Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 92 of 130
Found at i:18067492 original size:16 final size:16
Alignment explanation
Indices: 18067464--18067508 Score: 72
Period size: 16 Copynumber: 2.7 Consensus size: 16
18067454 CCTAAAAATG
18067464 TTTTATTTATTATTTAT
1 TTTTATTT-TTATTTAT
18067481 TTTTATTTTTATTTAT
1 TTTTATTTTTATTTAT
18067497 TTTTATTATTTA
1 TTTTATT-TTTA
18067509 ATTGGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTAT
Found at i:18074008 original size:22 final size:21
Alignment explanation
Indices: 18073983--18074030 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
18073973 CTTTTAAAAT
*
18073983 TTTTTTACAAAACATTTATTTA
1 TTTTTTAAAAAAC-TTTATTTA
*
18074005 TTTTTTAAAAAACTTTTTTTA
1 TTTTTTAAAAAACTTTATTTA
18074026 TTTTT
1 TTTTT
18074031 CAATCTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTAAAAAACTTTATTTA
Found at i:18080324 original size:2 final size:2
Alignment explanation
Indices: 18080319--18080349 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18080309 TGTATTTTAA
18080319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18080350 AACTGGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18084894 original size:16 final size:17
Alignment explanation
Indices: 18084869--18084901 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18084859 TTTGTAATTT
*
18084869 TTTTTCCTTCTTTTTCC
1 TTTTTCCTTCCTTTTCC
18084886 TTTTT-CTTCCTTTTCC
1 TTTTTCCTTCCTTTTCC
18084902 CTTTATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTCCTTCCTTTTCC
Found at i:18085392 original size:6 final size:6
Alignment explanation
Indices: 18085377--18085409 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18085367 TTTTTTTAAT
*
18085377 TTTATA -TTATA TTTATC TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
18085410 ATAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:18091672 original size:14 final size:14
Alignment explanation
Indices: 18091635--18091665 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18091625 ATGGAGAATC
*
18091635 AAATAAAAAATTAA
1 AAATAGAAAATTAA
18091649 AAATAGAAAATTAA
1 AAATAGAAAATTAA
18091663 AAA
1 AAA
18091666 ATGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAATAGAAAATTAA
Found at i:18093478 original size:27 final size:27
Alignment explanation
Indices: 18093441--18093495 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18093431 ATCCTTGTTC
18093441 TCTAAATTTTGTTAGTGTGTTAAAATT
1 TCTAAATTTTGTTAGTGTGTTAAAATT
18093468 TCTAAATTTTGTTAGTGTGTTAAAATT
1 TCTAAATTTTGTTAGTGTGTTAAAATT
18093495 T
1 T
18093496 GAAACGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.53
Consensus pattern (27 bp):
TCTAAATTTTGTTAGTGTGTTAAAATT
Found at i:18098217 original size:21 final size:21
Alignment explanation
Indices: 18098187--18098302 Score: 85
Period size: 21 Copynumber: 5.6 Consensus size: 21
18098177 TAATATGAAG
18098187 AAAA-TTTGATAATTTTTGAT
1 AAAATTTTGATAATTTTTGAT
18098207 AAAATTTTGATAA-TTTTGAT
1 AAAATTTTGATAATTTTTGAT
** * * **
18098227 GTAATTTTGGTAACTTTCAAT
1 AAAATTTTGATAATTTTTGAT
** * *
18098248 ATTAGTTTAATAATTTTTGAT
1 AAAATTTTGATAATTTTTGAT
* *
18098269 ATAATTTT-AGTAATTATTGAT
1 AAAATTTTGA-TAATTTTTGAT
*
18098290 AAATTTTTGATAA
1 AAAATTTTGATAA
18098303 CCTCTTAATG
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
20 22 0.30
21 51 0.69
22 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (21 bp):
AAAATTTTGATAATTTTTGAT
Found at i:18098723 original size:22 final size:22
Alignment explanation
Indices: 18098698--18098846 Score: 115
Period size: 22 Copynumber: 6.8 Consensus size: 22
18098688 GATAAATTGT
* *
18098698 TAAATTATTAATAATTTACTAC
1 TAAATTATCAATGATTTACTAC
* * *
18098720 TAAATTAGCATTGATTTACAAC
1 TAAATTATCAATGATTTACTAC
* *
18098742 TAATTTATGAATGATTTACTAC
1 TAAATTATCAATGATTTACTAC
*
18098764 TAAGTTATCAAT-AGTTTAC-ATC
1 TAAATTATCAATGA-TTTACTA-C
*
18098786 TAAATTATCAATGATTTACTAT
1 TAAATTATCAATGATTTACTAC
* * * *
18098808 TATATTAT-TATGCATTTAGTAT
1 TAAATTATCAATG-ATTTACTAC
* *
18098830 TATATTATCATTGATTT
1 TAAATTATCAATGATTT
18098847 GCTATGTAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.05
22 93 0.91
23 4 0.04
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
TAAATTATCAATGATTTACTAC
Found at i:18098737 original size:66 final size:66
Alignment explanation
Indices: 18098666--18098809 Score: 146
Period size: 66 Copynumber: 2.2 Consensus size: 66
18098656 TGTTATCAGC
* ** *
18098666 GATTTACTATTAAGTTATAAATGATAAATTGTTAAATTATTAATAATTTAC-TACTAAATTAGCA
1 GATTTACTATTAAGTTATAAATGATAAACTACTAAATTATCAATAATTTACAT-CTAAATTAGCA
*
18098730 TT
65 AT
* * * * ** * * *
18098732 GATTTACAACTAATTTATGAATGATTTACTACTAAGTTATCAATAGTTTACATCTAAATTATCAA
1 GATTTACTATTAAGTTATAAATGATAAACTACTAAATTATCAATAATTTACATCTAAATTAGCAA
18098797 T
66 T
18098798 GATTTACTATTA
1 GATTTACTATTA
18098810 TATTATTATG
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
66 60 0.98
67 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (66 bp):
GATTTACTATTAAGTTATAAATGATAAACTACTAAATTATCAATAATTTACATCTAAATTAGCAA
T
Found at i:18098759 original size:44 final size:44
Alignment explanation
Indices: 18098698--18098806 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
18098688 GATAAATTGT
* * *
18098698 TAAATTATTAATAATTTACTACTAAATTAGC-ATTGATTTACAAC
1 TAAATTATCAATGATTTACTACTAAATTAGCAATAG-TTTACAAC
* * * * *
18098742 TAATTTATGAATGATTTACTACTAAGTTATCAATAGTTTACATC
1 TAAATTATCAATGATTTACTACTAAATTAGCAATAGTTTACAAC
18098786 TAAATTATCAATGATTTACTA
1 TAAATTATCAATGATTTACTA
18098807 TTATATTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 52 0.95
45 3 0.05
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.42
Consensus pattern (44 bp):
TAAATTATCAATGATTTACTACTAAATTAGCAATAGTTTACAAC
Found at i:18098946 original size:21 final size:21
Alignment explanation
