Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold184
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: 2218657
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.30
Warning! 156408 characters in sequence are not A, C, G, or T
File 9 of 13
Found at i:1438108 original size:20 final size:20
Alignment explanation
Indices: 1438062--1438135 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
1438052 ATCCCAATGA
***
1438062 CATGTATCGATACATATTTTT
1 CATGTATCGATACAT-TGAAT
1438083 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
* *
1438103 CATGTATCGGTACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1438123 CGTGTATCGATAC
1 CATGTATCGATAC
1438136 TTTTAAGGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.05
20 27 0.61
21 15 0.34
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1438692 original size:36 final size:37
Alignment explanation
Indices: 1438632--1438708 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
1438622 ACAGAATCAA
* *
1438632 ATTACGAAGATTACGATTCTGTAATCGTAATCAAAAT
1 ATTACGAAAATTACGATCCTGTAATCGTAATCAAAAT
* *
1438669 ATTA-GAAAATTAGGATCCTGTAATCGTAATCAGAAT
1 ATTACGAAAATTACGATCCTGTAATCGTAATCAAAAT
1438705 ATTA
1 ATTA
1438709 AGAATCCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
ATTACGAAAATTACGATCCTGTAATCGTAATCAAAAT
Found at i:1440115 original size:13 final size:13
Alignment explanation
Indices: 1440097--1440155 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
1440087 ACATTATGCT
1440097 TTGTATCGATACA
1 TTGTATCGATACA
1440110 TTGTATCGATACA
1 TTGTATCGATACA
*
1440123 TGTTAATTATAGCGATACA
1 --TT--GTAT--CGATACA
1440142 TTGTATCGATACA
1 TTGTATCGATACA
1440155 T
1 T
1440156 GTTAATTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 21 0.55
15 5 0.13
17 5 0.13
19 7 0.18
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1440144 original size:32 final size:32
Alignment explanation
Indices: 1440103--1440174 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
1440093 TGCTTTGTAT
1440103 CGATACATTGTATCGATACATGTTAATTATAG
1 CGATACATTGTATCGATACATGTTAATTATAG
* *
1440135 CGATACATTGTATCGATACATGTTAATTGTAT
1 CGATACATTGTATCGATACATGTTAATTATAG
1440167 CGATACAT
1 CGATACAT
1440175 GAGATTGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (32 bp):
CGATACATTGTATCGATACATGTTAATTATAG
Found at i:1440165 original size:19 final size:19
Alignment explanation
Indices: 1440109--1440175 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
1440099 GTATCGATAC
1440109 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGTTA
* *
1440128 ATTATAGCGATAC------
1 ATTGTATCGATACATGTTA
1440141 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGTTA
1440160 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1440176 AGATTGGCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 11 0.29
19 27 0.71
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
ATTGTATCGATACATGTTA
Found at i:1440248 original size:20 final size:20
Alignment explanation
Indices: 1440204--1440255 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1440194 CTTTCACTGT
*
1440204 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
*
1440224 ATGTATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
1440244 TTGTATCGATAC
1 TTGTATCGATAC
1440256 GTAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:1446440 original size:13 final size:13
Alignment explanation
Indices: 1446422--1446457 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1446412 ATATTCCTTT
1446422 TATCGATACATTG
1 TATCGATACATTG
1446435 TATCGATACATTG
1 TATCGATACATTG
1446448 TATCGATACA
1 TATCGATACA
1446458 GTGGGTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:1446624 original size:20 final size:22
Alignment explanation
Indices: 1446580--1446626 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1446570 AATTTTCCAC
1446580 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
1446602 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
1446622 AAATC
1 AAATC
1446627 ATCAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:1449022 original size:13 final size:13
Alignment explanation
Indices: 1449001--1449031 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1448991 CAATACATGG
*
1449001 TACAATGTATCGA
1 TACATTGTATCGA
1449014 TACATTGTATCGA
1 TACATTGTATCGA
1449027 TACAT
1 TACAT
1449032 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1449030 original size:33 final size:33
Alignment explanation
Indices: 1448985--1449051 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1448975 CTTCCACTGT
*
1448985 TTGTATCAATACATGGT-ACAATGTATCGATACA
1 TTGTATCAATACATGATGA-AATGTATCGATACA
* *
1449018 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCAATACATGATGAAATGTATCGATACA
1449051 T
1 T
1449052 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (33 bp):
TTGTATCAATACATGATGAAATGTATCGATACA
Found at i:1451531 original size:20 final size:19
Alignment explanation
Indices: 1451506--1451613 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 19
1451496 TTTACCCAGA
*
1451506 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
*
1451526 TGTATCGATGCATTGCTCAT
1 TGTATCGATACATT-CTCAT
1451546 TGTATCGAT--A----CAT
1 TGTATCGATACATTCTCAT
1451559 TGTATCGATACATTACTCAT
1 TGTATCGATACATT-CTCAT
* * *
1451579 TGTATTGATACATTTTACAA
1 TGTATCGATACATTCT-CAT
1451599 TGTATCGATACATTC
1 TGTATCGATACATTC
1451614 AGGCATTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 12 0.17
15 1 0.01
18 1 0.01
19 1 0.01
20 56 0.78
21 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:1451559 original size:13 final size:13
Alignment explanation
Indices: 1451543--1451572 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1451533 ATGCATTGCT
1451543 CATTGTATCGATA
1 CATTGTATCGATA
1451556 CATTGTATCGATA
1 CATTGTATCGATA
1451569 CATT
1 CATT
1451573 ACTCATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1451565 original size:33 final size:33
Alignment explanation
Indices: 1451523--1451592 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1451513 ATACATTTTG
* *
1451523 CATTGTATCGATGCATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTACTCATTGTATCGATA
*
1451556 CATTGTATCGATACATTACTCATTGTATTGATA
1 CATTGTATCGATACATTACTCATTGTATCGATA
1451589 CATT
1 CATT
1451593 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTACTCATTGTATCGATA
Found at i:1451570 original size:53 final size:53
Alignment explanation
Indices: 1451506--1451612 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
1451496 TTTACCCAGA
* * *
1451506 TGTATCGATACATT-TTGCATTGTATCGATGCATTGCT-CATTGTATCGATACAT
1 TGTATCGATACATTACT-CATTGTATCGATACATT-CTACAATGTATCGATACAT
* *
1451559 TGTATCGATACATTACTCATTGTATTGATACATTTTACAATGTATCGATACAT
1 TGTATCGATACATTACTCATTGTATCGATACATTCTACAATGTATCGATACAT
1451612 T
1 T
1451613 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (53 bp):
TGTATCGATACATTACTCATTGTATCGATACATTCTACAATGTATCGATACAT
Found at i:1454095 original size:28 final size:27
Alignment explanation
Indices: 1454062--1454134 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
1454052 TTCACAATTG
1454062 GGGATACTCTAACCCCGTTATTTCATCGA
1 GGGATACTCTAACCCCGTTATTTC-T-GA
* *
1454091 -GGATACTCCAACCTCGTTATTTCTGA
1 GGGATACTCTAACCCCGTTATTTCTGA
1454117 GGGGATACTCTAACCCCG
1 -GGGATACTCTAACCCCG
1454135 GCTTTATATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 35 0.92
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (27 bp):
GGGATACTCTAACCCCGTTATTTCTGA
Found at i:1458398 original size:70 final size:70
Alignment explanation
Indices: 1458252--1458425 Score: 226
Period size: 70 Copynumber: 2.5 Consensus size: 70
1458242 ATAGTGGTGA
* * ** *
1458252 TTTGAAAAGGGTTGCCACCAACTTGCATGGGC-TTTTTTTAAAAAAATGGTGCCATTAACTTATC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTTTTTTAAAAAAATGGTGCCACTAACTTATC
1458316 TAGGC
66 TAGGC
* * *
1458321 TTGGAAAATAGTTGCCACCGACTCGTGTGGGCTTTTGTTTTAAAAAAA-GGTGCCACTAACTTAT
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTT-TTTTAAAAAAATGGTGCCACTAACTTAT
* *
1458385 GTGGGC
65 CTAGGC
*
1458391 TTTGAAAAGAGTTGCCACCGACTTGTGTAGGCTTT
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTT
1458426 GAAGAGAGTT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
69 25 0.28
70 53 0.60
71 11 0.12
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (70 bp):
TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTTTTTTAAAAAAATGGTGCCACTAACTTATC
TAGGC
Found at i:1458475 original size:28 final size:28
Alignment explanation
Indices: 1458369--1458967 Score: 626
Period size: 28 Copynumber: 20.7 Consensus size: 28
1458359 TTTAAAAAAA
*
1458369 GGTGCCACTAACTTATGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
* *
1458400 AGTTGCCACCGACTTGTGTAGGCTTTGAAGAG
1 -GGTGCCACTGACTTGTG--GGCTTTGAA-AG
* * * *
1458432 AGTTACCACTGGCTTATGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1458461 GGTGCCACTGACTTATGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * * *
1458490 AGTGCCATTGACTTGTCGGCTTTTAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1458518 AGTGTCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1458546 GGTGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
1458575 AGTGCCACTGACTTGTGGACTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1458603 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
1458631 GATGCTACTGAC-TATGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
1458659 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
1458687 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1458715 GATGCCACTGACTTATGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
1458744 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
1458772 AGTGCCACTAACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1458800 GGTGCCACTAACTTGTGGGCTTTGAAAGGGTTGAAAG
1 GGTGCCACTGACTTGTGGGC--T-------TTGAAAG
* *
1458837 GGTGCCATTGACTCGTGGGCTTT-AAATG
1 GGTGCCACTGACTTGTGGGCTTTGAAA-G
* * *
1458865 GGTGCCACTAACTCGTGGGCTTCGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
1458893 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
1458921 GATGCCACTAACTCGTGGACTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1458949 GGTGCCATTGACTTGTGGG
1 GGTGCCACTGACTTGTGGG
1458968 GTGCCACTAA
Statistics
Matches: 484, Mismatches: 64, Indels: 42
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.03
28 309 0.64
29 88 0.18
30 14 0.03
31 3 0.01
32 32 0.07
35 1 0.00
37 24 0.05
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:1458544 original size:85 final size:85
Alignment explanation
Indices: 1458369--1459132 Score: 853
Period size: 85 Copynumber: 9.0 Consensus size: 85
1458359 TTTAAAAAAA
* *
1458369 GGTGCCACTAACTTATGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTAGGCTTTGAAGAGAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTG--GGCTTTGAA-AGAG
* * *
1458434 TTACCACTGGCTTATGGGCTTTGAAAG
60 -TGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
1458461 GGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCATTGACTTGTCGGCTTTTAAAGAGTGTCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
1458526 TGACTTGTGGGCTTTGAAAG
66 TGACTTGTGGGCTTTGAAAG
* *
1458546 GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGACTTTGAAAG-GATGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCA
1458610 CTGACTTGTGGGCTTTGAAAG
65 CTGACTTGTGGGCTTTGAAAG
* * * * *
1458631 GATGCTACTGAC-TATGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
1458695 TGACTTGTGGGCTTTGAAAG
66 TGACTTGTGGGCTTTGAAAG
* *
1458715 GATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
* *
1458780 TAACTTATGGGCTTTGAAAG
66 TGACTTGTGGGCTTTGAAAG
* * * *
1458800 GGTGCCACTAACTTGTGGGCTTTGAAAGGGTTGAAAGGGTGCCATTGACTCGTGGGCTTT-AAAT
1 GGTGCCACTGACTTGTGGGCTTTG--A------AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-
* * * *
1458864 GGGTGCCACTAACTCGTGGGCTTCGAAAG
57 GAGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
1458893 GGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTCGTGGACTTTGAAAGGGTGCCAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
1458957 TGAC-T-T--G---TG---G
66 TGACTTGTGGGCTTTGAAAG
* * * * *
1458967 GGTGCCACTAAATCGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAG-GATGCTA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCA
