAATATATTATAAAATATAAAAATGTAGA
19652676 AAAAATTAT
1 AAAAATTAT
19652685 AAAGATTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 21 0.44
48 10 0.21
49 17 0.35
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (49 bp):
AAAAATTATGAAAAATATAAAAATATATTATAAAATATAAAAATGTAGA
Found at i:19652655 original size:19 final size:21
Alignment explanation
Indices: 19652619--19652670 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
19652609 AAAATCATAA
*
19652619 AAATTATAGAAA-ATTATT-T
1 AAATTATAAAAATATTATTAT
*
19652638 AAATTATATAAATA-TATTAT
1 AAATTATAAAAATATTATTAT
*
19652658 AAAATATAAAAAT
1 AAATTATAAAAAT
19652671 GTAGAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTATAAAAATATTATTAT
Found at i:19662431 original size:11 final size:9
Alignment explanation
Indices: 19662394--19662434 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
19662384 AATGTCACAT
*
19662394 AAATTTTTA
1 AAATATTTA
19662403 AAATATTTA
1 AAATATTTA
19662412 AAATATTTA
1 AAATATTTA
19662421 TAAATAGTTTA
1 -AAATA-TTTA
19662432 AAA
1 AAA
19662435 CATAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 17 0.59
10 8 0.28
11 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
AAATATTTA
Found at i:19663541 original size:41 final size:43
Alignment explanation
Indices: 19663434--19663522 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
19663424 CCCTTAACAA
*
19663434 AACTTGCAAGCATAATATAACAAAAAAATACACAAATAATTAT
1 AACTTGCAAGCATAATATAATAAAAAAATACACAAATAATTAT
19663477 AACTTGCAAGCATAATATAATAAAAAAATACACAAATAATTAT
1 AACTTGCAAGCATAATATAATAAAAAAATACACAAATAATTAT
19663520 AAC
1 AAC
19663523 AATTTAATCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.24
Consensus pattern (43 bp):
AACTTGCAAGCATAATATAATAAAAAAATACACAAATAATTAT
Found at i:19664320 original size:11 final size:10
Alignment explanation
Indices: 19664306--19664442 Score: 53
Period size: 10 Copynumber: 13.5 Consensus size: 10
19664296 AAAAAAGTTG
*
19664306 AAAAAGTATA
1 AAAAAATATA
*
19664316 AAAAAATTTATT
1 AAAAAA--TATA
*
19664328 AAAAAATTTA
1 AAAAAATATA
* *
19664338 GAAAAAGATA
1 AAAAAATATA
19664348 CAAAAAAT-TA
1 -AAAAAATATA
* *
19664358 TTAAAAGTATA
1 -AAAAAATATA
* *
19664369 GAAAAGTATA
1 AAAAAATATA
* *
19664379 GAAAATTATA
1 AAAAAATATA
*
19664389 GAAAAATAT-
1 AAAAAATATA
*
19664398 TAAAAATATA
1 AAAAAATATA
* *
19664408 TAAAAATATT
1 AAAAAATATA
* *
19664418 ATAGAATATA
1 AAAAAATATA
* *
19664428 AAAATATAGA
1 AAAAAATATA
19664438 AAAAA
1 AAAAA
19664443 TTGAACATTG
Statistics
Matches: 96, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
9 8 0.08
10 72 0.75
11 7 0.07
12 9 0.09
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (10 bp):
AAAAAATATA
Found at i:19664353 original size:32 final size:32
Alignment explanation
Indices: 19664296--19664363 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
19664286 AATATATTAA
*
19664296 AAAAAAGTTGAAAAAGTATAAAAAAATTTATT
1 AAAAAAGTTGAAAAAGTATAAAAAAAATTATT
* *
19664328 AAAAAATTTAGAAAAAG-ATACAAAAAATTATT
1 AAAAAAGTT-GAAAAAGTATAAAAAAAATTATT
19664360 AAAA
1 AAAA
19664364 GTATAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 25 0.78
33 7 0.22
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.25
Consensus pattern (32 bp):
AAAAAAGTTGAAAAAGTATAAAAAAAATTATT
Found at i:19664373 original size:20 final size:19
Alignment explanation
Indices: 19664350--19664431 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 19
19664340 AAAAGATACA
*
19664350 AAAAATTATTAAAAGTATAG
1 AAAAA-TATTAAAAATATAG
*
19664370 AAAAGTA-TAGAAAATTATAG
1 AAAAATATTA-AAAA-TATAG
*
19664390 AAAAATATTAAAAATATAT
1 AAAAATATTAAAAATATAG
*
19664409 AAAAATATTATAGAATATA-
1 AAAAATATTA-AAAATATAG
19664428 AAAA
1 AAAA
19664432 TATAGAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
18 2 0.04
19 23 0.43
20 26 0.49
21 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAAAATATTAAAAATATAG
Found at i:19664414 original size:10 final size:10
Alignment explanation
Indices: 19664350--19664441 Score: 66
Period size: 10 Copynumber: 9.5 Consensus size: 10
19664340 AAAAGATACA
19664350 AAAAAT-TATT
