Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 10 of 208
Found at i:3904755 original size:19 final size:19
Alignment explanation
Indices: 3904731--3904772 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3904721 ACAAACACAA
*
3904731 AAATTTATAACATAATCCT
1 AAATTTATAACATAACCCT
3904750 AAATTTATAACATAACCCT
1 AAATTTATAACATAACCCT
3904769 AAAT
1 AAAT
3904773 CCGAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTTATAACATAACCCT
Found at i:3904862 original size:27 final size:27
Alignment explanation
Indices: 3904788--3904863 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
3904778 AAAACCAGAA
*
3904788 CATTGGCGCCTCCCAGATAGACACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
* *
3904815 CATTGGCGCCTACTAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
3904842 CATTGGCGCCTCCCAAATAGGC
1 CATTGGCGCCTCCCAGATAGGC
3904864 GCCAATACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.37, G:0.21, T:0.17
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:3905576 original size:6 final size:6
Alignment explanation
Indices: 3905565--3905590 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3905555 TTATTATTAA
3905565 TAATTT TAATTT TAATTT TAATTT TA
1 TAATTT TAATTT TAATTT TAATTT TA
3905591 CGTCCTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:3909184 original size:6 final size:6
Alignment explanation
Indices: 3909161--3909196 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
3909151 CATATTTTAG
3909161 ATATAA A-AT-A AT-TAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA
3909197 ATTATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 5 0.19
6 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:3909192 original size:27 final size:27
Alignment explanation
Indices: 3909161--3909212 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
3909151 CATATTTTAG
3909161 ATATAAAATAATTA-AATATAAATATAA
1 ATAT-AAATAATTATAATATAAATATAA
*
3909188 ATATAAATAATTATATTATAAATAT
1 ATATAAATAATTATAATATAAATAT
3909213 TAATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATAAATAATTATAATATAAATATAA
Found at i:3909207 original size:21 final size:21
Alignment explanation
Indices: 3909183--3909222 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3909173 TAAATATAAA
3909183 TATAAATATAAATAATTATAT
1 TATAAATATAAATAATTATAT
* *
3909204 TATAAATATTAATTATTAT
1 TATAAATATAAATAATTAT
3909223 TAATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAAATATAAATAATTATAT
Found at i:3919979 original size:20 final size:21
Alignment explanation
Indices: 3919954--3919993 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3919944 TTAATAGTAG
*
3919954 AAATGAATAATTTT-TTTAAA
1 AAATGAACAATTTTCTTTAAA
*
3919974 AAATGACCAATTTTCTTTAA
1 AAATGAACAATTTTCTTTAA
3919994 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
AAATGAACAATTTTCTTTAAA
Found at i:3924376 original size:24 final size:24
Alignment explanation
Indices: 3924342--3924392 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
3924332 TTTCTAAAAG
* *
3924342 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
3924366 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
3924390 ATT
1 ATT
3924393 CCACTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:3926928 original size:15 final size:15
Alignment explanation
Indices: 3926908--3926938 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3926898 CAAAACCAAC
3926908 ACGGAAAGGCATATA
1 ACGGAAAGGCATATA
3926923 ACGGAAAGGCATATA
1 ACGGAAAGGCATATA
3926938 A
1 A
3926939 TAAAACCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (15 bp):
ACGGAAAGGCATATA
Found at i:3928848 original size:16 final size:16
Alignment explanation
Indices: 3928810--3928848 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3928800 GTCAAAAGGT
* *
3928810 GAAAAAAAAATGAAAG
1 GAAAAATAAATGAAAA
*
3928826 GATAAATAAATGAAAA
1 GAAAAATAAATGAAAA
3928842 GAAAAAT
1 GAAAAAT
3928849 TGCAAATAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (16 bp):
GAAAAATAAATGAAAA
Found at i:3936609 original size:32 final size:31
Alignment explanation
Indices: 3936558--3936619 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
3936548 AAGATTTAAG
*
3936558 AAAAAAGAGAGCTTAGATTAGAAACATACTT
1 AAAAAAGAGAGCTCAGATTAGAAACATACTT
* *
3936589 AAAAAGAGAGAGCTCGGATTAGTAACATACT
1 AAAAA-AGAGAGCTCAGATTAGAAACATACT
3936620 CATTTTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (31 bp):
AAAAAAGAGAGCTCAGATTAGAAACATACTT
Found at i:3936819 original size:21 final size:21
Alignment explanation
Indices: 3936789--3936832 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
3936779 TCTTAATTTT
3936789 AAATCTAAACC-TAAACACTA
1 AAATCTAAACCTTAAACACTA
*
3936809 AAATCATAAACCTTAAGCACTA
1 AAATC-TAAACCTTAAACACTA
3936831 AA
1 AA
3936833 CTAAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.55, C:0.23, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATCTAAACCTTAAACACTA
Found at i:3936841 original size:22 final size:23
Alignment explanation
Indices: 3936816--3936863 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
3936806 CTAAAATCAT
3936816 AAACCTTAAGCACTAAAC-TAAA
1 AAACCTTAAGCACTAAACTTAAA
** *
3936838 AAA-CTTGTGCACTAGACTTAAA
1 AAACCTTAAGCACTAAACTTAAA
3936860 AAAC
1 AAAC
3936864 TTTGAACCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (23 bp):
AAACCTTAAGCACTAAACTTAAA
Found at i:3936851 original size:21 final size:22
Alignment explanation
Indices: 3936825--3936865 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3936815 TAAACCTTAA
3936825 GCACTAAAC-TAAAAAACTTGT
1 GCACTAAACTTAAAAAACTTGT
*
3936846 GCACTAGACTTAAAAAACTT
1 GCACTAAACTTAAAAAACTT
3936866 TGAACCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (22 bp):
GCACTAAACTTAAAAAACTTGT
Found at i:3937273 original size:2 final size:2
Alignment explanation
Indices: 3937268--3937294 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3937258 ATATTATATA
3937268 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
3937295 CCATCGTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3940521 original size:71 final size:71
Alignment explanation
Indices: 3940405--3940617 Score: 399
Period size: 71 Copynumber: 3.0 Consensus size: 71
3940395 TATTCATTAA
*
3940405 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTTTAAGAAAAAGACACTGTAAGATAGTCCA
1 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
3940470 CAAGAC
66 CAAGAC
* *
3940476 TTACAAAAGGTAGTAATAAATTTATCAGATAAACTTATAAGAAAAAGATACTGTAAGATAGTCCA
1 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
3940541 CAAGAC
66 CAAGAC
3940547 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
1 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
3940612 CAAGAC
66 CAAGAC
3940618 CCATTCCTTT
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 137 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (71 bp):
TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
CAAGAC
Found at i:3940549 original size:37 final size:37
Alignment explanation
Indices: 3940508--3940617 Score: 86
Period size: 37 Copynumber: 3.1 Consensus size: 37
3940498 TATCAGATAA
3940508 ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
1 ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
* ** * ** * *
3940545 ACTTACAA-AAGGTAG-TACT-AAATTTA-T-CAGATAA
1 ACTTATAAGAA-AAAGATACTGTAAGATAGTCCACA-AG
*
3940579 ACTTATAAGAAAAAGACACTGTAAGATAGTCCACAAG
1 ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
3940616 AC
1 AC
3940618 CCATTCCTTT
Statistics
Matches: 49, Mismatches: 17, Indels: 14
0.61 0.21 0.17
Matches are distributed among these distances:
33 3 0.06
34 11 0.22
35 9 0.18
36 10 0.20
37 13 0.27
38 3 0.06
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.23
Consensus pattern (37 bp):
ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
Found at i:3940583 original size:34 final size:34
Alignment explanation
Indices: 3940474--3940583 Score: 80
Period size: 34 Copynumber: 3.1 Consensus size: 34
3940464 AGTCCACAAG
*
3940474 ACTTACAAAAGGTAGTAATAAATTTATCAGATAA
1 ACTTACAAAAGGTAGTACTAAATTTATCAGATAA
* ** * ** * *