*
1459030 CTGACTCGTGGGCTTTGAAAG
65 CTGACTTGTGGGCTTTGAAAG
*
1459051 GGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTT-AAAAAGGTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCA
1459114 CTGACTTGTGGGCTTTGAA
65 CTGACTTGTGGGCTTTGAA
1459133 GAGATGAACA
Statistics
Matches: 581, Mismatches: 64, Indels: 62
0.82 0.09 0.09
Matches are distributed among these distances:
73 1 0.00
74 59 0.10
76 1 0.00
77 1 0.00
78 1 0.00
80 1 0.00
81 2 0.00
82 1 0.00
83 3 0.01
84 177 0.30
85 204 0.35
86 4 0.01
87 9 0.02
89 12 0.02
90 17 0.03
91 2 0.00
92 14 0.02
93 72 0.12
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (85 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
TGACTTGTGGGCTTTGAAAG
Found at i:1458673 original size:56 final size:57
Alignment explanation
Indices: 1458365--1459132 Score: 738
Period size: 56 Copynumber: 13.5 Consensus size: 57
1458355 TTGTTTTAAA
* * *
1458365 AAAAG-GTGCCACTAACTTATGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTAGGCTTTG
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GATGCCACTGACTTGTG--GGCTTTG
* * * * * *
1458427 AAGAGAGTTACCACTGGCTTATGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
1458485 AAAAGAGTGCCATTGACTTGTCGGCTTTTAAA-GAGTGTCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * * *
1458542 -AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGACTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * *
1458599 AAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGAC-TATGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1458654 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
1458711 AAAGGA-TGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * * *
1458768 -AAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * * *
1458824 AAAGGGTTGAAAGGGTGCCATTGACTCGTGGGCTTT-AAATGGGTGCCACTAACTCGTGGGCTTC
1 --A------AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTT
1458888 G
57 G
* * * *
1458889 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTCGTGGACTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
1458945 -AAAGGGTGCCATTGACTTGT--G----G---GG-TGCCACTAAATCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
1458991 AAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGACTCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1459047 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
1459103 AAAAG-GTGCCACTGACTTGTGGGCTTTGAA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAA
1459133 GAGATGAACA
Statistics
Matches: 599, Mismatches: 73, Indels: 75
0.80 0.10 0.10
Matches are distributed among these distances:
46 33 0.06
47 5 0.01
48 1 0.00
50 1 0.00
52 1 0.00
54 1 0.00
55 21 0.04
56 269 0.45
57 162 0.27
58 16 0.03
60 14 0.02
61 4 0.01
62 14 0.02
63 2 0.00
64 10 0.02
65 45 0.08
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (57 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:1458843 original size:37 final size:37
Alignment explanation
Indices: 1458793--1458867 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
1458783 CTTATGGGCT
*
1458793 TTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAA-GGG
1 TTGAAAGGGTGCCACTAACTCGTGGGCTTT-AAATGGG
* *
1458830 TTGAAAGGGTGCCATTGACTCGTGGGCTTTAAATGGG
1 TTGAAAGGGTGCCACTAACTCGTGGGCTTTAAATGGG
1458867 T
1 T
1458868 GCCACTAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.09
37 31 0.91
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (37 bp):
TTGAAAGGGTGCCACTAACTCGTGGGCTTTAAATGGG
Found at i:1458907 original size:93 final size:93
Alignment explanation
Indices: 1458740--1458921 Score: 276
Period size: 93 Copynumber: 2.0 Consensus size: 93
1458730 TGGGCTTTGA
* * *
1458740 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGC
1 AAAGAGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTAACTCATGGGCTTCGAAAGGGTGC
1458805 CACTAACTTGTGGGCTTTGAAAGGGTTG
66 CACTAACTTGTGGGCTTTGAAAGGGTTG
* * * *
1458833 AAAGGGTGCCATTGACTCGTGGGCTTT-AAATGGGTGCCACTAACTCGTGGGCTTCGAAAGGGTG
1 AAAGAGTGCCACTGACTCGTGGGCTTTGAAA-GAGTGCCACTAACTCATGGGCTTCGAAAGGGTG
*
1458897 CCACTGACTTGTGGGCTTTGAAAGG
65 CCACTAACTTGTGGGCTTTGAAAGG
1458922 ATGCCACTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 3 0.04
93 77 0.96
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (93 bp):
AAAGAGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTAACTCATGGGCTTCGAAAGGGTGC
CACTAACTTGTGGGCTTTGAAAGGGTTG
Found at i:1458919 original size:121 final size:122
Alignment explanation
Indices: 1458708--1458951 Score: 346
Period size: 121 Copynumber: 2.0 Consensus size: 122
1458698 CTTGTGGGCT
* * * *
1458708 TTGAAAGGATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA
1 TTGAAAGGATGCCACTGACTCATGGGCTTTGAAAAGAGTGCCACTAACTCGTGGGCTTCGAAAGA
* * *
1458773 GTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGG
66 GTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTCGTGGACTTTGAAAGGG
* * * * * *
1458830 TTGAAAGGGTGCCATTGACTCGTGGGCTTT-AAATGGGTGCCACTAACTCGTGGGCTTCGAAAGG
1 TTGAAAGGATGCCACTGACTCATGGGCTTTGAAAAGAGTGCCACTAACTCGTGGGCTTCGAAAGA
* *
1458894 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTCGTGGACTTTGAAAGGG
66 GTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTCGTGGACTTTGAAAGGG
1458951 T
1 T
1458952 GCCATTGACT
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
121 81 0.76
122 26 0.24
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (122 bp):
TTGAAAGGATGCCACTGACTCATGGGCTTTGAAAAGAGTGCCACTAACTCGTGGGCTTCGAAAGA
GTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTCGTGGACTTTGAAAGGG
Found at i:1458990 original size:46 final size:46
Alignment explanation
Indices: 1458923--1459013 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
1458913 TTTGAAAGGA
* * *
1458923 TGCCACTAACTCGTGGACTTTGAAAGGGTGCCATTGACTTGTGGGG
1 TGCCACTAAATCGTGGACTTTGAAAGGATGCCACTGACTTGTGGGG
*
1458969 TGCCACTAAATCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGG
1 TGCCACTAAATCGTGGACTTTGAAAGGATGCCACTGACTTGTGGG
1459014 CTTTGAAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (46 bp):
TGCCACTAAATCGTGGACTTTGAAAGGATGCCACTGACTTGTGGGG
Found at i:1459012 original size:28 final size:27
Alignment explanation
Indices: 1458967--1459132 Score: 233
Period size: 28 Copynumber: 6.0 Consensus size: 27
1458957 TGACTTGTGG
* * *
1458967 GGTGCCACTAAATCGTGGGCTTTGAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAA
1458994 GGATGCCACTGACTTGTGGGCTTTGAAA
1 GG-TGCCACTGACTTGTGGGCTTTGAAA
* *
1459022 GGATGCTACTGACTCGTGGGCTTTGAAA
1 GG-TGCCACTGACTTGTGGGCTTTGAAA
1459050 GGGTGCCACTGACTTGTGGGCTTTGAAAA
1 -GGTGCCACTGACTTGTGGGCTTTG-AAA
*
1459079 GGTGCCACTGACTTGTGGGCTTTAAAAA
1 GGTGCCACTGACTTGTGGGCTTT-GAAA
1459107 GGTGCCACTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
1459133 GAGATGAACA
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.03
28 117 0.93
29 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (27 bp):
GGTGCCACTGACTTGTGGGCTTTGAAA
Found at i:1459040 original size:102 final size:102
Alignment explanation
Indices: 1458864--1459069 Score: 349
Period size: 102 Copynumber: 2.0 Consensus size: 102
1458854 GGCTTTAAAT
* *
1458864 GGGTGCCACTAACTCGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
1 GGGTGCCACTAAATCGTGGGCTTCGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
*
1458929 TAACTCGTGGACTTTGAAAGGGTGCCATTGACTTGTG
66 TAACTCGTGGACTTTGAAAGGGTGCCACTGACTTGTG
* *
1458966 GGGTGCCACTAAATCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCTAC
1 GGGTGCCACTAAATCGTGGGCTTCGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
* *
1459031 TGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
66 TAACTCGTGGACTTTGAAAGGGTGCCACTGACTTGTG
1459068 GG
1 GG
1459070 CTTTGAAAAG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.27
Consensus pattern (102 bp):
GGGTGCCACTAAATCGTGGGCTTCGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
TAACTCGTGGACTTTGAAAGGGTGCCACTGACTTGTG
Found at i:1459069 original size:158 final size:158
Alignment explanation
Indices: 1458830--1459125 Score: 443
Period size: 158 Copynumber: 1.9 Consensus size: 158
1458820 TTTGAAAGGG
* * *
1458830 TTGAAAGGGTGCCATTGACTCGTGGGCTTTAAATGGGTGCCACTAACTCGTGGGCTTCGAAAGGG
1 TTGAAAGGATGCCACTGACTCGTGGGCTTTAAATGGATGCCACTAACTCGTGGGCTTCGAAAGGG
* * *
1458895 TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTCGTGGACTTTGAAAGGGTGCCATTG
66 TGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTCGTGGACTTTAAAAAGGTGCCACTG
1458959 ACTTGTGGGGTGCCACTAAATCGTGGGCT
130 ACTTGTGGGGTGCCACTAAATCGTGGGCT
* * * *
1458988 TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCTACTGACTCGTGGGCTTTGAAAGG
1 TTGAAAGGATGCCACTGACTCGTGGGCTTT-AAATGGATGCCACTAACTCGTGGGCTTCGAAAGG
* * *
1459052 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTG
65 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTCGTGGACTTTAAAAAGGTGCCACTG
1459117 ACTTGTGGG
130 ACTTGTGGG
1459126 CTTTGAAGAG
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
158 115 0.93
159 8 0.07
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (158 bp):
TTGAAAGGATGCCACTGACTCGTGGGCTTTAAATGGATGCCACTAACTCGTGGGCTTCGAAAGGG
TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTCGTGGACTTTAAAAAGGTGCCACTGA
CTTGTGGGGTGCCACTAAATCGTGGGCT
Found at i:1459074 original size:130 final size:130
Alignment explanation
Indices: 1458849--1459097 Score: 365
Period size: 130 Copynumber: 1.9 Consensus size: 130
1458839 TGCCATTGAC
* * *
1458849 TCGTGGGCTTTAAATGGGTGCCACTAACTCGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCT
1 TCGTGGGCTTTAAATGGATGCCACTAACTCGTGGGCTTCGAAAGGATGCCACTGACTCGTGGGCT
* *
1458914 TTGAAAGGATGCCACTAACTCGTGGACTTTGAAAGGGTGCCATTGACTTGTGGGGTGCCACTAAA
66 TTGAAAGGATGCCACTAACTCGTGGACTTTGAAAAGGTGCCACTGACTTGTGGGGTGCCACTAAA
* * * *
1458979 TCGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGACTCGTGGGC
1 TCGTGGGCTTT-AAATGGATGCCACTAACTCGTGGGCTTCGAAAGGATGCCACTGACTCGTGGGC
* * * *
1459043 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGG
65 TTTGAAAGGATGCCACTAACTCGTGGACTTTGAAAAGGTGCCACTGACTTGTGGG
1459098 CTTTAAAAAG
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 102 0.97
131 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (130 bp):
TCGTGGGCTTTAAATGGATGCCACTAACTCGTGGGCTTCGAAAGGATGCCACTGACTCGTGGGCT
TTGAAAGGATGCCACTAACTCGTGGACTTTGAAAAGGTGCCACTGACTTGTGGGGTGCCACTAAA
Found at i:1460373 original size:21 final size:21
Alignment explanation
Indices: 1460345--1460403 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
1460335 ACCCCTTTCT
1460345 GTTTTTTTGCTATTTTTTCTTG
1 GTTTTTTTGCT-TTTTTTCTTG
*
1460367 GTTTTTTTG-TTTTTTTTTTG
1 GTTTTTTTGCTTTTTTTCTTG
1460387 GTTTTTTCTG-TTTTTTT
1 GTTTTTT-TGCTTTTTTT
1460404 GGGTATAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 16 0.46
21 10 0.29
22 9 0.26
ACGTcount: A:0.02, C:0.05, G:0.14, T:0.80
Consensus pattern (21 bp):
GTTTTTTTGCTTTTTTTCTTG
Found at i:1475351 original size:26 final size:28
Alignment explanation
Indices: 1475297--1475353 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1475287 GATCAGAAGA
1475297 AAAAAAAATCGGGATTGGAGTATCCCCTC
1 AAAAAAAATCGGGATTGGAGTAT-CCCTC
* *
1475326 AAAAATAA-CGGGGTTGGAGTAT-CCTC
1 AAAAAAAATCGGGATTGGAGTATCCCTC
1475352 AA
1 AA
1475354 TTATGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
28 13 0.50
29 7 0.27
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (28 bp):
AAAAAAAATCGGGATTGGAGTATCCCTC
Found at i:1475441 original size:28 final size:28
Alignment explanation
Indices: 1475385--1475461 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
1475375 GGAATAAAGC
*
1475385 CGGGGTTGGAGTATCCTTTCG--GAAGTAA
1 CGGGGTTGGAGTATCC--TCGATGAAATAA
*
1475413 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCTCGATGAAATAA
*
1475441 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCTCGAT
1475462 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
28 41 0.95
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGATGAAATAA
Found at i:1475533 original size:108 final size:108
Alignment explanation
Indices: 1475311--1475618 Score: 379
Period size: 107 Copynumber: 2.9 Consensus size: 108
1475301 AAAATCGGGA
* * * * * ***
1475311 TTGGAGTATCCCCTCA-AAAATAACGGGGTTGGAGTATCCTCAATTATGAGAAATCAATA-TTTT
