Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 115 of 325
Found at i:36255918 original size:44 final size:44
Alignment explanation
Indices: 36255682--36256105 Score: 207
Period size: 44 Copynumber: 9.6 Consensus size: 44
36255672 ATCTTTAGTC
* * * *
36255682 TGCTACACTGCAACTTTAGGGAGATAAGACTAGTGACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACT
* * * * * *
36255726 TACTCCACTGCAACTTAATGGAGATAAGGA-T--TGTTTTGATC-
1 TGCTCCACTGCAACTTCAGGGAGATAA-GACTAGTGATTTCAACT
* * * * *
36255767 TGCTCTACTGCAACTTCA--GAGA-GAGATTTA-TAACTTCAA-T
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGTGATTTCAACT
* * * * * * *
36255807 CTGTTCCACTACAACTTCAGGGAAATAAGATTTGCT-ACCTTC-AGT
1 -TGCTCCACTGCAACTTCAGGGAGATAAGACTAG-TGA-TTTCAACT
36255852 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACT
1 -TGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACT
* * * * * *
36255897 TGCTCCACTGCAACTTTAGGGAGATAA-AAT-TTGTTTTGATC-
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACT
* * * * * *
36255938 TACTCTACTGCAACTTCAGAGACATAAGATCCGTGATTTATAGCTTCAA-T
1 TGCTCCACTGCAACTTCAGGGAGATAAGA--C-T-AGTGAT---TTCAACT
* * * * *
36255988 CTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCT-ATCTTCAA-T
1 -TGCTCCACTGCAACTTCAGGGAGATAAGACTAG-TGAT-TTCAACT
*
36256033 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACC
1 -TGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACT
*
36256078 TCCTCCACTGCAACTTCAGGGAGATAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAG
36256106 GTTTGTTTTG
Statistics
Matches: 289, Mismatches: 62, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
37 2 0.01
38 1 0.00
39 5 0.02
40 4 0.01
41 52 0.18
42 14 0.05
43 7 0.02
44 92 0.32
45 79 0.27
47 5 0.02
48 2 0.01
50 3 0.01
51 23 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGATTTCAACT
Found at i:36256282 original size:181 final size:180
Alignment explanation
Indices: 36255628--36256287 Score: 865
Period size: 181 Copynumber: 3.7 Consensus size: 180
36255618 AGGACTTGTT
* * * * *
36255628 GCTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTTAGTCTGCTACACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* * * *
36255693 AACTTTAGGGAGATAAGACTAGTGACTTCAACCTACTCCACTGCAACTTAATGGAGATAAGGATT
66 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTT-AGGGAGATAAGGTTT
*
36255758 GTTTTGATCTGCTCTACTGCAACTTCAGAG-----AG----A-GATTTATA
130 GTTTTGATCTACTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
* * *
36255799 ACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTACCTTCAGTCTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* * **
36255864 AACTTCAGGGAGATAAGACTAGTGATTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAAATTT
66 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAAC-TTAGGGAGATAAGGTTT
*
36255929 GTTTTGATCTACTCTACTGCAACTTCAGAGACATAAGATCCGTGATTTATA
130 GTTTTGATCTACTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
* *
36255980 GCTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
*
36256045 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTCCTCCACTGCAACTTCAGGGAGATAAGGTTT
66 AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTT-AGGGAGATAAGGTTT
* * * *
36256110 GTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATGATTTATA
130 GTTTTGATCTACTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
* * * * *
36256161 GCTTCAATCTGTTCCACTGCAACTTAAAGGAAATAAGATTTGCTATATTTAGTCTGCTCCACTAC
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* * * ****
36256226 AACTTCAAGGAGATAAGACTCA-TAATTTTCAGCCTACTCCACTATTGCTTAGGGAGATAAGG
66 AACTTCAGGGAGATAAGACT-AGTGA-TTTCAACCTACTCCACTGCAACTTAGGGAGATAAGG
36256288 CTTACCGTCT
Statistics
Matches: 428, Mismatches: 47, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
171 140 0.33
172 2 0.00
176 2 0.00
180 2 0.00
181 263 0.61
182 19 0.04
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (180 bp):
GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACTAGTGATTTCAACCTACTCCACTGCAACTTAGGGAGATAAGGTTTG
TTTTGATCTACTCTACTGCAACTTCAGAGACATAAGATCCATGATTTATA
Found at i:36256363 original size:88 final size:88
Alignment explanation
Indices: 36256271--36256661 Score: 504
Period size: 88 Copynumber: 4.5 Consensus size: 88
36256261 ACTCCACTAT
* * * * *
36256271 TGCTTAGGGAGATAAGGCTTACCGTCTGCGATCTGCTCCACTATTGTTTAGGGAGATAAAATCTA
1 TGCTTAGGGAGTTAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTG
* * *
36256336 TAATTTTTAGTCTGTTACCCTAC
66 TAATCTTCAGCCTGTTACCCTAC
* * * * *
36256359 TGCTTAGGGGGTTAAGGCTCACCGTCTTTGATTTGCTCCACTACTGCTTAAGGAGATAAGAA-CT
1 TGCTTAGGGAGTTAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA-AATCT
*
36256423 GTAATCTTCAGCATGTTACCCTAC
65 GTAATCTTCAGCCTGTTACCCTAC
* * * *
36256447 TGCTTAGGGGGTTAAGGCTCT-CTGTCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCT
1 TGCTTAGGGAGTTAAGGCT-TACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCT
36256511 GTAATCTTCAGCCTGTTACCCTAC
65 GTAATCTTCAGCCTGTTACCCTAC
* * * *
36256535 TGCTTAAGGG-GTTAAAGCTCT-CTGTCTTCGATC-GCTCCGCTACTGCTTAGGGAGATAAGATC
1 TGCTT-AGGGAGTTAAGGCT-TACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATC
36256597 TGTAATCTTCAGCCTGTTACCCTAC
64 TGTAATCTTCAGCCTGTTACCCTAC
*
36256622 TGCTTAGGGAGTTAAGGCTCACCGTCTTCGATCTGCTCCA
1 TGCTTAGGGAGTTAAGGCTTACCGTCTTCGATCTGCTCCA
36256662 TTGCTATCTC
Statistics
Matches: 268, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
86 4 0.01
87 78 0.29
88 180 0.67
89 6 0.02
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (88 bp):
TGCTTAGGGAGTTAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTG
TAATCTTCAGCCTGTTACCCTAC
Found at i:36256447 original size:44 final size:44
Alignment explanation
Indices: 36256399--36256637 Score: 181
Period size: 44 Copynumber: 5.5 Consensus size: 44
36256389 ATTTGCTCCA
* *
36256399 CTACTGCTTAAGGAGATAAGAACTGTAATCTTCAGCATGTTACC
1 CTACTGCTTAGGGAGATAAGAGCTGTAATCTTCAGCATGTTACC
* * * ** *
36256443 CTACTGCTTAGGGGGTTAAG-GCTCTCTGTCTTC-G-ATCCGCT-CC
1 CTACTGCTTAGGGAGATAAGAGCTGT-AATCTTCAGCAT--GTTACC
* *
36256486 ACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGAGCTGTAATCTTCAGCATGTTACC
* * ** *
36256531 CTACTGCTTAAGGG-GTTAA-AGCTCTCTGTCTTC-G-ATCGCT-CC
1 CTACTGCTT-AGGGAGATAAGAGCTGT-AATCTTCAGCAT-GTTACC
* *
36256573 GCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGAGCTGTAATCTTCAGCATGTTACC
*
36256618 CTACTGCTTAGGGAGTTAAG
1 CTACTGCTTAGGGAGATAAG
36256638 GCTCACCGTC
Statistics
Matches: 147, Mismatches: 31, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
42 9 0.06
43 31 0.21
44 93 0.63
45 13 0.09
46 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGAGCTGTAATCTTCAGCATGTTACC
Found at i:36256650 original size:44 final size:43
Alignment explanation
Indices: 36256347--36256650 Score: 135
Period size: 44 Copynumber: 6.9 Consensus size: 43
36256337 AATTTTTAGT
* * *
36256347 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTT-TGAT
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTCA-CGTCTTCAG-C
* * * * * * *
36256391 TTGCT-CCACTACTGCTTAAGGAGATAAGAACTGTA-ATCTTCAGC
1 CTGTTACC-CTACTGCTTAGGGAGTTAAG-GCT-CACGTCTTCAGC
* * * *
36256435 ATGTTACCCTACTGCTTAGGGGGTTAAGGCTCTCTGTCTTCGATC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTCAC-GTCTTC-AGC
* * * * *
36256480 C-GCT-CCACTACTGCTTAGGGAGATAAGATCTGTA-ATCTTCAGC
1 CTGTTACC-CTACTGCTTAGGGAGTTAAG-GCT-CACGTCTTCAGC
* *
36256523 CTGTTACCCTACTGCTTAAGGG-GTTAAAGCTCTCTGTCTTC-G-
1 CTGTTACCCTACTGCTT-AGGGAGTTAAGGCTCAC-GTCTTCAGC
* * * * * *
36256565 ATCGCT-CCGCTACTGCTTAGGGAGATAAGATCTGTA-ATCTTCAGC
1 CT-GTTACC-CTACTGCTTAGGGAGTTAAG-GCT-CACGTCTTCAGC
36256610 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTCACCGTCTTC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTCA-CGTCTTC
36256651 GATCTGCTCC
Statistics
Matches: 184, Mismatches: 50, Indels: 52
0.64 0.17 0.18
Matches are distributed among these distances:
42 8 0.04
43 34 0.18
44 123 0.67
45 18 0.10
46 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGAGTTAAGGCTCACGTCTTCAGC
Found at i:36258483 original size:20 final size:20
Alignment explanation
Indices: 36258460--36258501 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
36258450 TTTTGTTGTC
36258460 TTTTT-TACTTTTTTCTTCT
1 TTTTTATACTTTTTTCTTCT
*
36258479 TTTTTATATTTTTTTCTTCT
1 TTTTTATACTTTTTTCTTCT
36258499 TTT
1 TTT
36258502 GTGTGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTATACTTTTTTCTTCT
Found at i:36258506 original size:2 final size:2
Alignment explanation
Indices: 36258501--36258525 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36258491 TTTCTTCTTT
36258501 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
36258526 TTTAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:36259264 original size:16 final size:16
Alignment explanation
Indices: 36259243--36259273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36259233 ATGGTATGAT
36259243 CATGAAAAAAAGAATA
1 CATGAAAAAAAGAATA
*
36259259 CATGAAAAAGAGAAT
1 CATGAAAAAAAGAAT
36259274 CTAAGAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (16 bp):
CATGAAAAAAAGAATA
Found at i:36260658 original size:29 final size:29
Alignment explanation
Indices: 36260611--36260679 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
36260601 ACAAGGACGA
*
36260611 ATGAAAATGCAACGAAAGGATCTCTTATT
1 ATGAAAATGCAACGAAAGGATCTCTTATG
* *
36260640 ATGAAAATGCAATGTAAGGATCTCTTATG
1 ATGAAAATGCAACGAAAGGATCTCTTATG
36260669 ATGAAAATGCA
1 ATGAAAATGCA
36260680 GTGTGATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (29 bp):
ATGAAAATGCAACGAAAGGATCTCTTATG
Found at i:36262468 original size:19 final size:16
Alignment explanation
Indices: 36262438--36262485 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
36262428 ACAAGTAGGC
*
36262438 AAGAAAAATAAATAGAT
1 AAGAAAACTAAATA-AT
36262455 AAATGAAAACTAAATAAT
1 -AA-GAAAACTAAATAAT
36262473 AAGAAAAC-AAATA
1 AAGAAAACTAAATA
36262486 TAGGTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (16 bp):
AAGAAAACTAAATAAT
Found at i:36262505 original size:3 final size:3
Alignment explanation
Indices: 36262497--36262829 Score: 89
Period size: 3 Copynumber: 109.7 Consensus size: 3
36262487 AGGTGAAAGT
* * * * * ** *
36262497 ATA ATA ATA GTA ATA AT- ACA ATA CTA ATA ACA ATA ATA AAA AGG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
36262544 ATA ATA ATA AT- ATA TTAA ATA GTA A-A ATAA ATA ATA GTA ACA GTA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* *
36262589 ATTA AAA ATA ATA ATA ATA ATA GA-A ATTA AGGA ATA ATA ATA AT- ATCA
1 A-TA ATA ATA ATA ATA ATA ATA -ATA A-TA A-TA ATA ATA ATA ATA AT-A
** * * * * *
36262637 ACC AT- ATT ATAA ATA ATAA ATA AAA ACA AAA ATC ATA ATA ATA A-A
1 ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * **
36262682 AT- ATA AGTA ATA GTA ATG ATA ATG GTA ATA ACG ATA ATAA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