3940508 ACTTATAAGAA-AAAGATACTGTAAGATAGTCCACA-AG
1 ACTTACAA-AAGGTAG-TACT-AAATTTA-T-CAGATAA
3940545 ACTTACAAAAGGTAGTACTAAATTTATCAGATAA
1 ACTTACAAAAGGTAGTACTAAATTTATCAGATAA
3940579 ACTTA
1 ACTTA
3940584 TAAGAAAAAG
Statistics
Matches: 52, Mismatches: 17, Indels: 14
0.63 0.20 0.17
Matches are distributed among these distances:
33 3 0.06
34 16 0.31
35 9 0.17
36 10 0.19
37 11 0.21
38 3 0.06
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (34 bp):
ACTTACAAAAGGTAGTACTAAATTTATCAGATAA
Found at i:3947427 original size:3 final size:3
Alignment explanation
Indices: 3947408--3947457 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
3947398 AATTTATTTC
* * * *
3947408 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ACA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3947454 ATA A
1 ATA A
3947458 AATGTCATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:3948645 original size:44 final size:46
Alignment explanation
Indices: 3948578--3948670 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
3948568 TTATACCTCT
*
3948578 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
3948622 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
3948668 ATT
1 ATT
3948671 ACGCATCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 23 0.50
45 4 0.09
46 19 0.41
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:3948673 original size:16 final size:16
Alignment explanation
Indices: 3948652--3948704 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
3948642 AGAATTACCT
3948652 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
3948668 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
3948684 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
3948700 ATTAC
1 ATTAC
3948705 AGCCAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:3951748 original size:5 final size:5
Alignment explanation
Indices: 3951733--3951819 Score: 59
Period size: 5 Copynumber: 16.6 Consensus size: 5
3951723 TAAAAATTTA
* * * **
3951733 ATATAT ATATT ATATT ATATT ATATTT CAAAATT ATATT ATAAT AAAAC
1 ATAT-T ATATT ATATT ATATT ATA-TT --ATATT ATATT ATATT ATATT
* *
3951782 ATA-A AAATAT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATA
3951820 ATAAAACAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
4 2 0.03
5 51 0.77
6 9 0.14
7 2 0.03
8 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (5 bp):
ATATT
Found at i:3951767 original size:23 final size:23
Alignment explanation
Indices: 3951741--3951806 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
3951731 TAATATATAT
*
3951741 ATTATATTATATTATATTTCAAA
1 ATTATATTATATTATATTTAAAA
* * **
3951764 ATTATATTATAATAAAACATAAAA
1 ATTATATTAT-ATTATATTTAAAA
3951788 ATATATATTATATTATATT
1 AT-TATATTATATTATATT
3951807 ATATTATATT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
23 10 0.31
24 14 0.44
25 8 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTATATTATATTATATTTAAAA
Found at i:3951795 original size:48 final size:46
Alignment explanation
Indices: 3951743--3951836 Score: 136
Period size: 45 Copynumber: 2.0 Consensus size: 46
3951733 ATATATATAT
*
3951743 TATATTATATTATATTTCAAAATTATATTATAATAAAACATAA-AAATA
1 TATATTATATTATA-TT--AAATTATATTATAATAAAACAAAATAAATA
*
3951791 TATATTATATTATATTATATTATATTATAATAAAACAAAATAAATA
1 TATATTATATTATATTAAATTATATTATAATAAAACAAAATAAATA
3951837 AAGAATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 22 0.51
46 5 0.12
47 2 0.05
48 14 0.33
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (46 bp):
TATATTATATTATATTAAATTATATTATAATAAAACAAAATAAATA
Found at i:3952616 original size:24 final size:24
Alignment explanation
Indices: 3952588--3952634 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3952578 ATTGAAACGA
3952588 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
3952612 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
3952635 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:3994715 original size:2 final size:2
Alignment explanation
Indices: 3994710--3994737 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3994700 GGGGGGGTTA
3994710 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3994738 GGGAGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3995009 original size:18 final size:17
Alignment explanation
Indices: 3994984--3995018 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3994974 GTATTTAATA
*
3994984 AATATAATATAAAAAAT
1 AATATAATAAAAAAAAT
3995001 AATACTAATAAAAAAAAT
1 AATA-TAATAAAAAAAAT
3995019 TTTAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATATAATAAAAAAAAT
Found at i:4009448 original size:2 final size:2
Alignment explanation
Indices: 4009441--4009476 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4009431 TTAAAAGGCA
4009441 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4009477 CCCCCCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4016559 original size:54 final size:54
Alignment explanation
Indices: 4016454--4016559 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
4016444 AATCCCCTAC
*
4016454 AAGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCGGTCCAAG
1 AAGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAG
*
4016508 AAGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACTAGTCCA
1 AAGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCA
4016560 GGCTAAATCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (54 bp):
AAGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAG
Found at i:4031906 original size:67 final size:67
Alignment explanation
Indices: 4031779--4031906 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 67
4031769 CATTGAGTTG
* * * ** * ** *
4031779 ATCCATTCCCTGCAGTTCAAGTCTATTGCTTTTGGACTTGATTCGATGTCCTTGTGGCATTCAAC
1 ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAATGTCAGTGTAGCATTCAAC
4031844 TC
66 TC
4031846 ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAATGTCAGTGTAGCATT
1 ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAATGTCAGTGTAGCATT
4031907 GGCTGTTGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (67 bp):
ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAATGTCAGTGTAGCATTCAAC
TC
Found at i:4032072 original size:19 final size:19
Alignment explanation
Indices: 4032050--4032096 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4032040 TTTTTTATAA
*
4032050 TTTTTTTCACATTTTA-AT
1 TTTTTTTTACATTTTAGAT
*
4032068 TTTTTATATACATTTTAGAT
1 TTTTT-TTTACATTTTAGAT
4032088 TTTTTTTTA
1 TTTTTTTTA
4032097 TAATTTGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTTTTACATTTTAGAT
Found at i:4032234 original size:17 final size:18
Alignment explanation
Indices: 4032212--4032247 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4032202 TGGACATTTT
4032212 AATTATTTT-TGAAAAAA
1 AATTATTTTCTGAAAAAA
*
4032229 AATTATTTTCTTAAAAAA
1 AATTATTTTCTGAAAAAA
4032247 A
1 A
4032248 TTTTGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTATTTTCTGAAAAAA
Found at i:4040869 original size:25 final size:23
Alignment explanation
Indices: 4040793--4040896 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 23
4040783 TGCACTAAGG
*
4040793 AACAGAGAGCACTGAAGTGCTAT
1 AACAGAGAGCACTGACGTGCTAT
* *
4040816 -ACAGAGAGCACAGATGTGCTA-
1 AACAGAGAGCACTGACGTGCTAT
*
4040837 AACAGAGAGTACTGACGTGCTAGT
1 AACAGAGAGCACTGACGTGCTA-T
**
4040861 AATCAGAGAGCACCAACGTGCTAAT
1 AA-CAGAGAGCACTGACGTGCT-AT
4040886 AATCAGAGAGC
1 AA-CAGAGAGC
4040897 GCGCTAAAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
22 37 0.54
24 2 0.03
25 28 0.41
26 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.16
Consensus pattern (23 bp):
AACAGAGAGCACTGACGTGCTAT
Found at i:4059719 original size:17 final size:18
Alignment explanation
Indices: 4059691--4059724 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4059681 ATCGGCTAAT
*
4059691 AATAAGATATTATTTAAA
1 AATAAGATATTAGTTAAA
4059709 AATAA-ATATTAGTTAA
1 AATAAGATATTAGTTAA
4059725 TGTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAGATATTAGTTAAA
Found at i:4062888 original size:31 final size:31
Alignment explanation
