Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 36 of 91
Found at i:6153625 original size:55 final size:56
Alignment explanation
Indices: 6153530--6153635 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 56
6153520 TGCTTAAAGC
* *
6153530 TTTTAAATTTATTTTCGAAAAGTTATGGAGCCTATACTTAAAAGAGTTTTTTTTTT
1 TTTTAAATTTACTTTCGAAAAGTTATGGAGCCTATACTTAAAAGAGCTTTTTTTTT
* * * *
6153586 TTTTAAATTTACTTTC-AAAAGTTATGTAGCTTTTGCTTAAAAGAGCTTTT
1 TTTTAAATTTACTTTCGAAAAGTTATGGAGCCTATACTTAAAAGAGCTTTT
6153636 AAATTTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 29 0.66
56 15 0.34
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.49
Consensus pattern (56 bp):
TTTTAAATTTACTTTCGAAAAGTTATGGAGCCTATACTTAAAAGAGCTTTTTTTTT
Found at i:6153653 original size:46 final size:47
Alignment explanation
Indices: 6153586--6153800 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 47
6153576 TTTTTTTTTT
* *
6153586 TTTTAAATTTACTTTCAAAAGTTATGTAGCTTTTGCTTAAAAG-AGC
1 TTTTAAATTTACTTTCAAAAGTTATGGAGCCTTTGCTTAAAAGAAGC
* * * * * *
6153632 TTTTAAATTTATTTTCGAAAGTTGTGGAGCCTTCGTTTAAAGGAA-C
1 TTTTAAATTTACTTTCAAAAGTTATGGAGCCTTTGCTTAAAAGAAGC
* * * * * * *
6153678 TTTTAAACTTAATTTCTAATGTTGTGGAGTCTTTG-TTTAAAGAAGC
1 TTTTAAATTTACTTTCAAAAGTTATGGAGCCTTTGCTTAAAAGAAGC
* * * **
6153724 TTTTCAATTTACTTTCAAAAGTTATAGG-CCCTTTGCTTAAATGAATT
1 TTTTAAATTTACTTTCAAAAGTTAT-GGAGCCTTTGCTTAAAAGAAGC
* *
6153771 TTTTAAATTTATTTTCAAAAGTTATAGAGC
1 TTTTAAATTTACTTTCAAAAGTTATGGAGC
6153801 TATTACTTAG
Statistics
Matches: 132, Mismatches: 32, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
45 7 0.05
46 91 0.69
47 34 0.26
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (47 bp):
TTTTAAATTTACTTTCAAAAGTTATGGAGCCTTTGCTTAAAAGAAGC
Found at i:6153787 original size:47 final size:47
Alignment explanation
Indices: 6153584--6153837 Score: 139
Period size: 46 Copynumber: 5.5 Consensus size: 47
6153574 AGTTTTTTTT
* * * *
6153584 TTTTTTAAATTTACTTTCAAAAGTTAT-GTAGCTTTTGCTTAAAAG-A
1 TTTTTTAAATTTATTTTCAAAAGTTATAG-AGCTATTACTTAAAGGAA
** * * * *
6153630 GCTTTTAAATTTATTTTCGAAAGTTGTGGAGC-CTT-CGTTTAAAGGAA
1 TTTTTTAAATTTATTTTCAAAAGTTATAGAGCTATTAC--TTAAAGGAA
* * * * * * * **
6153677 -CTTTTAAACTTAATTTCTAATGTTGTGGAGTCT-TTGTTTAAA-GAA
1 TTTTTTAAATTTATTTTCAAAAGTTATAGAG-CTATTACTTAAAGGAA
** * * * *
6153722 GCTTTTCAATTTACTTTCAAAAGTTATAG-GCCCT-TTGCTTAAATGAA
1 TTTTTTAAATTTATTTTCAAAAGTTATAGAG--CTATTACTTAAAGGAA
* *
6153769 TTTTTTAAATTTATTTTCAAAAGTTATAGAGCTATTACTTAGAGGAT
1 TTTTTTAAATTTATTTTCAAAAGTTATAGAGCTATTACTTAAAGGAA
*
6153816 TTTTTTAAATTTATTTTTAAAA
1 TTTTTTAAATTTATTTTCAAAA
6153838 AATGGTTAAG
Statistics
Matches: 166, Mismatches: 30, Indels: 23
0.76 0.14 0.11
Matches are distributed among these distances:
44 1 0.01
45 6 0.04
46 95 0.57
47 63 0.38
48 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (47 bp):
TTTTTTAAATTTATTTTCAAAAGTTATAGAGCTATTACTTAAAGGAA
Found at i:6153908 original size:18 final size:20
Alignment explanation
Indices: 6153887--6153930 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
6153877 AAAAAAACAT
*
6153887 AAAACATAAA-AAATATAC-
1 AAAAAATAAATAAATATACG
*
6153905 AAAAAATAAATATATATACG
1 AAAAAATAAATAAATATACG
6153925 AAAAAA
1 AAAAAA
6153931 AACAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAATAAATAAATATACG
Found at i:6153909 original size:19 final size:19
Alignment explanation
Indices: 6153865--6153929 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
6153855 AATTTTATTC
* *
6153865 ACAAAAACA-AAAAAAAAA
1 ACAAAAACATAAAAAATAT
6153883 ACATAAAACATAAAAAATAT
1 ACA-AAAACATAAAAAATAT
*
6153903 ACAAAAA-ATAAATATATAT
1 ACAAAAACATAAA-AAATAT
6153922 ACGAAAAA
1 AC-AAAAA
6153930 AAACAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.20
19 17 0.43
20 15 0.38
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAAAAACATAAAAAATAT
Found at i:6153910 original size:20 final size:19
Alignment explanation
Indices: 6153867--6153910 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
6153857 TTTTATTCAC
6153867 AAAAACAAAAAAAAAAACA
1 AAAAACAAAAAAAAAAACA
* * *
6153886 TAAAACATAAAAAATATACA
1 AAAAACA-AAAAAAAAAACA
6153906 AAAAA
1 AAAAA
6153911 TAAATATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (19 bp):
AAAAACAAAAAAAAAAACA
Found at i:6154510 original size:13 final size:13
Alignment explanation
Indices: 6154494--6154521 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6154484 AGAATAGCCA
6154494 AAAATAGTAATCT
1 AAAATAGTAATCT
6154507 AAAATAGTAATCT
1 AAAATAGTAATCT
6154520 AA
1 AA
6154522 GGCTTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATAGTAATCT
Found at i:6156293 original size:6 final size:6
Alignment explanation
Indices: 6156282--6156309 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6156272 AAATTAGAAA
6156282 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
6156310 AATTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:6156612 original size:8 final size:8
Alignment explanation
Indices: 6156601--6156720 Score: 88
Period size: 8 Copynumber: 15.4 Consensus size: 8
6156591 TTTTTTTCAT
*
6156601 AAACCCTG
1 AAACCCTA
*
6156609 AAACCAT-
1 AAACCCTA
*
6156616 AAACCTTA
1 AAACCCTA
6156624 AAACCCTA
1 AAACCCTA
*
6156632 AAAACCTAA
1 AAACCCT-A
6156641 AAACCCTA
1 AAACCCTA
6156649 AAA-CCTA
1 AAACCCTA
*
6156656 AAATCCTA
1 AAACCCTA
6156664 AAACCCT-
1 AAACCCTA
* * *
6156671 AAATCTTG
1 AAACCCTA
*
6156679 AAATCCTA
1 AAACCCTA
*
6156687 AAA-TCTA
1 AAACCCTA
*
6156694 AAACCTTAA
1 AAACCCT-A
6156703 AAACCCTA
1 AAACCCTA
6156711 AAA-CCTA
1 AAACCCTA
6156718 AAA
1 AAA
6156721 TCATAAATCT
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
7 31 0.34
8 47 0.51
9 14 0.15
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.18
Consensus pattern (8 bp):
AAACCCTA
Found at i:6156638 original size:17 final size:17
Alignment explanation
Indices: 6156616--6156666 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
6156606 CTGAAACCAT
6156616 AAACCTTAAAACCCTAA
1 AAACCTTAAAACCCTAA
*
6156633 AAACCTAAAAACCCT-A
1 AAACCTTAAAACCCTAA
*
6156649 AAACC-TAAAATCCTAA
1 AAACCTTAAAACCCTAA
6156665 AA
1 AA
6156667 CCCTAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.23
16 9 0.30
17 14 0.47
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (17 bp):
AAACCTTAAAACCCTAA
Found at i:6156651 original size:16 final size:15
Alignment explanation
Indices: 6156616--6156720 Score: 88
Period size: 15 Copynumber: 6.7 Consensus size: 15
6156606 CTGAAACCAT
6156616 AAACCTTAAAACCCTAA
1 AAACC-TAAAACCCT-A
6156633 AAACCTAAAAACCCTA
1 AAACCT-AAAACCCTA
*
6156649 AAACCTAAAATCCTA
1 AAACCTAAAACCCTA
* *
6156664 AAACCCT-AAATCTTGA
1 AAA-CCTAAAACCCT-A
* *
6156680 AATCCTAAAA-TCTA
1 AAACCTAAAACCCTA
6156694 AAACCTTAAAAACCCTA
1 AAACC-T-AAAACCCTA
6156711 AAACCTAAAA
1 AAACCTAAAA
6156721 TCATAAATCT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
14 5 0.07
15 26 0.35
16 22 0.30
17 21 0.28
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (15 bp):
AAACCTAAAACCCTA
Found at i:6156682 original size:23 final size:23
Alignment explanation
Indices: 6156616--6156720 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 23
6156606 CTGAAACCAT
* *
6156616 AAACCTTAAAACCCTAAAAACCTAA
1 AAACCCTAAAA-CCTAAAATCCT-A
6156641 AAACCCTAAAACCTAAAATCCTA
1 AAACCCTAAAACCTAAAATCCTA
* * *
6156664 AAACCCTAAATCTTGAAATCCTA
1 AAACCCTAAAACCTAAAATCCTA
* *
6156687 AAA-TCTAAAACCTTAAAAACCCTA
1 AAACCCTAAAACC-T-AAAATCCTA
6156711 AAA-CCTAAAA
1 AAACCCTAAAA
6156721 TCATAAATCT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
22 6 0.09
23 25 0.37
24 26 0.39
25 10 0.15
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (23 bp):
AAACCCTAAAACCTAAAATCCTA
Found at i:6156707 original size:54 final size:53
Alignment explanation
Indices: 6156600--6156775 Score: 176
Period size: 54 Copynumber: 3.3 Consensus size: 53
6156590 ATTTTTTTCA
* * * * * *
6156600 TAAACCCTGAAACCATAAACCTTAAAACCCTAAAAACCTAAAAACCCTAAAA-CC
1 TAAAACCTAAAACCATAAATCTTGAAATCCT-AAAATCT-AAAACCCTAAAACCC
* *
6156654 TAAAATCCTAAAACCCTAAATCTTGAAATCCTAAAATCTAAAACCTTAAAAACCC
1 TAAAA-CCTAAAACCATAAATCTTGAAATCCTAAAATCTAAAACCCT-AAAACCC
* * * * *
6156709 TAAAACCTAAAATCATAAATCTTGAAATCCTAAAATCTTAAACTCTGAAATCC
1 TAAAACCTAAAACCATAAATCTTGAAATCCTAAAATCTAAAACCCTAAAACCC
6156762 T-AAACCTTAAAACC
1 TAAAACC-TAAAACC
6156776 TCAAAACAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 5 0.05
53 19 0.19
54 50 0.49
55 28 0.27
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.22
Consensus pattern (53 bp):
TAAAACCTAAAACCATAAATCTTGAAATCCTAAAATCTAAAACCCTAAAACCC
Found at i:6156744 original size:23 final size:23
Alignment explanation
Indices: 6156714--6156765 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
6156704 AACCCTAAAA
6156714 CCTAAAATCATAAA-TCTTGAAAT
1 CCTAAAATCATAAACTC-TGAAAT
*
6156737 CCTAAAATCTTAAACTCTGAAAT
1 CCTAAAATCATAAACTCTGAAAT
6156760 CCTAAA
1 CCTAAA
6156766 CCTTAAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.93
24 2 0.07
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (23 bp):
CCTAAAATCATAAACTCTGAAAT
Found at i:6156774 original size:23 final size:23
Alignment explanation
Indices: 6156687--6156772 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
6156677 TGAAATCCTA
*
6156687 AAAT-CTAAAACCTTAAAAACCCT-
1 AAATCCTAAAACCTT--AAACTCTG
* * *
6156710 AAAACCTAAAATCATAAA-TCTTG
1 AAATCCTAAAACCTTAAACTC-TG
*
6156733 AAATCCTAAAATCTTAAACTCTG
1 AAATCCTAAAACCTTAAACTCTG
6156756 AAATCCT-AAACCTTAAA
1 AAATCCTAAAACCTTAAA
6156773 ACCTCAAAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 13 0.25
23 28 0.54
24 10 0.19
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATCCTAAAACCTTAAACTCTG
Found at i:6161526 original size:20 final size:20
Alignment explanation
Indices: 6161503--6161546 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6161493 AAAAACTTTA
*
6161503 TTTTCCTTTCCTTTATTTTC
1 TTTTCCTTTCATTTATTTTC
* *
6161523 TTTTCTTTTCATTTTTTTTC
1 TTTTCCTTTCATTTATTTTC
6161543 TTTT
1 TTTT
6161547 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCCTTTCATTTATTTTC
Found at i:6161541 original size:15 final size:16
Alignment explanation
Indices: 6161502--6161546 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
6161492 AAAAAACTTT
* *
6161502 ATTTTCCTTTCCTTT-
1 ATTTTCTTTTCTTTTC
6161517 ATTTTCTTTTCTTTTC
1 ATTTTCTTTTCTTTTC
6161533 ATTTT-TTTTCTTTT
1 ATTTTCTTTTCTTTT
6161547 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTCTTTTCTTTTC
Found at i:6161547 original size:10 final size:10
Alignment explanation
Indices: 6161518--6161551 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6161508 CTTTCCTTTA
*
6161518 TTTTCTTTTC
1 TTTTCTTTTT
*
6161528 TTTTCATTTT
1 TTTTCTTTTT
6161538 TTTTCTTTTT
1 TTTTCTTTTT
6161548 TTTT
1 TTTT
6161552 ATTAATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:6161796 original size:12 final size:13
