Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 103 of 130
Found at i:20190806 original size:15 final size:15
Alignment explanation
Indices: 20190788--20190823 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20190778 GATAGAACTT
*
20190788 ATCTATCTTTGAAAC
1 ATCTATATTTGAAAC
20190803 ATCTATATTTGAAAC
1 ATCTATATTTGAAAC
*
20190818 ACCTAT
1 ATCTAT
20190824 GGAATGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (15 bp):
ATCTATATTTGAAAC
Found at i:20195211 original size:95 final size:95
Alignment explanation
Indices: 20195048--20195237 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
20195038 ATTGTCTGAG
*
20195048 ACTTAAACTTTGACTTTATGAAGCTTGTGTTTAGATTTTATTTGATTGCTCACTGATTTAGAGTT
1 ACTTAAACTTTGACTTTATAAAGCTTGTGTTTAGATTTTATTTGATTGCTCACTGATTTAGAGTT
20195113 GTTGTAAAAACTATATGAATTACATTGACT
66 GTTGTAAAAACTATATGAATTACATTGACT
20195143 ACTTAAACTTTGACTTTATAAAGCTTGTGTTTAGATTTTATTTGATTGCTCACTGATTTAGAGTT
1 ACTTAAACTTTGACTTTATAAAGCTTGTGTTTAGATTTTATTTGATTGCTCACTGATTTAGAGTT
20195208 GTTGTAAAAACTATATGAATTACATTGACT
66 GTTGTAAAAACTATATGAATTACATTGACT
20195238 GTTCAACATA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (95 bp):
ACTTAAACTTTGACTTTATAAAGCTTGTGTTTAGATTTTATTTGATTGCTCACTGATTTAGAGTT
GTTGTAAAAACTATATGAATTACATTGACT
Found at i:20196398 original size:84 final size:84
Alignment explanation
Indices: 20196292--20196446 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
20196282 AAGGTTCTTT
* * * * **
20196292 TAAAATATAAAAGGATTGTTTAAGATATTTT-TGTACAAAAAATACCTTAAATAATCTTTTTATA
1 TAAAATATAAAAAGATTATTTAAGACATTTTCTATAC-AAAAATACCTTAAATAATCCATTTATA
20196356 AAAATATTAATCATAAACCC
65 AAAATATTAATCATAAACCC
* * **
20196376 TAAAATATAAAAAGATTATTTAAGGCATTTTCTATACAGAAATGTCTTAAATAATCCATTTATAA
1 TAAAATATAAAAAGATTATTTAAGACATTTTCTATACAAAAATACCTTAAATAATCCATTTATAA
20196441 AAATAT
66 AAATAT
20196447 AAATAGATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 56 0.93
85 4 0.07
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (84 bp):
TAAAATATAAAAAGATTATTTAAGACATTTTCTATACAAAAATACCTTAAATAATCCATTTATAA
AAATATTAATCATAAACCC
Found at i:20196515 original size:51 final size:52
Alignment explanation
Indices: 20196416--20196515 Score: 123
Period size: 51 Copynumber: 1.9 Consensus size: 52
20196406 TCTATACAGA
* * * *
20196416 AATGTCTTAAATAATCCATTTATAAAAATATAAATAGATAATTTAAGGCGTT
1 AATGCCTTAAACAATCCATTTATAAAAATATAAAAAGATAATTAAAGGCGTT
* *
20196468 AATGCCTTAAACAATCTC-TTTA-AAAAATATAAAAATATTATTAAAGGC
1 AATGCCTTAAACAATC-CATTTATAAAAATATAAAAAGATAATTAAAGGC
20196516 ATTTTCTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 22 0.54
52 18 0.44
53 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (52 bp):
AATGCCTTAAACAATCCATTTATAAAAATATAAAAAGATAATTAAAGGCGTT
Found at i:20196762 original size:63 final size:63
Alignment explanation
Indices: 20196619--20196762 Score: 154
Period size: 63 Copynumber: 2.3 Consensus size: 63
20196609 TTCTTTAAAT
* *
20196619 AATAATCATTTTATAT---TATAAAGGTATTATTTAAGGCATTTTCTATATAGAAACACTTTA
1 AATAATCATTTTATATAAATATAAAGGTATTATTTAAGGCATTTTCTATATAAAAACACATTA
* * * * * **
20196679 AATAAT-TTATTTACAAAAATATAAAAGG-ATTATTTAAGGCGTTTTTTATATAAAAATGCATTA
1 AATAATCAT-TTTATATAAATAT-AAAGGTATTATTTAAGGCATTTTCTATATAAAAACACATTA
20196742 AATAATCATTTTATATAAATA
1 AATAATCATTTTATATAAATA
20196763 ATCTTTTTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
59 1 0.02
60 11 0.17
63 48 0.73
64 6 0.09
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (63 bp):
AATAATCATTTTATATAAATATAAAGGTATTATTTAAGGCATTTTCTATATAAAAACACATTA
Found at i:20196775 original size:15 final size:17
Alignment explanation
Indices: 20196740--20196779 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20196730 AAAAATGCAT
20196740 TAAATAATCATTTTATA
1 TAAATAATCATTTTATA
*
20196757 TAAATAATCTTTTTATA
1 TAAATAATCATTTTATA
*
20196774 AAAATA
1 TAAATA
20196780 TAAAATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATCATTTTATA
Found at i:20204766 original size:10 final size:10
Alignment explanation
Indices: 20204751--20204785 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
20204741 CTTCTTTTCC
20204751 TTTTCTTCTT
1 TTTTCTTCTT
20204761 TTTTCTTCTT
1 TTTTCTTCTT
*
20204771 TTTTCATCATT
1 TTTTCTTC-TT
20204782 TTTT
1 TTTT
20204786 TTCATATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:20204790 original size:10 final size:11
Alignment explanation
Indices: 20204751--20204790 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
20204741 CTTCTTTTCC
20204751 TTTTCTTC-TT
1 TTTTCTTCATT
20204761 TTTTCTTC-TT
1 TTTTCTTCATT
*
20204771 TTTTCATCATT
1 TTTTCTTCATT
20204782 TTTT-TTCAT
1 TTTTCTTCAT
20204791 ATACCCAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTCTTCATT
Found at i:20204884 original size:14 final size:14
Alignment explanation
Indices: 20204852--20204885 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20204842 AATACAATAT
20204852 AATTTTTGAAAATC
1 AATTTTTGAAAATC
* *
20204866 TATTTTTGAAAATG
1 AATTTTTGAAAATC
20204880 AATTTT
1 AATTTT
20204886 CAAAATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (14 bp):
AATTTTTGAAAATC
Found at i:20205137 original size:17 final size:19
Alignment explanation
Indices: 20205100--20205142 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
20205090 ATAATTTTTG
20205100 GGTTAATTTGATGGATTTAA
1 GGTTAATTTGA-GGATTTAA
20205120 GGTTAATTTG-GG-TTTAA
1 GGTTAATTTGAGGATTTAA
*
20205137 GATTAA
1 GGTTAA
20205143 ATAGAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
20 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (19 bp):
GGTTAATTTGAGGATTTAA
Found at i:20205873 original size:14 final size:14
Alignment explanation
Indices: 20205854--20205882 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20205844 TGTATGTTAC
20205854 AAAAAATAAAAATA
1 AAAAAATAAAAATA
20205868 AAAAAATAAAAATA
1 AAAAAATAAAAATA
20205882 A
1 A
20205883 TTAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:20206133 original size:31 final size:31
Alignment explanation
Indices: 20206051--20206174 Score: 99
Period size: 32 Copynumber: 3.9 Consensus size: 31
20206041 ATTTTTTTTT
* *
20206051 AAATTACATATCAATTTAAAAACATTAAGTAAA
1 AAATT-CATATCATTTTAAAAA-ATTAAATAAA
* *
20206084 AAATCCTATATTGA-TTTAAAAAATTAAATAAA
1 AAATTC-ATA-TCATTTTAAAAAATTAAATAAA
* * **
20206116 AACTTCATATCATTTTAAAATATTATGTAAA
1 AAATTCATATCATTTTAAAAAATTAAATAAA
* *
20206147 AAATTTCATATTATTTCAAAAAA-TAAAT
1 AAA-TTCATATCATTTTAAAAAATTAAAT
20206175 TTATTAATCT
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
30 2 0.03
31 23 0.32
32 30 0.42
33 15 0.21
34 2 0.03
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.36
Consensus pattern (31 bp):
AAATTCATATCATTTTAAAAAATTAAATAAA
Found at i:20207114 original size:13 final size:13
Alignment explanation
Indices: 20207096--20207121 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20207086 AATCAGAAAC
20207096 GTGATTATTTAAT
1 GTGATTATTTAAT
20207109 GTGATTATTTAAT
1 GTGATTATTTAAT
20207122 TTTTGAATTT
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:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GTGATTATTTAAT
Found at i:20207231 original size:17 final size:18
Alignment explanation
Indices: 20207196--20207234 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
20207186 GTATGAAATG
20207196 AAATATTTGACATTTTAA
1 AAATATTTGACATTTTAA
20207214 AAATATTATGA-A-TTTAA
1 AAATATT-TGACATTTTAA
20207231 AAAT
1 AAAT
20207235 TATGTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 8 0.40
19 3 0.15
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
AAATATTTGACATTTTAA
Found at i:20210778 original size:2 final size:2
Alignment explanation
Indices: 20210771--20210808 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
20210761 GCCAGAAGGT
*
20210771 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20210809 AGACAATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20214607 original size:11 final size:11
Alignment explanation
Indices: 20214587--20214675 Score: 58
Period size: 11 Copynumber: 8.1 Consensus size: 11
20214577 CCATTTTCTT
*
20214587 TTTTTGTTTTA
1 TTTTTATTTTA
20214598 TTTTTATTTTA
1 TTTTTATTTTA
** *
20214609 TTTACATTTACA
1 TTTTTATTT-TA
20214621 TTTTTA--TTA
1 TTTTTATTTTA
*
20214630 TTGTTATTGTT-
1 TTTTTATT-TTA
*
20214641 TTTTTATATATA
1 TTTTTAT-TTTA
*
20214653 TTTTTCTTTTA
1 TTTTTATTTTA
*
20214664 TTTTTATCTTA
1 TTTTTATTTTA
20214675 T
1 T
20214676 GTATTTATTA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
9 6 0.10
10 1 0.02
11 37 0.64
12 14 0.24
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:20214690 original size:15 final size:16
Alignment explanation
Indices: 20214662--20214700 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
20214652 ATTTTTCTTT
20214662 TATTT-TTATCTTATG
1 TATTTATTATCTTATG
*
20214677 TATTTATTAT-TTATT
1 TATTTATTATCTTATG
20214692 TATTTATTA
1 TATTTATTA
20214701 CTACTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTATTATCTTATG
Found at i:20214787 original size:22 final size:23
Alignment explanation
Indices: 20214754--20214811 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
20214744 TTAATATTTA
*
20214754 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
20214777 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
20214799 TTTAATTTATCTG
1 TATAATTTATCTG
20214812 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:20215668 original size:9 final size:9
Alignment explanation
Indices: 20215656--20215787 Score: 66
Period size: 8 Copynumber: 14.4 Consensus size: 9
20215646 TTTTTTTCTT
20215656 TTTTTATTA
1 TTTTTATTA
20215665 -TTTTATTA
1 TTTTTATTA
20215673 -TTTTATT-
1 TTTTTATTA
*
20215680 TTATT-TTA
1 TTTTTATTA
*
20215688 TTTAT-TTA
1 TTTTTATTA
20215696 TTTATTATTA
1 TTT-TTATTA
*
20215706 TTATATTATGA
1 TT-T-TTATTA
*
20215717 TTGTTTAATA
1 TT-TTTATTA
20215727 TTTTT-TCTA
1 TTTTTAT-TA
20215736 TTTTTTATTTA
1 -TTTTTA-TTA
20215747 TTTTTATT-
1 TTTTTATTA
20215755 TTATTTATT-
1 TT-TTTATTA