36262728 GTA GTA GATA ATGA A-A ATA ATA ATA GTA ATA ATA ATA ATGA A-A ATA
1 ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
** * * *
36262774 GGGA A-A ATA ATA ATA GTA ATG ATA ATA A-A TATA AGTA ATA GTA A-A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA ATA ATA
*
36262819 ATA ATA TTA AT
1 ATA ATA ATA AT
36262830 TAATTAATTA
Statistics
Matches: 234, Mismatches: 67, Indels: 58
0.65 0.19 0.16
Matches are distributed among these distances:
2 23 0.10
3 175 0.75
4 36 0.15
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:36262601 original size:25 final size:25
Alignment explanation
Indices: 36262567--36262633 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
36262557 ATTAAATAGT
* *
36262567 AAAATAAATAATAGTAACAGTAATTA
1 AAAAT-AATAATAATAACAGAAATTA
*
36262593 AAAATAATAATAATAATAGAAATTA
1 AAAATAATAATAATAACAGAAATTA
*
36262618 AGGAATAATAATAATA
1 A-AAATAATAATAATA
36262634 TCAACCATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 18 0.50
26 18 0.50
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.27
Consensus pattern (25 bp):
AAAATAATAATAATAACAGAAATTA
Found at i:36262745 original size:22 final size:21
Alignment explanation
Indices: 36262720--36262760 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
36262710 TAACGATAAT
*
36262720 AAATAATAGTAGTAGATAATGA
1 AAATAATAATAGTA-ATAATGA
36262742 AAATAATAATAGTAATAAT
1 AAATAATAATAGTAATAAT
36262761 AATAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (21 bp):
AAATAATAATAGTAATAATGA
Found at i:36263920 original size:11 final size:11
Alignment explanation
Indices: 36263893--36263939 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
36263883 GGGTTGATAA
*
36263893 TTGGGTTTAGGT
1 TTGGGTTT-GTT
*
36263905 TTGGGTTGGTT
1 TTGGGTTTGTT
*
36263916 TTGGGTTTGTA
1 TTGGGTTTGTT
36263927 TTGGGTTTGTT
1 TTGGGTTTGTT
36263938 TT
1 TT
36263940 AGCTCGGGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.04, C:0.00, G:0.38, T:0.57
Consensus pattern (11 bp):
TTGGGTTTGTT
Found at i:36265260 original size:15 final size:15
Alignment explanation
Indices: 36265240--36265269 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36265230 AATTTTATTT
*
36265240 ATATTAGGATAATTA
1 ATATTAAGATAATTA
36265255 ATATTAAGATAATTA
1 ATATTAAGATAATTA
36265270 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:36265297 original size:27 final size:26
Alignment explanation
Indices: 36265236--36265298 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
36265226 ACTCAATTTT
36265236 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
36265263 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
36265291 ATTTTATT
1 ATTTTATT
36265299 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:36266759 original size:21 final size:22
Alignment explanation
Indices: 36266733--36266786 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 22
36266723 GGTGATGATA
36266733 TTTCTTTAAA-CTCAATTTTCC
1 TTTCTTTAAATCTCAATTTTCC
36266754 TTTCTTTGTAAATTGCTCAATTTTCC
1 TTTC-TT-TAAA-T-CTCAATTTTCC
36266780 TTTCTTT
1 TTTCTTT
36266787 GTAAAATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 4 0.14
24 1 0.04
25 2 0.07
26 15 0.54
ACGTcount: A:0.19, C:0.20, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTCTTTAAATCTCAATTTTCC
Found at i:36266773 original size:26 final size:27
Alignment explanation
Indices: 36266743--36266796 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
36266733 TTTCTTTAAA
36266743 CTCAATTTTCCTTTCTTTGT-AAATTG
1 CTCAATTTTCCTTTCTTTGTAAAATTG
36266769 CTCAATTTTCCTTTCTTTGTAAAATTG
1 CTCAATTTTCCTTTCTTTGTAAAATTG
36266796 C
1 C
36266797 ATGATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.52
Consensus pattern (27 bp):
CTCAATTTTCCTTTCTTTGTAAAATTG
Found at i:36268254 original size:63 final size:63
Alignment explanation
Indices: 36268155--36268287 Score: 212
Period size: 63 Copynumber: 2.1 Consensus size: 63
36268145 GAATATTTCG
* * *
36268155 AACATGGTATCTGTTAAGAGTGTGTTAAAAAACATTTAAGAGAAATGACATAAGGTGCGAGTA
1 AACATGGTATCTGTAAAGAGCGTGTTAAAAAACATTTAAGAGAAATAACATAAGGTGCGAGTA
* * *
36268218 AACATGGTATCTGTAAAGAGCGTGTTCAAAAACATTTAAGAGAAATAATATAAGGTGTGAGTA
1 AACATGGTATCTGTAAAGAGCGTGTTAAAAAACATTTAAGAGAAATAACATAAGGTGCGAGTA
36268281 AACATGG
1 AACATGG
36268288 GCAGTAGTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.26
Consensus pattern (63 bp):
AACATGGTATCTGTAAAGAGCGTGTTAAAAAACATTTAAGAGAAATAACATAAGGTGCGAGTA
Found at i:36272492 original size:17 final size:17
Alignment explanation
Indices: 36272472--36272506 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
36272462 TTATTGATTG
36272472 TATTATTTTAT-TAAAAT
1 TATTA-TTTATGTAAAAT
36272489 TATTATTTATGTAAAAT
1 TATTATTTATGTAAAAT
36272506 T
1 T
36272507 GTTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATTTATGTAAAAT
Found at i:36273025 original size:15 final size:15
Alignment explanation
Indices: 36273005--36273034 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36272995 TTTTTAATAC
*
36273005 TTTTGAGTATTTTAT
1 TTTTGAATATTTTAT
36273020 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
36273035 AATTATTAAA
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:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTTGAATATTTTAT
Found at i:36274893 original size:43 final size:42
Alignment explanation
Indices: 36274813--36274901 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
36274803 AGAAGTGGAA
36274813 AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAGG
1 AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAGG
* **
36274855 AAATTGGAAAATGAATATCTTTTTTACTTATGAAAAAAAAGG
1 AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAGG
*
36274897 GAATT
1 AAATT
36274902 TTGGTAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.31
Consensus pattern (42 bp):
AAATTGGAAAAAGAATATCTTTTTTACTTACAAAAAAAAAGG
Found at i:36281731 original size:51 final size:48
Alignment explanation
Indices: 36281624--36281781 Score: 130
Period size: 51 Copynumber: 3.2 Consensus size: 48
36281614 ACATAAATAC
** *
36281624 ACAT-ATATATGTTAAAAATATATACATAATA-AGGATATTAAAAGCATGT
1 ACATAATATATGTT-AAAA-ATATACATAATATA-GATATTAAAAATATAT
** *
36281673 ATGTAATATAGTGTTAAAAATGCATACATAATATAGTTATTAAAAATATAT
1 ACATAATATA-TGTTAAAAAT--ATACATAATATAGATATTAAAAATATAT
*
36281724 ACATAATATA--ATAAAATATATGA-ATAATAT-GATATTAAAAAATATAT
1 ACATAATATATGTTAAAA-ATAT-ACATAATATAGATATT-AAAAATATAT
36281771 ACATAATATAT
1 ACATAATATAT
36281782 AAAAAATATA
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
46 5 0.06
47 29 0.32
48 6 0.07
49 6 0.07
50 9 0.10
51 34 0.38
52 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (48 bp):
ACATAATATATGTTAAAAATATACATAATATAGATATTAAAAATATAT
Found at i:36281740 original size:21 final size:21
Alignment explanation
Indices: 36281715--36281821 Score: 94
Period size: 21 Copynumber: 4.9 Consensus size: 21
36281705 ATAGTTATTA
36281715 AAAATATATACATAATATAAT
1 AAAATATATACATAATATAAT
36281736 AAAATATATGA-ATAATATGATATT
1 AAAATATAT-ACATAATAT-A-A-T
36281760 AAAAAATATATACATAATAT-AT
1 --AAAATATATACATAATATAAT
* * * *
36281782 AAAAAATATA-ATATTTTAAA
1 AAAATATATACATAATATAAT
36281802 AAAATAATATACATAATATA
1 AAAAT-ATATACATAATATA
36281822 TGTAGACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
19 5 0.07
20 14 0.20
21 21 0.30
22 9 0.13
23 2 0.03
24 1 0.01
25 1 0.01
26 16 0.23
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAATATATACATAATATAAT
Found at i:36281765 original size:47 final size:42
Alignment explanation
Indices: 36281700--36281821 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 42
36281690 AAATGCATAC
36281700 ATAATATAGTTATT-AAAAATATATACATAATATAATAAAATATAT
1 ATAATAT-G-TATTAAAAAATATATACATAATATAATAAAA-A-AT
36281745 GAATAATATGATATTAAAAAATATATACATAATAT-ATAAAAAAT
1 --ATAATATG-TATTAAAAAATATATACATAATATAATAAAAAAT
36281789 ATAATAT-T-TTAAAAAAATAATATACATAATATA
1 ATAATATGTATT-AAAAAAT-ATATACATAATATA
36281822 TGTAGACACT
Statistics
Matches: 70, Mismatches: 1, Indels: 13
0.83 0.01 0.15
Matches are distributed among these distances:
39 2 0.03
40 8 0.11
41 13 0.19
42 7 0.10
44 2 0.03
45 1 0.01
46 11 0.16
47 26 0.37
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (42 bp):
ATAATATGTATTAAAAAATATATACATAATATAATAAAAAAT
Found at i:36281767 original size:18 final size:18
Alignment explanation
Indices: 36281746--36281810 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
36281736 AAAATATATG
36281746 AATAAT-ATGATATTAAAA
1 AATAATAAT-ATATTAAAA
36281764 AATATATACATAATATATAAAA
1 AATA-ATA-AT-ATAT-TAAAA
*
36281786 AAT-ATAATATTTTAAAAA
1 AATAATAATATATT-AAAA
36281804 AATAATA
1 AATAATA
36281811 TACATAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 1 0.03
18 14 0.36
19 7 0.18
20 3 0.08
21 6 0.15
22 8 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATATTAAAA
Found at i:36281779 original size:26 final size:25
Alignment explanation
Indices: 36281635--36281791 Score: 116
Period size: 26 Copynumber: 6.4 Consensus size: 25
36281625 CATATATATG
*
36281635 TTAAAAATATATACATAATAAGGATA
1 TTAAAAATATATACATAAT-ATGATA
** * ** *
36281661 TTAAAAGCATGTATGTAATAT-AGTG
1 TTAAAAATATATACATAATATGA-TA
** *
36281686 TTAAAAATGCATACATAATATAGTTA
1 TTAAAAATATATACATAATAT-GATA
36281712 TTAAAAATATATACATAATAT-A-A
1 TTAAAAATATATACATAATATGATA
36281735 -T-AAAATATATGA-ATAATATGATA
1 TTAAAAATATAT-ACATAATATGATA
36281758 TTAAAAAATATATACATAATAT-ATA
1 TT-AAAAATATATACATAATATGATA
36281783 --AAAAATATA
1 TTAAAAATATA
36281792 ATATTTTAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
21 16 0.16
22 12 0.12
23 2 0.02
24 2 0.02
25 20 0.20
26 50 0.49
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
TTAAAAATATATACATAATATGATA
Found at i:36281780 original size:37 final size:40
Alignment explanation
Indices: 36281738--36281823 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 40
36281728 AATATAATAA
* *
36281738 AATATATGAATAATATGATA-TT-AAAAAAT-ATATACAT
1 AATATATGAAAAATATAATATTTAAAAAAATAATATACAT
*
36281775 AATATATAAAAAATATAATATTTTAAAAAAATAATATACAT
1 AATATATGAAAAATATAATA-TTTAAAAAAATAATATACAT
36281816 AATATATG
1 AATATATG
36281824 TAGACACTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 17 0.41
39 2 0.05
40 7 0.17
41 15 0.37
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (40 bp):
AATATATGAAAAATATAATATTTAAAAAAATAATATACAT
Found at i:36281794 original size:16 final size:15
Alignment explanation
Indices: 36281773--36281812 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
36281763 AAATATATAC
36281773 ATAATATATAAAAAA
1 ATAATATATAAAAAA
*
36281788 TATAATATTTTAAAAAA
1 -ATAATA-TATAAAAAA
36281805 ATAATATA
1 ATAATATA
36281813 CATAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATATATAAAAAA
Found at i:36282030 original size:16 final size:17
Alignment explanation