Alignment explanation
Indices: 6161764--6161791 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6161754 TTACTTAGGT
6161764 TTTATTTTTTTTC
1 TTTATTTTTTTTC
6161777 TTTATTTTTTTTC
1 TTTATTTTTTTTC
6161790 TT
1 TT
6161792 GTTTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTTTTC
Found at i:6162039 original size:20 final size:19
Alignment explanation
Indices: 6161990--6162088 Score: 71
Period size: 20 Copynumber: 5.1 Consensus size: 19
6161980 AATTATTTGA
6161990 ATGATTATTTATTT--TTGC
1 ATGATTA-TTATTTAATTGC
6162008 ATAGTATT-TTATTTAATTGC
1 AT-G-ATTATTATTTAATTGC
**
6162028 ATGATTAGTTATTTAATTAT
1 ATGATTA-TTATTTAATTGC
* **
6162048 ATGAAT-TTAGTTTGCTTGC
1 ATGATTATTA-TTTAATTGC
6162067 ATGATTATATATTTAATTGC
1 ATGATTAT-TATTTAATTGC
6162087 AT
1 AT
6162089 AATATATTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
18 14 0.23
19 12 0.19
20 34 0.55
21 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (19 bp):
ATGATTATTATTTAATTGC
Found at i:6162095 original size:17 final size:17
Alignment explanation
Indices: 6162073--6162110 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6162063 TTGCATGATT
6162073 ATATATTTAATTGCATA
1 ATATATTTAATTGCATA
* *
6162090 ATATATTTACTTGTATA
1 ATATATTTAATTGCATA
6162107 ATAT
1 ATAT
6162111 TAATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (17 bp):
ATATATTTAATTGCATA
Found at i:6162220 original size:23 final size:25
Alignment explanation
Indices: 6162194--6162245 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
6162184 ATGGCATGAT
6162194 ATTTTATAT-TATTACATGA-TA-TG
1 ATTTTATATAT-TTACATGATTATTG
6162217 ATTTTATATATTTACATGATTATTG
1 ATTTTATATATTTACATGATTATTG
6162242 ATTT
1 ATTT
6162246 ATTTACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 17 0.65
24 3 0.12
25 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (25 bp):
ATTTTATATATTTACATGATTATTG
Found at i:6162904 original size:22 final size:22
Alignment explanation
Indices: 6162876--6162918 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6162866 TACTAACCTC
6162876 TTTGTTTATA-AAATTTTATTTA
1 TTTGTTT-TACAAATTTTATTTA
6162898 TTTGTTTTACAAATTTTATTT
1 TTTGTTTTACAAATTTTATTT
6162919 TCATGTGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTGTTTTACAAATTTTATTTA
Found at i:6163798 original size:128 final size:130
Alignment explanation
Indices: 6163547--6163817 Score: 318
Period size: 128 Copynumber: 2.1 Consensus size: 130
6163537 TACGTAGTTG
* * * *
6163547 TGAATATGAATTTTTGTTTTCACTATGTATTGCATACTTGTATTTACATATACATCCATGTAAAC
1 TGAATATGAATTGTTGTTTTCACTATATATTACATACATGTATTTACATATACAT-C-TGTAAAC
* * * *
6163612 ATCTTTGTATGTTCATTATTTCATTTGTTTGGGAAAATATTTGCCTTTTCAATTTTGTACATAAT
64 ATCTTTATATGTTCATCATTTCATTTGTTTGGGAAAATATGTGCCATTTCAATTTTGTACATAAT
*
6163677 TT
129 TA
* **
6163679 TGAATATGAATTGTTGTTGTT-ACTATATATTATATACATGTATTTGTATATACAT-T-TAAACA
1 TGAATATGAATTGTTGTT-TTCACTATATATTACATACATGTATTTACATATACATCTGTAAACA
* * * *
6163741 TCTTTATATGTAT-ATCATTTCATTTGTTTGAGG-CAATCTGTGCCATTTCAGTTTTGTACATAG
65 TCTTTATATGT-TCATCATTTCATTTGTTTG-GGAAAATATGTGCCATTTCAATTTTGTACATAA
6163804 TTA
128 TTA
6163807 TGAATATGAAT
1 TGAATATGAAT
6163818 GCATTGTATA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
128 69 0.57
129 4 0.03
132 45 0.38
133 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.48
Consensus pattern (130 bp):
TGAATATGAATTGTTGTTTTCACTATATATTACATACATGTATTTACATATACATCTGTAAACAT
CTTTATATGTTCATCATTTCATTTGTTTGGGAAAATATGTGCCATTTCAATTTTGTACATAATTA
Found at i:6165111 original size:15 final size:16
Alignment explanation
Indices: 6165087--6165125 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6165077 TGGAAACATG
6165087 AAAG-AAAAAAC-AAA
1 AAAGAAAAAAACGAAA
6165101 AAAGAAAAAAACGAAA
1 AAAGAAAAAAACGAAA
*
6165117 AATGAAAAA
1 AAAGAAAAA
6165126 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 11 0.50
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAAACGAAA
Found at i:6165160 original size:21 final size:21
Alignment explanation
Indices: 6165087--6165160 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
6165077 TGGAAACATG
*
6165087 AAAGAAAAAACAAAAAA-GAA
1 AAAGAAAAAATAAAAAATGAA
* *
6165107 AAAAACGAAAAATGAAAAATGAA
1 AAAGA--AAAAATAAAAAATGAA
*
6165130 AAATAAAAAATAAAAAATGAA
1 AAAGAAAAAATAAAAAATGAA
6165151 AAAGAAAAAA
1 AAAGAAAAAA
6165161 GTGAAAATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 24 0.53
22 10 0.22
23 7 0.16
ACGTcount: A:0.81, C:0.03, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAGAAAAAATAAAAAATGAA
Found at i:6165161 original size:7 final size:7
Alignment explanation
Indices: 6165087--6165161 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
6165077 TGGAAACATG
6165087 AAAGAAA
1 AAAGAAA
*
6165094 AAACAAA
1 AAAGAAA
6165101 AAAGAAAA
1 AAAG-AAA
6165109 AAACGAAA
1 AAA-GAAA
*
6165117 AATGAAA
1 AAAGAAA
*
6165124 AATG-AA
1 AAAGAAA
*
6165130 AAATAAA
1 AAAGAAA
*
6165137 AAATAAA
1 AAAGAAA
6165144 AAATG-AA
1 AAA-GAAA
6165151 AAAGAAA
1 AAAGAAA
6165158 AAAG
1 AAAG
6165162 TGAAAATGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.09
7 40 0.70
8 11 0.19
9 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.07
Consensus pattern (7 bp):
AAAGAAA
Found at i:6165167 original size:21 final size:20
Alignment explanation
Indices: 6165114--6165169 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
6165104 GAAAAAAACG
*
6165114 AAAAATGAAAAATGAAAAATA
1 AAAAATG-AAAATGAAAAAGA
*
6165135 AAAAATAAAAAATGAAAAAGA
1 AAAAAT-GAAAATGAAAAAGA
6165156 AAAAAGTGAAAATG
1 AAAAA-TGAAAATG
6165170 CATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAAATGAAAATGAAAAAGA
Found at i:6165453 original size:18 final size:19
Alignment explanation
Indices: 6165422--6165457 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6165412 TAGAATAGTC
6165422 AAAAAATAAGAAAAGAAAT
1 AAAAAATAAGAAAAGAAAT
*
6165441 AAAAAAT-ATAAAAGAAA
1 AAAAAATAAGAAAAGAAA
6165458 GATTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAATAAGAAAAGAAAT
Found at i:6166877 original size:23 final size:21
Alignment explanation
Indices: 6166850--6166924 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 21
6166840 CTAAAATTTT
6166850 TGAATCTTTAGACTTTTCAAATG
1 TGAATCTTTAGA-TTTT-AAATG
* *
6166873 TGAATCTTT-GAATCTTGAATG
1 TGAATCTTTAG-ATTTTAAATG
* *
6166894 TGAATCTCTAAGATTTTTTAATG
1 TGAATCT-TTAGA-TTTTAAATG
6166917 TGAATCTT
1 TGAATCTT
6166925 GAATGTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 11 0.26
22 7 0.16
23 25 0.58
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (21 bp):
TGAATCTTTAGATTTTAAATG
Found at i:6166922 original size:36 final size:36
Alignment explanation
Indices: 6166881--6167009 Score: 134
Period size: 36 Copynumber: 3.6 Consensus size: 36
6166871 TGTGAATCTT
*
6166881 TGAATCTTGAATGTGAATCTCTAAGATTTTTTAATG
1 TGAATCTTGAATGTGAATCTCTAAGATTTTTAAATG
* * *
6166917 TGAATCTTGAATGTTAATTTCTAAGATTTTTGAATG
1 TGAATCTTGAATGTGAATCTCTAAGATTTTTAAATG
* * * *
6166953 TGAATCTTAAAGGTGAA-CTTTTGAGATTTTTAAATG
1 TGAATCTTGAATGTGAATC-TCTAAGATTTTTAAATG
** *
6166989 CAAATCTTTAGATGTGAATCT
1 TGAATCTTGA-ATGTGAATCT
6167010 TGAAAAATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
36 68 0.89
37 7 0.09
38 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (36 bp):
TGAATCTTGAATGTGAATCTCTAAGATTTTTAAATG
Found at i:6167565 original size:38 final size:37
Alignment explanation
Indices: 6167514--6167722 Score: 153
Period size: 38 Copynumber: 5.7 Consensus size: 37
6167504 ATCCATGTTG
* *
6167514 TTTAAAGTTTCAAGCCTCAGTTGTGGTGAAACAATTTA
1 TTTAAAGTTTCAAGCCTCAATTGT-ATGAAACAATTTA
*** * *
6167552 TTTAAAGTTTCAAGCCTC-A--GT-T-CCCCATTTTG
1 TTTAAAGTTTCAAGCCTCAATTGTATGAAACAATTTA
* * * *
6167584 TTTAAAGTTTTAAACCTCAATTGTAAGAAAGCAATTTTC
1 TTTAAAGTTTCAAGCCTCAATTGTATGAAA-CAA-TTTA
* * *
6167623 TTTAAAGTTTCAAGTCTCAATTGTAGGAAAGCATTTTA
1 TTTAAAGTTTCAAGCCTCAATTGTATGAAA-CAATTTA
* * *
6167661 TTTAAAGTTTCAAGCTTAAATTGTGAT-AGAGCAATTTA
1 TTTAAAGTTTCAAGCCTCAATTGT-ATGA-AACAATTTA
*
6167699 TTTAAAGTTTCAA-CCTCAGTTGTA
1 TTTAAAGTTTCAAGCCTCAATTGTA
6167723 AAGGAGTATT
Statistics
Matches: 133, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
32 21 0.16
33 2 0.02
35 4 0.03
36 1 0.01
37 7 0.05
38 64 0.48
39 34 0.26
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTAAAGTTTCAAGCCTCAATTGTATGAAACAATTTA
Found at i:6167627 original size:39 final size:39
Alignment explanation
Indices: 6167578--6167723 Score: 154
Period size: 38 Copynumber: 3.8 Consensus size: 39
6167568 TCAGTTCCCC
* *
6167578 ATTTTGTTTAAAGTTTTAAACCTCAATTGTAAGAAAGCA
1 ATTTTATTTAAAGTTTCAAACCTCAATTGTAAGAAAGCA
* ** *
6167617 ATTTTCTTTAAAGTTTCAAGTCTCAATTGTAGGAAAGC-
1 ATTTTATTTAAAGTTTCAAACCTCAATTGTAAGAAAGCA
* * * * * *
6167655 ATTTTATTTAAAGTTTCAAGCTTAAATTGTGATAGAGCA
1 ATTTTATTTAAAGTTTCAAACCTCAATTGTAAGAAAGCA
*
6167694 A-TTTATTTAAAGTTTC-AACCTCAGTTGTAA
1 ATTTTATTTAAAGTTTCAAACCTCAATTGTAA
6167724 AGGAGTATTT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
37 9 0.10
38 45 0.51
39 34 0.39
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (39 bp):
ATTTTATTTAAAGTTTCAAACCTCAATTGTAAGAAAGCA
Found at i:6167807 original size:37 final size:38
Alignment explanation
Indices: 6167759--6167851 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 38
6167749 GCATTTTATT
* *
6167759 TTTTTTCAAAATTGAAACCTTA-GTGAAGGAATATTTTA
1 TTTTTTCAAAATTGAAACC-TAGGTAAAGGAATACTTTA
**
6167797 -TTTTTCAAAATCAAAACCTAGGTAAAGGAATACTTTA
1 TTTTTTCAAAATTGAAACCTAGGTAAAGGAATACTTTA
*
6167834 TTTTTTCAAAGTTGAAAC
1 TTTTTTCAAAATTGAAAC
6167852 AACAATCAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 2 0.04
37 30 0.65
38 14 0.30
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (38 bp):
TTTTTTCAAAATTGAAACCTAGGTAAAGGAATACTTTA
Found at i:6169926 original size:19 final size:19
Alignment explanation
Indices: 6169890--6169928 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6169880 AGGTTTTATA
*
6169890 TATTTTTGTTTCTTTATTT
1 TATTTTTGTTTCTGTATTT
6169909 TATTTCTTGTTT-TGTATTT
1 TATTT-TTGTTTCTGTATTT
6169928 T
1 T
6169929 TCCGTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (19 bp):
TATTTTTGTTTCTGTATTT
Found at i:6170230 original size:24 final size:24
Alignment explanation
Indices: 6170202--6170247 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6170192 TTTAATTGCA
6170202 TAATATATTGATTTACATGATTAT
1 TAATATATTGATTTACATGATTAT
* *
6170226 TAATATATTTATTTATATGATT
1 TAATATATTGATTTACATGATT
6170248 GTCTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (24 bp):
TAATATATTGATTTACATGATTAT
Found at i:6170257 original size:32 final size:31
Alignment explanation
Indices: 6170221--6170289 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 31
6170211 GATTTACATG
* *
6170221 ATTATTAATATATTTATTTATATGATTGTCTT
1 ATTATTAATATATTTATTTATATAATTAT-TT
*