Indices: 18098922--18098968 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18098912 CATTGTCAAG
18098922 TTATCACCAATTTA-TATTAAA
1 TTATCA-CAATTTACTATTAAA
*
18098943 TTATTCATAATTTACTATTAAA
1 TTA-TCACAATTTACTATTAAA
18098965 TTAT
1 TTAT
18098969 TTAACTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATCACAATTTACTATTAAA
Found at i:18098977 original size:16 final size:15
Alignment explanation
Indices: 18098952--18098982 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18098942 ATTATTCATA
18098952 ATTTACTATTAAATT
1 ATTTACTATTAAATT
18098967 ATTTAACTATTAAATT
1 ATTT-ACTATTAAATT
18098983 CTTGATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTACTATTAAATT
Found at i:18099088 original size:44 final size:45
Alignment explanation
Indices: 18099021--18099105 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
18099011 TTGATTTAAA
18099021 TTTAAGTTTCTATGATTAACTACTAAA-TTATC-ATTAATTTACT
1 TTTAAGTTTCTATGATTAACTACTAAATTTATCAATTAATTTACT
* *
18099064 TTTAAGTTATTTATGATTTACTACTAAATTTATCAATTAATT
1 TTTAAGTT-TCTATGATTAACTACTAAATTTATCAATTAATT
18099106 ACTACTTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 8 0.22
44 17 0.46
45 5 0.14
46 7 0.19
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (45 bp):
TTTAAGTTTCTATGATTAACTACTAAATTTATCAATTAATTTACT
Found at i:18099519 original size:7 final size:7
Alignment explanation
Indices: 18099501--18099536 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
18099491 ATGATTGACA
18099501 ATTAAGTT
1 ATTAA-TT
18099509 ATTAATT
1 ATTAATT
18099516 ATTAATT
1 ATTAATT
18099523 ATTTAATT
1 A-TTAATT
18099531 ATTAAT
1 ATTAAT
18099537 AATTTATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.56
8 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (7 bp):
ATTAATT
Found at i:18099528 original size:15 final size:15
Alignment explanation
Indices: 18099501--18099542 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
18099491 ATGATTGACA
18099501 ATTAAGTTA-TTAATT
1 ATTAA-TTATTTAATT
18099516 ATTAATTATTTAATT
1 ATTAATTATTTAATT
*
18099531 ATTAATAATTTA
1 ATTAATTATTTA
18099543 TTACTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTAATTATTTAATT
Found at i:18099535 original size:22 final size:22
Alignment explanation
Indices: 18099502--18099554 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
18099492 TGATTGACAA
* *
18099502 TTAAGTTATTAATTATTAATTAT
1 TTAA-TTATTAATAATTAATTAC
*
18099525 TTAATTATTAATAATTTATTAC
1 TTAATTATTAATAATTAATTAC
*
18099547 TAAATTAT
1 TTAATTAT
18099555 ATCAAGGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAATTATTAATAATTAATTAC
Found at i:18100326 original size:22 final size:21
Alignment explanation
Indices: 18100225--18100326 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
18100215 ACAAGTCAAC
18100225 TTACTATTAAGTTATGAATGAT
1 TTACTATTAAGTTAT-AATGAT
* **
18100247 TT-CTATTAAATTATTGGTGAT
1 TTACTATTAAGTTA-TAATGAT
* *
18100268 TTACCACTAAGTTATTAATGAT
1 TTACTATTAAGTTA-TAATGAT
* **
18100290 TTATTAAAAAGTTATAATTGAT
1 TTACTATTAAGTTATAA-TGAT
*
18100312 TTACTATTAATTTAT
1 TTACTATTAAGTTAT
18100327 CGATGATTCA
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
21 19 0.31
22 42 0.69
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (21 bp):
TTACTATTAAGTTATAATGAT
Found at i:18100333 original size:22 final size:21
Alignment explanation
Indices: 18100225--18100339 Score: 79
Period size: 22 Copynumber: 5.3 Consensus size: 21
18100215 ACAAGTCAAC
18100225 TTACTATTAAGTTATGAATGAT
1 TTACTATTAAGTTATG-ATGAT
* *
18100247 TT-CTATTAAATTATTGGTGAT
1 TTACTATTAAGTTA-TGATGAT
* * *
18100268 TTACCACTAAGTTATTAATGAT
1 TTACTATTAAGTTA-TGATGAT
* ** *
18100290 TTATTAAAAAGTTATAATTGAT
1 TTACTATTAAGTTATGA-TGAT
*
18100312 TTACTATTAATTTATCGATGAT
1 TTACTATTAAGTTAT-GATGAT
*
18100334 TCACTA
1 TTACTA
18100340 AAAAATTATC
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
21 19 0.26
22 52 0.72
23 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (21 bp):
TTACTATTAAGTTATGATGAT
Found at i:18100382 original size:11 final size:11
Alignment explanation
Indices: 18100358--18100410 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
18100348 TCAATAATTA
*
18100358 ACTAATTTACT
1 ACTAATTTATT
*
18100369 ACTAAATTATT
1 ACTAATTTATT
* *
18100380 ACTGATTTATA
1 ACTAATTTATT
*
18100391 ACTAAGTTATT
1 ACTAATTTATT
*
18100402 AATAATTTA
1 ACTAATTTA
18100411 CTATTATATT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (11 bp):
ACTAATTTATT
Found at i:18100388 original size:22 final size:21
Alignment explanation
Indices: 18100362--18100750 Score: 100
Period size: 22 Copynumber: 18.2 Consensus size: 21
18100352 TAATTAACTA
18100362 ATTTACTACTAAATTATTACTG
1 ATTTACTACTAAATTATTA-TG
* *
18100384 ATTTA-TAACTAAGTTATTAATA
1 ATTTACT-ACTAAATTATT-ATG
* *
18100406 ATTTACTATTATATTATTAGTG
1 ATTTACTACTAAATTATTA-TG
* *
18100428 ATTTACTAATAAGTTATTA--
1 ATTTACTACTAAATTATTATG
* *
18100447 ATTTACTACTAAATTATCAATA
1 ATTTACTACTAAATTAT-TATG
* *
18100469 ATTTACTA-T-TA-TATTATC
1 ATTTACTACTAAATTATTATG
* * * *
18100487 A-TTCCT--TAATTTTTTTTATT
1 ATTTACTACTAA--ATTATTATG
* *
18100507 ATTTACTA-TAAAATTATCATCT
1 ATTTACTACT-AAATTATTAT-G
* *
18100529 ATTTACCACTAAATTATTTATA
1 ATTTACTACTAAATTA-TTATG
* * * * *
18100551 ATTCATTACTAAGTTATCACTA
1 ATTTACTACTAAATTATTA-TG
* *
18100573 ATTTA-TATTAAATTATGCATG
1 ATTTACTACTAAATTAT-TATG
* * * *
18100594 ATTTATTATTAATTTATTACTT
1 ATTTACTACTAAATTATTA-TG
* * *
18100616 ATTAACTATTATATTATTTATG
1 ATTTACTACTAAATTA-TTATG
* * *
18100638 ATTTACCACTAAGTT-CTATTG
1 ATTTACTACTAAATTATTA-TG
** *
18100659 ATTTACTTTTAAATTTTTAATG
1 ATTTACTACTAAATTATT-ATG
* * * *
18100681 ATTAACTGCTAAATTATCAATT
1 ATTTACTACTAAATTAT-TATG
* * *
18100703 ATTTACTATTAATTTATCATTG
1 ATTTACTACTAAATTATTA-TG
* *
18100725 AGTTATTACTAAATTATTTATG
1 ATTTACTACTAAATTA-TTATG
18100747 ATTT
1 ATTT