20215764 TTATTTATT-
1 TT-TTTATTA
20215773 TATTTTATTTA
1 T-TTTTA-TTA
20215784 TTTT
1 TTTT
20215788 ATTTATTTCA
Statistics
Matches: 101, Mismatches: 9, Indels: 25
0.75 0.07 0.19
Matches are distributed among these distances:
7 2 0.02
8 29 0.29
9 28 0.28
10 28 0.28
11 13 0.13
12 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTTATTA
Found at i:20215681 original size:22 final size:23
Alignment explanation
Indices: 20215659--20215794 Score: 117
Period size: 22 Copynumber: 6.1 Consensus size: 23
20215649 TTTTCTTTTT
20215659 TTATTATTTTATTATTTTA-TT-
1 TTATTATTTTATTATTTTATTTA
*
20215680 TTATT-TTAT-TTA-TTTATTTA
1 TTATTATTTTATTATTTTATTTA
* * *
20215700 TTATTATTATATTATGATTGTTTA
1 TTATTATTTTATTAT-TTTATTTA
* *
20215724 ATATTTTTTCTATT-TTTTATTTA
1 TTATTATTT-TATTATTTTATTTA
*
20215747 TTTTTATTTTATTTATTTTATTTA
1 TTATTATTTTA-TTATTTTATTTA
20215771 -T-TTATTTTATTTATTTTATTTA
1 TTATTATTTTA-TTATTTTATTTA
20215793 TT
1 TT
20215795 TCATTTTCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.04
19 5 0.05
20 8 0.09
21 9 0.10
22 26 0.28
23 16 0.17
24 22 0.23
25 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (23 bp):
TTATTATTTTATTATTTTATTTA
Found at i:20215693 original size:4 final size:4
Alignment explanation
Indices: 20215674--20215800 Score: 79
Period size: 4 Copynumber: 30.8 Consensus size: 4
20215664 ATTTTATTAT
*
20215674 TTTA TTTTA TTTTA TTTA TTTA TTTA -TTA -TTA -TTA TATTA TGATTG
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA T--TTA
* *
20215720 TTTA -ATA TTTT TTCTA TTT- TTTA TTTA -TT- TTTA TTTTA TTTA TTTTA
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
20215767 TTTA TTTA TTTTA TTTA TTTTA TTTA TTTCA TTT
1 TTTA TTTA -TTTA TTTA -TTTA TTTA TTT-A TTT
20215801 TCTTTAAATA
Statistics
Matches: 103, Mismatches: 6, Indels: 26
0.76 0.04 0.19
Matches are distributed among these distances:
3 18 0.17
4 45 0.44
5 36 0.35
6 4 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:20215788 original size:9 final size:9
Alignment explanation
Indices: 20215657--20215800 Score: 108
Period size: 9 Copynumber: 15.9 Consensus size: 9
20215647 TTTTTTCTTT
20215657 TTTTA-TTA
1 TTTTATTTA
20215665 TTTTA-TTA
1 TTTTATTTA
20215673 TTTTATTTTA
1 TTTTA-TTTA
20215683 TTTTATTTA
1 TTTTATTTA
20215692 -TTTATTTA
1 TTTTATTTA
20215700 TTATTATTATA
1 TT-TTATT-TA
*
20215711 TTATGATTGT-
1 TT-TTATT-TA
*
20215721 TTAATATTT-
1 TT-TTATTTA
20215730 TTTCTA-TT-
1 TTT-TATTTA
20215738 TTTTATTTA
1 TTTTATTTA
20215747 TTTTTATTT-
1 -TTTTATTTA
20215756 TATTTATTT-
1 T-TTTATTTA
20215765 TATTTATTTA
1 T-TTTATTTA
20215775 TTTTATTTA
1 TTTTATTTA
20215784 TTTTATTTA
1 TTTTATTTA
*
20215793 TTTCATTT
1 TTTTATTT
20215801 TCTTTAAATA
Statistics
Matches: 119, Mismatches: 6, Indels: 21
0.82 0.04 0.14
Matches are distributed among these distances:
7 2 0.02
8 29 0.24
9 50 0.42
10 28 0.24
11 10 0.08
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:20215806 original size:18 final size:16
Alignment explanation
Indices: 20215646--20215800 Score: 91
Period size: 17 Copynumber: 8.9 Consensus size: 16
20215636 TTCAGGTTTT
* *
20215646 TTTTTTTCTTTTTTTA
1 TTTTTTTATTTATTTA
*
20215662 TTATTTTA-TTATTTTA
1 TTTTTTTATTTA-TTTA
20215678 TTTTATTTTATTTATTTA
1 -TTT-TTTTATTTATTTA
20215696 TTTATTATTATTATATTATGA
1 TTT-TT-TTATT-TATT-T-A
* *
20215717 TTGTTTAATATTT-TTTC
1 TT-TTT-TTATTTATTTA
20215734 TATTTTTTATTTATTT-
1 T-TTTTTTATTTATTTA
*
20215750 TTATTTTATTTATTTTA
1 TTTTTTTATTTA-TTTA
*
20215767 TTTATTTATTTTATTTA
1 TTTTTTTA-TTTATTTA
20215784 TTTTATTTATTTCATTT
1 TTTT-TTTATTT-ATTT
20215801 TCTTTAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.11
16 19 0.17
17 31 0.28
18 28 0.25
19 9 0.08
20 2 0.02
21 10 0.09
22 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.75
Consensus pattern (16 bp):
TTTTTTTATTTATTTA
Found at i:20215876 original size:59 final size:59
Alignment explanation
Indices: 20215813--20216044 Score: 183
Period size: 59 Copynumber: 3.9 Consensus size: 59
20215803 TTTAAATAAG
*
20215813 ATTAAAAAAAAT-AAAAAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA
1 ATTAAAAAAAATCAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTCGAA
* * * *
20215872 ATTAAGAATTCAAAA--AATATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT-TAA
1 ATTAA-AA---AAAATCAA-AAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTTCTCGAA
* *** * *
20215934 GA--ATAAATTTTCAAAAAAGGTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA
1 -ATTAAAAAAAATCAAAAAA-ATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTCGAA
***
20215994 ATT--AAAGTTTCAAAAAAATATTTTTAGTGAAAAGTTGAAAGTATCAATTTT
1 ATTAAAAAAAATCAAAAAAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTT
20216045 CCTTAAAGAT
Statistics
Matches: 140, Mismatches: 18, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
57 3 0.02
58 31 0.22
59 53 0.38
60 7 0.05
61 1 0.01
62 5 0.04
63 40 0.29
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (59 bp):
ATTAAAAAAAATCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA
Found at i:20215960 original size:122 final size:119
Alignment explanation
Indices: 20215834--20216109 Score: 389
Period size: 122 Copynumber: 2.3 Consensus size: 119
20215824 TAAAAAAACA
*
20215834 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAGAATTCAAAAAATATATATAT
1 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-ATTC--AAAA-A-A-ATAT
*
20215898 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAATTTTC-AAAAAAGG-TT
60 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAG-ATAAAATTTCAAAAAAAGGATT
*
20215956 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTTTAG
1 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGATTCAAAAAAATATTTTTAG
*
20216021 TGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAAAAAGGATTT
66 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTC--AAAAAAAGGA-TT
*
20216078 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTT
1 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTT
20216110 TCTTGTACAA
Statistics
Matches: 142, Mismatches: 5, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
117 46 0.32
118 4 0.03
119 1 0.01
120 12 0.08
122 76 0.54
123 3 0.02
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (119 bp):
TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGATTCAAAAAAATATTTTTAG
GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAAATTTCAAAAAAAGGATT
Found at i:20226525 original size:8 final size:8
Alignment explanation
Indices: 20226512--20226590 Score: 115
Period size: 8 Copynumber: 9.9 Consensus size: 8
20226502 TATGCTTAAA
20226512 GAAAAAAT
1 GAAAAAAT
20226520 GAAAAAAT
1 GAAAAAAT
20226528 GAAAAAAT
1 GAAAAAAT
20226536 GAAAAAAT
1 GAAAAAAT
*
20226544 AAAAAAAT
1 GAAAAAAT
*
20226552 AAAAAAAT
1 GAAAAAAT
*
20226560 AAAAAAAAT
1 -GAAAAAAT
20226569 GAAAAAAT
1 GAAAAAAT
20226577 GAAAAAA-
1 GAAAAAAT
20226584 GAAAAAA
1 GAAAAAA
20226591 AGTGAATGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
7 7 0.10
8 53 0.78
9 8 0.12
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:20226569 original size:41 final size:40
Alignment explanation
Indices: 20226513--20226591 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 40
20226503 ATGCTTAAAG
* *
20226513 AAAAAATGAAAAAATGAAAAAATGAAAAAATAAAAAAATA
1 AAAAAATAAAAAAATGAAAAAATGAAAAAAGAAAAAAATA
20226553 AAAAAATAAAAAAAATGAAAAAATGAAAAAAGAAAAAAA
1 AAAAAAT-AAAAAAATGAAAAAATGAAAAAAGAAAAAAA
20226592 GTGAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 7 0.19
41 29 0.81
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (40 bp):
AAAAAATAAAAAAATGAAAAAATGAAAAAAGAAAAAAATA
Found at i:20227699 original size:82 final size:82
Alignment explanation
Indices: 20227583--20227733 Score: 232
Period size: 82 Copynumber: 1.8 Consensus size: 82
20227573 ATGATTGTCA
* ** *
20227583 AGGAGTAATTTACTTTCCAAAGTTTCGTTACCTCTGTTTAAAGGAGCAATTTACTTTT-CAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGCGGTACCTCTGTTTAAAGGAGCAATTTA-TTTTCCAAAGT
20227647 CGTGGTGTCTCTGTTTAG
65 CGTGGTGTCTCTGTTTAG
* *
20227665 AGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTC
1 AGGAGCAATTTACTTTCCAAAGTCGCGGTACCTCTGTTTAAAGGAGCAATTTATTTTCCAAAGTC
20227730 GTGG
66 GTGG
20227734 AGCAATTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 4 0.06
82 58 0.94
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (82 bp):
AGGAGCAATTTACTTTCCAAAGTCGCGGTACCTCTGTTTAAAGGAGCAATTTATTTTCCAAAGTC
GTGGTGTCTCTGTTTAG
Found at i:20227729 original size:41 final size:41
Alignment explanation
Indices: 20227583--20227730 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
20227573 ATGATTGTCA
* ** * * *
20227583 AGGAGTAATTTACTTTCCAAAGTTTCGTTACCTCTGTTTAA
1 AGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAG
* * *
20227624 AGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAG
20227665 AGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAG
*
20227706 AGGAGCAATTTATTTTCCAAAGTCG
1 AGGAGCAATTTACTTTCCAAAGTCG
20227731 TGGAGCAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAG
Found at i:20227741 original size:25 final size:25
Alignment explanation
Indices: 20227707--20227754 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
20227697 TCTGTTTAGA
20227707 GGAGCAATTTATTTTCCAAAGTCGT
1 GGAGCAATTTATTTTCCAAAGTCGT
20227732 GGAGCAATTTATTTTCCAAAGTC
1 GGAGCAATTTATTTTCCAAAGTC
20227755 ATGGTGCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (25 bp):
GGAGCAATTTATTTTCCAAAGTCGT
Found at i:20227772 original size:66 final size:66
Alignment explanation
Indices: 20227666--20227799 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
20227656 TCTGTTTAGA
* * *
20227666 GGAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCG
1 GGAGCAATTTACTTTCCAAAGTCACGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCCAAAATCG
20227731 T
66 T
* *
20227732 GGAGCAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCCAAAATCG
1 GGAGCAATTTACTTTCCAAAGTCACGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCCAAAATCG
20227797 T
66 T
20227798 GG
1 GG
20227800 TGCCTCTGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (66 bp):
GGAGCAATTTACTTTCCAAAGTCACGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCCAAAATCG
T
Found at i:20227790 original size:41 final size:40
Alignment explanation
Indices: 20227733--20227910 Score: 227
Period size: 41 Copynumber: 4.5 Consensus size: 40
20227723 CAAAGTCGTG
*
20227733 GAGCAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAA
1 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTG-TTAGAA
* *
20227774 GAGCAATTTATTTTCCAAAATCGTGGTGCCTCTGTTAGAG
1 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTAGAA
*
20227814 GAGCAATTTACTTT-CAAAGTCGTGGTGCCTCTGTTA-AA
1 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTAGAA
* * * *
20227852 GGGCAATTTA-CTTCCAAAGTCGTGGTGCCTCTATTTAGAT
1 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCT-GTTAGAA
* *
20227892 GAGCCATTTATTTTTCAAA
1 GAGCAATTTATTTTCCAAA
20227911 ATTGTTGAGC
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.02
38 28 0.24
39 24 0.20
40 27 0.23
41 38 0.32
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (40 bp):
GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTAGAA
Found at i:20228037 original size:43 final size:44
Alignment explanation
Indices: 20227987--20228175 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 44
20227977 TTGCCTCTTT
20227987 TTAGAGGAGCTTTGTTTATTTTTCAAAAGT-GTTGAGCCTCTGA
1 TTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGA
* * *
20228030 -TAGGAGGAGCTTT-ATTA-TTTTCCAAAGTCGTTGGAGCCTCTAA
1 TTA-GAGGAGCTTTGTTTATTTTTCAAAAGTCGTT-GAGCCTCTGA
* * *
20228073 TTATATGGAGC-TTATTTATTTTTC-AAAGTCGTTAAGCCTCTGA
1 TTAGA-GGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGA
* *
20228116 TTAGAGGAGCTTTGTTTGTGTTTTTCAAAAGTCGTTGAGCCTCTGT
1 TTAGAGGAGCTTTG-TT-TATTTTTCAAAAGTCGTTGAGCCTCTGA
*
20228162 TTAGAGGAGTTTTG
1 TTAGAGGAGCTTTG
20228176 ATCAAATGTC
Statistics
Matches: 122, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
41 10 0.08
42 13 0.11
43 36 0.30
44 21 0.17
45 12 0.10
46 30 0.25
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (44 bp):
TTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGA
Found at i:20228368 original size:11 final size:11
Alignment explanation
Indices: 20228329--20228433 Score: 95
Period size: 11 Copynumber: 9.1 Consensus size: 11
20228319 CCATTTTCTT
20228329 TTTTTATTTTA
1 TTTTTATTTTA
20228340 TTTTGTATTTTCA
1 TTTT-TATTTT-A
20228353 TTTTTATTTTA
1 TTTTTATTTTA
20228364 TTTTTATTTTA
1 TTTTTATTTTA
**
20228375 TTTACATTTTTA
1 TTTTTA-TTTTA
* *
20228387 TTATTGTTATTA
1 TTTTTATT-TTA
20228399 TTTTT-TTATATA
1 TTTTTATT-T-TA
*
20228411 TTTTTCTTTTA
1 TTTTTATTTTA
*
20228422 TTTTTATCTTA
1 TTTTTATTTTA
20228433 T
1 T
20228434 GTATTTATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
11 38 0.48
12 34 0.43
13 7 0.09
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:20228400 original size:35 final size:35
Alignment explanation
Indices: 20228329--20228403 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
20228319 CCATTTTCTT
** *
20228329 TTTTTATTTTATTTTGTATTTTCATTTTTATTTTA
1 TTTTTATTTTATTTTACATTTTCATTATTATTTTA
* *
20228364 TTTTTATTTTA-TTTACATTTTTATTATTGTTATTA
1 TTTTTATTTTATTTTACATTTTCATTATTATT-TTA
20228399 TTTTT
1 TTTTT
20228404 TTATATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 15 0.44
35 19 0.56
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (35 bp):
TTTTTATTTTATTTTACATTTTCATTATTATTTTA
Found at i:20228425 original size:21 final size:21
Alignment explanation
Indices: 20228380--20228428 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
20228370 TTTTATTTAC
20228380 ATTTTTATTATTGTTATTATT
1 ATTTTTATTATTGTTATTATT
* *
20228401 -TTTTTATATATTTTTCTT-TT
1 ATTTTTAT-TATTGTTATTATT
20228421 ATTTTTAT
1 ATTTTTAT
20228429 CTTATGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTTATTATTGTTATTATT
Found at i:20228583 original size:19 final size:19
Alignment explanation
Indices: 20228539--20228574 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20228529 GTTATAATTT
*
20228539 ATTTAT-TATTTAATTTTA
1 ATTTATCTATTAAATTTTA
20228557 ATTTATCTATTAAATTTT
1 ATTTATCTATTAAATTTT
20228575 GGTTTATCTG
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:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTATCTATTAAATTTTA
Found at i:20229256 original size:9 final size:9
Alignment explanation
Indices: 20229242--20229354 Score: 63
Period size: 9 Copynumber: 11.9 Consensus size: 9
20229232 TTTTCGTTTC
20229242 TTTTTATTA
1 TTTTTATTA
20229251 TTTTTATTA
1 TTTTTATTA
*
20229260 TTTTTGTT-
1 TTTTTATTA
20229268 TTATTTATTTA
1 TT-TTTA-TTA
20229279 TTTATTATTA
1 TTT-TTATTA
**
20229289 TTATATTATGG
1 TT-T-TTATTA
*
20229300 TTGTTTAATA
1 TT-TTTATTA
*
20229310 TTTTT-CTA
1 TTTTTATTA
20229318 TTTTTTATTTA
1 -TTTTTA-TTA
20229329 TTTTTATT-
1 TTTTTATTA
20229337 TTATTTATT-
1 TT-TTTATTA
20229346 TTATTTATT
1 TT-TTTATT
20229355 TCATTTTCTT
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
8 6 0.07
9 44 0.52
10 19 0.22
11 16 0.19
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTTTATTA
Found at i:20229275 original size:15 final size:16
Alignment explanation
Indices: 20229252--20229354 Score: 60
Period size: 15 Copynumber: 6.7 Consensus size: 16
20229242 TTTTTATTAT
*
20229252 TTTTA-TTATT-TTTG
1 TTTTATTTATTATTTA
20229266 TTTTATTTATTTATTTA
1 TTTTATTTA-TTATTTA
20229283 --TTA-TTATTATATTA
1 TTTTATTTATTAT-TTA
* * *
20229297 TGGTTGTTTAATATTT-
1 T-TTTATTTATTATTTA
* *
20229313 TTCTATTTTTTATTTA
1 TTTTATTTATTATTTA
20229329 TTTT-TATT-TTATTTA
1 TTTTAT-TTATTATTTA
20229344 TTTTATTTATT
1 TTTTATTTATT
20229355 TCATTTTCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
13 4 0.06
14 11 0.16
15 29 0.43
16 11 0.16
17 7 0.10
18 6 0.09
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTATTTATTATTTA
Found at i:20229276 original size:4 final size:4
Alignment explanation
Indices: 20229267--20229360 Score: 51
Period size: 4 Copynumber: 23.8 Consensus size: 4
20229257 TTATTTTTGT
* *
20229267 TTTA TTTA TTTA TTTA -TTA -TTA -TTA TATTA TGGTTG TTTA -ATA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA T--TTA TTTA TTTA TTTA
20229313 TTCTA TTT- TTTA TTTA -TT- TTTA TTTTA TTTA TTTTA TTTA TTTCA
1 TT-TA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTT-A
20229358 TTT
1 TTT
20229361 TCTTTAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
3 20 0.27
4 32 0.44
5 18 0.25
6 3 0.04
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:20229338 original size:24 final size:23
Alignment explanation
Indices: 20229311--20229366 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
20229301 TGTTTAATAT
*
20229311 TTTTCTATT-TTTTATTTATTTTTA
1 TTTTCT-TTATTTTATTTA-TTTCA
*
20229335 TTTTATTTATTTTATTTATTTCA
1 TTTTCTTTATTTTATTTATTTCA
20229358 TTTTCTTTA
1 TTTTCTTTA
20229367 AATAAGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTCTTTATTTTATTTATTTCA
Found at i:20229469 original size:60 final size:60
Alignment explanation
Indices: 20229386--20229668 Score: 276
Period size: 60 Copynumber: 4.7 Consensus size: 60
20229376 AAAAAAAAAA
* * *
20229386 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA-ATTTT
1 CAAAAAAGATTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGATTTT
* * * *
20229444 CAAAAAA-ATTTTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGA-ATT
1 CAAAAAAGA--TTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGATTTT
* * * * * *
20229504 CAAAAAATATATATATTTTTAGGAAAAAGTTAAAAGTATCAA-TTTTCCTGAGAATAAGATTTTT
1 CAAAAAAGAT-T-T-TTTTGAAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGA-TTTT
* * *
20229568 CAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTCGAAATTAA-AGTTT
1 CAAAAAAGATTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATAAGATTTT
* *
20229627 CAAAAAA-ATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTT
1 CAAAAAAGATTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTT
20229669 TCTTCTACAA
Statistics
Matches: 189, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
58 40 0.21
59 11 0.06
60 68 0.36
61 20 0.11
62 21 0.11
63 18 0.10
64 11 0.06
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (60 bp):
CAAAAAAGATTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGATTTT
Found at i:20229540 original size:123 final size:119
Alignment explanation
Indices: 20229386--20229668 Score: 355
Period size: 123 Copynumber: 2.4 Consensus size: 119
20229376 AAAAAAAAAA
*
20229386 CAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA-A-TTTTCAAA
1 CAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCCTAAAAATAAGATTTTTCAAA
*
20229448 AAA-ATTTTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAGAATT
65 AAAGA--TTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-ATT
* * *
20229504 CAAAAAATATATATATTTTTAGGAAAAAGTTAAAAGTATCAA-TTTTCCTGAGAATAAGATTTTT
1 C--AAAA-A-A-ATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCCTAAAAATAAGATTTTT
* * *
20229568 CAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTT
61 CAAAAAAGATTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGATT
20229627 CAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTT
1 CAAAAAAATATTTTTAGGA-AAAAGTTGAAAGTATCAATTTTT
20229669 TCTTCTACAA
Statistics
Matches: 144, Mismatches: 9, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
117 3 0.02
118 26 0.18
119 5 0.03
120 5 0.03
121 5 0.03
122 16 0.11
123 69 0.48
124 14 0.10
125 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (119 bp):
CAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCCTAAAAATAAGATTTTTCAAAA
AAGATTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGATT
Found at i:20234689 original size:14 final size:15
Alignment explanation
Indices: 20234651--20234692 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
20234641 AAAATAACAA
20234651 TTTTTTAATAACATT
1 TTTTTTAATAACATT
**
20234666 ACTTTT-ATAA-ATT
1 TTTTTTAATAACATT
