Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 10 of 352
Found at i:3120209 original size:15 final size:15
Alignment explanation
Indices: 3120189--3120236 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
3120179 GATTTTAATG
*
3120189 GAATGTAATTCTTTA
1 GAATGTAATTCTTGA
* *
3120204 GAATGTGATTGTTGA
1 GAATGTAATTCTTGA
* *
3120219 AAATGTAATTGTTGA
1 GAATGTAATTCTTGA
3120234 GAA
1 GAA
3120237 ATTTACTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (15 bp):
GAATGTAATTCTTGA
Found at i:3122849 original size:101 final size:103
Alignment explanation
Indices: 3122701--3122990 Score: 394
Period size: 101 Copynumber: 2.8 Consensus size: 103
3122691 AAAAATCAAA
* *
3122701 TAAAATTACATTA--AAAAAATCATAAAACATTAAACTAAACACTAACAAATTATATAACCTAAT
1 TAAAA-TACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAAATT-TATAACCTAAT
3122764 CATAAATTACTAACAAAATAACTAT-AAAAT-TAT-TTTT
64 CATAAATTACTAACAAAATAACTATAAAAATATATATTTT
* * * *
3122801 TTAAATACATTACTAAAAGATCACAAAACACTAAACTAAACACTAACAATTTGTATAATCTAATC
1 TAAAATACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAAATT-TATAACCTAATC
* *
3122866 ATAAATCACTAGCAAAATAACTATAAAAATATATATTTT
65 ATAAATTACTAACAAAATAACTATAAAAATATATATTTT
* *
3122905 TAAAATCACATTACTAAAAAATCACAAAACCCTAAACTTAACACTAAC-AATTTATAACCTAATC
1 TAAAAT-ACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAAATTTATAACCTAAT-
3122969 CCATAAATTACTAACAAAATAA
64 -CATAAATTACTAACAAAATAA
3122991 ATAACTATAA
Statistics
Matches: 165, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
99 7 0.04
100 4 0.02
101 67 0.41
102 5 0.03
103 13 0.08
104 12 0.07
105 57 0.35
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.29
Consensus pattern (103 bp):
TAAAATACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAAATTTATAACCTAATCA
TAAATTACTAACAAAATAACTATAAAAATATATATTTT
Found at i:3123010 original size:105 final size:101
Alignment explanation
Indices: 3122701--3123014 Score: 361
Period size: 105 Copynumber: 3.0 Consensus size: 101
3122691 AAAAATCAAA
* *
3122701 TAAAATTACATTA--AAAAAATCATAAAACATTAAACTAAACACTAACAAATTATATAACCTAAT
1 TAAAA-TACATTACTAAAAAATCACAAAACACTAAACTAAACACTAAC-AATTATATAACCTAAT
* *
3122764 CATAAATTACTAACAAAATAACT-ATAAAATTATTTTTT
64 CATAAATTACTAACAAAATAAATAAT-AAATAATTTTTT
* * *
3122802 T-AAATACATTACTAAAAGATCACAAAACACTAAACTAAACACTAACAATTTGTATAATCTAATC
1 TAAAATACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAA-TTATATAACCTAATC
* * *
3122866 ATAAATCACTAGCAAAATAACTATAA-AAATATATATTTT
65 ATAAATTACTAACAAAATAA--ATAATAAATA-ATTTTTT
* *
3122905 TAAAATCACATTACTAAAAAATCACAAAACCCTAAACTTAACACTAACAATT-TATAACCTAATC
1 TAAAAT-ACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTATATAACCTAAT-
*
3122969 CCATAAATTACTAACAAAATAAATAACTATAACAATTTTTT
64 -CATAAATTACTAACAAAATAAATAA-TA-AATAATTTTTT
3123010 TAAAA
1 TAAAA
3123015 GGAATTACAT
Statistics
Matches: 181, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
99 7 0.04
100 5 0.03
101 62 0.34
102 4 0.02
103 22 0.12
104 7 0.04
105 71 0.39
106 3 0.02
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.30
Consensus pattern (101 bp):
TAAAATACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTATATAACCTAATCA
TAAATTACTAACAAAATAAATAATAAATAATTTTTT
Found at i:3123269 original size:18 final size:17
Alignment explanation
Indices: 3123246--3123282 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
3123236 AGACACCACT
*
3123246 AATAAAATAATATTAAAA
1 AATAAAAAAATA-TAAAA
3123264 AATAAAAAAATATAAAA
1 AATAAAAAAATATAAAA
3123281 AA
1 AA
3123283 GGTGGTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAAAAATATAAAA
Found at i:3125127 original size:32 final size:33
Alignment explanation
Indices: 3125090--3125155 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
3125080 TTAATTTTAC
*
3125090 AAATAAAAGAGTTATTAA-TATAAAAAACTTGA
1 AAATAAAAGAGTTATTAATTAAAAAAAACTTGA
* * *
3125122 AAATAATATATTTATTAATTAAAAAAAACTTGA
1 AAATAAAAGAGTTATTAATTAAAAAAAACTTGA
3125155 A
1 A
3125156 GCAATGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (33 bp):
AAATAAAAGAGTTATTAATTAAAAAAAACTTGA
Found at i:3140912 original size:32 final size:30
Alignment explanation
Indices: 3140872--3140939 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 30
3140862 AAATAATAAA
*
3140872 AATAAAATTATATTTTAACCCTCTCTAAAAAT
1 AATAAAATTATAATTTAACCCT-T-TAAAAAT
* **
3140904 AATAAAATTTTAATTTATTCCTTTAAAAAT
1 AATAAAATTATAATTTAACCCTTTAAAAAT
3140934 AATAAA
1 AATAAA
3140940 TATATAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 13 0.41
31 1 0.03
32 18 0.56
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAAAATTATAATTTAACCCTTTAAAAAT
Found at i:3141359 original size:34 final size:34
Alignment explanation
Indices: 3141316--3141386 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3141306 AGCCATATGA
3141316 TATGGCGCCACCACTTTGCCACGTCAGTCAGGGG
1 TATGGCGCCACCACTTTGCCACGTCAGTCAGGGG
3141350 TATGGCGCCACCACTTTGCCACGTCAGTCAGGGG
1 TATGGCGCCACCACTTTGCCACGTCAGTCAGGGG
3141384 TAT
1 TAT
3141387 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (34 bp):
TATGGCGCCACCACTTTGCCACGTCAGTCAGGGG
Found at i:3141561 original size:9 final size:9
Alignment explanation
Indices: 3141539--3141581 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
3141529 GATTTGTCAG
*
3141539 CTTTTTATA
1 CTTTTTTTA
*
3141548 TTTTTTTTA
1 CTTTTTTTA
3141557 CTTTTTTTA
1 CTTTTTTTA
3141566 C-TTTTTTA
1 CTTTTTTTA
3141574 CCTTTTTT
1 -CTTTTTT
3141582 CTTATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 7 0.24
9 17 0.59
10 5 0.17
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (9 bp):
CTTTTTTTA
Found at i:3141645 original size:18 final size:18
Alignment explanation
Indices: 3141624--3141670 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
3141614 TTTTTTAAGT
3141624 TTTATATTATTT-TCCTAA
1 TTTATATTATTTAT-CTAA
* * *
3141642 TTTATTTTGTTTATTTAA
1 TTTATATTATTTATCTAA
3141660 TTTATATTATT
1 TTTATATTATT
3141671 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTATATTATTTATCTAA
Found at i:3141729 original size:21 final size:21
Alignment explanation
Indices: 3141673--3141746 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
3141663 ATATTATTAA
* * * *
3141673 TTTTAAAAAATTTGTAATATA
1 TTTTTAAAATTTTATAATATT
*
3141694 TATTTAAAATGTTTTATAATATT
1 TTTTTAAAA--TTTTATAATATT
*
3141717 TTTTTAAAATTTTA-ATTATT
1 TTTTTAAAATTTTATAATATT
3141737 ATTTTTAAAA
1 -TTTTTAAAA
3141747 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.12
21 21 0.49
23 17 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTATAATATT
Found at i:3141747 original size:22 final size:23
Alignment explanation
Indices: 3141660--3141748 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
3141650 GTTTATTTAA
* *
3141660 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * * *
3141683 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
3141706 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
3141727 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
3141749 ATTTTTAACT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
20 5 0.10
21 10 0.19
22 17 0.33
23 19 0.37
24 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:3142053 original size:11 final size:11
Alignment explanation
Indices: 3142037--3142078 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
3142027 AAATTTTAAA
3142037 AAATATATATT
1 AAATATATATT
3142048 AAATAT-TATT
1 AAATATATATT
** *
3142058 TTATAAATATT
1 AAATATATATT
3142069 AAATATATAT
1 AAATATATAT
3142079 ATTTTGACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATATATATT
Found at i:3142269 original size:26 final size:27
Alignment explanation
Indices: 3142220--3142282 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
3142210 TTTTAAATAC
* * *
3142220 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
3142247 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
3142273 AATATTTTAA
1 AATTTTTTAA
3142283 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:3142342 original size:35 final size:36
Alignment explanation
Indices: 3142275--3142352 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
3142265 GAAATCATAA
*
3142275 TATTTTAAATATTTTTTAACATTTTGTCTTTTTCCT
1 TATTTTAAATATTTTTTAACATTTTATCTTTTTCCT
* * * *