18100751 CCTGTTGTCA
Statistics
Matches: 266, Mismatches: 73, Indels: 56
0.67 0.18 0.14
Matches are distributed among these distances:
16 1 0.00
17 4 0.02
18 3 0.01
19 18 0.07
20 10 0.04
21 44 0.17
22 172 0.65
23 14 0.05
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTTACTACTAAATTATTATG
Found at i:18100422 original size:44 final size:44
Alignment explanation
Indices: 18100354--18100463 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 44
18100344 ATTATCAATA
18100354 ATTAACTAATTTACTACTAAATTATTACTGATTTA-TAACTAAGTT
1 ATTAA-TAATTTACTACTAAATTATTACTGATTTACTAA-TAAGTT
* * *
18100399 ATTAATAATTTACTATTATATTATTAGTGATTTACTAATAAGTT
1 ATTAATAATTTACTACTAAATTATTACTGATTTACTAATAAGTT
18100443 A-T--TAATTTACTACTAAATTAT
1 ATTAATAATTTACTACTAAATTAT
18100464 CAATAATTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 17 0.29
43 1 0.02
44 33 0.56
45 8 0.14
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (44 bp):
ATTAATAATTTACTACTAAATTATTACTGATTTACTAATAAGTT
Found at i:18100473 original size:41 final size:44
Alignment explanation
Indices: 18100360--18100476 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
18100350 AATAATTAAC
*
18100360 TAATTTACTACTAAATTATTACTGATTTA-TAACTAAGTTATTAA
1 TAATTTACTACTAAATTATTAATGATTTACTAACTAAGTTATT-A
* * *
18100404 TAATTTACTATTATATTATTAGTGATTTACTAA-TAAGTTA-T-
1 TAATTTACTACTAAATTATTAATGATTTACTAACTAAGTTATTA
* *
18100445 TAATTTACTACTAAATTATCAATAATTTACTA
1 TAATTTACTACTAAATTATTAATGATTTACTA
18100477 TTATATTATC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 27 0.42
43 1 0.02
44 33 0.52
45 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (44 bp):
TAATTTACTACTAAATTATTAATGATTTACTAACTAAGTTATTA
Found at i:18101017 original size:22 final size:22
Alignment explanation
Indices: 18100992--18101055 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
18100982 TACTAAAAAT
* *
18100992 TTATCAATTATTTACTATTAAG
1 TTATCAATGATTTACTACTAAG
* * *
18101014 TTATTACTGATTTACTACTAAT
1 TTATCAATGATTTACTACTAAG
*
18101036 TTATCTATGA-TTACTACTAA
1 TTATCAATGATTTACTACTAA
18101056 ATTTTGTTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 10 0.29
22 24 0.71
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATCAATGATTTACTACTAAG
Found at i:18101627 original size:14 final size:13
Alignment explanation
Indices: 18101604--18101637 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18101594 GACAAAAGTA
18101604 ATAAAAAAAATTT
1 ATAAAAAAAATTT
*
18101617 ACTAAATAAAATTT
1 A-TAAAAAAAATTT
18101631 ATAAAAA
1 ATAAAAA
18101638 TTAAACAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAAAAAAAATTT
Found at i:18103492 original size:34 final size:33
Alignment explanation
Indices: 18103442--18103511 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
18103432 GAAATATTAA
* * **
18103442 TTTTTTATTTAAAAAATTTTATTATACATAAAT
1 TTTTTTATATAAAAAATATTAAAATACATAAAT
18103475 TTTTATTATATAAAAAATATTAAAATACATAAAT
1 TTTT-TTATATAAAAAATATTAAAATACATAAAT
18103509 TTT
1 TTT
18103512 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (33 bp):
TTTTTTATATAAAAAATATTAAAATACATAAAT
Found at i:18104334 original size:17 final size:17
Alignment explanation
Indices: 18104312--18104344 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18104302 CTTTATCATG
*
18104312 TTAATTTATCTTTTTAA
1 TTAATTTATCTGTTTAA
18104329 TTAATTTATCTGTTTA
1 TTAATTTATCTGTTTA
18104345 GTTGTTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TTAATTTATCTGTTTAA
Found at i:18104660 original size:223 final size:218
Alignment explanation
Indices: 18104386--18104819 Score: 582
Period size: 223 Copynumber: 2.0 Consensus size: 218
18104376 ATTAGTTAAA
*
18104386 AAAAAAAAAAGATAAATAAACAAAAAAAAACTTGTTGATAAACTAAGAAACTTTTAAA-TGATAA
1 AAAAAAAAAAGATAAATAAACAAAAAAAAACTTGTTGATAAACCAAGAAAC-TTTAAAGTGATAA
** *
18104450 TTCTCAATTTCAAATTGAGTTTGAACTAATCCAAAACTCTTTTATTTTGTCGTATAAATAAACAT
65 TTCTCAATTTCAAATTGAGTTTGAACTAATCCAAAACTCCCTTATTTTGTCGTATAAATAAACAC
* * ** *
18104515 AGAAAATTACACAGAAGGGGGGTAGACATCAATAAACATCACAAAACAACACAAGAAGCAATAGC
130 AAAAAATTACACAAAAAAGAGGTAGACATCAATAAACATCACAAAACAACACAAGAAGCAATAGC
18104580 AAAATTTTGTGTCAAACGACTAAT
195 AAAATTTTGTGTCAAACGACTAAT
* * *
18104604 AAAAAAAGAAGATACATAAACAAAAAAAAGAAAAGCTTGTTGATAAACCAAGAAACTTTAAAGTT
1 AAAAAAAAAAGATAAATAAAC---AAAAA-AAAA-CTTGTTGATAAACCAAGAAACTTTAAAGTG
* * * * *
18104669 ATAATTCTTAGTTTCAAATTGAGTTTGAGCTGATCCAAAACTCCCTTATTTTGTCTTATAAATAA
61 ATAATTCTCAATTTCAAATTGAGTTTGAACTAATCCAAAACTCCCTTATTTTGTCGTATAAATAA
* * * * * *
18104734 ACACAAAAAATTACATAAAAAAGAGGTAGACATCAGTAAACATCATAGAACAACACAAGAAGTAG
126 ACACAAAAAATTACACAAAAAAGAGGTAGACATCAATAAACATCACAAAACAACACAAGAAGCAA
**
18104799 TAGTGAAATTTTGTGTCAAAC
191 TAGCAAAATTTTGTGTCAAAC
18104820 CATTGACGAT
Statistics
Matches: 185, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
218 19 0.10
221 5 0.03
222 10 0.05
223 151 0.82
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (218 bp):
AAAAAAAAAAGATAAATAAACAAAAAAAAACTTGTTGATAAACCAAGAAACTTTAAAGTGATAAT
TCTCAATTTCAAATTGAGTTTGAACTAATCCAAAACTCCCTTATTTTGTCGTATAAATAAACACA
AAAAATTACACAAAAAAGAGGTAGACATCAATAAACATCACAAAACAACACAAGAAGCAATAGCA
AAATTTTGTGTCAAACGACTAAT
Found at i:18108400 original size:23 final size:23
Alignment explanation
Indices: 18108350--18108400 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
18108340 TAAAACTTTT
18108350 GAAAATATAGGATTTCAATCTCA
1 GAAAATATAGGATTTCAATCTCA
* * *
18108373 AAAAATCTGGGATTTCAATC-CTA
1 GAAAATATAGGATTTCAATCTC-A
18108396 GAAAA
1 GAAAA
18108401 GCCTTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (23 bp):
GAAAATATAGGATTTCAATCTCA
Found at i:18109369 original size:144 final size:144
Alignment explanation
Indices: 18109109--18109396 Score: 477
Period size: 144 Copynumber: 2.0 Consensus size: 144
18109099 CTTAATCAGC
* * **