6170253 ATTATTAATATATTTATTTGTATAATTATTT
1 ATTATTAATATATTTATTTATATAATTATTT
6170284 ATTATT
1 ATTATT
6170290 TATGTTTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (31 bp):
ATTATTAATATATTTATTTATATAATTATTT
Found at i:6170375 original size:3 final size:3
Alignment explanation
Indices: 6170369--6170515 Score: 115
Period size: 3 Copynumber: 47.7 Consensus size: 3
6170359 TGATTTTTTT
* * * *
6170369 TTA TTA TT- TTA TTA TTA CT- TTA GTA TAA TATG TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA
* *
6170414 TTA TTA TTA -TA GTA TAA TATA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
6170458 GTCTA TTA GTA TTA TTA -TA TTA TTA TTA TTTA TTA TTTA TTA CTTA
1 -T-TA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA -TTA
6170504 TTA TTTA TTA TT
1 TTA -TTA TTA TT
6170516 TTCTTTCCTT
Statistics
Matches: 117, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
2 9 0.08
3 87 0.74
4 19 0.16
5 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:6170879 original size:23 final size:23
Alignment explanation
Indices: 6170853--6170901 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
6170843 TAGTCTTAGA
*
6170853 ATTTTTGGAAATTCTAGATATAG
1 ATTTTGGGAAATTCTAGATATAG
* * *
6170876 A-TTTGGGGAATTCTGGATTTAG
1 ATTTTGGGAAATTCTAGATATAG
6170898 ATTT
1 ATTT
6170902 GTATTTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (23 bp):
ATTTTGGGAAATTCTAGATATAG
Found at i:6171336 original size:17 final size:18
Alignment explanation
Indices: 6171314--6171359 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
6171304 TTTGATTTTG
6171314 ATTTTGATTTTTTTTA-T
1 ATTTTGATTTTTTTTATT
**
6171331 ATTTTGAAATTTTTTATT
1 ATTTTGATTTTTTTTATT
6171349 ATTTT-ATTTTT
1 ATTTTGATTTTT
6171360 AGTATTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTTGATTTTTTTTATT
Found at i:6171419 original size:19 final size:17
Alignment explanation
Indices: 6171383--6171425 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
6171373 TCTTTCTGAC
*
6171383 TTTTATTATTTATTTAT
1 TTTTATTATTAATTTAT
6171400 TTTTATTGATTAATTTTAT
1 TTTTATT-ATTAA-TTTAT
6171419 TTTTATT
1 TTTTATT
6171426 TTTTAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATTATTAATTTAT
Found at i:6171431 original size:19 final size:18
Alignment explanation
Indices: 6171383--6171431 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
6171373 TCTTTCTGAC
6171383 TTTTATTATTT-ATTTAT
1 TTTTATTATTTAATTTAT
6171400 TTTTATTGA-TTAATTTTAT
1 TTTTATT-ATTTAA-TTTAT
*
6171419 TTTTATTTTTTAA
1 TTTTATTATTTAA
6171432 CTAAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 9 0.33
18 2 0.07
19 16 0.59
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTATTATTTAATTTAT
Found at i:6172215 original size:21 final size:22
Alignment explanation
Indices: 6172165--6172216 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
6172155 TTTGCATGAC
6172165 TATTGATTTATTTGCATGTTATT
1 TATT-ATTTATTTGCATGTTATT
6172188 TGCATTATTTA-TTGCATGATT-TT
1 T--ATTATTTATTTGCATG-TTATT
6172211 TATTAT
1 TATTAT
6172217 ATGATATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 5 0.19
23 11 0.42
24 7 0.27
25 3 0.12
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.60
Consensus pattern (22 bp):
TATTATTTATTTGCATGTTATT
Found at i:6174779 original size:17 final size:18
Alignment explanation
Indices: 6174757--6174790 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6174747 TTGTTTTCTT
6174757 TTTCTATTTC-ATTTTAC
1 TTTCTATTTCTATTTTAC
6174774 TTTCTATTTCTATTTTA
1 TTTCTATTTCTATTTTA
6174791 TATTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCTATTTCTATTTTAC
Found at i:6174798 original size:17 final size:17
Alignment explanation
Indices: 6174761--6174815 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
6174751 TTTCTTTTTC
6174761 TATTTC-ATTTTACT-TT
1 TATTTCTATTTTA-TATT
6174777 CTATTTCTATTTTATATT
1 -TATTTCTATTTTATATT
6174795 TA-TT-TATTTTATATAT
1 TATTTCTATTTTATAT-T
6174811 TATTT
1 TATTT
6174816 TTTTAAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.29
16 5 0.15
17 11 0.32
18 8 0.24
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTCTATTTTATATT
Found at i:6174804 original size:15 final size:15
Alignment explanation
Indices: 6174784--6174834 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
6174774 TTTCTATTTC
6174784 TATTTTATATTTATT
1 TATTTTATATTTATT
6174799 TATTTTATATATTATT
1 TATTTTATAT-TTATT
*
6174815 T-TTTTA-AGATTATT
1 TATTTTATA-TTTATT
6174829 TATTTT
1 TATTTT
6174835 TGATTATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.22
15 19 0.59
16 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTTATATTTATT
Found at i:6174826 original size:14 final size:15
Alignment explanation
Indices: 6174794--6174843 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
6174784 TATTTTATAT
*
6174794 TTATTTATTTTATATA
1 TTATTTATTTTA-AGA
6174810 TTATTT-TTTTAAGA
1 TTATTTATTTTAAGA
*
6174824 TTATTTATTTT-TGA
1 TTATTTATTTTAAGA
6174838 TTATTT
1 TTATTT
6174844 CTATCAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 16 0.52
15 9 0.29
16 6 0.19
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (15 bp):
TTATTTATTTTAAGA
Found at i:6174953 original size:12 final size:12
Alignment explanation
Indices: 6174934--6174970 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6174924 AATTTAAGAA
6174934 CAAATAAAAATT
1 CAAATAAAAATT
*
6174946 CGAATAAAAA--
1 CAAATAAAAATT
6174956 CAAATAAAAATT
1 CAAATAAAAATT
6174968 CAA
1 CAA
6174971 CTAAGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.19
Consensus pattern (12 bp):
CAAATAAAAATT
Found at i:6180178 original size:24 final size:24
Alignment explanation
Indices: 6180151--6180197 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6180141 AAAGCTTGCA
6180151 AAAACCTAAAAAAAAAAAAGAAAC
1 AAAACCTAAAAAAAAAAAAGAAAC
* * *
6180175 AAAACTTAGAAAAATAAAAGAAA
1 AAAACCTAAAAAAAAAAAAGAAA
6180198 GTTCACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.77, C:0.09, G:0.06, T:0.09
Consensus pattern (24 bp):
AAAACCTAAAAAAAAAAAAGAAAC
Found at i:6180888 original size:18 final size:18
Alignment explanation
Indices: 6180865--6180904 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6180855 AAAAATTATT
6180865 TTTTTATTATTTATTTCA
1 TTTTTATTATTTATTTCA
* *
6180883 TTTTTATTATTTGTTTTA
1 TTTTTATTATTTATTTCA
6180901 TTTT
1 TTTT
6180905 CAGTATTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTATTTATTTCA
Found at i:6180955 original size:12 final size:12
Alignment explanation
Indices: 6180935--6181004 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 12
6180925 TAGGATATGT
6180935 TAAAAAAATAAA
1 TAAAAAAATAAA
*
6180947 TAAATAAATAAA
1 TAAAAAAATAAA
* * **
6180959 TTATAATAACGAA
1 -TAAAAAAATAAA
6180972 TGAATAAAAATAAA
1 T-AA-AAAAATAAA
6180986 TAATGAAAAATAAA
1 TAA--AAAAATAAA
6181000 TAAAA
1 TAAAA
6181005 TATGATAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
12 14 0.33
13 10 0.23
14 19 0.44
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:6181014 original size:19 final size:18
Alignment explanation
Indices: 6180938--6181018 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 18
6180928 GATATGTTAA
6180938 AAAAATAAATAAATAA--
1 AAAAATAAATAAATAATG
* **
6180954 ATAAATTATAATAACGAATG
1 A-AAAATA-AATAAATAATG
*
6180974 AATAA-AAATAAATAATG
1 AAAAATAAATAAATAATG
6180991 AAAAATAAATAAA-ATATG
1 AAAAATAAATAAATA-ATG
6181009 ATAAAATAAA
1 A-AAAATAAA
6181019 AATAAAATCA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
16 1 0.02
17 19 0.38
18 19 0.38
19 10 0.20
20 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAATAAATAAATAATG
Found at i:6183437 original size:35 final size:35
Alignment explanation
Indices: 6183385--6183454 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
6183375 ATTTATTTAT
* *
6183385 ATAAGGGTATCTGTATCCATCTATACCTAAATAGA
1 ATAAAGGTATCTATATCCATCTATACCTAAATAGA
*
6183420 ATAAAGGTATCTATATCCATCTGTACCTAAATAGA
1 ATAAAGGTATCTATATCCATCTATACCTAAATAGA
6183455 TAGTAGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (35 bp):
ATAAAGGTATCTATATCCATCTATACCTAAATAGA
Found at i:6186747 original size:14 final size:14
Alignment explanation
Indices: 6186728--6186756 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6186718 TAGTAAAGTC
6186728 TCATTATTTTGATT
1 TCATTATTTTGATT
6186742 TCATTATTTTGATT
1 TCATTATTTTGATT
6186756 T
1 T
6186757 GTAATTTTTC
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:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (14 bp):
TCATTATTTTGATT
Found at i:6192451 original size:21 final size:20
Alignment explanation
Indices: 6192408--6192451 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6192398 AATTGCTATT
* * *
6192408 TGTATATATTTATTATTACA
1 TGTATAGATTTAATATGACA
6192428 TGTATAGATTTAATATGGACA
1 TGTATAGATTTAATAT-GACA
6192449 TGT
1 TGT
6192452 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (20 bp):
TGTATAGATTTAATATGACA
Found at i:6192805 original size:39 final size:39
Alignment explanation
Indices: 6192751--6192829 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
6192741 CCATTGAGAG
6192751 TTGTAAGTAAGAAAAGAGTGAAGAGGAAGACCTAATCTA
1 TTGTAAGTAAGAAAAGAGTGAAGAGGAAGACCTAATCTA
6192790 TTGTAAGTAAGAAAAGAGTGAAGAGGAAGACCTAATCTA
1 TTGTAAGTAAGAAAAGAGTGAAGAGGAAGACCTAATCTA
6192829 T
1 T
6192830 CTAGAAAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.22
Consensus pattern (39 bp):
TTGTAAGTAAGAAAAGAGTGAAGAGGAAGACCTAATCTA
Found at i:6196720 original size:13 final size:13
Alignment explanation
Indices: 6196702--6196726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6196692 TTTTGCTGCC
6196702 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
6196715 AAAAAAAAGAAA
1 AAAAAAAAGAAA
6196727 TACGGAAAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:6200476 original size:20 final size:19
Alignment explanation
Indices: 6200431--6200476 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6200421 CACACATATC
*
6200431 AATCATGCAAACTAAGTTA
1 AATCATTCAAACTAAGTTA
6200450 AATCATTCAAAC-AAGTTTA
1 AATCATTCAAACTAAG-TTA
6200469 ATATCATT
1 A-ATCATT
6200477 TATTGAAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (19 bp):
AATCATTCAAACTAAGTTA
Found at i:6200766 original size:320 final size:318
Alignment explanation
Indices: 6199736--6200899 Score: 1025
Period size: 320 Copynumber: 3.6 Consensus size: 318
6199726 TTTTAACGTT
* * *
6199736 ATAAAAAGTCCTAAATAA-ACATAAATC-GTAACTTATTCATACATATCAA-ATTGTGAAAACCA
1 ATAAAAAGTCCTAAA-AAGATATAAA-CGGTAACTT-TTCATACATATCAACA--GTAAAAACTA
* ** * * * * *
6199798 AATTCAATCATTCGGACAAGTTTATTATCATGTATTGAAGCTATTTAAACTTTTAAAACATAAAT
61 AGTTCAATCATTCAAACAAGTTTAATATAATGTATTGAAGCTA-TCAAAATTTTAAAACATAAAA
* * * ** *
6199863 ATAACTGCAAAATTATATTTTTTGCCCTTTAACGACGTAACAAAGTCCTAAAAAGACATAAATGA
125 ATAACAGCAAATTTACA-TTTTTGCCCTTTAACGACACAA-AAAGTGCTAAAAAGACATAAATGA
* * * *** *