3142311 TTTTTTTAAT-TTTTTTGAA-ATTTTATGTTTTTTCT
1 TATTTTAAATATTTTTT-AACATTTTATCTTTTTCCT
3142346 TATTTTA
1 TATTTTA
3142353 TTTTGTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
35 24 0.71
36 10 0.29
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (36 bp):
TATTTTAAATATTTTTTAACATTTTATCTTTTTCCT
Found at i:3142450 original size:21 final size:21
Alignment explanation
Indices: 3142411--3142454 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3142401 ATTTAAAATG
3142411 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
3142433 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
3142453 TT
1 TT
3142455 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:3142583 original size:18 final size:18
Alignment explanation
Indices: 3142560--3142607 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
3142550 GTGACTATTA
3142560 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
3142578 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
3142594 ATATA-TTAAATATA
1 ATAAATTTAAATATA
3142608 TTTTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 2 0.08
18 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:3143634 original size:10 final size:10
Alignment explanation
Indices: 3143619--3143644 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3143609 TGGTGTCAAA
3143619 TTGAACTTGC
1 TTGAACTTGC
3143629 TTGAACTTGC
1 TTGAACTTGC
3143639 TTGAAC
1 TTGAAC
3143645 CAATCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (10 bp):
TTGAACTTGC
Found at i:3143846 original size:22 final size:23
Alignment explanation
Indices: 3143821--3143866 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3143811 CAACCAAATC
3143821 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
3143843 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
3143866 A
1 A
3143867 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3143872 original size:23 final size:23
Alignment explanation
Indices: 3143828--3143872 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3143818 ATCAATTCAA
*
3143828 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
3143851 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
3143873 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:3151569 original size:22 final size:23
Alignment explanation
Indices: 3151544--3151589 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3151534 CAACCAAATC
3151544 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
3151566 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
3151589 A
1 A
3151590 CGTCATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3151595 original size:23 final size:23
Alignment explanation
Indices: 3151551--3151595 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3151541 ATCAATTCAA
*
3151551 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
3151574 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
3151596 CAAATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:3158773 original size:31 final size:34
Alignment explanation
Indices: 3158714--3158785 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 34
3158704 GTTTTATAAT
3158714 ATATT-TTTTTATAAATATTAAAAATATATTTTCA
1 ATATTATTTTTATAAATATT-AAAATATATTTTCA
*
3158748 A-ATTATTTTT-TAAATATT-AAATATATTTTTA
1 ATATTATTTTTATAAATATTAAAATATATTTTCA
3158779 ATATTAT
1 ATATTAT
3158786 AAAACATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
31 13 0.37
32 5 0.14
33 11 0.31
34 6 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (34 bp):
ATATTATTTTTATAAATATTAAAATATATTTTCA
Found at i:3158828 original size:19 final size:19
Alignment explanation
Indices: 3158755--3158833 Score: 83
Period size: 19 Copynumber: 4.2 Consensus size: 19
3158745 TCAAATTATT
3158755 TTTTAAAT-A-TTAAATATA
1 TTTTAAATGATTTAAA-ATA
* *
3158773 TTTTTAAT-ATTATAAAACA
1 TTTTAAATGATT-TAAAATA
*
3158792 TTTAAAATGATTTAAAATA
1 TTTTAAATGATTTAAAATA
*
3158811 TTTTAAATGATTTTAAATA
1 TTTTAAATGATTTAAAATA
3158830 TTTT
1 TTTT
3158834 TTTTAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.16
19 36 0.71
20 7 0.14
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTAAATGATTTAAAATA
Found at i:3158834 original size:10 final size:9
Alignment explanation
Indices: 3158755--3158833 Score: 61
Period size: 10 Copynumber: 8.4 Consensus size: 9
3158745 TCAAATTATT
3158755 TTTTAAATA
1 TTTTAAATA
*
3158764 -TTAAATATA
1 TTTTAA-ATA
*
3158773 TTTTTAATA
1 TTTTAAATA
* *
3158782 TTATAAAACA
1 TT-TTAAATA
*
3158792 TTTAAAATGA
1 TTTTAAAT-A
*
3158802 TTTAAAATA
1 TTTTAAATA
3158811 TTTTAAATGA
1 TTTTAAAT-A
3158821 TTTTAAATA
1 TTTTAAATA
3158830 TTTT
1 TTTT
3158834 TTTTAATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
8 4 0.07
9 26 0.46
10 27 0.47
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (9 bp):
TTTTAAATA
Found at i:3158842 original size:19 final size:19
Alignment explanation
Indices: 3158820--3158884 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
3158810 ATTTTAAATG
3158820 ATTTTAAATATTTTTTTTA
1 ATTTTAAATATTTTTTTTA
* ***
3158839 ATTTTACATAGACTTTTTA
1 ATTTTAAATATTTTTTTTA
* *
3158858 AATTTATAAT-TTTTATTTA
1 ATTTTA-AATATTTTTTTTA
*
3158877 TTTTTAAA
1 ATTTTAAA
3158885 AATATTTAAC
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
18 2 0.06
19 29 0.88
20 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTAAATATTTTTTTTA
Found at i:3159575 original size:37 final size:36
Alignment explanation
Indices: 3159505--3159575 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
3159495 AATAATTATT
*
3159505 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
*
3159541 TTTTTAAAATTTATAAATAAA-TAATTTCACAAATA
1 TTTTTAAAATTT-TAAA-AAATTAATTTCAAAAATA
3159576 TATATAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 12 0.39
37 16 0.52
38 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:3159636 original size:21 final size:23
Alignment explanation
Indices: 3159596--3159646 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
3159586 TAAAAAATAT
3159596 TTTTAAAAATAATAATT-AAA-A
1 TTTTAAAAATAATAATTAAAACA
*
3159617 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATAAT-TAAAACA
3159640 TTTTAAA
1 TTTTAAA
3159647 TATATACTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 3 0.12
23 8 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTTAAAAATAATAATTAAAACA
Found at i:3159712 original size:36 final size:37
Alignment explanation
Indices: 3159672--3159745 Score: 100
Period size: 36 Copynumber: 2.0 Consensus size: 37
3159662 TTTTAAAATT
*
3159672 AATAATAT-AAA-TTAAATAAGTAAAATAAATC-AAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
3159708 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
3159745 A
1 A
3159746 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 13 0.38
37 13 0.38
38 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:3159717 original size:18 final size:18
Alignment explanation
Indices: 3159667--3159718 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
3159657 AATTTTTTTA
* *
3159667 AAATTAATAATATAAATT
1 AAATAAATAATATAAATC
* *
3159685 AAATAAGTAAAATAAATC
1 AAATAAATAATATAAATC
3159703 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
3159719 ACTTAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATC
Found at i:3159783 original size:17 final size:17
Alignment explanation
Indices: 3159761--3159800 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3159751 AAAATATAAG
3159761 AAAAAAGT-AAAAAAGTT
1 AAAAAAGTAAAAAAAG-T
3159778 AAAAAAGTAAAAAAAGT
1 AAAAAAGTAAAAAAAGT
3159795 AAAAAA
1 AAAAAA
3159801 AATATAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAAAGTAAAAAAAGT
Found at i:3159801 original size:9 final size:9
Alignment explanation
Indices: 3159761--3159801 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
3159751 AAAATATAAG
3159761 AAAAAAGT-
1 AAAAAAGTA
*
3159769 AAAAAAGTT
1 AAAAAAGTA
3159778 AAAAAAGTA
1 AAAAAAGTA
3159787 AAAAAAGTA
1 AAAAAAGTA
3159796 AAAAAA
1 AAAAAA
3159802 ATATAAGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:3161706 original size:10 final size:10
Alignment explanation
Indices: 3161691--3161717 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3161681 CTTCAAATCA
3161691 CGAATTTTAT
1 CGAATTTTAT