Indices: 36281980--36282030 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
36281970 ATGGAAATAT
*
36281980 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
36281997 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
36282016 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
36282031 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:36282049 original size:22 final size:21
Alignment explanation
Indices: 36281990--36282032 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
36281980 AATCTTTAAG
36281990 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
36282009 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
36282030 GAT
1 GAT
36282033 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:36288791 original size:8 final size:7
Alignment explanation
Indices: 36288778--36288851 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 7
36288768 TCTATTTCAA
36288778 AAAAAAGG
1 AAAAAA-G
36288786 AAAAAA-
1 AAAAAAG
*
36288792 AGAAAAG
1 AAAAAAG
36288799 AAAAAGAG
1 AAAAA-AG
*
36288807 AAAAAAA
1 AAAAAAG
36288814 ATAAAAAG
1 A-AAAAAG
36288822 AAAAAAGAG
1 -AAAAA-AG
36288831 AAAAAAAG
1 -AAAAAAG
36288839 AAAAAAG
1 AAAAAAG
36288846 AAAAAA
1 AAAAAA
36288852 TGGAGAGGCC
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
6 5 0.09
7 19 0.33
8 24 0.42
9 9 0.16
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:36288802 original size:23 final size:22
Alignment explanation
Indices: 36288776--36288851 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
36288766 CTTCTATTTC
36288776 AAAAAAAAGGAAAAAAAGAAAA
1 AAAAAAAAGGAAAAAAAGAAAA
* * * *
36288798 GAAAAAGAGAAAAAAAATAAAA
1 AAAAAAAAGGAAAAAAAGAAAA
*
36288820 AGAAAAAAGAGAAAAAAAGAAAA
1 AAAAAAAAG-GAAAAAAAGAAAA
36288843 AAGAAAAAA
1 AA-AAAAAA
36288852 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
22 24 0.57
23 12 0.29
24 6 0.14
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAAAAAGGAAAAAAAGAAAA
Found at i:36288814 original size:17 final size:16
Alignment explanation
Indices: 36288778--36288851 Score: 84
Period size: 15 Copynumber: 4.8 Consensus size: 16
36288768 TCTATTTCAA
*
36288778 AAAAAAGGAAAAAAAG
1 AAAAAAGAAAAAAAAG
*
36288794 --AAAAG-AAAAAGAG
1 AAAAAAGAAAAAAAAG
*
36288807 AAAAAA-AATAAAAAG
1 AAAAAAGAAAAAAAAG
36288822 AAAAAAGAGAAAAAAAG
1 AAAAAAGA-AAAAAAAG
36288839 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
36288852 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 7 0.14
14 5 0.10
15 16 0.33
16 6 0.12
17 15 0.31
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:36288833 original size:32 final size:31
Alignment explanation
Indices: 36288776--36288844 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
36288766 CTTCTATTTC
* *
36288776 AAAAAAAAGGAAAAAAAGAAAAGAAAAAGAG
1 AAAAAAAAGGAAAAAAAAAAAAGAAAAAAAG
*
36288807 AAAAAAAA-TAAAAAGAAAAAAGAGAAAAAAAG
1 AAAAAAAAGGAAAAA-AAAAAA-AGAAAAAAAG
36288839 AAAAAA
1 AAAAAA
36288845 GAAAAAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 5 0.15
31 13 0.39
32 15 0.45
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (31 bp):
AAAAAAAAGGAAAAAAAAAAAAGAAAAAAAG
Found at i:36288851 original size:24 final size:24
Alignment explanation
Indices: 36288778--36288851 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
36288768 TCTATTTCAA
36288778 AAAAAAG-GAAAAAAAG--AAAAG
1 AAAAAAGAGAAAAAAAGAAAAAAG
36288799 -AAAAAGAGAAAAAAA-ATAAAAAG
1 AAAAAAGAGAAAAAAAGA-AAAAAG
36288822 AAAAAAGAGAAAAAAAGAAAAAAG
1 AAAAAAGAGAAAAAAAGAAAAAAG
36288846 AAAAAA
1 AAAAAA
36288852 TGGAGAGGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.13
21 8 0.17
23 5 0.11
24 27 0.57
25 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (24 bp):
AAAAAAGAGAAAAAAAGAAAAAAG
Found at i:36289946 original size:43 final size:43
Alignment explanation
Indices: 36289891--36290446 Score: 174
Period size: 43 Copynumber: 13.3 Consensus size: 43
36289881 CGCCTTAATC
*
36289891 CCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * * *
36289934 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCT
*
36289975 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * *
36290018 CCCTAAGCAGTAGTGG-AACAGATCGAAGA-CT-C-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCT
* *
36290059 CCCTGAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * ** * * *
36290097 CCCTAAGCAGTAGCGG-AGCA-GATCGATGATGACTCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAAT-TTG-C-AGATCTT-ATCT
*
36290141 CCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * ** *
36290184 CCCTAAGCAGTAGTGG-AGCAGATCGAA---G-ACATGCTTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGAT-C-TT-ATCT
** *
36290225 CTTTAAGC-GATAGGGTAACAAGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAG-TAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* ** *
36290268 CCCTAAGCAGTAGTGG-AGCATATTGAAGA-CT-C-G-TCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGCAGATCTT-ATCT
*
36290309 CCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * ** *
36290347 CCTTAAGCAGTAGAGG-AGCA-GATCGA-TGGC-GACTCACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGA-T---CTT-ATCT
*
36290391 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
*
36290434 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
36290447 TGGAGTAGAT
Statistics
Matches: 371, Mismatches: 72, Indels: 140
0.64 0.12 0.24
Matches are distributed among these distances:
36 2 0.01
37 11 0.03
38 39 0.11
39 8 0.02
40 16 0.04
41 84 0.23
42 27 0.07
43 100 0.27
44 59 0.16
45 20 0.05
46 3 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:36289987 original size:41 final size:40
Alignment explanation
Indices: 36289799--36290161 Score: 166
Period size: 43 Copynumber: 8.8 Consensus size: 40
36289789 CAAAATTCAG
* * *
36289799 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTCGCAGA-T
1 CGCCTTAATCCCCTAAGCAGTAGGG-AACA-GATCGAAGACT
* *
36289840 ---CTT-ATCTCCCTAAGCAGTAGCGGAGCATATCGACGATGACT
1 CGCCTTAATC-CCCTAAGCAGTAG-GGAACAGATCGA--A-GACT
* * * *
36289881 CGCCTTAATCCCCTAAGCAGTAGGGTAATAGGT-TAA-ATTT
1 CGCCTTAATCCCCTAAGCAGTAGGG-AACAGATCGAAGA-CT
* *
36289921 GCAGATCTT-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT
1 -C-G-CCTTAATC-CCCTAAGCAGTAG-GGAACAGATCGAAGACT
* * *
36289965 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT-TAA-ATT
1 CGCCTTAATCCCCTAAGCAGTAGGG-AACAGATCGAAGACT
*
36290004 TGCAAATCTT-ATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACT
1 CGC----CTTAATC-CCCTAAGCAGTAG-GGAACAGATCGAAGACT
* *
36290049 CGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTTC-ACAGA-T
1 CGCCTTAATCCCCTAAGCAGTAGGG-AACA-GATCGA-AGACT
*
36290090 ---CTT-ATCTCCCTAAGCAGTAGCGGAGCAGATCGATGATGACT
1 CGCCTTAATC-CCCTAAGCAGTAG-GGAACAGATCGA--A-GACT
*
36290131 CGCCTTAATCCCTTAAGCAGTAGGGTAACAG
1 CGCCTTAATCCCCTAAGCAGTAGGG-AACAG
36290162 GTTAAATTTG
Statistics
Matches: 243, Mismatches: 35, Indels: 85
0.67 0.10 0.23
Matches are distributed among these distances:
37 12 0.05
38 37 0.15
39 11 0.05
40 11 0.05
41 46 0.19
42 20 0.08
43 48 0.20
44 47 0.19
45 11 0.05
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (40 bp):
CGCCTTAATCCCCTAAGCAGTAGGGAACAGATCGAAGACT
Found at i:36289998 original size:84 final size:84
Alignment explanation
Indices: 36289799--36290501 Score: 893
Period size: 84 Copynumber: 8.4 Consensus size: 84
36289789 CAAAATTCAG
* *
36289799 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
36289859 GCGGAGCATATCGACGATGACT
66 GTGGAGCAGATCGA--A-GACT
*
36289881 CGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
36289946 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
36289965 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
36290030 GTGGAACAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
36290049 CGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
36290109 GCGGAGCAGATCGATGATGACT
66 GTGGAGCAGATCGA--A-GACT
*
36290131 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
36290196 GTGGAGCAGATCGAAGACAT
66 GTGGAGCAGATCGAAGAC-T
* ** *
36290216 -GCTTTAATCCTTTAAGC-GATAGGGTAACAAGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAG-TAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
* *
36290279 AGTGGAGCATATTGAAGACT
65 AGTGGAGCAGATCGAAGACT
* * *
36290299 CGTCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
36290359 GAGGAGCAGATCGATGGCGACT
66 GTGGAGCAGATCGA---AGACT
* * *
36290381 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
36290446 GTGGAGTAGATTGAAGA-T
66 GTGGAGCAGATCGAAGACT
* ** *
36290464 GCGCCTTAACCCCCTAAATAGTAGGGTAATAGGTTAAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
36290502 GTATAGCAGA
Statistics
Matches: 547, Mismatches: 48, Indels: 50
0.85 0.07 0.08
Matches are distributed among these distances:
79 72 0.13
81 1 0.00
82 100 0.18
83 5 0.01
84 254 0.46
85 4 0.01
87 111 0.20
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:36290133 original size:166 final size:169
Alignment explanation
Indices: 36289799--36290501 Score: 808
Period size: 166 Copynumber: 4.2 Consensus size: 169
36289789 CAAAATTCAG
*
36289799 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTA
* * *
36289859 GCGGAGCATATCGACGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCA
66 GTGGAGCAGATCGA-GA-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CA
36289924 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA--A-GACT
126 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACT
* *
36289965 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTA
* * *
36290030 GTGGAACAGATCGA-AGACTCGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTT-CA-CAGATCT
66 GTGGAGCAGATCGAGAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCT
*
36290092 TATCTCCCTAAGCAGTAGCGGAGCAGATCGATGATGACT
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACT
* *
36290131 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTA
* ** *
36290196 GTGGAGCAGATCGA-AGACAT-GCTTTAATCCTTTAAGC-GATAGGGTAACAAGTTAAATTTGCA
66 GTGGAGCAGATCGAGAGAC-TCGCCTTAATCCCCTAAGCAG-TAGGGTAACAGGTTAAA--T-CA
* *
36290258 GATCTTATCTCCCTAAGCAGTAGTGGAGCATAT---TGAAGACT
126 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACT
* *
36290299 CGTCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTA
* * * *
36290359 GAGGAGCAGATCGATGGCGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTA
66 GTGGAGCAGATCGA--GAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CA
* * * *
36290424 GATCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATG---
126 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACT
* ** *
36290465 CGCCTTAACCCCCTAAATAGTAGGGTAATAGGTTAAA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
36290502 GTATAGCAGA
Statistics
Matches: 465, Mismatches: 44, Indels: 51
0.83 0.08 0.09
Matches are distributed among these distances:
163 76 0.16
165 3 0.01
166 235 0.51
167 4 0.01