6199928 TAACATTGTCATACATATCAGCTGTGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATTATG
188 TAACTTTTTC--ACATATCAGTTGTGAAAACCAAGTTCAATCATTCAAACAAGTTTAATATCATG
* * * *
6199993 TATTGAAGCTATCTAAATTGTCAAAACAT-AATAATAAACACAAATTTGCATTTTGACCTTTTAA
251 TATTTAAGCTATCTAAACTATTAAAACATAAATAATAAACAC-AATTTGCATTTTGACCTTTTAA
6200057 TGGC
315 TGGC
** * * *
6200061 ATAAAAAAGTATTAAACAGATATAAACGGTAACCTTTTCATACATATCATTC-TTAAAAA-TAAA
1 AT-AAAAAGTCCTAAAAAGATATAAACGGTAA-CTTTTCATACATATCA-ACAGTAAAAACT-AA
* ** **
6200124 GTTCAATCATTCGAAA-AAGTTTAATATAATGTATTTAAGCTATTTAAATTGTTAAAATGTAAAA
62 GTTCAATCATTC-AAACAAGTTTAATATAATGTATTGAAGCTATCAAAATT-TTAAAACATAAAA
* * * * * * *
6200188 ATAATTA-CAAAATGATATTTTTACCCTTTAACGGCATCATAAAGT-CTTAAAAAGACATAAATG
125 ATAA-CAGCAAATTTACATTTTTGCCCTTTAACGACA-CAAAAAGTGC-TAAAAAGACATAAATG
* * * *
6200251 ATAACTTTTTCGCACATATCAATCGTGAAAACCAAG-TCAATTATTCAAATAAGTTTAATATCAT
187 ATAACTTTTT--CACATATCAGTTGTGAAAACCAAGTTCAATCATTCAAACAAGTTTAATATCAT
* *
6200315 GTA-TTGAGACTATCTAAACTATT--AACATAGAATAATAAACACAATTTTGCATTTTGGCCTTT
250 GTATTTAAG-CTATCTAAACTATTAAAACATA-AATAATAAACACAA-TTTGCATTTTGACCTTT
*
6200377 TAATAGC
312 TAATGGC
* * * * * **
6200384 ATAAAAAATCCTAAATAGACT-TAAAAGATAACTTTTTCACACATATCAATCA-TGCAAACTAAG
1 ATAAAAAGTCCTAAAAAGA-TATAAACGGTAAC-TTTTCATACATATCAA-CAGTAAAAACTAAG
* * * *
6200447 TTAAATCATTCAAACAAGTTTAATATCATTTATTGAAGCTATCAAAATTGTTAAAACATAATAAT
63 TTCAATCATTCAAACAAGTTTAATATAATGTATTGAAGCTATCAAAATT-TTAAAACATAAAAAT
* * * * * **
6200512 AAAAGCAAATTTGCATTTTGGCCTTTTAACGGCACAAAAAGTGCTAAACAA-ACATAAACAATAA
127 AACAGCAAATTTACATTTTTGCCCTTTAACGACACAAAAAGTGCTAAA-AAGACATAAATGATAA
** *
6200576 CTTTTTCACATATCAGTTGTGAAAAATAAGTTCAATCATTCAAACAAGTTTAGTATCATGTATTT
191 CTTTTTCACATATCAGTTGTGAAAACCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTT
* * * ** *
6200641 AAGTTATCTAAACTATTAAAACATAAAT-AT-AGCTACATATTTACATTTTTTCCCTTTAATGGC
256 AAGCTATCTAAACTATTAAAACATAAATAATAAAC-ACA-ATTTGCATTTTGACCTTTTAATGGC
** * *
6200704 GCAACAAGGTCCTAAAAAGATATAAACGGTAACTTTTCATACATATTAACAGTAAAAACTAAGTT
1 ATAA-AAAGTCCTAAAAAGATATAAACGGTAACTTTTCATACATATCAACAGTAAAAACTAAGTT
*** * *
6200769 CAATCATTCAGGTAAGTTTAATATAATGTATTGAAGCTATCTAAACTTTTAAAACAAAAAAATAA
65 CAATCATTCAAACAAGTTTAATATAATGTATTGAAGCTATC-AAAATTTTAAAACATAAAAATAA
* * * * * * *
6200834 CTGCATATTTACAATTTTGCCCTTTAATGACACAAAAAGTGC-AAAACAGATATAAAAGACAACT
129 CAGCAAATTTACATTTTTGCCCTTTAACGACACAAAAAGTGCTAAAA-AGACATAAATGATAACT
6200898 TT
193 TT
6200900 CTTATTTGAT
Statistics
Matches: 677, Mismatches: 123, Indels: 83
0.77 0.14 0.09
Matches are distributed among these distances:
318 1 0.00
319 28 0.04
320 189 0.28
321 72 0.11
322 133 0.20
323 75 0.11
324 71 0.10
325 69 0.10
326 36 0.05
327 3 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (318 bp):
ATAAAAAGTCCTAAAAAGATATAAACGGTAACTTTTCATACATATCAACAGTAAAAACTAAGTTC
AATCATTCAAACAAGTTTAATATAATGTATTGAAGCTATCAAAATTTTAAAACATAAAAATAACA
GCAAATTTACATTTTTGCCCTTTAACGACACAAAAAGTGCTAAAAAGACATAAATGATAACTTTT
TCACATATCAGTTGTGAAAACCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTTAAGCT
ATCTAAACTATTAAAACATAAATAATAAACACAATTTGCATTTTGACCTTTTAATGGC
Found at i:6200843 original size:161 final size:160
Alignment explanation
Indices: 6199674--6200899 Score: 887
Period size: 161 Copynumber: 7.6 Consensus size: 160
6199664 ATGTAATAAG
* * * * ** * * * * ** *
6199674 AGCTATCTAAACTGTTAAAATAGAACAATAACTGTAAATTTATATTTTTGTCTTTTAACGTTATA
1 AGCTATCTAAACTTTTAAAACATAAAAATAACTACAAATTTACATTTTTGCCCTTTAATGGCACA
* *
6199739 AAAAGTCCTAAATAA-ACATAAATCG-TAACTTATTCATACATATCAA-ATTGTGAAAACCAAAT
66 AAAAGTCCTAAA-AAGACATAAA-CGATAACTT-TTCATACATATCAACA--GTGAAAACTAAGT
* *
6199801 TCAATCATTCGGACAAGTTTATTATCATGTATTGA
126 TCAATCATTCAGACAAGTTTAATATCATGTATTGA
* * * * * * * **
6199836 AGCTATTTAAACTTTTAAAACATAAATATAACTGCAAAATTATATTTTTTGCCCTTTAACGACGT
1 AGCTATCTAAACTTTTAAAACATAAAAATAACTACAAATTTACA-TTTTTGCCCTTTAATGGCAC
* * * * *
6199901 AACAAAGTCCTAAAAAGACATAAATGATAACATTGTCATACATATCAGCTGTGAAAACCAAGTTC
65 AA-AAAGTCCTAAAAAGACATAAACGATAAC-TTTTCATACATATCAACAGTGAAAACTAAGTTC
** *
6199966 AATCATTTGGACAAGTTTAATATTATGTATTGA
128 AATCATTCAGACAAGTTTAATATCATGTATTGA
* * * *
6199999 AGCTATCTAAA-TTGTCAAAACATAATAATAAAC-ACAAATTTGCA-TTTTGACCTTTTAATGGC
1 AGCTATCTAAACTT-TTAAAACATAAAAAT-AACTACAAATTTACATTTTTG-CCCTTTAATGGC
* ** * * * * * *
6200061 ATAAAAAAGTATTAAACAGATATAAACGGTAACCTTTTCATACATATCATTC--TTAAAAATAAA
63 A-CAAAAAGTCCTAAAAAGACATAAACGATAA-CTTTTCATACATATCA-ACAGTGAAAACT-AA
* * *
6200124 GTTCAATCATTC-GAAAAAGTTTAATATAATGTATTTA
124 GTTCAATCATTCAG-ACAAGTTTAATATCATGTATTGA
* ** * * * * * *
6200161 AGCTATTTAAA-TTGTTAAAATGTAAAAATAATTACAAAATGATATTTTTACCCTTTAACGGCAT
1 AGCTATCTAAACTT-TTAAAACATAAAAATAACTACAAATTTACATTTTTGCCCTTTAATGGCA-
* * * ** *
6200225 CATAAAGTCTTAAAAAGACATAAATGATAACTTTTTCGCACATATCAATC-GTGAAAACCAAG-T
64 CAAAAAGTCCTAAAAAGACATAAACGATAAC-TTTTCATACATATCAA-CAGTGAAAACTAAGTT
* * *
6200288 CAATTATTCAAATAAGTTTAATATCATGTATTG-
127 CAATCATTCAGACAAGTTTAATATCATGTATTGA
* * * * * *
6200321 AGACTATCTAAACTATT--AACATAGAATAATAAAC-ACAATTTTGCATTTTGGCCTTTTAATAG
1 AG-CTATCTAAACTTTTAAAACATA-AA-AAT-AACTACAAATTTACATTTTTGCCCTTTAATGG
* * * * * * *
6200383 CATAAAAAATCCTAAATAGACTTAAAAGATAACTTTTTCACACATATCAATCA-TGCAAACTAAG
62 CACAAAAAGTCCTAAAAAGACATAAACGATAAC-TTTTCATACATATCAA-CAGTGAAAACTAAG
* * *
6200447 TTAAATCATTCAAACAAGTTTAATATCATTTATTGA
125 TTCAATCATTCAGACAAGTTTAATATCATGTATTGA
* * * * * * *
6200483 AGCTATC-AAAATTGTTAAAACATAATAATAA-AAGCAAATTTGCATTTTGGCCTTTTAACGGCA
1 AGCTATCTAAACTT-TTAAAACATAAAAATAACTA-CAAATTTACATTTTTGCCCTTTAATGGCA
* * *** *
6200546 CAAAAAGTGCTAAACAA-ACATAAACAATAACTTTT--TCACATATCAGTTGTGAAAAATAAGTT
64 CAAAAAGTCCTAAA-AAGACATAAACGATAACTTTTCAT-ACATATCAACAGTGAAAACTAAGTT
* * *
6200608 CAATCATTCAAACAAGTTTAGTATCATGTATTTA
127 CAATCATTCAGACAAGTTTAATATCATGTATTGA
* * * * * * *
6200642 AGTTATCTAAACTATTAAAACATAAATATAGCTACATATTTACATTTTTTCCCTTTAATGGCGCA
1 AGCTATCTAAACTTTTAAAACATAAAAATAACTACAAATTTACATTTTTGCCCTTTAATGGCACA
* * * * *
6200707 ACAAGGTCCTAAAAAGATATAAACGGTAACTTTTCATACATATTAACAGTAAAAACTAAGTTCAA
66 A-AAAGTCCTAAAAAGACATAAACGATAACTTTTCATACATATCAACAGTGAAAACTAAGTTCAA
** *
6200772 TCATTCAGGTAAGTTTAATATAATGTATTGA
130 TCATTCAGACAAGTTTAATATCATGTATTGA
* * * * *
6200803 AGCTATCTAAACTTTTAAAACAAAAAAATAACTGCATATTTACAATTTTGCCCTTTAATGACACA
1 AGCTATCTAAACTTTTAAAACATAAAAATAACTACAAATTTACATTTTTGCCCTTTAATGGCACA
* * * *
6200868 AAAAGTGC-AAAACAGATATAAAAGACAACTTT
66 AAAAGTCCTAAAA-AGACATAAACGATAACTTT
6200900 CTTATTTGAT
Statistics
Matches: 843, Mismatches: 178, Indels: 88
0.76 0.16 0.08
Matches are distributed among these distances:
159 104 0.12
160 116 0.14
161 266 0.32
162 206 0.24
163 112 0.13
164 37 0.04
165 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (160 bp):
AGCTATCTAAACTTTTAAAACATAAAAATAACTACAAATTTACATTTTTGCCCTTTAATGGCACA
AAAAGTCCTAAAAAGACATAAACGATAACTTTTCATACATATCAACAGTGAAAACTAAGTTCAAT
CATTCAGACAAGTTTAATATCATGTATTGA
Found at i:6200892 original size:481 final size:481
Alignment explanation
Indices: 6199740--6200899 Score: 1179
Period size: 481 Copynumber: 2.4 Consensus size: 481
6199730 AACGTTATAA
*
6199740 AAAGTCCTAAATAA-ACATAAATC-GTAACTTATTCATACATATCAA-ATTGTGAAAACCAAATT
1 AAAGTCCTAAA-AAGACATAAA-CGGTAACTT-TTCATACATATCAACA--GTGAAAACCAAGTT
* * * * *
6199802 CAATCATTC-GGACAAGTTTATTATCATGTATTGAAGCTATTTAAACTTTTAAAACATAAATATA
61 CAATCATTCAGG-TAAGTTTAATATCATGTATTGAAGCTATCTAAACTTTTAAAACAAAAAAATA
* * * * * * *
6199866 ACTGCAAAATTATATTTTTTGCCCTTTAACGACGTAACAAAGTCCTAAAAAGACATAAATGATAA
125 ACTGC-AATTTACA-ATTTTGCCCTTTAATGACATAA-AAAGTCC-AAAAAGATATAAAAGATAA
* * * * *** *
6199931 CATTGTCATACATATCAGCTGTGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATTATGTAT
186 CTTTGTCACACATATCAGCTATGAAAACCAAGTTAAATCATTCAAACAAGTTTAATATCATGTAT
* *
6199996 TGAAGCTATCTAAATTGTCAAAACATAATAATAAACACAAATTTGCATTTTGACCTTTTAATGGC
251 TGAAGCTATCAAAATTGTCAAAACATAATAATAAACACAAATTTGCATTTTGACCTTTTAACGGC
* * * ** *
6200061 ATAAAAAAGTATTAAACAGATATAAACGGTAACCTTTTCATACATATCATTCTTAAAAATAAAGT
316 ATAAAAAAGTACTAAACAAACATAAACAATAACCTTTTCA-ACATATCATTCTGAAAAATAAAGT
* * * **
6200126 TCAATCATTCGAAAAAGTTTAATATAATGTATTTAAGCTATTTAAATTGTTAAAATGTAAAAATA
380 TCAATCATTCGAAAAAGTTTAATATAATGTATTTAAGCTATCTAAACTATTAAAACATAAAAATA
* * *
6200191 ATTACAAAATGATATTTTTACCCTTTAACGGCATCAT
445 ACTACAAAATGACATTTTTACCCTTTAACGGCAGCAT
* * * **
6200228 AAAGTCTTAAAAAGACATAAATGATAACTTTTTCGCACATATCAATC-GTGAAAACCAAG-TCAA
1 AAAGTCCTAAAAAGACATAAACGGTAAC-TTTTCATACATATCAA-CAGTGAAAACCAAGTTCAA
* ** * * * * *
6200291 TTATTCAAATAAGTTTAATATCATGTATTG-AGACTATCTAAACTATTAACATAGAATAATAAAC
64 TCATTCAGGTAAGTTTAATATCATGTATTGAAG-CTATCTAAACTTTTAAAACAAAAAAAT-AAC
* * * * *
6200355 -ACAATTTTGC-ATTTTGGCCTTTTAAT-AGCATAAAAAATCCTAAATAGACT-TAAAAGATAAC
127 TGCAA-TTTACAATTTT-GCCCTTTAATGA-CATAAAAAGTCC-AAAAAGA-TATAAAAGATAAC
* * * * *
6200416 TTTTTCACACATATCA-ATCATGCAAACTAAGTTAAATCATTCAAACAAGTTTAATATCATTTAT
187 TTTGTCACACATATCAGCT-ATGAAAACCAAGTTAAATCATTCAAACAAGTTTAATATCATGTAT
* *
6200480 TGAAGCTATCAAAATTGTTAAAACATAATAATAAA-AGCAAATTTGCATTTTGGCCTTTTAACGG
251 TGAAGCTATCAAAATTGTCAAAACATAATAATAAACA-CAAATTTGCATTTTGACCTTTTAACGG
* * * *
6200544 CA-CAAAAAGTGCTAAACAAACATAAACAATAACTTTTTC-ACATATCAGTTGTGAAAAAT-AAG
315 CATAAAAAAGTACTAAACAAACATAAACAATAACCTTTTCAACATATCA-TTCTGAAAAATAAAG
* * * *
6200606 TTCAATCATTC-AAACAAGTTTAGTATCATGTATTTAAGTTATCTAAACTATTAAAACATAAATA
379 TTCAATCATTCGAAA-AAGTTTAATATAATGTATTTAAGCTATCTAAACTATTAAAACATAAAAA
* * * * * *
6200670 TAGCTACATATTTACATTTTTTCCCTTTAATGGC-GCA-
443 TAACTACAAAATGACATTTTTACCCTTTAACGGCAGCAT
* * * *
6200707 ACAAGGTCCTAAAAAGATATAAACGGTAACTTTTCATACATATTAACAGTAAAAACTAAGTTCAA
1 A-AA-GTCCTAAAAAGACATAAACGGTAACTTTTCATACATATCAACAGTGAAAACCAAGTTCAA
*
6200772 TCATTCAGGTAAGTTTAATATAATGTATTGAAGCTATCTAAACTTTTAAAACAAAAAAATAACTG
64 TCATTCAGGTAAGTTTAATATCATGTATTGAAGCTATCTAAACTTTTAAAACAAAAAAATAACTG
* * *
6200837 CATATTTACAATTTTGCCCTTTAATGACACAAAAAGTGCAAAACAGATATAAAAGACAACTTT
129 CA-ATTTACAATTTTGCCCTTTAATGACATAAAAAGTCCAAAA-AGATATAAAAGATAACTTT
6200900 CTTATTTGAT
Statistics
Matches: 544, Mismatches: 101, Indels: 61
0.77 0.14 0.09
Matches are distributed among these distances:
479 2 0.00
480 37 0.07
481 201 0.37
482 18 0.03
483 31 0.06
484 137 0.25
485 16 0.03
486 51 0.09
487 16 0.03
488 33 0.06
489 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (481 bp):
AAAGTCCTAAAAAGACATAAACGGTAACTTTTCATACATATCAACAGTGAAAACCAAGTTCAATC
ATTCAGGTAAGTTTAATATCATGTATTGAAGCTATCTAAACTTTTAAAACAAAAAAATAACTGCA
ATTTACAATTTTGCCCTTTAATGACATAAAAAGTCCAAAAAGATATAAAAGATAACTTTGTCACA
CATATCAGCTATGAAAACCAAGTTAAATCATTCAAACAAGTTTAATATCATGTATTGAAGCTATC
AAAATTGTCAAAACATAATAATAAACACAAATTTGCATTTTGACCTTTTAACGGCATAAAAAAGT
ACTAAACAAACATAAACAATAACCTTTTCAACATATCATTCTGAAAAATAAAGTTCAATCATTCG
AAAAAGTTTAATATAATGTATTTAAGCTATCTAAACTATTAAAACATAAAAATAACTACAAAATG