3161701 CGAATTTTAT
1 CGAATTTTAT
3161711 CGAATTT
1 CGAATTT
3161718 CATTCATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (10 bp):
CGAATTTTAT
Found at i:3162117 original size:173 final size:173
Alignment explanation
Indices: 3161823--3162695 Score: 1737
Period size: 173 Copynumber: 5.0 Consensus size: 173
3161813 TTTTGTAACT
3161823 TTCTCTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTT
1 TTCT-TTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTT
3161888 GGTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCA
65 GGTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCA
3161953 TTATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
130 TTATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
3161997 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
1 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
3162062 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
66 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
3162127 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
131 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
3162170 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
1 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
3162235 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
66 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
3162300 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
131 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
3162343 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
1 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
3162408 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
66 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
3162473 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
131 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
3162516 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
1 TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
3162581 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
66 GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
3162646 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
131 TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
3162689 TTCTTTA
1 TTCTTTA
3162696 ATTTAAAAAA
Statistics
Matches: 699, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
173 695 0.99
174 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (173 bp):
TTCTTTATAACTTGTTGAGTATCAAAAGACTAGTTTGAAGCAAACATTATGTACAAAGAGGTTTG
GTTCATTGTAATGATTACTTGTTTCAAGCATAGATATGTGAAAATTTTTATTTGCATTTTATCAT
TATTATGTCTATCTTTACTAACCATTGATTCATGTTAACAAGA
Found at i:3175447 original size:20 final size:20
Alignment explanation
Indices: 3175422--3175461 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3175412 CGGAAAATGA
3175422 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
*
3175442 TTTCTGGAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
3175462 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:3175467 original size:34 final size:33
Alignment explanation
Indices: 3175407--3175471 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
3175397 TAGTAAAATG
3175407 TTTTCCGGAAAATGATTTCTGAAAAATGATTTAC
1 TTTTCCGGAAAATGATTTCTGAAAAAT-ATTTAC
*
3175441 TTTTCTGGAAAATGATTTACTG-AAAATATTT
1 TTTTCCGGAAAATGATTT-CTGAAAAATATTT
3175472 TTTGATGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.76
35 3 0.10
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (33 bp):
TTTTCCGGAAAATGATTTCTGAAAAATATTTAC
Found at i:3175587 original size:20 final size:20
Alignment explanation
Indices: 3175562--3175600 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3175552 TTTATTACAT
3175562 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
3175582 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
3175601 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:3178163 original size:2 final size:2
Alignment explanation
Indices: 3178151--3178196 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
3178141 GGTATTCATT
*
3178151 CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3178193 CA CA
1 CA CA
3178197 TATATATACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:3178445 original size:40 final size:40
Alignment explanation
Indices: 3178411--3178496 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
3178401 CCCGGATGTC
3178411 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
3178451 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
3178491 ATTCCA
1 ATTCCA
3178497 CATCAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
Found at i:3182256 original size:33 final size:33
Alignment explanation
Indices: 3182187--3182281 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 33
3182177 ATATTTTCAC
* * **
3182187 AGCTCACACATTACTACAGCTCACACATTA-CAT
1 AGCTCACACATTAC-ACAACTCACACATCATTGT
** *
3182220 AGCTTGCACATTACACAACTCGCACATCATTGT
1 AGCTCACACATTACACAACTCACACATCATTGT
* *
3182253 AGCTCACACGTTACACAGCTCACACATCA
1 AGCTCACACATTACACAACTCACACATCA
3182282 CTATGACTCG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
32 12 0.24
33 37 0.76
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (33 bp):
AGCTCACACATTACACAACTCACACATCATTGT
Found at i:3182274 original size:16 final size:16
Alignment explanation
Indices: 3182184--3182279 Score: 84
Period size: 16 Copynumber: 5.9 Consensus size: 16
3182174 CACATATTTT
3182184 CACAGCTCACACATTA
1 CACAGCTCACACATTA
3182200 CTACAGCTCACACATTA
1 C-ACAGCTCACACATTA
* **
3182217 CATAGCTTGCACATTA
1 CACAGCTCACACATTA
* * *
3182233 CACAACTCGCACATCA
1 CACAGCTCACACATTA
*** *
3182249 TTGTAGCTCACACGTTA
1 -CACAGCTCACACATTA
3182266 CACAGCTCACACAT
1 CACAGCTCACACAT
3182280 CACTATGACT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
16 35 0.58
17 25 0.42
ACGTcount: A:0.33, C:0.34, G:0.09, T:0.23
Consensus pattern (16 bp):
CACAGCTCACACATTA
Found at i:3186676 original size:16 final size:16
Alignment explanation
Indices: 3186655--3186750 Score: 93
Period size: 16 Copynumber: 5.9 Consensus size: 16
3186645 AGTCATAGTG
3186655 ATGTGTGAGCTGTGTA
1 ATGTGTGAGCTGTGTA
*** *
3186671 ATGTGTGAGCTACAATG
1 ATGTGTGAGCT-GTGTA
* *
3186688 ATGTGCGAGTTGTGTA
1 ATGTGTGAGCTGTGTA
** *
3186704 ATGTGCAAGCTATGTA
1 ATGTGTGAGCTGTGTA
3186720 ATGTGTGAGCTGTAGTA
1 ATGTGTGAGCTGT-GTA
3186737 ATGTGTGAGCTGTG
1 ATGTGTGAGCTGTG
3186751 AAAATATGTG
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
16 36 0.58
17 26 0.42
ACGTcount: A:0.23, C:0.08, G:0.34, T:0.34
Consensus pattern (16 bp):
ATGTGTGAGCTGTGTA
Found at i:3186715 original size:33 final size:33
Alignment explanation
Indices: 3186653--3186741 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
3186643 CGAGTCATAG
* **
3186653 TGATGTGTGAGCTGTGTAATGTGTGAGCTACAA
1 TGATGTGCGAGCTGTGTAATGTGCAAGCTACAA
* **
3186686 TGATGTGCGAGTTGTGTAATGTGCAAGCTA-TG
1 TGATGTGCGAGCTGTGTAATGTGCAAGCTACAA
* *
3186718 TAATGTGTGAGCTGTAGTAATGTG
1 TGATGTGCGAGCTGT-GTAATGTG
3186742 TGAGCTGTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
32 12 0.26
33 34 0.74
ACGTcount: A:0.24, C:0.08, G:0.34, T:0.35
Consensus pattern (33 bp):
TGATGTGCGAGCTGTGTAATGTGCAAGCTACAA
Found at i:3190131 original size:22 final size:20
Alignment explanation
Indices: 3190088--3190126 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3190078 CAATTTAAAA
*
3190088 TATAAAAATTTATTAATATG
1 TATATAAATTTATTAATATG
3190108 TATATAAATTTATTAATAT
1 TATATAAATTTATTAATAT
3190127 ATGTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATAAATTTATTAATATG
Found at i:3190252 original size:20 final size:20
Alignment explanation
Indices: 3190227--3190266 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3190217 AAATATTTTC
3190227 AGTAAATCATTTTCCAAAAA
1 AGTAAATCATTTTCCAAAAA
3190247 AGTAAATCATTTTCCAAAAA
1 AGTAAATCATTTTCCAAAAA
3190267 TCATTTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAAAAA
Found at i:3190495 original size:29 final size:28
Alignment explanation
Indices: 3190440--3190503 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
3190430 ATTTAATATA
* *
3190440 AATATATATAAATATAATTATTATTTA-
1 AATATATATAAATACAAATATTATTTAT
* *
3190467 ACATATATAATTAATACAAATATTTTTTAT
1 A-ATATAT-ATAAATACAAATATTATTTAT
3190497 AATATAT
1 AATATAT