1 TTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTT
* ** * * * *
1475374 GGGAATAAAGCCGGGGTTGGAGTATCCTTTCGGAAGTAACGGGG
65 GGAAATAAAATCGGAGTTGGAGTATCCCTTCGGAAATAACAGGG
*
1475418 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTG
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTG
*
1475483 GAAATAAAATCAGAGTTGGAGTATCCCTTCGGAAATAACAGGG
66 GAAATAAAATCGGAGTTGGAGTATCCCTTCGGAAATAACAGGG
* * *
1475526 TTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTT
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAA-AAATTGGT-ATTTT
*
1475590 TGGAAATAAAATCGGAGTTAGAGTATCCC
64 TGGAAATAAAATCGGAGTTGGAGTATCCC
1475619 CGATTATAGG
Statistics
Matches: 174, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
106 1 0.01
107 77 0.44
108 65 0.37
109 31 0.18
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (108 bp):
TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTG
GAAATAAAATCGGAGTTGGAGTATCCCTTCGGAAATAACAGGG
Found at i:1475652 original size:51 final size:53
Alignment explanation
Indices: 1475556--1475674 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 53
1475546 AACGGGGTTG
* * *
1475556 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
* *
1475610 GAGTATCCCCGATTAT-AGGAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
1475661 GAATATCGCCGATT
1 GAGTATCCCCGATT
1475675 TTGGAGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
51 33 0.57
53 10 0.17
54 15 0.26
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:1478041 original size:13 final size:13
Alignment explanation
Indices: 1478023--1478048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1478013 ACAAAGATCC
1478023 ATGTATCGATACA
1 ATGTATCGATACA
1478036 ATGTATCGATACA
1 ATGTATCGATACA
1478049 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1478044 original size:33 final size:33
Alignment explanation
Indices: 1478002--1478068 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1477992 AAAATTTCCA
***
1478002 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1478035 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1478068 A
1 A
1478069 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1478112 original size:19 final size:19
Alignment explanation
Indices: 1478088--1478142 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
1478078 CAGTAGCTAA
*
1478088 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
1478107 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1478126 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1478143 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1483742 original size:34 final size:34
Alignment explanation
Indices: 1483674--1483743 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
1483664 CTTGATTATA
* * *
1483674 CATAATCAAATTACGAAAATTACGATTCTGTAAT
1 CATAATCAAATTACGAAAATTACAATCCTATAAT
*
1483708 CATAATCACAATTA-GAAGATTACAATCCTATAAT
1 CATAATCA-AATTACGAAAATTACAATCCTATAAT
1483742 CA
1 CA
1483744 ATCGTAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (34 bp):
CATAATCAAATTACGAAAATTACAATCCTATAAT
Found at i:1484277 original size:20 final size:20
Alignment explanation
Indices: 1484244--1484281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1484234 TAAAAAATTA
*
1484244 TATAAAAATTAAATTAAAAT
1 TATAAAAATAAAATTAAAAT
*
1484264 TATAATAATAAAATTAAA
1 TATAAAAATAAAATTAAA
1484282 TTAAAGATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TATAAAAATAAAATTAAAAT
Found at i:1484281 original size:25 final size:22
Alignment explanation
Indices: 1484237--1484286 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 22
1484227 ATTTAATTAA
1484237 AAAATTATATAAAAATTAAATT
1 AAAATTATATAAAAATTAAATT
1484259 AAAATTATAATAATAAAATTAAATT
1 AAAATTAT-AT-A-AAAATTAAATT
1484284 AAA
1 AAA
1484287 GATAGTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.32
23 2 0.08
24 1 0.04
25 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATTATATAAAAATTAAATT
Found at i:1485035 original size:16 final size:16
Alignment explanation
Indices: 1485016--1485070 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
1485006 GACAATAAAT
1485016 TAAAATTTGAAT-ATAA
1 TAAAATTT-AATAATAA
*
1485032 TAAATATTTAATAATTA
1 TAAA-ATTTAATAATAA
1485049 TAAAA-TTAATAAATAA
1 TAAAATTTAAT-AATAA
1485065 CTAAAA
1 -TAAAA
1485071 ATTTTATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 5 0.15
16 12 0.36
17 16 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAAATTTAATAATAA
Found at i:1487011 original size:147 final size:146
Alignment explanation
Indices: 1486844--1487124 Score: 463
Period size: 147 Copynumber: 1.9 Consensus size: 146
1486834 TACCCTTTAA
* * *
1486844 AGGCAAAGCATTGCTTTTTTTAGTTTAATTTTGAAAAAGATGTGTTGAATGAGGCATCCGAAGGC
1 AGGCAAAACATTGCTTTTTTTAGTTTAATTTAGAAAAAGATGTGTTGAATGAGGCAACCGAAGGC
1486909 CCAGACTCGAAACATTGTTGGGATAATTTTTTTAAAATATTTAAATAAAATTCATGAATGCATCA
66 CCAGACTCGAAACATTGTTGGGATAATTTTTTT-AAATATTTAAATAAAATTCATGAATGCATCA
1486974 TCATCTACCCTTGAAAG
130 TCATCTACCCTTGAAAG
* * * * *
1486991 AGGCAAAACATTGTTTTTTTTAGTTTAATTTAGGAAAAGATGTTTTGAATTAGGCAACTGAAGGC
1 AGGCAAAACATTGCTTTTTTTAGTTTAATTTAGAAAAAGATGTGTTGAATGAGGCAACCGAAGGC
* *
1487056 CCAGACTCGAAACATTGTTGGGATAATTTTTTTAGATGTTTAAATAAAATTCATGAATGCATCAT
66 CCAGACTCGAAACATTGTTGGGATAATTTTTTTAAATATTTAAATAAAATTCATGAATGCATCAT
1487121 CATC
131 CATC
1487125 ATCATCATCA
Statistics
Matches: 124, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
146 34 0.27
147 90 0.73
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (146 bp):
AGGCAAAACATTGCTTTTTTTAGTTTAATTTAGAAAAAGATGTGTTGAATGAGGCAACCGAAGGC
CCAGACTCGAAACATTGTTGGGATAATTTTTTTAAATATTTAAATAAAATTCATGAATGCATCAT
CATCTACCCTTGAAAG
Found at i:1487977 original size:21 final size:21
Alignment explanation
Indices: 1487952--1488017 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
1487942 AATGTGAATT
1487952 GATACAATAAGTGAATGTATC
1 GATACAATAAGTGAATGTATC
*
1487973 GATACAA-AAGTGAATGTATT
1 GATACAATAAGTGAATGTATC
**
1487993 GATAC-ATATTTGAAATGTATC
1 GATACAATAAGTG-AATGTATC
1488014 GATA
1 GATA
1488018 TAGGACAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 20 0.51
21 18 0.46
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (21 bp):
GATACAATAAGTGAATGTATC
Found at i:1490327 original size:20 final size:22
Alignment explanation
Indices: 1490292--1490332 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1490282 TGGGCATGTT
1490292 AAAATGCATGGAACAT-GGCTC
1 AAAATGCATGGAACATCGGCTC
1490313 AAAATGCAT-GAACATCGGCT
1 AAAATGCATGGAACATCGGCT
1490333 GTTTAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (22 bp):
AAAATGCATGGAACATCGGCTC
Found at i:1491341 original size:21 final size:20
Alignment explanation
Indices: 1491294--1491347 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
1491284 CATTTCAGAC
*
1491294 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTCACTT
1491314 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
1491334 ATTGTATCGATACA
1 A-TGTATCGATACA
1491348 AATAGTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:1503027 original size:13 final size:13
Alignment explanation
Indices: 1503009--1503033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1502999 CATTATGCTT
1503009 TGTATCGATACAA
1 TGTATCGATACAA
1503022 TGTATCGATACA
1 TGTATCGATACA
1503034 TGTTCATTGT
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:1503030 original size:33 final size:32
Alignment explanation
Indices: 1502988--1503052 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1502978 ACACACTCAG
*
1502988 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
1503021 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
1503053 TGGACAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:1503135 original size:20 final size:20
Alignment explanation
Indices: 1503106--1503157 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1503096 CCACTGTTTA
1503106 TATCGATACATGGCACATTG
1 TATCGATACATGGCACATTG
*
1503126 TATTGATACATGGCACATTG
1 TATCGATACATGGCACATTG
1503146 TATCGATACATG
1 TATCGATACATG
1503158 ATGAATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
TATCGATACATGGCACATTG
Found at i:1509151 original size:33 final size:33
Alignment explanation
Indices: 1509109--1509186 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
1509099 AAACCCAGAG
* * *
1509109 GTATCGATACAATATTCTTTGTATTGATACTTT
1 GTATCGATACAATAGTCTTTGTATCGATACATT
*
1509142 GTATCGATACAATAGTGTTTGTATCGATACATT
1 GTATCGATACAATAGTCTTTGTATCGATACATT
1509175 GTATCGATACAA
1 GTATCGATACAA
1509187 GGGTTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (33 bp):
GTATCGATACAATAGTCTTTGTATCGATACATT
Found at i:1509178 original size:13 final size:13
Alignment explanation
Indices: 1509160--1509185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1509150 ACAATAGTGT
1509160 TTGTATCGATACA
1 TTGTATCGATACA
1509173 TTGTATCGATACA
1 TTGTATCGATACA
1509186 AGGGTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1509318 original size:21 final size:22
Alignment explanation
Indices: 1509294--1509343 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1509284 ATCAAATTTT
* *
1509294 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1509315 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1509337 --TCAAAAT
1 CTTCAAAAT
1509344 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:1510887 original size:44 final size:44
Alignment explanation
Indices: 1510824--1510913 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
1510814 AGTCTTAGAT
1510824 TTAGTCTTCGTATTAGGATTAGTCGTACTTGTTTTTGATTATTA
1 TTAGTCTTCGTATTAGGATTAGTCGTACTTGTTTTTGATTATTA
1510868 TTAGTCTTCGTATTAGGATTAGTCGTACTTGTTTTTGATTATTA
1 TTAGTCTTCGTATTAGGATTAGTCGTACTTGTTTTTGATTATTA
1510912 TT
1 TT
1510914 GTGACTTTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (44 bp):
TTAGTCTTCGTATTAGGATTAGTCGTACTTGTTTTTGATTATTA
Found at i:1511202 original size:14 final size:14
Alignment explanation
Indices: 1511183--1511209 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1511173 TAATTATTTT
1511183 ATATCTGAACTTTG
1 ATATCTGAACTTTG
1511197 ATATCTGAACTTT
1 ATATCTGAACTTT
1511210 TCTAATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (14 bp):
ATATCTGAACTTTG
Found at i:1511745 original size:19 final size:20
Alignment explanation
Indices: 1511721--1511774 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1511711 ACATTATGCT
**
1511721 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
*
1511740 TTGTATCGATACAAGGACAA
1 TTGTATCGATACATGGACAA
1511760 TTGTATCGATACATG
1 TTGTATCGATACATG
1511775 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:1511860 original size:20 final size:20
Alignment explanation
Indices: 1511835--1511885 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1511825 CTATTAATAC
1511835 ATTGTATCGATTCATGATGA
1 ATTGTATCGATTCATGATGA
1511855 ATTGTATCGATTCATGATGA
1 ATTGTATCGATTCATGATGA
1511875 ATTGTATCGAT
1 ATTGTATCGAT
1511886 ACATTGCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTGTATCGATTCATGATGA
Found at i:1515128 original size:157 final size:156
Alignment explanation
Indices: 1514838--1515401 Score: 561
Period size: 157 Copynumber: 3.6 Consensus size: 156
1514828 TCATTGATGT
* *
1514838 TTTTATTTCTAAAACACCGG-TTTTCCACCATCGGGGATACTCCAACCTTGTTGTTTCTG-AGGG
1 TTTTATTTCTAAAACACCGGATTTTCCACCATCGGGGATACTCCAACC-CGTTATTTCTGAAGGG
* * * *
1514901 AATACTCTAACCCTGATTTTATATCAAAAACACTAATTTTTCACCATCGAGGATATTCC-AACCT
65 -ATACTCCAACCC-GATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCTAACC-
** *
1514965 TGTTATTTCAAAGGGATACTCTAACCTCAA
127 CATTATTTCAAAGGGATACTCCAACCTCAA
* * * *
1514995 TTTTATTTCTAAAACA-CGGATTTTTCACCATCAGGGATACTCTAACGCCGTTATTTTTGAAGGG
1 TTTTATTTCTAAAACACCGGATTTTCCACCATCGGGGATACTCCAAC-CCGTTATTTCTGAAGGG
* * *
1515059 ATACTCCAATCCCGGTTTTATTTCTAAAACACTGATTTTCCACCATC-AGGATACTCCTAATCCC
65 ATACTCCAA-CCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCTAA-CCC
* * * **
1515123 ATTATTTCTGAGGGGATACTCCAACCCCGC
128 ATTATTTC-AAAGGGATACTCCAACCTCAA
* * * * * * * *
1515153 TTTTATTTTTAAAATATC-AATTTTTCACCGTCGGGGATACTCTAACCCGTTATTT-TCGAGGGG
1 TTTTATTTCTAAAACACCGGATTTTCCACCATCGGGGATACTCCAACCCGTTATTTCT-GAAGGG
*
1515216 ATACTCCAACCCGATTTTATTTTTAAAACACTAATTTTTCACCATCGAGGATACT-CTAACCCCA
65 ATACTCCAACCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCTAA-CCCA