Indices: 4062823--4062880 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4062813 TTTTTTTTTG
4062823 TTTT-AAAATTTGGCATTCAAACTTGACAAT
1 TTTTCAAAATTTGGCATTCAAACTTGACAAT
*
4062853 TTTTCAAAATTTGGTATGT-AAACTTGAC
1 TTTTCAAAATTTGGCAT-TCAAACTTGAC
4062881 CCTTTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 20 0.80
32 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (31 bp):
TTTTCAAAATTTGGCATTCAAACTTGACAAT
Found at i:4063397 original size:14 final size:15
Alignment explanation
Indices: 4063378--4063406 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4063368 TTCAAGTACC
4063378 AAATTAGAC-CCAAA
1 AAATTAGACACCAAA
4063392 AAATTAGACACCAAA
1 AAATTAGACACCAAA
4063407 TTAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.14
Consensus pattern (15 bp):
AAATTAGACACCAAA
Found at i:4064771 original size:15 final size:15
Alignment explanation
Indices: 4064751--4064798 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
4064741 TTTATGGAAA
4064751 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
4064766 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
4064780 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
4064796 ATC
1 ATC
4064799 GAGATATTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 5 0.20
15 15 0.60
16 5 0.20
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:4069288 original size:37 final size:37
Alignment explanation
Indices: 4069247--4069422 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
4069237 TTTGAGTACT
4069247 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4069284 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4069321 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4069358 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
4069395 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
4069423 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:4069494 original size:45 final size:46
Alignment explanation
Indices: 4069385--4069508 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
4069375 GTGATAAGTG
* *
4069385 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
4069431 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
4069476 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
4069509 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:4076980 original size:37 final size:37
Alignment explanation
Indices: 4076939--4077077 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
4076929 TTTGAGTACT
4076939 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4076976 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
4077013 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
4077050 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
4077078 TAGCTTCAGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:4077149 original size:45 final size:46
Alignment explanation
Indices: 4077040--4077163 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
4077030 GTGATAAGTG
* *
4077040 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
4077086 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
4077131 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
4077164 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:4079920 original size:15 final size:15
Alignment explanation
Indices: 4079900--4080007 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
4079890 TTTATGGAAA
4079900 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
4079915 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
4079929 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
4079945 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
4079959 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
4079975 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
4079989 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
4080005 ATC
1 ATC
4080008 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:4079929 original size:30 final size:30
Alignment explanation
Indices: 4079893--4080007 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
4079883 ATCCATATTT
*
4079893 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
4079923 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
4079953 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
4079983 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
4080008 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:4085090 original size:30 final size:30
Alignment explanation
Indices: 4085054--4085116 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
4085044 ATTTATTTTA
4085054 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
4085084 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
4085114 TTG
1 TTG
4085117 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:4086395 original size:2 final size:2
Alignment explanation
Indices: 4086388--4086427 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
4086378 AGGGCTTAAA
4086388 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC ATC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A-C AC A
4086428 TTCACAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:4091191 original size:18 final size:19
Alignment explanation
Indices: 4091168--4091204 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4091158 TACTTTTTAT
*
4091168 AGAAAGAA-AAAAATGAAA
1 AGAAAGAAGAAAAAAGAAA
4091186 AGAAAGAAGAAAAAAGAAA
1 AGAAAGAAGAAAAAAGAAA
4091205 TACTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (19 bp):
AGAAAGAAGAAAAAAGAAA
Found at i:4099912 original size:13 final size:13
Alignment explanation
Indices: 4099894--4099922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4099884 ATTATATAAT
4099894 TATAAAGAAACTA
1 TATAAAGAAACTA
4099907 TATAAAGAAACTA
1 TATAAAGAAACTA
4099920 TAT
1 TAT
4099923 GAATATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (13 bp):
TATAAAGAAACTA
Found at i:4100347 original size:5 final size:5
Alignment explanation
Indices: 4100339--4100363 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4100329 ATTAACTTAA
4100339 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
4100364 GAGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:4100622 original size:24 final size:23
Alignment explanation
Indices: 4100595--4100651 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
4100585 AATAAACACC
*
4100595 AAAAATTTATTTTAAAAATATAA
1 AAAAATTTATTTTAAAAAAATAA
*
4100618 AAAAA-GTATTTTAAAAAAATAA
1 AAAAATTTATTTTAAAAAAATAA
4100640 AAAATATTTATT
1 AAAA-ATTTATT
4100652 ATATTCGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 19 0.66
23 6 0.21
24 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAAATTTATTTTAAAAAAATAA
Found at i:4120201 original size:22 final size:21
Alignment explanation
Indices: 4120165--4120222 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
4120155 GGCCTGGCCT
4120165 ATTT-TTTTAATAAATACTACAA
1 ATTTATTTTAA-AAATACTA-AA
**
4120187 ATTTATTTTAAAAATTTTAAA
1 ATTTATTTTAAAAATACTAAA
*
4120208 A-GTATTTTAAAAATA
1 ATTTATTTTAAAAATA
4120223 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 3 0.10
22 10 0.32
23 6 0.19
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTTATTTTAAAAATACTAAA
Found at i:4120203 original size:9 final size:9
Alignment explanation
Indices: 4120191--4120246 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
4120181 CTACAAATTT
4120191 ATTTTAAAA
1 ATTTTAAAA
4120200 ATTTTAAAA
1 ATTTTAAAA
4120209 GTATTTTAAAA
1 --ATTTTAAAA
*
4120220 ATATTTTAAA
1 AT-TTTAAAA
4120230 A--TTAAAA
1 ATTTTAAAA
4120237 ATTTTAAAA
1 ATTTTAAAA
4120246 A
1 A
4120247 ATAAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
7 6 0.15
9 18 0.45
10 7 0.17
11 9 0.22
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:4120236 original size:17 final size:17
Alignment explanation
Indices: 4120214--4120259 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
4120204 TAAAAGTATT
*
4120214 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
4120231 TTAAAAAT-TTTAAAAA
1 TTAAAAATATTTAAAAA
* *
4120247 ATAAATATATTTA
1 TTAAAAATATTTA