ACATTTTTACCCTTTAACGGCAGCAT
Found at i:6202060 original size:13 final size:13
Alignment explanation
Indices: 6202025--6202073 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
6202015 CATACATTGT
**
6202025 ATATATAACCAAC
1 ATATATAAAGAAC
6202038 TATATATAAAGAAC
1 -ATATATAAAGAAC
*
6202052 ATATCTAAAGAAC
1 ATATATAAAGAAC
6202065 ATATATAAA
1 ATATATAAA
6202074 CATTAAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:6205339 original size:29 final size:28
Alignment explanation
Indices: 6205307--6205364 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
6205297 ATAAGAAACA
*
6205307 TTTTTAAA-GAAAATTTGAAAATATCATTT
1 TTTTTAAACGAAAATTTCAAAA-AT-ATTT
6205336 TTTTTAAACGAAAATTTCAAAAATATTT
1 TTTTTAAACGAAAATTTCAAAAATATTT
6205364 T
1 T
6205365 AAGGCAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 10 0.37
30 12 0.44
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (28 bp):
TTTTTAAACGAAAATTTCAAAAATATTT
Found at i:6205790 original size:27 final size:27
Alignment explanation
Indices: 6205760--6205849 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
6205750 AAAAATATAT
6205760 TTTTTGAGAAAAAGTTAAAAGTATCAA
1 TTTTTGAGAAAAAGTTAAAAGTATCAA
* *
6205787 TTTTCTTTGAAGATAAAGTTTCAAAAG-AT-AT
1 --TT-TTTG-AGAAAAAG-TT-AAAAGTATCAA
* *
6205818 TTTTTAAGGAAAAGTTAAAAGTATCAA
1 TTTTTGAGAAAAAGTTAAAAGTATCAA
6205845 TTTTT
1 TTTTT
6205850 CTTGAAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
25 5 0.10
26 4 0.08
27 12 0.24
28 3 0.06
29 4 0.08
30 4 0.08
31 8 0.16
32 4 0.08
33 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (27 bp):
TTTTTGAGAAAAAGTTAAAAGTATCAA
Found at i:6205835 original size:58 final size:57
Alignment explanation
Indices: 6205307--6205914 Score: 455
Period size: 59 Copynumber: 10.7 Consensus size: 57
6205297 ATAAGAAACA
* * * **
6205307 TTTTTAAAGAAAATTTGAAAA-TATC-ATTTT-TTTTAAACGAAAATTTCAAAAATA-
1 TTTTTAAGGAAAAGTT-AAAAGTATCAATTTTCTTTGAAAATAAAATTTCAAAAATAT
* * * * * * *
6205361 -TTTTAAGGCAAAGTTGAAAGTATCAATTCTCCTTGAAATAAAAAATTTTTAAAAAAAT
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAA-ATAAAA-TTTCAAAAATAT
* * * * * * *
6205419 ATTTTAAGAAAAAGTTGAGAGTATTAATTTTCCTTGAAAACCAAAATTTC--AAA-A-
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAA-TAAAATTTCAAAAATAT
* * * *
6205473 -GTTTAAAGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATTAAAATTTTAAAAATAT
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCT-TTGAAAA-TAAAATTTCAAAAATAT
* * * *
6205530 TTTTTAA--AAAAATTAAAAGTATCAATTTTCCTTGAAAACAACAATTT-AAAAAAAT
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAA-AATTTCAAAAATAT
* * * *
6205585 ATTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTTATAACA-AAAATTTCAAAAATA-
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGA-AA-ATAAAATTTCAAAAATAT
* *
6205642 -TTTTAAGGAAAAGTTAAAAGTATTAATTTTCTTTGAAAATAAAAATTTAAAAAAT-T
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAAT-AAAATTTCAAAAATAT
* * * * * * * * **
6205698 TTTGTTGGAGAAAAAGTTGAGAGTATTAGTTTTCCTTAAAAATGAAAATTAAAAAAATATAT
1 TTT-TT-AAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAAT-AAAATT-TCAAAA-ATAT
* * * *
6205760 TTTTTGAGAAAAAGTTAAAAGTATCAATTTTCTTTGAAGATAAAGTTTCAAAAGATAT
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAAATTTCAAAA-ATAT
6205818 TTTTTAAGGAAAAGTTAAAAGTATCAATTTT-TCTTGAAAATAAAATTTTCAAAAAATAT
1 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCT-TTGAAAATAAAA-TTTC-AAAAATAT
* *
6205877 TTTTTGAGAAAAAGTTGAAAA-TATCAATTTTCTTTGAA
1 TTTTTAAGGAAAAGTT-AAAAGTATCAATTTTCTTTGAA
6205915 TAAAGGCATC
Statistics
Matches: 448, Mismatches: 71, Indels: 65
0.77 0.12 0.11
Matches are distributed among these distances:
52 3 0.01
53 55 0.12
54 5 0.01
55 26 0.06
56 85 0.19
57 40 0.09
58 68 0.15
59 115 0.26
60 43 0.10
61 4 0.01
62 4 0.01
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (57 bp):
TTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTTGAAAATAAAATTTCAAAAATAT
Found at i:6209821 original size:84 final size:84
Alignment explanation
Indices: 6209733--6209888 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 84
6209723 CCTTTGGGTG
* * * * * * * *
6209733 TAATCTTTAAGTGC-TTCAGGCAAGATTCGTAGGT-TTTCTGAGCTAAATTTGTTTTATAATTGA
1 TAATCTCTAAGT-CTTTCAGGCAAGATTCATAAGTCTTAC-GAGCTAAATCTATTTTAGAATCGA
6209796 GATTTGTAAGATTTTCAGACA
64 GATTTGTAAGATTTTCAGACA
* *
6209817 TAATCTCTAAGTCTTTCGGGCAAGATTCATAAGTCTTACGAGCTAAATCTATTTTAGAGTCGAGA
1 TAATCTCTAAGTCTTTCAGGCAAGATTCATAAGTCTTACGAGCTAAATCTATTTTAGAATCGAGA
6209882 TTTGTAA
66 TTTGTAA
6209889 AACCTCCAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 1 0.02
84 56 0.93
85 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (84 bp):
TAATCTCTAAGTCTTTCAGGCAAGATTCATAAGTCTTACGAGCTAAATCTATTTTAGAATCGAGA
TTTGTAAGATTTTCAGACA
Found at i:6213864 original size:57 final size:58
Alignment explanation
Indices: 6213680--6213896 Score: 348
Period size: 59 Copynumber: 3.7 Consensus size: 58
6213670 TTTTTTGTAG
*
6213680 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA-TTTAATTTCT-AA
* *
6213739 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTAATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTAATTTCTAA
*
6213798 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-ATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTAATTTCTAA
*
6213855 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
6213897 TTGGAACTTT
Statistics
Matches: 148, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
57 47 0.32
58 13 0.09
59 76 0.51
60 12 0.08
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTAATTTCTAA
Found at i:6213895 original size:116 final size:118
Alignment explanation
Indices: 6213680--6213897 Score: 397
Period size: 116 Copynumber: 1.9 Consensus size: 118
6213670 TTTTTTGTAG
*
6213680 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAAGGAAAA
6213745 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTAATTTCTGA
66 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTAATTTCTGA
6213798 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT-A-TTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTC-AAGGAAA
6213860 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
65 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
6213898 TGGAACTTTT
Statistics
Matches: 98, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
115 4 0.04
116 46 0.47
117 3 0.03
118 45 0.46
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTAATTTCTGA
Found at i:6214019 original size:8 final size:8
Alignment explanation
Indices: 6213976--6214042 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
6213966 CTAATCTAAT
6213976 AAAT-AAA
1 AAATAAAA
6213983 AAATAAAA
1 AAATAAAA
* *
6213991 TAAACAAAT
1 -AAATAAAA
* *
6214000 AAACAAAG
1 AAATAAAA
6214008 AAATAAAA
1 AAATAAAA
6214016 AAATTCAAAA
1 AAA-T-AAAA
6214026 AAA-AAAA
1 AAATAAAA
6214033 AAA-AAAA
1 AAATAAAA
6214040 AAA
1 AAA
6214043 CTGGAGCGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
7 18 0.35
8 19 0.37
9 7 0.14
10 7 0.14
ACGTcount: A:0.84, C:0.04, G:0.01, T:0.10
Consensus pattern (8 bp):
AAATAAAA
Found at i:6214984 original size:15 final size:17
Alignment explanation
Indices: 6214947--6214986 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6214937 ATTAGATAAG
6214947 TAAAAATACAAAAATGA
1 TAAAAATACAAAAATGA
6214964 -ATAAAATA-AAAAA-GA
1 TA-AAAATACAAAAATGA
6214979 TAAAAATA
1 TAAAAATA
6214987 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
TAAAAATACAAAAATGA
Found at i:6215185 original size:20 final size:20
Alignment explanation
Indices: 6215160--6215216 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
6215150 CTTACCCATT
6215160 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
*
6215180 TGGGCCAGGCCAAATTGATC
1 TGGGCCAGGCCCAATTGATC
6215200 TGGGCC-GGACCCAATTG
1 TGGGCCAGG-CCCAATTG
6215217 GGTGTCTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.21, C:0.28, G:0.32, T:0.19
Consensus pattern (20 bp):
TGGGCCAGGCCCAATTGATC
Found at i:6215317 original size:1 final size:1
Alignment explanation
Indices: 6215313--6215379 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
6215303 CATTTTTTGG
* * * * * * *
6215313 TTTTTTTGTTTTTTTGTTTTTGTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6215378 TT
1 TT
6215380 ACCAAAGCTC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:6215318 original size:8 final size:8
Alignment explanation
Indices: 6215305--6215379 Score: 77
Period size: 8 Copynumber: 9.5 Consensus size: 8
6215295 CAACTCAACA
*
6215305 TTTTTTGG
1 TTTTTTTG
6215313 TTTTTTTG
1 TTTTTTTG
6215321 TTTTTTTG
1 TTTTTTTG
6215329 --TTTTTG
1 TTTTTTTG
6215335 TTTTTGTT-
1 TTTTT-TTG
*
6215343 TTTTTGTTT
1 TTTTT-TTG
6215352 TTTTTTTG
1 TTTTTTTG
6215360 TTTTTTTTG
1 -TTTTTTTG
6215369 TTTTTTT-
1 TTTTTTTG
6215376 TTTT
1 TTTT
6215380 ACCAAAGCTC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.10
7 4 0.07
8 35 0.58
9 15 0.25
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:6215340 original size:20 final size:19
Alignment explanation
Indices: 6215313--6215378 Score: 114
Period size: 20 Copynumber: 3.4 Consensus size: 19
6215303 CATTTTTTGG
6215313 TTTTTTTGTTTTTTTGTTT
1 TTTTTTTGTTTTTTTGTTT
6215332 TTGTTTTTGTTTTTTTGTTT
1 TT-TTTTTGTTTTTTTGTTT
6215352 TTTTTTTGTTTTTTTTGTTT
1 TTTTTTTG-TTTTTTTGTTT
6215372 TTTTTTT
1 TTTTTTT
6215379 TACCAAAGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.18
20 37 0.82
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTGTTT
Found at i:6215343 original size:28 final size:28
Alignment explanation
Indices: 6215306--6215379 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
6215296 AACTCAACAT
6215306 TTTTTGGTTTTTTTGTTTTTTTGTTT-TTG
1 TTTTT-GTTTTTTTGTTTTTTT-TTTGTTG
*
6215335 TTTTTGTTTTTTTGTTTTTTTTTTGTTT
1 TTTTTGTTTTTTTGTTTTTTTTTTGTTG
6215363 TTTTTGTTTTTTT-TTTT
1 TTTTTGTTTTTTTGTTTT
6215380 ACCAAAGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 7 0.16
28 31 0.72
29 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (28 bp):
TTTTTGTTTTTTTGTTTTTTTTTTGTTG
Found at i:6215373 original size:6 final size:6
Alignment explanation
Indices: 6215306--6215364 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
6215296 AACTCAACAT
*
6215306 TTTTTGG TTTTT- TTGTT- TTTTTG TTTTTG TTTTTG TTTTTTTG TTTTT-
1 TTTTT-G TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG --TTTTTG TTTTTG
6215354 TTTTTG TTTTT
1 TTTTTG TTTTT
6215365 TTTGTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
5 13 0.28
6 22 0.48
7 5 0.11
8 6 0.13
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:6215549 original size:40 final size:40
Alignment explanation
Indices: 6215386--6215912 Score: 719
Period size: 40 Copynumber: 13.0 Consensus size: 40
6215376 TTTTACCAAA
* *
6215386 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGA-G-ACAACGAAC-TTTGAAAAGTAAATT