*** * *
1515280 TTATTTTTGAGAGGATACTCCAACCTTAG
129 TTATTTCAAAG-GGATACTCCAACCTCAA
*** * *
1515309 TTTTATTTCTAAAA-AATTGATTTTCCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGG
1 TTTTATTTCTAAAACACCGGATTTTCCACCATCGGGGATACTCCAAC-CCGTTATTTCTGAAGGG
* * *
1515373 AGACTCCAACCTCGATTTTGTTTCCAAAA
65 ATACTCCAACC-CGATTTTATTTCTAAAA
1515402 TACCGACTTT
Statistics
Matches: 340, Mismatches: 52, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
155 2 0.01
156 110 0.32
157 148 0.44
158 79 0.23
159 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (156 bp):
TTTTATTTCTAAAACACCGGATTTTCCACCATCGGGGATACTCCAACCCGTTATTTCTGAAGGGA
TACTCCAACCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCTAACCCATT
ATTTCAAAGGGATACTCCAACCTCAA
Found at i:1515415 original size:235 final size:235
Alignment explanation
Indices: 1514838--1515431 Score: 673
Period size: 235 Copynumber: 2.5 Consensus size: 235
1514828 TCATTGATGT
* * ** * *
1514838 TTTTATTTCTAAAACACCGGTTTTCCACCATCGGGGATACTCCAAC-CTTGTTGTTTCTGAGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACTC-CATTATTTCTGAGGGG
* * * * * *
1514902 ATACTCTAACCCTGATTTTATATCAAAAACACTAATTTTTCACCATCGAGGATATTCCAACCTTG
65 ATACTCCAACCC-GATTTTATTTCAAAAATACCAATTTTTCACCATCGAGGATACTCCAACCTCG
* *
1514967 TTATTTCAAAGGGATACTCTAACCTCAATTTTATTTCTAAAACACGGATTTTTCACCATCAGGGA
129 TTATTTCAAAGGGATACTCCAACCTCAATTTTATTTCTAAAACACGAATTTTTCACCATCAGGGA
* * *
1515032 TACTCTAACGCCGTTATTTTTGAAGGGATACTCCAATCCCGG
194 TACTCTAACCCCATTATTTTTGAAGGGATACTCCAATCCCAG
*
1515074 TTTTATTTCTAAAACACTGATTTTCCACCATC-AGGATACTCCTAA-TCCCATTATTTCTGAGGG
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCC-AACT-CCATTATTTCTGAGGG
* ** * * * *
1515137 GATACTCCAACCCCGCTTTTATTTTTAAAATATCAATTTTTCACCGTCGGGGATACTCTAACC-C
64 GATACTCCAA-CCCGATTTTATTTCAAAAATACCAATTTTTCACCATCGAGGATACTCCAACCTC
* * * * *
1515201 GTTATTTTCGAGGGGATACTCCAACC-CGATTTTATTTTTAAAACACTAATTTTTCACCATC-GA
128 GTTA-TTTCAAAGGGATACTCCAACCTCAATTTTATTTCTAAAACACGAATTTTTCACCATCAG-
*
1515264 GGATACTCTAACCCCATTATTTTTG-AGAGGATACTCCAA-CCTTAG
191 GGATACTCTAACCCCATTATTTTTGAAG-GGATACTCCAATCC-CAG
* *
1515309 TTTTATTTCTAAAAAATTGATTTTCCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGGA
* * * * * * **
1515374 GACTCCAACCTCGATTTTGTTTCCAAAATACCGACTTTTCACTATCTTGGATACTCCA
66 TACTCCAACC-CGATTTTATTTCAAAAATACCAATTTTTCACCATCGAGGATACTCCA
1515432 TCCCCTATTT
Statistics
Matches: 300, Mismatches: 47, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
234 7 0.02
235 171 0.57
236 118 0.39
237 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (235 bp):
TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGGA
TACTCCAACCCGATTTTATTTCAAAAATACCAATTTTTCACCATCGAGGATACTCCAACCTCGTT
ATTTCAAAGGGATACTCCAACCTCAATTTTATTTCTAAAACACGAATTTTTCACCATCAGGGATA
CTCTAACCCCATTATTTTTGAAGGGATACTCCAATCCCAG
Found at i:1515426 original size:79 final size:79
Alignment explanation
Indices: 1514838--1515431 Score: 510
Period size: 79 Copynumber: 7.6 Consensus size: 79
1514828 TCATTGATGT
* * * ** * *
1514838 TTTTATTTCTAAAACACCGGTTTTCCACCATCGGGGATACTCCAAC-CTTGTTGTTTCTGAGGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACTC-CATTATTTCTGAGGGG
*
1514902 ATACTCTAACC-CTGA
65 ATACTCCAACCTC-GA
* * * * * ** * *
1514917 TTTTATATCAAAAACACTAATTTTTCACCATCGAGGATATTCCAAC-CTTGTTATTTC-AAAGGG
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACTC-CATTATTTCTGAGGGG
* *
1514980 ATACTCTAACCTCAA
65 ATACTCCAACCTCGA
* * * * * * *
1514995 TTTTATTTCTAAAACACGGATTTTTCACCATCAGGGATACTCTAACGCCGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGGA
*
1515060 TACTCCAATCC-CGG
66 TACTCCAA-CCTCGA
* *
1515074 TTTTATTTCTAAAACACTGATTTTCCACCATC-AGGATACTCCTAA-TCCCATTATTTCTGAGGG
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCC-AACT-CCATTATTTCTGAGGG
* *
1515137 GATACTCCAACCCCGC
64 GATACTCCAACCTCGA
* * * * * *
1515153 TTTTATTTTTAAAATA-TCAATTTTTCACCGTCGGGGATACTCTAAC-CCGTTATTT-TCGAGGG
1 TTTTATTTCTAAAACACT-GATTTTTCACCATCGGGGATACTCCAACTCCATTATTTCT-GAGGG
1515215 GATACTCCAACC-CGA
64 GATACTCCAACCTCGA
* * * * * * *
1515230 TTTTATTTTTAAAACACTAATTTTTCACCATCGAGGATACTCTAACCCCATTATTTTTGAGAGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGGA
*
1515295 TACTCCAACCT-TA
66 TACTCCAACCTCGA
* * *
1515308 GTTTTATTTCTAAAAAATTGATTTTCCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGG
1 -TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGG
*
1515373 AGACTCCAACCTCGA
65 ATACTCCAACCTCGA
* * * * * * **
1515388 TTTTGTTTCCAAAATACCGACTTTTCACTATCTTGGATACTCCA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCA
1515432 TCCCCTATTT
Statistics
Matches: 425, Mismatches: 73, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
77 44 0.10
78 122 0.29
79 248 0.58
80 11 0.03
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACTCCATTATTTCTGAGGGGA
TACTCCAACCTCGA
Found at i:1517566 original size:4 final size:4
Alignment explanation
Indices: 1517557--1517583 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1517547 ATTAAGGTGC
1517557 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1517584 TGTTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1521940 original size:24 final size:24
Alignment explanation
Indices: 1521892--1521939 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1521882 ATGTATCGAT
1521892 ACATTACATGTTTTTACTTGAAAA
1 ACATTACATGTTTTTACTTGAAAA
* *
1521916 ACATTA-ATTTTTTTGCTTGAAAA
1 ACATTACATGTTTTTACTTGAAAA
1521939 A
1 A
1521940 AATTTGGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (24 bp):
ACATTACATGTTTTTACTTGAAAA
Found at i:1526627 original size:12 final size:11
Alignment explanation
Indices: 1526605--1526635 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
1526595 GAGCATGATG
1526605 AAGAAAAAAAA
1 AAGAAAAAAAA
1526616 AAGAAGAAAAAA
1 AAGAA-AAAAAA
1526628 AAGAAAAA
1 AAGAAAAA
1526636 GTGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:1526641 original size:17 final size:17
Alignment explanation
Indices: 1526601--1526645 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1526591 TTAGGAGCAT
*
1526601 GATGAAGAAAAAAAAAA
1 GATGAAAAAAAAAAAAA
*
1526618 GAAGAAAAAAAAGAAAAA
1 GATGAAAAAAAA-AAAAA
1526636 G-TGAAAAAAA
1 GATGAAAAAAA
1526646 TGGAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (17 bp):
GATGAAAAAAAAAAAAA
Found at i:1528050 original size:33 final size:33
Alignment explanation
Indices: 1528007--1528069 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1527997 CCCTTCATTC
*
1528007 AACCACTAGATGGTATTGATGCATCACAAATTT
1 AACCACTAGATGATATTGATGCATCACAAATTT
*
1528040 AACCATTAGATGATATTGATGCATCACAAA
1 AACCACTAGATGATATTGATGCATCACAAA
1528070 GCTTGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
AACCACTAGATGATATTGATGCATCACAAATTT
Found at i:1528136 original size:123 final size:122
Alignment explanation
Indices: 1527917--1528157 Score: 301
Period size: 123 Copynumber: 2.0 Consensus size: 122
1527907 ATACTTTCTC
* * *
1527917 AACCACTAGATAGTATTGATGCATCATAAAGCTTGATTTCCTTATGGCAAGGGTGTGGCCCATAC
1 AACCACTAGATAGTATTGATGCATCACAAAGCTTGATTT-CTTAGGGCAAGGATGTGGCCCATAC
1527982 ATTCCCAATCATATCCCCTTCATTCAACCACTAGATGGTATTGATGCATCACAAATTT
65 ATTCCCAATCATATCCCCTTCATTCAACCACTAGATGGTATTGATGCATCACAAATTT
* *
1528040 AACCATTAGAT-GATATTGATGCATCACAAAGCTTGATTT-TTAGGGCAAGGACATCTTGGCCC-
1 AACCACTAGATAG-TATTGATGCATCACAAAGCTTGATTTCTTAGGGCAAGG--AT-GTGGCCCA
** *** *
1528102 TACATTCTTAATCATATCTTTTTC-TCTCCACCACTAGATGGTATTGATGCATCACA
62 TACATTCCCAATCATATCCCCTTCAT-TCAACCACTAGATGGTATTGATGCATCACA
1528158 TGACCACAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
121 10 0.10
122 2 0.02
123 84 0.82
124 6 0.06
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (122 bp):
AACCACTAGATAGTATTGATGCATCACAAAGCTTGATTTCTTAGGGCAAGGATGTGGCCCATACA
TTCCCAATCATATCCCCTTCATTCAACCACTAGATGGTATTGATGCATCACAAATTT
Found at i:1528409 original size:44 final size:44
Alignment explanation
Indices: 1528360--1528629 Score: 143
Period size: 44 Copynumber: 6.2 Consensus size: 44
1528350 TTAGTTGTAT
* *
1528360 CTGGTCAAACTCTTCTCATTTCGGTCTAATGTATAGCTACCACC
1 CTGGTCAAACTCTTCTCATTTCGGTCTAATGTATGGTTACCACC
* * * * * *
1528404 CTGGTCAGATTCTTTTCA-TTCTGATTTGATGTATGGTTACCACC
1 CTGGTCAAACTCTTCTCATTTC-GGTCTAATGTATGGTTACCACC
* * * * * *
1528448 CTGGTTAAA-TCTGCCCCTTTCCTGTTTAATGTATGGTTACCACC
1 CTGGTCAAACTCTTCTCATTT-CGGTCTAATGTATGGTTACCACC
* * * * * * **
1528492 CTAGTCAAACTTTTTTCATTTTGGTCAAATGTATTGTTACGTCC
1 CTGGTCAAACTCTTCTCATTTCGGTCTAATGTATGGTTACCACC
* * ** * * ** *
1528536 TTGGTCAAA-TCTTC-CCTCTTCTATTTGACATATGGTTACCACA
1 CTGGTCAAACTCTTCTCAT-TTCGGTCTAATGTATGGTTACCACC
* * * * **
1528579 TTGGTCAAACTCTTCTTATTTCGATCTGACATATGGTTACCACC
1 CTGGTCAAACTCTTCTCATTTCGGTCTAATGTATGGTTACCACC
*
1528623 TTGGTCA
1 CTGGTCA
1528630 GATTTTTTTA
Statistics
Matches: 166, Mismatches: 53, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
42 2 0.01
43 32 0.19
44 124 0.75
45 8 0.05
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (44 bp):
CTGGTCAAACTCTTCTCATTTCGGTCTAATGTATGGTTACCACC
Found at i:1528782 original size:219 final size:219
Alignment explanation
Indices: 1528361--1528758 Score: 494
Period size: 219 Copynumber: 1.8 Consensus size: 219
1528351 TAGTTGTATC
* ** *
1528361 TGGTCAAACTCTTCTCATTTCGGTCTAATGTATAGCTACCACCCTGGTCAGATTCTTTTCATTCT
1 TGGTCAAACTCTTCTCATTTCGATCTAACATATAGCTACCACCCTGGTCAGATTCTTTTAATTCT
* ** * * * ** * *
1528426 GATTTGATGTATGGTTACCACCCTGGTTAAATCTGCCCCTTTCCTGTTTAATGTATGGTTACCAC
66 AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCCTGTTTAACATATAGCTACCAC
* * * ** * * *
1528491 CCTAGTCAAACTTTTTTCATTTTGGTCAAATGTATTGTTACGTCCTTGGTCAAATCTTCCCTCTT
131 CCTAGTCAAACTTTTCTCATTTTGGTCAAACGTATGGTTACCACCCTAGTCAAATCTTCCATCTT
1528556 CTATTTGACATATGGTTACCACAT
196 CTATTTGACATATGGTTACCACAT
* * * * * * *
1528580 TGGTCAAACTCTTCTTATTTCGATCTGACATATGGTTACCACCTTGGTCAGATTTTTTTAATTTT
1 TGGTCAAACTCTTCTCATTTCGATCTAACATATAGCTACCACCCTGGTCAGATTCTTTTAATTCT
*
1528645 AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCTTGTTTAACATATAGCTACCAC
66 AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCCTGTTTAACATATAGCTACCAC
*
1528710 CCTA-TCAAACTTTTCTCATTTTGGT-ATGACGTATGGTTACCACCCTAGT
131 CCTAGTCAAACTTTTCTCATTTTGGTCA-AACGTATGGTTACCACCCTAGT
1528759 GAGATTCTTT
Statistics
Matches: 148, Mismatches: 30, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
217 1 0.01
218 35 0.24
219 112 0.76
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (219 bp):
TGGTCAAACTCTTCTCATTTCGATCTAACATATAGCTACCACCCTGGTCAGATTCTTTTAATTCT
AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCCTGTTTAACATATAGCTACCAC
CCTAGTCAAACTTTTCTCATTTTGGTCAAACGTATGGTTACCACCCTAGTCAAATCTTCCATCTT
CTATTTGACATATGGTTACCACAT
Found at i:1528788 original size:44 final size:43
Alignment explanation
Indices: 1528397--1529107 Score: 220
Period size: 44 Copynumber: 16.1 Consensus size: 43
1528387 AATGTATAGC
* * *
1528397 TACCACCCTGGTCAGATTCTTTTCA-TTCTGATTTGATGTATGGT
1 TACCACCCTAGTCA-AATCTTTTCATTTCT-ATTTGACGTATGGT
* * *** * * * *
1528441 TACCACCCTGGTTAAATCTGCCCCTTTCCTGTTTAATGTATGGT
1 TACCACCCTAGTCAAATCTTTTCATTT-CTATTTGACGTATGGT
* * *** * *
1528485 TACCACCCTAGTCAAACTTTTTTCATTT-TGGTCAAATGTATTGT
1 TACCACCCTAGTCAAA-TCTTTTCATTTCT-ATTTGACGTATGGT
** * * * * *
1528529 TACGTCCTTGGTCAAATC-TTCCCTCTTCTATTTGACATATGGT
1 TACCACCCTAGTCAAATCTTTTCAT-TTCTATTTGACGTATGGT
** * * * *
1528572 TACCACATTGGTCAAACTCTTCTT-ATTTCGATCTGACATATGGT
1 TACCACCCTAGTCAAA-TCTT-TTCATTTCTATTTGACGTATGGT
* * * * * * *
1528616 TACCACCTTGGTCAGATTTTTTTAATTT-TAATTTGACATATGAT
1 TACCACCCTAGTCA-AATCTTTTCATTTCT-ATTTGACGTATGGT
* *** ** * * * * *
1528660 TACCACCCTGGTCAAATCTGCCCCCTTCTTGTTTAACATATAGC
1 TACCACCCTAGTCAAATCTTTTCATTTC-TATTTGACGTATGGT
* *
1528704 TACCACCCTA-TCAAA-CTTTTCTCATTT-TGGTATGACGTATGGT
1 TACCACCCTAGTCAAATC-TTT-TCATTTCT-ATTTGACGTATGGT
* * * *
1528747 TACCACCCTAGTGAGATTCTTTTCATTTCTATTTGATGTATGGC
1 TACCACCCTAGTCA-AATCTTTTCATTTCTATTTGACGTATGGT
* * * * * * * *
1528791 TACTACCATGGTCAAATCTGCCTCCTTTTCTATTTGATGTATGAT
1 TACCACCCTAGTCAAATCT--TTTCATTTCTATTTGACGTATGGT
* * * * * *
1528836 TATCACCCTAGTCAAAATCTTCTCATTT-TGGTCTGACATATGGC
1 TACCACCCTAGTC-AAATCTTTTCATTTCT-ATTTGACGTATGGT
* * * * * * *
1528880 TACCACCCTGGTTAGATTCTTTTCATTCCGATTTGATGCATGGT