18109109 CCTTAATCGATTTGGTTGAATTGTTGTTGGTCGGCCCATATAAACCGATGTTGACTGATCTTGTT
1 CCTTAATCGATTTGGTTGAACTGTTGTTGGTCGGCCCACATAAACCGACATTGACTGATCTTGTT
*
18109174 CAGGTAAACAAAGTTTTTTTGAATATTTTGATTAATTTTTTTAATATTATTTTTGTAATTTTAAA
66 CAGGTAAACAAAATTTTTTTGAATATTTTGATTAATTTTTTTAATATTATTTTTGTAATTTTAAA
18109239 ATTTTATCATTAAT
131 ATTTTATCATTAAT
* * *
18109253 CCTTAATCGGTTTGGTTGAACTGTTGTTGGTCGGCCCACCTAGACCGACATTGACTGATCTTGTT
1 CCTTAATCGATTTGGTTGAACTGTTGTTGGTCGGCCCACATAAACCGACATTGACTGATCTTGTT
* * *
18109318 CAGGTAAACAAAATTTTTTTGAATATTTTGGTTTATTTTTTTAATATTATTTTTGTTATTTTAAA
66 CAGGTAAACAAAATTTTTTTGAATATTTTGATTAATTTTTTTAATATTATTTTTGTAATTTTAAA
18109383 ATTTTATCATTAAT
131 ATTTTATCATTAAT
18109397 ATTTATGCAT
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
144 133 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (144 bp):
CCTTAATCGATTTGGTTGAACTGTTGTTGGTCGGCCCACATAAACCGACATTGACTGATCTTGTT
CAGGTAAACAAAATTTTTTTGAATATTTTGATTAATTTTTTTAATATTATTTTTGTAATTTTAAA
ATTTTATCATTAAT
Found at i:18116245 original size:17 final size:17
Alignment explanation
Indices: 18116223--18116262 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
18116213 GGTCTTTGAA
18116223 AAAGCTTATGAATATTT
1 AAAGCTTATGAATATTT
*
18116240 AAAGCTTATGAATTTTT
1 AAAGCTTATGAATATTT
18116257 AAAGCT
1 AAAGCT
18116263 AATAAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (17 bp):
AAAGCTTATGAATATTT
Found at i:18122067 original size:49 final size:51
Alignment explanation
Indices: 18122013--18122135 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 51
18122003 AGAAAAGATG
* * **
18122013 AAATTTTTAAAATTATAGAGCCTC-C-ACTTATAGAAGCTTTTTCAAAATA
1 AAATTTTTAAAATTGTAGAGCCTCTCTACTTAGAGAAGCTTTCCCAAAATA
* * *
18122062 AAATTTTTAAAATTGTAAAGCCTCTCTACTTAGAGGAGCTTTCCCAAGATA
1 AAATTTTTAAAATTGTAGAGCCTCTCTACTTAGAGAAGCTTTCCCAAAATA
* *
18122113 AAAATTTTAAAGTTGTAGAGCCT
1 AAATTTTTAAAATTGTAGAGCCT
18122136 TTGCTTAAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 22 0.35
50 1 0.02
51 39 0.63
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (51 bp):
AAATTTTTAAAATTGTAGAGCCTCTCTACTTAGAGAAGCTTTCCCAAAATA
Found at i:18123658 original size:13 final size:14
Alignment explanation
Indices: 18123627--18123671 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
18123617 TAACCTTTTG
18123627 ATAAAAATT-TTAA
1 ATAAAAATTATTAA
18123640 ATTAAAAATTATT-A
1 A-TAAAAATTATTAA
*
18123654 ATAAAAATTATAAA
1 ATAAAAATTATTAA
18123668 ATAA
1 ATAA
18123672 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 11 0.39
14 15 0.54
15 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAAAATTATTAA
Found at i:18123677 original size:18 final size:18
Alignment explanation
Indices: 18123652--18123687 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18123642 TAAAAATTAT
18123652 TAATAAAAATTA-TAAAA
1 TAATAAAAATTAGTAAAA
18123669 TAATAAAAAATTAGTAAAA
1 TAAT-AAAAATTAGTAAAA
18123688 ATGTAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
TAATAAAAATTAGTAAAA
Found at i:18123681 original size:28 final size:27
Alignment explanation
Indices: 18123627--18123689 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
18123617 TAACCTTTTG
* * **
18123627 ATAAAAATTTTAAATTAAAAATTATTA
1 ATAAAAATTATAAAATAAAAAAAATTA
18123654 ATAAAAATTATAAAATAATAAAAAATTA
1 ATAAAAATTATAAAATAA-AAAAAATTA
*
18123682 GTAAAAAT
1 ATAAAAAT
18123690 GTAAGAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAAAAATTATAAAATAAAAAAAATTA
Found at i:18126067 original size:16 final size:16
Alignment explanation
Indices: 18126029--18126069 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
18126019 TCAATAACAT
18126029 GTAAAATTTTTTATTG
1 GTAAAATTTTTTATTG
* * *
18126045 ATGAAATTTTTTGTTG
1 GTAAAATTTTTTATTG
18126061 GTAAAATTT
1 GTAAAATTT
18126070 ATGGCAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.54
Consensus pattern (16 bp):
GTAAAATTTTTTATTG
Found at i:18127120 original size:10 final size:10
Alignment explanation
Indices: 18127105--18127134 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18127095 AATTCTATTT
18127105 TTAATTTTAA
1 TTAATTTTAA
18127115 TTAATTTTAA
1 TTAATTTTAA
*
18127125 TTAAATTTAA
1 TTAATTTTAA
18127135 ATAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:18131190 original size:21 final size:21
Alignment explanation
Indices: 18131151--18131190 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18131141 AAGTCAGCCT
* *
18131151 GAGAAGGATGAGGAAGAGGAA
1 GAGAAAGATGAAGAAGAGGAA
*
18131172 GAGAAAGATGAAGATGAGG
1 GAGAAAGATGAAGAAGAGG
18131191 CCCTGCAAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.45, T:0.07
Consensus pattern (21 bp):
GAGAAAGATGAAGAAGAGGAA
Found at i:18141256 original size:51 final size:51
Alignment explanation
Indices: 18141180--18141283 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
18141170 ATAATAGTTA
*
18141180 TTGAAGGATCCTATGCTTCAATCTTGGACTTCTAATTTTTTATTTTAAGGC
1 TTGAAGGATCCTATGCTTCAATCTTGGACTTATAATTTTTTATTTTAAGGC
18141231 TTGAAGGATCCTATGCTTCAATCTTGGACTTATAATTTTTTATTTTAAGGC
1 TTGAAGGATCCTATGCTTCAATCTTGGACTTATAATTTTTTATTTTAAGGC
18141282 TT
1 TT
18141284 AGTATGGACC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.46
Consensus pattern (51 bp):
TTGAAGGATCCTATGCTTCAATCTTGGACTTATAATTTTTTATTTTAAGGC
Found at i:18147880 original size:16 final size:16
Alignment explanation
Indices: 18147861--18147913 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
18147851 TTTTTTGATT
*
18147861 TTTTATTATTTATTAAT
1 TTTTATTATTTA-TAAA
*
18147878 TTTTATAATTTA-AAA
1 TTTTATTATTTATAAA
*
18147893 TTTTATTATATATAAA
1 TTTTATTATTTATAAA
18147909 TTTTA
1 TTTTA
18147914 AATTAATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 12 0.39
16 8 0.26
17 11 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATTATTTATAAA
Found at i:18148156 original size:18 final size:18
Alignment explanation
