Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:632893 original size:32 final size:32
Alignment explanation
Indices: 632852--632954 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
632842 AGCTTCGTAG
* *
632852 CGATACATTGTATCAATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
632884 CGATACATTGTATCGATACAACACTTATATAT
1 CGATACATTGTATCGATACAACACTTATGTAT
632916 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
632948 CGATACA
1 CGATACA
632955 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:632897 original size:13 final size:13
Alignment explanation
Indices: 632879--632935 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
632869 ACAAAACTTA
632879 TGTATCGATACAT
1 TGTATCGATACAT
632892 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
632910 ATATATCGATACAT
1 -TGTATCGATACAT
632924 TGTATCGATACA
1 TGTATCGATACA
632936 ACACTTATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:632918 original size:19 final size:19
Alignment explanation
Indices: 632860--632955 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
632850 AGCGATACAT
* *
632860 TGTATCAATACAAAACTTA
1 TGTATCGATACAACACTTA
632879 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
632892 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
632911 TATATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
632924 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
632943 TGTATCGATACAA
1 TGTATCGATACAA
632956 ATCGTTGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
13 17 0.28
14 2 0.03
16 11 0.18
18 2 0.03
19 29 0.48
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:640071 original size:42 final size:42
Alignment explanation
Indices: 640000--640094 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
639990 CTATTTGGGC
* * *
640000 AACTATTGAATCAGTTGAGCCAACTTATGGTCAAAACTCCGT
1 AACTATTAAATAAGTTGAGCCAACTTATGGTCAAAACCCCGT
*
640042 AACTTTTAAATAAGTTGAGCCAACTTATGGTCAAAACCCCGT
1 AACTATTAAATAAGTTGAGCCAACTTATGGTCAAAACCCCGT
640084 AACTATTAAAT
1 AACTATTAAAT
640095 TCTATTAAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (42 bp):
AACTATTAAATAAGTTGAGCCAACTTATGGTCAAAACCCCGT
Found at i:641373 original size:11 final size:11
Alignment explanation
Indices: 641343--641375 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
641333 TTCTGTCTTC
641343 CAAATCTCCAG
1 CAAATCTCCAG
641354 CATAATCTCCAG
1 CA-AATCTCCAG
641366 CAAATCTCCA
1 CAAATCTCCA
641376 AATCTGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.36, C:0.36, G:0.06, T:0.21
Consensus pattern (11 bp):
CAAATCTCCAG
Found at i:642412 original size:62 final size:62
Alignment explanation
Indices: 642312--642432 Score: 163
Period size: 62 Copynumber: 2.0 Consensus size: 62
642302 CACAATTTGT
* * * *
642312 ATCGATACATTCTTCATTGTATCGATAAGTTATGGGTTTTTCCTAGATGTATCGATACAATG
1 ATCGATACATTCTTCATTATATCGATAAGTTATAGGTTTTACCCAGATGTATCGATACAATG
* * *
642374 ATCGATACATTGTTCATTATATCGATATA-TTCTAGGTTTTACCCAGATGTATTGATACA
1 ATCGATACATTCTTCATTATATCGATA-AGTTATAGGTTTTACCCAGATGTATCGATACA
642433 TTTCTCAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 50 0.98
63 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (62 bp):
ATCGATACATTCTTCATTATATCGATAAGTTATAGGTTTTACCCAGATGTATCGATACAATG
Found at i:644927 original size:33 final size:33
Alignment explanation
Indices: 644851--644917 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
644841 ATTTTCAAAA
*
644851 CACCAATTTTTCATAATCGAGAATACTCCAACC
1 CACCAATTTTTCACAATCGAGAATACTCCAACC
* *
644884 CACCAATTTTTCACAATTGAGGATACTCCAACC
1 CACCAATTTTTCACAATCGAGAATACTCCAACC
644917 C
1 C
644918 TGTTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.27
Consensus pattern (33 bp):
CACCAATTTTTCACAATCGAGAATACTCCAACC
Found at i:645042 original size:78 final size:78
Alignment explanation
Indices: 644889--645108 Score: 273
Period size: 78 Copynumber: 2.8 Consensus size: 78
644879 CAACCCACCA
* * ** * * *
644889 ATTTTTCACAATTGAGGATACTCCAACCCTGTTATTTTTTAGGGGATATTCCAACCCCGATTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATATTCCAATCCC-ATTTTA
644954 TTTCTAAAACATCG
65 TTTCTAAAACATCG
* *
644968 ATTTTTCACAATCGGGGATACTCCAACCCCATT-TTTTTGAAAGGATATTTCAATCTCCATTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATATTCCAATC-CCATTTTA
* *
645032 TTT-TCGAAACATTG
65 TTTCT-AAAACATCG
* * *
645046 ATTTTTCACCATCGGGGATACTCCAACCCCTTTATTTTTGAAGGGATACTCCAATCCCATTTT
1 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATATTCCAATCCCATTTT
645109 TATCTCCAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
78 71 0.58
79 50 0.41
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (78 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATATTCCAATCCCATTTTAT
TTCTAAAACATCG
Found at i:649434 original size:24 final size:24
Alignment explanation
Indices: 649399--649464 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
649389 ATGATTATAC
*
649399 TTTAATTATAAAATGTAATTAAAT
1 TTTATTTATAAAATGTAATTAAAT
* * *
649423 TATTATTT-TAAAAAGTGATTTAAT
1 T-TTATTTATAAAATGTAATTAAAT
*
649447 TTTATTTAAAAAATGTAA
1 TTTATTTATAAAATGTAA
649465 AAGGTTGTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 6 0.18
24 22 0.67
25 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTATTTATAAAATGTAATTAAAT
Found at i:650512 original size:27 final size:27
Alignment explanation
Indices: 650482--650563 Score: 74
Period size: 32 Copynumber: 2.8 Consensus size: 27
650472 TATGATCATA
650482 TTTAAAATATTATATATTTATATAAAT
1 TTTAAAATATTATATATTTATATAAAT
* *
650509 TTTAAATAAATAATAATTTATATTATATAAAT
1 TTT--A-AAAT-ATTATATAT-TTATATAAAT
* *
650541 TTTAATATATTTTTATATTTATA
1 TTTAAAATA-TTATATATTTATA
650564 AATCAGGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
27 3 0.07
28 6 0.14
29 9 0.21
30 5 0.12
31 7 0.16
32 13 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTAAAATATTATATATTTATATAAAT
Found at i:650548 original size:17 final size:17
Alignment explanation
Indices: 650499--650548 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
650489 TATTATATAT
650499 TTATATAAATTTTAA-A
1 TTATATAAATTTTAATA
* *
650515 -TAAATAATAATTT-ATA
1 TTATATAA-ATTTTAATA
650531 TTATATAAATTTTAATA
1 TTATATAAATTTTAATA
650548 T
1 T
650549 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
15 7 0.27
16 9 0.35
17 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATATAAATTTTAATA
Found at i:650906 original size:19 final size:18
Alignment explanation
Indices: 650874--650912 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
650864 TAATATAATT
650874 TAATTTATTAATTATATA
1 TAATTTATTAATTATATA
*
650892 TAATTTTTTACATTATATA
1 TAATTTATTA-ATTATATA
650911 TA
1 TA
650913 CATAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTTATTAATTATATA
Found at i:651480 original size:15 final size:16
Alignment explanation
Indices: 651453--651482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
651443 ATTAATTTTT
651453 TTAAAAAATTTATATA
1 TTAAAAAATTTATATA
651469 TTAAAAAA-TTATAT
1 TTAAAAAATTTATAT
651483 TTACATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAAAATTTATATA
Found at i:652611 original size:24 final size:24
Alignment explanation
Indices: 652555--652612 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
652545 TAAAATTTTA
*
652555 AACATAATATAAAAATAATATATT
1 AACATAATATAAAAATAATATAAT
* *
652579 TA-ATAAATATAAAAATAATGTAAT
1 AACAT-AATATAAAAATAATATAAT
652603 AACATAATAT
1 AACATAATAT
652613 TACATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (24 bp):
AACATAATATAAAAATAATATAAT
Found at i:652668 original size:23 final size:23
Alignment explanation
Indices: 652642--652699 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
652632 AATATATATG
* *
652642 TATATTTTTATTTAACATTTTGA
1 TATATTTTTATTTAAAATTTTAA
652665 TATATTTTTATTTAAAATTTTAA
1 TATATTTTTATTTAAAATTTTAA
652688 TATATTTTTATT
1 TATATTTTTATT
652700 AAATTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTTTTATTTAAAATTTTAA
Found at i:652715 original size:23 final size:21
Alignment explanation
Indices: 652642--652709 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 21
652632 AATATATATG
652642 TATATTTTTATTTAACATTTTGA
1 TATATTTTTATTTAA-ATTTT-A
652665 TATATTTTTATTTAAAATTTTAA
1 TATATTTTTATTT-AAATTTT-A
652688 TATATTTTTA-TTAAA-TTTA
1 TATATTTTTATTTAAATTTTA
652707 TAT
1 TAT
652710 TTATATAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 4 0.09
20 3 0.07
21 3 0.07
22 2 0.05
23 29 0.67
24 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TATATTTTTATTTAAATTTTA
Found at i:654941 original size:2 final size:2
Alignment explanation
Indices: 654936--654963 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
654926 CAAAAAATTA
654936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
654964 GTAGTACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:656327 original size:10 final size:10
Alignment explanation
Indices: 656308--656340 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
656298 AAATATAAAT
656308 ATAA-TTTTA
1 ATAATTTTTA
656317 ATAATTTTTA
1 ATAATTTTTA
656327 ATAATTATTTA
1 ATAATT-TTTA
656338 ATA
1 ATA
656341 TAAGTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.18
10 11 0.50
11 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:656355 original size:21 final size:22
Alignment explanation
Indices: 656331--656377 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
656321 TTTTTAATAA
* *
656331 TTATT-TAATATAAGTATATTT
1 TTATTATAATATAAATATAATT
656352 TTATTAGTAATATAAATATAATT
1 TTATTA-TAATATAAATATAATT
656375 TTA
1 TTA
656378 ATAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
23 17 0.77
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTATTATAATATAAATATAATT
Found at i:656429 original size:61 final size:60
Alignment explanation
Indices: 656299--656421 Score: 153
Period size: 61 Copynumber: 2.0 Consensus size: 60
656289 TTATTGTTTA
* * *
656299 AATATAAATATAATTTTAATAATTTTTAATAATTATTTAATATAAGTATATTTTTATTAGT
1 AATATAAATATAATTTTAATAATTTTT-ATAATTATTTAATATAAGCATATTTTAATTAAT
656360 AATATAAATATAATTTTAATAATTTTT-T-ATTATTTATTATATATA-CATATTTTAACTTAAT
1 AATATAAATATAATTTTAATAATTTTTATAATTATTTA--ATATA-AGCATATTTTAA-TTAAT
656421 A
1 A
656422 TCTTAAATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
58 8 0.15
59 1 0.02
60 13 0.24
61 33 0.60
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (60 bp):
AATATAAATATAATTTTAATAATTTTTATAATTATTTAATATAAGCATATTTTAATTAAT
Found at i:660238 original size:2 final size:2
Alignment explanation
Indices: 660231--660266 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
660221 TTAGTGTAAA
660231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
660267 TATCAGGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:660944 original size:2 final size:2
Alignment explanation
Indices: 660937--660961 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
660927 AAACTATGAG
660937 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
660962 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:660966 original size:2 final size:2
Alignment explanation
Indices: 660961--661011 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
660951 ATATATATAT
660961 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
661003 AG AG AG AG A
1 AG AG AG AG A
661012 ACTTACCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:662952 original size:23 final size:21
Alignment explanation
Indices: 662917--662958 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
662907 TTTTATATTT
662917 ATATAATTGATATAAAAATAA
1 ATATAATTGATATAAAAATAA
*
662938 ATATAATATGTATATATAAAT
1 ATATAAT-TG-ATATAAAAAT
662959 TATTAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATAATTGATATAAAAATAA
Found at i:663202 original size:19 final size:19
Alignment explanation
Indices: 663135--663204 Score: 53
Period size: 19 Copynumber: 3.9 Consensus size: 19
663125 CATGTTGCAT
663135 ATTATATAAATATAATAAAA
1 ATTATATAAATAT-ATAAAA
* *
663155 AATATAT-GAT-T-T-AAA
1 ATTATATAAATATATAAAA
*
663170 A-TATA-ATATAATATAAAA
1 ATTATATAAAT-ATATAAAA
663188 ATTATATAAATATATAA
1 ATTATATAAATATATAA
663205 TATGTATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
14 6 0.15
15 4 0.10
16 2 0.05
17 1 0.03
18 5 0.13
19 12 0.31
20 9 0.23
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (19 bp):
ATTATATAAATATATAAAA
Found at i:663222 original size:27 final size:29
Alignment explanation
Indices: 663137--663232 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 29
663127 TGTTGCATAT
663137 TATATAAATATAATA-AAAAATATATGATTTAAA
1 TATAT-AATATAATATAAAAAT-TAT-A--TAAA
663170 -ATATAATATAATATAAAAATTATATAAA
1 TATATAATATAATATAAAAATTATATAAA
* *
663198 TATATAATAT-GTATGAAAATT-TATAAA
1 TATATAATATAATATAAAAATTATATAAA
663225 TATATAAT
1 TATATAAT
663233 TTTTTAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
27 14 0.24
28 13 0.22
29 9 0.15
30 1 0.02
31 12 0.20
32 10 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TATATAATATAATATAAAAATTATATAAA
Found at i:663287 original size:12 final size:12
Alignment explanation
Indices: 663239--663288 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