20234679 TTTTTTAATAACAT
1 TTTTTTAATAACAT
20234693 GGGGGAGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTTAATAACATT
Found at i:20236407 original size:11 final size:11
Alignment explanation
Indices: 20236386--20236430 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
20236376 GGGAGACAAA
20236386 AAAAGGAAAAAT
1 AAAA-GAAAAAT
20236398 AAAAGAAAAAT
1 AAAAGAAAAAT
20236409 AAAAGAGAAAAAT
1 -AAA-AGAAAAAT
20236422 AAAA-AAAAA
1 AAAAGAAAAA
20236431 GAGTTAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.16
11 8 0.26
12 10 0.32
13 8 0.26
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (11 bp):
AAAAGAAAAAT
Found at i:20236412 original size:24 final size:23
Alignment explanation
Indices: 20236386--20236430 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
20236376 GGGAGACAAA
20236386 AAAAG-GAAAAATAAAAGAAAAAT
1 AAAAGAGAAAAATAAAA-AAAAAT
20236409 AAAAGAGAAAAATAAAAAAAAA
1 AAAAGAGAAAAATAAAAAAAAA
20236431 GAGTTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (23 bp):
AAAAGAGAAAAATAAAAAAAAAT
Found at i:20236417 original size:13 final size:13
Alignment explanation
Indices: 20236386--20236425 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
20236376 GGGAGACAAA
20236386 AAAAG-GAAAAAT
1 AAAAGAGAAAAAT
20236398 -AAA-AGAAAAAT
1 AAAAGAGAAAAAT
20236409 AAAAGAGAAAAAT
1 AAAAGAGAAAAAT
20236422 AAAA
1 AAAA
20236426 AAAAAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.40
12 3 0.12
13 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (13 bp):
AAAAGAGAAAAAT
Found at i:20236419 original size:18 final size:18
Alignment explanation
Indices: 20236398--20236433 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20236388 AAGGAAAAAT
*
20236398 AAAAGAAAAATAAAAGAGA
1 AAAATAAAAA-AAAAGAGA
20236417 AAAATAAAAAAAAAGAG
1 AAAATAAAAAAAAAGAG
20236434 TTAACAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAATAAAAAAAAAGAGA
Found at i:20237989 original size:22 final size:23
Alignment explanation
Indices: 20237964--20238010 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
20237954 GTTTAGTTAA
*
20237964 TTGATCGATTAT-GAAATTAATT
1 TTGATCGATTATAGAAAATAATT
*
20237986 TTGATTGATTATAGAAAATAATT
1 TTGATCGATTATAGAAAATAATT
20238009 TT
1 TT
20238011 AAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (23 bp):
TTGATCGATTATAGAAAATAATT
Found at i:20238286 original size:9 final size:8
Alignment explanation
Indices: 20238274--20238345 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 8
20238264 ATTAATTCAA
20238274 AAATTAAT
1 AAATTAAT
20238282 CAAATTAATT
1 -AAATTAA-T
20238292 AAAATTAAT
1 -AAATTAAT
20238301 AAATTAAT
1 AAATTAAT
20238309 AAATTCAATT
1 AAATT-AA-T
*
20238319 TAATTAACT
1 AAATTAA-T
*
20238328 AAAATAAAAT
1 -AAAT-TAAT
20238338 AAATTAAT
1 AAATTAAT
20238346 TTAATTAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 16 0.31
9 17 0.33
10 17 0.33
11 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATTAAT
Found at i:20240578 original size:22 final size:23
Alignment explanation
Indices: 20240546--20240595 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
20240536 TTTATTTGAT
20240546 AAAA-AATTTATTAGTC-AATAA
1 AAAATAATTTATTAGTCAAATAA
*
20240567 AAAATAATTTATTGGTCAAAATAA
1 AAAATAATTTATTAGTC-AAATAA
20240591 AAAAT
1 AAAAT
20240596 GAGTCATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 4 0.16
22 11 0.44
24 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
AAAATAATTTATTAGTCAAATAA
Found at i:20241044 original size:15 final size:15
Alignment explanation
Indices: 20241026--20241055 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20241016 GATATTTCAC
20241026 TTTTAAATATTTTTA
1 TTTTAAATATTTTTA
*
20241041 TTTTATATATTTTTA
1 TTTTAAATATTTTTA
20241056 AACATAGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATATTTTTA
Found at i:20241533 original size:17 final size:17
Alignment explanation
Indices: 20241511--20241566 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
20241501 AATAATAAAT
20241511 ATTATTATTAAAATATA
1 ATTATTATTAAAATATA
*
20241528 ATTATTCTTAAATATTAATA
1 ATTATTATTAAA-A-T-ATA
*
20241548 ATT-TTATTAATATATA
1 ATTATTATTAAAATATA
20241564 ATT
1 ATT
20241567 TCAATATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 6 0.18
17 12 0.36
18 2 0.06
19 7 0.21
20 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTATTAAAATATA
Found at i:20241566 original size:16 final size:16
Alignment explanation
Indices: 20241515--20241567 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
20241505 ATAAATATTA
*
20241515 TTATTAAAATATAATT
1 TTATTAATATATAATT
*
20241531 ATTCTTAAATATTAATAATT
1 -TTATT-AATA-T-ATAATT
20241551 TTATTAATATATAATT
1 TTATTAATATATAATT
20241567 T
1 T
20241568 CAATATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 7 0.23
17 5 0.17
18 7 0.23
19 5 0.17
20 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATTAATATATAATT
Found at i:20241641 original size:17 final size:19
Alignment explanation
Indices: 20241619--20241658 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
20241609 TTATATTAAT
*
20241619 AATATTTT-TAAAAAAT-A
1 AATATTTTAGAAAAAATCA
20241636 AATATTTTAGAAAAAATCA
1 AATATTTTAGAAAAAATCA
20241655 AATA
1 AATA
20241659 ACTGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
AATATTTTAGAAAAAATCA
Found at i:20243578 original size:4 final size:4
Alignment explanation
Indices: 20243569--20243593 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20243559 ACATATATGG
20243569 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
20243594 CTATTAGAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:20255719 original size:12 final size:11
Alignment explanation
Indices: 20255683--20255712 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
20255673 ACTTTTTTTA
20255683 TTATTTTGTTT
1 TTATTTTGTTT
20255694 TTAGTTTTGTTT
1 TTA-TTTTGTTT
20255706 TTATTTT
1 TTATTTT
20255713 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (11 bp):
TTATTTTGTTT
Found at i:20256004 original size:26 final size:26
Alignment explanation
Indices: 20255943--20255995 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20255933 TTTATTTTTC
*
20255943 TTCAATTTAATCTTTATATTGTCATT
1 TTCAATTTAATCTTTATATTATCATT
*
20255969 TTCAATTTAATCTTTATGTTATCATT
1 TTCAATTTAATCTTTATATTATCATT
20255995 T
1 T
20255996 GTGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (26 bp):
TTCAATTTAATCTTTATATTATCATT
Found at i:20256196 original size:2 final size:2
Alignment explanation
Indices: 20256189--20256226 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20256179 CTCAAGTTAA
20256189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20256227 CACATGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20259170 original size:33 final size:32
Alignment explanation
Indices: 20259118--20259195 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
20259108 TTTGACATTT
* * *
20259118 TAAAAAAAAGTGATCAAATTATATCCAAACAA
1 TAAAAAAAAATAATTAAATTATATCCAAACAA
* *
20259150 TAAAAAATAAATAATTAAATTATATTCAAATAA
1 TAAAAAA-AAATAATTAAATTATATCCAAACAA
*
20259183 TAAATAAAAATAA
1 TAAAAAAAAATAA
20259196 AATTATATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 13 0.33
33 26 0.67
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (32 bp):
TAAAAAAAAATAATTAAATTATATCCAAACAA
Found at i:20259186 original size:26 final size:27
Alignment explanation
Indices: 20259155--20259212 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 27
20259145 AACAATAAAA
*
20259155 AATAAAT-AATTAAATTATATTCAAAT
1 AATAAATAAATAAAATTATATTCAAAT
20259181 AATAAATAAAAATAAAATTATATTCAAAT
1 AATAAAT--AAATAAAATTATATTCAAAT
20259210 AAT
1 AAT
20259213 GAAACAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.25
29 21 0.75
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
AATAAATAAATAAAATTATATTCAAAT
Found at i:20259206 original size:29 final size:29
Alignment explanation
Indices: 20259148--20259226 Score: 104
Period size: 30 Copynumber: 2.7 Consensus size: 29
20259138 ATATCCAAAC
* *
20259148 AATAAAAAATAAATAATTAAATTATATTCA
1 AATAATAAATAAA-AATAAAATTATATTCA
20259178 AATAATAAATAAAAATAAAATTATATTCA
1 AATAATAAATAAAAATAAAATTATATTCA
* *
20259207 AATAATGAAACAATAATAAA
1 AATAAT-AAATAAAAATAAA
20259227 GTAGTGGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 21 0.48
30 23 0.52
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
AATAATAAATAAAAATAAAATTATATTCA
Found at i:20260047 original size:52 final size:52
Alignment explanation
Indices: 20259961--20260076 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 52
20259951 GAAGTCGAGA
* * * *
20259961 CTATTTAAGTTCTGCTAAAGGTGCTGAAAGGCCCA-CTAAAAAAAATAGGGCTT
1 CTATTTCA-TTCTGCCAAAGGTGCTAAAAAGCCCAGC-AAAAAAAATAGGGCTT
* * *
20260014 CTATTTCATTCTGCCAAAGGTGTTAAAAAGCCCAGCAAAGAAAATTGGGCTT
1 CTATTTCATTCTGCCAAAGGTGCTAAAAAGCCCAGCAAAAAAAATAGGGCTT
*
20260066 TTATTTCATTC
1 CTATTTCATTC
20260077 AATTTGACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 46 0.85
53 8 0.15
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
CTATTTCATTCTGCCAAAGGTGCTAAAAAGCCCAGCAAAAAAAATAGGGCTT
Found at i:20263014 original size:20 final size:19
Alignment explanation
Indices: 20262976--20263014 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
20262966 AATTGTAATT
*
20262976 TATAATTAAAATAATAAAA
1 TATAATTAAAATAAAAAAA
20262995 TATATATTAAAATAAAAAAA
1 TATA-ATTAAAATAAAAAAA
20263015 GCTCGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TATAATTAAAATAAAAAAA
Found at i:20263500 original size:15 final size:16
Alignment explanation
Indices: 20263469--20263502 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20263459 ATCTACAAAT
*
20263469 TATCATATAAAATTTA
1 TATCATATAAAAATTA
20263485 TATCAT-TAAAAATTA
1 TATCATATAAAAATTA
20263500 TAT
1 TAT
20263503 ATGAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TATCATATAAAAATTA
Found at i:20266211 original size:38 final size:38
Alignment explanation
Indices: 20266155--20266229 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