1 TACCACCCTAGTCA-AATCTTTTCATTTCTATTTGACGTATGGT
* * ** * * *
1528924 TAACACCCTGGTCAAATCTGCCTC-CTTCTTGTTTGACATATGGT
1 TACCACCCTAGTCAAATCT-TTTCATTTC-TATTTGACGTATGGT
* * * *
1528968 TACCACCCTAGTTAAACTCTTTTCAAGTT-AATTTGACGTATGGG
1 TACCACCCTAGTCAAA-TCTTTTC-ATTTCTATTTGACGTATGGT
* * * *
1529012 TACCACCACCTTAGTTAGACTCTTTTCATTCCTACTTGACGTATGGT
1 TACCA-C-CC-TAGTCA-AATCTTTTCATTTCTATTTGACGTATGGT
* * * *
1529059 TACCACCCTAGTCAAGCTCTTTTCATTCCTATTTGACGTGTGAT
1 TACCACCCTAGTCAA-ATCTTTTCATTTCTATTTGACGTATGGT
1529103 TACCA
1 TACCA
1529108 TTCTGGTCAA
Statistics
Matches: 484, Mismatches: 145, Indels: 76
0.69 0.21 0.11
Matches are distributed among these distances:
42 6 0.01
43 74 0.15
44 307 0.63
45 51 0.11
46 15 0.03
47 30 0.06
48 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (43 bp):
TACCACCCTAGTCAAATCTTTTCATTTCTATTTGACGTATGGT
Found at i:1528805 original size:219 final size:219
Alignment explanation
Indices: 1528361--1528806 Score: 486
Period size: 219 Copynumber: 2.0 Consensus size: 219
1528351 TAGTTGTATC
* ** *
1528361 TGGTCAAACTCTTCTCATTTCGGTCTAATGTATAGCTACCACCCTGGTCAGATTCTTTTCATTCT
1 TGGTCAAACTCTTCTCATTTCGATCTAACATATAGCTACCACCCTGGTCAGATTCTTTTAATTCT
* ** * * * ** * *
1528426 GATTTGATGTATGGTTACCACCCTGGTTAAATCTGCCCCTTTCCTGTTTAATGTATGGTTACCAC
66 AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCCTGTTTAACATATAGCTACCAC
* * * ** * * *
1528491 CCTAGTCAAACTTTTTTCATTTTGGTCAAATGTATTGTTACGTCCTTGGTCAAATCTTCCCTCTT
131 CCTAGTCAAACTTTTCTCATTTTGGTCAAACGTATGGTTACCACCCTAGTCAAATCTTCCATCTT
*
1528556 CTATTTGACATATGGTTACCACAT
196 CTATTTGACATATGGCTACCACAT
* * * * * * *
1528580 TGGTCAAACTCTTCTTATTTCGATCTGACATATGGTTACCACCTTGGTCAGATTTTTTTAATTTT
1 TGGTCAAACTCTTCTCATTTCGATCTAACATATAGCTACCACCCTGGTCAGATTCTTTTAATTCT
*
1528645 AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCTTGTTTAACATATAGCTACCAC
66 AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCCTGTTTAACATATAGCTACCAC
* * * *
1528710 CCTA-TCAAACTTTTCTCATTTTGGT-ATGACGTATGGTTACCACCCTAGTGAGATTCTTTTCAT
131 CCTAGTCAAACTTTTCTCATTTTGGTCA-AACGTATGGTTACCACCCTAGTCA-AATC-TTCCAT
** *
1528773 -TTCTATTTGATGTATGGCTACTACCA-
193 CTTCTATTTGACATATGGCTACCA-CAT
1528799 TGGTCAAA
1 TGGTCAAA
1528807 TCTGCCTCCT
Statistics
Matches: 185, Mismatches: 38, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
217 1 0.01
218 36 0.19
219 142 0.77
220 6 0.03
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (219 bp):
TGGTCAAACTCTTCTCATTTCGATCTAACATATAGCTACCACCCTGGTCAGATTCTTTTAATTCT
AATTTGACATATGATTACCACCCTGGTCAAATCTGCCCCCTTCCTGTTTAACATATAGCTACCAC
CCTAGTCAAACTTTTCTCATTTTGGTCAAACGTATGGTTACCACCCTAGTCAAATCTTCCATCTT
CTATTTGACATATGGCTACCACAT
Found at i:1528884 original size:133 final size:132
Alignment explanation
Indices: 1528707--1528950 Score: 355
Period size: 133 Copynumber: 1.8 Consensus size: 132
1528697 ATATAGCTAC
* * * *
1528707 CACCCTATCAAACTTTTCTCATTTTGGTATGACGTATGGTTACCACCCTAGTGAGATTCTTTTCA
1 CACCCTATCAAAATCTTCTCATTTTGGTATGACATATGGCTACCACCCTAGTGAGATTCTTTTCA
* * *
1528772 TTTCTATTTGATGTATGGCT-ACTACCATGGTCAAATCTGCCTCCTTTTCTATTTGATGTATGAT
66 TTCCGATTTGATGCATGGCTAAC-ACCATGGTCAAATCTGCCTCCTTTTCTATTTGATGTATGAT
1528836 TAT
130 TAT
* * *
1528839 CACCCTAGTCAAAATCTTCTCATTTTGGTCTGACATATGGCTACCACCCTGGTTAGATTCTTTTC
1 CACCCTA-TCAAAATCTTCTCATTTTGGTATGACATATGGCTACCACCCTAGTGAGATTCTTTTC
* *
1528904 ATTCCGATTTGATGCATGGTTAACACCCTGGTCAAATCTGCCTCCTT
65 ATTCCGATTTGATGCATGGCTAACACCATGGTCAAATCTGCCTCCTT
1528951 CTTGTTTGAC
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
132 7 0.07
133 89 0.91
134 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (132 bp):
CACCCTATCAAAATCTTCTCATTTTGGTATGACATATGGCTACCACCCTAGTGAGATTCTTTTCA
TTCCGATTTGATGCATGGCTAACACCATGGTCAAATCTGCCTCCTTTTCTATTTGATGTATGATT
AT
Found at i:1529391 original size:43 final size:42
Alignment explanation
Indices: 1529343--1529529 Score: 143
Period size: 41 Copynumber: 4.5 Consensus size: 42
1529333 TTTGCCTATT
* *
1529343 GACTCAGTCCCTAGTAAACTCCTTTACTTGTTGTTGACTTATC
1 GACTCAGTCCCTGGTAAACTCTTTTACTT-TTGTTGACTTATC
* ** * * *
1529386 GACTCAG-CCCTGGTCAAC-CTTTTATCCCTTATTTACCTATC
1 GACTCAGTCCCTGGTAAACTCTTTTA-CTTTTGTTGACTTATC
* *
1529427 GACTCAGTCCCTGGTGAACTCTTTTATCCTTTGTTGACTTATC
1 GACTCAGTCCCTGGTAAACTCTTTTA-CTTTTGTTGACTTATC
* * * * * *
1529470 GATTTA--CCCTGGTCAACT-TTTCA-TCTATGTTTACTTATC
1 GACTCAGTCCCTGGTAAACTCTTTTACT-TTTGTTGACTTATC
*
1529509 GGCTCAGTCCCTGGTAAACTC
1 GACTCAGTCCCTGGTAAACTC
1529530 CCTTACCGTT
Statistics
Matches: 113, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
39 15 0.13
40 4 0.04
41 44 0.39
42 20 0.18
43 30 0.27
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.39
Consensus pattern (42 bp):
GACTCAGTCCCTGGTAAACTCTTTTACTTTTGTTGACTTATC
Found at i:1529429 original size:41 final size:41
Alignment explanation
Indices: 1529373--1529587 Score: 165
Period size: 41 Copynumber: 5.2 Consensus size: 41
1529363 CCTTTACTTG
*
1529373 TTGTTGACTTATCGACTCAGCCCTGGTCAACCTTTTATCCC
1 TTGTTTACTTATCGACTCAGCCCTGGTCAACCTTTTATCCC
* * * *
1529414 TTATTTACCTATCGACTCAGTCCCTGGTGAACTCTTTTATCCT
1 TTGTTTACTTATCGACTCAG-CCCTGGTCAAC-CTTTTATCCC
* * *
1529457 TTGTTGACTTATCGATTTA-CCCTGGTCAA-CTTTTCAT--C
1 TTGTTTACTTATCGACTCAGCCCTGGTCAACCTTTT-ATCCC
* * ** *
1529495 TATGTTTACTTATCGGCTCAGTCCCTGGTAAACTCCCTTA-CCG
1 T-TGTTTACTTATCGACTCAG-CCCTGGTCAAC-CTTTTATCCC
* *
1529538 TT-TATTGACTTATC-AGTCTTGCCCTGGTCAACCTTTTATCCC
1 TTGT-TT-ACTTATCGACTC-AGCCCTGGTCAACCTTTTATCCC
1529580 TTGTTTAC
1 TTGTTTAC
1529588 CTATTGGCTT
Statistics
Matches: 132, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
38 1 0.01
39 19 0.14
40 2 0.02
41 42 0.32
42 32 0.24
43 36 0.27
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (41 bp):
TTGTTTACTTATCGACTCAGCCCTGGTCAACCTTTTATCCC
Found at i:1529461 original size:84 final size:83
Alignment explanation
Indices: 1529318--1529591 Score: 290
Period size: 84 Copynumber: 3.3 Consensus size: 83
1529308 CTTATCTGTT
* * * * *
1529318 ACCTTTGATTCCC-TATTTGCCTATTGACTCAGTCCCTAGTAAACTCCTTTACTTGTTGTTGACT
1 ACCTTTTA-TCCCTTATTTACCTATCGACTCAGTCCCTGGTAAACTCCTTTACCT-TTGTTGACT
1529382 TATCGACTCAGCCCTGGTCA
64 TATCGACTCAGCCCTGGTCA
* *
1529402 ACCTTTTATCCCTTATTTACCTATCGACTCAGTCCCTGGTGAACTCTTTTATCCTTTGTTGACTT
1 ACCTTTTATCCCTTATTTACCTATCGACTCAGTCCCTGGTAAACTCCTTTA-CCTTTGTTGACTT
* *
1529467 ATCGATTTA-CCCTGGTCA
65 ATCGACTCAGCCCTGGTCA
* * * * *
1529485 A-CTTTTCAT--CTATGTTTACTTATCGGCTCAGTCCCTGGTAAACTCCCTTACCGTTTATTGAC
1 ACCTTTT-ATCCCT-TATTTACCTATCGACTCAGTCCCTGGTAAACTCCTTTACC-TTTGTTGAC
* *
1529547 TTATC-AGTCTTGCCCTGGTCA
63 TTATCGACTC-AGCCCTGGTCA
*
1529568 ACCTTTTATCCCTTGTTTACCTAT
1 ACCTTTTATCCCTTATTTACCTAT
1529592 TGGCTTAGTC
Statistics
Matches: 160, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
81 6 0.04
82 50 0.31
83 28 0.17
84 72 0.45
85 4 0.03
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (83 bp):
ACCTTTTATCCCTTATTTACCTATCGACTCAGTCCCTGGTAAACTCCTTTACCTTTGTTGACTTA
TCGACTCAGCCCTGGTCA
Found at i:1531499 original size:24 final size:24
Alignment explanation
Indices: 1531467--1531513 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1531457 CAAAATTAAA
*
1531467 TAAAAAGAAAAAGTAA-AAAAAAG
1 TAAAAAGAAAAAGGAATAAAAAAG
*
1531490 TAAAATAGAATAAGGAATAAAAAA
1 TAAAA-AGAAAAAGGAATAAAAAA
1531514 TGAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 9 0.45
25 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (24 bp):
TAAAAAGAAAAAGGAATAAAAAAG
Found at i:1533065 original size:155 final size:155
Alignment explanation
Indices: 1532854--1533200 Score: 378
Period size: 155 Copynumber: 2.2 Consensus size: 155
1532844 CACCAAGTCT
* * * * * *
1532854 GCTTTTATGCCGAAGGTGAGTATTTAGGATAGGTCCATCCCTTTTAAAATCCTTTTTAAGTCTTT
1 GCTTTTATGCCAAAGGTGAGTATTTAGGATAGGTTCACCCCATCTAAAATCATTTTTAAGTCTTT
* * * * **
1532919 TAGGGGTATCGAGTACTTTTA-CGTCAAAGGTTTC-TCTAGGGGCATTTTTTTAA-TTTCTTTAG
66 TAGGAGT-TCGAGTACTTCTATC-TCAAAGGTATCTTCTAAGGGCATTTTAGTAATTTTC-TTAG
* * *
1532981 AATCGAGTCCTAGGTTGTCA-CTAGGTCC
128 AATAGAGCCCAAGGTTGTCATCT-GGTCC
* * * *
1533009 GCTTTTATACCAAAGGTGGGTATTTAGCATAGGTTCACCCCATCTATAATCATTTTTAAGTCTTT
1 GCTTTTATGCCAAAGGTGAGTATTTAGGATAGGTTCACCCCATCTAAAATCATTTTTAAGTCTTT
* * * *
1533074 TAGGAGTTTGGGTACTTCTATCTCGAAGGTATCTTCTAAGGGTATTTTAGTAATTTTCTTAGAAT
66 TAGGAGTTCGAGTACTTCTATCTCAAAGGTATCTTCTAAGGGCATTTTAGTAATTTTCTTAGAAT
*
1533139 AGAGCCCAAGGTTGTCATCTGGTCT
131 AGAGCCCAAGGTTGTCATCTGGTCC
* * * *
1533164 GCTTCTATGCCAAAGGTGTGCATTTAGGATAGATTCA
1 GCTTTTATGCCAAAGGTGAGTATTTAGGATAGGTTCA
1533201 TCCTTTTACC
Statistics
Matches: 158, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
154 19 0.12
155 133 0.84
156 6 0.04
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (155 bp):
GCTTTTATGCCAAAGGTGAGTATTTAGGATAGGTTCACCCCATCTAAAATCATTTTTAAGTCTTT
TAGGAGTTCGAGTACTTCTATCTCAAAGGTATCTTCTAAGGGCATTTTAGTAATTTTCTTAGAAT
AGAGCCCAAGGTTGTCATCTGGTCC
Found at i:1543512 original size:52 final size:50
Alignment explanation
Indices: 1543395--1543777 Score: 245
Period size: 51 Copynumber: 7.4 Consensus size: 50
1543385 AATTCTCCGC
* * * *
1543395 AATCGGGGATATTCTC-ACTCCGATTTTATTTTCGAAACACTAATTTTCTAT
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCCAAAACACCAATTTTC-AT
*
1543446 AAACGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAGTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAA-TTTTCAT
* ***** * * ***
1543498 AATCGAGGATACTCCAAC-CTCG-TTGTCTCATCGGGGATACTCCAA-CCCCATT
1 AATCGGGGATACTCCAACTC-CGATT-T-T-ATTTCCAAAACACCAATTTTCA-T
* * ** * * ***
1543550 ACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTCTTCAT
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT-TTCAT
* * *
1543605 AATCGGGGATACTCCAAC-CTCGATTTTATTTCTAAAACACTAATTTTTCAG
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAACACCAA-TTTTCAT
* * * *
1543656 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTTC-AT
*
1543708 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAA-TTTTCAT
*
1543760 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1543778 CTTGTTATTT
Statistics
Matches: 256, Mismatches: 55, Indels: 41
0.73 0.16 0.12
Matches are distributed among these distances:
50 2 0.01
51 110 0.43
52 81 0.32
53 31 0.12
54 9 0.04
55 3 0.01
56 18 0.07
57 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCAT
Found at i:1543621 original size:51 final size:51
Alignment explanation
Indices: 1543558--1543778 Score: 262
Period size: 51 Copynumber: 4.3 Consensus size: 51
1543548 TTACCTCCGA
** * * * * *
1543558 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTCTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * *
1543609 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCAGAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * * *
1543660 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * *
1543712 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
*
1543764 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1543779 TTGTTATTTC
Statistics
Matches: 144, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
51 81 0.56
52 47 0.33
53 16 0.11
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:1543738 original size:103 final size:103
Alignment explanation
Indices: 1543558--1543778 Score: 293
Period size: 102 Copynumber: 2.1 Consensus size: 103
1543548 TTACCTCCGA
* ***
1543558 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTCTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAACACCAATTCTTCATAATCGGGGATACTCCAAC
* * *
1543623 CTCGATTTTATTT-CTAAAACACTAATTTTTCAGAATC
66 CTCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
* ** * *
1543660 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCTTTAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAACACCAATTCTTC-ATAATCGGGGATACTCCAA
1543725 -CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
65 CCT-CGATTTTATTTCCAAAAACACCAATTTTTCACAATC
*
1543764 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1543779 TTGTTATTTC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
102 39 0.38
103 29 0.28
104 35 0.34
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
GGGGATACTCCAACCCCGGCTTTATTCCCAAAACACCAATTCTTCATAATCGGGGATACTCCAAC
CTCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
Found at i:1543797 original size:28 final size:28
Alignment explanation