663229 TAATTTTTTA
663239 AATAT-AATTAT
1 AATATAAATTAT
*
663250 AATATATATATAT
1 AATATAAAT-TAT
663263 ATATATAAA-TAT
1 A-ATATAAATTAT
*
663275 AACATAAATTAT
1 AATATAAATTAT
663287 AA
1 AA
663289 AAAAATCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 11 0.34
12 11 0.34
13 4 0.12
14 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATAAATTAT
Found at i:663942 original size:15 final size:15
Alignment explanation
Indices: 663916--663972 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
663906 TAAAAGGTAA
663916 AAATATTTTAAAATAT
1 AAATA-TTTAAAATAT
663932 AAATATTTAAAAT-T
1 AAATATTTAAAATAT
* *
663946 ATA-ATTTAAAAAATT
1 AAATATTTAAAATA-T
*
663961 AAAAATTTAAAA
1 AAATATTTAAAA
663973 AATTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 8 0.23
14 3 0.09
15 11 0.31
16 13 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATTTAAAATAT
Found at i:663960 original size:9 final size:9
Alignment explanation
Indices: 663948--663980 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
663938 TTAAAATTAT
663948 AATTTAAAA
1 AATTTAAAA
663957 AA-TT-AAA
1 AATTTAAAA
663964 AATTTAAAA
1 AATTTAAAA
663973 AATTTAAA
1 AATTTAAA
663981 TTATATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.23
8 4 0.18
9 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTTAAAA
Found at i:663973 original size:15 final size:15
Alignment explanation
Indices: 663915--663973 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
663905 ATAAAAGGTA
*
663915 AAAATATTTTAAAATAT
1 AAAA-ATTTAAAAAT-T
*
663932 AAATATTT-AAAATT
1 AAAAATTTAAAAATT
*
663946 -ATAATTTAAAAAATT
1 AAAAATTT-AAAAATT
663961 AAAAATTTAAAAA
1 AAAAATTTAAAAA
663974 ATTTAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.14
14 1 0.03
15 16 0.46
16 10 0.29
17 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAATTTAAAAATT
Found at i:664114 original size:17 final size:19
Alignment explanation
Indices: 664076--664118 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
664066 ATATTGCTTT
664076 AAAATTATTTTTAAAAACA
1 AAAATTATTTTTAAAAACA
*
664095 AAAATTA-TTTT-AAAATA
1 AAAATTATTTTTAAAAACA
664112 AAAATTA
1 AAAATTA
664119 AAATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 4 0.17
19 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTATTTTTAAAAACA
Found at i:665553 original size:20 final size:20
Alignment explanation
Indices: 665528--665569 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
665518 ATTAAAATAA
*
665528 ATAATTTAAATATTAAAGAT
1 ATAATTTAAATAGTAAAGAT
* *
665548 ATAATTTTAATAGTAAATAT
1 ATAATTTAAATAGTAAAGAT
665568 AT
1 AT
665570 GATATTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
ATAATTTAAATAGTAAAGAT
Found at i:666248 original size:19 final size:19
Alignment explanation
Indices: 666141--666249 Score: 59
Period size: 19 Copynumber: 5.7 Consensus size: 19
666131 AGTATTATTT
*
666141 TTTATATATTATATTAAAT-
1 TTTATATATTAT-TTATATA
666160 TTTA-ATATCATATTTATATTA
1 TTTATATAT--TATTTATA-TA
* *
666181 TTTTTAATATTATATATAATA
1 TTTAT-ATATTATTTAT-ATA
* *
666202 ATT-TATATTA--TATAAA
1 TTTATATATTATTTATATA
* *
666218 TTT-TAAAATATTTATATA
1 TTTATATATTATTTATATA
666236 TTTATATATTATTT
1 TTTATATATTATTT
666250 TTTATATCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
16 9 0.13
17 3 0.04
18 12 0.17
19 22 0.32
20 5 0.07
21 13 0.19
22 1 0.01
23 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATATTATTTATATA
Found at i:666902 original size:36 final size:36
Alignment explanation
Indices: 666855--666926 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
666845 CAAGTCACAA
666855 GCATTCTTCTAAACTTTCTAAGTGTCCTTATTTGCT
1 GCATTCTTCTAAACTTTCTAAGTGTCCTTATTTGCT
666891 GCATTCTTCTAAACTTTCTAAGTGTCCTTATTTGCT
1 GCATTCTTCTAAACTTTCTAAGTGTCCTTATTTGCT
666927 TGGCTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.47
Consensus pattern (36 bp):
GCATTCTTCTAAACTTTCTAAGTGTCCTTATTTGCT
Found at i:673658 original size:16 final size:16
Alignment explanation
Indices: 673639--673670 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
673629 TAGGAAGTGG
673639 CCATTAAATAAAGTAA
1 CCATTAAATAAAGTAA
673655 CCATTAAATAAAGTAA
1 CCATTAAATAAAGTAA
673671 AGTGTTCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (16 bp):
CCATTAAATAAAGTAA
Found at i:679726 original size:20 final size:20
Alignment explanation
Indices: 679684--679754 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
679674 TTCTATAATT
* *
679684 TGTATCGATACAACAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
679705 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* * * *
679725 TGCATTGATACATAACTGCA
1 TGTATCGATACATAAGTGAA
*
679745 TGTATTGATA
1 TGTATCGATA
679755 TTGGACCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 32 0.74
21 11 0.26
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:687028 original size:2 final size:2
Alignment explanation
Indices: 687016--687052 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
687006 ATAAAACAGC
687016 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
687053 CCAATAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:688905 original size:14 final size:15
Alignment explanation
Indices: 688882--688914 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
688872 AAAAATATTC
688882 AAAGTGCATCAG-AT
1 AAAGTGCATCAGAAT
*
688896 AAAGTTCATCAGAAT
1 AAAGTGCATCAGAAT
688911 AAAG
1 AAAG
688915 CACTTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (15 bp):
AAAGTGCATCAGAAT
Found at i:689058 original size:14 final size:15
Alignment explanation
Indices: 689040--689081 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
689030 TTAAATTTAA
689040 AATTTAT-TAAATAT
1 AATTTATATAAATAT
*
689054 TATTT-TATAAATAT
1 AATTTATATAAATAT
*
689068 AATTTACATAAATA
1 AATTTATATAAATA
689082 AATCATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 15 0.65
15 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTATATAAATAT
Found at i:689552 original size:20 final size:21
Alignment explanation
Indices: 689503--689553 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
689493 TTGATATAAT
*
689503 TTAAATTTAATAATTTACATA
1 TTAAATTTTATAATTTACATA
* *
689524 TT-TATTTTAT-ATTTATATA
1 TTAAATTTTATAATTTACATA
689543 TTAAATTTTAT
1 TTAAATTTTAT
689554 TATAATTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 10 0.40
20 13 0.52
21 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAAATTTTATAATTTACATA
Found at i:689596 original size:18 final size:18
Alignment explanation
Indices: 689568--689631 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
689558 ATTGTATTTA
689568 AAATATTTTATATTTATAT
1 AAAT-TTTTATATTTATAT
689587 AAATTTTTATATATTA-AT
1 AAATTTTTATAT-TTATAT
689605 -AA--TTTATA-TTATAT
1 AAATTTTTATATTTATAT
689619 AAATTTTTATATT
1 AAATTTTTATATT
689632 ATTTTTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 8 0.21
17 8 0.21
18 11 0.28
19 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AAATTTTTATATTTATAT
Found at i:689620 original size:32 final size:33
Alignment explanation
Indices: 689569--689630 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
689559 TTGTATTTAA
*
689569 AATATTTTATATTTATATAAATTTTTATATATT
1 AATAATTTATATTTATATAAATTTTTATATATT
689602 AATAATTTATA-TTATATAAATTTTTATAT
1 AATAATTTATATTTATATAAATTTTTATAT
689631 TATTTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTTATATATT
Found at i:689631 original size:17 final size:18
Alignment explanation
Indices: 689568--689633 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 18
689558 ATTGTATTTA
689568 AAATATTTTATATTTATAT
1 AAATATTTTATA-TTATAT
689587 AAAT-TTTTATA-TAT-T
1 AAATATTTTATATTATAT
*
689602 -AATAATTTATATTATAT
1 AAATATTTTATATTATAT
689619 AAAT-TTTTATATTAT
1 AAATATTTTATATTAT
689634 TTTTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.07
15 7 0.17
16 6 0.15
17 11 0.27
18 10 0.24
19 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AAATATTTTATATTATAT
Found at i:689646 original size:28 final size:29
Alignment explanation
Indices: 689573--689672 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 29
689563 ATTTAAAATA
689573 TTTTATATTTATATAAATTTTTATATATTAAT
1 TTTTATA-TTATATAAA-TTTT-TATATTAAT
*
689605 AATTTATATTATATAAATTTTTATATT-AT
1 -TTTTATATTATATAAATTTTTATATTAAT
* *
689634 TTTTATATAATAT-TATATTTTA-ATTAAT
1 TTTTATATTATATAAAT-TTTTATATTAAT
689662 TTTTATATTAT
1 TTTTATATTAT
689673 GTTTATATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.08
28 28 0.47
29 2 0.03
30 6 0.10
31 4 0.07
32 9 0.15
33 6 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTATATTATATAAATTTTTATATTAAT
Found at i:689667 original size:18 final size:18
Alignment explanation
Indices: 689573--689670 Score: 55
Period size: 18 Copynumber: 5.5 Consensus size: 18
689563 ATTTAAAATA
*
689573 TTTTATA-TTTATATAAAT
1 TTTTATATTTTA-ATTAAT
*
689591 TTTTATATATTAA-TAA-
1 TTTTATATTTTAATTAAT
* *
689607 -TTTATATTAT-ATAAAT
1 TTTTATATTTTAATTAAT
*
689623 TTTTATATTATT-TTTATAT
1 TTTTATATT-TTAATTA-AT
*
689642 AATATTATATTTTAATTAAT
1 --TTTTATATTTTAATTAAT
689662 TTTTATATT
1 TTTTATATT
689671 ATGTTTATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
14 1 0.02
15 10 0.17
17 10 0.17
18 19 0.32
19 5 0.08
20 4 0.07
21 11 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATATTTTAATTAAT
Found at i:689669 original size:39 final size:37
Alignment explanation
Indices: 689574--689680 Score: 125
Period size: 39 Copynumber: 2.9 Consensus size: 37
689564 TTTAAAATAT
689574 TTTATATTTATATAAATTTTTATA-TA---TTA-ATAA
1 TTTATA-TTATATAAATTTTTATATTATGTTTATATAA
*
689607 TTTATATTATATAAATTTTTATATTATTTTTATATAA
1 TTTATATTATATAAATTTTTATATTATGTTTATATAA
* *
689644 TATTATATTTTAATTAATTTTTATATTATGTTTATAT
1 T-TTATATTAT-ATAAATTTTTATATTATGTTTATAT
689681 GTCGTTTAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
32 17 0.27
33 8 0.12
36 3 0.05
37 5 0.08
38 8 0.12
39 23 0.36
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTATATTATATAAATTTTTATATTATGTTTATATAA
Found at i:690146 original size:15 final size:16
Alignment explanation
Indices: 690126--690158 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
690116 CAACTTTGTT
690126 ATTTTTATAATT-TTA
1 ATTTTTATAATTATTA
*
690141 ATTTTTTTAATTATTA
1 ATTTTTATAATTATTA
690157 AT
1 AT
690159 ACTCATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTATAATTATTA
Found at i:690387 original size:21 final size:21
Alignment explanation
Indices: 690322--690381 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
690312 ATTATATTTC
*
690322 ATAATAA-ATTATATAA-AATA
1 ATAATAATATT-TATAATATTA
*
690342 A-AAAAATATTTATAATATTA
1 ATAATAATATTTATAATATTA
*
690362 ATAATAATATTTATTATATT
1 ATAATAATATTTATAATATT
690382 TTTAATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 9 0.27
20 8 0.24
21 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATAATATTTATAATATTA
Found at i:695701 original size:30 final size:31
Alignment explanation
Indices: 695650--695734 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
695640 GTGATTAGTC
* * * *
695650 ATAGGCATTATGTTTAAGATTTAACTTG-TT
1 ATAGGCCTTATCTTTATGATTTAACTTGCCT
* *
695680 ATAGGCCTTATCTTTATGATTTGATTTGCCT
1 ATAGGCCTTATCTTTATGATTTAACTTGCCT
*
695711 -TA-GCCTTGTCTTTATGATTTAACT
1 ATAGGCCTTATCTTTATGATTTAACT
695735 AGGCACAACC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 19 0.42
30 25 0.56
31 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (31 bp):
ATAGGCCTTATCTTTATGATTTAACTTGCCT
Found at i:702189 original size:79 final size:79
Alignment explanation
Indices: 702060--702206 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
702050 CCCTCTGAAT
*
702060 ACGGGGTTGGAGTACCCCCGATGATCAAAAATTTAATATTTTGAAATAAAAGCAAGGTT-GAAGT
1 ACGGGGTTGGAGTACCCCCGATGATCAAAAATTTAATATTTTGAAATAAAAACAAGGTTAG-AGT
702124 ATCCCCTAAAAAATA
65 ATCCCCTAAAAAATA
* * * * * *
702139 ACGGGGTTGGAGTATCCCTGA-GATGAAAATTTTAATATTTTGAAGTTAAAAACAGGGTTAGAGT
1 ACGGGGTTGGAGTACCCCCGATGATCAAAAATTTAATATTTTGAA-ATAAAAACAAGGTTAGAGT
702203 ATCC
65 ATCC
702207 ATTCGGAGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 21 0.36
79 37 0.63
80 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
ACGGGGTTGGAGTACCCCCGATGATCAAAAATTTAATATTTTGAAATAAAAACAAGGTTAGAGTA
TCCCCTAAAAAATA
Found at i:702280 original size:51 final size:51
Alignment explanation
Indices: 702218--702336 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
702208 TTCGGAGTAT
* *
702218 AGGGTTGGAGTATCCTCGATGGT-GAAAAATCAATATTTTGAAAATAAAACC
1 AGGGTTGGAGTATCCTCGAT-ATAAAAAAATCAATATTTTGAAAATAAAACC
* * * **
702269 AGGGTTAGAGTATTCTTGATATAAAAAAATTGATATTTTGAAAATAAAACC
1 AGGGTTGGAGTATCCTCGATATAAAAAAATCAATATTTTGAAAATAAAACC
702320 -GAGGTTGGAGTATCCTC
1 AG-GGTTGGAGTATCCTC
702337 TCAGAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 2 0.04
51 54 0.96
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (51 bp):
AGGGTTGGAGTATCCTCGATATAAAAAAATCAATATTTTGAAAATAAAACC
Found at i:702393 original size:130 final size:131
Alignment explanation
Indices: 702228--702478 Score: 362
Period size: 130 Copynumber: 1.9 Consensus size: 131
702218 AGGGTTGGAG
* * * * *