20266145 GAGAGACCAC
* *
20266155 AATTTGACACCAAATAGTGACAGGGCCCATAATTTGAT
1 AATTTGACACCAAATAGTGACAGGACCCACAATTTGAT
* *
20266193 AATTTGACACCAATTAGTGACATGACCCACAATTTGA
1 AATTTGACACCAAATAGTGACAGGACCCACAATTTGA
20266230 GTACAACAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (38 bp):
AATTTGACACCAAATAGTGACAGGACCCACAATTTGAT
Found at i:20273082 original size:21 final size:21
Alignment explanation
Indices: 20273057--20273099 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
20273047 AAGGGCTTGC
20273057 AGGGGTACTTAGAAGAAACAA
1 AGGGGTACTTAGAAGAAACAA
20273078 AGGGGTACTTAGAAGAAACAA
1 AGGGGTACTTAGAAGAAACAA
20273099 A
1 A
20273100 AGAGGCAAAA
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:0.49, C:0.09, G:0.28, T:0.14
Consensus pattern (21 bp):
AGGGGTACTTAGAAGAAACAA
Found at i:20275557 original size:24 final size:23
Alignment explanation
Indices: 20275517--20275592 Score: 91
Period size: 24 Copynumber: 3.3 Consensus size: 23
20275507 AAAAAAAAGG
* *
20275517 GAAAAAAAGAAAAAAGAAGAAGA
1 GAAAAGAAGAAAAAAGAAGAAAA
* *
20275540 GACAGGAAGGAAAAAAGAAAGAAAA
1 GAAAAGAA-GAAAAAAG-AAGAAAA
20275565 GAAAAGAAGAAAAAAG-AGAAAA
1 GAAAAGAAGAAAAAAGAAGAAAA
20275587 GAAAAG
1 GAAAAG
20275593 GGAAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.27
23 5 0.11
24 16 0.36
25 12 0.27
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (23 bp):
GAAAAGAAGAAAAAAGAAGAAAA
Found at i:20275576 original size:17 final size:17
Alignment explanation
Indices: 20275522--20275589 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
20275512 AAAGGGAAAA
20275522 AAAGAAAA-AAGAAGAAG
1 AAAGAAAAGAA-AAGAAG
* *
20275539 AGACAGGAAGGAAAA-AAG
1 A-A-AGAAAAGAAAAGAAG
20275557 AAAGAAAAGAAAAGAAG
1 AAAGAAAAGAAAAGAAG
20275574 AAA-AAAGAGAAAAGAA
1 AAAGAAA-AGAAAAGAA
20275590 AAGGGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 12 0.29
17 17 0.40
18 5 0.12
19 6 0.14
20 2 0.05
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAAGAAG
Found at i:20275599 original size:22 final size:22
Alignment explanation
Indices: 20275520--20275599 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 22
20275510 AAAAAGGGAA
* *
20275520 AAAAAGAAAAAAG-AAGAAGAG
1 AAAAGGAAAAAAGAAAGAAAAG
20275541 ACAGGAAGGAAAAAAGAAAGAAAAG
1 A-A--AAGGAAAAAAGAAAGAAAAG
20275566 AAAA-GAAGAAAA-AAGAGAAAAG
1 AAAAGGAA-AAAAGAA-AGAAAAG
*
20275588 AAAAGGGAAAAA
1 AAAAGGAAAAAA
20275600 TAAATTGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
21 6 0.12
22 22 0.45
23 2 0.04
24 11 0.22
25 8 0.16
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (22 bp):
AAAAGGAAAAAAGAAAGAAAAG
Found at i:20281707 original size:25 final size:25
Alignment explanation
Indices: 20281673--20281734 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
20281663 TACTGAAGAA
*
20281673 ATCTGATTCTCCTACATTAGTGCAG
1 ATCTGATTCTCCTACATTAATGCAG
*
20281698 ATCTGATTCTCTTACATTAATGCAG
1 ATCTGATTCTCCTACATTAATGCAG
*
20281723 CT-TGATT-TCCTA
1 ATCTGATTCTCCTA
20281735 ATTTGTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 4 0.12
24 5 0.15
25 24 0.73
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (25 bp):
ATCTGATTCTCCTACATTAATGCAG
Found at i:20283607 original size:27 final size:27
Alignment explanation
Indices: 20283554--20283620 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
20283544 TGTTGGCTCG
* *
20283554 CCAATTTCCCAACCAACCCCTTCAAAA
1 CCAAATTCCCAACCAACCCATTCAAAA
* * * *
20283581 CCAGATTCCCAACTAGCCCATTTAAAA
1 CCAAATTCCCAACCAACCCATTCAAAA
*
20283608 CCAAATTCTCAAC
1 CCAAATTCCCAAC
20283621 GTATCCAATC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.39, G:0.03, T:0.21
Consensus pattern (27 bp):
CCAAATTCCCAACCAACCCATTCAAAA
Found at i:20290295 original size:78 final size:79
Alignment explanation
Indices: 20290152--20290312 Score: 225
Period size: 78 Copynumber: 2.1 Consensus size: 79
20290142 CTATTATCTC
* * * * * * *
20290152 TACTCTGATATTTGTAGGGTGTTGCTTCATATCAGCTATCACAAGTTGATCAAGAAAAAATTGAT
1 TACTCTGACATTTGCAGGGTGTTGCATCAGATCAACTATCACAAGTTGATAAAGAAAAAACTGAT
*
20290217 ATTTTGATGTGTTG
66 ATTTTGATGTATTG
* *
20290231 TACT-TGACATTTGCAGGGTGTTGCATCAGATCAACTATCGCAGGTTGATAAAGAAAAAACTGAT
1 TACTCTGACATTTGCAGGGTGTTGCATCAGATCAACTATCACAAGTTGATAAAGAAAAAACTGAT
20290295 ATTTTGATGTATTG
66 ATTTTGATGTATTG
20290309 TACT
1 TACT
20290313 GGGGGTATAC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 68 0.94
79 4 0.06
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.37
Consensus pattern (79 bp):
TACTCTGACATTTGCAGGGTGTTGCATCAGATCAACTATCACAAGTTGATAAAGAAAAAACTGAT
ATTTTGATGTATTG
Found at i:20293016 original size:12 final size:13
Alignment explanation
Indices: 20293001--20293120 Score: 73
Period size: 13 Copynumber: 9.5 Consensus size: 13
20292991 ACTTTTAAGC
*
20293001 ATAATTATATT-T
1 ATAATAATATTAT
20293013 ATAAATAATATTAT
1 AT-AATAATATTAT
20293027 ATAAATAA-A-TA-
1 AT-AATAATATTAT
*
20293038 AT-ATACTATTAAT
1 ATAATAATATT-AT
*
20293051 ATAAT-ATAGTA-
1 ATAATAATATTAT
20293062 ATAAATAATATTAT
1 AT-AATAATATTAT
20293076 -TAATAAATATTAT
1 ATAAT-AATATTAT
20293089 AATAAT-ATATTA-
1 -ATAATAATATTAT
20293101 ATAAATAATATTAT
1 AT-AATAATATTAT
20293115 -TAATAA
1 ATAATAA
20293121 ATAATATACT
Statistics
Matches: 87, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
9 3 0.03
10 1 0.01
11 7 0.08
12 20 0.23
13 41 0.47
14 11 0.13
15 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (13 bp):
ATAATAATATTAT
Found at i:20293068 original size:31 final size:30
Alignment explanation
Indices: 20293018--20293153 Score: 144
Period size: 31 Copynumber: 4.7 Consensus size: 30
20293008 TATTTATAAA
*
20293018 TAATATTATATA-AATAAATAATATACTAT
1 TAATATAATATATAATAAATAATATACTAT
20293047 TAATATAATATAGTAATAAATAATAT--TAT
1 TAATATAATATA-TAATAAATAATATACTAT
* *
20293076 TAATA-AATAT-T-AT-AATAATATATTAA
1 TAATATAATATATAATAAATAATATACTAT
20293102 TAA-ATAATATTATTAATAAATAATATACTAT
1 TAATATAATA-TA-TAATAAATAATATACTAT
*
20293133 TAAGATAATATATTAATAAAT
1 TAATATAATATA-TAATAAAT
20293154 GTTATTAATA
Statistics
Matches: 92, Mismatches: 4, Indels: 20
0.79 0.03 0.17
Matches are distributed among these distances:
24 8 0.09
25 3 0.03
26 10 0.11
27 1 0.01
28 5 0.05
29 20 0.22
30 2 0.02
31 37 0.40
32 6 0.07
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
TAATATAATATATAATAAATAATATACTAT
Found at i:20293094 original size:39 final size:39
Alignment explanation
Indices: 20293051--20293194 Score: 162
Period size: 39 Copynumber: 3.6 Consensus size: 39
20293041 TACTATTAAT
*
20293051 ATAATATAGTAATAAATAATATTATTAATAAATATTATA
1 ATAATATAGTAATAAATAATATTATTAATAAATAATATA
*
20293090 ATAATATATTAATAAATAATATTATTAATAAATAATATA
1 ATAATATAGTAATAAATAATATTATTAATAAATAATATA
* * * * *
20293129 CTATTAAGATAATATATTAATAAATGTTATTAATAAATAATATT
1 --A-TAATATAGTA-ATAAAT-AATATTATTAATAAATAATATA
* *
20293173 ATAATACATTAATAAATAATAT
1 ATAATATAGTAATAAATAATAT
20293195 AAAGAATAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 41 0.47
40 5 0.06
41 8 0.09
42 9 0.10
43 5 0.06
44 20 0.23
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (39 bp):
ATAATATAGTAATAAATAATATTATTAATAAATAATATA
Found at i:20293145 original size:18 final size:15
Alignment explanation
Indices: 20293001--20293171 Score: 151
Period size: 16 Copynumber: 11.5 Consensus size: 15
20292991 ACTTTTAAGC
*
20293001 ATAATTATATTTATAA
1 ATAA-TATATTAATAA
20293017 ATAATATTATATAAATAA
1 ATAATA-TAT-T-AATAA
* *
20293035 ATAATATACTATTAA
1 ATAATATATTAATAA
*
20293050 TATAATATAGTAATAA
1 -ATAATATATTAATAA
*
20293066 AT-A-ATATT-ATTA
1 ATAATATATTAATAA
20293078 ATAA-ATATT-AT-A
1 ATAATATATTAATAA
20293090 ATAATATATTAATAA
1 ATAATATATTAATAA
20293105 ATAATATTATTAATAA
1 ATAATA-TATTAATAA
* *
20293121 ATAATATACTATTAA
1 ATAATATATTAATAA
20293136 GATAATATATTAATAA
1 -ATAATATATTAATAA
*
20293152 AT-GT-TATTAATAA
1 ATAATATATTAATAA
20293165 ATAATAT
1 ATAATAT
20293172 TATAATACAT
Statistics
Matches: 130, Mismatches: 13, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
12 10 0.08
13 28 0.22
14 5 0.04
15 25 0.19
16 49 0.38
17 3 0.02
18 10 0.08
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:20293150 original size:86 final size:85
Alignment explanation
Indices: 20293001--20293194 Score: 275
Period size: 83 Copynumber: 2.3 Consensus size: 85
20292991 ACTTTTAAGC
* *
20293001 ATAATTATATTTATAAATAATATTATATAAATAAATAATATACTATTAATATAATATAGTAATAA
1 ATAA-TATATTAATAAATAATATTATATAAATAAATAATATACTATTAAGATAATATAGTAAT--
*
20293066 ATAATATTATTAATAAATATTATA
63 A-AATATTATTAATAAATAATATA
*
20293090 ATAATATATTAATAAATAATATTAT-T-AATAAATAATATACTATTAAGATAATATATTAATAAA
1 ATAATATATTAATAAATAATATTATATAAATAAATAATATACTATTAAGATAATATAGTAATAAA
* *
20293153 TGTTATTAATAAATAATATT
66 TATTATTAATAAATAATATA
*
20293173 ATAATACATTAATAAATAATAT
1 ATAATATATTAATAAATAATAT
20293195 AAAGAATAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
83 40 0.41
84 1 0.01
86 32 0.33
87 1 0.01
88 20 0.20
89 4 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (85 bp):
ATAATATATTAATAAATAATATTATATAAATAAATAATATACTATTAAGATAATATAGTAATAAA
TATTATTAATAAATAATATA
Found at i:20293205 original size:86 final size:85
Alignment explanation
Indices: 20293013--20293209 Score: 245
Period size: 86 Copynumber: 2.3 Consensus size: 85
20293003 AATTATATTT
* *
20293013 ATAAATAATATTATATAAATAAATAATATACTATTAATATAATATAGTAATAAATAATATTATTA
1 ATAAATAATATGA-AT-AATAAATAATATACTATTAAGATAATATAGTAAT-AATAATATTATTA
* *
20293078 ATAAATATTATAATAATATATTA
63 ATAAATAATATAATAATACATTA
* * * *
20293101 ATAAATAATATTATTAATAAATAATATACTATTAAGATAATATATTAAT-A-AATGTTATTAATA
1 ATAAATAATATGAATAATAAATAATATACTATTAAGATAATATAGTAATAATAATATTATTAATA
*
20293164 AATAATATTATAATACATTA
66 AATAATATAATAATACATTA
20293184 ATAAATAATATAAAGAATAATAAATA
1 ATAAATAATAT---GAATAATAAATA
20293210 GTTTATTTTA
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
83 40 0.41
84 1 0.01
86 42 0.43
87 1 0.01
88 13 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (85 bp):