Indices: 1543761--1543835 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
1543751 ATTTTTCACA
* **
1543761 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCTTGTTACCTC
*
1543789 ATCGGGGATACTCCAACCCTGTTACCTC
1 ATCGGGGATACTCCAACCTTGTTACCTC
***
1543817 CGAGGGGATACTCCAACCT
1 ATCGGGGATACTCCAACCT
1543836 CTGCTTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTTGTTACCTC
Found at i:1556378 original size:1 final size:1
Alignment explanation
Indices: 1556367--1556426 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
1556357 TTTTCTCTTC
* * * * * * *
1556367 AAAAAAGAAAAAAAAAACAAAAAAAACAAAAAAAAACAAAACAAAGAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1556427 TCTGCTTAAG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:1556382 original size:10 final size:10
Alignment explanation
Indices: 1556367--1556426 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
1556357 TTTTCTCTTC
1556367 AAAAAAGAAA
1 AAAAAAGAAA
1556377 AAAAAA-ACAA
1 AAAAAAGA-AA
*
1556387 AAAAAACAAA
1 AAAAAAGAAA
*
1556397 AAAAAA-CAA
1 AAAAAAGAAA
*
1556406 AACAAAG-AA
1 AAAAAAGAAA
1556415 AAAAAAGAAA
1 AAAAAAGAAA
1556425 AA
1 AA
1556427 TCTGCTTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
9 16 0.37
10 26 0.60
11 1 0.02
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:1556391 original size:19 final size:19
Alignment explanation
Indices: 1556367--1556420 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1556357 TTTTCTCTTC
1556367 AAAAAAGAAAAAAAAAACA
1 AAAAAAGAAAAAAAAAACA
1556386 AAAAAA-ACAAAAAAAAACA
1 AAAAAAGA-AAAAAAAAACA
1556405 AAACAAAGAAAAAAAA
1 AAA-AAAGAAAAAAAA
1556421 GAAAAATCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.03
19 20 0.62
20 10 0.31
21 1 0.03
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAACA
Found at i:1557617 original size:175 final size:175
Alignment explanation
Indices: 1557396--1558166 Score: 1084
Period size: 175 Copynumber: 4.4 Consensus size: 175
1557386 GCTTTTTAGC
* *
1557396 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
1 CCTCAAAGAGCGGGATGCCTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
*
1557461 AAGAGCAGGACACCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
65 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
1557526 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
130 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
*
1557572 CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTTCTCAA
1 CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
** *
1557637 AGAGCAGGACACCTTTTAAAGCCCATTCAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAT
66 AGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
*
1557702 GCCTTCTCCTTTTAAAGTCCACACAAGTTGGTGGCATTTTCCAGT
131 GCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
* * * *
1557747 CCTCAAAGAGTGAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTC-GTCCCC
1 CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACC--TTCAGTCCTC
* * * *
1557811 AAGGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCTTCAAAGAGTAGG
64 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
1557876 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
129 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
*
1557923 CCTCAAAGAGCGGGATGCCTTTTCATTT-AAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCA
1 CCTCAAAGAGCGGGATGCCTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* * * *
1557987 AAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
65 AAGAGCAGGACACC---T-TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAG
* *
1558052 CAGGAC-AC--CT-C--TTAAAGCCCACACAAGTTGGTGGCACTTTT-TAGT
125 CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
* * * * * *
1558097 CCTCAAAGAGCAGGACG-C----CTATCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCA
1 CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCA
1558157 AAGAGCAGGA
65 AAGAGCAGGA
1558167 TACACTTTAT
Statistics
Matches: 540, Mismatches: 43, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
168 2 0.00
169 24 0.04
170 18 0.03
173 1 0.00
174 45 0.08
175 216 0.40
176 177 0.33
177 8 0.01
178 1 0.00
179 4 0.01
180 44 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (175 bp):
CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
AGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
GCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
Found at i:1557700 original size:55 final size:55
Alignment explanation
Indices: 1557419--1558166 Score: 750
Period size: 55 Copynumber: 13.0 Consensus size: 55
1557409 GATGCCTTTT
* *
1557419 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* *
1557473 CCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* * *
1557528 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATG
1 ------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* * *
1557589 CCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTTCTCAAAGAGCAGGACA
1 CC---T-TTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
** * *
1557648 CCTTTTAAAGCCCATTCAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA------CG
* * *
1557709 CCTTTTAAAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG-TGAGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAG-GACG
* * * *
1557764 CCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTC-GTCCCCAAGGAGCAGGACC
1 CC---T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACG
* * *
1557824 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCTTCAAAGAGTAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* * *
1557879 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATG
1 ------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* *
1557940 CCTTTTCATTTAAAGCCCACACAAGTTGGTGGCAC-CTCCAGTCCTCAAAGAGCGGGACG
1 CC---T--TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* *
1557999 CCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CC---T-TTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* **
1558059 CCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* * * **
1558114 CCTATCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
1558167 TACACTTTAT
Statistics
Matches: 589, Mismatches: 64, Indels: 81
0.80 0.09 0.11
Matches are distributed among these distances:
54 57 0.10
55 180 0.31
56 6 0.01
57 2 0.00
58 6 0.01
59 76 0.13
60 112 0.19
61 150 0.25
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
Found at i:1557837 original size:290 final size:288
Alignment explanation
Indices: 1557396--1558167 Score: 961
Period size: 290 Copynumber: 2.6 Consensus size: 288
1557386 GCTTTTTAGC
**
1557396 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTC
1 CCTCAAAGAGCAGGATGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* **
1557460 AAAGAGCAGGACACCT-TTTAAAGCCTACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCA
65 AAAGAGCAGGACACCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTC-GTCCTCAAAGAGCA
*
1557523 GGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGAT
129 GGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
* *
1557588 GCCTT-TTCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTTCTCAAAGAGCAGGACACC-
188 GCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCT
** *
1557650 T-TTTAAAGCCCATTCAAGTTGGTGGCACTTCCCAGT
253 TATTTAAAGCCCACACAAGTTGGTGGCACCT-CCAGT
*
1557686 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 CCTCAAAGAGCAGGATGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * * *
1557751 AAAGAG-TGAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTCGTCCCCAAGG
65 AAAGAGCAG-GACACC---TCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTCGTCCTCAAAG
* * * * *
1557815 AGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCTTCAAAGAGTAGGACGC
125 AGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC
* ** * **
1557880 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCCTTT
190 CTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACC--T
1557945 TCATTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
253 T-ATTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* * * *
1557982 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
1 CCTCAAAGAGCAGGATGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* *
1558047 AAGAGCAGGACACCTC-TTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG
66 AAGAGCAGGACACCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTCGTCCTCAAAGAGCAGG
* * * * *
1558111 ACGCCTATCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGAT
131 ACCCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAT
1558168 ACACTTTATT
Statistics
Matches: 416, Mismatches: 48, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
289 2 0.00
290 190 0.46
291 54 0.13
292 21 0.05
293 1 0.00
294 1 0.00
295 55 0.13
296 62 0.15
297 30 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (288 bp):
CCTCAAAGAGCAGGATGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCAGGACACCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTCGTCCTCAAAGAGCAGG
ACCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTC
CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTATTTAAA
GCCCACACAAGTTGGTGGCACCTCCAGT
Found at i:1559876 original size:21 final size:21
Alignment explanation
Indices: 1559852--1559928 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
1559842 AAATTTTCCA
* *
1559852 AATGTATCGATGCATTTGTAG
1 AATGTATCGATACATTTATAG
*
1559873 AATGTATCGATACATTTATGG
1 AATGTATCGATACATTTATAG
*
1559894 AATGTATCGATACATTCTACA-
1 AATGTATCGATACATT-TATAG
*
1559915 AATATATCGATACA
1 AATGTATCGATACA
1559929 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 47 0.96
22 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTATAG
Found at i:1559989 original size:19 final size:19
Alignment explanation
Indices: 1559965--1560018 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
1559955 TTTCAGCGAT
*
1559965 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATA
*
1559984 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
1560003 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1560019 TTAGCTACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAATA
Found at i:1560076 original size:13 final size:13
Alignment explanation
Indices: 1560058--1560083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1560048 CATTTTTCTG
1560058 TGTATCGATACAT
1 TGTATCGATACAT
1560071 TGTATCGATACAT
1 TGTATCGATACAT
1560084 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1560101 original size:34 final size:33
Alignment explanation
Indices: 1560038--1560104 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1560028 GCCAAGGGAA
*
1560038 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
1560071 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
1560105 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:1562458 original size:51 final size:52
Alignment explanation
Indices: 1562402--1562784 Score: 244
Period size: 51 Copynumber: 7.3 Consensus size: 52
1562392 AATTCTCCAC
* * * *
1562402 AATCGGGGATATTCTC-ACTCTGATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
1562453 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * * *** * * * * *
1562505 AATCGAGGATACTCCAAC-CTCG-TTGTCTCATCGGGGATACTCCAATCCCGTTACCT
1 AATCGGGGATACTCCAACTC-CGATTTTAT-TTC-CAAAAACACCAAT---TTTTCAT
**** * ** * * *** **
1562561 CCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTCCTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * *
1562612 AATCGGGGATACTCCAAC-CTCGGTTTTATTT-CTAAAACACTAATTTTTCAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * *
1562663 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
* *
1562715 AATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
*
1562767 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1562785 CTTGTTATTT
Statistics
Matches: 253, Mismatches: 62, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
50 2 0.01
51 111 0.44
52 84 0.33
53 28 0.11
54 4 0.02
55 2 0.01
56 19 0.08
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:1562819 original size:28 final size:28
Alignment explanation
Indices: 1562768--1562844 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
1562758 ATTTTTCACA
* ** **