4120260 TTATATCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:4120247 original size:11 final size:11
Alignment explanation
Indices: 4120190--4120230 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
4120180 ACTACAAATT
4120190 TATTTT-AAAA
1 TATTTTAAAAA
*
4120200 -ATTTTAAAAG
1 TATTTTAAAAA
4120210 TATTTTAAAAA
1 TATTTTAAAAA
4120221 TATTTTAAAA
1 TATTTTAAAA
4120231 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 5 0.19
10 3 0.11
11 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4123543 original size:25 final size:24
Alignment explanation
Indices: 4123498--4123545 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4123488 TCCAGCCAAG
***
4123498 TAAATTAATTAATTTTTAATTAAA
1 TAAATTAATTAATTAAAAATTAAA
4123522 TAAATTCAATTAATTAAAAATTAA
1 TAAATT-AATTAATTAAAAATTAA
4123546 TTGGGTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATTAATTAATTAAAAATTAAA
Found at i:4133892 original size:151 final size:151
Alignment explanation
Indices: 4133618--4133925 Score: 607
Period size: 151 Copynumber: 2.0 Consensus size: 151
4133608 ACAGGGAGCG
*
4133618 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGATGGTAACAACAGCTGTCCTATGCCTGGTCAA
1 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
4133683 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
66 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
4133748 CATCTCTTGTATTTTATGAAA
131 CATCTCTTGTATTTTATGAAA
4133769 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
1 GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
4133834 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
66 ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
4133899 CATCTCTTGTATTTTATGAAA
131 CATCTCTTGTATTTTATGAAA
4133920 GTATTT
1 GTATTT
4133926 TGTTGTTGCA
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 156 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (151 bp):
GTATTTGAACTTTAGAATGTTACCTTTCTTAGGACGGTAACAACAGCTGTCCTATGCCTGGTCAA
ATTGATTTAATGCTGTTGATGTTAACAATTTGTGGGAGGTTTTCACTCAGGGATGTCATGGCAAA
CATCTCTTGTATTTTATGAAA
Found at i:4151583 original size:111 final size:111
Alignment explanation
Indices: 4151379--4151840 Score: 609
Period size: 111 Copynumber: 4.1 Consensus size: 111
4151369 TCAAATTCAG
* *
4151379 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCTAACATGGGATCACCTCGATATGAGCA
1 CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
* * ** * *
4151444 GTCATATGTTCAAGGGATGGGTCATGCCTGGAATGGCCAGATGGCT
66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
* *
4151490 CAGCAGCAGCAGAATTTTCATGGGAATGGAATTGTACCAAACATGGGATCACCTCGATATGAGCA
1 CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
* * *
4151555 CTCGTATGCTCAAGGGACAGGTCCTGCCTGGAATGGCCAGATGGTT
66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
* ** *
4151601 CAGCAGCAGCAGAATTTTCATGTGAACCGAACTGTATCGAACATGGGATCACCTCGATATGAGCA
1 CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
* * *
4151666 GACATATGCTCAAGGCACAGGTCCTGCCTGGAATGGTCAGCTGGTT
66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
* * * * * *
4151712 CAGCAGCATCATCAGAATAACTTTTATGGAAATGGAAGTGTATCAAACATGGGCTCGCCTCGATA
1 CAGCAG---CAGCAGAAT---TTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATA
* *
4151777 TGAGCAGTCATGTGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGCTGGTT
60 TGAGCAGTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
*
4151829 CGGCAGCAGCAG
1 CAGCAGCAGCAG
4151841 GGCCACTTAC
Statistics
Matches: 307, Mismatches: 38, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
111 205 0.67
114 13 0.04
117 89 0.29
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (111 bp):
CAGCAGCAGCAGAATTTTCATGGGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
Found at i:4154147 original size:22 final size:23
Alignment explanation
Indices: 4154094--4154149 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4154084 TTTAATTAAA
* * *
4154094 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
4154117 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
4154139 ATTAAAATTAA
1 ATTAAAATTAA
4154150 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:4154162 original size:16 final size:16
Alignment explanation
Indices: 4154125--4154164 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4154115 TTAATAAAAT
* *
4154125 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
4154141 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
4154157 TAAAATTA
1 TAAAATTA
4154165 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:4154234 original size:66 final size:66
Alignment explanation
Indices: 4154153--4154351 Score: 331
Period size: 66 Copynumber: 3.1 Consensus size: 66
4154143 AAATTAATTG
*
4154153 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
4154218 A
66 A
4154219 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
4154284 A
66 A
*
4154285 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
4154343 A
66 A
4154344 TTAGTAAA
1 TTAGTAAA
4154352 ACAATCTTGA
Statistics
Matches: 131, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
59 46 0.35
62 1 0.01
63 3 0.02
65 2 0.02
66 79 0.60
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:4154465 original size:23 final size:24
Alignment explanation
Indices: 4154418--4154463 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4154408 AAATAAACTT
4154418 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
*
4154442 AAAATAAAATA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
4154464 AATATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:4162031 original size:41 final size:41
Alignment explanation
Indices: 4161972--4162118 Score: 242
Period size: 41 Copynumber: 3.6 Consensus size: 41
4161962 TTTAACATAT
* *
4161972 TCACCGGCACTTAACCTGCTA-AGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGA-CTTATAGCCTGTTTCAGA
*
4162013 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTTAGA
1 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTCAGA
*
4162054 TCACCGGCACTTAGCTTGCTAGACTTATAGCCTGTTTCAGA
1 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTCAGA
4162095 TCACCGGCACTTAGCCTGCTAGAC
1 TCACCGGCACTTAGCCTGCTAGAC
4162119 GTAAAGTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 98 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGTTTCAGA
Found at i:4162719 original size:12 final size:12
Alignment explanation
Indices: 4162687--4162733 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
4162677 AGCTCATCAA
*
4162687 ATATACA-ATAG
1 ATATACATATAT
*
4162698 ATATACATATAC
1 ATATACATATAT
*
4162710 ATATATATATAT
1 ATATACATATAT
*
4162722 ATATAAATATAT
1 ATATACATATAT
4162734 GCTGATTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (12 bp):
ATATACATATAT
Found at i:4163732 original size:13 final size:13
Alignment explanation
Indices: 4163714--4163738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4163704 CAATCAAATG
4163714 CACACAAAATAAA
1 CACACAAAATAAA
4163727 CACACAAAATAA
1 CACACAAAATAA
4163739 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:4164358 original size:14 final size:14
Alignment explanation
Indices: 4164316--4164362 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
4164306 GAAGAATTAC
*
4164316 ATTTCTGGAAAAT-
1 ATTTTTGGAAAATG
*
4164329 ATTTTCCGGTAAAATG
1 ATTTT-TGG-AAAATG
4164345 ATTTTTGGAAAATG
1 ATTTTTGGAAAATG
4164359 ATTT
1 ATTT
4164363 ACATTTCTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 12 0.43
15 7 0.25
16 5 0.18
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (14 bp):
ATTTTTGGAAAATG
Found at i:4164373 original size:20 final size:20
Alignment explanation
Indices: 4164345--4164384 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4164335 CGGTAAAATG
*
4164345 ATTTTTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
4164365 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
4164385 TGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:4164582 original size:18 final size:18
Alignment explanation
Indices: 4164559--4164594 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4164549 AATTTATTTA
4164559 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