ATAAATAATATGAATAATAAATAATATACTATTAAGATAATATAGTAATAATAATATTATTAATA
AATAATATAATAATACATTA
Found at i:20293209 original size:23 final size:23
Alignment explanation
Indices: 20293160--20293209 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
20293150 AAATGTTATT
* * *
20293160 AATAAATAATATTATAATACATT
1 AATAAATAATATAAGAATACATA
20293183 AATAAATAATATAAAGAATA-ATA
1 AATAAATAATAT-AAGAATACATA
20293206 AATA
1 AATA
20293210 GTTTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AATAAATAATATAAGAATACATA
Found at i:20293308 original size:10 final size:9
Alignment explanation
Indices: 20293284--20293338 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 9
20293274 AATTATTTTT
*
20293284 TAATATTAA
1 TAATTTTAA
20293293 TAATTTTAA
1 TAATTTTAA
20293302 TATATTTTAA
1 TA-ATTTTAA
*
20293312 TAA--TAAA
1 TAATTTTAA
20293319 TAATTTTTAA
1 TAA-TTTTAA
20293329 T-ATTTTAA
1 TAATTTTAA
20293337 TA
1 TA
20293339 GTTATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
7 6 0.16
8 7 0.18
9 12 0.32
10 13 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAATTTTAA
Found at i:20293331 original size:25 final size:26
Alignment explanation
Indices: 20293281--20293338 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
20293271 TATAATTATT
*
20293281 TTTTAAT-ATTAATAATTTTAATATA
1 TTTTAATAATAAATAATTTTAATATA
*
20293306 TTTTAATAATAAATAATTTTTA-ATA
1 TTTTAATAATAAATAATTTTAATATA
20293331 TTTTAATA
1 TTTTAATA
20293339 GTTATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTAATAATAAATAATTTTAATATA
Found at i:20296892 original size:40 final size:42
Alignment explanation
Indices: 20296833--20296924 Score: 143
Period size: 40 Copynumber: 2.2 Consensus size: 42
20296823 CGAAGTCAAC
* *
20296833 GTTTTGCTCGTTTGGAAATTGTTGATGAATAA-TTA-TTGGA
1 GTTTTGCTTGTTTGAAAATTGTTGATGAATAATTTATTTGGA
20296873 GTTTTGCTTGTTTGAAAATTGTTGATGAATAATTTATTTGGA
1 GTTTTGCTTGTTTGAAAATTGTTGATGAATAATTTATTTGGA
*
20296915 GTTTCGCTTG
1 GTTTTGCTTG
20296925 AGTTGGTCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 30 0.64
41 3 0.06
42 14 0.30
ACGTcount: A:0.23, C:0.05, G:0.24, T:0.48
Consensus pattern (42 bp):
GTTTTGCTTGTTTGAAAATTGTTGATGAATAATTTATTTGGA
Found at i:20297041 original size:20 final size:20
Alignment explanation
Indices: 20297018--20297062 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
20297008 TGCAAAATTA
20297018 TTGATGACAATGAAAAACTG
1 TTGATGACAATGAAAAACTG
* * * *
20297038 TTGACGATAATGATAAATTG
1 TTGATGACAATGAAAAACTG
20297058 TTGAT
1 TTGAT
20297063 TTGGTTATGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGATGACAATGAAAAACTG
Found at i:20299426 original size:28 final size:28
Alignment explanation
Indices: 20299395--20299448 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
20299385 TATGTTTATT
*
20299395 TATTAAAATTAAATAATAAAAATAGACA
1 TATTAAAAGTAAATAATAAAAATAGACA
* * *
20299423 TATTAAAAGTGAGTAATAAAACTAGA
1 TATTAAAAGTAAATAATAAAAATAGA
20299449 TATGTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (28 bp):
TATTAAAAGTAAATAATAAAAATAGACA
Found at i:20301184 original size:125 final size:125
Alignment explanation
Indices: 20300958--20301184 Score: 284
Period size: 125 Copynumber: 1.8 Consensus size: 125
20300948 AAAAATCAAT
20300958 ATTTTGAATTTTTTAGAAAATTTTCATCATTTTAAAATATTAAATCAAATATTTTAAATTATTTT
1 ATTTTGAATTTTTTAGAAAATTTTCATCATTTTAAAATATTAAATCAAATATTTTAAATTATTTT
** *
20301023 AATTTTTTAAAAAATTATATATTTTTTGAATTTTTAAATAAGATTTTTTTTAAATTTAAA
66 AATTTTTTAAAAAATTATATATTTTTCAAATATTTAAATAAGATTTTTTTTAAATTTAAA
* * * ** *
20301083 ATTTTGATTTTTTTAGAAAATTTTTA-GATTTTAAAAATATTAAAT-TTAT-TTTTTAA-TATTT
1 ATTTTGAATTTTTTAGAAAATTTTCATCATTTT-AAAATATTAAATCAAATATTTTAAATTATTT
*
20301144 TAATTTTTTTAAAAATT-TCAATATTTTAATCAAATATTTAA
65 TAATTTTTTAAAAAATTAT--ATATTTT--TCAAATATTTAA
20301185 TTTTATTGTT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
121 1 0.01
122 21 0.24
123 13 0.15
124 7 0.08
125 45 0.52
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (125 bp):
ATTTTGAATTTTTTAGAAAATTTTCATCATTTTAAAATATTAAATCAAATATTTTAAATTATTTT
AATTTTTTAAAAAATTATATATTTTTCAAATATTTAAATAAGATTTTTTTTAAATTTAAA
Found at i:20301740 original size:23 final size:23
Alignment explanation
Indices: 20301712--20301761 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
20301702 TTTTAAAAAT
20301712 AAATTTTGA-TTTTAAAAAATTCA
1 AAATTTTGATTTTTAAAAAATT-A
*
20301735 AAATTTTGATTTTTAAGAAATTA
1 AAATTTTGATTTTTAAAAAATTA
20301758 AAAT
1 AAAT
20301762 ATTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (23 bp):
AAATTTTGATTTTTAAAAAATTA
Found at i:20304399 original size:33 final size:33
Alignment explanation
Indices: 20304362--20304429 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
20304352 AAAATGCTAT
* *
20304362 TACTTTGGTGGCGTTTGTAAT-TGAAAACGCCTC
1 TACTTTAGAGGCGTTTG-AATATGAAAACGCCTC
*
20304395 TACTTTAGAGGCGTTTGAATATGAAAATGCCTC
1 TACTTTAGAGGCGTTTGAATATGAAAACGCCTC
20304428 TA
1 TA
20304430 TACTAACAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (33 bp):
TACTTTAGAGGCGTTTGAATATGAAAACGCCTC
Found at i:20305134 original size:21 final size:21
Alignment explanation
Indices: 20305092--20305144 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
20305082 ACTGTTGAAA
* * * *
20305092 TTAGCACGCTATTGCTCCATT
1 TTAGCACGTTCTTCCTCAATT
20305113 TTAGCACGTTCTTCCTCAATT
1 TTAGCACGTTCTTCCTCAATT
*
20305134 TTGGCACGTTC
1 TTAGCACGTTC
20305145 CTGTTCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.40
Consensus pattern (21 bp):
TTAGCACGTTCTTCCTCAATT
Found at i:20318066 original size:297 final size:297
Alignment explanation
Indices: 20317532--20318127 Score: 1167
Period size: 297 Copynumber: 2.0 Consensus size: 297
20317522 TAAACATTCG
20317532 TACGATCTAAACATTTTTATAAGCCTGTGAAATTTTTTGGTCCAATTATTAAAGGTGTTTCTTGT
1 TACGATCTAAACATTTTTATAAGCCTGTGAAATTTTTTGGTCCAATTATTAAAGGTGTTTCTTGT
20317597 GGAAAACGCCTTTAATAACCTCATACAATTTTTTATGACATCATTATTGAAGGCGTTGATTGTCA
66 GGAAAACGCCTTTAATAACCTCATACAATTTTTTATGACATCATTATTGAAGGCGTTGATTGTCA
20317662 AAAATACACATTTACTATTTATTAAAATTTTTAATAAAAATTATTCAAGGTATTTTTATCCAGAA
131 AAAATACACATTTACTATTTATTAAAATTTTTAATAAAAATTATTCAAGGTATTTTTATCCAGAA
*
20317727 ACGTCGTTGATATTAAGTCTTAGGTGGCGTTTATAAGTACCAATGATGCTATTTGAAAATTTAGT
196 ACGTCGTTGATATTAAGTCTTAGGTGGCATTTATAAGTACCAATGATGCTATTTGAAAATTTAGT
20317792 GACGTTTTGATAGTAAATGCCTGAAGTTTTATAAAAA
261 GACGTTTTGATAGTAAATGCCTGAAGTTTTATAAAAA
20317829 TACGATCTAAACATTTTTATAAGCCTGTGAAATTTTTTGGTCCAATTATTAAAGGTGTTTCTTGT
1 TACGATCTAAACATTTTTATAAGCCTGTGAAATTTTTTGGTCCAATTATTAAAGGTGTTTCTTGT
20317894 GGAAAACGCCTTTAATAACCTCATACAATTTTTTATGACATCATTATTGAAGGCGTTGATTGTCA
66 GGAAAACGCCTTTAATAACCTCATACAATTTTTTATGACATCATTATTGAAGGCGTTGATTGTCA
20317959 AAAATACACATTTACTATTTATTAAAATTTTTAATAAAAATTATTCAAGGTATTTTTATCCAGGA
131 AAAATACACATTTACTATTTATTAAAATTTTTAATAAAAATTATTCAAGGTATTTTTATCCA-GA
20318024 AACG-CGTTGATATTAAGTCTTAGGTGGCATTTATAAGTACCAATGATGCTATTTGAAAATTTAG
195 AACGTCGTTGATATTAAGTCTTAGGTGGCATTTATAAGTACCAATGATGCTATTTGAAAATTTAG
20318088 TGACGTTTTGATAGTAAATGCCTGAAGTTTTATAAAAA
260 TGACGTTTTGATAGTAAATGCCTGAAGTTTTATAAAAA
20318126 TA
1 TA
20318128 TGAAAGCTAA
Statistics
Matches: 297, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
297 291 0.98
298 6 0.02
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (297 bp):
TACGATCTAAACATTTTTATAAGCCTGTGAAATTTTTTGGTCCAATTATTAAAGGTGTTTCTTGT
GGAAAACGCCTTTAATAACCTCATACAATTTTTTATGACATCATTATTGAAGGCGTTGATTGTCA
AAAATACACATTTACTATTTATTAAAATTTTTAATAAAAATTATTCAAGGTATTTTTATCCAGAA
ACGTCGTTGATATTAAGTCTTAGGTGGCATTTATAAGTACCAATGATGCTATTTGAAAATTTAGT
GACGTTTTGATAGTAAATGCCTGAAGTTTTATAAAAA
Found at i:20324937 original size:161 final size:161
Alignment explanation
Indices: 20324710--20325896 Score: 843
Period size: 162 Copynumber: 7.4 Consensus size: 161
20324700 TTTTGTGTCA
* * * * * * * *
20324710 TTAAAGGGCAAAAATGTAAATATATAGTTATTTTTTTGTTTTAACAATTTGGATAGCTTCAATAC
1 TTAAAAGGCAAAAATGTAAATTTGTAGTTATATTTATATTTTAACAGTTTAGATAGCTTCAATAC
* * * *
20324775 ATTATATTAAACTTGCCTGAATGATTGAATTTAGTTTCCATGGTTGATATGTGTGAAAAGTAATC
66 ATAATATTAAACTTGCCTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAAAGTTATC
* * **
20324840 GTTTATATCTTTTTAGAACTTTGTTATGCCG
131 GTTTATGTCTTTTTAGGACTTTGTTATGTTG
* * * * * *
20324871 TTAAAAGGAAAAAATGTAAATATGTAGTTATATTTATGTTTTAATAATTTAGATAGCTTAAATAC
1 TTAAAAGGCAAAAATGTAAATTTGTAGTTATATTTATATTTTAACAGTTTAGATAGCTTCAATAC
* * *
20324936 ATGATATTAAACTTGTCTGAATGATTGAATTTGGTTTCCATGATTG--ATGTGTGAAAAAATTAT
66 ATAATATTAAACTTGCCTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTG-AAAAGTTAT
** * * * *
20324999 TATTTATGTCTATTT-GGCACTTTTTTGTGCTG
130 CGTTTATGTCTTTTTAGG-ACTTTGTTATGTTG
* * * * * * *
20325031 TTAAAAGGCCAAAACGCAAA-TT-TACTTTTA-TTATTCCATTTTAACAGTTTATATAACTTCAA
1 TTAAAAGGCAAAAATGTAAATTTGTAGTTATATTTA-T--ATTTTAACAGTTTAGATAGCTTCAA
* * ** * * * * ** * * *
20325093 TAAATGATATTAAACTTGTTTAAATGATTAAACTTAGTTTGTACGGTTGATATATGTGAAAATGT
63 TACATAATATTAAACTTGCCTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAAA-GT
* *
20325158 TATCGTTTATGT-TTATTTAGGA-TTTTTTGTGTTG
127 TATCGTTTATGTCTT-TTTAGGACTTTGTTATGTTG
* * * * *
20325192 TTAAAAGGTC-AAAATGCAAATTTGT-GTT-TATTATCTATTTTAACAGTTTATATAGTTTTAAT
1 TTAAAAGG-CAAAAATGTAAATTTGTAGTTATATT-TATATTTTAACAGTTTAGATAGCTTCAAT
* * * * * * *
20325254 ACATAATATTAAACTTATCC-GGATAATTGAATATGATTTCCACGATTGTTATGTGTGAAAAAGT
64 ACATAATATTAAACTT-GCCTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTG-AAAAGT
* **
20325318 CA-CTGTTTATGTCTTTTTAGGACTTTGTTATGTCA
127 TATC-GTTTATGTCTTTTTAGGACTTTGTTATGTTG
* * * ** * * * *
20325353 TTAAAGGGTAAAAATGT-TATTTCACATTTATTTTTATGTTTTAACAGTTTAGATAGCTTAAATA
1 TTAAAAGGCAAAAATGTAAATTT-GTAGTTATATTTATATTTTAACAGTTTAGATAGCTTCAATA
* * *** * * *
20325417 TATTATATTAAACTTTTTTGAATGATTAAACTTGGTTTCCATGAATGATAT-TGGTGAAAAAGTT
65 CATAATATTAAACTTGCCTGAATGATTGAATTTGGTTTCCATGATTGATATGT-GTG-AAAAGTT
* * * * * *
20325481 ACCGTTTATATCTGTTTAGCACTTTTTTGTGTTG
128 ATCGTTTATGTCTTTTTAGGACTTTGTTATGTTG
* ** * * * *