3190504 TCAGGTCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 6 0.20
29 22 0.73
30 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATATATAAATACAAATATTATTTAT
Found at i:3194258 original size:14 final size:17
Alignment explanation
Indices: 3194226--3194261 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3194216 TAGTTTTCAT
3194226 ATTTATTTTGTTATCTA
1 ATTTATTTTGTTATCTA
3194243 ATTT-TTTTGTT-T-TA
1 ATTTATTTTGTTATCTA
3194257 ATTTA
1 ATTTA
3194262 ATTTCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.33
15 1 0.06
16 7 0.39
17 4 0.22
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTTATTTTGTTATCTA
Found at i:3198862 original size:13 final size:12
Alignment explanation
Indices: 3198843--3198881 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
3198833 TGAGTATGTA
3198843 TTTTTTATATAT
1 TTTTTTATATAT
3198855 TATTTTTATA-AT
1 T-TTTTTATATAT
*
3198867 TTTTTCATATAT
1 TTTTTTATATAT
3198879 TTT
1 TTT
3198882 AATGATCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.29
12 9 0.38
13 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTATATAT
Found at i:3205461 original size:15 final size:15
Alignment explanation
Indices: 3205443--3205472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3205433 AAATTTTAAT
*
3205443 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
3205458 TTTTTATAATTTATA
1 TTTTTATAATTTATA
3205473 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:3210806 original size:31 final size:31
Alignment explanation
Indices: 3210768--3210827 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
3210758 AGAAATCAAA
3210768 TATTTCATGTTATTTAAGATATTTAATATGG
1 TATTTCATGTTATTTAAGATATTTAATATGG
*
3210799 TATTTCATTTTATTTAAGATATTTAATAT
1 TATTTCATGTTATTTAAGATATTTAATAT
3210828 AAAAGAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
TATTTCATGTTATTTAAGATATTTAATATGG
Found at i:3213309 original size:31 final size:31
Alignment explanation
Indices: 3213268--3213327 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3213258 AACTGGACTA
* * *
3213268 TTTTTGAAAAAGTTGATGGTCAAATTTAACT
1 TTTTTAAAAAAATTGAGGGTCAAATTTAACT
3213299 TTTTTAAAAAAATTGAGGGTCAAATTTAA
1 TTTTTAAAAAAATTGAGGGTCAAATTTAA
3213328 TTAAAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTTTAAAAAAATTGAGGGTCAAATTTAACT
Found at i:3215171 original size:6 final size:6
Alignment explanation
Indices: 3215160--3215193 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
3215150 GAGGCTAACA
3215160 GCAGTG GCAGTG GCAGTG GCAGTG GCAGTG GCAG
1 GCAGTG GCAGTG GCAGTG GCAGTG GCAGTG GCAG
3215194 GCTCTGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.50, T:0.15
Consensus pattern (6 bp):
GCAGTG
Found at i:3216010 original size:18 final size:18
Alignment explanation
Indices: 3215989--3216030 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
3215979 AAATATAATT
*
3215989 ATATATTAAAAATGAAAA
1 ATATATTAAAAATAAAAA
3216007 ATAT-TT-AAAATAAAAA
1 ATATATTAAAAATAAAAA
*
3216023 AAATATTA
1 ATATATTA
3216031 TCATAGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.60
17 4 0.20
18 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
ATATATTAAAAATAAAAA
Found at i:3222608 original size:3 final size:3
Alignment explanation
Indices: 3222600--3222625 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3222590 CATTGATAAA
3222600 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
3222626 ATGAATTATT
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:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3223306 original size:20 final size:21
Alignment explanation
Indices: 3223281--3223321 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3223271 AATTTATATT
3223281 ATTTTT-AATATATATT-TTAA
1 ATTTTTAAATA-ATATTATTAA
3223301 ATTTTTAAATAATATTATTAA
1 ATTTTTAAATAATATTATTAA
3223322 TTAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTAAATAATATTATTAA
Found at i:3223323 original size:20 final size:20
Alignment explanation
Indices: 3223277--3223323 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
3223267 CTCTAATTTA
3223277 TATT-ATTTTTAATATATAT
1 TATTAATTTTTAATATATAT
3223296 T-TTAAATTTTTAA-ATAATAT
1 TATT-AATTTTTAATAT-ATAT
3223316 TATTAATT
1 TATTAATT
3223324 AAATATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 17 0.71
21 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTAATTTTTAATATATAT
Found at i:3228484 original size:5 final size:6
Alignment explanation
Indices: 3228465--3228498 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3228455 ACAATGAATT
* *
3228465 AAATAA AAATAA AAATAA AAATAA TACTAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
3228499 GGGAGCCGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:3232640 original size:30 final size:29
Alignment explanation
Indices: 3232563--3232649 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
3232553 TTATGAGTAC
* *
3232563 GTTTAGGAACTTGAGAAGACTCGATATCTT
1 GTTTAGGATCTTGGGAAGACT-GATATCTT
* * *
3232593 ATTTAAGAGT-TTAGGAAGACTGGATATCTT
1 GTTTAGGA-TCTTGGGAAGACT-GATATCTT
3232623 GTTTAGGATCTTGGGAAGATCTGATAT
1 GTTTAGGATCTTGGGAAGA-CTGATAT
3232650 TTCATTTTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 1 0.02
30 42 0.93
31 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (29 bp):
GTTTAGGATCTTGGGAAGACTGATATCTT
Found at i:3240837 original size:17 final size:17
Alignment explanation
Indices: 3240815--3240858 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
3240805 ATGACACTAC
*
3240815 TATAATTATAATTAAAT
1 TATAATTATAATTAAAA
*
3240832 TATAATT-TAAATAAAA
1 TATAATTATAATTAAAA
3240848 TAT-ATTATAAT
1 TATAATTATAAT
3240859 CAACTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.13
16 13 0.57
17 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAATTATAATTAAAA
Found at i:3241665 original size:21 final size:23
Alignment explanation
Indices: 3241612--3241666 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
3241602 TTTCTGACAC
*
3241612 ATTTTTGT-TTTCTTTTTCTTTT
1 ATTTTTATATTTCTTTTTCTTTT
*
3241634 ATTTTCATATTTC-TTTT-TTTT
1 ATTTTTATATTTCTTTTTCTTTT
*
3241655 ATTTTTTTATTT
1 ATTTTTATATTT
3241667 TGTTCCTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 10 0.36
23 4 0.14
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (23 bp):
ATTTTTATATTTCTTTTTCTTTT
Found at i:3241701 original size:17 final size:17
Alignment explanation
Indices: 3241681--3241747 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
3241671 CCTTAATAAA
3241681 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
*
3241698 TTTTA-CTTTTT-TGATTG
1 TTTTATCTTTTTAT--TTT
3241715 TTTT-TCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
3241733 GTTTTAT-TTTTTATT
1 -TTTTATCTTTTTATT
3241748 ATTAAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
15 1 0.03
16 6 0.15
17 17 0.43
18 8 0.20
19 6 0.15
20 2 0.05
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:3241777 original size:27 final size:27
Alignment explanation
Indices: 3241747--3241804 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
3241737 TATTTTTTAT
3241747 TATTAAATTTAA-AATGATATAATATAA
1 TATT-AATTTAATAATGATATAATATAA
** *
3241774 TATTTTTTTAATTATGATATAATATAA
1 TATTAATTTAATAATGATATAATATAA
3241801 TATT
1 TATT
3241805 TTTTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TATTAATTTAATAATGATATAATATAA
Found at i:3241805 original size:27 final size:28
Alignment explanation
Indices: 3241760--3241820 Score: 106
Period size: 27 Copynumber: 2.2 Consensus size: 28
3241750 TAAATTTAAA
3241760 ATGATATAATATAATA-TTTTTTTAATT
1 ATGATATAATATAATATTTTTTTTAATT
3241787 ATGATATAATATAATATTTTTTTTTAATT
1 ATGATATAATATAATA-TTTTTTTTAATT
3241816 ATGAT
1 ATGAT
3241821 TGGTTTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 16 0.50
29 16 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (28 bp):
ATGATATAATATAATATTTTTTTTAATT
Found at i:3242700 original size:9 final size:8
Alignment explanation
Indices: 3242678--3242751 Score: 60
Period size: 9 Copynumber: 8.4 Consensus size: 8
3242668 AGTTAATAAT
3242678 AAAAAATAA
1 AAAAAAT-A
3242687 AACAAAATA
1 AA-AAAATA
3242696 AACAAAATA
1 AA-AAAATA
3242705 AAATAAGA-A
1 AAA-AA-ATA
3242714 AAAAAATCA
1 AAAAAAT-A
*
3242723 AAAAAGTAA
1 AAAAAAT-A
3242732 AAAAAATA