4164577 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
4164595 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:4167718 original size:26 final size:27
Alignment explanation
Indices: 4167689--4167741 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
4167679 CACCAATGAT
4167689 TCGGG-GAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACTTAGCAACCCC
4167715 TCGGGAGAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACTTAGCAACCCC
4167742 CTTTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (27 bp):
TCGGGAGAATCAGCACTTAGCAACCCC
Found at i:4167750 original size:102 final size:102
Alignment explanation
Indices: 4167618--4167949 Score: 558
Period size: 102 Copynumber: 3.3 Consensus size: 102
4167608 AATGAGTCGA
* * **
4167618 GGAATCAGCACTTAGCAA-CCCTTTTCACATTTAAGATACGATGGGTTCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCCCCTTT-ACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
4167682 CAATGATTCGGGGAATCAGCACTTAGCAACCCCTCGGG
65 CAATGATTCGGGGAATCAGCACTTAGCAACCCCTCGGG
*
4167720 AGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
* *
4167785 AATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGG
66 AATGATTCGGGGAATCAGCACTTAGCAACCCCTCGGG
* * *
4167822 GGAATCAGCACTTAGCAACCCCCTTCATATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
4167887 AATGATTCGGGGAATCAGCACTTAGCAACCCCTCGGG
66 AATGATTCGGGGAATCAGCACTTAGCAACCCCTCGGG
4167924 GGAATCAGCACTTAGCAACCCCCTTT
1 GGAATCAGCACTTAGCAACCCCCTTT
4167950 TTATTCAATG
Statistics
Matches: 215, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 209 0.97
103 6 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (102 bp):
GGAATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
AATGATTCGGGGAATCAGCACTTAGCAACCCCTCGGG
Found at i:4168316 original size:30 final size:30
Alignment explanation
Indices: 4168284--4168340 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4168274 CCACCTAACT
4168284 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
4168313 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
4168341 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:4170411 original size:47 final size:47
Alignment explanation
Indices: 4170302--4170412 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
4170292 CCGGGATAAG
* * *
4170302 CACATAGTGCTTCATCGGAATAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
4170349 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
4170396 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
4170413 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:4171184 original size:4 final size:4
Alignment explanation
Indices: 4171175--4171255 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
4171165 CCCTTTTCTA
* * * * * **
4171175 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCATG TTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C TTTC TTTC TTTC
*
4171225 TTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
4171256 TAACTTACTC
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 4 0.07
ACGTcount: A:0.05, C:0.25, G:0.04, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:4171951 original size:6 final size:6
Alignment explanation
Indices: 4171940--4171968 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4171930 TCAGAAGGGA
4171940 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
4171969 AAACTACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4173198 original size:5 final size:5
Alignment explanation
Indices: 4173190--4173215 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4173180 TGGAAAGGAT
4173190 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
4173216 ATTAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:4173242 original size:27 final size:26
Alignment explanation
Indices: 4173200--4173255 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
4173190 TTTTATTTTA
* *
4173200 TTTTATTTTATTTTATATTAATATAAT
1 TTTTATTTAATATTATATT-ATATAAT
4173227 TTTTATTTAATATTATATTATATAAT
1 TTTTATTTAATATTATATTATATAAT
4173253 TTT
1 TTT
4173256 AAATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTATTTAATATTATATTATATAAT
Found at i:4173247 original size:15 final size:15
Alignment explanation
Indices: 4173192--4173252 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
4173182 GAAAGGATTT
* *
4173192 TTATTTTATTTTATT
1 TTATTTTATTTAATA
4173207 TTATTTTATATTAATA
1 TTATTTTAT-TTAATA
*
4173223 TAATTTTTATTTAATA
1 TTA-TTTTATTTAATA
* *
4173239 TTATATTATATAAT
1 TTATTTTATTTAAT
4173253 TTTAAATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 18 0.47
16 14 0.37
17 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTATTTAATA
Found at i:4173261 original size:27 final size:27
Alignment explanation
Indices: 4173199--4173267 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
4173189 TTTTTATTTT
* *
4173199 ATTTT-ATTTTATTTTATATTAATATA
1 ATTTTAATTTAATATTATATTAATATA
*
4173225 ATTTTTATTTAATATTATATT-ATATA
1 ATTTTAATTTAATATTATATTAATATA
*
4173251 ATTTTAAATTTATTATT
1 ATTTT-AATTTAATATT
4173268 GTAATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTAATTTAATATTATATTAATATA
Found at i:4173264 original size:24 final size:26
Alignment explanation
Indices: 4173207--4173266 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
4173197 TTATTTTATT
* * *
4173207 TTATTTTATATTAATATAATTTTTAT
1 TTATATTATATTAATATAATTTTAAA
4173233 TTAATATTATATT-ATATAATTTTAAA
1 TT-ATATTATATTAATATAATTTTAAA
4173259 TT-TATTAT
1 TTATATTAT
4173267 TGTAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
26 15 0.50
27 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATATTATATTAATATAATTTTAAA
Found at i:4173275 original size:19 final size:19
Alignment explanation
Indices: 4173231--4173277 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
4173221 TATAATTTTT
4173231 ATTTAATATTATATTATATA
1 ATTTAA-ATTATATTATATA
*
4173251 ATTTTAAATT-TATTATTGTA
1 A-TTTAAATTATATTA-TATA
4173271 ATTTAAA
1 ATTTAAA
4173278 GAAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTAAATTATATTATATA
Found at i:4173582 original size:66 final size:66
Alignment explanation
Indices: 4173500--4173631 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
4173490 TACGTTTAGG
*
4173500 TTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTGGGTT
1 TTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGTT
4173565 T
66 T
4173566 TTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGTT
1 TTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGTT
4173631 T
66 T
4173632 AGATTGGCGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (66 bp):
TTGGTTTCACTTGGAAATCACTTTTGAATCTCACCAGAAACAAAGGCTTAGGCTTAGGGTAGGTT
T
Found at i:4188774 original size:112 final size:103
Alignment explanation
Indices: 4188558--4188936 Score: 417
Period size: 101 Copynumber: 3.5 Consensus size: 103
4188548 TAATACTGAT
* * * *
4188558 ATACGAAAAAGAAAAAAAAATTTTTAGAGTGCTGGCCTGTCAATGGCCGGTA-CCAGTAAACAGT
1 ATACG-AAAA-AAATAAAAA-TTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGT
*
4188622 AAAAAAGAAATTTTTTTC-TTTTTTTTCGTGTCAGAGTCAGATATAAAA
62 -------AAATTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAA
4188670 ATACGAAAAAAAATTTTAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAA
1 ATACG-AAAAAAA---TAAAAA----TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAA
4188735 CAGTAAATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAA
58 CAGTAAA-TTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAA
4188782 ATACG--AAAAA-AAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAT
1 ATACGAAAAAAATAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAT
* *
4188844 TTTTTTCTTTTTTTTTTCGTTTCAGAATCAAATATAAAA
66 TTTTTTC-TTTTTTTTTCGTGTCAGAATCAGATATAAAA
* *
4188883 ATACGAAAAAAATAAAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACC
1 ATACGAAAAAAAT----AAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACC
4188937 TAAATTTTTT
Statistics
Matches: 241, Mismatches: 9, Indels: 38
0.84 0.03 0.13
Matches are distributed among these distances:
100 8 0.03
101 80 0.33
103 5 0.02
105 5 0.02