168 73 0.16
169 4 0.01
171 70 0.15
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (169 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTCGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAGAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGATGATGACT
Found at i:36290241 original size:250 final size:250
Alignment explanation
Indices: 36289799--36290501 Score: 1088
Period size: 250 Copynumber: 2.8 Consensus size: 250
36289789 CAAAATTCAG
*
36289799 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
* * *
36289864 GCATATCGACGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCT
66 GCAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
36289929 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
*
36289994 AGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACT
196 AAGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACT
* *
36290049 CGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
*
36290114 GCAGATCGATGATGACTCGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
66 GCAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* **
36290179 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAT-GCTTTAATCCTTTAAGC-GATAGGGTA
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-TCGCCTTAATCCCCTAAGCAG-TAGGGTA
* * * *
36290242 ACAAGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATTGAAGACT
194 ACAAGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACT
* * *
36290299 CGTCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCTTAAGCAGTAGAGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
** * *
36290364 GCAGATCGATGGCGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCT
66 GCAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* * * * **
36290429 TATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGA-TGCGCCTTAACCCCCTAAATAGTAGGGTAA
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT-CGCCTTAATCCCCTAAGCAGTAGGGTAA
* *
36290493 TAGGTTAAA
195 CAAGTTAAA
36290502 GTATAGCAGA
Statistics
Matches: 412, Mismatches: 36, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
248 1 0.00
249 1 0.00
250 408 0.99
251 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (250 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
GCAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAAC
AAGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACT
Found at i:36290917 original size:44 final size:44
Alignment explanation
Indices: 36290865--36291075 Score: 185
Period size: 44 Copynumber: 4.8 Consensus size: 44
36290855 GATTTCAGCA
*
36290865 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATATCTGATT
1 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATATCAGATT
* * *
36290909 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATATCAGATC
1 TGACATCCCTGTGTTTATAGGGAACAAG-TTGAAGATATCAGATT
* * * * ** * * **
36290953 TGACATTCCTGTGCTTACAGTGAA-ACAGATCAAAGATTTTA-ACA
1 TGACATCCCTGTGTTTATAGGGAACA-AG-TTGAAGATATCAGATT
* * *
36290997 TGACATCTCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGGTT
1 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATATCAGATT
* * * *
36291041 TGACATCCCTATGTTTACAAGGAACAAATTGAAGA
1 TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGA
36291076 CATAGCAGAT
Statistics
Matches: 130, Mismatches: 32, Indels: 10
0.76 0.19 0.06
Matches are distributed among these distances:
43 9 0.07
44 108 0.83
45 13 0.10
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATATCAGATT
Found at i:36290989 original size:132 final size:132
Alignment explanation
Indices: 36290772--36291089 Score: 404
Period size: 132 Copynumber: 2.4 Consensus size: 132
36290762 ATCCAAGATA
* * *
36290772 ATTTGGCATCCCTGTATTT-TCAGGGAACAGATCAAAGACGTAGCAGATCTAACATTCCTATGCT
1 ATTTGGCATCCCTGTGTTTAT-AGGGAACAGATCGAAGA--TAGCAGATCTGACATTCCTATGCT
* * *
36290836 TACAGCGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
63 TACAGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
* *
36290901 ATCTG
128 AGCAG
* *
36290906 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATATCAGATCTGACATTCCTGTGCTTAC
1 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTAC
* * *
36290971 AGTGAAACAGATCAAAGATTTTAACATGACATCTCTGTGTTTATAGGGAACAAGTTGAAGATAGC
66 AGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
36291036 AG
131 AG
* * * * * * *
36291038 GTTTGACATCCCTATGTTTACAAGGAACAAATTGAAGACATAGCAGATCTGA
1 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGA
36291090 TTTTTGGATG
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
132 113 0.71
134 46 0.29
135 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (132 bp):
ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTAC
AGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
AG
Found at i:36291242 original size:174 final size:175
Alignment explanation
Indices: 36291052--36291443 Score: 606
Period size: 174 Copynumber: 2.2 Consensus size: 175
36291042 GACATCCCTA
* * * * *
36291052 TGTTTACAAGGAACAAATTGAAGACATAGCAGATCTGATTTTTGGATGTTCTCACACAAAAGCAG
1 TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTATCACACAAAAGCAA
* * *
36291117 ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTT
66 ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
* * *
36291182 CAGATG-TTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTG
131 CAGATGATTATACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
* * *
36291226 TGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTATTACACCAAAGCAA
1 TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTATCACACAAAAGCAA
36291291 ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
66 ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
*
36291356 CAGATGATTTTACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
131 CAGATGATTATACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
* * * *
36291401 TGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGGCTTTC
1 TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTC
36291444 ACGTGTTTAC
Statistics
Matches: 199, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
174 125 0.63
175 74 0.37
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
TGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTATCACACAAAAGCAA
ATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
CAGATGATTATACTGAAGCAGATCCAAAATGATTTGGCATCCTTG
Found at i:36293535 original size:15 final size:15
Alignment explanation
Indices: 36293515--36293543 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36293505 CTAATAATAT
36293515 TAATAATAAATATAA
1 TAATAATAAATATAA
36293530 TAATAATAAATATA
1 TAATAATAAATATA
36293544 TGTACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:36293629 original size:26 final size:25
Alignment explanation
Indices: 36293589--36293641 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
36293579 AAAATATAAC
* * *
36293589 TAAATATAATATGATGATAATAATA
1 TAAAAATAATATGATAACAATAATA
36293614 TAAAAATAATAGTGATAACAATAATA
1 TAAAAATAATA-TGATAACAATAATA
36293640 TA
1 TA
36293642 TATAACATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (25 bp):
TAAAAATAATATGATAACAATAATA
Found at i:36294282 original size:2 final size:2
Alignment explanation
Indices: 36294277--36294301 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36294267 TATATATATA
36294277 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
36294302 ATAGATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:36296124 original size:30 final size:29
Alignment explanation
Indices: 36296055--36296125 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
36296045 TTTTTATAGT
* *
36296055 TATATTTTTATAATTTTTAAAGGATTAAA
1 TATAATTTTATAATTTTTAAAGGATAAAA
36296084 TCA-AATTTTTATAA-TTTTAAAGGGACTAAAA
1 T-ATAA-TTTTATAATTTTTAAA-GGA-TAAAA
36296115 TATAATTTTAT
1 TATAATTTTAT
36296126 TTTTACTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
29 9 0.26
30 19 0.54
31 7 0.20
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
TATAATTTTATAATTTTTAAAGGATAAAA
Found at i:36297319 original size:20 final size:20
Alignment explanation
Indices: 36297294--36297335 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36297284 CAACCACTAC
36297294 ACTCCACCCGTACCAGCCAT
1 ACTCCACCCGTACCAGCCAT
36297314 ACTCCACCCGTACCAGCCAT
1 ACTCCACCCGTACCAGCCAT
36297334 AC
1 AC
36297336 ACTCCATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.50, G:0.10, T:0.14
Consensus pattern (20 bp):
ACTCCACCCGTACCAGCCAT
Found at i:36299109 original size:32 final size:32
Alignment explanation
Indices: 36299068--36299128 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
36299058 AATGCTTACC
36299068 ATGCCCATCATCCATTAACTATTAAAATGTTA
1 ATGCCCATCATCCATTAACTATTAAAATGTTA
36299100 ATGCCCATCATCCATTAACTATTAAAATG
1 ATGCCCATCATCCATTAACTATTAAAATG
36299129 CTAAAATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.33
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGTTA
Found at i:36300406 original size:60 final size:60
Alignment explanation
Indices: 36300313--36300431 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
36300303 ACATTACTAG
* * *
36300313 GTCAAAATTGAATATCCCCGATATATAACTTATTCCCTTATATTATTCGAATTTAAGTAA
1 GTCAAAATTGAATATCCCCAATATATAACTTATTACCTTATATTATTCGAATTCAAGTAA
* * * * *
36300373 GTCAAGATTGAATATCTCTAATTTATAACTTATTATCTTATATTATTCGAATTCAAGTA
1 GTCAAAATTGAATATCCCCAATATATAACTTATTACCTTATATTATTCGAATTCAAGTA
36300432 TAGATATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.41
Consensus pattern (60 bp):
GTCAAAATTGAATATCCCCAATATATAACTTATTACCTTATATTATTCGAATTCAAGTAA
Found at i:36306040 original size:26 final size:27
Alignment explanation
Indices: 36306003--36306072 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
36305993 ATACATATTT
36306003 AATTATCT-ATATTTAATCA-TATAATA
1 AATTAT-TAATATTTAATCATTATAATA
* *
36306029 AATTATTAATATAGTTGATCATTTTAATA
1 AATTATTAATAT--TTAATCATTATAATA
36306058 AATTACTTAATATTT
1 AATTA-TTAATATTT
36306073 TAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
28 8 0.22
29 11 0.30
30 7 0.19
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTATTAATATTTAATCATTATAATA
Found at i:36306155 original size:15 final size:15
Alignment explanation
Indices: 36306137--36306193 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
36306127 ATTCAATATT
36306137 AATATTTTAATAATA
1 AATATTTTAATAATA
*
36306152 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
36306171 AATATATTAATAATA
1 AATATTTTAATAATA
36306186 AATATTTT
1 AATATTTT
36306194 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36311257 original size:18 final size:19
Alignment explanation
Indices: 36311222--36311258 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
36311212 TGAATAAAAG
*
36311222 TGAAAATAGTGTAAATTGA
1 TGAAAATAGTGAAAATTGA
36311241 TGAAAAT-GTGAAAATTGA
1 TGAAAATAGTGAAAATTGA