1 AAAAAATA
3242740 AAAAAGATA
1 AAAAA-ATA
3242749 AAA
1 AAA
3242752 TTTATTAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
7 1 0.02
8 9 0.16
9 40 0.71
10 6 0.11
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:3242704 original size:26 final size:25
Alignment explanation
Indices: 3242675--3242744 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
3242665 TAAAGTTAAT
*
3242675 AATAAAAAATAAAACAAAAT-AAACAA
1 AATAAAAAAGAAAA-AAAATCAAA-AA
3242701 AATAAAATAAGAAAAAAAATCAAAAA
1 AATAAAA-AAGAAAAAAAATCAAAAA
*
3242727 AGTAAAAAA-AATAAAAAA
1 AATAAAAAAGAA-AAAAAA
3242745 GATAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
26 20 0.51
27 9 0.23
ACGTcount: A:0.81, C:0.04, G:0.03, T:0.11
Consensus pattern (25 bp):
AATAAAAAAGAAAAAAAATCAAAAA
Found at i:3242745 original size:17 final size:18
Alignment explanation
Indices: 3242678--3242744 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
3242668 AGTTAATAAT
*
3242678 AAAAAATAAAACAAAATAA
1 AAAAAATAAAA-AAAGTAA
* *
3242697 ACAAAATAAAATAAG-AA
1 AAAAAATAAAAAAAGTAA
*
3242714 AAAAAATCAAAAAAGTAA
1 AAAAAATAAAAAAAGTAA
3242732 AAAAAATAAAAAA
1 AAAAAATAAAAAA
3242745 GATAAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 14 0.35
18 16 0.40
19 10 0.25
ACGTcount: A:0.82, C:0.04, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAAAAAGTAA
Found at i:3242751 original size:17 final size:18
Alignment explanation
Indices: 3242678--3242751 Score: 75
Period size: 17 Copynumber: 4.2 Consensus size: 18
3242668 AGTTAATAAT
*
3242678 AAAAAATAAAACAAAATA
1 AAAAAATAAAACAAGATA
*
3242696 AACAAAATAAAATAAGA-A
1 AA-AAAATAAAACAAGATA
3242714 AAAAAATCAAAA-AAG-TAA
1 AAAAAAT-AAAACAAGAT-A
3242732 AAAAAATAAAA-AAGATA
1 AAAAAATAAAACAAGATA
3242749 AAA
1 AAA
3242752 TTTATTAAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
17 19 0.39
18 18 0.37
19 12 0.24
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (18 bp):
AAAAAATAAAACAAGATA
Found at i:3242809 original size:27 final size:27
Alignment explanation
Indices: 3242773--3242846 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
3242763 ACAAAATAAA
*
3242773 AAAAGTAAAAAAAAGAAATATGAAA-AT-
1 AAAAGAAAAAAAAAGAAA-A-GAAATATG
*
3242800 AAAAGAAAAAAAAACAAAAGAAATATG
1 AAAAGAAAAAAAAAGAAAAGAAATATG
*
3242827 AAAATGAAAGAAAAAGAAAA
1 AAAA-GAAAAAAAAAGAAAA
3242847 CAAAAGGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.10
26 3 0.08
27 20 0.50
28 13 0.32
ACGTcount: A:0.77, C:0.01, G:0.12, T:0.09
Consensus pattern (27 bp):
AAAAGAAAAAAAAAGAAAAGAAATATG
Found at i:3242852 original size:33 final size:33
Alignment explanation
Indices: 3242772--3242852 Score: 130
Period size: 32 Copynumber: 2.5 Consensus size: 33
3242762 AACAAAATAA
3242772 AAAAAGTAAAA-AAAAGAAATATGAAAATAAAAG
1 AAAAAG-AAAACAAAAGAAATATGAAAATAAAAG
*
3242805 AAAAA-AAAACAAAAGAAATATGAAAATGAAAG
1 AAAAAGAAAACAAAAGAAATATGAAAATAAAAG
3242837 AAAAAGAAAACAAAAG
1 AAAAAGAAAACAAAAG
3242853 GTGTCAGAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
31 4 0.09
32 26 0.58
33 15 0.33
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (33 bp):
AAAAAGAAAACAAAAGAAATATGAAAATAAAAG
Found at i:3246011 original size:15 final size:15
Alignment explanation
Indices: 3245975--3246004 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3245965 AAATTGTAAT
3245975 AAACAGTTTGCACAA
1 AAACAGTTTGCACAA
*
3245990 AAACAGTTTGGACAA
1 AAACAGTTTGCACAA
3246005 CAGCAGTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (15 bp):
AAACAGTTTGCACAA
Found at i:3247756 original size:23 final size:23
Alignment explanation
Indices: 3247730--3247774 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3247720 TGGGTATGTG
*
3247730 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
3247753 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
3247775 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:3248649 original size:22 final size:23
Alignment explanation
Indices: 3248624--3248669 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3248614 CAACCAAACC
3248624 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
3248646 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
3248669 A
1 A
3248670 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3248675 original size:23 final size:23
Alignment explanation
Indices: 3248631--3248675 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3248621 ACCAATTCAA
*
3248631 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
3248654 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
3248676 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:3249365 original size:37 final size:37
Alignment explanation
Indices: 3249308--3249412 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
3249298 TATGATCACT
*
3249308 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
3249343 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
3249380 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
3249413 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:3249443 original size:46 final size:46
Alignment explanation
Indices: 3249376--3249690 Score: 405
Period size: 46 Copynumber: 6.6 Consensus size: 46
3249366 TAAGTGTAGC
* * * **
3249376 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
3249422 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
3249468 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCTGAAGCTAT
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
3249520 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
3249566 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
3249612 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTATAGCCGAAGCTAT
3249664 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
3249691 AGTACTCAAA
Statistics
Matches: 240, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 154 0.64
48 2 0.01
50 1 0.00
52 83 0.35
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:3249505 original size:98 final size:95
Alignment explanation
Indices: 3249376--3249690 Score: 387
Period size: 98 Copynumber: 3.3 Consensus size: 95
3249366 TAAGTGTAGC
* * *
3249376 CACTTATCAC--T-TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATC
1 CACTTATCACTTTATTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTTATC
3249438 ACTTGATCAGATAAGTATAGCCGAAGCTAT
66 ACTTGATCAGATAAGTATAGCCGAAGCTAT
*
3249468 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTT
1 CACTTATCACTTT--A-TTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTT
*
3249533 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
63 ATCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
3249566 CACTTATCACTTTA---TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCA
1 CACTTATCACTTTATTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTT--A
* ** *
3249628 CTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
64 ----TCACTTGATCAGATAAGTATAGCCGAAGCTAT
3249664 CACTTATCACTTTA---TCACTTGATCAGA
1 CACTTATCACTTTATTGTCACTTGATCAGA
3249691 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
92 52 0.26
94 1 0.01
96 1 0.01
98 144 0.73
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (95 bp):
CACTTATCACTTTATTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTTATC
ACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:3249633 original size:144 final size:144
Alignment explanation
Indices: 3249375--3249690 Score: 560
Period size: 144 Copynumber: 2.2 Consensus size: 144
3249365 ATAAGTGTAG
* * *
3249375 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCAC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCAC
3249440 TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
66 TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
*
3249505 TATAGCTGAAGCTA
131 TATAGCTAAAGCTA
* *
3249519 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCAC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCAC
3249584 TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
66 TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
*
3249649 TGTAGCTAAAGCTA
131 TATAGCTAAAGCTA
*
3249663 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
3249691 AGTACTCAAA