702228 TATCCTCGATGGTGAAAAATCAATATTTTGAAAATAAAACCAGGGTTAGAGTATTCTTGAT-ATA
1 TATCCCCGATGGTGAAAAATCAATATTATGAAAATAAAACCAAGGTTAGAGTATCCTCGATGATA
*
702292 AAAAAATTGATATTTTGAAAATAAAACCGAGGTTGGAGTATC-CTCTCAGAAATAACAGAGTTTG
66 AAAAAATTGATATTTTGAAAATAAAACCGAGGTTGAAGTATCTC-CTCAGAAATAACAGAGTTTG
702356 AT
130 AT
* * * *
702358 TATCCCCGATGGTGAAAAATCAATATTATGGAAATAAAATCAAGGTTGGAGTATCCTCGATGTTA
1 TATCCCCGATGGTGAAAAATCAATATTATGAAAATAAAACCAAGGTTAGAGTATCCTCGATGATA
** *
702423 AAAAAATTGATATTTTGAAAATAAAATTGGGGTTGAAGTATCTCCTCAGAAATAAC
66 AAAAAATTGATATTTTGAAAATAAAACCGAGGTTGAAGTATCTCCTCAGAAATAAC
702479 GGGGTTGGTG
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
130 53 0.50
131 52 0.49
132 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (131 bp):
TATCCCCGATGGTGAAAAATCAATATTATGAAAATAAAACCAAGGTTAGAGTATCCTCGATGATA
AAAAAATTGATATTTTGAAAATAAAACCGAGGTTGAAGTATCTCCTCAGAAATAACAGAGTTTGA
T
Found at i:702493 original size:131 final size:131
Alignment explanation
Indices: 702219--702506 Score: 375
Period size: 131 Copynumber: 2.2 Consensus size: 131
702209 TCGGAGTATA
* * * *
702219 GGGTTGGAGTATCCTCGATGGTGAAAAATCAATATTTTGAAAATAAAACCAGGGTTAGAGTATTC
1 GGGTTGGTGTATCCTCGATGGTGAAAAATCAATATTATGAAAATAAAACCAAGGTTAGAGTATCC
* *
702284 TTGATATAAAAAAATTGATATTTTGAAAATAAAACCGAGGTTGGAGTATCCTCTCAGAAATAACA
66 TCGATATAAAAAAATTGATATTTTGAAAATAAAACCGAGGTTGAAGTATCCTCTCAGAAATAACA
702349 G
131 G
* * * * * * *
702350 AGTTTGAT-TATCCCCGATGGTGAAAAATCAATATTATGGAAATAAAATCAAGGTTGGAGTATCC
1 GGGTTGGTGTATCCTCGATGGTGAAAAATCAATATTATGAAAATAAAACCAAGGTTAGAGTATCC
* ** *
702414 TCGATGTTAAAAAAATTGATATTTTGAAAATAAAATTGGGGTTGAAGTAT-CTCCTCAGAAATAA
66 TCGAT-ATAAAAAAATTGATATTTTGAAAATAAAACCGAGGTTGAAGTATCCT-CTCAGAAATAA
702478 C-G
129 CAG
*
702480 GGGTTGGTGTATCCTTGATGGTGAAAA
1 GGGTTGGTGTATCCTCGATGGTGAAAA
702507 TTTTGATATT
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 61 0.46
131 71 0.54
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (131 bp):
GGGTTGGTGTATCCTCGATGGTGAAAAATCAATATTATGAAAATAAAACCAAGGTTAGAGTATCC
TCGATATAAAAAAATTGATATTTTGAAAATAAAACCGAGGTTGAAGTATCCTCTCAGAAATAACA
G
Found at i:702556 original size:80 final size:80
Alignment explanation
Indices: 702401--702608 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 80
702391 ATAAAATCAA
* *
702401 GGTTGGAGTATCCTCGATGTTAAAAAAATTGATATTTTGAAAATAAAATTGGGGTTGAAGTATCT
1 GGTTGGAGTATCCTCGATGGTAAAAAAATTGATATTTTGAAAATAAAAATGGGGTTGAAGTATCT
* *
702466 CCTCAGAAATAACGG
66 CCTCAAAAATAACAG
* * * ** *
702481 GGTTGGTGTATCCTTGATGGTGAAAATTTTGATATTTTGGAAATAAAAATGGGGTTGAAGTATC-
1 GGTTGGAGTATCCTCGATGGTAAAAAAATTGATATTTTGAAAATAAAAATGGGGTTGAAGTATCT
* *
702545 CTTTTAAAAATAACAG
66 C-CTCAAAAATAACAG
* * ** *
702561 GGTTAGAGTGTCC-CGATGGTAAAAAAATCAATATTTTGGAAA-AAAAAT
1 GGTTGGAGTATCCTCGATGGTAAAAAAATTGATATTTTGAAAATAAAAAT
702609 AATAAATTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 6 0.06
79 24 0.23
80 76 0.72
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (80 bp):
GGTTGGAGTATCCTCGATGGTAAAAAAATTGATATTTTGAAAATAAAAATGGGGTTGAAGTATCT
CCTCAAAAATAACAG
Found at i:702620 original size:23 final size:23
Alignment explanation
Indices: 702581--702630 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
702571 TCCCGATGGT
*
702581 AAAAAAATCAATATTTT-GGAAA
1 AAAAAAATAAATATTTTAGGAAA
* *
702603 AAAAATAATAAATTTTTTATGAAA
1 AAAAA-AATAAATATTTTAGGAAA
702627 AAAA
1 AAAA
702631 TTGACATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 10 0.43
24 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAAAAATAAATATTTTAGGAAA
Found at i:705872 original size:61 final size:61
Alignment explanation
Indices: 705616--706601 Score: 624
Period size: 61 Copynumber: 15.6 Consensus size: 61
705606 TGAAGTAGAT
* * * * * * * *
705616 AGGTGCCACCAACTTATGTGGGCTTTGAGATAGAAAAAGAGTCTTGCTTTTTAAAGACCAAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGA-AAAGAAAAAGTGTCCTGCTCTTTGAGGA-CTAAA
* * * * *
705679 AGGAGTGCC-CCTAACTT-TCTTGGGCTTTTAAAAAAAAAAAAGATG-CCTTACTCTTTGAGGAA
1 A-G-GTGCCACC-AACTTGT-GTGGGC-TTT-GAAAAGAAAAAG-TGTCC-TGCTCTTTGAGGAC
*
705741 TAGA
58 TAAA
* * * * *
705745 AGGTGCCACCAATTTGTATGGGCTTTAAAAGAAAAAAAAGAAAGTGTCCTGCTTTTTAAGGACTA
1 AGGTGCCACCAACTTGTGTGGGCTTT----G-AAAAGAA-AAAGTGTCCTGCTCTTTGAGGACTA
705810 AA
60 AA
* * *
705812 AGATGCCACTAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCTTGCTCTTTGAGGACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
* * * * *
705873 AGGTGCCACCAGCTTGT-TGGGCTTTAAAAAAAAGAAAGAAAAAAAATATCCTACTCTTTGAGGA
1 AGGTGCCACCAACTTGTGTGGGCTTT--------GAAA-AGAAAAAGTGTCCTGCTCTTTGAGGA
705937 CTAAA
57 CTAAA
* * ** * * * * *
705942 AGTTACCACCAGTTTGTGTGGGCTTT-TAAAG-GAAAGTGTCCTGCTTTTTGAAGACTGAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
* * * * * * *
706001 AGGTACCACCAACTTGTATGAGCTTTGAAAAAAAAAAGTATCTTGCTCTTTGAAGACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
* * * * * * *
706062 AGGTGCCACTAACTTTTTTAGGCTTTTAAAAAGTAAAAAAAAAGATGCCCTACTCTTTGAGGACT
1 AGGTGCCACCAACTTGTGTGGGC-TTTGAAAAG-----AAAAAG-TGTCCTGCTCTTTGAGGACT
*
706127 AGA
59 AAA
* * * * ** * * *
706130 AGGTGCCACCAATTTTTGTGAGCTTTGAAAGGAAATGGTGTCTTACTCTATGAGGACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
*
706191 AGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAATGAAAGTGTCCTACTCTTTGAGGACTA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAG----AA--AAAGTGTCCTGCTCTTTGAGGACTA
706255 AA
60 AA
* * ** *
706257 AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGGCTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
* * * *
706318 AGGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAAAAAGAAAGTGTCATGCTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTT----GAAAAGAA-AAAGTGTCCTGCTCTTTGAGGACTAA
706383 A
61 A
* * * * ** * * *
706384 AGGTGCCACCAACTTGTGTAGACTTTGAAAAGGAAAGGCATCCTACTTTTTGAGAACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
* * * * *** ** *
706445 AGGTGCCACCAGCCTGTGTGGACTTT--TAAGGGGAAGTGTTTTGCTCTTTGAGAACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
** * * * * * * *
706504 AATTGCCATCAACTTGTGTCGGCTTTAAAAAGAAAATGCGTCCTGCTCTTTCAGCACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
*
706565 AGGTGCCACCAACTTTTGTGGGCTTT-AAAAGAAAAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
706602 GAAAGTGTCA
Statistics
Matches: 714, Mismatches: 160, Indels: 101
0.73 0.16 0.10
Matches are distributed among these distances:
59 84 0.12
60 26 0.04
61 255 0.36
62 23 0.03
63 7 0.01
64 20 0.03
65 25 0.04
66 109 0.15
67 72 0.10
68 45 0.06
69 40 0.06
70 8 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (61 bp):
AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTGCTCTTTGAGGACTAAA
Found at i:705978 original size:128 final size:129
Alignment explanation
Indices: 705729--706037 Score: 347
Period size: 128 Copynumber: 2.4 Consensus size: 129
705719 AGATGCCTTA
* * * * * * *
705729 CTCTTTGAGGAATAGAAGGTGCCACCAATTTGTATGGGCTTT-AAAAGAAAAAAAAGAAAGTGTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAAAAAAAAAAATATC
* * * * *
705793 CTGCTTTTTAAGGACTAAAAGATGCCACTAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCTTG
66 CTACTCTTTAAGGACTAAAAGATACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTG
*
705857 CTCTTTGAGGACTAAAAGGTGCCACCAGCTTGT-TGGGCTTTAAAAAAAAGAAAGAAAAAAAATA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAA-AAA-AAAAAAAATA
* * ** * *
705921 TCCTACTCTTTGAGGACTAAAAGTTACCACCAGTTTGTGTGGGCTTT-TAAAG-GAAAGTGTCCT
64 TCCTACTCTTTAAGGACTAAAAGATACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCT
705984 G
129 G
* * * * * *
705985 CTTTTTGAAGACTGAAAGGTACCACCAACTTGTATGAGCTTTGAAAAAAAAAA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAAA
706038 GTATCTTGCT
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
127 8 0.05
128 76 0.50
129 21 0.14
130 46 0.30
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (129 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAAAAAAAAAAATATC
CTACTCTTTAAGGACTAAAAGATACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTGTCCTG
Found at i:706308 original size:188 final size:183
Alignment explanation
Indices: 705616--706629 Score: 634
Period size: 188 Copynumber: 5.3 Consensus size: 183
705606 TGAAGTAGAT
* * * * * * * *
705616 AGGTGCCACCAACTTATGTGGGCTTTGAGATAGAA-AAAGAGTCTTGCTTTTTAAAGACCAAAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTGA-A-AAAAGAAAGTGTCCTGCTCTTTGAGGA-CTAAAA
* * *
705680 GGAGTGCC-CCTAACTT-TCTTGGGCTTTTA-AAAAAAAAAAAGATGCCTTACTCTTTGAGGAAT
63 -G-GTGCCACC-AACTTGT-GTGGGC-TTTAGAAAGAAAAAAAGAT-CC-TACTCTTTGAGGACT
* * * * * *
705742 AGAAGGTGCCACCAATTTGTATGGGCTTTAAAAGAAAAAAAAGAAAGTGTCCTGCTTTTTAAGGA
121 AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG------AA-AATGTGTCCTGCTCTTTGAGGA
705807 CTAAA
179 CTAAA
* * *
705812 AGATGCCACTAACTTGTGTGGGCTTTGAAAAGAA-AAAGTGTCTTGCTCTTTGAGGACTAAAAGG
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGG
* *
705876 TGCCACCAGCTTGT-TGGGCTTTAAAAAAAAGAAAGAAAAAAAATATCCTACTCTTTGAGGACTA
65 TGCCACCAACTTGTGTGGGCTTT-------AGAAAG-AAAAAAAGATCCTACTCTTTGAGGACTA
* * ** * * * * *
705940 AAAGTTACCACCAGTTTGTGTGGGCTTTTAAAGGAAA-GTGTCCTGCTTTTTGAAGACTGAA
122 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCTGCTCTTTGAGGACTAAA
* * * * * * *
706001 AGGTACCACCAACTTGTATGAGCTTTGAAAAAAAAAAGTATCTTGCTCTTTGAAGACTAAAAGGT
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGT
* * * * * *
706066 GCCACTAACTTTTTTAGGCTTTTAAAAAGTAAAAAAAAAGATGCCCTACTCTTTGAGGACTAGAA
66 GCCACCAACTTGTGTGGGC-TTTAGAAAG---AAAAAAAGAT--CCTACTCTTTGAGGACTAAAA
* * * * * * * *
706131 GGTGCCACCAATTTTTGTGAGCTTTGAAAGGAAATGGTGTCTTACTCTATGAGGACTAAA
125 GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAT-GTGTCCTGCTCTTTGAGGACTAAA
*
706191 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAATGAAAGTGTCCTACTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTT----GAAAAAA-GAAAGTGTCCTGCTCTTTGAGGACTAA
* * * *
706256 AAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG-GAAAAGGCATCCTGCTCTTTGAGGGCTAAAA
61 AAGGTGCCACCAACTTGTGTGGGCTTTAGAAAGAAAAAAAG-ATCCTACTCTTTGAGGACTAAAA
* * * *
706319 GGTGCCACCAGCTTGTATGGGCTTTAAAAGAAAAAAAGAAAGTGTCATGCTCTTTGAGGACTAAA
125 GGTGCCACCAACTTGTGTGGGCTTTAAAAG-----AA-AATGTGTCCTGCTCTTTGAGGACTAAA
* * * * * *
706384 AGGTGCCACCAACTTGTGTAGACTTTG-AAAAGGAAAG-GCATCCTACTTTTTGAGAACTAAAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGTG--TCCTGCTCTTTGAGGACTAAAAG
* * * * *** ** ** * * **
706447 GTGCCACCAGCCTGTGTGGACTTT--TAAGGGGAAGTG-TTTTGCTCTTTGAGAACTAAAAATTG
64 GTGCCACCAACTTGTGTGGGCTTTAGAAAGAAAAAAAGATCCTACTCTTTGAGGACTAAAAGGTG
* * * * *
706509 CCATCAACTTGTGTCGGCTTTAAAAAGAAAATGCGTCCTGCTCTTTCAGCACTAAA
129 CCACCAACTTGTGTGGGCTTT-AAAAGAAAATGTGTCCTGCTCTTTGAGGACTAAA
* * * * *
706565 AGGTGCCACCAACTTTTGTGGGCTTTAAAAGAAAAAGGAAAGTGTCATGCTTTTTAAGGACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTT----GAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAA
706630 TAAATCAAAA
Statistics
Matches: 663, Mismatches: 112, Indels: 97
0.76 0.13 0.11
Matches are distributed among these distances:
181 45 0.07
182 2 0.00
184 5 0.01
185 18 0.03
186 58 0.09
187 14 0.02
188 142 0.21
189 92 0.14
190 52 0.08
191 9 0.01
192 9 0.01
193 54 0.08
194 18 0.03
195 63 0.10
196 25 0.04
197 43 0.06
198 5 0.01
199 9 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (183 bp):
AGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGT
GCCACCAACTTGTGTGGGCTTTAGAAAGAAAAAAAGATCCTACTCTTTGAGGACTAAAAGGTGCC
ACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCTGCTCTTTGAGGACTAAA
Found at i:706317 original size:127 final size:126
Alignment explanation
Indices: 705699--706629 Score: 693
Period size: 127 Copynumber: 7.4 Consensus size: 126
705689 CTAACTTTCT
* * * * *
705699 TGGGCTTTTAAA-AAAAAA-AAAGATG-CCTTACTCTTTGAGGAATAGAAGGTGCCACCAATTTG
1 TGGGCTTTAAAAGAAAAAAGAAAG-TGTCC-TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTG
* * * * * * * *
705761 TATGGGCTTTAAAAGAAAAAAAAGAAAGTGTCCTGCTTTTTAAGGACTAAAAGATGCCACTAACT
64 TGTGGGCTTTGAAAG---GAAAAG---GTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACT
705826 TGTG
123 TGTG
* *
705830 TGGGCTTT----GAAAAGAA-AAAGTGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGT
1 TGGGCTTTAAAAGAAAA-AAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT
* ** * * * *
705890 -TGGGCTTTAAAAAAAAGAAAGAAAAAAAATATCCTACTCTTTGAGGACTAAAAGTTACCACCAG
65 GTGGGCTTT--------GAAAG-GAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA
*
705954 TTTGTG
121 CTTGTG
* * * * * *
705960 TGGGCTTTTAAAG------GAAAGTGTCCTGCTTTTTGAAGACTGAAAGGTACCACCAACTTGTA
1 TGGGCTTTAAAAGAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
* ** * * * * * *
706019 TGAGCTTTGAAAAAAAAAAGTATCTTGCTCTTTGAAGACTAAAAGGTGCCACTAACTTTTT
66 TGGGCTTTGAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
* * * * *
706080 TAGGCTTTTAAAAAGTAAAAAA-AAAGATGCCCTACTCTTTGAGGACTAGAAGGTGCCACCAATT
1 TGGGC-TTT-AAAAG-AAAAAAGAAAG-TGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACT
* * * * * * *
706144 TTTGTGAGCTTTGAAAGGAAATGGTGTCTTACTCTATGAGGACTAAAAGGTGCCACCAACTTGTG
62 TGTGTGGGCTTTGAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
*
706209 TGGGCTTTAAAAGAAAAAATGAAAGTGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGT
1 TGGGCTTTAAAAGAAAAAA-GAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT
* * * *
706274 GTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGGCTAAAAGGTGCCACCAGCTTGTA
65 GTGGGCTTTGAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
*
706336 TGGGCTTTAAAAGAAAAAAAGAAAGTGTCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT
1 TGGGCTTTAAAAG-AAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT
* * * * * * * *
706401 GTAGACTTTGAAAAGG-AAAGGCATCCTACTTTTTGAGAACTAAAAGGTGCCACCAGCCTGTG
65 GTGGGCTTTG-AAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
* * * * ** * ** *
706463 TGGACTTT-TAAG-----GGGAAGTGTTTTGCTCTTTGAGAACTAAAAATTGCCATCAACTTGTG
1 TGGGCTTTAAAAGAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
* * * * ** * * *
706522 TCGGCTTTAAAAAGAAAATGCGTCCTGCTCTTTCAGCACTAAAAGGTGCCACCAACTTTTG
66 TGGGCTTTGAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
* * * *
706583 TGGGCTTTAAAAGAAAAAGGAAAGTGTCATGCTTTTTAAGGACTAAA
1 TGGGCTTTAAAAGAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAA
706630 TAAATCAAAA
Statistics
Matches: 646, Mismatches: 116, Indels: 81
0.77 0.14 0.10
Matches are distributed among these distances:
119 4 0.01
120 130 0.20
121 10 0.02
122 4 0.01
126 32 0.05
127 212 0.33
128 96 0.15
129 99 0.15
130 40 0.06
131 8 0.01
133 6 0.01
134 1 0.00
135 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (126 bp):
TGGGCTTTAAAAGAAAAAAGAAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
TGGGCTTTGAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG
Found at i:710255 original size:52 final size:52
Alignment explanation
Indices: 710107--710233 Score: 200
Period size: 52 Copynumber: 2.4 Consensus size: 52
710097 CGAAATATGA
* *
710107 AAATTTGCCTGCACGTATCGATACATTTCATAGTGTATCGATACATTTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* ** *
710159 AAATTTACCTATATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
710211 AAATTTGCCTGCATGTATCGATA
1 AAATTTGCCTGCATGTATCGATA
710234 TAAAGATCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:710262 original size:13 final size:13
Alignment explanation
Indices: 710244--710268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
710234 TAAAGATCAG
710244 TGTATCGATACAA
1 TGTATCGATACAA
710257 TGTATCGATACA
1 TGTATCGATACA
710269 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:710354 original size:32 final size:32
Alignment explanation
Indices: 710313--710397 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 32
710303 AGCTTCGTAG
710313 TGATACATTGTATCGATACAAAACTTATATAT
1 TGATACATTGTATCGATACAAAACTTATATAT
* * *
710345 TGATACATTGAATCGATACAACACTTATGTAT
1 TGATACATTGTATCGATACAAAACTTATATAT
*
710377 CGATACATTGTAT-GATACAAA
1 TGATACATTGTATCGATACAAA
710398 TCATTGAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 7 0.15
32 40 0.85
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (32 bp):
TGATACATTGTATCGATACAAAACTTATATAT
Found at i:710474 original size:21 final size:21
Alignment explanation
Indices: 710433--710474 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
710423 GTTAGGACCT
*
710433 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
710454 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
710475 AAATGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:711284 original size:10 final size:10
Alignment explanation
Indices: 711271--711306 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
711261 ATTTTCTCTC
*
711271 TTTTTTTCTT
1 TTTTTTTGTT
711281 TTTTTTTGTT
1 TTTTTTTGTT
*
711291 TTGTTTTGTT
1 TTTTTTTGTT
711301 TTTTTT
1 TTTTTT
711307 ATTTTTTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:713798 original size:79 final size:78
Alignment explanation
Indices: 713705--714083 Score: 417
Period size: 79 Copynumber: 4.8 Consensus size: 78
713695 AAAAATTTAA
* * * *
713705 TATTTTAGAGATAAAAACGAGGTCGGAGTACTCCCTC-AGAAATAACGGGGTTGGAGTATACCCA
1 TATTTTAGAAATAAAAACGAGGTTGGAGTA-TCCCTCGA-AAATAACGGGGTTGGAGTATCCCCG
* *
713769 ATAGTGAAAAATTGA
64 ATTGTGAAAAATTGG
** * * * *
713784 TATTTTAGAAATAAAATTGAGGTTGGAGTATTCCTTTGAAAATAACGGGGTTGAAGTATCCCTGA
1 TATTTTAGAAATAAAAACGAGGTTGGAGTA-TCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA
*
713849 TTGTGAAAATTTGG
65 TTGTGAAAAATTGG
* * *
713863 TATTTT-GAAAATAAAACCGAGGTTGGAGTATCCCTTCGAAAATGACGAGGTTGGAGTATCCCCG
1 TATTTTAG-AAATAAAAACGAGGTTGGAGTATCCC-TCGAAAATAACGGGGTTGGAGTATCCCCG
713927 ATTGTGAAAAATTGG
64 ATTGTGAAAAATTGG
* * * * *
713942 TGTTTTAGAAAT-AAGACCACGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCG
1 TATTTTAGAAATAAAAACGA-GGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCCCCG
714006 ATTGTGAAAAATTGG
64 ATTGTGAAAAATTGG
* * *
714021 TGTTTT-GAAAATAAAATC-AGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCC
1 TATTTTAG-AAATAAAAACGA-GGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCCCC
714084 TCGAAAATAG
Statistics
Matches: 255, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
78 9 0.04
79 238 0.93
80 8 0.03
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
TATTTTAGAAATAAAAACGAGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
TGTGAAAAATTGG
Found at i:714073 original size:107 final size:107
Alignment explanation
Indices: 713962--714190 Score: 320
Period size: 107 Copynumber: 2.1 Consensus size: 107
713952 ATAAGACCAC
* * *
713962 GGTTGGAGTATCCCCTCAAAAATAAC-AGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTT-
1 GGTTGGAGTATCCCCTCAAAAATAACGA-GGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTG
* *
714025 TTGAAAATAAAATC-AGGGTTGGAGTATCCCCTCGAAAATAATGG
65 TAG-AAATAAAATCGA-GGTTGGAGTATCCCCTCGAAAATAACGG
* * * *
714069 GGTTGGAGTATCCCCTCGAAAATAGCGAGGTTAGAGTATCCCTGATTATGGAAAATTAGTGTTGT
1 GGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTGT
*
714134 AGAAATAAAATCGAGGTTGGAGTATCCCCTTGAAAATAACGG
66 AGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGG
714176 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
714191 AATTATGAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
107 105 0.96
108 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
GGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTGT
AGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGG
Found at i:714075 original size:28 final size:28
Alignment explanation
Indices: 714040--714110 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
714030 AATAAAATCA
*
714040 GGGTTGGAGTATCCCCTCGAAAATAATG
1 GGGTTGGAGTATCCCCTCGAAAATAACG
*
714068 GGGTTGGAGTATCCCCTCGAAAATAGCG
1 GGGTTGGAGTATCCCCTCGAAAATAACG
* *
714096 AGGTTAGAGTATCCC
1 GGGTTGGAGTATCCC
714111 TGATTATGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCGAAAATAACG
Found at i:714139 original size:186 final size:186
Alignment explanation
Indices: 713883--714267 Score: 524
Period size: 186 Copynumber: 2.1 Consensus size: 186
713873 ATAAAACCGA
* * * * *
713883 GGTTGGAGTATCCCTTCGAAAATGACGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATGACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTGT
* * *
713948 AGAAATAAGA-CCACGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTG
66 AGAAATAAAATCCA-GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCAATTATG
* **
714012 AAAAATTGGTGTTTT-GAAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAATGG
130 AAAAATTGATGTTTTAG-AAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAG
* *
714069 GGTTGGAGTATCCCCTCGAAAAT-AGCGAGGTTAGAGTATCCCTGATTATGGAAAATTAGTGTTG
1 GGTTGGAGTATCCCCTCGAAAATGA-CGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTG
* ** *
714133 TAGAAATAAAATCGAGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCAATTATG
65 TAGAAATAAAATCCAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCAATTATG
** * * *
714198 AAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGATTATCTCTTCGAAAATAACAG
130 AAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAG
714255 GGTTGGAGTATCC
1 GGTTGGAGTATCC
714268 TCGATTGTGA
Statistics
Matches: 174, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
185 1 0.01
186 170 0.98
187 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (186 bp):
GGTTGGAGTATCCCCTCGAAAATGACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTGT
AGAAATAAAATCCAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCAATTATGA
AAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAG
Found at i:714152 original size:79 final size:79
Alignment explanation
Indices: 714067--714408 Score: 340
Period size: 79 Copynumber: 4.3 Consensus size: 79
714057 CGAAAATAAT
* *
714067 GGGGTTGGAGTATCCCCTCGAAAATAGCGAGGTTAGAGTATCCCTGATTATGGAAAATTAGTGTT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCCTGATTATGAAAAATTAGTGTT
*
714132 GTAGAAATAAAATC
66 TTAGAAATAAAATC
* * * * **
714146 GAGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATT-GATGT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCCTGATTATGAAAAATTAG-TGT
*
714210 TTTAGAAATAAAATT
65 TTTAGAAATAAAATC
* * * * *
714225 GGGGTTGGATTATCTCTTCGAAAATAAC-AGGGTTGGAGTAT-CCTCGATTGTGAAAAATTAGTG
1 GGGGTTGGAGTATCCCCTCGAAAATAACGA-GGTTAGAGTATCCCT-GATTATGAAAAATTAGTG
* * *
714288 TTTTGGAAGTGAAA-C
64 TTTTAGAAATAAAATC
* * * * *
714303 TGGGGTTAGAGTAT-CCCTC-AGAAATAACGGGGTTAGAGTATCTCTGATTGTGAAAATTTTA-T
1 -GGGGTTGGAGTATCCCCTCGA-AAATAACGAGGTTAGAGTATCCCTGATTATGAAAA-ATTAGT
714365 GTTTT-GAAAATAAAATC
63 GTTTTAG-AAATAAAATC
* *
714382 GGGGTTGGAGTATCCCTTCGGAAATAA
1 GGGGTTGGAGTATCCCCTCGAAAATAA
714409 AAACATGAAT
Statistics
Matches: 214, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
77 2 0.01
78 58 0.27
79 153 0.71
80 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCCTGATTATGAAAAATTAGTGTT
TTAGAAATAAAATC
Found at i:714228 original size:158 final size:157
Alignment explanation
Indices: 714066--714408 Score: 390
Period size: 158 Copynumber: 2.2 Consensus size: 157
714056 TCGAAAATAA
* * *
714066 TGGGGTTGGAGTATCCCCTCGAAAATAGC-GAGGTTAGAGTATCC-CTGATTATGGAAAATTAGT
1 TGGGGTTGGAGTATCCCTTCGAAAATAACAG-GGTTAGAGTATCCTC-GATTATGAAAAATTAGT
* * *
714129 GTTGTAGAAATAAAA-TCGAGGTTGGAGTATCCC-CTTGAAAATAACGGGGTTGGAGTATCCCCA
64 GTTGTAGAAATAAAACT-GAGGTTAGAGTATCCCTC-AG-AAATAACGGGGTTAGAGTATCCCCA
714192 ATTATGAAAAATTGATGTTTT-AGAAATAAAAT
126 ATTATGAAAAATTGATGTTTTGA-AAATAAAAT
* * * *
714224 TGGGGTTGGATTATCTCTTCGAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
1 TGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTAGAGTATCCTCGATTATGAAAAATTAGTGT
* * * * * * ** *
714289 TTTGGAAGTGAAACTGGGGTTAGAGTATCCCTCAGAAATAACGGGGTTAGAGTATCTCTGATTGT
66 TGTAGAAATAAAACTGAGGTTAGAGTATCCCTCAGAAATAACGGGGTTAGAGTATCCCCAATTAT
* *
714354 GAAAATTTTATGTTTTGAAAATAAAAT
131 GAAAAATTGATGTTTTGAAAATAAAAT
* *
714381 CGGGGTTGGAGTATCCCTTCGGAAATAA
1 TGGGGTTGGAGTATCCCTTCGAAAATAA
714409 AAACATGAAT
Statistics
Matches: 155, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
157 72 0.46
158 79 0.51
159 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (157 bp):
TGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTAGAGTATCCTCGATTATGAAAAATTAGTGT
TGTAGAAATAAAACTGAGGTTAGAGTATCCCTCAGAAATAACGGGGTTAGAGTATCCCCAATTAT
GAAAAATTGATGTTTTGAAAATAAAAT
Found at i:714277 original size:265 final size:264
Alignment explanation
Indices: 713804--714344 Score: 680
Period size: 265 Copynumber: 2.0 Consensus size: 264
713794 ATAAAATTGA
* * * * * * * *
713804 GGTTGGAGTATTCCTTTGAAAATAACGGGGTTGAAGTATCCCTGATTGTGAAAATTTGGTATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGAAGTATCCCTGATTATGAAAATTAGGTATGTA
* * *
713869 GAAAATAAAACCGAGGTTGGAGTATCCCTTCGAAAATGACGAGGTTGGAGTATCCCCGATTGTGA
66 GAAAATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGA
* *
713934 AAAATTGGTGTTTTAGAAATAAGACCACGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGT
131 AAAATTGATGTTTTAGAAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGT
* *
713999 ATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAA-TCAGGGTTGGAGTATCCCCTC-GAAA
196 ATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACT-AGGGTTAGAGTAT-CCCTCAG-AA
*
714062 ATAATGG
258 ATAACGG
*
714069 GGTTGGAGTATCCCCTCGAAAATAGCGAGGTT-AGAGTATCCCTGATTATGGAAAATTAGTGT-T
1 GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGA-AGTATCCCTGATTAT-GAAAATTAG-GTAT
* *
714132 GTAG-AAATAAAATCGAGGTTGGAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCCAATT
63 GTAGAAAATAAAACCGAGGTTGGAGTAT-CCCTTCGAAAATAACGAGGTTGGAGTATCCCCAATT
**** * * * *
714195 ATGAAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGATTATCTCTTCGAAAATAACAGGGTTG
127 ATGAAAAATTGATGTTTTAGAAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACAGGGTTG
* * * * *
714260 GAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAGTGAAACTGGGGTTAGAGTATCCCTCAGA
192 GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACTAGGGTTAGAGTATCCCTCAGA
714325 AATAACGG
257 AATAACGG
*
714333 GGTTAGAGTATC
1 GGTTGGAGTATC
714345 TCTGATTGTG
Statistics
Matches: 237, Mismatches: 33, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