36311259 ATTGGATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.30
Consensus pattern (19 bp):
TGAAAATAGTGAAAATTGA
Found at i:36311342 original size:33 final size:33
Alignment explanation
Indices: 36311286--36311350 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
36311276 TCATTCTATT
36311286 ATATGAATGAAATTGTAATTTGATTGATTAATTGA
1 ATATGAATGAAATTGTAATTTGATT-A-TAATTGA
36311321 ATATG-AT-AAATTGTGAA-TTGATTATAATTG
1 ATATGAATGAAATTGT-AATTTGATTATAATTG
36311351 TAAATTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 6 0.21
32 1 0.03
33 13 0.45
34 4 0.14
35 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (33 bp):
ATATGAATGAAATTGTAATTTGATTATAATTGA
Found at i:36313352 original size:17 final size:17
Alignment explanation
Indices: 36313330--36313362 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36313320 ATCCGTAAAT
36313330 ATTTATTTATTTACTTG
1 ATTTATTTATTTACTTG
36313347 ATTTATTTATTTACTT
1 ATTTATTTATTTACTT
36313363 TTTACTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTATTTATTTACTTG
Found at i:36329296 original size:14 final size:15
Alignment explanation
Indices: 36329269--36329297 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36329259 ATGTTAAGTT
36329269 CTTAGGTGTAATAAA
1 CTTAGGTGTAATAAA
36329284 CTTAGGT-TAATAAA
1 CTTAGGTGTAATAAA
36329298 AATATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
CTTAGGTGTAATAAA
Found at i:36329723 original size:4 final size:4
Alignment explanation
Indices: 36329714--36329743 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
36329704 CCATCAACAT
36329714 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
36329744 CTTCTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:36332949 original size:19 final size:21
Alignment explanation
Indices: 36332921--36332962 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
36332911 TGATTGTGTG
*
36332921 TACATGTGTA-AAAATAA-AA
1 TACATATGTATAAAATAATAA
36332940 TACATATGTATAAAATAATAA
1 TACATATGTATAAAATAATAA
36332961 TA
1 TA
36332963 TATGAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (21 bp):
TACATATGTATAAAATAATAA
Found at i:36333062 original size:12 final size:13
Alignment explanation
Indices: 36333036--36333064 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36333026 AAAATAAATA
36333036 AAAGAAAAGAAAC
1 AAAGAAAAGAAAC
36333049 AAAGAAAA-AAAC
1 AAAGAAAAGAAAC
36333061 AAAG
1 AAAG
36333065 TTAAAAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAC
Found at i:36345821 original size:18 final size:18
Alignment explanation
Indices: 36345800--36345854 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 18
36345790 ATGTAAAATA
36345800 TTTCAAATATCATTGTTT
1 TTTCAAATATCATTGTTT
**
36345818 TTTCATCTA-CA-T-TTT
1 TTTCAAATATCATTGTTT
36345833 TTT-AAATATCATTGTTT
1 TTTCAAATATCATTGTTT
36345850 TTTCA
1 TTTCA
36345855 TCTACATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 2 0.07
17 8 0.28
18 8 0.28
ACGTcount: A:0.25, C:0.13, G:0.04, T:0.58
Consensus pattern (18 bp):
TTTCAAATATCATTGTTT
Found at i:36345835 original size:17 final size:17
Alignment explanation
Indices: 36345810--36345862 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
36345800 TTTCAAATAT
36345810 CATTGTTTTTTCATCTA
1 CATTGTTTTTTCATCTA
** *
36345827 CATT-TTTTTAAATAT-
1 CATTGTTTTTTCATCTA
36345842 CATTGTTTTTTCATCTA
1 CATTGTTTTTTCATCTA
36345859 CATT
1 CATT
36345863 TACATTGTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 4 0.14
16 16 0.57
17 8 0.29
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (17 bp):
CATTGTTTTTTCATCTA
Found at i:36349499 original size:61 final size:62
Alignment explanation
Indices: 36349339--36349517 Score: 225
Period size: 62 Copynumber: 2.9 Consensus size: 62
36349329 TGCGAACGGC
* * * * *
36349339 CGTGTAACTTACTGTTCATGGTATAAAACCACATGGCCAGGGACACGGGTGTGTGCCCAGGT
1 CGTGTAACTCACTGTTCATAGTATAAAACCACACGACCAGGGACACGGGCGTGTGCCCAGGT
* * * ** *
36349401 CGTGTAACTCACTTTTTATAGTGTAAAACCATGCGACCAGGGACATGGGCGTGTGCCCAGG-
1 CGTGTAACTCACTGTTCATAGTATAAAACCACACGACCAGGGACACGGGCGTGTGCCCAGGT
* * *
36349462 CGTGTAACTCACTGTTCATTGTATAAAACCACACGACCAGGGACACGAGCATGTGC
1 CGTGTAACTCACTGTTCATAGTATAAAACCACACGACCAGGGACACGGGCGTGTGC
36349518 ATCACTGTTG
Statistics
Matches: 97, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
61 47 0.48
62 50 0.52
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (62 bp):
CGTGTAACTCACTGTTCATAGTATAAAACCACACGACCAGGGACACGGGCGTGTGCCCAGGT
Found at i:36352885 original size:17 final size:17
Alignment explanation
Indices: 36352863--36352898 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36352853 TAAAATTAAG
36352863 ATCAAATTGATAAAAAT
1 ATCAAATTGATAAAAAT
36352880 ATCAAATTGATAAAAAT
1 ATCAAATTGATAAAAAT
36352897 AT
1 AT
36352899 GTAAGTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
ATCAAATTGATAAAAAT
Found at i:36357237 original size:30 final size:30
Alignment explanation
Indices: 36357201--36357308 Score: 117
Period size: 30 Copynumber: 3.6 Consensus size: 30
36357191 TGGCCATGTC
** **
36357201 TATAATGCTGGTCAATCTGATGGTTAAGTT
1 TATAATGCTGGTCAAAATGATGGTTAAAAT
*
36357231 TATAATGCTGGTCAAAATGCTGGTTAAAAT
1 TATAATGCTGGTCAAAATGATGGTTAAAAT
* * * *
36357261 TATAATCCTGGTTAAAATGCTGGTCAAAAT
1 TATAATGCTGGTCAAAATGATGGTTAAAAT
* *
36357291 TATCATACTGGTCAAAAT
1 TATAATGCTGGTCAAAAT
36357309 TGGTCTCTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (30 bp):
TATAATGCTGGTCAAAATGATGGTTAAAAT
Found at i:36362062 original size:26 final size:27
Alignment explanation
Indices: 36362025--36362094 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 27
36362015 ATAAATATTT
36362025 AATTATCT-ATATTTAATCA-TATAATA
1 AATTAT-TAATATTTAATCATTATAATA
* *
36362051 AATTATTAATATAGTTTATCATTTTAATA
1 AATTATTAATAT--TTAATCATTATAATA
*
36362080 AATTTCTTAATATTT
1 AA-TTATTAATATTT
36362095 TAATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 1 0.03
26 10 0.28
28 8 0.22
29 8 0.22
30 9 0.25
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (27 bp):
AATTATTAATATTTAATCATTATAATA
Found at i:36362063 original size:28 final size:30
Alignment explanation
Indices: 36362032--36362098 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
36362022 TTTAATTATC
36362032 TATATTTAATCA-TATAATAAA-TTATTAA
1 TATATTTAATCATTATAATAAATTTATTAA
* *
36362060 TATAGTTT-ATCATTTTAATAAATTTCTTAA
1 TATA-TTTAATCATTATAATAAATTTATTAA
36362090 TAT-TTTAAT
1 TATATTTAAT
36362099 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 11 0.33
29 13 0.39
30 9 0.27
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (30 bp):
TATATTTAATCATTATAATAAATTTATTAA
Found at i:36367894 original size:34 final size:34
Alignment explanation
Indices: 36367854--36367964 Score: 134
Period size: 34 Copynumber: 3.3 Consensus size: 34
36367844 GAAGTACATA
*
36367854 AATATATATGTATGGCTTGGCATAATCGAAGATG
1 AATATATATGTATGGCTTGGTATAATCGAAGATG
* * *
36367888 ATTATATATGTATAGCTTGGTATAATC-AAAAGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGA-TG
* * * *
36367922 AATATATATGTATGGTTTGATATAACCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGATG
36367956 AATATATAT
1 AATATATAT
36367965 ATACATTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 3 0.05
34 59 0.92
35 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (34 bp):
AATATATATGTATGGCTTGGTATAATCGAAGATG
Found at i:36372807 original size:15 final size:15
Alignment explanation
Indices: 36372768--36372847 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
36372758 GTATCTTGGG
*
36372768 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
36372783 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
36372798 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
36372813 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
36372828 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
36372842 TTTCTT
1 TTTCTT
36372848 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:36372837 original size:30 final size:30
Alignment explanation
Indices: 36372759--36372846 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
36372749 CATAGTATCG
* * *
36372759 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
36372789 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
36372819 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
36372847 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:36382460 original size:25 final size:25
Alignment explanation
Indices: 36382432--36382480 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
36382422 ATAATTAAAC
* * *
36382432 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
36382457 CCTATGGGCAAAATAGTCATTTTT
1 CCTAGGGGCAAAATAGTCATTTTT
36382481 CATATTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:36385701 original size:34 final size:34
Alignment explanation
Indices: 36385663--36385770 Score: 153
Period size: 34 Copynumber: 3.2 Consensus size: 34
36385653 GTACATAAAA
* *
36385663 ATATATGTATAGCTTGGTATAATCGAAGGTGATT
1 ATATATGTATAGTTTGGTATAATCGAAGGTGAAT
* *
36385697 ATATATGTATAGTTTGGTATAATCAAAAGTGAAT
1 ATATATGTATAGTTTGGTATAATCGAAGGTGAAT
* * *
36385731 ATATATGTATGGTTTGATATAACCGAAGGTGAAT
1 ATATATGTATAGTTTGGTATAATCGAAGGTGAAT
36385765 ATATAT
1 ATATAT
36385771 ATACATTTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (34 bp):
ATATATGTATAGTTTGGTATAATCGAAGGTGAAT
Found at i:36385970 original size:59 final size:61
Alignment explanation
Indices: 36385843--36385973 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 61
36385833 TAAGCTTGAG
* * * **
36385843 ATGAGCACTAAGTGTGCGAAATGAAATTGGTACTAAGTACTAAGTGTACGAAATTGGTCAT
1 ATGAGCACTAAGGGTGCGAAATGAAATTGATACCAAGTACTAAGTGTACGAAATCAGTCAT
* * * *
36385904 TTG-GCACTAAGGGTGC-AAATTG-AATTTATACCAAGTACTAAGTGTACGAGATCAGTTA-
1 ATGAGCACTAAGGGTGCGAAA-TGAAATTGATACCAAGTACTAAGTGTACGAAATCAGTCAT
36385962 ATGAGCACTAAG
1 ATGAGCACTAAG
36385974 TGTACGAGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
58 2 0.03
59 40 0.69
60 14 0.24
61 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (61 bp):
ATGAGCACTAAGGGTGCGAAATGAAATTGATACCAAGTACTAAGTGTACGAAATCAGTCAT
Found at i:36389482 original size:18 final size:18
Alignment explanation
Indices: 36389459--36389493 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36389449 ATGTGAATAT
*
36389459 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
36389477 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
36389494 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:36389890 original size:12 final size:12
Alignment explanation
Indices: 36389875--36389933 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 12
36389865 TAATATAAGG
36389875 AATAATATATAT
1 AATAATATATAT
36389887 AATAA-A-ATAT
1 AATAATATATAT
*
36389897 AAT-ATGTA-AT
1 AATAATATATAT
36389907 AA-AATATATA-
1 AATAATATATAT
*
36389917 AATAAAATATAT
1 AATAATATATAT
36389929 AATAA