108 35 0.15
109 5 0.02
110 3 0.01
111 11 0.05
112 44 0.18
114 5 0.02
116 24 0.10
117 16 0.07
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (103 bp):
ATACGAAAAAAATAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAT
TTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAA
Found at i:4195807 original size:29 final size:28
Alignment explanation
Indices: 4195761--4195821 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
4195751 ACATCTTTTC
*
4195761 TTTTTTTTACAAATTTTA-ATCATTTTAT
1 TTTTTTTTACAAAGTTTATAT-ATTTTAT
* *
4195789 TTTTTTTTCCATAAGTTTATATTTTTTAT
1 TTTTTTTTACA-AAGTTTATATATTTTAT
4195818 TTTT
1 TTTT
4195822 GTGCAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.36
29 16 0.57
30 2 0.07
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTTTTTACAAAGTTTATATATTTTAT
Found at i:4207655 original size:22 final size:23
Alignment explanation
Indices: 4207612--4207655 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
4207602 AATAAAAAAT
* *
4207612 TTATGTATTCTTATTTTCTTTTC
1 TTATGTATTCTTATATTATTTTC
*
4207635 TTAT-TATTCTTCTATTATTTT
1 TTATGTATTCTTATATTATTTT
4207656 ACTACTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATGTATTCTTATATTATTTTC
Found at i:4208049 original size:20 final size:19
Alignment explanation
Indices: 4208024--4208061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4208014 CGTTCAACCA
*
4208024 TAAAAAATATACAAAAAATT
1 TAAAAAATA-AAAAAAAATT
4208044 TAAAAAATAAAAAAAAAT
1 TAAAAAATAAAAAAAAAT
4208062 CACATCGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAATAAAAAAAAATT
Found at i:4218959 original size:60 final size:60
Alignment explanation
Indices: 4218866--4219086 Score: 356
Period size: 60 Copynumber: 3.7 Consensus size: 60
4218856 AGGAAAAGGG
4218866 AAGCCAGGGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACAGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACAGGA
*
4218926 AAGCCAGGGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACGGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACAGGA
* * *
4218986 AAGCCAGGGGGTGGCACTCATGTGAATGTTGGAGGCAAAGGAGTTGGGGTGAACACTGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACAGGA
* *
4219046 AAGCCAGGAGGTGGCACCCATGTGAACGTTGGAGGCAAAGG
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGG
4219087 TGGAGGAGTA
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
60 152 0.99
61 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.41, T:0.15
Consensus pattern (60 bp):
AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACAGGA
Found at i:4236951 original size:17 final size:17
Alignment explanation
Indices: 4236909--4236953 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
4236899 ATTGTTTAGT
**
4236909 AATATTTTCATCTCAAA
1 AATATTTTTGTCTCAAA
*
4236926 AGTATTTTTTGTCTCAAA
1 AATA-TTTTTGTCTCAAA
4236944 AATATTTTTG
1 AATATTTTTG
4236954 AAAAGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (17 bp):
AATATTTTTGTCTCAAA
Found at i:4241150 original size:51 final size:52
Alignment explanation
Indices: 4241090--4241195 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 52
4241080 TAGTACAACA
*
4241090 ACGGAAAACGAAAGCGAGCCAAAGTT-GACTGTAACAAAAATGATAGCAAAG
1 ACGGAAAACGAAAACGAGCCAAAGTTCGACTGTAACAAAAATGATAGCAAAG
4241141 ACGGAAAACGAAAACGAGCCAAAGTTGCGACTGTAACAAAAATGATAGCAAAG
1 ACGGAAAACGAAAACGAGCCAAAGTT-CGACTGTAACAAAAATGATAGCAAAG
4241194 AC
1 AC
4241196 AGAACAGGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 25 0.48
53 27 0.52
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (52 bp):
ACGGAAAACGAAAACGAGCCAAAGTTCGACTGTAACAAAAATGATAGCAAAG
Found at i:4242353 original size:35 final size:35
Alignment explanation
Indices: 4242289--4242379 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
4242279 CGGAATAAGT
* *
4242289 GTATATATATTATAAATATTTAAATTTAAAA-TATATA
1 GTATATATATTAT-AATATTAAAACTTAAAAGT-TA-A
*
4242326 TTATA-ATATTATAATATTAAAACTTAAAAGTTAA
1 GTATATATATTATAATATTAAAACTTAAAAGTTAA
*
4242360 GTATATATATTATTATATTA
1 GTATATATATTATAATATTA
4242380 TAATGATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
34 5 0.11
35 30 0.64
36 8 0.17
37 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
GTATATATATTATAATATTAAAACTTAAAAGTTAA
Found at i:4242428 original size:18 final size:17
Alignment explanation
Indices: 4242387--4242429 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
4242377 TTATAATGAT
*
4242387 AAAGAAAAAGAAATAGA
1 AAAGAAAAAGAAAGAGA
*
4242404 AATAGAAAAAGAAGGAGA
1 AA-AGAAAAAGAAAGAGA
4242422 GAAAGAAA
1 -AAAGAAA
4242430 CGAAACAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (17 bp):
AAAGAAAAAGAAAGAGA
Found at i:4242608 original size:32 final size:32
Alignment explanation
Indices: 4242562--4242627 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
4242552 TATTAAATAC
4242562 TACCCGACCCATGTCAAAATTTTAGAAATTAT
1 TACCCGACCCATGTCAAAATTTTAGAAATTAT
*
4242594 TACCCGACCTATGTCAAAATTTTAGAAATTAT
1 TACCCGACCCATGTCAAAATTTTAGAAATTAT
4242626 TA
1 TA
4242628 AGTTTTTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (32 bp):
TACCCGACCCATGTCAAAATTTTAGAAATTAT
Found at i:4243460 original size:40 final size:39
Alignment explanation
Indices: 4243339--4243473 Score: 114
Period size: 37 Copynumber: 3.4 Consensus size: 39
4243329 GACTTCGAGT
* * *
4243339 CGATGAGACACTAGGTGTCAATTTATTACTTTGGATTAATT
1 CGATAAGACACTGGGTGTCAATTTATTAC-TT-GATTAATC
* * * *
4243380 TGATAAGGCACTGGGTGCCAATTTACTT--TTGTTTAA-C
1 CGATAAGACACTGGGTGTCAATTTA-TTACTTGATTAATC
* * *
4243417 CGATGAGACACTGGGTGTCAATTTATTACTTCAAATAATC
1 CGATAAGACACTGGGTGTCAATTTATTACTT-GATTAATC
*
4243457 CGATAAGGCACTGGGTG
1 CGATAAGACACTGGGTG
4243474 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
36 2 0.03
37 21 0.29
38 7 0.10
39 5 0.07
40 16 0.22
41 20 0.27
42 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (39 bp):
CGATAAGACACTGGGTGTCAATTTATTACTTGATTAATC
Found at i:4243642 original size:20 final size:20
Alignment explanation
Indices: 4243617--4243656 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4243607 TTGAATATGG
4243617 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
4243637 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
4243657 AAATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCAT
Found at i:4245379 original size:19 final size:21
Alignment explanation
Indices: 4245338--4245385 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
4245328 TTTAAAGTTT
4245338 AAATTTTATTAAAAAATCATA
1 AAATTTTATTAAAAAATCATA
* *
4245359 AAATTTTA-TGAAAAAT-TTA
1 AAATTTTATTAAAAAATCATA
4245378 AAATTTTA
1 AAATTTTA
4245386 AGTTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTTTATTAAAAAATCATA
Found at i:4246714 original size:19 final size:19
Alignment explanation
Indices: 4246690--4246726 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4246680 TTAAAATTTT
4246690 ATTTTAATATAATATTAAC
1 ATTTTAATATAATATTAAC
4246709 ATTTTAATATAATATTAA
1 ATTTTAATATAATATTAA
4246727 TATTGACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAATATAATATTAAC
Found at i:4246735 original size:25 final size:24
Alignment explanation
Indices: 4246679--4246735 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4246669 TTACAAAAAA
* * *
4246679 ATTAAAATTTTATTTTAATATAAT
1 ATTAACATTTTAATATAATATAAT
4246703 ATTAACATTTTAATATAATATTAAT
1 ATTAACATTTTAATATAATA-TAAT
*
4246728 ATTGACAT
1 ATTAACAT
4246736 CCTTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTAACATTTTAATATAATATAAT
Found at i:4255859 original size:18 final size:18
Alignment explanation
Indices: 4255819--4255861 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4255809 CCCTCGCTAT
* *
4255819 TGAAGAAGAAGAGGAGGA
1 TGAAGAAGAAGAAGAAGA
*
4255837 GGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
4255855 TGAAGAA
1 TGAAGAA
4255862 CATCACGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
TGAAGAAGAAGAAGAAGA
Found at i:4265240 original size:19 final size:20
Alignment explanation
Indices: 4265208--4265247 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4265198 AAAGTAAAAT
* *
4265208 AATATTATTTAAAT-TATTA
1 AATATAATTAAAATGTATTA