20325515 TTAAAAGGCCAAAATACAAATTTGT-GTT-TATTATTCTATTTTGATAGTTTAAATAGCTTCAAT
1 TTAAAAGGCAAAAATGTAAATTTGTAGTTATA-T-TTATATTTTAACAGTTTAGATAGCTTCAAT
* ** * *
20325578 ACATAATATTAAACCTGTCC-GAATGATTGAGCTTGGTTTTCATGACTGATATGTGTGAAAATGT
64 ACATAATATTAAACTTG-CCTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAAA-GT
*
20325642 TACCGTTTATGTCTTTTTAGGACTTTGTTATGTTG
127 TATCGTTTATGTCTTTTTAGGACTTTGTTATGTTG
* * * * * * * * *
20325677 TTAGAGGGTAAAACTATAATTTTGTAGTTATATTTACATTTTAATAGTTTAGATAGTTTCAATAC
1 TTAAAAGGCAAAAATGTAAATTTGTAGTTATATTTATATTTTAACAGTTTAGATAGCTTCAATAC
* * *
20325742 ATAATATTAAACTTGTCC-GAATAATTGAATTTGGTTTTCATGATTTGATATGTATGAATAAGTT
66 ATAATATTAAACTTG-CCTGAATGATTGAATTTGGTTTCCATGA-TTGATATGTGTGAA-AAGTT
* * * **
20325806 A-CGATTTATGTCTGTTTAAGACTTT-TTGTAATG
128 ATCG-TTTATGTCTTTTTAGGACTTTGTTATGTTG
* * * ** * * *
20325839 TTAAAAGGTAAAAATGCAAAATTACAATTATTATTT-TGTTTTAATAGTTTAGATAGCT
1 TTAAAAGGCAAAAATGTAAATTTGTAGTTA-TATTTATATTTTAACAGTTTAGATAGCT
20325897 CATATTATAT
Statistics
Matches: 806, Mismatches: 181, Indels: 77
0.76 0.17 0.07
Matches are distributed among these distances:
157 3 0.00
158 7 0.01
159 10 0.01
160 187 0.23
161 170 0.21
162 368 0.46
163 57 0.07
164 4 0.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (161 bp):
TTAAAAGGCAAAAATGTAAATTTGTAGTTATATTTATATTTTAACAGTTTAGATAGCTTCAATAC
ATAATATTAAACTTGCCTGAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAAAGTTATC
GTTTATGTCTTTTTAGGACTTTGTTATGTTG
Found at i:20325728 original size:324 final size:320
Alignment explanation
Indices: 20324748--20325896 Score: 1021
Period size: 324 Copynumber: 3.6 Consensus size: 320
20324738 TATTTTTTTG
* * * * *
20324748 TTTTAACAATTTGGATAGCTTCAATACATTATATTAAACTTGCCTGAATGATTGAATTTAGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATTATATTAAACTTGTCTGAATGATTAAACTTAGTTTC
* * * * * **
20324813 CATGGTTGATATGTGTG-AAAAGTAATCGTTTATATCTTTTTAGAACTTTGTTATGCCGTTAAAA
66 CATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTGTTTAG-ACTTTTTTGTGTTGTTAAAA
* * * * * *
20324877 GGAAAAAATGTAAATATGTAG-TTA-TATT-TATGTTTTAATAATTTAGATAGCTTAAATACATG
130 GGACAAAATGCAAATTTGT-GTTTATTATTCTA--TTTTAATAGTTTAAATAGCTTAAATACATA
* * * *
20324939 ATATTAAACTTGTCTGAATGATTGAATTTGGTTTCCATGATTG-ATGTGTGAAAAAATTATTATT
192 ATATTAAACTTGTCCGAATGATTGAA-TTGGTTTCCATGATTGTATGTGTGAAAAAGTTACTGTT
* * * * ** * *
20325003 TATGTCTATTT-GGCACTTTTTTGTGCTGTTAAAAGGCCAAAACGCA-AATTTACT-TTTATTAT
256 TATGTCTTTTTAGG-ACTTTGTTATGTTGTT-AAAGGGTAAAAC-TATAATTTAATATTTATT-T
*
20325065 TCCA
317 TACA
* * * * * * *
20325069 TTTTAACAGTTTATATAACTTCAATAAATGATATTAAACTTGTTTAAATGATTAAACTTAGTTTG
1 TTTTAACAGTTTAGATAGCTTCAATACATTATATTAAACTTGTCTGAATGATTAAACTTAGTTTC
* * * * * * * *
20325134 TACGGTTGATATATGTGAAAATGTTATCGTTTATGTTTATTTAGGA-TTTTTTGTGTTGTTAAAA
66 CATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTGTTTA-GACTTTTTTGTGTTGTTAAAA
* * * * *
20325198 GGTCAAAATGCAAATTTGTGTTTATTA-TCTATTTTAACAGTTTATATAGTTTTAATACATAATA
130 GGACAAAATGCAAATTTGTGTTTATTATTCTATTTTAATAGTTTAAATAGCTTAAATACATAATA
* * * * * *
20325262 TTAAACTTATCCGGATAATTGAATATGATTTCCACGATTGTTATGTGTGAAAAAGTCACTGTTTA
195 TTAAACTTGTCCGAATGATTGAAT-TGGTTTCCATGATTG-TATGTGTGAAAAAGTTACTGTTTA
** * * * * * **
20325327 TGTCTTTTTAGGACTTTGTTATGTCATTAAAGGGTAAAAATGTTATTTCACATTTATTTTTATG
258 TGTCTTTTTAGGACTTTGTTATGTTGTTAAAGGGTAAAACTATAATTTAATATTTA-TTTTACA
* * * * *
20325391 TTTTAACAGTTTAGATAGCTTAAATATATTATATTAAACTTTTTTGAATGATTAAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATTATATTAAACTTGTCTGAATGATTAAACTTAGTTTC
* *
20325456 CATGAATGATAT-TGGTGAAAAAGTTACCGTTTATATCTGTTTAGCACTTTTTTGTGTTGTTAAA
66 CATGATTGATATGT-GTGAAAAAGTTATCGTTTATATCTGTTTAG-ACTTTTTTGTGTTGTTAAA
* * * *
20325520 AGGCCAAAATACAAATTTGTGTTTATTATTCTATTTTGATAGTTTAAATAGCTTCAATACATAAT
129 AGGACAAAATGCAAATTTGTGTTTATTATTCTATTTTAATAGTTTAAATAGCTTAAATACATAAT
* * * * * *
20325585 ATTAAACCTGTCCGAATGATTGAGCTTGGTTTTCATGACTGATATGTGTGAAAATGTTACCGTTT
194 ATTAAACTTGTCCGAATGATTGA-ATTGGTTTCCATGATTG-TATGTGTGAAAAAGTTACTGTTT
* ** *
20325650 ATGTCTTTTTAGGACTTTGTTATGTTGTTAGAGGGTAAAACTATAATTTTGTAGTTATATTTACA
257 ATGTCTTTTTAGGACTTTGTTATGTTGTTAAAGGGTAAAACTATAATTTAATATTTAT-TTTACA
* * * * * * * * *
20325715 TTTTAATAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCCGAATAATTGAATTTGGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATTATATTAAACTTGTCTGAATGATTAAACTTAGTTTC
* * * **
20325780 CATGATTTGATATGTATGAATAAGTTA-CGATTTATGTCTGTTTAAGAC-TTTTTGTAATGTTAA
66 CATGA-TTGATATGTGTGAAAAAGTTATCG-TTTATATCTGTTT-AGACTTTTTTGTGTTGTTAA
* **** * * *
20325843 AAGGTA-AAAATGCAAAATTACAATTATTATTTTGTTTTAATAGTTTAGATAGCT
128 AAGG-ACAAAATGCAAATTTGTGTTTATTATTCTATTTTAATAGTTTAAATAGCT
20325897 CATATTATAT
Statistics
Matches: 664, Mismatches: 141, Indels: 43
0.78 0.17 0.05
Matches are distributed among these distances:
319 1 0.00
320 60 0.09
321 115 0.17
322 158 0.24
323 49 0.07
324 247 0.37
325 31 0.05
326 3 0.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (320 bp):
TTTTAACAGTTTAGATAGCTTCAATACATTATATTAAACTTGTCTGAATGATTAAACTTAGTTTC
CATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTGTTTAGACTTTTTTGTGTTGTTAAAAG
GACAAAATGCAAATTTGTGTTTATTATTCTATTTTAATAGTTTAAATAGCTTAAATACATAATAT
TAAACTTGTCCGAATGATTGAATTGGTTTCCATGATTGTATGTGTGAAAAAGTTACTGTTTATGT
CTTTTTAGGACTTTGTTATGTTGTTAAAGGGTAAAACTATAATTTAATATTTATTTTACA
Found at i:20331582 original size:30 final size:30
Alignment explanation
Indices: 20331548--20331611 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
20331538 TTCTTCCTAC
*
20331548 GGACA-CAAAAGCTCCTAAGCTTC-TAAGCTT
1 GGACATCAAAA-CTCCAAAGC-TCATAAGCTT
*
20331578 GGACATCAAAATTCCAAAGCTCATAAGCTT
1 GGACATCAAAACTCCAAAGCTCATAAGCTT
20331608 GGAC
1 GGAC
20331612 TTCTACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.07
30 23 0.77
31 5 0.17
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (30 bp):
GGACATCAAAACTCCAAAGCTCATAAGCTT
Found at i:20334271 original size:13 final size:14
Alignment explanation
Indices: 20334199--20334292 Score: 50
Period size: 13 Copynumber: 6.4 Consensus size: 14
20334189 ATATAATCAT
*
20334199 TTAAAATTATTAATA
1 TTAAAATAATT-ATA
*
20334214 TTAAAAAAAATTATA
1 TT-AAAATAATTATA
*
20334229 TTAATTAATAAATTTTTAA
1 TTAA--AAT-AA-TTAT-A
*
20334248 TTTAAAT-ATTATA
1 TTAAAATAATTATA
*
20334261 TTAAAA-AATTAAAA
1 TTAAAATAATT-ATA
20334275 TTAAAATAATT-TA
1 TTAAAATAATTATA
20334288 TTAAA
1 TTAAA
20334293 TATTTTATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
13 15 0.25
14 13 0.21
15 12 0.20
16 9 0.15
17 5 0.08
18 3 0.05
19 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAAATAATTATA
Found at i:20347113 original size:26 final size:26
Alignment explanation
Indices: 20347084--20347133 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20347074 TTAAATCAAA
* *
20347084 TTTTCTTTTTCATTTTTTC-CTTTTTT
1 TTTTCATTTT-ATTTTCTCTCTTTTTT
20347110 TTTTCATTTTATTTTCTCTCTTTT
1 TTTTCATTTTATTTTCTCTCTTTT
20347134 CTCTCTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTTCATTTTATTTTCTCTCTTTTTT
Found at i:20347577 original size:42 final size:41
Alignment explanation
Indices: 20347531--20347611 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
20347521 CAAAACATTT
*
20347531 TTTAAAATCCAAAATTGTAA-TCAATGGCCCAAATGCAATTAA
1 TTTAAAAGCC-AAATTGTAAGTCAA-GGCCCAAATGCAATTAA
* * *
20347573 TTTAAAAGCCTAATTTTAAGTCAAGGCCCAAATTCAATT
1 TTTAAAAGCCAAATTGTAAGTCAAGGCCCAAATGCAATT
20347612 TTGATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (41 bp):
TTTAAAAGCCAAATTGTAAGTCAAGGCCCAAATGCAATTAA
Found at i:20349768 original size:17 final size:17
Alignment explanation
Indices: 20349746--20349784 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
20349736 CTGGGGTATT
20349746 TAAAAACATATTCAATA
1 TAAAAACATATTCAATA
* *
20349763 TAAAAAGATTTTCAATA
1 TAAAAACATATTCAATA
20349780 -AAAAA
1 TAAAAA
20349785 TAAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (17 bp):
TAAAAACATATTCAATA
Found at i:20349804 original size:13 final size:14
Alignment explanation
Indices: 20349781--20349837 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
20349771 TTTTCAATAA
20349781 AAAATAAATAAAATTAT
1 AAAATAAAT-AAA--AT
20349798 AAAATAAAT-AAAT
1 AAAATAAATAAAAT
20349811 AAAATAAATAAAAAT
1 AAAATAAAT-AAAAT
20349826 AACAA-AAATAAA
1 AA-AATAAATAAA
20349838 GGAAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 11 0.30
14 3 0.08
15 12 0.32
16 2 0.05
17 9 0.24
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:20349808 original size:9 final size:9
Alignment explanation
Indices: 20349781--20349837 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 9
20349771 TTTTCAATAA
20349781 AAAATAAAT
1 AAAATAAAT
*
20349790 AAAATTATAAA
1 AAAA-TA-AAT
20349801 ATAAATAAAT
1 A-AAATAAAT
20349811 AAAATAAAT
1 AAAATAAAT
20349820 AAAAATAACA-
1 -AAAATAA-AT
20349830 AAAATAAA
1 AAAATAAA
20349838 GGAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 1 0.02
9 19 0.46
10 12 0.29
11 6 0.15
12 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:20349819 original size:17 final size:18
Alignment explanation
Indices: 20349776--20349837 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
20349766 AAAGATTTTC
20349776 AATAAA-AAATAAATAAA
1 AATAAATAAATAAATAAA
20349793 ATTATAAAATAAATAAAT-AA
1 A--AT-AAATAAATAAATAAA
* *
20349813 AATAAATAAAAATAACAAA
1 AATAAATAAATA-AATAAA
20349832 AATAAA
1 AATAAA
20349838 GGAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 9 0.24
18 4 0.11
19 10 0.27
20 6 0.16
21 8 0.22
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAAATAAATAAATAAA
Found at i:20352126 original size:38 final size:37
Alignment explanation
Indices: 20352061--20352159 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 37
20352051 ATGATTGAAA
* *
20352061 ATAATAAGATAATACATGTA-CCTCATCTCAAGCACAT
1 ATAATAAGATAATACATGTATTC-CATCTCAACCACAT
* * *
20352098 CATAATAAGGTAATACATGTATTCCATCTTATCCACAT
1 -ATAATAAGATAATACATGTATTCCATCTCAACCACAT
*
20352136 -TAAT-AGATAGTACATGTATTCCAT
1 ATAATAAGATAATACATGTATTCCAT