*
6215428 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGA-G-ACAACGAACTTT-GAAAAGTAAATT
*
6215470 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGA-G-ACAACGAACTTTGAAAAGTAAATT
6215511 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
* *
6215551 GCTCCTCTAAACAGAGGCAACAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
*
6215591 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGA-G-ACAACGAACTTTGAAAAGTAAATT
*
6215632 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
*
6215672 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
* *
6215712 TCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGA-G-ACAACGAACTTT-GAAAAGTAAATT
*
6215754 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
*
6215794 GCTCCTCTAAACAGAGGCAACGAAC-TTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
*
6215833 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGA-G-ACAACGAACTTT-GAAAAGTAAATT
*
6215875 GCTCCTCTAAACAGAGGCAACGAAC-TTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAAT
6215913 ACTCCTAGAC
Statistics
Matches: 450, Mismatches: 21, Indels: 31
0.90 0.04 0.06
Matches are distributed among these distances:
39 49 0.11
40 193 0.43
41 84 0.19
42 124 0.28
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATT
Found at i:6215567 original size:81 final size:81
Alignment explanation
Indices: 6215386--6215912 Score: 772
Period size: 81 Copynumber: 6.5 Consensus size: 81
6215376 TTTTACCAAA
* *
6215386 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACAAC
6215451 GACTTTGGAAAAGTAAATT
64 GACTTT-GAAAAGTAAATT
6215470 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGA-G-ACAACG
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACAACG
6215533 AACTTTGAAAAGTAAATT
65 -ACTTTGAAAAGTAAATT
* * *
6215551 GCTCCTCTAAACAGAGGCA-ACAAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACAC-GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACAACG
6215615 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
6215632 GCTCCTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACG
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACAACG
6215694 AACTTTGAAAAGTAAATT
65 -ACTTTGAAAAGTAAATT
* *
6215712 TCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
1 GCTCCTCTAAACAGAGGCA-CACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACAAC
6215775 GAACTTTGAAAAGTAAATT
64 G-ACTTTGAAAAGTAAATT
*
6215794 GCTCCTCTAAACAGAGGCA-ACGAAC-TTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACAACG
6215857 ACTTTGGAAAAGTAAATT
65 ACTTT-GAAAAGTAAATT
6215875 GCTCCTCTAAACAGAGGCA-ACGAAC-TTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAAT
6215913 ACTCCTAGAC
Statistics
Matches: 419, Mismatches: 11, Indels: 29
0.91 0.02 0.06
Matches are distributed among these distances:
79 35 0.08
80 76 0.18
81 170 0.41
82 83 0.20
83 29 0.07
84 26 0.06
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACAACGA
CTTTGAAAAGTAAATT
Found at i:6215605 original size:121 final size:122
Alignment explanation
Indices: 6215386--6215912 Score: 884
Period size: 121 Copynumber: 4.3 Consensus size: 122
6215376 TTTTACCAAA
* * *
6215386 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACA
*
6215450 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
63 -AACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
6215511 GCTCCTCTAAACAGAGACAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAAC
6215576 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
66 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
6215632 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAAC
* *
6215697 TTTGAAAAGTAAATTTCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
66 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
6215754 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAAC
*
6215819 -TTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
66 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
6215875 GCTCCTCTAAACAGAGGCAACGAAC-TTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
6215913 ACTCCTAGAC
Statistics
Matches: 390, Mismatches: 10, Indels: 9
0.95 0.02 0.02
Matches are distributed among these distances:
120 13 0.03
121 238 0.61
122 82 0.21
123 37 0.09
124 2 0.01
125 18 0.05
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (122 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAAC
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:6217134 original size:21 final size:20
Alignment explanation
Indices: 6217110--6217148 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6217100 TTTTCTTATT
6217110 TTTTTCCTTCTTTTTTTCTCA
1 TTTTTCCTT-TTTTTTTCTCA
*
6217131 TTTTTTCTTTTTTTTTCT
1 TTTTTCCTTTTTTTTTCT
6217149 TTTTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCCTTTTTTTTTCTCA
Found at i:6217154 original size:18 final size:18
Alignment explanation
Indices: 6217117--6217153 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6217107 ATTTTTTTCC
6217117 TTCTTTTTTTCTCATTTT
1 TTCTTTTTTTCTCATTTT
*
6217135 TTCTTTTTTTTTC-TTTT
1 TTCTTTTTTTCTCATTTT
6217152 TT
1 TT
6217154 TTTCATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TTCTTTTTTTCTCATTTT
Found at i:6217166 original size:31 final size:33
Alignment explanation
Indices: 6217091--6217166 Score: 108
Period size: 31 Copynumber: 2.4 Consensus size: 33
6217081 TTTGAATCTC
6217091 TTTTTCTCA--TTTTCTTATTTTTTTCCTTCTT
1 TTTTTCTCATTTTTTCTTATTTTTTTCCTTCTT
6217122 TTTTTCTCATTTTTTCTT-TTTTTTT-CTT-TT
1 TTTTTCTCATTTTTTCTTATTTTTTTCCTTCTT
6217152 TTTTTCATCATTTTT
1 TTTTTC-TCATTTTT
6217167 CCATCCATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 8 0.19
31 20 0.48
32 7 0.17
33 7 0.17
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (33 bp):
TTTTTCTCATTTTTTCTTATTTTTTTCCTTCTT
Found at i:6221168 original size:57 final size:58
Alignment explanation
Indices: 6220982--6221315 Score: 521
Period size: 57 Copynumber: 5.7 Consensus size: 58
6220972 TTTTTTGTAG
6220982 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTCT-AA
* * *
6221042 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAA
*
6221101 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
* * * *
6221158 GGAAATTTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAA
6221217 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
*
6221274 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
6221316 TTGGAATTTT
Statistics
Matches: 252, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
57 106 0.42
58 6 0.02
59 91 0.36
60 35 0.14
61 14 0.06
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:6221196 original size:116 final size:116
Alignment explanation
Indices: 6220982--6221324 Score: 616
Period size: 116 Copynumber: 2.9 Consensus size: 116
6220972 TTTTTTGTAG
6220982 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTT--ATTTCT-AAGGAA
6221046 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
62 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
* *
6221101 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
6221166 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
6221217 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
*
6221282 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTT
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT
6221325 TTTATTTTTA
Statistics
Matches: 218, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
116 169 0.78
117 1 0.00
118 14 0.06
119 34 0.16
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
Found at i:6221982 original size:26 final size:24
Alignment explanation
Indices: 6221943--6221996 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
6221933 AATCTGGAAA
*
6221943 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
6221968 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
6221993 TTTC
1 TTTC
6221997 TCACTCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:6222419 original size:18 final size:19
Alignment explanation
Indices: 6222398--6222439 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6222388 AAGATAAAAA
* *
6222398 AAATATAT-ATATATACAT
1 AAATATATAAAATACACAT
6222416 AAATA-ATAAAATACACAT
1 AAATATATAAAATACACAT
6222434 AAATAT
1 AAATAT
6222440 TAACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATATAAAATACACAT
Found at i:6222497 original size:3 final size:3
Alignment explanation
Indices: 6222483--6222516 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
6222473 ATACATATAT
6222483 TAA TACA TAA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TA
6222517 CAATACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6222616 original size:20 final size:20
Alignment explanation
Indices: 6222591--6222647 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
6222581 CTTACCCATT
6222591 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
6222611 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
6222631 TGGGCC-GGACCCAATTG
1 TGGGCCAGG-CCCAATTG
6222648 GGTGTCTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (20 bp):
TGGGCCAGGCCCAATTGATC
Found at i:6223620 original size:17 final size:17
Alignment explanation
Indices: 6223586--6223635 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
6223576 ACTATTATTT
* *
6223586 TTTTTTGTTATTAG-TA
1 TTTTTTATTATTTGTTA
6223602 TTTTTTATTATTTGTTA
1 TTTTTTATTATTTGTTA
6223619 TTATTTTATTA-TTGTTA
1 TT-TTTTATTATTTGTTA
6223636 CAAGTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 12 0.40
17 10 0.33
18 8 0.27
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (17 bp):
TTTTTTATTATTTGTTA
Found at i:6223622 original size:3 final size:3
Alignment explanation
Indices: 6223572--6223723 Score: 64
Period size: 3 Copynumber: 55.0 Consensus size: 3
6223562 CGACTTTTAC
* * * *
6223572 TAT TAC TAT TAT T-T T-T TTT TGT TAT TAG TAT T-T T-T TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * *
6223614 TGT TAT TAT T-T TAT TAT TGT TAC AAG TAT TA- TAT TAC TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6223658 TAT TAT AAT ATAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6223698 TAT TGT GAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
6223724 AGTATAGTAT
Statistics
Matches: 112, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
2 30 0.27
3 78 0.70
4 4 0.04
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6223659 original size:5 final size:5
Alignment explanation
Indices: 6223651--6223792 Score: 144
Period size: 5 Copynumber: 27.2 Consensus size: 5
6223641 ATTATATTAC
*
6223651 TATAT TATAT TATAA TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
6223701 TGTGAT TATA- T-TAT TATTAT TATAG TATAG TATAT TATAT TGTAA TATAT
1 TAT-AT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT
6223751 TATATT TATATT TATATT TATATT TATATT TATATT TATAT T