4265227 AATATAATTAAAATGTATTA
1 AATATAATTAAAATGTATTA
4265247 A
1 A
4265248 CTTACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATATAATTAAAATGTATTA
Found at i:4271377 original size:122 final size:123
Alignment explanation
Indices: 4271222--4271461 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 123
4271212 TCAATAGCAC
*
4271222 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAAT-AAAAAA
1 GATCATATTCATCCGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAATAAAAAAA
* *
4271286 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGTAGATCAATACTATTGAT
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAAAACTATTGAT
* * *
4271344 GATCATATTCATCCGCATGATTGTAAACTCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
1 GATCATATTCATCCGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAATAAAAAAA
* * *
4271409 CAAATGCTACAGTTTAACTAGACTACGAGCAAAAGCTGAGCAGATCAAAACTA
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAAAACTA
4271462 AGATTCAACT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
122 54 0.50
123 54 0.50
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (123 bp):
GATCATATTCATCCGCATGATTATAAACCCATCATAAGTCAATCAATGTGCATTTAATAAAAAAA
CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAAAACTATTGAT
Found at i:4280189 original size:100 final size:96
Alignment explanation
Indices: 4280058--4280246 Score: 236
Period size: 100 Copynumber: 1.9 Consensus size: 96
4280048 TTTGGAGCAT
* * *
4280058 CTTTCTTTTTTCTTTTTTTTTTTGGATAATTATACTGTTT-GAAAAATCAATCTACAATACCACG
1 CTTTCTTTTTTCTTTTTTCTTTTGGATAATTACACT-TTTAGAAAAAACAATCTACAATACCACG
* * *
4280122 TAAGTTTTTCTGAATTGTAATTTTTGAAACAC
65 CAACTTTTTCAGAATTGTAATTTTTGAAACAC
*
4280154 CTTTCTTCTTCTTCTTCTTCTTCTTTTGGATAATTACACTTTTAGAAAAAACAATCTATAATACC
1 CTTTCTT-TT-TTCTT-TT-TTCTTTTGGATAATTACACTTTTAGAAAAAACAATCTACAATACC
* * *
4280219 ATGCAACTTTTTCAGGATTGTACTTTTT
62 ACGCAACTTTTTCAGAATTGTAATTTTT
4280247 TGAACATCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
96 7 0.09
97 2 0.03
98 5 0.06
99 5 0.06
100 59 0.76
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.48
Consensus pattern (96 bp):
CTTTCTTTTTTCTTTTTTCTTTTGGATAATTACACTTTTAGAAAAAACAATCTACAATACCACGC
AACTTTTTCAGAATTGTAATTTTTGAAACAC
Found at i:4283601 original size:20 final size:21
Alignment explanation
Indices: 4283564--4283606 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4283554 ATATAAGCAA
*
4283564 AAAAAAAAAAGTTCAAAGGAG
1 AAAAAAAAAAGTTCAAAGAAG
*
4283585 AAAAAAAAAAG-TGAAAGAAG
1 AAAAAAAAAAGTTCAAAGAAG
4283605 AA
1 AA
4283607 TCAAAAGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (21 bp):
AAAAAAAAAAGTTCAAAGAAG
Found at i:4298218 original size:20 final size:20
Alignment explanation
Indices: 4298178--4298218 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4298168 AAATATTGTT
* * *
4298178 AAAATATATTTAATAGTTTA
1 AAAACATATTTAAAAGCTTA
4298198 AAAACATATTTAAAAGCTTA
1 AAAACATATTTAAAAGCTTA
4298218 A
1 A
4298219 GATATTGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAACATATTTAAAAGCTTA
Found at i:4300615 original size:46 final size:46
Alignment explanation
Indices: 4300548--4300677 Score: 217
Period size: 46 Copynumber: 2.8 Consensus size: 46
4300538 AGTGTGGAAC
4300548 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAA-AA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGT-AAGAA
*
4300594 GTAGGTATGGTATTACAGTAAAGAAAACCATACTGAGTTGTAAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTAAGAA
* *
4300640 GTAGGTATGATATTTCAGTAACGAAAACCATACTGAGT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
4300678 GTTGACACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTAAGAA
Found at i:4301218 original size:109 final size:106
Alignment explanation
Indices: 4301019--4301219 Score: 321
Period size: 109 Copynumber: 1.9 Consensus size: 106
4301009 AAAATTCAAG
*
4301019 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
1 AGGATATTTGGATATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
4301084 TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
66 TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
* *
4301125 AGGATATTTGGATATTTGGTTGAACGAGAAAAATCGAAACCTAGCACATTAGGGCACGTTTCCTC
1 AGGATATTTGGATATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTC
* * *
4301190 GAATTTCCAAACGCTAAATATTGCCTTATT
63 GAATTACCAAACGCGAAACATTGCCTTATT
4301220 ATTTTTTAGA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 26 0.30
108 27 0.31
109 33 0.38
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGATATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
Found at i:4302076 original size:3 final size:3
Alignment explanation
Indices: 4302062--4302152 Score: 60
Period size: 3 Copynumber: 30.0 Consensus size: 3
4302052 CAAATAAAAC
* * * *
4302062 TAA TAA TGA TAA TAA TTAA TAT TAA TAA TAT TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
4302108 TAA AAGA TAA TAA CAT TAA -AA TAA TGAA GAA -AA AAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
4302153 AAGTGCTAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.06
3 56 0.84
4 7 0.10
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4302119 original size:31 final size:30
Alignment explanation
Indices: 4302062--4302151 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
4302052 CAAATAAAAC
* * *
4302062 TAATAATGATAATAATTAATATTAATAATAT
1 TAATAATAATAATAA-TAAAAATAATAATAT
* *
4302093 TAATAATCATAATAATAAAAGATAATAACAT
1 TAATAATAATAATAATAAAA-ATAATAATAT
*
4302124 TAA-AATAATGAAGAA-AAAAATAATAATA
1 TAATAATAAT-AATAATAAAAATAATAATA
4302152 AAAGTGCTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 8 0.16
30 13 0.26
31 29 0.58
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (30 bp):
TAATAATAATAATAATAAAAATAATAATAT
Found at i:4307870 original size:29 final size:30
Alignment explanation
Indices: 4307812--4307885 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
4307802 ATTAATAATT
* * *
4307812 TATAAGAATTAGATTAAATCAAAATTTTATG
1 TATAA-AATTACATAAAATCAAAATTTTATA
*
4307843 TATAAAATTACATAAAATTAAAA-TTTATA
1 TATAAAATTACATAAAATCAAAATTTTATA
*
4307872 TATACAATTACATA
1 TATAAAATTACATA
4307886 TTAAATTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 18 0.47
30 15 0.39
31 5 0.13
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (30 bp):
TATAAAATTACATAAAATCAAAATTTTATA
Found at i:4328681 original size:18 final size:18
Alignment explanation
Indices: 4328657--4328699 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4328647 GTGACGATAA
* *
4328657 AATTAAATAATATAACAAT
1 AATTAAA-AATAAAAAAAT
4328676 -ATTAAAAATAAAAAAAT
1 AATTAAAAATAAAAAAAT
4328693 AATTAAA
1 AATTAAA
4328700 CTCACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AATTAAAAATAAAAAAAT
Found at i:4331872 original size:23 final size:23
Alignment explanation
Indices: 4331846--4331943 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4331836 ATAAGTGCCA
4331846 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4331869 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4331892 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4331914 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4331937 CACTGAT
1 CACTGAT
4331944 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4331911 original size:45 final size:45
Alignment explanation
Indices: 4331853--4331941 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
4331843 CCACACTGAT
* *
4331853 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
4331898 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
4331942 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:4334676 original size:52 final size:46
Alignment explanation
Indices: 4334657--4334942 Score: 374
Period size: 46 Copynumber: 6.3 Consensus size: 46
4334647 TGACAAGTGG
* * *
4334657 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4334703 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4334749 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4334801 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