20352160 TTTATACATA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
35 18 0.34
36 4 0.08
38 30 0.57
39 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (37 bp):
ATAATAAGATAATACATGTATTCCATCTCAACCACAT
Found at i:20355103 original size:13 final size:13
Alignment explanation
Indices: 20355085--20355114 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20355075 GGCATGCAAA
20355085 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
20355098 AAAAAAAAAAGAG
1 AAAAAAAAAAAAG
20355111 AAAA
1 AAAA
20355115 GAAGATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:20355105 original size:18 final size:18
Alignment explanation
Indices: 20355082--20355117 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20355072 AGAGGCATGC
20355082 AAAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAGAA
* *
20355100 AAAAAAAAGAGAAAAGAA
1 AAAAAAAAAAAAAAAGAA
20355118 GATAAACAAA
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:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAGAA
Found at i:20355708 original size:20 final size:21
Alignment explanation
Indices: 20355649--20355710 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 21
20355639 TAAGGAAAGC
20355649 AAAATAAAGAGAAAAAATGAAA
1 AAAATAAAGA-AAAAAATGAAA
*
20355671 AAGAATGAGAATGAAAAAAAT-TAA
1 AA-AAT-A-AA-GAAAAAAATGAAA
20355695 AAAATAAAGAAAAAAA
1 AAAATAAAGAAAAAAA
20355711 AAGGATGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 8 0.23
21 2 0.06
22 3 0.09
23 6 0.17
24 5 0.14
25 9 0.26
26 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAATAAAGAAAAAAATGAAA
Found at i:20356118 original size:13 final size:12
Alignment explanation
Indices: 20356099--20356128 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
20356089 ATGCAATAAT
20356099 AAAAAAAAAAGA
1 AAAAAAAAAAGA
20356111 AGAAAAAAAAAGA
1 A-AAAAAAAAAGA
20356124 AAAAA
1 AAAAA
20356129 TATGAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:20357755 original size:41 final size:39
Alignment explanation
Indices: 20357660--20357836 Score: 149
Period size: 41 Copynumber: 4.4 Consensus size: 39
20357650 GAATAAGTAC
*
20357660 ATGATTTTC-AAGACCTTCAAGCAAAATTTTAAATCTTTAA
1 ATGA-TTTCAAAGA-CTTCAAGCAAAATTTTAAATTTTTAA
* * * *
20357700 AAGATATCAAAAGACTTCAAAGCAAAATATTAAATTTCTAA
1 ATGATTTC-AAAGACTTC-AAGCAAAATTTTAAATTTTTAA
* * * *
20357741 ATGATGTTCTAAGACCTCTAGGCCAAATTTTAAATTTTTAA
1 ATGAT-TTCAAAGACTTC-AAGCAAAATTTTAAATTTTTAA
* * * * *
20357782 ATAATTTCCAAGATCTTCAACCAAAATTTTAGATTTTTGA
1 ATGATTTCAAAGA-CTTCAAGCAAAATTTTAAATTTTTAA
20357822 ATGATTTTCAAAGAC
1 ATGA-TTTCAAAGAC
20357837 CTCTAAGGCA
Statistics
Matches: 107, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
39 3 0.03
40 35 0.33
41 67 0.63
42 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (39 bp):
ATGATTTCAAAGACTTCAAGCAAAATTTTAAATTTTTAA
Found at i:20357911 original size:41 final size:39
Alignment explanation
Indices: 20357816--20357914 Score: 96
Period size: 41 Copynumber: 2.4 Consensus size: 39
20357806 AATTTTAGAT
*
20357816 TTTTGAATGATTTTCAAAGACCTCTAAGGCAAACCTTAAAA
1 TTTTAAATGATTTTCAAAGACCTCTAA-GCAAACCTT-AAA
*
20357857 TTTTAAACT-ATTTTCAAAGACCTCTGAA-CAAAATCTCT-AA
1 TTTTAAA-TGATTTTCAAAGACCTCT-AAGC-AAACCT-TAAA
20357897 TTTCTAAATGATTTTCAA
1 TTT-TAAATGATTTTCAA
20357915 GACTTATGGG
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
40 7 0.14
41 39 0.78
42 4 0.08
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (39 bp):
TTTTAAATGATTTTCAAAGACCTCTAAGCAAACCTTAAA
Found at i:20357917 original size:81 final size:80
Alignment explanation
Indices: 20357732--20357914 Score: 199
Period size: 81 Copynumber: 2.2 Consensus size: 80
20357722 CAAAATATTA
* * ** * * *
20357732 AATTTCTAAATGATGTTCTAAGACCTCTAGGCCAAATTTTAAATTTTTAAATAATTTCCAAGATC
1 AATTTCTAAATGATTTTCAAAGACCTCTAGGCCAAACCTTAAAATTTTAAATAATTTCAAAGACC
*
20357797 TTCAACCAAAATTTT
66 TTCAACCAAAATTCT
* * *
20357812 AGATTTTTGAATGATTTTCAAAGACCTCTAAGG-CAAACCTTAAAATTTTAAACTATTTTCAAAG
1 A-ATTTCTAAATGATTTTCAAAGACCTCT-AGGCCAAACCTTAAAATTTTAAA-TAATTTCAAAG
*
20357876 ACCTCTGAA-CAAAATCTCT
63 ACCT-TCAACCAAAAT-TCT
20357895 AATTTCTAAATGATTTTCAA
1 AATTTCTAAATGATTTTCAA
20357915 GACTTATGGG
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
80 1 0.01
81 39 0.46
82 38 0.45
83 6 0.07
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (80 bp):
AATTTCTAAATGATTTTCAAAGACCTCTAGGCCAAACCTTAAAATTTTAAATAATTTCAAAGACC
TTCAACCAAAATTCT
Found at i:20358043 original size:42 final size:42
Alignment explanation
Indices: 20357934--20358044 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
20357924 GTCAAATCTT
* *
20357934 AAATCTTTGAATGA-TCTCCAATACC-TTAGGGCAAAACTTTA
1 AAAT-TTTGAATGACTTTCCAAAACCTTTAGGGCAAAACTTTA
* * * * * *
20357975 AAGTTTTAAATGACTTACTAAGACCTTTCGGGCAAAACTTTA
1 AAATTTTGAATGACTTTCCAAAACCTTTAGGGCAAAACTTTA
20358017 AAATTTTGAATGACTTTCCAAAACCTTT
1 AAATTTTGAATGACTTTCCAAAACCTTT
20358045 GAGCAAATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
40 8 0.14
41 10 0.18
42 38 0.68
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (42 bp):
AAATTTTGAATGACTTTCCAAAACCTTTAGGGCAAAACTTTA
Found at i:20363167 original size:21 final size:20
Alignment explanation
Indices: 20363127--20363171 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
20363117 TATTATATGA
*
20363127 TTTATTATTTTTATATAAAT
1 TTTATTATTTTTATAAAAAT
20363147 GTTTATTAATTTTTA-AAAAAT
1 -TTTATT-ATTTTTATAAAAAT
20363168 TTTA
1 TTTA
20363172 ATTTCTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 11 0.50
22 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTATTATTTTTATAAAAAT
Found at i:20363328 original size:16 final size:16
Alignment explanation
Indices: 20363309--20363345 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
20363299 ATCAAATTTT
*
20363309 AAATAATTTAAATTCA
1 AAATAATATAAATTCA
*
20363325 AAATAATATATATTCA
1 AAATAATATAAATTCA
20363341 AAATA
1 AAATA
20363346 GTAAGAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATATAAATTCA
Found at i:20373202 original size:47 final size:47
Alignment explanation
Indices: 20373140--20373230 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
20373130 AGAAGCACCT
*
20373140 TTGTTGTATAATGATGGCCATTCTATTCGTTGCTGAAAGCGGAGTTC
1 TTGTTGTATAATGATGGCCATTCTATTCGTAGCTGAAAGCGGAGTTC
* * * *
20373187 TTGTTGTGTAGTGATGGCCATTCTATTTGTAGCTGAAAGGGGAG
1 TTGTTGTATAATGATGGCCATTCTATTCGTAGCTGAAAGCGGAG
20373231 AGCTTTTATC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.37
Consensus pattern (47 bp):
TTGTTGTATAATGATGGCCATTCTATTCGTAGCTGAAAGCGGAGTTC
Found at i:20375361 original size:17 final size:18
Alignment explanation
Indices: 20375339--20375379 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
20375329 TTTTCTTAGA
20375339 TTTCTCTTTCC-CTTTCT
1 TTTCTCTTTCCACTTTCT
*
20375356 TTTCTC-TTCCATTTTCT
1 TTTCTCTTTCCACTTTCT
20375373 TTTCTCT
1 TTTCTCT
20375380 CCCTCCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCTCTTTCCACTTTCT
Found at i:20375831 original size:15 final size:15
Alignment explanation
Indices: 20375811--20375840 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20375801 AAATTATCAC
20375811 AATTTATCTCTAATA
1 AATTTATCTCTAATA
*
20375826 AATTTATCTTTAATA
1 AATTTATCTCTAATA
20375841 GATTGAATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTATCTCTAATA
Found at i:20376197 original size:21 final size:22
Alignment explanation
Indices: 20376159--20376213 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 22
20376149 CAAAATCTCA
20376159 AAAATTAAACTATGAAAAATTT
1 AAAATTAAACTATGAAAAATTT
20376181 AAAATT-AACTCAT-AAAAATAAATT
1 AAAATTAAACT-ATGAAAAAT---TT
20376205 AAAATTAAA
1 AAAATTAAA
20376214 AATCATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 10 0.36
22 8 0.29
24 8 0.29
25 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATTAAACTATGAAAAATTT
Found at i:20376304 original size:17 final size:16
Alignment explanation
Indices: 20376260--20376309 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
20376250 AAGTATTATA
* *
20376260 ATAATAGTAAATAATTT
1 ATAATA-TAAAAAATAT
20376277 ATAA-ATAAAAAATAT
1 ATAATATAAAAAATAT
20376292 ATAATATTAAAAAA-AT
1 ATAATA-TAAAAAATAT
20376308 AT
1 AT
20376310 TATTTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 12 0.41
16 6 0.21
17 11 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATAATATAAAAAATAT
Found at i:20380310 original size:27 final size:27
Alignment explanation
Indices: 20380280--20380332 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
20380270 AAATTATTTT
20380280 GCAAAACTTCCCC-TTAAAT-AATGCATG
1 GCAAAAC-TCCCCATT-AATGAATGCATG
20380307 GCAAAACTCCCCATTAATGAATGCAT
1 GCAAAACTCCCCATTAATGAATGCAT
20380333 CCTAATCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (27 bp):
GCAAAACTCCCCATTAATGAATGCATG
Found at i:20389251 original size:24 final size:24
Alignment explanation
Indices: 20389224--20389275 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
20389214 AATTGAAAAT
* *
20389224 AAATATTA-TCAATGAATTATTGAC
1 AAATATTACT-AATGAAATATCGAC
*
20389248 AAATTTTACTAATGAAATATCGAC
1 AAATATTACTAATGAAATATCGAC
20389272 AAAT
1 AAAT
20389276 TACCAACGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATATTACTAATGAAATATCGAC
Found at i:20389334 original size:15 final size:15
Alignment explanation
Indices: 20389310--20389339 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20389300 TGCCAATAAA
*
20389310 ATTACTAACGAAATT
1 ATTACCAACGAAATT
20389325 ATTACCAACGAAATT
1 ATTACCAACGAAATT
20389340 TTAAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
ATTACCAACGAAATT
Found at i:20392259 original size:18 final size:18
Alignment explanation
Indices: 20392215--20392251 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20392205 TTTCTTAAGA
*
20392215 AAAAGGATATTATGGTGG
1 AAAAGGATACTATGGTGG
20392233 AAAAGGATACTATGGTGG
1 AAAAGGATACTATGGTGG
20392251 A
1 A
20392252 GGAAGATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (18 bp):
AAAAGGATACTATGGTGG
Done.