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 163 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (144 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCAC
TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
TATAGCTAAAGCTA
Found at i:3256090 original size:17 final size:17
Alignment explanation
Indices: 3256070--3256103 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3256060 ATGTTTAGGT
3256070 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
3256087 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
3256104 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:3258241 original size:16 final size:16
Alignment explanation
Indices: 3258220--3258253 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3258210 AACATACTCT
3258220 CCATGCTCCAATGCCA
1 CCATGCTCCAATGCCA
3258236 CCATGCTCCAATGCCA
1 CCATGCTCCAATGCCA
3258252 CC
1 CC
3258254 GCCATCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.47, G:0.12, T:0.18
Consensus pattern (16 bp):
CCATGCTCCAATGCCA
Found at i:3266266 original size:19 final size:20
Alignment explanation
Indices: 3266229--3266268 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3266219 AAATTACGAA
3266229 AAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
3266249 AAAAAA-TCTAAAAT-TTTAT
1 AAAAAATTC-AAAATATTTAT
3266268 A
1 A
3266269 TTTTATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:3266304 original size:22 final size:23
Alignment explanation
Indices: 3266257--3266308 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
3266247 ATAAAAAATC
* **
3266257 TAAAA-TTTTATATTTTATAATT
1 TAAAATTTTTAAATTTTATAAAA
3266279 TAAAATTTTTAAATTTTA-AAAA
1 TAAAATTTTTAAATTTTATAAAA
3266301 TAAAATTT
1 TAAAATTT
3266309 AAAAATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAAATTTTTAAATTTTATAAAA
Found at i:3266309 original size:13 final size:13
Alignment explanation
Indices: 3266288--3266317 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3266278 TTAAAATTTT
*
3266288 TAAATTTTAAAAA
1 TAAAATTTAAAAA
3266301 TAAAATTTAAAAA
1 TAAAATTTAAAAA
3266314 TAAA
1 TAAA
3266318 GAATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAATTTAAAAA
Found at i:3270546 original size:11 final size:11
Alignment explanation
Indices: 3270527--3270587 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
3270517 GTAATTATTT
3270527 AATTAATATAA
1 AATTAATATAA
* *
3270538 AATTTATATTA
1 AATTAATATAA
3270549 AATTCAATTATAA
1 AATT-AA-TATAA
*
3270562 AATT-ATACAA
1 AATTAATATAA
*
3270572 ATATTAATAGAA
1 A-ATTAATATAA
3270584 AATT
1 AATT
3270588 GTTTTTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 5 0.12
11 20 0.50
12 7 0.17
13 8 0.20
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (11 bp):
AATTAATATAA
Found at i:3273455 original size:18 final size:19
Alignment explanation
Indices: 3273432--3273474 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
3273422 TCATATCCCT
*
3273432 TTTTTTTTTTTC-TTCTAA
1 TTTTTTTTGTTCGTTCTAA
*
3273450 -TTTTTTTGTTCGTTGTAA
1 TTTTTTTTGTTCGTTCTAA
3273468 TTTTTTT
1 TTTTTTT
3273475 AAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 5 0.24
19 6 0.29
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTTTTGTTCGTTCTAA
Found at i:3275579 original size:32 final size:34
Alignment explanation
Indices: 3275523--3275591 Score: 115
Period size: 32 Copynumber: 2.1 Consensus size: 34
3275513 AACGGATCCG
3275523 AAATGGACTCTTGTATAGAAAGCCCATTAATTAT
1 AAATGGACTCTTGTATAGAAAGCCCATTAATTAT
*
3275557 AAATGGACT-TTTTA-AGAAAGCCCATTAATTAT
1 AAATGGACTCTTGTATAGAAAGCCCATTAATTAT
3275589 AAA
1 AAA
3275592 CGGGCTTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 21 0.62
33 4 0.12
34 9 0.26
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (34 bp):
AAATGGACTCTTGTATAGAAAGCCCATTAATTAT
Found at i:3300847 original size:50 final size:50
Alignment explanation
Indices: 3300769--3301016 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
3300759 GATAATAACA
* ** *
3300769 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATAGG
* * * * *
3300819 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
3300869 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
3300919 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A---T-AGG
*
3300974 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
3301017 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.01
50 126 0.75
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:3300942 original size:100 final size:104
Alignment explanation
Indices: 3300768--3301016 Score: 373
Period size: 100 Copynumber: 2.4 Consensus size: 104
3300758 TGATAATAAC
*
3300768 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATTTCTCGTGATGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGATGGTGCCCATGCCATGT
* *
3300833 CCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
3300869 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGAT-GGTGCCCATGCCATG
3300932 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
3300974 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
3301017 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 86 0.65
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:3301132 original size:13 final size:13
Alignment explanation
Indices: 3301111--3301142 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3301101 GCTTGGATCA
*
3301111 TCATCAAATAAAT
1 TCATAAAATAAAT
3301124 TCATAAAATAAAT
1 TCATAAAATAAAT
3301137 TCATAA
1 TCATAA
3301143 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:3301389 original size:30 final size:30
Alignment explanation
Indices: 3301354--3301411 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3301344 CCTCGACTCT
*
3301354 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
3301384 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
3301412 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:3302393 original size:22 final size:22
Alignment explanation
Indices: 3302363--3302430 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
3302353 TGCACAAACG
3302363 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
**
3302385 TGCAGAGAGCAC-AAATGTGCTA
1 AACAGAGAGCACTAAA-GTGCTA
*
3302407 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
3302430 A
1 A
3302431 TAATAGAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.08
22 26 0.68
23 7 0.18
24 2 0.05
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:3302443 original size:30 final size:29
Alignment explanation
Indices: 3302407--3302463 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
3302397 AAATGTGCTA
3302407 AACAGAGAGCACTTAACGTGCTAATAATAG
1 AACAGAGAGCAC-TAACGTGCTAATAATAG
*
3302437 AACAGAGAGCACTAATGTGCTAATAAT
1 AACAGAGAGCACTAACGTGCTAATAAT
3302464 CAGAGAGCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (29 bp):
AACAGAGAGCACTAACGTGCTAATAATAG
Found at i:3303595 original size:7 final size:7
Alignment explanation
Indices: 3303585--3303673 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
3303575 TTTTTATGTT
3303585 TTATATA
1 TTATATA
3303592 -T-TATA
1 TTATATA
3303597 TTATATA
1 TTATATA
*
3303604 TAATATA
1 TTATATA
*
3303611 ATA-ATA
1 TTATATA
*
3303617 TAATATA
1 TTATATA
*
3303624 TTATAAA
1 TTATATA
3303631 TTA-ATA
1 TTATATA
*
3303637 CTTAAATA
1 -TTATATA
3303645 TTA-A-A
1 TTATATA
3303650 TTAATATA
1 TT-ATATA
*
3303658 ATATATA
1 TTATATA
*
3303665 ATATATA
1 TTATATA
3303672 TT
1 TT
3303674 TTTATATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 7 0.11
6 10 0.16
7 42 0.66
8 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (7 bp):
TTATATA
Found at i:3324712 original size:16 final size:17
Alignment explanation
Indices: 3324681--3324713 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3324671 TTCATAAGTA
3324681 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
3324698 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
3324714 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:3325061 original size:46 final size:46
Alignment explanation
Indices: 3324994--3325358 Score: 491
Period size: 46 Copynumber: 8.0 Consensus size: 46
3324984 TTATCTTTGA
* * * * * *
3324994 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** ***
3325040 CAGGTTGCCATGGTATATTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