264 25 0.11
265 193 0.81
266 17 0.07
267 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (264 bp):
GGTTGGAGTATCCCCTCGAAAATAACGAGGTTGAAGTATCCCTGATTATGAAAATTAGGTATGTA
GAAAATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGA
AAAATTGATGTTTTAGAAATAAAACCACGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGT
ATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACTAGGGTTAGAGTATCCCTCAGAAATA
ACGG
Found at i:714386 original size:157 final size:158
Alignment explanation
Indices: 714067--714408 Score: 390
Period size: 157 Copynumber: 2.2 Consensus size: 158
714057 CGAAAATAAT
* * *
714067 GGGGTTGGAGTATCCCCTCGAAAATAGCGAGGTTAGAGTATCCCTGATTATGGAAAATTAGTGTT
1 GGGGTTGGAGTATCCCTTCGAAAATAACGAGGTTAGAGTATCCCTGATTATGAAAAATTAGTGTT
* * *
714132 GTAGAAATAAAATCGAGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCAATTAT
66 GTAGAAATAAAATCGAGGTTAGAGTATCCCCTAGAAAATAACGGGGTTAGAGTATCCCCAATTAT
*
714197 GAAAAATTGATGTTTTAGAAATAAAATT
131 GAAAAATTGATGTTTTAGAAATAAAATC
* * * *
714225 GGGGTTGGATTATCTCTTCGAAAATAAC-AGGGTTGGAGTAT-CCTCGATTGTGAAAAATTAGTG
1 GGGGTTGGAGTATCCCTTCGAAAATAACGA-GGTTAGAGTATCCCT-GATTATGAAAAATTAGTG
* * * * * * **
714288 TTTTGGAAGTGAAA-CTGGGGTTAGAGTAT-CCCTCAG-AAATAACGGGGTTAGAGTATCTCTGA
64 TTGTAGAAATAAAATC-GAGGTTAGAGTATCCCCT-AGAAAATAACGGGGTTAGAGTATCCCCAA
* * *
714350 TTGTGAAAATTTTATGTTTT-GAAAATAAAATC
127 TTATGAAAAATTGATGTTTTAG-AAATAAAATC
*
714382 GGGGTTGGAGTATCCCTTCGGAAATAA
1 GGGGTTGGAGTATCCCTTCGAAAATAA
714409 AAACATGAAT
Statistics
Matches: 154, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
156 1 0.01
157 81 0.53
158 72 0.47
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (158 bp):
GGGGTTGGAGTATCCCTTCGAAAATAACGAGGTTAGAGTATCCCTGATTATGAAAAATTAGTGTT
GTAGAAATAAAATCGAGGTTAGAGTATCCCCTAGAAAATAACGGGGTTAGAGTATCCCCAATTAT
GAAAAATTGATGTTTTAGAAATAAAATC
Found at i:716710 original size:50 final size:50
Alignment explanation
Indices: 716635--716744 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 50
716625 AAAATGCTTG
* * *
716635 AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATGCAATGAAC
1 AATGTATTGATACATCTAGGTAAAACCCAGAATGTATCAATACAATGAAC
* *
716685 AATGTATTGATACATCTAGGTAAAACCTAGAATGTATCAATACAATGGAC
1 AATGTATTGATACATCTAGGTAAAACCCAGAATGTATCAATACAATGAAC
716735 AATGTATTGA
1 AATGTATTGA
716745 CACAAATTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (50 bp):
AATGTATTGATACATCTAGGTAAAACCCAGAATGTATCAATACAATGAAC
Found at i:717468 original size:121 final size:122
Alignment explanation
Indices: 717304--717578 Score: 381
Period size: 122 Copynumber: 2.2 Consensus size: 122
717294 AAAGGAAATG
* * * * ** *
717304 ACATCTTGCTCTTTAAGGACAAAGGAAAAGGAGAAGGTGTCCTGCCCTTTGAGGACTAAGGGAAA
1 ACATCCTGCTCTTTGAGGATAAAAGAAAAGGAGAAGGCATCCTGCCCTTTGAGGACTAAAGGAAA
* *
717369 AG-AAAGAAATGAGGTGCGCCCTACTTTTTGAAGACAAAGGAAAAATGAAATAAACT
66 AGAAAAAAAATGAGGTGCGCCCTACTTTTTGAAGACAAAAGAAAAATGAAATAAACT
* *
717425 ATATCCTGCTCTTTGAGGATAAAAGAAAAGGAGAAGGCATCCTGCTCTTTGAGGACTAAAGGAAA
1 ACATCCTGCTCTTTGAGGATAAAAGAAAAGGAGAAGGCATCCTGCCCTTTGAGGACTAAAGGAAA
* * * *
717490 AGAAAAAAAATGAGGTGCGCCTTATTTTTTGAAGACAAAAGAAAAATGAATTAAAGT
66 AGAAAAAAAATGAGGTGCGCCCTACTTTTTGAAGACAAAAGAAAAATGAAATAAACT
*
717547 GCATCCTGCTCTTTGAGGATAAATGAGAAAAG
1 ACATCCTGCTCTTTGAGGATAAA--AGAAAAG
717579 AAGGAAATGG
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
121 58 0.43
122 69 0.51
124 7 0.05
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (122 bp):
ACATCCTGCTCTTTGAGGATAAAAGAAAAGGAGAAGGCATCCTGCCCTTTGAGGACTAAAGGAAA
AGAAAAAAAATGAGGTGCGCCCTACTTTTTGAAGACAAAAGAAAAATGAAATAAACT
Found at i:717595 original size:45 final size:44
Alignment explanation
Indices: 717457--717659 Score: 155
Period size: 44 Copynumber: 4.7 Consensus size: 44
717447 AAGAAAAGGA
* * **
717457 GAAG-GCATCCTGCTCTTTGAGGACTAAAGGAAAAGAAAAAAAAT
1 GAAGTGCATCCTGCTCTTTGAAGACAAAAGGAAAAG-AAGGAAAT
* * ** * * *
717501 GAGGTGC-GCCTTATTTTTTGAAGACAAAA-G-AAA-AATGAATT
1 GAAGTGCATCC-TGCTCTTTGAAGACAAAAGGAAAAGAAGGAAAT
* * * *
717542 AAAGTGCATCCTGCTCTTTGAGGATAAATGAGAAAAGAAGGAAAT
1 GAAGTGCATCCTGCTCTTTGAAGACAAAAG-GAAAAGAAGGAAAT
* **
717587 GGAGTGCATTTTGCTCTTTGAAGACAAAAGGAAAAGAAGGAAAT
1 GAAGTGCATCCTGCTCTTTGAAGACAAAAGGAAAAGAAGGAAAT
* **
717631 GAAATGTGTCCTGCTCTTTGAAGACAAAA
1 GAAGTGCATCCTGCTCTTTGAAGACAAAA
717660 AAGAAAAGGA
Statistics
Matches: 118, Mismatches: 34, Indels: 14
0.71 0.20 0.08
Matches are distributed among these distances:
41 22 0.19
42 2 0.02
43 4 0.03
44 46 0.39
45 44 0.37
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (44 bp):
GAAGTGCATCCTGCTCTTTGAAGACAAAAGGAAAAGAAGGAAAT
Found at i:717759 original size:62 final size:62
Alignment explanation
Indices: 717662--718253 Score: 732
Period size: 62 Copynumber: 9.6 Consensus size: 62
717652 AGACAAAAAA
* * * *
717662 GAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
717724 AAAAAGAAAAAGGTATCCTGCTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
717786 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * *
717848 GAAAAGGAAAATGCGTCTTGCTCTTTGAGGACTAAAAGGCGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* *
717910 GAAAA-AGAAAAGGTGTCCTGCTCTTTGAGGACTCAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGA-AAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
717972 GAAAAGGAAAAA-GTGTCCTGCTTTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* ** * * * * *
718034 GAAAAGGAAAAGGTGTCCTATTTTTTTAGGACTGGAAA-GTGCCACCAACTTGTGT-GGCCTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * * *
718095 CAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
718157 GAAAGGAAAAA-GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
*
718218 GAAAAG--AAA-GTGTCCTGCTCTTTGAGGACTGAAAGG
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGG
718254 ATAAAAGGTT
Statistics
Matches: 472, Mismatches: 51, Indels: 17
0.87 0.09 0.03
Matches are distributed among these distances:
59 27 0.06
60 2 0.00
61 107 0.23
62 328 0.69
63 7 0.01
64 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (62 bp):
GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:719189 original size:5 final size:5
Alignment explanation
Indices: 719179--719255 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
719169 CTTAAGTAGG
* *
719179 TTCTT TTCTT TTCTT TTCTC TT-TT TTCTT TT-TT CTT-TT TTCTT GTTTTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT -TTCTT TTCTT -TTCTT
* * * *
719228 TTGTT TTGCTT TTTTT TTGTT TTGTT TT
1 TTCTT TT-CTT TTCTT TTCTT TTCTT TT
719256 GTTTCGTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
4 7 0.12
5 45 0.75
6 8 0.13
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (5 bp):
TTCTT
Found at i:719202 original size:7 final size:7
Alignment explanation
Indices: 719187--719242 Score: 67
Period size: 7 Copynumber: 7.6 Consensus size: 7
719177 GGTTCTTTTC
719187 TTTTCTT
1 TTTTCTT
*
719194 TTCTCTT
1 TTTTCTT
719201 TTTTCTT
1 TTTTCTT
719208 TTTTCTT
1 TTTTCTT
719215 TTTTCTT
1 TTTTCTT
*
719222 GTTTTTTT
1 -TTTTCTT
719230 GTTTTGCTT
1 -TTTT-CTT
719239 TTTT
1 TTTT
719243 TTTGTTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
7 26 0.60
8 15 0.35
9 2 0.05
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:719226 original size:24 final size:23
Alignment explanation
Indices: 719182--719267 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 23
719172 AAGTAGGTTC
* *
719182 TTTTCTTTTCTTTTCTC-T-TTT
1 TTTTTTTTTCTTTTTTCTTGTTT
*
719203 TTCTTTTTTCTTTTTTCTTGTTT
1 TTTTTTTTTCTTTTTTCTTGTTT
* *
719226 TTTTGTTTTGCTTTTTTTTTGTTT
1 TTTT-TTTTTCTTTTTTCTTGTTT
*
719250 TGTTTTGTTTCGTTTTTT
1 T-TTTTTTTTC-TTTTTT
719268 TTTGAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.27
22 1 0.02
23 6 0.12
24 22 0.42
25 9 0.17
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTCTTTTTTCTTGTTT
Found at i:719256 original size:5 final size:5
Alignment explanation
Indices: 719226--719271 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
719216 TTTCTTGTTT
* * *
719226 TTTTG TTTTG CTTTTT TTTTG TTTTG TTTTG TTTCG TTTTT TTTTG
1 TTTTG TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
719272 AAAAAAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:719264 original size:15 final size:14
Alignment explanation
Indices: 719220--719271 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
719210 TTCTTTTTTC
719220 TTGTTTT-TTTGTT
1 TTGTTTTGTTTGTT
*
719233 TTGCTTTTTTTTTGTT
1 TTG--TTTTGTTTGTT
719249 TTGTTTTGTTTCGTT
1 TTGTTTTGTTT-GTT
*
719264 TTTTTTTG
1 TTGTTTTG
719272 AAAAAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.09
14 7 0.21
15 14 0.42
16 9 0.27
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.81
Consensus pattern (14 bp):
TTGTTTTGTTTGTT
Found at i:726814 original size:16 final size:15
Alignment explanation
Indices: 726795--726838 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
726785 ATTTTGGTTT
726795 TTTTATCTTTTTTTTC
1 TTTT-TCTTTTTTTTC
726811 -TTTTCTTCTTTTTTC
1 TTTTTCTT-TTTTTTC
*
726826 TTCTTCTTTTTTT
1 TTTTTCTTTTTTT
726839 CTCACTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.16
15 15 0.60
16 6 0.24
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:726822 original size:13 final size:13
Alignment explanation
Indices: 726800--726837 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
726790 GGTTTTTTTA
726800 TCTT-TTTTTTCTTT
1 TCTTCTTTTTTC--T
726814 TCTTCTTTTTTCT
1 TCTTCTTTTTTCT
726827 TCTTCTTTTTT
1 TCTTCTTTTTT
726838 TCTCACTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TCTTCTTTTTTCT
Found at i:726822 original size:24 final size:24
Alignment explanation
Indices: 726795--726840 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
726785 ATTTTGGTTT
*
726795 TTTTATCTT-TTTTTTCTTTTCTTC
1 TTTTATCTTCTTCTTT-TTTTCTTC
*
726819 TTTTTTCTTCTTCTTTTTTTCT
1 TTTTATCTTCTTCTTTTTTTCT
726841 CACTAATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTATCTTCTTCTTTTTTTCTTC
Found at i:727904 original size:29 final size:29
Alignment explanation
Indices: 727817--727906 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
727807 GTAAGGGCAT
** * *
727817 GATCAGTGTCCACAATATGCCCGTATGCA
1 GATCAGTGTCTGCGATATGCCCGTGTGCA
* *
727846 AATCAGTGTCTGCGATATGCCCTTGTGCA
1 GATCAGTGTCTGCGATATGCCCGTGTGCA
727875 GATCAGTGTCTGCGATATGCCCGTGTGCA
1 GATCAGTGTCTGCGATATGCCCGTGTGCA
727904 GAT
1 GAT
727907 TCAAGACCTG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (29 bp):
GATCAGTGTCTGCGATATGCCCGTGTGCA
Found at i:728009 original size:48 final size:48
Alignment explanation
Indices: 727947--728126 Score: 270
Period size: 48 Copynumber: 3.8 Consensus size: 48
727937 AGAAGAGTGC
** * * **
727947 CAATGTGCCAATTCAAGGCCAGTGACATCGAGCTAAGGGAAAAGTAAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
727995 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
728043 CAATGTGCTGATTCAAGGCCAGCGACCTTAAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
728091 CAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
728127 TAAAGGTACT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:728331 original size:56 final size:56
Alignment explanation
Indices: 728241--729466 Score: 488
Period size: 56 Copynumber: 20.3 Consensus size: 56
728231 AAAAAAGATA
* *
728241 CCACTAACTTGTGTGGGCTTT-CAAGAGATACCACTGACTTGTGGGCTTTGAAAGGATG
1 CCACTAAC-T-TGTGGGCTTTGGAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATG
* ** * *
728299 CCACTGACTCATGGGCTTTGGAAGGATGCCACTGACTCGTGGGCTTTGAAAAGG-TA
1 CCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATG
* * * * *
728355 CAACTAACATGTGGGC-TTGGAAAAGATGCCATTGACTTATGGGCTTTGGAAA-GATG
1 CCACTAACTTGTGGGCTTTGG-AAGGATGCCACTGACTTGTGGGCTTT-GAAAGGATG
* ** * * *
728411 CTACCGACTTGTGGAC-TTGGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTG
1 CCACTAACTTGTGGGCTTTGG-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
728467 CCACTAACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATGGATTG
1 CCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGA-TG
* * * ** *
728525 CCA-TCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
1 CCACT-AAC-T-TGTGGGCTTTGGAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA--GGATG
* * * * * * * * *
728589 CCCCCAACTTGTGTGGGCTTTGAAATGGGTTGCCCCCGACTTGTGTGGGCTTTTAAATGGTTT
1 CCACTAAC-T-TGTGGGCTTTGGAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA-GGATG
** ** * * * * *
728652 CCACCGACTTATGTGGGCTTTTAAATGGTTGCCACCGACTTGTGTGGGCTTTTAAATGGTTT
1 CCACTAAC-T-TGTGGGCTTTGGAA-GGATGCCACTGAC-T-TGTGGGCTTTGAAA-GGATG
** * **
728714 CCACCGACTTGTGTGGGCTTTGAAATGGGATGCCACCAACTTGTGTGGGCTTTGAAAGGAGTTG
1 CCACTAAC-T-TGTGGGCTTTGGAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAAGGA--TG
*** * * * ** *
728778 CCACCGGCTTGTATGGGTTTTGAAATAGGTTGCCACCAACTTGTGTGAGCTTTGAAATAGGTTG
1 CCACTAACTTG--TGGGCTTTG-GA-AGGATGCCACTGACTTGTG-G-GCTTTG-AA-AGGATG
* ** * ** * *
728842 CCACCAACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGGGTTG
1 CCACTAAC-T-TGTGGGCTTTGGAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA--GGATG
* * * * * *
728906 CCACCAACTTGTGTGGACTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTG
1 CCACTAACTTGTG-GG-CTTTGGAA-G-GATGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATG
* * * * * * *
728970 CCACCAACTTGTGGGCTTTGAAAAGATGGCACTAACTTGTGGACTTTGAAATGAGTTG
1 CCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACTTGTGGGCTTTGAAA-G-GATG
* * ** *
729028 CCACCT-ACTTGTGTGTGCTTTGAAATGGGTTGCCACCAACTTGTGGGCTTTGAAAAGATG
1 CCA-CTAACTTGTG-G-GCTTTGGAA--GGATGCCACTGACTTGTGGGCTTTGAAAGGATG
** * * * *
729088 CCACCGACTTGTGGACTTTGAAAGGATGCCACTCACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
729144 CCACTAACTTATGGGCTTTGAAAGGATGCCACTCACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * ** *
729200 CCACTAACTTGTGGGC-TTGAAAAAGATGCCACTGACTTGTAAGCTTTGAAATGGGTTG
1 CCACTAACTTGTGGGCTTTG-GAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATG
* * * *
729258 CCACTGACTTGTGTGGGCTTTGAAATGGATTGCCACCGACTTTGTGTGGGCTTTGAAATGGGTTG
1 CCACTAAC-T-TGTGGGCTTTGGAA-GGA-TGCCACTGAC--T-TGTGGGCTTTGAAA--GGATG
* ** * * *
729323 CCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTG
1 CCACTAAC-T-TGTGGGCTTTGGAA-G-GATGCCACTGAC-T-TGTGGGCTTTGAAA--GGATG
* * * * *
729387 CCACTAACTTGTATGGGCTTTCGAATAAGTTGCCACCGACTTGGTGGGCTTTGAAATGATG
1 CCACTAACTTG--TGGGCTTT-GGA-AGGATGCCACTGACTT-GTGGGCTTTGAAAGGATG
*
729448 CCACTGACTTGTGGGCTTT
1 CCACTAACTTGTGGGCTTT
729467 AAAATGGGTG
Statistics
Matches: 980, Mismatches: 124, Indels: 127
0.80 0.10 0.10
Matches are distributed among these distances:
55 11 0.01
56 272 0.28
57 16 0.02
58 62 0.06
59 15 0.02
60 53 0.05
61 18 0.02
62 125 0.13
63 82 0.08
64 250 0.26
65 64 0.07
66 12 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (56 bp):
CCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
Found at i:728397 original size:84 final size:83
Alignment explanation
Indices: 728252--728517 Score: 291
Period size: 84 Copynumber: 3.2 Consensus size: 83
728242 CACTAACTTG
* * * * *
728252 TGTGGGCTTTCAAGAGATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCATGGGCTT
1 TGTGGGCTTTGAAAAGGTACCACTGACTTGTGGGC-TTGAAAAGATGCCACTGACTTATGGGCTT
* *
728317 TGGAAGGATGCCACTGACT
65 TGGAAAGATGCCACCGACT
* * * * *
728336 CGTGGGCTTTGAAAAGGTACAACTAACATGTGGGCTTGGAAAAGATGCCATTGACTTATGGGCTT
1 TGTGGGCTTTGAAAAGGTACCACTGACTTGTGGGCTT-GAAAAGATGCCACTGACTTATGGGCTT
*
728401 TGGAAAGATGCTACCGACT
65 TGGAAAGATGCCACCGACT
* * * * * * * *
728420 TGTGGAC-TTGGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGACT
1 TGTGGGCTTTGAAAAGG-TACCACTGACTTGTGGGCTTGAAAA-GATGCCACTGACTTATGGGCT
*
728484 TTGAAAAGATGCCACCGACT
64 TTGGAAAGATGCCACCGACT
728504 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
728518 TGGATTGCCA
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
83 14 0.09
84 129 0.87
85 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (83 bp):
TGTGGGCTTTGAAAAGGTACCACTGACTTGTGGGCTTGAAAAGATGCCACTGACTTATGGGCTTT
GGAAAGATGCCACCGACT
Found at i:728545 original size:32 final size:32
Alignment explanation
Indices: 728476--729473 Score: 884
Period size: 32 Copynumber: 32.5 Consensus size: 32
728466 GCCACTAACT
* *
728476 TGTGGACTTTGAAA-AGA-TGCCACCGAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
728504 TGTGGGCTTTGAAATGGATTGCCATCGACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* *
728536 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* * *
728568 TGTGGGCTTTGAAATGGGTTGCCCCCAACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* *
728600 TGTGGGCTTTGAAATGGGTTGCCCCCGACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* * *
728632 TGTGGGCTTTTAAATGG-TTTCCACCGACTTA
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
728663 TGTGGGCTTTTAAATGG-TTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* *
728694 TGTGGGCTTTTAAATGG-TTTCCACCGACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
728725 TGTGGGCTTTGAAATGGGA-TGCCACCAACTTG
1 TGTGGGCTTTGAAAT-GGATTGCCACCGACTTG
*
728757 TGTGGGCTTTGAAA-GGAGTTGCCACCGGCTTG
1 TGTGGGCTTTGAAATGGA-TTGCCACCGACTTG
* * *
728789 TATGGGTTTTGAAATAGG-TTGCCACCAACTTG
1 TGTGGGCTTTGAAAT-GGATTGCCACCGACTTG
* *
728821 TGTGAGCTTTGAAATAGG-TTGCCACCAACTTG
1 TGTGGGCTTTGAAAT-GGATTGCCACCGACTTG
* * *
728853 TGTGGGCTTTCAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* * *
728885 TGTGGGCTTTCAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
728917 TGTGGACTTTGAAAT-GAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGA-TTGCCACCGACTTG
* *
728949 TGTGGGCTTTCAAAT-GAGTTGCCACCAAC-T-
1 TGTGGGCTTTGAAATGGA-TTGCCACCGACTTG
* * **
728979 TGTGGGCTTTGAAA-AGA-TGGCACTAAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* *
729007 TGTGGACTTTGAAAT-GAGTTGCCACCTACTTG
1 TGTGGGCTTTGAAATGGA-TTGCCACCGACTTG
* * *
729039 TGTGTGCTTTGAAATGGGTTGCCACCAAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
729069 TGTGGGCTTTGAAA-AGA-TGCCACCGAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
729097 TGTGGACTTTGAAA-GGA-TGCCACTC-AC-T-
1 TGTGGGCTTTGAAATGGATTGCCAC-CGACTTG
* **
729125 TGTGGGCTTTGAAA-GG-GTGCCACTAAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
729153 TATGGGCTTTGAAA-GGA-TGCCACTC-AC-T-
1 TGTGGGCTTTGAAATGGATTGCCAC-CGACTTG
* **
729181 TGTGGGCTTTGAAA-GG-GTGCCACTAAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
** *
729209 TGTGGGC-TTGAAAAAGA-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
** * *
729237 TGTAAGCTTTGAAATGGGTTGCCACTGACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
729269 TGTGGGCTTTGAAATGGATTGCCACCGACTTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGAC-TTG
* *
729302 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
729334 TGTGGGCTTTCAAAT-GAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGA-TTGCCACCGACTTG
* **
729366 TGTGGGCTTTGAAATGGGTTGCCACTAACTTG
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
* *
729398 TATGGGCTTTCG-AAT-AAGTTGCCACCGACTTG
1 TGTGGGCTTT-GAAATGGA-TTGCCACCGACTTG
*
729430 -GTGGGCTTTGAAAT-GA-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGATTGCCACCGACTTG
*
729457 TGTGGGCTTTAAAATGG
1 TGTGGGCTTTGAAATGG
729474 GTGTTGCCAT
Statistics
Matches: 842, Mismatches: 88, Indels: 79
0.83 0.09 0.08
Matches are distributed among these distances:
27 6 0.01
28 180 0.21
29 21 0.02
30 58 0.07
31 105 0.12
32 437 0.52
33 33 0.04
34 2 0.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGGATTGCCACCGACTTG
Found at i:728629 original size:96 final size:96
Alignment explanation
Indices: 728448--729475 Score: 999
Period size: 96 Copynumber: 11.2 Consensus size: 96
728438 GCCACTGACT
* * * * * *
728448 TGTGGGCTTT-AAAAGGG-TGCCACTAAC-T-TGTGGACTTTGAAA--AGATGCCACCGAC-T-T
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* *
728505 GTGGGCTTTGAAATGGATTGCCATCGACTTG
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
*
728536 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCCCCAACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
*
728601 GTGGGCTTTGAAATGGGTTGCCCCCGACTTG
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * * * * *
728632 TGTGGGCTTTTAAAT-GGTTTCCACCGACTTATGTGGGCTTTTAAAT-GGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* *
728695 GTGGGCTTTTAAAT-GGTTTCCACCGACTTG
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
* **
728725 TGTGGGCTTTGAAATGGGATGCCACCAACTTGTGTGGGCTTTGAAA-GGAGTTGCCACCGGCTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGG-GTTGCCACCAACTTG
* * * *
728789 TATGGGTTTTGAAATAGGTTGCCACCAACTTG
65 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * *
728821 TGTGAGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* *
728886 GTGGGCTTTCAAATGGGTTGCCACCAACTTG
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * * * *
728917 TGTGGACTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCAAC-T-T
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* * * **
728980 GTGGGCTTTGAAA--AGATGGCACTAAC-T-
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * * *
729007 TGTGGACTTTGAAATGAGTTGCCACCTACTTGTGTGTGCTTTGAAATGGGTTGCCACCAAC-T-T
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* *
729070 GTGGGCTTTGAAA--AGATGCCACCGAC-T-
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * *
729097 TGTGGACTTTGAAA--GGATGCCACTC-AC-T-TGTGGGCTTTGAAA-GGG-TGCCACTAAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCAC-CAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
729153 TATGGGCTTTGAAA--GGATGCCACTC-AC-T-
65 TGTGGGCTTTGAAATGGGTTGCCAC-CGACTTG
* ** * **
729181 TGTGGGCTTTGAAA-GGG-TGCCACTAAC-T-TGTGGGC-TTGAAA-AAGATGCCACTGAC-T-T
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
** *
729238 GTAAGCTTTGAAATGGGTTGCCACTGACTTG
66 GTGGGCTTTGAAATGGGTTGCCACCGACTTG
* *
729269 TGTGGGCTTTGAAATGGATTGCCACCGACTTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAAC-TTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
729334 TGTGGGCTTTCAAATGAGTTGCCACCGACTTG
65 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * ** *
729366 TGTGGGCTTTGAAATGGGTTGCCACTAACTTGTATGGGCTTTCG-AATAAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT-GAAATGGGTTGCCACCAACTTG
* *
729430 -GTGGGCTTTGAAAT--GATGCCACTGAC-T-
65 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
*
729457 TGTGGGCTTTAAAATGGGT
1 TGTGGGCTTTGAAATGGGT
729476 GTTGCCATGG
Statistics
Matches: 807, Mismatches: 100, Indels: 63
0.83 0.10 0.06
Matches are distributed among these distances:
83 7 0.01
84 84 0.10
85 6 0.01
86 23 0.03
87 2 0.00
88 33 0.04
89 9 0.01
90 114 0.14
91 20 0.02
92 24 0.03
93 45 0.06
94 82 0.10
95 77 0.10
96 225 0.28
97 56 0.07
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (96 bp):
TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
GTGGGCTTTGAAATGGGTTGCCACCGACTTG
Found at i:729471 original size:28 final size:28
Alignment explanation
Indices: 728252--729472 Score: 661
Period size: 32 Copynumber: 40.6 Consensus size: 28
728242 CACTAACTTG
* * *
728252 TGTGGGCTTTCAAGA-GATACCACTGACT
1 TGTGGGCTTTGAA-ATGATGCCACCGACT
* *
728280 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
** * * *
728308 CATGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* * * * * ** *
728336 CGTGGGCTTTGAAAAGGTACAACTAACA
1 TGTGGGCTTTGAAATGATGCCACCGACT
* * **
728364 TGTGGGCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* *
728392 TATGGGCTTTGGAAA-GATGCTACCGACT
1 TGTGGGCTTT-GAAATGATGCCACCGACT
* * * *
728420 TGTGGACTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* * * **
728448 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* *
728476 TGTGGACTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
*
728504 TGTGGGCTTTGAAATGGATTGCCATCGACTT
1 TGTGGGCTTTGAAAT-GA-TGCCACCGAC-T
* *
728535 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAT--GATGCCACCGAC-T
* * *
728567 GTGTGGGCTTTGAAATGGGTTGCCCCCAACTT
1 -TGTGGGCTTTGAAAT--GATGCCACCGAC-T
* *
728599 GTGTGGGCTTTGAAATGGGTTGCCCCCGACTT
1 -TGTGGGCTTTGAAAT--GATGCCACCGAC-T
* * *
728631 GTGTGGGCTTTTAAATGGTTTCCACCGACTT
1 -TGTGGGCTTTGAAAT-GATGCCACCGAC-T
* *
728662 ATGTGGGCTTTTAAATGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAT-GATGCCACCGAC-T
* * *
728693 GTGTGGGCTTTTAAATGGTTTCCACCGACTT
1 -TGTGGGCTTTGAAAT-GATGCCACCGAC-T
*
728724 GTGTGGGCTTTGAAATGGGATGCCACCAACTT
1 -TGTGGGCTTTGAAAT--GATGCCACCGAC-T
* *
728756 GTGTGGGCTTTGAAAGGAGTTGCCACCGGCT
1 -TGTGGGCTTTGAAATGA--TGCCACCGACT
* * *
728787 TGTATGGGTTTTGAAATAGGTTGCCACCAACT
1 TG--TGGGCTTTGAAAT--GATGCCACCGACT
* *
728819 TGTGTGAGCTTTGAAATAGGTTGCCACCAACTT
1 TGTG-G-GCTTTGAAAT--GATGCCACCGAC-T
* * *
728852 GTGTGGGCTTTCAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAT--GATGCCACCGAC-T
* * *
728884 GTGTGGGCTTTCAAATGGGTTGCCACCAACT
1 -TGTGGGCTTTGAAAT--GATGCCACCGACT
728915 TGTGTGGACTTTGAAATGAGTTGCCACCGACTT
1 TGTG-GG-CTTTGAAATGA--TGCCACCGAC-T
* *
728948 GTGTGGGCTTTCAAATGAGTTGCCACCAACT
1 -TGTGGGCTTTGAAATGA--TGCCACCGACT
* * **
728979 TGTGGGCTTTGAAAAGATGGCACTAACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* *
729007 TGTGGACTTTGAAATGAGTTGCCACCTACT
1 TGTGGGCTTTGAAATGA--TGCCACCGACT
* *
729037 TGTGTGTGCTTTGAAATGGGTTGCCACCAACT
1 TGTG-G-GCTTTGAAAT--GATGCCACCGACT
*
729069 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* *
729097 TGTGGACTTTGAAAGGATGCCACTC-ACT
1 TGTGGGCTTTGAAATGATGCCAC-CGACT
* * **
729125 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* *
729153 TATGGGCTTTGAAAGGATGCCACTC-ACT
1 TGTGGGCTTTGAAATGATGCCAC-CGACT
* * **
729181 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACCGACT
* *
729209 TGTGGGC-TTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACCGACT
** * *
729237 TGTAAGCTTTGAAATGGGTTGCCACTGACTT
1 TGTGGGCTTTGAAAT--GATGCCACCGAC-T
729268 GTGTGGGCTTTGAAATGGATTGCCACCGACTTT
1 -TGTGGGCTTTGAAAT-GA-TGCCACCGAC--T
* *
729301 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAT--GATGCCACCGAC-T
*
729333 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAATGA--TGCCACCGAC-T
* **
729365 GTGTGGGCTTTGAAATGGGTTGCCACTAACT
1 -TGTGGGCTTTGAAAT--GATGCCACCGACT
* *
729396 TGTATGGGCTTTCGAATAAGTTGCCACCGACT
1 TG--TGGGCTTT-GAA-ATGATGCCACCGACT
*
729428 TGGTGGGCTTTGAAATGATGCCACTGACT
1 T-GTGGGCTTTGAAATGATGCCACCGACT
*
729457 TGTGGGCTTTAAAATG
1 TGTGGGCTTTGAAATG
729473 GGTGTTGCCA
Statistics
Matches: 1010, Mismatches: 130, Indels: 106