1562768 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
1562796 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
1562824 --CGAGGGCATACTCCAACCCCG
1 ATCG-GGG-ATACTCCAACCCCG
1562845 GCTTTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 37 0.88
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:1562863 original size:262 final size:261
Alignment explanation
Indices: 1562399--1562892 Score: 819
Period size: 262 Copynumber: 1.9 Consensus size: 261
1562389 CTCAATTCTC
* * * * *
1562399 CACAATCGGGGATATTCTCACTCTGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCTCACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATA
*
1562464 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGAGGATACTCCAACCTCGTT
66 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
* * *
1562529 GTCTCATCGGGGATACTCCAATCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
131 ATCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGCATACTCCAACCCCGGCTTTATTCCC
*
1562594 AAAATATTGATTCCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
196 AAAATATTGATTCCTCATAATCGGGAATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
1562659 T
261 T
*
1562660 CACAATCGGGGATACTC-CAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGA
1 CACAATCGGGGATACTCTC-ACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGA
*
1562724 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTTG
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCG
* *
1562789 TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGCATACTCCAACCCCGGCTTTATTT
129 TTATCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGCATACTCCAACCCCGGCTTTATTC
* *
1562854 CCAAAATATTGATTTCTCATAATTGGGAATACTCCAACC
194 CCAAAATATTGATTCCTCATAATCGGGAATACTCCAACC
1562893 CCGTTATTTC
Statistics
Matches: 215, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
260 1 0.00
261 44 0.20
262 170 0.79
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (261 bp):
CACAATCGGGGATACTCTCACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
ATCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGCATACTCCAACCCCGGCTTTATTCCC
AAAATATTGATTCCTCATAATCGGGAATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
T
Found at i:1562947 original size:79 final size:79
Alignment explanation
Indices: 1562798--1563023 Score: 206
Period size: 82 Copynumber: 2.8 Consensus size: 79
1562788 GTTATTTCAT
* ** * * *
1562798 CGGGGATACTCCAACCCCGTTACCTCCGAGGGCATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCC-GATTTATTTCCAAAATAT
* * *
1562863 TGA-TTTCTCATAAT
65 CGATTTTCTCACAAC
* * * *
1562877 TGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGATTCTATTTTC-TAATCA
1 CGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATT-TATTTCCAAAAT-A
*
1562941 TCGATTTTTTTTCACAAC
64 TCGA--TTTTCTCACAAC
* * * *
1562959 CGGGGATACTCCAACCCCGTTATTT-TCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATA
1 CGGGAATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGAT-TTATTTCCAAAATA
1563023 T
64 T
1563024 TAAATTTCTC
Statistics
Matches: 117, Mismatches: 22, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
78 6 0.05
79 49 0.42
81 1 0.01
82 57 0.49
83 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (79 bp):
CGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTATTTCCAAAATATC
GATTTTCTCACAAC
Found at i:1564445 original size:20 final size:22
Alignment explanation
Indices: 1564410--1564453 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
1564400 GCAGTGGGTA
1564410 TGGGAGCTGCCCGATTGCGACC
1 TGGGAGCTGCCCGATTGCGACC
*
1564432 TGGGAG-TG-CCGATTGTGACC
1 TGGGAGCTGCCCGATTGCGACC
1564452 TG
1 TG
1564454 AAGGTGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.14, C:0.25, G:0.39, T:0.23
Consensus pattern (22 bp):
TGGGAGCTGCCCGATTGCGACC
Found at i:1564749 original size:22 final size:21
Alignment explanation
Indices: 1564714--1564763 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1564704 TTTATTGATG
*
1564714 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
1564734 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
1564755 AATTTGAAG
1 ATTTTGAAG
1564764 AAGATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:1564760 original size:21 final size:22
Alignment explanation
Indices: 1564721--1564763 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1564711 ATGATTTTGA
* *
1564721 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1564743 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1564764 AAGATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1569318 original size:20 final size:20
Alignment explanation
Indices: 1569293--1569346 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
1569283 GTTGGAAGCA
1569293 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ATC
1569313 ATGTATCGATACAATGTATC
1 ATGTATCGATACAATGTATC
1569333 ATGTATCGATACAA
1 ATGTATCGATACAA
1569347 ACAGTGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Found at i:1570093 original size:27 final size:27
Alignment explanation
Indices: 1570055--1570109 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
1570045 TTGGTTAAAG
1570055 AGATTTTCTCCCCCTAGATAAAAATTT
1 AGATTTTCTCCCCCTAGATAAAAATTT
*
1570082 AGATTTTCTCCCCCTTGATAAAAATTT
1 AGATTTTCTCCCCCTAGATAAAAATTT
1570109 A
1 A
1570110 TTTTCATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
AGATTTTCTCCCCCTAGATAAAAATTT
Found at i:1576585 original size:79 final size:77
Alignment explanation
Indices: 1576454--1576700 Score: 273
Period size: 79 Copynumber: 3.1 Consensus size: 77
1576444 ACGACGAGGC
* * * *
1576454 TGGAGTACCCCTGATTATGGAAAATTGGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCTGATTAT-GAAAATTGGTGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTC
1576519 GGAAATAATAGGGT
65 GGAAATAA-AGGGT
*
1576533 TGGAGTATCCCTAATTATAGAAAATTGGTGTTTT-GAAAATAAAATCAGGGTTGGAGTATCCCCT
1 TGGAGTATCCCTGATTAT-GAAAATTGGTGTTTTAG-AAATAAAATCAGGGTTGGAGTATCCCCT
**
1576597 CAAAAATAAAGGGGT
64 CGGAAATAAA-GGGT
* *** * * * *
1576612 TGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAAT-AAAGCCGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTGATTATGA-AAATTGGTGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTC
*
1576676 GGAAATAACGGGGT
65 GGAAATAA-AGGGT
1576690 TGGAGTATCCC
1 TGGAGTATCCC
1576701 CGATGATTAA
Statistics
Matches: 143, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
78 47 0.33
79 95 0.66
80 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (77 bp):
TGGAGTATCCCTGATTATGAAAATTGGTGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCG
GAAATAAAGGGT
Found at i:1579054 original size:20 final size:21
Alignment explanation
Indices: 1579029--1579071 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
1579019 AAAATGCCTG
1579029 AATGTATCGATACAT-TGGGT
1 AATGTATCGATACATCTGGGT
1579049 AATGTATCGATACATCTGGGT
1 AATGTATCGATACATCTGGGT
1579070 AA
1 AA
1579072 AATTTTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATCTGGGT
Found at i:1579125 original size:21 final size:21
Alignment explanation
Indices: 1579101--1579142 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1579091 ACAAAAGATC
1579101 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1579122 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1579143 GGTAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1579191 original size:19 final size:19
Alignment explanation
Indices: 1579167--1579248 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
1579157 AGCGATACAT
*
1579167 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
1579186 TGTATCGAT---ACAC-TA
1 TGTATCGATACAACACTTA
1579201 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1579218 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1579237 TGTATCGATACA
1 TGTATCGATACA
1579249 TTTACTGTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
13 7 0.12
15 2 0.04
16 7 0.12
17 2 0.04
19 38 0.68
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1579205 original size:32 final size:32
Alignment explanation
Indices: 1579159--1579229 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1579149 AGCTTCGTAG
* *
1579159 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACACTATATCGATACAAAACTTATGTAT
*
1579191 CGATACACTATATCGATACAACACTTATGTAT
1 CGATACACTATATCGATACAAAACTTATGTAT
1579223 CGATACA
1 CGATACA
1579230 ACACTTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (32 bp):
CGATACACTATATCGATACAAAACTTATGTAT
Found at i:1582262 original size:19 final size:19
Alignment explanation
Indices: 1582210--1582265 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1582200 CTGCCAGTTT
**
1582210 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
* *
1582230 CATATATTGATACAATGAA
1 CATGTATCGATACAATGAA
1582249 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1582266 TATCGGTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1584922 original size:55 final size:55
Alignment explanation
Indices: 1584838--1585229 Score: 511
Period size: 55 Copynumber: 6.9 Consensus size: 55
1584828 TAGTGCATCT
* *
1584838 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * **
1584893 TGCTCTTTGAGGACT-GAAAGGTGTCACCAACTCATGTGGGCTTTGAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
* *
1584954 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCC
* *
1585015 TGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
1585070 TACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1585125 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1585180 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG
1585230 AAAAGGCGTC
Statistics
Matches: 306, Mismatches: 17, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
54 4 0.01
55 193 0.63
56 6 0.02
60 5 0.02
61 94 0.31
62 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:1585062 original size:28 final size:28
Alignment explanation
Indices: 1585031--1585172 Score: 87
Period size: 28 Copynumber: 5.1 Consensus size: 28
1585021 TTGAGAACTG
1585031 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* * * * * *
1585059 G-AAA-GGCATCCTACTCTTTGAGGAC-TG
1 GAAAATGCCA-CCAACT-TGTGTGGGCTTT
1585086 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** ** * * * *
1585114 -AAAAGGCGTCCTGCTCTTTGAGGAC-TG
1 GAAAATGCCACCAACT-TGTGTGGGCTTT
1585141 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
1585169 GAAA
1 GAAA
1585173 GGCGTCCTGC
Statistics
Matches: 76, Mismatches: 30, Indels: 16
0.62 0.25 0.13
Matches are distributed among these distances:
26 3 0.04
27 33 0.43
28 37 0.49
29 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1596164 original size:4 final size:4
Alignment explanation
Indices: 1596155--1596179 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1596145 AAAACAAAAC
1596155 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1596180 CCTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1598389 original size:79 final size:79
Alignment explanation
Indices: 1598271--1598581 Score: 231
Period size: 79 Copynumber: 3.9 Consensus size: 79
1598261 AGTACCCCTG
* ***
1598271 ATTATGGAAAATCGGTGTTTTGAAAATAAAATCGAGGTTGGAGTATTCC-CTTGGAAATAACAGG
1 ATTATAGAAAATCGGTGTTTTGAAAATAAAATCGAGGTTGGAGTA-TCCTCTCAAAAATAACAGG
1598335 GTTGGAGTATACCTA
65 GTTGGAGTATACCTA
*
1598350 ATTATAGAAAATTGGTGTTTTGAAAATAAAATC-AGGGTTGGAGTATCCTCTCAAAAATAACAGG
1 ATTATAGAAAATCGGTGTTTTGAAAATAAAATCGA-GGTTGGAGTATCCTCTCAAAAATAACAGG
* **
1598414 GTTGGAGTATCCCCG
65 GTTGGAGTATACCTA
* ** * * ** * * * *
1598429 ATTA-CGAGAAATCAATATTTT-AGGAATAAAGCCGGGGCTGGAGTATCCCCTCAGAAATAACAG
1 ATTATAGA-AAATCGGTGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCTCTCAAAAATAACAG
* **
1598492 GGTTGGAGTATCCCCG
64 GGTTGGAGTATACCTA
** * * ** * * *
1598508 ATTAT-GAGAAATCAATATTTT-AGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAAC-G
1 ATTATAGA-AAATCGGTGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCTCTCAAAAATAACAG
1598570 GGATTGGAGTAT
64 GG-TTGGAGTAT
1598582 CCCCGATGAT
Statistics
Matches: 202, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
78 10 0.05
79 192 0.95
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
ATTATAGAAAATCGGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCTCTCAAAAATAACAGGG
TTGGAGTATACCTA
Found at i:1598582 original size:79 final size:78