3325085 CATGTTGCCATGGTATCTTTCAACCATGTTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
3325131 CCTGTTGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
3325177 CATGTTGCAATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
3325223 CATGTTGCCATGGTATCTTTCAACCTTGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
3325269 CCTGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
3325315 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
3325359 TTCAGAAAGC
Statistics
Matches: 281, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
44 3 0.01
45 34 0.12
46 244 0.87
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:3325278 original size:138 final size:138
Alignment explanation
Indices: 3324999--3325358 Score: 546
Period size: 138 Copynumber: 2.6 Consensus size: 138
3324989 TTTGACATGA
* * * * *
3324999 TGCCATAGTGTCTTTCAACTATGGTCTTAC-TCATTTTC-TTTCAGGTTGCCATGGTATATTTCA
1 TGCCATGGTGTCTTTCAACCATGGTCTTACAT-A-TTTCATATCATGTTGCCATGGTATCTTTCA
** *** *
3325062 ACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAACCATGTTCTTACACATTT
64 ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
3325126 TATATCCTGT
129 TATATCCTGT
* *
3325136 TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCAATGGTGTCTTTCAAC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
3325201 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCTTGGTCTTACACATTTTA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
3325266 TATCCTGT
131 TATCCTGT
*
3325274 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
3325339 CATGGTCTTACACATTTCAT
66 CATGGTCTTACACATTTCAT
3325359 TTCAGAAAGC
Statistics
Matches: 203, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
136 4 0.02
137 63 0.31
138 136 0.67
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
TATCCTGT
Found at i:3326543 original size:280 final size:280
Alignment explanation
Indices: 3326042--3326607 Score: 1114
Period size: 280 Copynumber: 2.0 Consensus size: 280
3326032 GTTAGGAAAA
3326042 TAAAATTCTTGCAATTTAATCCTTATTTCCAGCTATTATTCTCATACATATTGATAACAGTCCAT
1 TAAAATTCTTGCAATTTAATCCTTATTTCCAGCTATTATTCTCATACATATTGATAACAGTCCAT
3326107 GAATTCTATAAAATATCAGAATTTTCCATAATTTCTACTCTTTTCAATTTAATCCCTAAAACATG
66 GAATTCTATAAAATATCAGAATTTTCCATAATTTCTACTCTTTTCAATTTAATCCCTAAAACATG
3326172 TTTTCTCCCGATCTTGAACTAAATTAATAATTTCATTCAATTTTATAATTTAAATAATAAAATAA
131 TTTTCTCCCGATCTTGAACTAAATTAATAATTTCATTCAATTTTATAATTTAAATAATAAAATAA
3326237 TCCATTTCATGCAATTTGGTCATTTCTAACATTTTTACAAAACTGCCCATAAAGTTTTACTTTTA
196 TCCATTTCATGCAATTTGGTCATTTCTAACATTTTTACAAAACTGCCCATAAAGTTTTACTTTTA
3326302 TTCAATATAGTCCCTGAGCC
261 TTCAATATAGTCCCTGAGCC
3326322 TAAAATTCTTGCAATTTAATCCTTATTTCCAGCTATTATTCTCATACATATTGATAACAGTCCAT
1 TAAAATTCTTGCAATTTAATCCTTATTTCCAGCTATTATTCTCATACATATTGATAACAGTCCAT
3326387 GAATTCTATAAAATATCAGAATTTTCCATAATTTCTACTCTTTTCAATTTAATCCCTAAAACATG
66 GAATTCTATAAAATATCAGAATTTTCCATAATTTCTACTCTTTTCAATTTAATCCCTAAAACATG
3326452 TTTTCTCCCGATCTTGAACTAAATTAATAATTTCATTCAATTTTATAATTTAAATAATAAAATAA
131 TTTTCTCCCGATCTTGAACTAAATTAATAATTTCATTCAATTTTATAATTTAAATAATAAAATAA
* *
3326517 TCCATTTCATGCAATTTGGTCATTTCTAACATTTTTACAAAATTGCTCATAAAGTTTTACTTTTA
196 TCCATTTCATGCAATTTGGTCATTTCTAACATTTTTACAAAACTGCCCATAAAGTTTTACTTTTA
3326582 TTCAATATAGTCCCTGAGCC
261 TTCAATATAGTCCCTGAGCC
3326602 TAAAAT
1 TAAAAT
3326608 ATGCAAATTA
Statistics
Matches: 284, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
280 284 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (280 bp):
TAAAATTCTTGCAATTTAATCCTTATTTCCAGCTATTATTCTCATACATATTGATAACAGTCCAT
GAATTCTATAAAATATCAGAATTTTCCATAATTTCTACTCTTTTCAATTTAATCCCTAAAACATG
TTTTCTCCCGATCTTGAACTAAATTAATAATTTCATTCAATTTTATAATTTAAATAATAAAATAA
TCCATTTCATGCAATTTGGTCATTTCTAACATTTTTACAAAACTGCCCATAAAGTTTTACTTTTA
TTCAATATAGTCCCTGAGCC
Found at i:3328554 original size:21 final size:21
Alignment explanation
Indices: 3328518--3328572 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
3328508 TTAGTTTTTC
3328518 TTATAAAATTAAATCAAATAAAT
1 TTATAAAA-TAAATC-AATAAAT
3328541 TTATAAAA-AAATCAATAAAT
1 TTATAAAATAAATCAATAAAT
3328561 TATGATAAAATA
1 T-T-ATAAAATA
3328573 TAATATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.28
21 6 0.21
22 6 0.21
23 9 0.31
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
TTATAAAATAAATCAATAAAT
Found at i:3328571 original size:19 final size:21
Alignment explanation
Indices: 3328518--3328570 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 21
3328508 TTAGTTTTTC
3328518 TTATAAAATTAAATCAAATAAAT
1 TTATAAAA--AAATCAAATAAAT
3328541 TTATAAAAAAATC-AATAAAT
1 TTATAAAAAAATCAAATAAAT
3328561 TATGATAAAA
1 T-T-ATAAAA
3328571 TATAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.29
21 6 0.21
22 6 0.21
23 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
TTATAAAAAAATCAAATAAAT
Found at i:3328591 original size:17 final size:17
Alignment explanation
Indices: 3328565--3328624 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
3328555 ATAAATTATG
3328565 ATAAAA-TATAATATTT
1 ATAAAATTATAATATTT
3328581 ATAAAATTATAATACATGTT
1 ATAAAATTATAAT--AT-TT
3328601 ATAAAATCTATACA-ATTT
1 ATAAAAT-TATA-ATATTT
3328619 A-AAAAT
1 ATAAAAT
3328625 ACAAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.16
17 11 0.29
18 3 0.08
19 4 0.11
20 9 0.24
21 4 0.11
22 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAAAATTATAATATTT
Found at i:3336927 original size:27 final size:27
Alignment explanation
Indices: 3336889--3336946 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
3336879 TTTCATGAAT
3336889 GAGATAGTTTTCATGTAGCCAGAAAAG
1 GAGATAGTTTTCATGTAGCCAGAAAAG
3336916 GAGATAGTTTTCATGTAGCCAGAAAAG
1 GAGATAGTTTTCATGTAGCCAGAAAAG
3336943 GAGA
1 GAGA
3336947 ACATGAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.24
Consensus pattern (27 bp):
GAGATAGTTTTCATGTAGCCAGAAAAG
Found at i:3348939 original size:23 final size:23
Alignment explanation
Indices: 3348896--3348941 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3348886 ATATACCAAT
**
3348896 ATTTTTTTTAATTAGCTAAATAG
1 ATTTTTTTTAATTAGAGAAATAG
3348919 ATTTTTTTTAATTAGAGAAATAG
1 ATTTTTTTTAATTAGAGAAATAG
3348942 GTGGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTTTTTTTAATTAGAGAAATAG
Found at i:3350973 original size:19 final size:20
Alignment explanation
Indices: 3350943--3350983 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
3350933 AAAATCAAAT
3350943 TAATTTTCAAAATTTTAAAA
1 TAATTTTCAAAATTTTAAAA
3350963 TAATTTT-AAAATTTTAAAA
1 TAATTTTCAAAATTTTAAAA
3350982 TA
1 TA
3350984 TTTATAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATTTTCAAAATTTTAAAA
Found at i:3351053 original size:21 final size:22
Alignment explanation
Indices: 3351027--3351067 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3351017 AGTTATAAAT
3351027 TTAAAAAAACTAA-AAAATATA
1 TTAAAAAAACTAATAAAATATA
*
3351048 TTAAAAAATCTAATAAAATA
1 TTAAAAAAACTAATAAAATA
3351068 ATAATTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
TTAAAAAAACTAATAAAATATA
Found at i:3353771 original size:11 final size:11
Alignment explanation
Indices: 3353757--3353797 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
3353747 TGTTTTCTCT
3353757 CTATTTTGCTA
1 CTATTTTGCTA
*
3353768 CTATTTTACTA
1 CTATTTTGCTA
* *
3353779 TTATATTGCTA
1 CTATTTTGCTA
3353790 CTATTTTG
1 CTATTTTG
3353798 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:3355299 original size:24 final size:25
Alignment explanation
Indices: 3355252--3355299 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
3355242 AGTATTGAAT
*
3355252 TGTATTTTGATTTGTGAATGGAAAG
1 TGTATTTTGATTTGTGAAAGGAAAG
3355277 TGTA-TTTGATTT-TGAAAGTGAAA
1 TGTATTTTGATTTGTGAAAG-GAAA
3355300 TCGTGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (25 bp):
TGTATTTTGATTTGTGAAAGGAAAG
Found at i:3356625 original size:9 final size:9
Alignment explanation
Indices: 3356602--3356645 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
3356592 TAAAATAATG
*
3356602 AAATAAAAT
1 AAATGAAAT
3356611 -AATGAAAT
1 AAATGAAAT
3356619 AAATGAAAT
1 AAATGAAAT
3356628 AAATGAAAT
1 AAATGAAAT
*
3356637 AAAAGAAAT
1 AAATGAAAT
3356646 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 7 0.22
9 25 0.78
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (9 bp):