1 AATAA
36389934 AATACAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
9 1 0.03
10 17 0.45
11 10 0.26
12 10 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AATAATATATAT
Found at i:36389897 original size:42 final size:42
Alignment explanation
Indices: 36389826--36389937 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
36389816 ATGTACTAAT
* **
36389826 AAATA-ATAAATAATAGA-ATAATATGATATAAAATG-AAGA
1 AAATATATAAATAATATATATAATAAAATATAAAATGTAAGA
* * *
36389865 TAATATA-AGGAATAATATATATAATAAAATATAATATGTAATA
1 AAATATATA--AATAATATATATAATAAAATATAAAATGTAAGA
*
36389908 AAATATATAAATAAAATATATAATAAAATA
1 AAATATATAAATAATATATATAATAAAATA
36389938 CAAATAACCT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
39 5 0.08
40 1 0.02
41 8 0.14
42 35 0.59
43 9 0.15
44 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (42 bp):
AAATATATAAATAATATATATAATAAAATATAAAATGTAAGA
Found at i:36389934 original size:12 final size:12
Alignment explanation
Indices: 36389892--36389937 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
36389882 TATATAATAA
* *
36389892 AATATAATATGT
1 AATAAAATATAT
36389904 AATAAAATATAT
1 AATAAAATATAT
36389916 AAATAAAATATAT
1 -AATAAAATATAT
36389929 AATAAAATA
1 AATAAAATA
36389938 CAAATAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 19 0.61
13 12 0.39
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
AATAAAATATAT
Found at i:36389960 original size:42 final size:42
Alignment explanation
Indices: 36389875--36389975 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
36389865 TAATATAAGG
* * **
36389875 AATAATATATATAATAAAATATAATATGTAATAAAATATATA
1 AATAAAATATATAATAAAATAAAATACCTAATAAAATATATA
36389917 AATAAAATATATAATAAAATACAAATAACCTAAT-AAATA-ATA
1 AATAAAATATATAATAAAATA-AAAT-ACCTAATAAAATATATA
36389959 AA-AATAATATATAATAA
1 AATAA-AATATATAATAA
36389976 TTTTTACATG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.04
42 37 0.71
43 8 0.15
44 5 0.10
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (42 bp):
AATAAAATATATAATAAAATAAAATACCTAATAAAATATATA
Found at i:36390026 original size:18 final size:18
Alignment explanation
Indices: 36389999--36390041 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36389989 AAATAATGTT
*
36389999 TATA-AAAATAATTAATA
1 TATATAAAATAATTAAAA
*
36390016 TATATAAAATATTTAAAA
1 TATATAAAATAATTAAAA
*
36390034 TAAATAAA
1 TATATAAA
36390042 TTGTATGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATATAAAATAATTAAAA
Found at i:36394280 original size:3 final size:3
Alignment explanation
Indices: 36394272--36394301 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
36394262 AATATAAAAG
*
36394272 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36394302 TACCTATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36394300 original size:15 final size:15
Alignment explanation
Indices: 36394259--36394300 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
36394249 GTGATAAAAG
36394259 GATAAT-ATAA-AA-
1 GATAATAATAATAAT
36394271 GATAATAATAATAAT
1 GATAATAATAATAAT
36394286 GATAATAATAATAAT
1 GATAATAATAATAAT
36394301 ATACCTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
14 2 0.07
15 15 0.56
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
GATAATAATAATAAT
Found at i:36394511 original size:47 final size:47
Alignment explanation
Indices: 36394405--36394516 Score: 108
Period size: 49 Copynumber: 2.4 Consensus size: 47
36394395 GTAAATAAAA
* *
36394405 TAAAAAAATA-ACTAATAATAATGATATATAAATTTATACATATATG
1 TAAAAAAATATACTAATAATAATGATATAAAAATGTATACATATATG
*
36394451 TACTAAAATATATACGTAATAATAA-GA-ATAAAAAGTGTATACATGATAT-
1 TA--AAAAAATATAC-TAATAATAATGATATAAAAA-TGTATACAT-ATATG
*
36394500 TAAAAAGATATA-TAATA
1 TAAAAAAATATACTAATA
36394517 TATATTAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
45 5 0.09
46 2 0.04
47 9 0.16
48 13 0.23
49 14 0.25
50 13 0.23
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.32
Consensus pattern (47 bp):
TAAAAAAATATACTAATAATAATGATATAAAAATGTATACATATATG
Found at i:36394642 original size:11 final size:11
Alignment explanation
Indices: 36394576--36394697 Score: 54
Period size: 11 Copynumber: 10.6 Consensus size: 11
36394566 ATATATGCAC
*
36394576 ATATATATAT-
1 ATATATACATA
36394586 ATATATTA-ATA
1 ATATA-TACATA
36394597 AGTATATACATA
1 A-TATATACATA
* *
36394609 ATAATGATATTAAA
1 AT-AT-ATA-CATA
36394623 ATATATACATA
1 ATATATACATA
*
36394634 ATATGTACATGA
1 ATATATACAT-A
* *
36394646 TATATATAAAGAA
1 -ATATATACA-TA
*
36394659 AAATATACATA
1 ATATATACATA
*
36394670 GTATATTA-A-A
1 ATATA-TACATA
*
36394680 ATATAGACATA
1 ATATATACATA
36394691 ATATATA
1 ATATATA
36394698 TAAAAATATA
Statistics
Matches: 83, Mismatches: 16, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
9 1 0.01
10 13 0.16
11 29 0.35
12 23 0.28
13 13 0.16
14 4 0.05
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (11 bp):
ATATATACATA
Found at i:36394689 original size:21 final size:23
Alignment explanation
Indices: 36394623--36394707 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 23
36394613 TGATATTAAA
* *
36394623 ATATATACATAATAT-GTACATGAT
1 ATATATA-AAAATATAG-ACATAAT
* * *
36394647 ATATATAAAGAAAAATATACATAGT
1 ATATAT-AA-AAATATAGACATAAT
36394672 ATAT-T-AAAATATAGACATAAT
1 ATATATAAAAATATAGACATAAT
36394693 ATATATAAAAATATA
1 ATATATAAAAATATA
36394708 TATATACATA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
21 16 0.33
22 2 0.04
23 8 0.17
24 8 0.17
25 14 0.29
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATATAAAAATATAGACATAAT
Found at i:36394708 original size:25 final size:24
Alignment explanation
Indices: 36394623--36394709 Score: 65
Period size: 25 Copynumber: 3.7 Consensus size: 24
36394613 TGATATTAAA
* * *
36394623 ATATATACATAATAT-GTACATGAT
1 ATATATAAAAAATATAG-ACATAAT
* * *
36394647 ATATATAAAGAAAAATATACATAGT
1 ATATATAAA-AAATATAGACATAAT
36394672 ATAT-T--AAAATATAGACATAAT
1 ATATATAAAAAATATAGACATAAT
36394693 ATATATAAAAATATATA
1 ATATATAAAAA-ATATA
36394710 TATACATATA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
21 16 0.33
22 2 0.04
24 12 0.25
25 18 0.38
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (24 bp):
ATATATAAAAAATATAGACATAAT
Found at i:36397198 original size:174 final size:171
Alignment explanation
Indices: 36396978--36397409 Score: 518
Period size: 174 Copynumber: 2.5 Consensus size: 171
36396968 TTCGTCGTCT
* * * * * *
36396978 TTTGATCTGCTTCCCTACTGCTTATGGTGATGAGATCTATAAATCTTCAGCCTGTTACCCTACTG
1 TTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTG
* * * * *
36397043 CTTAGGAGGTTAAGGCTTGTTACCTTTGATCTGTTTCC-CTACTGCTTAGGGGGATAAGATCTAT
66 CTTAGGAGGTTAAGGCTTGTT--CTTCGATCTG-CTCCACTACTACTTAGGGAGATAAGATCTAC
* **
36397107 AATCTTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATC-
128 AA--TTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCG
*
36397152 TTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATCTTCAGCCTGTTACCCTACTG
1 TTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTG
*
36397217 CTTAGG-GGTTTAAGGCCCTTCG-TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
66 CTTAGGAGG-TTAAGG--CTT-GTTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTA
* * *
36397280 CAATTCGATCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG
127 CAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCG
*
36397325 TCTTCGATCTGTTTCCCTACTGCTTAGGAGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTAC
1 T-TT-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC
*
36397388 TGCTTATGGA-GATAAGGCTTGT
64 TGCTTA-GGAGGTTAAGGCTTGT
36397410 GAATTCACCG
Statistics
Matches: 225, Mismatches: 22, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
170 1 0.00
171 3 0.01
172 35 0.16
173 35 0.16
174 108 0.48
175 38 0.17
176 4 0.02
177 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (171 bp):
TTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTG
CTTAGGAGGTTAAGGCTTGTTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
TCGACCTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCG
Found at i:36397293 original size:86 final size:87
Alignment explanation
Indices: 36396972--36397393 Score: 438
Period size: 86 Copynumber: 4.8 Consensus size: 87
36396962 GCAAGATTCG
* * * * * *
36396972 TCGTCTTTTGATCTGCTTCCCTACTGCTTATGGTGATGAGATCTATAAATCTTCAGCCTGTTACC
1 TCGTC-TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCT-GAAA-CTTCAGCCTGTTACC
36397037 CTACTGCTTAGGAGG-TTAAGG--CT
63 CTACTGCTTAGG-GGTTTAAGGCCCT
* * *
36397060 T-GTTACCTTTGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCT-ATAATCTTCGGCCTGTTA
1 TCG-T--CTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGA-AA-CTTCAGCCTGTTA
* * *
36397123 CCCTACTGCTTAGGGGGTTAAGGTCCA
61 CCCTACTGCTTAGGGGTTTAAGGCCCT
* *
36397150 TC-T-TT-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATCTTCAGCCTGTTACCC
1 TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCT-GAAA-CTTCAGCCTGTTACCC
36397212 TACTGCTTAGGGGTTTAAGGCCCT
64 TACTGCTTAGGGGTTTAAGGCCCT
* * * *
36397236 TCGTCTTCGATCTG-CTCCACTACTACTTAGGGAGATAAGATCTGCAA-TTC-GATCTGTTACCC
1 TCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGAAACTTCAG-CCTGTTACCC
*
36397298 TACTGCTTAGGGGTTTAAGACCCT
64 TACTGCTTAGGGGTTTAAGGCCCT
*
36397322 TCGTCTTCGATCTGTTTCCCTACTGCTTA-GGAGGTTAAGATCTGTAAA-TTCAGCCTGTTACCC
1 TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGA-GATAAGATCTG-AAACTTCAGCCTGTTACCC
36397385 TACTGCTTA
64 TACTGCTTA
36397394 TGGAGATAAG
Statistics
Matches: 292, Mismatches: 23, Indels: 39
0.82 0.06 0.11
Matches are distributed among these distances:
85 38 0.13
86 111 0.38
87 32 0.11
88 46 0.16
89 62 0.21
90 3 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (87 bp):
TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGAAACTTCAGCCTGTTACCCTA
CTGCTTAGGGGTTTAAGGCCCT
Found at i:36397361 original size:44 final size:42
Alignment explanation
Indices: 36397029--36397361 Score: 207
Period size: 44 Copynumber: 7.7 Consensus size: 42
36397019 AATCTTCAGC
* *
36397029 CTGTTACCCTACTGCTTAGGAGGTTAAG-GCTT-GTTACCTTTGAT
1 CTGTTACCCTACTGCTTAGG-GGTTAAGACCTTCG-T--CTTCGAT
* * * ** **
36397073 CTGTTTCCCTACTGCTTAGGGGGATAAGATCTATAATCTTCGGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGACCT-TCGTCTTCGAT
* *
36397117 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATC-T-TT-GAT
1 CTGTTACCCTACTGCTTA-GGGGTTAA-GACCTTCGTCTTCGAT
* * * *
36397158 CTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGGAAATCTTC-AGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGACCTTCG---TCTTCGA-T
*
36397203 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAA-GACCTTCGTCTTCGAT
* * * * * **
36397247 CTGCT-CCACTACTACTTAGGGAGATAAGATCTGC-AATTCGAT
1 CTGTTACC-CTACTGCTTAGGG-GTTAAGACCTTCGTCTTCGAT
36397289 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-CCTTCGTCTTCGAT
*
36397333 CTGTTTCCCTACTGCTTAGGAGGTTAAGA