0.81 0.10 0.09
Matches are distributed among these distances:
27 8 0.01
28 357 0.35
29 23 0.02
30 73 0.07
31 107 0.11
32 390 0.39
33 38 0.04
34 14 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCACCGACT
Found at i:729516 original size:27 final size:27
Alignment explanation
Indices: 729478--729879 Score: 500
Period size: 27 Copynumber: 14.7 Consensus size: 27
729468 AAATGGGTGT
*
729478 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
729505 TGCCACGGAGTTGTGGACTTAAATGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
729532 TGCCACAGAGCTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*** * *
729559 TGCCATACAATGGTGGACTTTAAAA-GA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
729586 GTGCCATGGAGTTGTGGACTTAAAAGGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGA
*
729614 TGCCACGGAGTTGTGGACTTTAAAAGAA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * *
729642 CGCCACAGAGTTGTGGACTTGAAACGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
* *
729670 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
729697 TACCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
729724 TACCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
729751 TACCACAGAGTTGTGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
729778 TGCGACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
729806 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
729833 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
729860 TGCCACGGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
729880 TGAAAAGAAA
Statistics
Matches: 328, Mismatches: 41, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
27 235 0.72
28 93 0.28
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:729804 original size:109 final size:109
Alignment explanation
Indices: 729444--729879 Score: 541
Period size: 109 Copynumber: 4.0 Consensus size: 109
729434 GCTTTGAAAT
* * * *
729444 GATGCCACTGACTTGTGGGCTTTAAAATGGGTGTTGCCATGGAGTTGTGGACTTAAAAGGATGCC
1 GATGCCACGGAGTTGTGGACTTTAAAA--GG-G-TGCCACGGAGTTGTGGACTTAAAAGGATGCC
* * *
729509 ACGGAGTTGTGGACTTAAATGGATGCCACAGAGCTATGGACTTAAAAG
62 ACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAG
* *** * * * *
729557 GGTGCCATACAATGGTGGACTTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGATGCCACGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
* * *
729622 AGTTGTGGACTTTAAAAGAACGCCACAGAGTTGTGGACTTGAAACG
66 AGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTT-AAAAG
* * * * *
729668 GATGCCACGGAGTTATGGAC-TTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGGTACCACAG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
* * *
729732 AGTTGTGGACTTAAAAGGGTACCACAGAGTTGTGGACTTAAAAA
66 AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAG
* * *
729776 GATGCGACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGG
1 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
*
729841 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
66 AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
729880 TGAAAAGAAA
Statistics
Matches: 276, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
108 21 0.08
109 144 0.52
110 73 0.26
111 18 0.07
113 20 0.07
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (109 bp):
GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAG
Found at i:729880 original size:82 final size:82
Alignment explanation
Indices: 729485--729886 Score: 522
Period size: 82 Copynumber: 4.9 Consensus size: 82
729475 TGTTGCCATG
* * * *
729485 GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAATGGATGCCACAGAGCTATGGAC
1 GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC
* *
729550 -TTAAAAGGGTGCCATA
66 TTTAAAAGGATGCCACA
* * * *
729566 CAATGGTGGACTTTAAAA-GAGTGCCATGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
1 GAGTTGTGGAC-TTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
* *
729630 ACTTTAAAAGAACGCCACA
64 ACTTTAAAAGGATGCCACA
* * * *
729649 GAGTTGTGGACTTGAAACGGATGCCACGGAGTTATGGACTTAAAAGGGTACCACGGAGTTGTGGA
1 GAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
* *
729714 C-TTAAAAGGGTACCACA
65 CTTTAAAAGGATGCCACA
* * * * *
729731 GAGTTGTGGACTTAAAAGGGTACCACAGAGTTGTGGACTTAAAAAGATGCGACGGAGTTGTGGAC
1 GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC
*
729796 TTTAAAAGGATGCCACG
66 TTTAAAAGGATGCCACA
*
729813 GAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC
1 GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC
729878 TTTGAAAAG
66 TTT-AAAAG
729887 AAATGCCATT
Statistics
Matches: 272, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
81 53 0.19
82 148 0.54
83 69 0.25
84 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (82 bp):
GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC
TTTAAAAGGATGCCACA
Found at i:731206 original size:35 final size:36
Alignment explanation
Indices: 731149--731217 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
731139 TTTTTTTGGA
* *
731149 TTTTTGTTGTTCCTTTTTTATTTTG-CTTTTGCATT
1 TTTTTGTTCTTCCTTTTATATTTTGACTTTTGCATT
731184 TTTTTGTTCTT-CTTTTCATATTTTGTACTTTTGC
1 TTTTTGTTCTTCCTTTT-ATATTTTG-ACTTTTGC
731218 CTTTGACCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 17 0.59
37 7 0.24
ACGTcount: A:0.07, C:0.13, G:0.10, T:0.70
Consensus pattern (36 bp):
TTTTTGTTCTTCCTTTTATATTTTGACTTTTGCATT
Found at i:741718 original size:25 final size:25
Alignment explanation
Indices: 741680--741739 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
741670 GATTACATAT
741680 GATTACATTGGAAAATACCTAACAC
1 GATTACATTGGAAAATACCTAACAC
* *
741705 GATTACATTTGAAAATACCTGACAC
1 GATTACATTGGAAAATACCTAACAC
*
741730 GGTTACATTG
1 GATTACATTG
741740 CTTGATTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (25 bp):
GATTACATTGGAAAATACCTAACAC
Found at i:746025 original size:79 final size:79
Alignment explanation
Indices: 745908--746109 Score: 253
Period size: 79 Copynumber: 2.6 Consensus size: 79
745898 TGAAAATAAT
** * * * *
745908 GGGGTTGGAGTATCTTTTCGAAAATAATGGGATTGGAGTATCCCTGATTATGAAAACTTGGTGTT
1 GGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTAGTGTT
*
745973 TT-GAAAATAAGACC
66 TTAG-AAATAAAACC
* * *
745987 GGGGTTGGAGTGTCCCTTCAAAAATAACGGGATTGGAGTATCTCTGATTGTGAAAAATTAGTGTT
1 GGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTAGTGTT
746052 TTAGAAATAAAACC
66 TTAGAAATAAAACC
* * * * *
746066 GAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGCATCCC
1 GGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCC
746110 CTCAAAAATA
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
79 104 0.99
80 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCTTCAAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTAGTGTT
TTAGAAATAAAACC
Found at i:746097 original size:107 final size:107
Alignment explanation
Indices: 745986--746215 Score: 302
Period size: 107 Copynumber: 2.1 Consensus size: 107
745976 AAAATAAGAC
* *
745986 CGGGGTTGGAGTGTCCCTTCAAAAATAAC-GGGATTGGAGTAT-CTCTGATTGTGAAAAATTAGT
1 CGGGGTTGGAGTATCCCCTCAAAAATAACAGGG-TTGGAGTATCCTC-GATTGTGAAAAATTAGT
* *
746049 GTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAA
64 ATTGTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAA
* *
746093 CGGGGTTGGAGCATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTAT
1 CGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTAT
* * * * ***
746158 TGTGGAGATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAA
66 TGTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAA
*
746200 CAGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
746216 TCAATTATGA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
107 100 0.94
108 6 0.06
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTAT
TGTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAA
Found at i:746108 original size:28 final size:28
Alignment explanation
Indices: 746068--746136 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
746058 ATAAAACCGA
* *
746068 GGTTAGAGTATCCCCTCAAAAATAACGG
1 GGTTGGAGTATCCCCTCAAAAATAACAG
*
746096 GGTTGGAGCATCCCCTCAAAAATAACAG
1 GGTTGGAGTATCCCCTCAAAAATAACAG
746124 GGTTGGAGTATCC
1 GGTTGGAGTATCC
746137 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCAAAAATAACAG
Found at i:746120 original size:186 final size:186
Alignment explanation
Indices: 745803--746294 Score: 543
Period size: 186 Copynumber: 2.7 Consensus size: 186
745793 GATAAAAATA
* * * * *
745803 GGGTCGGAGTA-CTCCTTCAGAAATAACGGGGTTGGAGTATCTCCAATGGTGGAAAATT-GTTGT
1 GGGTTGGAGTATCCCCTTCAGAAATAAC-GGGTTGGAGTATCTCTAATTGTGAAAAATTAG-TGT
* ** * * *** *
745866 TTTAGTAATAAAATTGGGGTTAAAG-ATCCCCTTGAAAATAATGGGGTTGGAGTATCTTTTCGAA
64 TTTAGAAATAAAACCGAGGTTAGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCTCAAA
* * * * *
745930 AATAA-TGGGATTGGAGTATCC-CTGATTATGAAAACTTGGTGTTTTGAAAATAAGACCG
129 AATAACAGGG-TTGGAGTATCCTC-GATTATGAAAAATTGGTATTGTGAAAATAAAACCG
* * *
745988 GGGTTGGAGTGT-CCCTTCAAAAATAACGGGATTGGAGTATCTCTGATTGTGAAAAATTAGTGTT
1 GGGTTGGAGTATCCCCTTCAGAAATAACGGG-TTGGAGTATCTCTAATTGTGAAAAATTAGTGTT
** * *
746052 TTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGCATCCCCTCAAAA
65 TTAGAAATAAAACCGAGGTTAGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCTCAAAA
* * *
746117 ATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTGTGGAGATAAAACCG
130 ATAACAGGGTTGGAGTATCCTCGATTATGAAAAATTGGTATTGTGAAAATAAAACCG
* *
746174 GGGTTGGAGTATCCCCTT-GGAAATAACAGGGTTGGAGTATC-CTCAATTATGAAAAATTAGTGT
1 GGGTTGGAGTATCCCCTTCAGAAATAAC-GGGTTGGAGTATCTCT-AATTGTGAAAAATTAGTGT
* * *
746237 TTTAAAAATAAAACC-ACGGTTGGAGTATCCCCTTGAAAATAATAGGGTTGGAGTATCC
64 TTTAGAAATAAAACCGA-GGTTAGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCC
746295 TCGATTGTGA
Statistics
Matches: 256, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
184 3 0.01
185 71 0.28
186 170 0.66
187 12 0.05
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (186 bp):
GGGTTGGAGTATCCCCTTCAGAAATAACGGGTTGGAGTATCTCTAATTGTGAAAAATTAGTGTTT
TAGAAATAAAACCGAGGTTAGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCTCAAAAA
TAACAGGGTTGGAGTATCCTCGATTATGAAAAATTGGTATTGTGAAAATAAAACCG
Found at i:746227 original size:79 final size:79
Alignment explanation
Indices: 746093--746436 Score: 438
Period size: 79 Copynumber: 4.4 Consensus size: 79
746083 TCAAAAATAA
* * * *
746093 CGGGGTTGGAGCATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTAT
1 CGGGGTTGGAGTATCCCCTTAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
* * *
746158 TGTGGAGATAAAAC
66 TTTGAAAATAAAAC
** * *
746172 CGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTATCCTCAATTATGAAAAATTAGTGT
1 CGGGGTTGGAGTATCCCCTTAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
*
746237 TTTAAAAATAAAAC
66 TTTGAAAATAAAAC
** * *
746251 CACGGTTGGAGTATCCCCTTGAAAATAATAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
1 CGGGGTTGGAGTATCCCCTTAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
*
746316 TTTTAAAATAAAAC
66 TTTGAAAATAAAAC
* * * * *
746330 CGTGGTTGGAGTATCTCCTTAGAAATAACGGGGTTGGAGTATCAC-CGATTGTGAAAAATTGGTG
1 CGGGGTTGGAGTATCCCCTTAAAAATAACAGGGTTGGAGTATC-CTCGATTGTGAAAAATTAGTG
* **
746394 CTTTGGGAATAAAAC
65 TTTTGAAAATAAAAC
*
746409 CGGGGTTAGAGTATCCCCTTAAAAATAA
1 CGGGGTTGGAGTATCCCCTTAAAAATAA
746437 AAACATGAAT
Statistics
Matches: 229, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 228 1.00
80 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTTAAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
TTTGAAAATAAAAC
Found at i:748841 original size:20 final size:20
Alignment explanation
Indices: 748816--748883 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
748806 TAAAACCCAG
748816 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
748836 AATGTATCG-----AT--AC
1 AATGTATCGATACAATGAAC
*
748849 AATGTATCGATACAATGAAA
1 AATGTATCGATACAATGAAC
748869 AATGTATCGATACAA
1 AATGTATCGATACAA
748884 ATTATGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
18 2 0.05
20 25 0.62
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:748850 original size:13 final size:13
Alignment explanation
Indices: 748834--748865 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
748824 GATACAATGA
748834 ACAATGTATCGAT
1 ACAATGTATCGAT
748847 ACAATGTATCGAT
1 ACAATGTATCGAT
748860 ACAATG
1 ACAATG
748866 AAAAATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:748858 original size:33 final size:33
Alignment explanation
Indices: 748816--748883 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
748806 TAAAACCCAG
*
748816 AATGTATCGATACAATGAACAATGTATCGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATAC
748849 AATGTATCGATACAATGAAAAATGTATCGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATAC
748882 AA
1 AA
748884 ATTATGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (33 bp):
AATGTATCGATACAATGAAAAATGTATCGATAC
Found at i:758571 original size:77 final size:73
Alignment explanation
Indices: 758488--758733 Score: 219
Period size: 77 Copynumber: 3.2 Consensus size: 73
758478 AGAAACAGGA
*
758488 TTGGAGTGTCCCTTCTGAACATGAGGTTGGAGTACTCCCGATGTTGAAAATTTTAATATTTTGAA