1 AAAAATATA-T
* *
19664360 AAAAGTATAG
1 AAAAATATAT
* *
19664370 AAAAGTATAG
1 AAAAATATAT
* *
19664380 AAAATTATAG
1 AAAAATATAT
19664390 AAAAATAT-T
1 AAAAATATAT
19664399 AAAAATATAT
1 AAAAATATAT
19664409 AAAAATAT-T
1 AAAAATATAT
* *
19664418 ATAGA-ATAT
1 AAAAATATAT
*
19664427 AAAAATATAG
1 AAAAATATAT
19664437 AAAAA
1 AAAAA
19664442 ATTGAACATT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
8 2 0.03
9 16 0.24
10 48 0.71
11 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (10 bp):
AAAAATATAT
Found at i:19664426 original size:18 final size:19
Alignment explanation
Indices: 19664350--19664434 Score: 75
Period size: 19 Copynumber: 4.4 Consensus size: 19
19664340 AAAAGATACA
* *
19664350 AAAAATTATTAAAAGTATAG
1 AAAAA-TATTAAAAATATAT
* *
19664370 AAAAGTA-TAGAAAATTATAG
1 AAAAATATTA-AAAA-TATAT
19664390 AAAAATATTAAAAATATAT
1 AAAAATATTAAAAATATAT
* *
19664409 AAAAATATTATAGA-ATAT
1 AAAAATATTAAAAATATAT
19664427 AAAAATAT
1 AAAAATAT
19664435 AGAAAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.25
19 21 0.38
20 19 0.34
21 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAAATATTAAAAATATAT
Found at i:19664834 original size:70 final size:67
Alignment explanation
Indices: 19664736--19664864 Score: 159
Period size: 70 Copynumber: 1.9 Consensus size: 67
19664726 TCCGAATAAG
* * * *
19664736 AAAAGATAAAACTACGTCGTTTTGATAAATGTTTACCCTTTTTAAAGTTAAAAGTTAAAACCATT
1 AAAAGATAAAACTACGTCATTTTGATAAATATTTA-CC-TATT-AAGTTAAAAGGTAAAACCATT
19664801 AAGTT
63 AAGTT
** * *
19664806 AAAAGATAAATTTATGTCATTTTGATAAATATTTATCTATTAAGTTAAAAGGTAAAACC
1 AAAAGATAAAACTACGTCATTTTGATAAATATTTACCTATTAAGTTAAAAGGTAAAACC
19664865 TATTTTTGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
67 17 0.33
68 3 0.06
69 1 0.02
70 30 0.59
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (67 bp):
AAAAGATAAAACTACGTCATTTTGATAAATATTTACCTATTAAGTTAAAAGGTAAAACCATTAAG
TT
Found at i:19665448 original size:20 final size:19
Alignment explanation
Indices: 19665408--19665522 Score: 99
Period size: 20 Copynumber: 5.6 Consensus size: 19
19665398 TTAATGAAAA
*
19665408 TTTTAAA-TATTTTATATT
1 TTTTAAATTTTTTTATATT
19665426 TTTGTAAATTTTTTCTA-ATTT
1 TTT-TAAATTTTTT-TATA-TT
19665447 TTAATTAAATTTTATTTTTATAGTT
1 TT--TTAAA--TT-TTTTTATA-TT
*
19665472 TTTTAAATATTTTTATATT
1 TTTTAAATTTTTTTATATT
19665491 TTTGTAAATTTTTTTATATT
1 TTT-TAAATTTTTTTATATT
*
19665511 TTTTATATTTTT
1 TTTTAAATTTTT
19665523 AATTCTTTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 21
0.76 0.05 0.20
Matches are distributed among these distances:
18 3 0.04
19 17 0.21
20 31 0.38
21 7 0.09
22 4 0.05
23 6 0.07
24 4 0.05
25 9 0.11
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTAAATTTTTTTATATT
Found at i:19665476 original size:10 final size:9
Alignment explanation
Indices: 19665461--19665548 Score: 76
Period size: 9 Copynumber: 9.6 Consensus size: 9
19665451 TTAAATTTTA
19665461 TTTTTATAGT
1 TTTTTATA-T
*
19665471 TTTTTAAAT
1 TTTTTATAT
19665480 ATTTTTATAT
1 -TTTTTATAT
*
19665490 TTTTGTAAATT
1 TTTT-TATA-T
19665501 TTTTTATAT
1 TTTTTATAT
19665510 TTTTTATA-
1 TTTTTATAT
19665518 TTTTTA-AT
1 TTTTTATAT
19665526 TCTTTTA-AT
1 T-TTTTATAT
19665535 ATTTTTAT-T
1 -TTTTTATAT
19665544 TTTTT
1 TTTTT
19665549 GCCATGTATC
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
7 1 0.01
8 12 0.18
9 27 0.40
10 22 0.33
11 5 0.07
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTATAT
Found at i:19665501 original size:18 final size:18
Alignment explanation
Indices: 19665459--19665548 Score: 105
Period size: 20 Copynumber: 4.9 Consensus size: 18
19665449 AATTAAATTT
19665459 TATTTTTATAGTTTTTTAAA
1 TATTTTTATA-TTTTTT-AA
19665479 TATTTTTATATTTTTGTAAA
1 TATTTTTATATTTTT-T-AA
*
19665499 TTTTTTTATATTTTTT-A
1 TATTTTTATATTTTTTAA
19665516 TATTTTTA-ATTCTTTTAA
1 TATTTTTATATT-TTTTAA
19665534 TATTTTTAT-TTTTTT
1 TATTTTTATATTTTTT
19665549 GCCATGTATC
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.05
17 16 0.25
18 11 0.17
19 6 0.09
20 28 0.44
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTTATATTTTTTAA
Done.