Alignment explanation
Indices: 1598384--1598588 Score: 340
Period size: 79 Copynumber: 2.6 Consensus size: 78
1598374 AATAAAATCA
*
1598384 GGGTTGGAGTATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTC-AAAATAACAGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTT
1598449 TAGGAATAAAGCCG
65 TAGGAATAAAGCCG
* *
1598463 GGGCTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCA-AAATAACAGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTT
1598528 TAGGAATAAAGCCG
65 TAGGAATAAAGCCG
1598542 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGATTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTC-AAAATAACAGGG-TTGGAGTATCCCCGAT
1598589 GATTAACGGG
Statistics
Matches: 119, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
78 4 0.03
79 114 0.96
80 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCAAAATAACAGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTTT
AGGAATAAAGCCG
Found at i:1600952 original size:13 final size:13
Alignment explanation
Indices: 1600936--1600997 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
1600926 TACAAAAGAT
1600936 CAATGTATCGATA
1 CAATGTATCGATA
1600949 CAATGTATCGATA
1 CAATGTATCGATA
*
1600962 C-AT-T-TC-CT-
1 CAATGTATCGATA
*
1600970 TAATGTATCGATA
1 CAATGTATCGATA
1600983 CAATGTATCGATA
1 CAATGTATCGATA
1600996 CA
1 CA
1600998 TTTCCTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 3 0.08
12 3 0.08
13 28 0.70
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1600955 original size:34 final size:34
Alignment explanation
Indices: 1600917--1600997 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
1600907 AAATTTTCAG
* *
1600917 ATGTATCAATACAAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAACATCAATGTATCGATACA
*** * *
1600951 ATGTATCGATACATTTCCTTAATGTATCGATACA
1 ATGTATCGATACAAAACATCAATGTATCGATACA
1600985 ATGTATCGATACA
1 ATGTATCGATACA
1600998 TTTCCTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (34 bp):
ATGTATCGATACAAAACATCAATGTATCGATACA
Found at i:1600998 original size:34 final size:34
Alignment explanation
Indices: 1600937--1601018 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
1600927 ACAAAAGATC
1600937 AATGTATCGATACAATGTATCGATACATTTCCTT
1 AATGTATCGATACAATGTATCGATACATTTCCTT
1600971 AATGTATCGATACAATGTATCGATACATTTCCTT
1 AATGTATCGATACAATGTATCGATACATTTCCTT
1601005 AATGTATCGATACA
1 AATGTATCGATACA
1601019 TTTCCTTGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (34 bp):
AATGTATCGATACAATGTATCGATACATTTCCTT
Found at i:1601010 original size:21 final size:21
Alignment explanation
Indices: 1600984--1601025 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1600974 GTATCGATAC
1600984 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1601005 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1601026 GGTAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1601074 original size:19 final size:19
Alignment explanation
Indices: 1601050--1601135 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
1601040 AACAATACAT
1601050 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1601069 TGTATCGATAC---AC-TA
1 TGTATCGATACAAAACTTA
*
1601084 --TATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1601101 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
1601122 TGTATCGATACAAA
1 TGTATCGATACAAA
1601136 TTGTTTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.17
15 2 0.04
16 4 0.07
17 2 0.04
19 21 0.39
20 3 0.06
21 13 0.24
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1601088 original size:32 final size:32
Alignment explanation
Indices: 1601052--1601112 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
1601042 CAATACATTG
1601052 TATCGATACAAAACTTATGTATCGATACACTA
1 TATCGATACAAAACTTATGTATCGATACACTA
*
1601084 TATCGATACAACACTTATGTATCGATACA
1 TATCGATACAAAACTTATGTATCGATACA
1601113 TTTACTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (32 bp):
TATCGATACAAAACTTATGTATCGATACACTA
Found at i:1604161 original size:19 final size:19
Alignment explanation
Indices: 1604111--1604166 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1604101 CTGCCAGTTT
*
1604111 CATGTATCGATACAATTGTA
1 CATGTATCGATACAA-TGAA
* *
1604131 CATATATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
1604150 CATGTATCGATATAATG
1 CATGTATCGATACAATG
1604167 TATCAATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1607055 original size:13 final size:13
Alignment explanation
Indices: 1607037--1607061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1607027 ACAATGAACA
1607037 TGTATCGATACAT
1 TGTATCGATACAT
1607050 TGTATCGATACA
1 TGTATCGATACA
1607062 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1607078 original size:33 final size:32
Alignment explanation
Indices: 1607018--1607082 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1607008 GCCAGTTTCA
*
1607018 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
1607050 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
1607083 CTAGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:1608267 original size:164 final size:162
Alignment explanation
Indices: 1608097--1608527 Score: 578
Period size: 165 Copynumber: 2.6 Consensus size: 162
1608087 CAATTTTTTG
*
1608097 GAAAAAAGAGAATTTCAAGAAAAAATTTAAAAACTCATGAAAATGAATTAATTTTTAAAAACTTA
1 GAAAAAAGAGAATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTAAAAA-TTA
* ** *
1608162 TTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAATTAAGAAAAATCCCCC
65 TTTAATATGAAAAAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCAC
* **
1608227 TAAAAAAATTATGAAGTAGAAAACAACGTATTTC
130 -AAAAAAAATACAAAGTAGAAAACAACGTATTTC
* *
1608261 GAAAAAAGGAAAATTTCAA-AGAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAATT
1 GAAAAAA-GAGAATTTCAAGA-AAAAATTCAAAAACTCATGAAAATGAATTAATTTTTAAAAATT
* * *
1608325 GATTTAATTTGAAAAAAATAATAATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCC
64 -ATTTAATATGAAAAAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCC
* **
1608390 ACAAAAAAAATACAAAGTAGAAAATAATTTATTTC
128 ACAAAAAAAATACAAAGTAGAAAACAACGTATTTC
* *
1608425 G-AAAAAGGGAAATTTCAAGAAAAAAATTCAAAAACTCATAAAAATGAATTAATTTTTAAAAAAT
1 GAAAAAAGAG-AATTTCAAG-AAAAAATTCAAAAACTCATGAAAATGAATTAATTTTT-AAAAAT
* * * *
1608489 AATTTACTATGAAACAAATATTAATATTTGATAAATTTT
63 TATTTAATATGAAAAAAATAATAATATTTGATAAATTTT
1608528 TATATTTGAA
Statistics
Matches: 234, Mismatches: 26, Indels: 14
0.85 0.09 0.05
Matches are distributed among these distances:
162 1 0.00
163 13 0.06
164 106 0.45
165 114 0.49
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.30
Consensus pattern (162 bp):
GAAAAAAGAGAATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTAAAAATTAT
TTAATATGAAAAAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCACA
AAAAAAATACAAAGTAGAAAACAACGTATTTC
Found at i:1608320 original size:18 final size:19
Alignment explanation
Indices: 1608299--1608334 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1608289 CAAAAACTCA
1608299 TGAAAA-TGAATTAATTTT
1 TGAAAATTGAATTAATTTT
*
1608317 TGAAAATTGATTTAATTT
1 TGAAAATTGAATTAATTT
1608335 GAAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
TGAAAATTGAATTAATTTT
Found at i:1613949 original size:167 final size:169
Alignment explanation
Indices: 1613585--1613993 Score: 472
Period size: 167 Copynumber: 2.4 Consensus size: 169
1613575 TGGAAATCAA
* * *
1613585 AAAAGATACGAAAAGTTTTGAAACCTTTTATACCCTTACGGACCCCCACAGGAATATAAAAGATT
1 AAAAGATACGAAAAGTTTTGAAATCTTTTATACCC-TACGGACCCCAATAGGAATATAAAAGATT
* *
1613650 AGAAAAGAAATGATTAAAGTTTGTCTCAATTCCAAGAGTGTTAATTTAATTTAATTTAATTTATT
65 AGAAAAGAAATGATTAAAATTTATCTCAATTCCAAGAGTGTTAATTTAATTTAATTTAATTTATT
** * * *
1613715 TATTTTTGAAAATACTATTTTGTATCTTAATGGAAGCCCG
130 TATTTTAAAAAATACTATTTCGTACCTTAATGAAAGCCCG
* * * * ** *
1613755 AAAAGTTACGAAAATTTTTTAAAATCTTTTATATCCCTACAGATGCCTATAGGAATATAAAAGAT
1 AAAAGATACGAAAA-GTTTTGAAATCTTTTATA-CCCTACGGACCCCAATAGGAATATAAAAGAT
*** **
1613820 TA-AAAAGAAA-GATTAAAATTTATCTTGGTTATGAA-AGTGTTAATTTAA-TT-ATTT-ATTTA
64 TAGAAAAGAAATGATTAAAATTTATCTCAATT-CCAAGAGTGTTAATTTAATTTAATTTAATTTA
1613879 TTTAATTTTAAAAAATA-TCATTTCGTACCTTAATGAAAGCCCG
128 TTT-ATTTTAAAAAATACT-ATTTCGTACCTTAATGAAAGCCCG
* *
1613922 AAAAGATATGAAAAGTTCTTGAAATCTTTTATACCCCTACGGACCCCAATAGGAATGTAAAAGAT
1 AAAAGATACGAAAAGTT-TTGAAATCTTTTATA-CCCTACGGACCCCAATAGGAATATAAAAGAT
1613987 TACGAAA
64 TA-GAAA
1613994 TAATTAATAT
Statistics
Matches: 200, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
166 11 0.05
167 90 0.45
168 2 0.01
169 31 0.16
170 23 0.12
171 40 0.20
172 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (169 bp):
AAAAGATACGAAAAGTTTTGAAATCTTTTATACCCTACGGACCCCAATAGGAATATAAAAGATTA
GAAAAGAAATGATTAAAATTTATCTCAATTCCAAGAGTGTTAATTTAATTTAATTTAATTTATTT
ATTTTAAAAAATACTATTTCGTACCTTAATGAAAGCCCG
Found at i:1615650 original size:166 final size:165
Alignment explanation
Indices: 1615437--1615873 Score: 655
Period size: 167 Copynumber: 2.6 Consensus size: 165
1615427 TTAATTTTTT
* *
1615437 GAAAAAAAGAGAAATTTCAAGAAAAAATTTAAAAACTCATGAAAATGAACTAATTTTTGAAAACA
1 GAAAAAAAG-G-AATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAA-TAATTTTTGAAAACT
* *
1615502 GATTTAATATGAAATAAATAATGATATTTGATGAATTTTAAAAATT-GAAAACCAAGAGAAATCC
63 GATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAG-AAACCAAGAAAAATCC
*
1615566 CCCCGAAT-AAAATTACGAAGTAGAAAATAACGTATTTC
127 CCCCAAATAAAAATTACGAAGTAGAAAATAACGTATTTC
1615604 GAAAAAAAGGAATTTCAA-ACGAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAACT
1 GAAAAAAAGGAATTTCAAGA--AAAAATTCAAAAACTCATGAAAATGAA-TAATTTTTGAAAACT
* *
1615668 GAATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAGAAACCAAGAAAAATCCC
63 GATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAGAAACCAAGAAAAATCCC
* **
1615733 TCCAAATAAAAATTACGAAGTAGAAAATATTGTATTTC
128 CCCAAATAAAAATTACGAAGTAGAAAATAACGTATTTC
* *
1615771 GAAAAAAGGGGAATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATCAATTTTTGACAACTG
1 GAAAAAA-AGGAATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAAT-AATTTTTGAAAACTG
*
1615836 ATTTAATATGAAATAAATATTAATATTTGATGAATTTT
64 ATTTAATATGAAATAAATAATAATATTTGATGAATTTT
1615874 GATGTTTGAA
Statistics
Matches: 247, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
164 1 0.00
165 8 0.03
166 106 0.43
167 121 0.49
168 10 0.04
169 1 0.00
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (165 bp):
GAAAAAAAGGAATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATAATTTTTGAAAACTGAT
TTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAGAAACCAAGAAAAATCCCCCC
AAATAAAAATTACGAAGTAGAAAATAACGTATTTC
Found at i:1618695 original size:137 final size:136
Alignment explanation
Indices: 1618494--1618921 Score: 391
Period size: 137 Copynumber: 3.1 Consensus size: 136
1618484 CTACAAAGGT
* * * * * * *
1618494 TGGTGGCACTTATCCATCTCAGTCGATAAAAAACTGAATGCCTACCTA-CTTCAAAGCCTACACA
1 TGGTGGCACCTATCCATCTCAGTCCATGAAAAGCTGGATGCCTACCTACCTT-AAAACCCACACA
* * * *
1618558 AGCTAGTGGCATCAGT-TACCTACCTTAGTCCTCAAACA-AAAGGCTACTTACTCACTCAAAG-C
65 AGCTGGTGGCACCA-TCTATCTACCTTAGTCCTCAAACAGAAA-GATACTTACTCACTCAAAGAC
*
1618620 CTGCACAAAGC
128 C-ACAC-AAGC
* * * *
1618631 TGAG-GGCAGCTATCCATCTCAATCCATGAAAAGCTGGACGCCTACCTACCTTAAATCCCACACA
1 TG-GTGGCACCTATCCATCTCAGTCCATGAAAAGCTGGATGCCTACCTACCTTAAAACCCACACA
* * ** * *
1618695 AGTTTGGTGGCACCATCTATCTACCTTAGTTCTCAAGGAGCAAGATGCTTACTCACTCAAAGACC
65 AG-CTGGTGGCACCATCTATCTACCTTAGTCCTCAAACAGAAAGATACTTACTCACTCAAAGACC
1618760 ACACAAGC
129 ACACAAGC
* * * * * *
1618768 TGGTGGCACCTATCCACCTTAGTCCATGAAAAGCTAGATGCTTACCTACCTCAAAACTCACACAA
1 TGGTGGCACCTATCCATCTCAGTCCATGAAAAGCTGGATGCCTACCTACCTTAAAACCCACACAA
* * ** ** * * *
1618833 GCTGGTTGCACCATCTGTCTACCTTAGTCCTCAAGGATCAAGACACTTACTTACTCAAAGCCCAC
66 GCTGGTGGCACCATCTATCTACCTTAGTCCTCAAACAGAAAGATACTTACTCACTCAAAGACCAC
*
1618898 ACAAGT
131 ACAAGC
* *
1618904 TGATGGCACC-ATCTATCT
1 TGGTGGCACCTATCCATCT
1618922 ACTTCAGTCC
Statistics
Matches: 240, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
135 6 0.03
136 70 0.29
137 109 0.45
138 51 0.21
139 4 0.02
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (136 bp):
TGGTGGCACCTATCCATCTCAGTCCATGAAAAGCTGGATGCCTACCTACCTTAAAACCCACACAA
GCTGGTGGCACCATCTATCTACCTTAGTCCTCAAACAGAAAGATACTTACTCACTCAAAGACCAC
ACAAGC
Done.