1 TATA-T TATA-T TATA-T TATA-T TATA-T TATA-T TATAT T
6223793 TTCTTTCATT
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 74 0.61
6 44 0.36
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:6223761 original size:6 final size:6
Alignment explanation
Indices: 6223731--6223793 Score: 92
Period size: 6 Copynumber: 10.2 Consensus size: 6
6223721 TATAGTATAG
6223731 TATA-T TATATT GTAATATAT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT -T-ATAT-T TATATT TATATT TATATT TATATT TATATT
6223781 TATATT TATATT T
1 TATATT TATATT T
6223794 TCTTTCATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
5 4 0.07
6 39 0.72
7 5 0.09
8 5 0.09
9 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:6224624 original size:6 final size:6
Alignment explanation
Indices: 6224613--6224705 Score: 61
Period size: 6 Copynumber: 15.7 Consensus size: 6
6224603 TAATCGTAGG
* *
6224613 TTTTTC TTTTTC TTTTTCA -TTTTA TTTTTA TTTTTA TTTTT- TGATTTTA
1 TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA T--TTTTA
* * * *
6224662 --TTTA TTTTATA TTTTAA GTTTTA TATTTA ATTTTA -TTTTA TTTT
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
6224706 ACTGACTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.06
5 7 0.10
6 49 0.70
7 10 0.14
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:6224640 original size:18 final size:17
Alignment explanation
Indices: 6224614--6224705 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 17
6224604 AATCGTAGGT
* *
6224614 TTTTCTTTTTCTTTTTCA
1 TTTTATTTTTATTTTT-A
6224632 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
*
6224649 --TT-TTTTGA-TTTTA
1 TTTTATTTTTATTTTTA
*
6224662 -TTTATTTTATATTTTAA
1 TTTTATTTT-TATTTTTA
* *
6224679 GTTTTATATTTAATTTTA
1 -TTTTATTTTTATTTTTA
6224697 TTTTATTTT
1 TTTTATTTT
6224706 ACTGACTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.08
14 7 0.12
15 6 0.10
16 1 0.02
17 13 0.22
18 20 0.34
19 7 0.12
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:6224653 original size:30 final size:28
Alignment explanation
Indices: 6224613--6224705 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 28
6224603 TAATCGTAGG
*
6224613 TTTTTCTTTTTCTTTTTCATTTTATTTTTA
1 TTTTTATTTTT-TTTTT-ATTTTATTTTTA
6224643 TTTTTATTTTTTGATTTTA-TTTATTTTATA
1 TTTTTATTTTTT--TTTTATTTTATTTT-TA
* * *
6224673 TTTTAAGTTTTATATTTAATTTTA-TTTTA
1 TTTTTA-TTTT-TTTTTTATTTTATTTTTA
6224702 TTTT
1 TTTT
6224706 ACTGACTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
29 15 0.28
30 25 0.47
31 12 0.23
32 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (28 bp):
TTTTTATTTTTTTTTTATTTTATTTTTA
Found at i:6224664 original size:5 final size:5
Alignment explanation
Indices: 6224626--6224706 Score: 51
Period size: 5 Copynumber: 15.0 Consensus size: 5
6224616 TTCTTTTTCT
*
6224626 TTTTCA TTTTA TTTTTA TTTT- TATTT- TTTGA TTTTA -TTTA TTTTATA
1 TTTT-A TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA -TTT-TA
6224673 TTTTAA GTTTTA TATTTAA TTTTA TTTTA TTTTA
1 TTTT-A -TTTTA T-TTT-A TTTTA TTTTA TTTTA
6224707 CTGACTTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 21
0.73 0.02 0.24
Matches are distributed among these distances:
4 7 0.11
5 26 0.41
6 22 0.35
7 8 0.13
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:6224674 original size:24 final size:24
Alignment explanation
Indices: 6224625--6224700 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
6224615 TTTCTTTTTC
6224625 TTTTTCATTTTATTTTTATTTTTAT
1 TTTTTCATTTTA-TTTTATTTTTAT
*
6224650 TTTTTGATTTTA-TTTA-TTTTAT
1 TTTTTCATTTTATTTTATTTTTAT
* * *
6224672 ATTTTAAGTTTTATATTTAATTTTAT
1 TTTTTCA-TTTTAT-TTTATTTTTAT
6224698 TTT
1 TTT
6224701 ATTTTACTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 11 0.26
23 9 0.21
25 15 0.35
26 8 0.19
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTTTCATTTTATTTTATTTTTAT
Found at i:6224675 original size:36 final size:38
Alignment explanation
Indices: 6224635--6224726 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 38
6224625 TTTTTCATTT
*
6224635 TATTTTTATTTTTATTTTTTGATTTTA-TTTATTTTA-
1 TATTTTTATTTTTATTTTTTAATTTTATTTTATTTTAC
* * *
6224671 TATTTTAAGTTTTA-TATTTAATTTTATTTTATTTTAC
1 TATTTTTATTTTTATTTTTTAATTTTATTTTATTTTAC
*
6224708 TGACTTTTATTATTTATTT
1 T-ATTTTTATT-TTTATTT
6224727 ATTTTTACTG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
35 10 0.23
36 21 0.49
37 1 0.02
38 6 0.14
39 4 0.09
40 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (38 bp):
TATTTTTATTTTTATTTTTTAATTTTATTTTATTTTAC
Found at i:6224726 original size:27 final size:30
Alignment explanation
Indices: 6224693--6224754 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
6224683 TATATTTAAT
*
6224693 TTTATTTTA-TTTTACTGA-C-TTTTATTA
1 TTTATTTTATTTTTACTGAGCAATTTATTA
6224720 TTTA-TTTATTTTTACTGAGCAATTTATTA
1 TTTATTTTATTTTTACTGAGCAATTTATTA
6224749 TTTATT
1 TTTATT
6224755 AAATAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.13
27 13 0.43
28 1 0.03
29 11 0.37
30 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTATTTTATTTTTACTGAGCAATTTATTA
Found at i:6224728 original size:31 final size:29
Alignment explanation
Indices: 6224633--6224731 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 29
6224623 TCTTTTTCAT
* *
6224633 TTTATTTT-TATTTTTA-TTTTTTGATTTTA
1 TTTATTTTATATTTTAACTTTTAT-A-TTTA
*
6224662 TTTATTTTATATTTTAAGTTTTATATTTAA
1 TTTATTTTATATTTTAACTTTTATATTT-A
*
6224692 TTTTATTTTAT-TTTACTGACTTTTATTATTTA
1 -TTTATTTTATATTT--TAACTTTTA-TATTTA
6224724 TTTATTTT
1 TTTATTTT
6224732 TACTGAGCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
29 11 0.19
30 12 0.20
31 23 0.39
32 8 0.14
33 5 0.08
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (29 bp):
TTTATTTTATATTTTAACTTTTATATTTA
Found at i:6224731 original size:36 final size:35
Alignment explanation
Indices: 6224646--6224733 Score: 85
Period size: 37 Copynumber: 2.5 Consensus size: 35
6224636 ATTTTTATTT
*
6224646 TTATTT-TTTGATTTTATTTATTTTATATTTTAAG
1 TTATTTATTTAATTTTATTTATTTTATATTTTAAG
6224680 TT-TTATATTTAATTTTATTTTATTTTACTGACTTTT-A-
1 TTATT-TATTTAATTTTA-TTTATTTTA-T-A-TTTTAAG
*
6224717 TTATTTATTTATTTTTA
1 TTATTTATTTAATTTTA
6224734 CTGAGCAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
33 2 0.04
34 3 0.07
35 9 0.20
36 9 0.20
37 14 0.31
38 4 0.09
39 4 0.09
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (35 bp):
TTATTTATTTAATTTTATTTATTTTATATTTTAAG
Found at i:6228090 original size:61 final size:62
Alignment explanation
Indices: 6228011--6228162 Score: 152
Period size: 61 Copynumber: 2.5 Consensus size: 62
6228001 CATTCTTGTC
**
6228011 ATTATGGTAGAATAGGCATTATTGTAA-TTGTGACAAATCATAG-TAGGAGGG-TATTTTAGTA
1 ATTATGGTAGAATAGGCATTATAATAATTTG-GACAAATCAT-GTTAGGAGGGTTATTTTAGTA
* * * * *
6228072 ATTATGGTTGGATGGGCATTATAATAATTTGGACAAATTATGTTAGGAGGGTTATTTCCA-TA
1 ATTATGGTAGAATAGGCATTATAATAATTTGGACAAATCATGTTAGGAGGGTTATTT-TAGTA
** *
6228134 ATTATAATAGAA-AAGCATTATAATAATTT
1 ATTATGGTAGAATAGGCATTATAATAATTT
6228163 TAGCTAATTA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
60 1 0.01
61 54 0.73
62 18 0.24
63 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (62 bp):
ATTATGGTAGAATAGGCATTATAATAATTTGGACAAATCATGTTAGGAGGGTTATTTTAGTA
Found at i:6228879 original size:18 final size:19
Alignment explanation
Indices: 6228856--6228894 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6228846 ATTTTTTAAT
6228856 AACATTTT-T-CATGAAAAA
1 AACATTTTATGCA-GAAAAA
6228874 AACATTTTATGCAGAAAAA
1 AACATTTTATGCAGAAAAA
6228893 AA
1 AA
6228895 AAAAACAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 9 0.47
20 2 0.11
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (19 bp):
AACATTTTATGCAGAAAAA
Found at i:6229354 original size:12 final size:13
Alignment explanation
Indices: 6229335--6229539 Score: 121
Period size: 12 Copynumber: 16.3 Consensus size: 13
6229325 AGGTTTGGGC
*
6229335 TAGGTTTAAGGTT
1 TAGGTTTAGGGTT
6229348 T-GGTTTAGGGTT
1 TAGGTTTAGGGTT
6229360 TAGGGTTT--GGTT
1 TA-GGTTTAGGGTT
6229372 TAGGTTTA-GGTT
1 TAGGTTTAGGGTT
6229384 TAGGGTTTAGGG-T
1 TA-GGTTTAGGGTT
*
6229397 TATGTTTAGGGTT
1 TAGGTTTAGGGTT
6229410 TA-GTTTAGGGTT
1 TAGGTTTAGGGTT
*
6229422 AAGG-TTAGGGTT
1 TAGGTTTAGGGTT
* * * *
6229434 TAAAGCTTAAGGCT
1 T-AGGTTTAGGGTT
* *
6229448 TAGCATTTA-GTTT
1 TAG-GTTTAGGGTT
*
6229461 TGGGTTTA-GG-T
1 TAGGTTTAGGGTT
6229472 TAGTGTTTA-GGTT
1 TAG-GTTTAGGGTT
* *
6229485 TGGGTTTAGGATT
1 TAGGTTTAGGGTT
*
6229498 TAGGATTTA-GG-C
1 TAGG-TTTAGGGTT
* *
6229510 TAGATTTAGGGTA
1 TAGGTTTAGGGTT
*
6229523 TAGATTTAGGGTT
1 TAGGTTTAGGGTT
6229536 TAGG
1 TAGG
6229540 ATATTTTAGG
Statistics
Matches: 151, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
11 12 0.08
12 72 0.48
13 46 0.30
14 21 0.14
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (13 bp):
TAGGTTTAGGGTT
Found at i:6229372 original size:31 final size:32
Alignment explanation
Indices: 6229321--6229436 Score: 127
Period size: 31 Copynumber: 3.8 Consensus size: 32
6229311 AAGGGTTTAA
* *
6229321 TTTAAGGTTT-GGGCTA-GGTTTAAGGTTTGG
1 TTTAGGGTTTAGGGTTATGGTTTAAGGTTTGG
6229351 TTTAGGGTTTAGGGTT-TGGTTT-AGGTTTAGG
1 TTTAGGGTTTAGGGTTATGGTTTAAGGTTT-GG
* *
6229382 TTTAGGGTTTAGGGTTAT-GTTTAGGGTTTAG
1 TTTAGGGTTTAGGGTTATGGTTTAAGGTTTGG
* *
6229413 TTTAGGG-TTAAGGTTAGGGTTTAA
1 TTTAGGGTTTAGGGTTATGGTTTAA
6229437 AGCTTAAGGC
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
30 23 0.32
31 44 0.60
32 6 0.08
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (32 bp):
TTTAGGGTTTAGGGTTATGGTTTAAGGTTTGG
Found at i:6229403 original size:19 final size:19
Alignment explanation
Indices: 6229337--6229435 Score: 82
Period size: 19 Copynumber: 5.3 Consensus size: 19
6229327 GTTTGGGCTA
* *
6229337 GGTTTAAGGTTTGGTTTAG
1 GGTTTAGGGTTAGGTTTAG
*
6229356 GGTTTAGGGTTTGGTTTA-
1 GGTTTAGGGTTAGGTTTAG
*
6229374 GGTTTAGGTTTAGGGTTTAG
1 GGTTTAGGGTTA-GGTTTAG
* *
6229394 GG-TTATGTTTAGGGTTTA-
1 GGTTTAGGGTTA-GGTTTAG
6229412 -GTTTAGGGTTAAGG-TTAG
1 GGTTTAGGGTT-AGGTTTAG
6229430 GGTTTA
1 GGTTTA
6229436 AAGCTTAAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.06
18 18 0.26
19 44 0.65
20 2 0.03
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.46
Consensus pattern (19 bp):
GGTTTAGGGTTAGGTTTAG
Found at i:6229410 original size:7 final size:7
Alignment explanation
Indices: 6229337--6229539 Score: 93
Period size: 7 Copynumber: 31.1 Consensus size: 7
6229327 GTTTGGGCTA
*
6229337 GGTTTAA
1 GGTTTAG
6229344 GGTTT--
1 GGTTTAG
6229349 GGTTTAG
1 GGTTTAG
6229356 GGTTTAG
1 GGTTTAG
6229363 GGTTT--
1 GGTTTAG
6229368 GGTTTA-
1 GGTTTAG
6229374 GGTTTA-
1 GGTTTAG
6229380 GGTTTAG
1 GGTTTAG
6229387 GGTTTAG
1 GGTTTAG
6229394 GG-TTA-
1 GGTTTAG
*
6229399 TGTTTAG
1 GGTTTAG
6229406 GGTTTA-
1 GGTTTAG
6229412 -GTTTAG
1 GGTTTAG
*
6229418 GG-TTAA
1 GGTTTAG
6229424 GG-TTAG
1 GGTTTAG
*
6229430 GGTTTAA
1 GGTTTAG
* * *