1 CTGTTACCCTACTGCTTAGG-GGTTAAGA
36397362 TCTGTAAATT
Statistics
Matches: 225, Mismatches: 41, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 28 0.12
42 29 0.13
43 13 0.06
44 115 0.51
45 31 0.14
46 4 0.02
47 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGACCTTCGTCTTCGAT
Found at i:36397416 original size:43 final size:43
Alignment explanation
Indices: 36396990--36397403 Score: 117
Period size: 44 Copynumber: 9.5 Consensus size: 43
36396980 TGATCTGCTT
* * *
36396990 CCCTACTGCTTATGG-TGATGAGATCTATAAATCTTCAGCCTGTTA
1 CCCTACTGCTTA-GGAGGATAAGATCTGTAAA--TTCAGCCTGTTA
* * ** * * *
36397035 CCCTACTGCTTAGGAGGTTAAG-GCTTGTTACCTT-TGATCTGTTT
1 CCCTACTGCTTAGGAGGATAAGATC-TG-TAAATTCAG-CCTGTTA
* * * *
36397079 CCCTACTGCTTAGGGGGATAAGATCTATAATCTTCGGCCTGTTA
1 CCCTACTGCTTAGGAGGATAAGATCTGTAA-ATTCAGCCTGTTA
* * * ** ** * * *
36397123 CCCTACTGCTTAGGGGGTTAAGGTCCAT-CTTTGA-TCTGTTT
1 CCCTACTGCTTAGGAGGATAAGATCTGTAAATTCAGCCTGTTA
* * *
36397164 CCCTACTGCTTAGGGGGTTAAGATCTGGAAATCTTCAGCCTGTTA
1 CCCTACTGCTTAGGAGGATAAGATCTGTAAA--TTCAGCCTGTTA
* ** * * *
36397209 CCCTACTGCTTAGG-GGTTTAAGGCCCTTCGT--CTTC-GATCTGCT-
1 CCCTACTGCTTAGGAGG-ATAA-GATC-T-GTAAATTCAG-CCTGTTA
* * *
36397252 CCACTACTACTTAGG-GAGATAAGATCTG-CAATTC-GATCTGTTA
1 CC-CTACTGCTTAGGAG-GATAAGATCTGTAAATTCAG-CCTGTTA
* * * * *
36397295 CCCTACTGCTTAGG-GGTTTAAGACCCTTCGT--CTTC-GATCTGTTT
1 CCCTACTGCTTAGGAGG-ATAAGA-TC-T-GTAAATTCAG-CCTGTTA
*
36397339 CCCTACTGCTTAGGAGGTTAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTGCTTAGGAGGATAAGATCTGTAAATTCAGCCTGTTA
36397382 CCCTACTGCTTATGGA-GATAAG
1 CCCTACTGCTTA-GGAGGATAAG
36397404 GCTTGTGAAT
Statistics
Matches: 280, Mismatches: 58, Indels: 64
0.70 0.14 0.16
Matches are distributed among these distances:
41 33 0.12
42 31 0.11
43 37 0.13
44 127 0.45
45 46 0.16
46 4 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
CCCTACTGCTTAGGAGGATAAGATCTGTAAATTCAGCCTGTTA
Found at i:36397581 original size:64 final size:64
Alignment explanation
Indices: 36397480--36397603 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 64
36397470 GTATCTATGT
*
36397480 TTATGCCAAATAATTAGGATGATATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTATGCCAAATAATTAGGATGATATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* * * * *
36397544 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAACTGCTCCTAATTAGATGTG
1 TTATGCCAAATAATTAGGATGATATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
36397604 TTAGGAATGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGATGATATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:36410432 original size:27 final size:27
Alignment explanation
Indices: 36410399--36410461 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
36410389 ATATTTTAAA
* *
36410399 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
36410426 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
36410453 TATT-TTTAT
1 TATTATTTAT
36410462 TCATTTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:36410462 original size:24 final size:26
Alignment explanation
Indices: 36410399--36410483 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
36410389 ATATTTTAAA
* *
36410399 TATTATTTATATT-ATCCTTATGACTAT
1 TATTA-TTATATTCAT-TTTATCACTAT
36410426 TATTATTAATATTC-TTATTATCACTAT
1 TATTATT-ATATTCATT-TTATCACTAT
*
36410453 TATT-TT-TATTCATTTTATCAATA-
1 TATTATTATATTCATTTTATCACTAT
36410476 TATTATTA
1 TATTATTA
36410484 CTACAGTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 2 0.04
26 4 0.08
27 24 0.49
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTATATTCATTTTATCACTAT
Found at i:36410470 original size:27 final size:27
Alignment explanation
Indices: 36410416--36410483 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
36410406 TATATTATCC
*
36410416 TTATGACTATTATTATTAATATTCTTA
1 TTATCACTATTATTATTAATATTCTTA
36410443 TTATCACTATTATT-TT--TATTCATT-
1 TTATCACTATTATTATTAATATTC-TTA
*
36410467 TTATCAATA-TATTATTA
1 TTATCACTATTATTATTA
36410484 CTACAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 2 0.06
26 2 0.06
27 13 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATCACTATTATTATTAATATTCTTA
Found at i:36410716 original size:6 final size:6
Alignment explanation
Indices: 36410692--36410777 Score: 50
Period size: 6 Copynumber: 14.3 Consensus size: 6
36410682 ACATTATTCA
* * * * * *
36410692 TATTAT TTTTAT AATTAT TATTAT T-GTATT TATTTT TACTAC TATTA-
1 TATTAT TATTAT TATTAT TATTAT TATTA-T TATTAT TATTAT TATTAT
* * * *
36410739 TATTTAT TATTAG TATTAA TATTAT AATTAC TATTAT TA
1 TA-TTAT TATTAT TATTAT TATTAT TATTAT TATTAT TA
36410778 CACTTATATG
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
5 4 0.07
6 51 0.88
7 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (6 bp):
TATTAT
Found at i:36410716 original size:21 final size:21
Alignment explanation
Indices: 36410684--36410777 Score: 54
Period size: 21 Copynumber: 4.6 Consensus size: 21
36410674 TCATGTACAC
*
36410684 ATTATTCA-TATTATTTTTATA
1 ATTATT-ATTATTATTATTATA
*
36410705 ATTATTATTATT-GTATT-T-
1 ATTATTATTATTATTATTATA
* * * *
36410723 ATTTTTACTACTATTA-TATTT
1 ATTATTATTATTATTATTA-TA
* *
36410744 ATTATTAGTATTAATATTATA
1 ATTATTATTATTATTATTATA
*
36410765 ATTACTATTATTA
1 ATTATTATTATTA
36410778 CACTTATATG
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
18 10 0.19
19 3 0.06
20 5 0.09
21 34 0.63
22 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTATTATTATA
Found at i:36410724 original size:15 final size:15
Alignment explanation
Indices: 36410692--36410777 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 15
36410682 ACATTATTCA
*
36410692 TATTATTTTTATAAT
1 TATTATTATTATAAT
* *
36410707 TATTATTATTGTATT
1 TATTATTATTATAAT
* *
36410722 TATTTTTACTACT-AT
1 TATTATTATTA-TAAT
* *
36410737 TA-TATTTATTATTAG
1 TATTA-TTATTATAAT
*
36410752 TATTAATATTATAAT
1 TATTATTATTATAAT
*
36410767 TACTATTATTA
1 TATTATTATTA
36410778 CACTTATATG
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
14 2 0.04
15 47 0.90
16 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTATTATTATAAT
Found at i:36410906 original size:20 final size:20
Alignment explanation
Indices: 36410881--36410926 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
36410871 ATGTATGTAT
*
36410881 ATATTTATGTAATATTATTA
1 ATATTTATGTAACATTATTA
* *
36410901 ATATTTTTTTAACATTATTA
1 ATATTTATGTAACATTATTA
*
36410921 TTATTT
1 ATATTT
36410927 CTTAGATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATTTATGTAACATTATTA
Found at i:36410966 original size:14 final size:14
Alignment explanation
Indices: 36410947--36410976 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
36410937 TACATCATGT
36410947 TTTTTAATACTATA
1 TTTTTAATACTATA
36410961 TTTTTAATACTATA
1 TTTTTAATACTATA
36410975 TT
1 TT
36410977 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:36411055 original size:64 final size:58
Alignment explanation
Indices: 36410947--36411103 Score: 136
Period size: 64 Copynumber: 2.5 Consensus size: 58
36410937 TACATCATGT
* * * *
36410947 TTTTTAATACTATATTTTTAATACTATATTATGTATATATTTTTACAT-GCATTATGTACATA
1 TTTTTAATA-TATATATGT-ATA-TAT-TTATGTACATACTTTTA-ATAGCATTATGTACATA
** **
36411009 TTTTCAATAACTATATCATATGTATATATTTTATGTACATACTTTTAATATTATTATGTATTTA
1 TTTT---TAA-TATAT-ATATGTATATA-TTTATGTACATACTTTTAATAGCATTATGTACATA
36411073 TTTTTAATATATATATGTATATATTTATGTA
1 TTTTTAATATATATATGTATATATTTATGTA
36411104 GTATTATTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
58 8 0.10
59 11 0.14
60 5 0.06
61 3 0.04
62 4 0.05
63 2 0.03
64 31 0.39
65 10 0.12
66 6 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (58 bp):
TTTTTAATATATATATGTATATATTTATGTACATACTTTTAATAGCATTATGTACATA
Found at i:36411066 original size:23 final size:23
Alignment explanation
Indices: 36411034--36411091 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
36411024 TCATATGTAT
36411034 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
36411056 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
36411079 ATA-TATATATGTA
1 ATATTAT-TATGTA
36411092 TATATTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:36411098 original size:23 final size:23
Alignment explanation
Indices: 36410957--36411040 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
36410947 TTTTTAATAC
36410957 TATATTTTTAATACTATATTATGTA
1 TATATTTTTAATA-TATA-TATGTA
**
36410982 TATATTTTTACATGCAT-TATGTA
1 TATATTTTTA-ATATATATATGTA
*
36411005 CATATTTTCAATAACTATATCATATGTA
1 TATATTTT---TAA-TATAT-ATATGTA
36411033 TATATTTT
1 TATATTTT
36411041 ATGTACATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
23 13 0.28
25 13 0.28
26 7 0.15
28 13 0.28
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTTAATATATATATGTA
Found at i:36411184 original size:24 final size:22
Alignment explanation
Indices: 36411141--36411201 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
36411131 TTCTAATATG
* * *
36411141 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATACATTTT-A
*
36411164 TACTATATTATGTATACATTTTT
1 TA-TATATTATGTATACATTTTA
*
36411187 TATATATTACGTATA
1 TATATATTATGTATA
36411202 TATATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 12 0.38
23 4 0.12
24 16 0.50
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATTATGTATACATTTTA
Found at i:36411317 original size:29 final size:29
Alignment explanation
Indices: 36411268--36411329 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
36411258 ACTATATTAC
* *
36411268 TTTTTTTACATATTATCTTATGTATATAT
1 TTTTTTTACATACTATATTATGTATATAT
*
36411297 TTTTTTTA-ATAACTATATTATGTATGTAT
1 TTTTTTTACAT-ACTATATTATGTATATAT
36411326 TTTT
1 TTTT
36411330 AACGCTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTTTTACATACTATATTATGTATATAT
Found at i:36411362 original size:25 final size:25
Alignment explanation
Indices: 36411299--36411362 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
36411289 GTATATATTT
**
36411299 TTTTTAATAACTATATTATGTATGTA
1 TTTTTAAT-ACTATATTATGTACATA
**
36411325 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
36411350 TTTTTAATACTAT
1 TTTTTAATACTAT
36411363 GTATATACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:36423887 original size:163 final size:168
Alignment explanation
Indices: 36423594--36424008 Score: 476
Period size: 163 Copynumber: 2.4 Consensus size: 168
36423584 TTTCTAGTTC
* *
36423594 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACA-GCTGAGGTATTTTCAATTT
* *
36423658 CTATTTTTCAATTTCTGTCTTTCGGAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCT
64 CTGTTTTTCAATTTC--TCTTTCGG-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
36423723 CAAGACATGCTGAGGTAATTTT-AATTT-C-TGTTC-AT-C-AA
126 CAAGACACGCTGAGGT-ATTTTCAATTTCCGTGTTCTATGCTAA
36423761 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACA-GCTGAGGTATTTTCAATT