AAATGAAAT
Found at i:3356631 original size:13 final size:13
Alignment explanation
Indices: 3356584--3356621 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3356574 TTATATTAAT
*
3356584 TAATTAAATAAAA
1 TAATGAAATAAAA
3356597 TAATGAAATAAAA
1 TAATGAAATAAAA
3356610 TAATGAAATAAA
1 TAATGAAATAAA
3356622 TGAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (13 bp):
TAATGAAATAAAA
Found at i:3356649 original size:5 final size:5
Alignment explanation
Indices: 3356598--3356649 Score: 51
Period size: 5 Copynumber: 11.4 Consensus size: 5
3356588 TAAATAAAAT
* *
3356598 AATGA AATAA AAT-- AATGA AAT-A AATGA AAT-A AATGA AAT-A AAAGA
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA
3356643 AATGA AA
1 AATGA AA
3356650 AAGAAAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.08
4 11 0.28
5 25 0.64
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (5 bp):
AATGA
Found at i:3356989 original size:15 final size:15
Alignment explanation
Indices: 3356966--3357013 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
3356956 TATCAAATTT
3356966 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
3356981 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
3356996 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
3357010 ATAT
1 ATAT
3357014 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:3357537 original size:23 final size:23
Alignment explanation
Indices: 3357509--3357566 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
3357499 TAATATTCCG
3357509 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
3357532 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
3357555 GGTGTGTTTGGG
1 GGTGTGTTTGGG
3357567 AGGAATCCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.07, C:0.03, G:0.43, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:3357692 original size:18 final size:19
Alignment explanation
Indices: 3357671--3357711 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3357661 AATGAAATGA
3357671 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
3357689 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
3357708 GAAA
1 GAAA
3357712 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:3361988 original size:13 final size:13
Alignment explanation
Indices: 3361970--3362002 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3361960 TTAATTAATT
3361970 AAATAAAATAAAG
1 AAATAAAATAAAG
*
3361983 AAATAAAATAGAG
1 AAATAAAATAAAG
3361996 AAATAAA
1 AAATAAA
3362003 TGAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAG
Found at i:3362361 original size:15 final size:15
Alignment explanation
Indices: 3362341--3362385 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
3362331 CAAATTTATG
*
3362341 TTGATTGAAATCATT
1 TTGATTGAAATCATA
* *
3362356 TTGATTGAATTTATA
1 TTGATTGAAATCATA
3362371 TTGATTGAAAT-ATA
1 TTGATTGAAATCATA
3362385 T
1 T
3362386 ATTATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (15 bp):
TTGATTGAAATCATA
Found at i:3362909 original size:23 final size:23
Alignment explanation
Indices: 3362881--3362938 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
3362871 TAATATTCCG
3362881 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
3362904 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
3362927 GGTGTGTTTGGG
1 GGTGTGTTTGGG
3362939 AGGAATCCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.07, C:0.03, G:0.43, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:3363064 original size:18 final size:19
Alignment explanation
Indices: 3363043--3363083 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3363033 AATGAAATGA
3363043 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
3363061 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
3363080 GAAA
1 GAAA
3363084 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:3364157 original size:42 final size:40
Alignment explanation
Indices: 3364121--3364218 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 40
3364111 CATAGTTCAA
*
3364121 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATGATGCCATAG-CCAG
* *
3364163 CTATGGTCTTACAAATATTCACATATCGGTGCCATAGCCTAG
1 CTATGGTCTTACACATATTCACATAT-GATGCCATAGCC-AG
3364205 CTATGGTCTTACAC
1 CTATGGTCTTACAC
3364219 GGATCACATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (40 bp):
CTATGGTCTTACACATATTCACATATGATGCCATAGCCAG
Found at i:3364350 original size:48 final size:48
Alignment explanation
Indices: 3364139--3364377 Score: 244
Period size: 48 Copynumber: 5.0 Consensus size: 48
3364129 TTACACATCT
*
3364139 TCACATAAT-GATGCCATAGCCCAGCTATGGTCTTACA---A--ATAT-
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
* *
3364181 TCACATATCGGTGCCATAGCCTAGCTATGGTCTTACACGGATCACATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
* * * * * * *
3364229 TCTC--ACCGATGCCATATCCTAGATATGGTCTTACACAGAAGCACATAA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GGATCACAT-A
* * *
3364277 TCACATCACACCGATGCCATAGCCCAACTATGGTCTTATACGGATCACATA
1 TCACAT---ATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
3364328 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
3364376 TC
1 TC
3364378 TCACTGATGC
Statistics
Matches: 162, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.01
42 32 0.20
45 1 0.01
46 28 0.17
47 10 0.06
48 48 0.30
51 7 0.04
52 7 0.04
53 27 0.17
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (48 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATA
Found at i:3365107 original size:13 final size:13
Alignment explanation
Indices: 3365089--3365118 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3365079 TTCCTGTAAA
3365089 CATTTCACATAAC
1 CATTTCACATAAC
*
3365102 CATTTCATATAAC
1 CATTTCACATAAC
3365115 CATT
1 CATT
3365119 CCATCTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:3365288 original size:46 final size:46
Alignment explanation
Indices: 3365212--3365559 Score: 387
Period size: 46 Copynumber: 7.8 Consensus size: 46
3365202 TGATGTCATA
* * * * *
3365212 GTATCTTTCAACTATAGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCATGTTGCCATG
* **
3365258 GTATCTTTCAACCATGGTCTTATTCATTTTCCCATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* *
3365305 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
3365351 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
3365397 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCAT-
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
3365442 G----------CCATGGTCTTACACATTTCACATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
3365478 GTATCTTTCAACCATGATCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
3365524 GTATCTTTCAACCATGGTTTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
3365560 GAGAGCACAC
Statistics
Matches: 265, Mismatches: 24, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
35 33 0.12
36 1 0.00
45 1 0.00
46 192 0.72
47 38 0.14
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
Found at i:3365454 original size:35 final size:35
Alignment explanation
Indices: 3365408--3365477 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
3365398 TATCTTTCAA
*
3365408 CCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 CCATGGTCTTACACATTTCACATCAGGTTGCCATG
3365443 CCATGGTCTTACACATTTCACATCAGGTTGCCATG
1 CCATGGTCTTACACATTTCACATCAGGTTGCCATG
3365478 GTATCTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (35 bp):
CCATGGTCTTACACATTTCACATCAGGTTGCCATG
Found at i:3365461 original size:81 final size:81
Alignment explanation
Indices: 3365362--3365523 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 81
3365352 TATCTTTCAA
** * *
3365362 CCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CCATGGTCTTACACATTTCACATCACGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTC
3365427 ATATCAGGTTGCCATG
66 ATATCAGGTTGCCATG
*
3365443 CCATGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTC
1 CCATGGTCTTACACATTTCACATCACGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTC
3365508 ATATCAGGTTGCCATG
66 ATATCAGGTTGCCATG
3365524 GTATCTTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.36
Consensus pattern (81 bp):
CCATGGTCTTACACATTTCACATCACGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTC
ATATCAGGTTGCCATG
Done.