6229437 AGCTTAA
1 GGTTTAG
*
6229444 GGCTTAG
1 GGTTTAG
**
6229451 CATTTA-
1 GGTTTAG
*
6229457 -GTTTTG
1 GGTTTAG
6229463 GGTTTA-
1 GGTTTAG
6229469 GG-TTAG
1 GGTTTAG
*
6229475 TGTTTA-
1 GGTTTAG
6229481 GGTTT-G
1 GGTTTAG
6229487 GGTTTAG
1 GGTTTAG
*
6229494 GATTTAG
1 GGTTTAG
*
6229501 GATTTAG
1 GGTTTAG
6229508 GCTAGATTTAG
1 G---G-TTTAG
*
6229519 GGTATA-
1 GGTTTAG
*
6229525 GATTTAG
1 GGTTTAG
6229532 GGTTTAG
1 GGTTTAG
6229539 G
1 G
6229540 ATATTTTAGG
Statistics
Matches: 153, Mismatches: 23, Indels: 40
0.71 0.11 0.19
Matches are distributed among these distances:
5 22 0.14
6 44 0.29
7 80 0.52
8 1 0.01
11 6 0.04
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:6229501 original size:19 final size:18
Alignment explanation
Indices: 6229325--6229418 Score: 88
Period size: 19 Copynumber: 5.2 Consensus size: 18
6229315 GTTTAATTTA
*
6229325 AGGTTTGGG-CTAGGTTT
1 AGGTTTGGGTTTAGGTTT
6229342 AAGGTTT-GGTTTAGGGTTT
1 -AGGTTTGGGTTTA-GGTTT
6229361 AGGGTTT-GGTTTAGGTTT
1 A-GGTTTGGGTTTAGGTTT
*
6229379 AGGTTTAGGGTTTAGGGTT
1 AGGTTT-GGGTTTAGGTTT
*
6229398 ATGTTTAGGGTTTA-GTTT
1 AGGTTT-GGGTTTAGGTTT
6229416 AGG
1 AGG
6229419 GTTAAGGTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.11
18 20 0.30
19 39 0.59
ACGTcount: A:0.15, C:0.01, G:0.38, T:0.46
Consensus pattern (18 bp):
AGGTTTGGGTTTAGGTTT
Found at i:6229697 original size:20 final size:20
Alignment explanation
Indices: 6229669--6229708 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6229659 TTAACTTATT
6229669 TTTAAGGTTTT-GATTTAGGG
1 TTTAAGGTTTTAG-TTTAGGG
*
6229689 TTTAGGGTTTTAGTTTAGGG
1 TTTAAGGTTTTAGTTTAGGG
6229709 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (20 bp):
TTTAAGGTTTTAGTTTAGGG
Found at i:6233452 original size:26 final size:27
Alignment explanation
Indices: 6233423--6233487 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
6233413 AATTTAATTA
6233423 ATTAATT-TTTATTGTGATTATTTTTT
1 ATTAATTATTTATTGTGATTATTTTTT
* ** *
6233449 ATT-ATTGTTTATTGTTTTTCTTTTTT
1 ATTAATTATTTATTGTGATTATTTTTT
6233475 ATTATATTATTTA
1 ATTA-ATTATTTA
6233488 AAAAATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 3 0.09
26 22 0.69
28 7 0.22
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.71
Consensus pattern (27 bp):
ATTAATTATTTATTGTGATTATTTTTT
Found at i:6234049 original size:3 final size:3
Alignment explanation
Indices: 6234034--6234071 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6234024 TTATTTCTAA
*
6234034 AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
6234072 TAATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:6235302 original size:39 final size:39
Alignment explanation
Indices: 6235251--6235610 Score: 329
Period size: 40 Copynumber: 9.3 Consensus size: 39
6235241 AAAAGCTATG
* ** * *
6235251 AAACTTTAAATTCAAAAGGTTGTTCTGACCAGAGGTAAC
1 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
* * * * *
6235290 GAATTTTAAATTCAAAAGGCTCATCTAACCAAAGGCAATG
1 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAA-C
* * *
6235330 AAACTCTAAATTCAAAAGGCTCCTCTAACCAAAGACAAC
1 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
* *
6235369 AAACTTTAAATTTAAAGGGCTCCTCTAACCAGAGGCAAC
1 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
* * *
6235408 AAACTTTAAATGTTAAAAGGCTCCTCTCACCAGAGGTAAC
1 AAACTTTAAAT-TCAAAAGGCTCCTCTAACCAGAGGCAAC
** *
6235448 AAACTTTAAATTCAAAAGGCTTTTCTCACCA-AGGCAAC
1 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
* * *
6235486 GAACTTTAAA-T-----GGCTCATTTAACCAGAGGCAAC
1 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
* * *
6235519 AAACTTTAAATGTTAAAAAGCTCCTCTAACTAGAGGCAAC
1 AAACTTTAAAT-TCAAAAGGCTCCTCTAACCAGAGGCAAC
* * * * * * *
6235559 AAACTTTATATGTTAAAAGGCTCTTTTAACTAGAGGTAAT
1 AAACTTTAAAT-TCAAAAGGCTCCTCTAACCAGAGGCAAC
6235599 AAACTTTAAATT
1 AAACTTTAAATT
6235611 ACTTTTTTAA
Statistics
Matches: 267, Mismatches: 44, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
32 10 0.04
33 16 0.06
35 1 0.00
37 1 0.00
38 15 0.06
39 93 0.35
40 131 0.49
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
Found at i:6235377 original size:79 final size:79
Alignment explanation
Indices: 6235225--6235610 Score: 324
Period size: 79 Copynumber: 5.0 Consensus size: 79
6235215 AGAAAATTTG
** * * * ** *
6235225 AAAGGCTCCTCTAAATAAAAGCTATGAAACTTTAAATTCAAAAGGTTGTTCTGACCAGAGGTAAC
1 AAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGTAAC
* *
6235290 GAATTTTAAATTCA
66 AAACTTTAAATTCA
* * * **
6235304 AAAGGCTCATCTAACCAAAGGCAATGAAACTCTAAATTCAAAAGGCTCCTCTAACCAAAGACAAC
1 AAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGTAAC
*
6235369 AAACTTTAAATTTA
66 AAACTTTAAATTCA
* * * * *
6235383 AAGGGCTCCTCTAACCAGAGGCAA-CAAACTTTAAATGTTAAAAGGCTCCTCTCACCAGAGGTAA
1 AAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAAT-TCAAAAGGCTCCTCTAACCAGAGGTAA
6235447 CAAACTTTAAATTCA
65 CAAACTTTAAATTCA
** * * * * *
6235462 AAAGGCTTTTCTCACC-AAGGCAACG-AACTTTAAA-T-----GGCTCATTTAACCAGAGGCAAC
1 AAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGTAAC
*
6235519 AAACTTTAAATGTTA
66 AAACTTTAAAT-TCA
* * * * * * * * *
6235534 AAAAGCTCCTCTAACTAGAGGCAA-CAAACTTTATATGTTAAAAGGCTCTTTTAACTAGAGGTAA
1 AAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAAT-TCAAAAGGCTCCTCTAACCAGAGGTAA
*
6235598 TAAACTTTAAATT
65 CAAACTTTAAATT
6235611 ACTTTTTTAA
Statistics
Matches: 245, Mismatches: 50, Indels: 24
0.77 0.16 0.08
Matches are distributed among these distances:
71 29 0.12
72 13 0.05
73 14 0.06
75 1 0.00
76 1 0.00
78 25 0.10
79 133 0.54
80 29 0.12
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (79 bp):
AAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGTAAC
AAACTTTAAATTCA
Found at i:6235525 original size:111 final size:113
Alignment explanation
Indices: 6235278--6235642 Score: 335
Period size: 111 Copynumber: 3.2 Consensus size: 113
6235268 GGTTGTTCTG
* * * * * * * * *
6235278 ACCAGAGGTAACGAATTTTAAAT-TCAAAAGGCTCATCTAACCAAAGGCAATGAAACTCTAAAT-
1 ACCAGAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTAACCAGAGGCAA-CAAACTTTAAATG
* * * * * *
6235341 TCAAAAGGCTCCTCTAACCAAAGACAACAAACTTTAAATTTAAAGGGCTCCTCTA
65 TCAAAAGGCTCTTTTAACCAGAGGCAACAAACTTTAAA--T----GGCTCATTTA
* * *
6235396 ACCAGAGGCAACAAACTTTAAATGTTAAAAGGCTCCTCTCACCAGAGGTAACAAACTTTAAAT-T
1 ACCAGAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGT
* *
6235460 CAAAAGGCT-TTTCTCACCA-AGGCAACGAACTTTAAATGGCTCATTTA
66 CAAAAGGCTCTTT-TAACCAGAGGCAACAAACTTTAAATGGCTCATTTA
* *
6235507 ACCAGAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTAACTAGAGGCAACAAACTTTATATGT
1 ACCAGAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGT
* * * * ** **
6235572 TAAAAGGCTCTTTTAACTAGAGGTAATAAACTTTAAATTACTTTTTTA
66 CAAAAGGCTCTTTTAACCAGAGGCAACAAACTTTAAATGGCTCATTTA
* *
6235620 ACCAAAGACAACAAACTTTAAAT
1 ACCAGAGGCAACAAACTTTAAAT
6235643 TAAAAAAATC
Statistics
Matches: 208, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
111 66 0.32
112 13 0.06
113 45 0.22
115 1 0.00
117 16 0.08
118 45 0.22
119 22 0.11
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (113 bp):
ACCAGAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGT
CAAAAGGCTCTTTTAACCAGAGGCAACAAACTTTAAATGGCTCATTTA
Found at i:6235646 original size:151 final size:151
Alignment explanation
Indices: 6235251--6235647 Score: 369
Period size: 151 Copynumber: 2.6 Consensus size: 151
6235241 AAAAGCTATG
* * ** * * * **
6235251 AAACTTTAAAT-TCAAAAGGTTGTTCTGACCAGAGGTAACGAATTTTAAATTCAAAAGGCTCATC
1 AAACTTTAAATGTTAAAAGGCTCCTCTAACCAGAGGTAACAAACTTTAAATT---AA-GCTTTTC
* *
6235315 TAACCAAAGGCAATGAAACTCTAAATTCAAAAGGCTCCTCTAACCAAAGACAACAAACTTTAAAT
62 TAACCAAAGGCAA-CAAACT-TAAATT-AAAAGGCTCATCTAACCAAAGACAACAAACTTTAAAT
**
6235380 TTAAAGGGCTCCTCTAACCAGAGGCAAC
124 TTAAAAAGCTCCTCTAACCAGAGGCAAC
*
6235408 AAACTTTAAATGTTAAAAGGCTCCTCTCACCAGAGGTAACAAACTTTAAATTCAAAAGGCTTTTC
1 AAACTTTAAATGTTAAAAGGCTCCTCTAACCAGAGGTAACAAACTTTAAATT---AA-GCTTTTC
* * * * * *
6235473 TCACC-AAGGCAACGAAC-T---TTAAATGGCTCATTTAACCAGAGGCAACAAACTTTAAATGTT
62 TAACCAAAGGCAACAAACTTAAATTAAAAGGCTCATCTAACCAAAGACAACAAACTTTAAAT-TT
*
6235533 AAAAAGCTCCTCTAACTAGAGGCAAC
126 AAAAAGCTCCTCTAACCAGAGGCAAC
* * * * * *
6235559 AAACTTTATATGTTAAAAGGCTCTTTTAACTAGAGGTAATAAACTTTAAATT-A-CTTTTTTAAC
1 AAACTTTAAATGTTAAAAGGCTCCTCTAACCAGAGGTAACAAACTTTAAATTAAGCTTTTCTAAC
*
6235622 CAAAGACAACAAACTTTAAATTAAAA
66 CAAAGGCAACAAAC-TTAAATTAAAA
6235648 AAATCTAAGA
Statistics
Matches: 201, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
145 9 0.04
146 10 0.05
147 1 0.00
148 1 0.00
150 32 0.16
151 78 0.39
154 1 0.00
156 3 0.01
157 18 0.09
158 48 0.24
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (151 bp):
AAACTTTAAATGTTAAAAGGCTCCTCTAACCAGAGGTAACAAACTTTAAATTAAGCTTTTCTAAC
CAAAGGCAACAAACTTAAATTAAAAGGCTCATCTAACCAAAGACAACAAACTTTAAATTTAAAAA
GCTCCTCTAACCAGAGGCAAC
Found at i:6235775 original size:35 final size:34
Alignment explanation
Indices: 6235744--6235810 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
6235734 AATTAAAGAA
* *
6235744 GCTCATCTGACCAGAGGCTATGAAACTTTAAATG
1 GCTCATCTGACCAAAGGCAATGAAACTTTAAATG
* *
6235778 GCTCTTTTGACCAAAGGCAATGAAACTTTAAAT
1 GCTCATCTGACCAAAGGCAATGAAACTTTAAAT
6235811 TTAAAAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (34 bp):
GCTCATCTGACCAAAGGCAATGAAACTTTAAATG
Found at i:6238336 original size:35 final size:35
Alignment explanation
Indices: 6238290--6238358 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
6238280 AGTTTTACTA
* *
6238290 TGATTGGGTAGTAATCTCCTTTTGGATATATCAAG
1 TGATTAGGTAGTAATCTCCTTTTGGAGATATCAAG
*
6238325 TGATTAGGTAGTAATCTCTTTTTGGAGATATCAA
1 TGATTAGGTAGTAATCTCCTTTTGGAGATATCAA
6238359 AACTACTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.41
Consensus pattern (35 bp):
TGATTAGGTAGTAATCTCCTTTTGGAGATATCAAG
Found at i:6247836 original size:12 final size:12
Alignment explanation
Indices: 6247819--6247843 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6247809 TAAAAAATTG
6247819 TTATCTTTTACT
1 TTATCTTTTACT
6247831 TTATCTTTTACT
1 TTATCTTTTACT
6247843 T
1 T
6247844 GTATTAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATCTTTTACT
Found at i:6248351 original size:3 final size:3
Alignment explanation
Indices: 6248343--6248368 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6248333 TTTCTAAAAT
6248343 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
6248369 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:6248484 original size:5 final size:5
Alignment explanation
Indices: 6248425--6248477 Score: 70
Period size: 5 Copynumber: 10.6 Consensus size: 5
6248415 ATAAATAAAC
* ** *
6248425 AAATA ACATA AAATA ACTTA AAATA AAATA AAATA AAATA AAATA AAAGA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
6248475 AAA
1 AAA
6248478 AAGAAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Done.