**
36423826 TCTGTTTTTCAA-TTC-CTATTC-G-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 TCTGTTTTTCAATTTCTCT-TTCGGAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * **
36423887 AGGACACGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTATGCTTC
127 AAGACACGCTGAGGTATTTTCAATTTCCG-TGTTC----TATGCTAA
* *
36423934 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACA-CTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-CACAGCTGAGGTATTTTCAATTT
36423998 CTGTTTTTCAA
64 CTGTTTTTCAA
36424009 AAAAATCAAG
Statistics
Matches: 217, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
162 5 0.02
163 54 0.25
164 1 0.00
165 3 0.01
166 8 0.04
167 37 0.17
168 3 0.01
169 32 0.15
171 31 0.14
172 1 0.00
173 40 0.18
174 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (168 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACAGCTGAGGTATTTTCAATTTCT
GTTTTTCAATTTCTCTTTCGGAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGCTGAGGTATTTTCAATTTCCGTGTTCTATGCTAA
Found at i:36423977 original size:85 final size:86
Alignment explanation
Indices: 36423761--36424135 Score: 393
Period size: 85 Copynumber: 4.4 Consensus size: 86
36423751 TGTTCATCAA
* *
36423761 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
*
36423826 TCTGTTTTTCAATTCCTATTCGTT
64 TCTGTTTTTCAATT-CTATGCGTT
*
36423850 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
*
36423914 CGTTTTTCAATT-TATGC-TT
66 TGTTTTTCAATTCTATGCGTT
* * *
36423933 CAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACACTGAGGTATTTTCAATTT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
36423998 CTGTTTTTC-A----A------
65 CTGTTTTTCAATTCTATGCGTT
* * * * * * *
36424009 AAAAATCAAGCTTATATTGCGAGAGGTGAGATGAACCTTGGGACACGTTGAGGTATTTTTAGTTT
1 AAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
**
36424074 CTGTTTTTCGAATTCTAT-TTTT
65 CTGTTTTTC-AATTCTATGCGTT
* *
36424096 ATCAAAACTCAGCTCATATCGCGAGAGGTGAGTTGAGCCT
1 A--AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
36424136 TGGGTCACAT
Statistics
Matches: 244, Mismatches: 25, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
75 9 0.04
76 54 0.22
78 1 0.00
81 1 0.00
82 1 0.00
83 2 0.01
84 5 0.02
85 67 0.27
86 34 0.14
87 1 0.00
88 38 0.16
89 28 0.11
90 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTCTATGCGTT
Found at i:36424052 original size:76 final size:75
Alignment explanation
Indices: 36423934--36424082 Score: 201
Period size: 76 Copynumber: 2.0 Consensus size: 75
36423924 TTTATGCTTC
*
36423934 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAATTGAACCTCGGGACACACTGAGGTATTTTCAATTTC
36423999 TGTTTTTCAA
66 TGTTTTTCAA
* * * ** * *
36424009 AAAAATCAAGCTTATATTGCGAGAGGTGAGA-TGAACCTTGGGACACGTTGAGGTATTTTTAGTT
1 AAAAATCAA-CTCATATTGCGAGAGATGA-ATTGAACCTCGGGACACACTGAGGTATTTTCAATT
36424073 TCTGTTTTTC
64 TCTGTTTTTC
36424083 GAATTCTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
75 9 0.14
76 54 0.84
77 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGATGAATTGAACCTCGGGACACACTGAGGTATTTTCAATTTC
TGTTTTTCAA
Found at i:36424055 original size:161 final size:164
Alignment explanation
Indices: 36423850--36424144 Score: 391
Period size: 161 Copynumber: 1.8 Consensus size: 164
36423840 CCTATTCGTT
* *
36423850 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGATGAACCTCAGGACACGCTGAGGTATTTTCAATTTCC
*
36423915 GTTTTTC-AATT-TA-TGCT-TCAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGA
66 GTTTTTCGAATTCTATTGCTATCAAAAATCAACTCATATCGCGAGAGATGAATTGAGCCTCGGGA
36423976 CACACTGAGGTATTTTCAATTTCTGTTTTTCAAA
131 CACACTGAGGTATTTTCAATTTCTGTTTTTCAAA
* ** * * *
36424010 AAAATCAAGCTTATATTGCGAGAGGTGAGATGAACCTTGGGACACGTTGAGGTATTTTTAGTTTC
1 AAAATCAA-CTCATATTGCGAGAGGTGAGATGAACCTCAGGACACGCTGAGGTATTTTCAATTTC
* ** * * * * *
36424075 TGTTTTTCGAATTCTATTTTTATCAAAACTCAGCTCATATCGCGAGAGGTGAGTTGAGCCTTGGG
65 CGTTTTTCGAATTCTATTGCTATCAAAAATCAACTCATATCGCGAGAGATGAATTGAGCCTCGGG
*
36424140 TCACA
130 ACACA
36424145 TGCCGAGGAT
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
160 8 0.07
161 55 0.49
162 4 0.04
163 2 0.02
164 2 0.02
165 41 0.37
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (164 bp):
AAAATCAACTCATATTGCGAGAGGTGAGATGAACCTCAGGACACGCTGAGGTATTTTCAATTTCC
GTTTTTCGAATTCTATTGCTATCAAAAATCAACTCATATCGCGAGAGATGAATTGAGCCTCGGGA
CACACTGAGGTATTTTCAATTTCTGTTTTTCAAA
Found at i:36425836 original size:24 final size:26
Alignment explanation
Indices: 36425773--36425857 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
36425763 ATATTTTAAA
* *
36425773 TATTATTTATATT-ATCCTTATGACTAT
1 TATTA-TTATATTCAT-TTTATCACTAT
36425800 TATTATTAATATTC-TTATTATCACTAT
1 TATTATT-ATATTCATT-TTATCACTAT
*
36425827 TATT-TT-TATTCATTTTATCAATA-
1 TATTATTATATTCATTTTATCACTAT
36425850 TATTATTA
1 TATTATTA
36425858 CTACAGTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 2 0.04
26 4 0.08
27 24 0.49
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTATATTCATTTTATCACTAT
Found at i:36425844 original size:27 final size:27
Alignment explanation
Indices: 36425790--36425857 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
36425780 TATATTATCC
*
36425790 TTATGACTATTATTATTAATATTCTTA
1 TTATCACTATTATTATTAATATTCTTA
36425817 TTATCACTATTATT-TT--TATTCATT-
1 TTATCACTATTATTATTAATATTC-TTA
*
36425841 TTATCAATA-TATTATTA
1 TTATCACTATTATTATTA
36425858 CTACAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 2 0.06
26 2 0.06
27 13 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATCACTATTATTATTAATATTCTTA
Found at i:36426104 original size:24 final size:24
Alignment explanation
Indices: 36426040--36426119 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 24
36426030 TGTTTTTTTA
*
36426040 TTATCATTATTATATCATTATTATTT
1 TTATGATTATTAT-TCA-TATTATTT
**
36426066 TTCATGTACACATTATTCATATTATTT
1 TT-ATG-A-TTATTATTCATATTATTT
*
36426093 TTATGATTATTATT-GTATTTATTT
1 TTATGATTATTATTCATA-TTATTT
36426117 TTA
1 TTA
36426120 CTACTATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 2 0.05
24 15 0.34
25 1 0.02
26 5 0.11
27 12 0.27
28 4 0.09
29 5 0.11
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (24 bp):
TTATGATTATTATTCATATTATTT
Found at i:36426138 original size:24 final size:23
Alignment explanation
Indices: 36426058--36426139 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 23
36426048 ATTATATCAT
* *
36426058 TATTATTTTTCATGTACACATTATTCA
1 TATTATTTTT-ATG-AC-TATTATT-G
*
36426085 TATTATTTTTATGATTATTATTG
1 TATTATTTTTATGACTATTATTG
*
36426108 TATTTATTTTTACT-ACTATTATATT
1 TA-TTATTTTTA-TGACTATTAT-TG
36426133 TATTATT
1 TATTATT
36426140 AGTATTAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 5 0.11
26 3 0.06
27 10 0.21
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTATTTTTATGACTATTATTG
Found at i:36426358 original size:14 final size:14
Alignment explanation
Indices: 36426339--36426368 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
36426329 TACATCATGT
36426339 TTTTTAATACTATA
1 TTTTTAATACTATA
36426353 TTTTTAATACTATA
1 TTTTTAATACTATA
36426367 TT
1 TT
36426369 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:36426447 original size:64 final size:58
Alignment explanation
Indices: 36426339--36426495 Score: 136
Period size: 64 Copynumber: 2.5 Consensus size: 58
36426329 TACATCATGT
* * * *
36426339 TTTTTAATACTATATTTTTAATACTATATTATGTATATATTTTTACAT-GCATTATGTACATA
1 TTTTTAATA-TATATATGT-ATA-TAT-TTATGTACATACTTTTA-ATAGCATTATGTACATA
** **
36426401 TTTTCAATAACTATATCATATGTATATATTTTATGTACATACTTTTAATATTATTATGTATTTA
1 TTTT---TAA-TATAT-ATATGTATATA-TTTATGTACATACTTTTAATAGCATTATGTACATA
36426465 TTTTTAATATATATATGTATATATTTATGTA
1 TTTTTAATATATATATGTATATATTTATGTA
36426496 GTATTATTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
58 8 0.10
59 11 0.14
60 5 0.06
61 3 0.04
62 4 0.05
63 2 0.03
64 31 0.39
65 10 0.12
66 6 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (58 bp):
TTTTTAATATATATATGTATATATTTATGTACATACTTTTAATAGCATTATGTACATA
Found at i:36426458 original size:23 final size:23
Alignment explanation
Indices: 36426426--36426483 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
36426416 TCATATGTAT
36426426 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
36426448 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
36426471 ATA-TATATATGTA
1 ATATTAT-TATGTA
36426484 TATATTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:36426490 original size:23 final size:23
Alignment explanation
Indices: 36426349--36426432 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
36426339 TTTTTAATAC
36426349 TATATTTTTAATACTATATTATGTA
1 TATATTTTTAATA-TATA-TATGTA
**
36426374 TATATTTTTACATGCAT-TATGTA
1 TATATTTTTA-ATATATATATGTA
*
36426397 CATATTTTCAATAACTATATCATATGTA
1 TATATTTT---TAA-TATAT-ATATGTA
36426425 TATATTTT
1 TATATTTT
36426433 ATGTACATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
23 13 0.28
25 13 0.28
26 7 0.15
28 13 0.28
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTTAATATATATATGTA
Found at i:36426746 original size:25 final size:25
Alignment explanation
Indices: 36426656--36426746 Score: 101
Period size: 25 Copynumber: 3.5 Consensus size: 25
36426646 CTATATTACT
* *
36426656 TTTTTACATATTATTTTATGTATATA
1 TTTTTA-ATACTATATTATGTATATA
*
36426682 TTTTTTAATAACTATATTATGTATGTA
1 -TTTTTAAT-ACTATATTATGTATATA
** *
36426709 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTATATA
36426734 TTTTTAATACTAT
1 TTTTTAATACTAT
36426747 GTATATACCT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 25 0.46
26 9 0.17
27 20 0.37
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTATATA
Found at i:36430124 original size:20 final size:20
Alignment explanation
Indices: 36430085--36430132 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
36430075 TAAATTCTAA
* **
36430085 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATAAAATT
36430105 AAAGATAAATAAATAAAATT
1 AAAGATAAATAAATAAAATT
36430125 AAA-ATAAA
1 AAAGATAAA
36430133 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAATAAAATT
Found at i:36431072 original size:23 final size:23
Alignment explanation
Indices: 36431041--36431094 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
36431031 AATTAATTAC
36431041 TAACTAATGCCACCTTTATTGACT
1 TAAC-AATGCCACCTTTATTGACT
36431065 TAACAATGCCACCTTTATTGACT
1 TAACAATGCCACCTTTATTGACT
36431088 TAACAAT
1 TAACAAT
36431095 CTCTTGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (23 bp):
TAACAATGCCACCTTTATTGACT
Found at i:36433396 original size:16 final size:16
Alignment explanation
Indices: 36433364--36433414 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
36433354 GGTTGAGGTG
36433364 AATGGAATA-AGACTGT
1 AATGGAATAGAGA-TGT
* *
36433380 AATGTAATTGAGATGT
1 AATGGAATAGAGATGT
*
36433396 AATGGAATAGAGTTGT
1 AATGGAATAGAGATGT
36433412 AAT
1 AAT
36433415 CAATAACTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Done.