Indices: 18148113--18148162 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
18148103 TTGTATTATC
*
18148113 ATTTATTATAATAAAATT
1 ATTTATAATAATAAAATT
***
18148131 AAAAATAATAATAAAATT
1 ATTTATAATAATAAAATT
*
18148149 ATTTATAATTATAA
1 ATTTATAATAATAA
18148163 TTAAAAATTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTATAATAATAAAATT
Found at i:18150743 original size:2 final size:2
Alignment explanation
Indices: 18150736--18150769 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18150726 CATGCAAGAC
18150736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18150770 TTACTTGCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18152527 original size:22 final size:23
Alignment explanation
Indices: 18152484--18152527 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18152474 AGAGTTATCT
18152484 AATTCTTATCTATAGGGATGAAA
1 AATTCTTATCTATAGGGATGAAA
* *
18152507 AATTTTTATCTCTA-GGATGAA
1 AATTCTTATCTATAGGGATGAA
18152528 GTAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (23 bp):
AATTCTTATCTATAGGGATGAAA
Found at i:18152632 original size:14 final size:16
Alignment explanation
Indices: 18152603--18152635 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
18152593 TTAAAAATTA
18152603 ATTATAATTATTTTAT
1 ATTATAATTATTTTAT
18152619 ATTATAA-T-TTTTAT
1 ATTATAATTATTTTAT
18152633 ATT
1 ATT
18152636 TTCAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATAATTATTTTAT
Found at i:18153678 original size:60 final size:60
Alignment explanation
Indices: 18153490--18153720 Score: 342
Period size: 59 Copynumber: 3.8 Consensus size: 60
18153480 TTTTTTTTAG
* *
18153490 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
* *** *
18153549 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTT-A-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTC-AA
18153608 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
18153668 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTT-GAAATTT
18153721 ATTTTTAATT
Statistics
Matches: 154, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
58 4 0.03
59 81 0.53
60 50 0.32
61 4 0.03
62 8 0.05
63 7 0.05
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAA
Found at i:18153700 original size:119 final size:120
Alignment explanation
Indices: 18153490--18153724 Score: 393
Period size: 119 Copynumber: 2.0 Consensus size: 120
18153480 TTTTTTTTAG
18153490 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
*
18153555 TTGATACTTTCAACTTTTCCTC-AAAA-ACCCTTTTTTTGAAAATTTATTTCTAA
66 TTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGAAAATTTATTTCTAA
* *
18153608 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTCAAGGAAA
** *
18153673 ATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTT
65 ATTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGAAAATTTATTT
18153725 TTAATTATTG
Statistics
Matches: 108, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
118 35 0.32
119 49 0.45
120 4 0.04
121 20 0.19
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (120 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGAAAATTTATTTCTAA
Found at i:18153925 original size:57 final size:58
Alignment explanation
Indices: 18153840--18153948 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 58
18153830 TTGTGTTTAA
* *
18153840 TATTTCCTAAGGAAATTGATACTTTTCAACTTTTCCCCAAAAATATT-TTTTGAAATT
1 TATTTCCTAAGAAAAATGATACTTTTCAACTTTTCCCCAAAAATATTGTTTTGAAATT
* *
18153897 TATTT-CTAAGAAAAATGATGATTTTTCAACTTTTCCCTAAAAATATTGTTTT
1 TATTTCCTAAGAAAAATGAT-ACTTTTCAACTTTTCCCCAAAAATATTGTTTT
18153949 TGAATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 12 0.26
57 30 0.65
58 4 0.09
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (58 bp):
TATTTCCTAAGAAAAATGATACTTTTCAACTTTTCCCCAAAAATATTGTTTTGAAATT
Found at i:18154044 original size:8 final size:8
Alignment explanation
Indices: 18154031--18154085 Score: 62
Period size: 8 Copynumber: 7.1 Consensus size: 8
18154021 TAATCTAATT
18154031 AAATAAAA
1 AAATAAAA
*
18154039 AAATAAAC
1 AAATAAAA
*
18154047 AAATAAAC
1 AAATAAAA
18154055 AAATAAACA
1 AAATAAA-A
18154064 AAA-AAAA
1 AAATAAAA
18154071 AAA-AAAA
1 AAATAAAA
18154078 AAA-AAAA
1 AAATAAAA
18154085 A
1 A
18154086 CCTGGAGCGG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 16 0.36
8 25 0.57
9 3 0.07
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.07
Consensus pattern (8 bp):
AAATAAAA
Found at i:18154052 original size:16 final size:15
Alignment explanation
Indices: 18154035--18154085 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 15
18154025 CTAATTAAAT
18154035 AAAAAAATAAACAAA
1 AAAAAAATAAACAAA
*
18154050 TAAACAAATAAACAAA
1 -AAAAAAATAAACAAA
18154066 AAAAAAA-AAA-AAA
1 AAAAAAATAAACAAA
18154079 AAAAAAA
1 AAAAAAA
18154086 CCTGGAGCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 10 0.30
14 3 0.09
15 6 0.18
16 14 0.42
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAAAATAAACAAA
Found at i:18154374 original size:19 final size:20
Alignment explanation
Indices: 18154339--18154380 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18154329 GGCAGAACGC
*
18154339 TCTTCCTCTTCTCTCTCTCT
1 TCTTCCTCTTCTCTCTCCCT
*
18154359 TCTTCCT-TTTTCTCTCCCT
1 TCTTCCTCTTCTCTCTCCCT
18154378 TCT
1 TCT
18154381 CTCTAGAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (20 bp):
TCTTCCTCTTCTCTCTCCCT
Found at i:18154445 original size:19 final size:20
Alignment explanation
Indices: 18154412--18154450 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
18154402 GGTGTCGGAT
18154412 TCTGGAAATTTTCACCGAAA
1 TCTGGAAATTTTCACCGAAA
18154432 TCTGGAAA-TTTCACCGAAA
1 TCTGGAAATTTTCACCGAAA
18154451 GTTGGTCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
TCTGGAAATTTTCACCGAAA
Found at i:18154549 original size:31 final size:32
Alignment explanation