**
4334847 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4334893 AAAGTG---A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
4334930 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4334943 GCTACACTTA
Statistics
Matches: 220, Mismatches: 9, Indels: 26
0.86 0.04 0.10
Matches are distributed among these distances:
37 29 0.13
38 1 0.00
40 3 0.01
41 2 0.01
42 1 0.00
43 1 0.00
46 139 0.63
52 44 0.20
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
Found at i:4334711 original size:98 final size:97
Alignment explanation
Indices: 4334591--4334905 Score: 478
Period size: 98 Copynumber: 3.3 Consensus size: 97
4334581 TTTGAGTACT
* * **
4334591 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
*
4334656 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
4334689 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
4334754 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 -AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
4334787 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
4334847 AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
4334879 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
4334906 GCTACACTTA
Statistics
Matches: 206, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
92 56 0.27
97 1 0.00
98 149 0.72
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:4334824 original size:144 final size:145
Alignment explanation
Indices: 4334597--4334905 Score: 449
Period size: 144 Copynumber: 2.1 Consensus size: 145
4334587 TACTTCTGAT
* * *
4334597 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-----GAAAGT
* *
4334662 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGC
60 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGC
*
4334727 TACACTTATCTGATCAAGTGA
125 TACACTTATCTGATCAAGAGA
* *
4334748 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-AAAGTGATAAG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
* *
4334812 TGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACT
66 TAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACT
4334877 TATCTGATCAAGAGA
131 TATCTGATCAAGAGA
*
4334892 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
4334906 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
144 87 0.60
145 11 0.08
150 41 0.28
151 7 0.05
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (145 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
TAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACT
TATCTGATCAAGAGA
Found at i:4334913 original size:37 final size:37
Alignment explanation
Indices: 4334869--4335014 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4334859 GATAGCTTTA
*
4334869 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4334906 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4334943 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4334980 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4335015 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4336345 original size:58 final size:58
Alignment explanation
Indices: 4336268--4336435 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
4336258 CATGTGAACA
4336268 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4336327 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
4336383 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4336434 TG
1 TG
4336436 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:4336377 original size:28 final size:28
Alignment explanation
Indices: 4336287--4336377 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
4336277 GTGATTCCGT
4336287 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
4336315 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
4336344 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
4336373 GTAAG
1 GTAAG
4336378 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:4336400 original size:49 final size:49
Alignment explanation
Indices: 4336328--4336470 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
4336318 AGTGATATGT
* *
4336328 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4336377 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4336426 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
4336471 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:4339205 original size:52 final size:46
Alignment explanation
Indices: 4339186--4339471 Score: 374
Period size: 46 Copynumber: 6.3 Consensus size: 46
4339176 TGACAAGTGG
* * *
4339186 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4339232 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4339278 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4339330 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
**
4339376 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
4339422 AAAGTG---A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
4339459 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4339472 GCTACACTTA
Statistics
Matches: 220, Mismatches: 9, Indels: 26
0.86 0.04 0.10
Matches are distributed among these distances:
37 29 0.13
38 1 0.00
40 3 0.01
41 2 0.01
42 1 0.00
43 1 0.00
46 139 0.63
52 44 0.20
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
Found at i:4339240 original size:98 final size:97
Alignment explanation
Indices: 4339120--4339434 Score: 478
Period size: 98 Copynumber: 3.3 Consensus size: 97
4339110 TTTGAGTACT
* * **
4339120 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
*
4339185 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
4339218 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
4339283 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 -AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
4339316 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
4339376 AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
4339408 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
4339435 GCTACACTTA
Statistics
Matches: 206, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
92 56 0.27
97 1 0.00
98 149 0.72
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:4339353 original size:144 final size:145
Alignment explanation
Indices: 4339126--4339434 Score: 449
Period size: 144 Copynumber: 2.1 Consensus size: 145
4339116 TACTTCTGAT
* * *
4339126 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-----GAAAGT
* *
4339191 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGC
60 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGC
*
4339256 TACACTTATCTGATCAAGTGA
125 TACACTTATCTGATCAAGAGA
* *
4339277 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-AAAGTGATAAG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
* *
4339341 TGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACT
66 TAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACT
4339406 TATCTGATCAAGAGA
131 TATCTGATCAAGAGA
*
4339421 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
4339435 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
144 87 0.60
145 11 0.08
150 41 0.28
151 7 0.05
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (145 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
TAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACT
TATCTGATCAAGAGA
Found at i:4339442 original size:37 final size:37
Alignment explanation
Indices: 4339398--4339543 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4339388 GATAGCTTTA
*
4339398 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4339435 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4339472 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4339509 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4339544 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4345927 original size:21 final size:21
Alignment explanation
Indices: 4345902--4345944 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4345892 CTTATTTAAT
4345902 TAGTTTTTATTTTTTAAAGTA
1 TAGTTTTTATTTTTTAAAGTA
4345923 TAGTTTTTATTTTTTAAAGTA
1 TAGTTTTTATTTTTTAAAGTA
4345944 T
1 T
4345945 CATAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (21 bp):
TAGTTTTTATTTTTTAAAGTA
Done.