1 TTGGAGTATCCCTTC-GAACATG-GGTTGGAGTA-TCCCGATG-TGAAAATTTTAATATTTTGAA
758553 ATAAAAATAGGG
62 ATAAAAATAGGG
* * * *
758565 TTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTATCCCCGA-GATGAAAATTTTAATATTTCG
1 TTGGAGTATCCCTTCG--AA-CAT-GGGTTGGAGTAT-CCCGATG-TGAAAATTTTAATATTTTG
*
758629 AAGATAAAAATGGGG
60 AA-ATAAAAATAGGG
* * *
758644 TTGGAATATCCCTTCGGAGTACA-GGGTTGGAGTATCTCCAATAGTGAAAA-ATTAATATTTTGA
1 TTGGAGTATCCCTTC-GA--ACATGGGTTGGAGTATC-CCGAT-GTGAAAATTTTAATATTTTG-
**
758707 AAATAAAACCAGGG
60 AAATAAAAATAGGG
758721 TTGGAGTATCCCT
1 TTGGAGTATCCCT
758734 GATAGTGAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
76 2 0.01
77 58 0.42
78 33 0.24
79 42 0.30
80 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (73 bp):
TTGGAGTATCCCTTCGAACATGGGTTGGAGTATCCCGATGTGAAAATTTTAATATTTTGAAATAA
AAATAGGG
Found at i:758724 original size:51 final size:52
Alignment explanation
Indices: 758665--758767 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 52
758655 CTTCGGAGTA
758665 CAGGGTTGGAGTATCTCC-AATAGTG-AAAAATTAATATTTTGAAAATAAAAC
1 CAGGGTTGGAGTATC-CCTAATAGTGAAAAAATTAATATTTTGAAAATAAAAC
*
758716 CAGGGTTGGAGTATCCCTGATAGTGAAAAAAATTAATATTTTGAAAATAAAA
1 CAGGGTTGGAGTATCCCTAATAGTG-AAAAAATTAATATTTTGAAAATAAAA
758768 TCGAGGTTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
50 2 0.04
51 21 0.44
53 25 0.52
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (52 bp):
CAGGGTTGGAGTATCCCTAATAGTGAAAAAATTAATATTTTGAAAATAAAAC
Found at i:758896 original size:79 final size:78
Alignment explanation
Indices: 758719--758905 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 78
758709 ATAAAACCAG
*
758719 GGTTGGAGTATCCCTGATAGTGAAAAAAATTAATATTTTGAAAATAAAATCGAGGTTAGAGTATT
1 GGTTGGAGTATCCC-GATAGTG--AAAAATCAATATTTTGAAAATAAAATCGAGGTTAGAGTATT
758784 CCCTCAGAAATAACAA
63 CCCTCAGAAATAACAA
* * * *
758800 GGTTGGAATATCTCCGATGGTGAAAAATCAATATTTTGAAAATAAAATCGGGGTTGGAGTA-TCC
1 GGTTGGAGTATC-CCGATAGTGAAAAATCAATATTTTGAAAATAAAATCGAGGTTAGAGTATTCC
* * *
758864 TCTCGGAAGTAACGA
65 -CTCAGAAATAACAA
758879 GGTTGGAGTATGCCCGATAGT-AAAAAT
1 GGTTGGAGTAT-CCCGATAGTGAAAAAT
758906 TTTTGATATT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 9 0.10
79 64 0.69
80 1 0.01
81 17 0.18
82 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (78 bp):
GGTTGGAGTATCCCGATAGTGAAAAATCAATATTTTGAAAATAAAATCGAGGTTAGAGTATTCCC
TCAGAAATAACAA
Found at i:758938 original size:81 final size:78
Alignment explanation
Indices: 758791--759011 Score: 196
Period size: 81 Copynumber: 2.8 Consensus size: 78
758781 ATTCCCTCAG
* * * ** * **
758791 AAATAACAAGGTTGGAATATCTCCGATGGT-GAAAAATCAATATTTTGAAA-ATAAAATCGGGGT
1 AAATAACGAGGTTGGAATATCTCCGATAGTAAAAAAATTGATATTTTGAAACA-AAAA--AGAAT
* *
758854 TGGAGTATCCTCTCGG
63 TGGAGTATCATCTCGA
* * ** *
758870 AAGTAACGAGGTTGGAGTATGC-CCGATAGTAAAAATTTTTGATATTTTCGAAATAAAAATAGAA
1 AAATAACGAGGTTGGAATAT-CTCCGATAGTAAAAA-AATTGATATTTT-GAAACAAAAA-AGAA
758934 TTGGAGTATCATCTCGA
62 TTGGAGTATCATCTCGA
* * *
758951 AAATAATGGGGTTGGAATATCTCCGATGGTAAAAAAATTGATATTTTGAAACAAAAAAGAA
1 AAATAACGAGGTTGGAATATCTCCGATAGTAAAAAAATTGATATTTTGAAACAAAAAAGAA
759012 AAAAATAAAT
Statistics
Matches: 113, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
78 4 0.04
79 33 0.29
80 15 0.13
81 52 0.46
82 8 0.07
83 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (78 bp):
AAATAACGAGGTTGGAATATCTCCGATAGTAAAAAAATTGATATTTTGAAACAAAAAAGAATTGG
AGTATCATCTCGA
Found at i:761487 original size:20 final size:22
Alignment explanation
Indices: 761462--761515 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
761452 CATTTTTGGC
761462 ATGTATCGATACATTCA-T-TT
1 ATGTATCGATACATTCACTGTT
*
761482 ATGTATCGATACATTTACTGTT
1 ATGTATCGATACATTCACTGTT
761504 -TGTATCGATACA
1 ATGTATCGATACA
761516 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 16 0.52
21 13 0.42
22 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (22 bp):
ATGTATCGATACATTCACTGTT
Found at i:763636 original size:21 final size:21
Alignment explanation
Indices: 763590--763636 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
763580 TTACTCAAGG
* *
763590 AATTAGAATCCCATTTTTGAG
1 AATTCGAATCCCATTTTTGAA
*
763611 TATTCGAATCCC-TTGTTTGAA
1 AATTCGAATCCCATT-TTTGAA
763632 AATTC
1 AATTC
763637 AAATAATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
AATTCGAATCCCATTTTTGAA
Found at i:767598 original size:24 final size:24
Alignment explanation
Indices: 767566--767611 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
767556 ATATAAATTA
767566 CTAACACTATGCTTTTTAACCTCG
1 CTAACACTATGCTTTTTAACCTCG
*
767590 CTAATACTATGCTTTTTAACCT
1 CTAACACTATGCTTTTTAACCT
767612 AGAAGGGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (24 bp):
CTAACACTATGCTTTTTAACCTCG
Found at i:767912 original size:25 final size:24
Alignment explanation
Indices: 767868--767983 Score: 75
Period size: 24 Copynumber: 4.9 Consensus size: 24
767858 AAAGTTAACA
* *
767868 AAATATTATA-AATTAAATAATTT
1 AAATATAATATAATTAAATAATAT
* *
767891 AAAATTTAATATAATTATATAATAT
1 -AAATATAATATAATTAAATAATAT
767916 AAATATAATAT-A--AAATAAT-T
1 AAATATAATATAATTAAATAATAT
*
767936 AAAAAATAATAT-A-TAATATAATAT
1 -AAATATAATATAATTAA-ATAATAT
* *
767960 ATATAAATAATATAAATAAATAAT
1 A-A-ATATAATATAATTAAATAAT
767984 TACGTTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
20 1 0.01
21 17 0.22
22 2 0.03
23 7 0.09
24 20 0.26
25 20 0.26
26 6 0.08
27 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATATAATATAATTAAATAATAT
Found at i:767915 original size:5 final size:5
Alignment explanation
Indices: 767897--767983 Score: 75
Period size: 5 Copynumber: 18.8 Consensus size: 5
767887 ATTTAAAATT
* *
767897 TAATA TAAT- T-ATA TAATA TAAATA TAATA TAAAA TAAT- TAA-A AAATA
1 TAATA TAATA TAATA TAATA T-AATA TAATA TAATA TAATA TAATA TAATA
767944 -ATATA TAATA TAATA T-ATA TAA-A TAATA TAA-A TAA-A TAAT
1 TA-ATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAAT
767984 TACGTTAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
3 2 0.03
4 24 0.35
5 37 0.54
6 6 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:767915 original size:13 final size:13
Alignment explanation
Indices: 767897--767985 Score: 71
Period size: 13 Copynumber: 6.8 Consensus size: 13
767887 ATTTAAAATT
767897 TAATATAATTATA
1 TAATATAATTATA
767910 TAATATAAATATAATA
1 TAATAT-AAT-T-ATA
*
767926 TAAAATAATTA-A
1 TAATATAATTATA
*
767938 -AAAATAA-TATA
1 TAATATAATTATA
767949 TAATATAATATATA
1 TAATATAAT-TATA
*
767963 TAA-ATAATATAAA
1 TAATATAAT-TATA
767976 TAA-ATAATTA
1 TAATATAATTA
767986 CGTTAAAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
10 2 0.03
11 8 0.12
12 9 0.14
13 24 0.36
14 11 0.17
15 4 0.06
16 8 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATAATTATA
Found at i:767949 original size:23 final size:24
Alignment explanation
Indices: 767882--767985 Score: 74
Period size: 25 Copynumber: 4.4 Consensus size: 24
767872 ATTATAAATT
* *
767882 AAATAATT-TAAAATTTAATATAATT
1 AAATAATTATAAAA-ATAATAT-ATA
* *
767907 ATATAA-TATAAATAT-A-ATATA
1 AAATAATTATAAAAATAATATATA
767928 AAATAATTA-AAAAATAATATATA
1 AAATAATTATAAAAATAATATATA
* * *
767951 ATATAATATATATAAATAATATAAA
1 AAATAAT-TATAAAAATAATATATA
767976 TAAATAATTA
1 -AAATAATTA
767986 CGTTAAAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
21 12 0.19
22 5 0.08
23 12 0.19
24 4 0.06
25 23 0.37
26 6 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATTATAAAAATAATATATA
Found at i:772224 original size:154 final size:151
Alignment explanation
Indices: 771974--772325 Score: 409
Period size: 154 Copynumber: 2.3 Consensus size: 151
771964 CTCGGTAACT
* * *
771974 CTAAAAAACATGAAAATGATAAGTAAAATGATGAACCTATCCTAAATGATACCTTCAGCACAAAA
1 CTAAAAGACATGAAAAT-ATTA-TAAAAAGATGAACCTATCCTAAATGATACCTTCAGCACAAAA
* *** ** * *
772039 ATGACTTGGTGATTACTAGGACCTCTTCTAAGAAAAATTACCAAAATACCTTTATGGTATACCTT
64 ACGACCCAGCAATTACTAGGACCTCTTCTAAGAAAAATTACCAAAATACCTCTAAGGTATACCTT
* *
772104 CAACGTAAAAATACCTGAA-AATT
129 CAACATAAAAATACCT-AATAATC
* * * * *
772127 CTAAAGGACATGAAAATATTATAAAAAGATGAACCTATCCTAAATATATACCTTCATCATAAAAG
1 CTAAAAGACATGAAAATATTATAAAAAGATGAACCTATCCTAAAT-GATACCTTCAGCACAAAAA
* * *
772192 CGACCCAGCAATTATCTAGGATTCTGTTCTAAGAAAAATTACCCAAATACCTCTAAGGTATACCT
65 CGACCCAGCAATTA-CTAGGA-CCTCTTCTAAGAAAAATTACCAAAATACCTCTAAGGTATACCT
* *
772257 TCAACATGAAAGTACCTAATAATC
128 TCAACATAAAAATACCTAATAATC
* * *
772281 CTAAAAGATATGAAAATATTATAAAAGGATGAACTTATCCTAAAT
1 CTAAAAGACATGAAAATATTATAAAAAGATGAACCTATCCTAAAT
772326 CTAAGGTATA
Statistics
Matches: 168, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
151 23 0.14
152 26 0.15
153 23 0.14
154 96 0.57
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (151 bp):
CTAAAAGACATGAAAATATTATAAAAAGATGAACCTATCCTAAATGATACCTTCAGCACAAAAAC
GACCCAGCAATTACTAGGACCTCTTCTAAGAAAAATTACCAAAATACCTCTAAGGTATACCTTCA
ACATAAAAATACCTAATAATC
Found at i:772380 original size:82 final size:82
Alignment explanation
Indices: 772243--772404 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 82
772233 CCCAAATACC
*
772243 TCTAAGGTATACCTTCAACATGAAAGTACCTAATAATCCTAAAAGATATGAAAATATTATAAAAG
1 TCTAAGGTATACCTTCAACATGAAAGTACCTAATAATCCTAAAAGACATGAAAATATTATAAAAG
*
772308 GATGAACTTATCCTAAA
66 GATGAACCTATCCTAAA
* * ** * *
772325 TCTAAGGTATACCTTCGACATGAAAGTACTTGGTAATCTTAAAGGACATGAAAATATTATAAAAG
1 TCTAAGGTATACCTTCAACATGAAAGTACCTAATAATCCTAAAAGACATGAAAATATTATAAAAG
772390 GATGAACCTATCCTA
66 GATGAACCTATCCTA
772405 GTATACCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (82 bp):
TCTAAGGTATACCTTCAACATGAAAGTACCTAATAATCCTAAAAGACATGAAAATATTATAAAAG
GATGAACCTATCCTAAA
Found at i:774617 original size:166 final size:164
Alignment explanation
Indices: 774434--775185 Score: 635
Period size: 167 Copynumber: 4.5 Consensus size: 164
774424 AAATTTCTCC
* * * * * *
774434 TATTTTTAAATTACGAAGTTTTCTTCTTCGTAAATTTTTTCAGGAGGATTTCCATGGGTTTAAAA
1 TATTTTGAAA-TACGAAGTTTTCTACTCCGTAAATTTTTT-AGGAGGATTTTC-TTGGTTTTAAA
* * * *
774499 TTTTTAAAATTCATAAAATATTATTATTTAATTCATATGAAATTATTTTTCAAAAATTCATTCAT
63 TTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCATTTTTCAAAAATTCATTCAT
*
774564 TTTCATTCATTTTTC-TTTTTTTCCTTAAAATTTTTT
128 TTTCATTCATTTTTCATTTTTTTCCTTGAAATTTTTT
*
774600 TATTTCTGAAATACGAAGTTTTCTACTCCGTAAATTTTTTTGGAGGGATTTTTCTTGGTTTTAAA
1 TATTT-TGAAATACGAAGTTTTCTACTCCGTAAATTTTTTAGGA-GGA-TTTTCTTGGTTTTAAA
* *
774665 TTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAAATTAATTCA
63 TTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCATTTTTC-AAAAATTCATTCA
* * * *
774730 TTTTCATTCATTTTTCTTTTTTTTTCCTTGAAGTATTCTG
127 TTTTCATTCATTTTTC-ATTTTTTTCCTTGAAAT-TTTTT
* * * * * * * * *
774770 T-TTTTGAAATATGGAGTTTTCTATTCCGTAAATGTTTTGGGGGGATTTTTTTTAGTTTTTAATT
1 TATTTTGAAATACGAAGTTTTCTACTCCGTAAATTTTTTAGGAGGA-TTTTCTTGGTTTTAAATT
*
774834 TTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCCATTTAT-AAAAATTCACTT-AT
65 TTTAAAATTCATCAAATATTATTATTTAATTTATATTAAAT-CATTTTTCAAAAATTCA-TTCAT
** * * * *
774897 TTTCATAAATATTTCAATTTGTTT-CTTGAAATTCTCT
128 TTTCATTCATTTTTC-ATTTTTTTCCTTGAAATTTTTT
** **
774934 TATTTTTGAAATACGAAGTTTTCTACTCCGTAAACATTTTCAAGG-GGATTTTTCTTGGTTTTTG
1 TA-TTTTGAAATACGAAGTTTTCTACTCCGT-AA-ATTTTTTAGGAGGA-TTTTCTTGGTTTTAA
* *** * * * * * * *
774998 ATTTTTAAAACTCATCAAATATTGCCAGTTGAGTCATTTTAAATC-TATTTTAAAAAATTAATTC
62 ATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAT-TTTTCAAAAATTCATTC
* * * * ***
775062 ATTTTCA-TAAGTTTT-AGATTTTTTCTTTGAAATGCCCTT
126 ATTTTCATTCATTTTTCA-TTTTTTTCCTTGAAAT-TTTTT
* * * * * * * *
775101 T-TCTCGAAAAACCG-AGTTTTCTACTCCATAAATTTTTTTGGGAGAATTTTCTTTGATTTAAAA
1 TATTTTGAAATA-CGAAGTTTTCTACTCCGTAAA-TTTTTTAGGAGGATTTTC-TTGGTTTTAAA
*
775164 TTTTTAAAATTCATCTAATATT
63 TTTTTAAAATTCATCAAATATT
775186 TTCATTGAAA
Statistics
Matches: 479, Mismatches: 84, Indels: 47
0.79 0.14 0.08
Matches are distributed among these distances:
163 1 0.00
164 16 0.03
165 66 0.14
166 163 0.34
167 169 0.35
168 43 0.09
169 17 0.04
170 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (164 bp):
TATTTTGAAATACGAAGTTTTCTACTCCGTAAATTTTTTAGGAGGATTTTCTTGGTTTTAAATTT
TTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCATTTTTCAAAAATTCATTCATTTT
CATTCATTTTTCATTTTTTTCCTTGAAATTTTTT
Found at i:775632 original size:19 final size:18
Alignment explanation
Indices: 775592--775632 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
775582 AAATCAAATC
*
775592 AAAATGCATAAAAATAAG
1 AAAATGCATAAAAATAAA
775610 AAAATGTCATAAAAATAAA
1 AAAATG-CATAAAAATAAA
775629 AAAA
1 AAAA
775633 AAAATTAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAATGCATAAAAATAAA
Found at i:775765 original size:12 final size:12
Alignment explanation
Indices: 775748--775796 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
775738 GGCTGATGGG
775748 AAAGAAAAAAGA
1 AAAGAAAAAAGA
775760 AAAG--AAAAGA
1 AAAGAAAAAAGA
*
775770 GAAGAAAAAAG-
1 AAAGAAAAAAGA
*
775781 AGAGAAAAAAAGA
1 AAAG-AAAAAAGA
775794 AAA
1 AAA
775797 TCCAAAGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
10 9 0.31
11 2 0.07
12 16 0.55
13 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Done.