Indices: 18154503--18154572 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
18154493 ACTGGACTGG
*
18154503 TCGTC-GAAAACTTC-AATGTTCGTCGGAATTGT
1 TCGTCGGAAAACTTCAAAT-TTCGCCGGAATT-T
18154535 T-GTCGGAAAA-TTCAAATTTCGCCGGAATTT
1 TCGTCGGAAAACTTCAAATTTCGCCGGAATTT
18154565 TCGTCGGA
1 TCGTCGGA
18154573 TTCTGGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
30 2 0.06
31 23 0.68
32 9 0.26
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (32 bp):
TCGTCGGAAAACTTCAAATTTCGCCGGAATTT
Found at i:18155392 original size:1 final size:1
Alignment explanation
Indices: 18155388--18155464 Score: 91
Period size: 1 Copynumber: 77.0 Consensus size: 1
18155378 TTTTTTAAAA
* * * * * * *
18155388 TTTTTGTTTTTTGTTTTTTTGTTTTTTTTTATTTTTTTTTTGTTTTTTTTGTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18155453 TTTTTTTTTTTT
1 TTTTTTTTTTTT
18155465 GCCGAAGTCC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.01, C:0.00, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:18155407 original size:30 final size:27
Alignment explanation
Indices: 18155358--18155464 Score: 110
Period size: 29 Copynumber: 3.9 Consensus size: 27
18155348 TCAACTCAAC
* **
18155358 ATTTTTATTTTTTGATTTTTTTTTTTAAA
1 ATTTTTGTTTTTTG-TTTTTTTTTTT-TT
18155387 ATTTTTGTTTTTTGTTTTTTTGTTTTTT
1 ATTTTTGTTTTTTGTTTTTTT-TTTTTT
* * *
18155415 TTTATTTTTTTTTTGTTTTTTTTGTTTT
1 ATT-TTTGTTTTTTGTTTTTTTTTTTTT
18155443 -TTTTTGTTTTTT-TTTTTTTTTT
1 ATTTTTGTTTTTTGTTTTTTTTTT
18155465 GCCGAAGTCC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
25 9 0.13
26 9 0.13
27 2 0.03
28 14 0.21
29 34 0.50
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (27 bp):
ATTTTTGTTTTTTGTTTTTTTTTTTTT
Found at i:18155426 original size:29 final size:29
Alignment explanation
Indices: 18155389--18155464 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
18155379 TTTTTAAAAT
18155389 TTTTGTTTTTTGTTTTTTTGTTTTTTTTTA
1 TTTT-TTTTTTGTTTTTTTGTTTTTTTTTA
*
18155419 TTTTTTTTTTGTTTTTTTTGTTTTTTTTTG
1 TTTTTTTTTTG-TTTTTTTGTTTTTTTTTA
18155449 TTTTTTTTTT-TTTTTT
1 TTTTTTTTTTGTTTTTT
18155465 GCCGAAGTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 6 0.14
29 7 0.16
30 31 0.70
ACGTcount: A:0.01, C:0.00, G:0.08, T:0.91
Consensus pattern (29 bp):
TTTTTTTTTTGTTTTTTTGTTTTTTTTTA
Found at i:18155529 original size:41 final size:42
Alignment explanation
Indices: 18155472--18156083 Score: 824
Period size: 41 Copynumber: 14.9 Consensus size: 42
18155462 TTTGCCGAAG
18155472 TCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
18155513 TCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * *
18155554 TCCTCTAAATAGAGGTATCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
18155595 TCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGC
18155635 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * * * *
18155676 TCCTCTCAACAGAGGTATCACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
18155718 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * *
18155759 T-CTCTCAACAGAGGTACCACGACTTTGGAAAAAT-AATTGGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT-GC
*
18155800 TCCTCTAAACAGAGGCA--ACGAAACTTT-GAAAAAT-AATTG-
1 TCCTCTAAACAGAGGCACCACG--ACTTTGGAAAAGTAAATTGC
18155839 -CCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
18155879 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGC
18155920 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
18155961 TCCTCTAAACAGAGGCACCATGACTTTGGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GGAAAAGTAAATTGC
18156004 TCCTCTAAACAGAGGCA--ACGAACTTTGAGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTG-GAAAAGTAAATTGC
18156046 TCCTCTAAACAGAGGCA--ACGAACTTT-GAAGAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGGAA-AAGTAAAT
18156084 ACTCCTAGAC
Statistics
Matches: 518, Mismatches: 27, Indels: 52
0.87 0.05 0.09
Matches are distributed among these distances:
38 27 0.05
39 13 0.03
40 82 0.16
41 250 0.48
42 114 0.22
43 32 0.06
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
Found at i:18157121 original size:7 final size:8
Alignment explanation
Indices: 18157097--18157169 Score: 96
Period size: 8 Copynumber: 9.2 Consensus size: 8
18157087 GTCCTCCTTG
*
18157097 TTCACTTT
1 TTCATTTT
*
18157105 TTCTTTTT
1 TTCATTTT
18157113 TTCCATTTT
1 TT-CATTTT
18157122 TTC-TTTT
1 TTCATTTT
18157129 TTCATTTT
1 TTCATTTT
18157137 TTCA-TTT
1 TTCATTTT
18157144 TTCATTTT
1 TTCATTTT
*
18157152 TCCATTTT
1 TTCATTTT
18157160 TTCATTTT
1 TTCATTTT
18157168 TT
1 TT
18157170 TCAAGCATAG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
7 14 0.25
8 36 0.63
9 7 0.12
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (8 bp):
TTCATTTT
Found at i:18157128 original size:15 final size:16
Alignment explanation
Indices: 18157097--18157169 Score: 96
Period size: 15 Copynumber: 4.6 Consensus size: 16
18157087 GTCCTCCTTG
* *
18157097 TTCACTTTTTCTTTTT
1 TTCATTTTTTCATTTT
18157113 TTCCATTTTTTC-TTTT
1 TT-CATTTTTTCATTTT
18157129 TTCATTTTTTCA-TTT
1 TTCATTTTTTCATTTT
*
18157144 TTCATTTTTCCATTTT
1 TTCATTTTTTCATTTT
18157160 TTCATTTTTT
1 TTCATTTTTT
18157170 TCAAGCATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
15 23 0.45
16 20 0.39
17 8 0.16
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCATTTTTTCATTTT
Found at i:18157136 original size:23 final size:24
Alignment explanation
Indices: 18157109--18157169 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
18157099 CACTTTTTCT
*
18157109 TTTTTTCCATTTTTTC-TTTTTTCA
1 TTTTTT-CATTTTTTCATTTTTCCA
18157133 TTTTTTCA-TTTTTCATTTTTCCA
1 TTTTTTCATTTTTTCATTTTTCCA
18157156 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
18157170 TCAAGCATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.18
23 17 0.50
24 11 0.32
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTTCATTTTTTCATTTTTCCA
Found at i:18157167 original size:6 final size:7
Alignment explanation
Indices: 18157119--18157168 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
18157109 TTTTTTCCAT
*
18157119 TTTTTCT
1 TTTTTCA
18157126 TTTTTCA
1 TTTTTCA
18157133 TTTTTTCA
1 -TTTTTCA
18157141 TTTTTCA
1 TTTTTCA
18157148 TTTTTCCA
1 TTTTT-CA
18157156 TTTTTTCA
1 -TTTTTCA
18157164 TTTTT
1 TTTTT
18157169 TTCAAGCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
7 23 0.59
8 11 0.28
9 5 0.13
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:18164409 original size:15 final size:15
Alignment explanation
Indices: 18164389--18164435 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
18164379 TTGTAAGTGT
18164389 AATGAATGAGAATGC
1 AATGAATGAGAATGC
*
18164404 AATGAATGAGAATGT
1 AATGAATGAGAATGC
18164419 AATGAATGAGAAATGC
1 AATGAATGAG-AATGC
18164435 A
1 A
18164436 TGTATGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.26, T:0.21
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:18167891 original size:57 final size:57
Alignment explanation
Indices: 18167606--18168122 Score: 752
Period size: 57 Copynumber: 8.7 Consensus size: 57
18167596 TTTTTTTTAG
*
18167606 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--ATTTCT-AA
*
18167665 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTATTTCTAA
*
18167724 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAATTTA--TTTC---TAA
18167789 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTATTTCTAA
18167848 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
18167905 GGAAAATTGATACTTTCAACTTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
* *
18167963 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTTTTTTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAA-TTTATTTCTAA
*
18168024 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
18168081 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT-TTTT
18168123 TTTTGAATTT
Statistics
Matches: 426, Mismatches: 11, Indels: 43
0.89 0.02 0.09
Matches are distributed among these distances:
56 1 0.00
57 103 0.24
58 73 0.17
59 102 0.24
60 27 0.06
61 57 0.13
62 9 0.02
64 17 0.04
65 37 0.09
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:18168091 original size:118 final size:117
Alignment explanation
Indices: 18167606--18168137 Score: 774
Period size: 118 Copynumber: 4.5 Consensus size: 117
18167596 TTTTTTTTAG
* *
18167606 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTCGATTTTC-AAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT--TTTTTCTAAGGA
* *
18167668 AAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
64 AAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTAA
*
18167724 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGGAAATTT-TTTTTC---TAA
*
18167789 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
61 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
*
18167848 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAA-TTTATTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTTTTTCTAAGGAAA
*
18167910 ATTGATACTTTCAACTTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
66 ATTGATACTTTCAAC-TTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
18167963 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTTTTTTTCTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGGAAATTTTTTTTCTAAGGAA
18168028 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
65 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
18168081 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTTTTTG-AATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-T-TTTTTTTGGAAATTTTTTTT
18168138 ATTTTTATTT
Statistics
Matches: 386, Mismatches: 12, Indels: 32
0.90 0.03 0.07
Matches are distributed among these distances:
115 57 0.15
116 23 0.06
117 15 0.04
118 128 0.33
119 42 0.11
120 7 0.02
121 26 0.07
124 88 0.23
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTTTTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:18168226 original size:8 final size:8
Alignment explanation
Indices: 18168206--18168244 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
18168196 CTAATCTAAT
18168206 AAATAAA-
1 AAATAAAC
18168213 AAATAAAC
1 AAATAAAC
18168221 AAAT--A-
1 AAATAAAC
18168226 AAATAAAC
1 AAATAAAC
18168234 AAATAAAC
1 AAATAAAC
18168242 AAA
1 AAA
18168245 GAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:18168230 original size:13 final size:13
Alignment explanation
Indices: 18168212--18168253 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
18168202 TAATAAATAA
18168212 AAAATAAACAAAT
1 AAAATAAACAAAT
18168225 AAAATAAACAAAT
1 AAAATAAACAAAT
* *
18168238 -AAACAAAGAAAT
1 AAAATAAACAAAT
18168250 AAAA
1 AAAA
18168254 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:18168625 original size:19 final size:20
Alignment explanation
Indices: 18168585--18168630 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
18168575 GAACACCGGT
*
18168585 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
18168605 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
18168624 GCCGGAA
1 GCCGGAA
18168631 GTTGGCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:18168733 original size:31 final size:33
Alignment explanation
Indices: 18168688--18168754 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
18168678 ACTGGTCGCC
*
18168688 GAAAACTTCAAAG-TTGGCCGGAATTGTTAGCCG
1 GAAAACTTCAAAGTTTCGCCGGAATT-TTAGCCG
*
18168721 GAAAA-TTC-AAGTTTCGCCGGAATTTTCGCCG
1 GAAAACTTCAAAGTTTCGCCGGAATTTTAGCCG
18168752 GAA
1 GAA
18168755 TCTGGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 12 0.39
32 14 0.45
33 5 0.16
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (33 bp):
GAAAACTTCAAAGTTTCGCCGGAATTTTAGCCG
Found at i:18173559 original size:29 final size:30
Alignment explanation
Indices: 18173513--18173578 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
18173503 GAGTTTTGGA
* *
18173513 TTTTGGGATTTTGGTTTAA-GTTTCA-AGGG
1 TTTTAGGATTTTGGTTTAAGGTTT-AGAGAG
18173542 TTTTAGGA-TTTGGTTTTAAGGTTTAGAGAG
1 TTTTAGGATTTTGG-TTTAAGGTTTAGAGAG
18173572 TTTTAGG
1 TTTTAGG
18173579 GCTTGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 5 0.16
29 13 0.41
30 14 0.44
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (30 bp):
TTTTAGGATTTTGGTTTAAGGTTTAGAGAG
Found at i:18173619 original size:30 final size:29
Alignment explanation
Indices: 18173543--18173627 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
18173533 TTTCAAGGGT
* * * * *
18173543 TTTAGGATTTGGTTTTAAGGTTTAGAGAGT
1 TTTAGGGTTTGATTTTAGGGTTT-GAAAGG
*
18173573 TTTAGGGCTTGAATTTTAGGGTTTGAAAGG
1 TTTAGGGTTTG-ATTTTAGGGTTTGAAAGG
18173603 TTTAGGGTTTTGATTTTAGGGTTTG
1 TTTAGGG-TTTGATTTTAGGGTTTG
18173628 GGGATTAGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 33 0.72
31 13 0.28
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (29 bp):
TTTAGGGTTTGATTTTAGGGTTTGAAAGG
Found at i:18173625 original size:21 final size:21
Alignment explanation
Indices: 18173601--18173640 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18173591 GGGTTTGAAA
* *
18173601 GGTTTAGGGTTTTGATTTTAG
1 GGTTTAGGGATTAGATTTTAG
*
18173622 GGTTTGGGGATTAGATTTT
1 GGTTTAGGGATTAGATTTT
18173641 TTATTTTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (21 bp):
GGTTTAGGGATTAGATTTTAG
Found at i:18176746 original size:27 final size:27
Alignment explanation
Indices: 18176716--18176804 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
18176706 ATTTCTAAGG
18176716 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** * * * *
18176743 AAAA-T-ATTTTTTGGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TCCCT-A
18176771 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTCCCTA
18176800 AAAAT
1 AAAAT
18176805 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 12 0.28
28 1 0.02
29 1 0.02
30 7 0.16
31 6 0.14
32 5 0.12
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:18176849 original size:117 final size:115
Alignment explanation
Indices: 18176413--18176988 Score: 811
Period size: 117 Copynumber: 4.9 Consensus size: 115
18176403 TTTTTTTTAG
* *
18176413 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTT--ATTTCT-AAGGAA
* *
18176476 AATTGATACTTTCAACTTTTCCTTAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCCTAAAAA---TATTTTTTGGAAATTTATTTCTAA
* *
18176531 GGAAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAA-TTT-ATTTCT-AAGGAA
*
18176595 AATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTAA
63 AATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAATTTA--TTTC---TAA
* *
18176656 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAAT
18176721 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
66 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
*
18176771 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTGAAATTTATTTCTAAGGAAA
*
18176836 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
64 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
*
18176888 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTGAAATTTATTTCTAAGGAAA
18176953 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
64 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
18176989 TTTGAATTTT
Statistics
Matches: 428, Mismatches: 15, Indels: 31
0.90 0.03 0.07
Matches are distributed among these distances:
115 38 0.09
116 1 0.00
117 176 0.41
118 37 0.09
119 50 0.12
120 32 0.07
122 4 0.01
123 40 0.09
124 4 0.01
125 46 0.11
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:18176991 original size:60 final size:58
Alignment explanation
Indices: 18176413--18176989 Score: 806
Period size: 60 Copynumber: 9.7 Consensus size: 58
18176403 TTTTTTTTAG
*
18176413 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT--ATTTCT-AA
* ** *
18176472 GGAAAATTGATACTTTCAACTTTTCCTTAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-TATTTTTTTGGAAATTTATTTCTAA
* * *
18176531 GGAAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTT-ATTTCT-AA
*
18176591 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTA--TTTC---TAA
*
18176656 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
18176714 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTC-TAA
* *
18176771 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTTCTAA
*
18176831 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
* *
18176888 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTTCTAA
18176948 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
18176990 TTGAATTTTT
Statistics
Matches: 471, Mismatches: 25, Indels: 45
0.87 0.05 0.08
Matches are distributed among these distances:
56 3 0.01
57 107 0.23
58 54 0.11
59 71 0.15
60 147 0.31
61 23 0.05
62 14 0.03
63 16 0.03
65 35 0.07
66 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:18177090 original size:8 final size:8
Alignment explanation
Indices: 18177070--18177108 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
18177060 CTAATCTAAT
18177070 AAATAAA-
1 AAATAAAC
18177077 AAATAAAC
1 AAATAAAC
18177085 AAAT--A-
1 AAATAAAC
18177090 AAATAAAC
1 AAATAAAC
18177098 AAATAAAC
1 AAATAAAC
18177106 AAA
1 AAA
18177109 GAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:18177094 original size:13 final size:13
Alignment explanation
Indices: 18177076--18177117 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
18177066 TAATAAATAA
18177076 AAAATAAACAAAT
1 AAAATAAACAAAT
18177089 AAAATAAACAAAT
1 AAAATAAACAAAT
* *
18177102 -AAACAAAGAAAT
1 AAAATAAACAAAT
18177114 AAAA
1 AAAA
18177118 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:18182419 original size:29 final size:30
Alignment explanation
Indices: 18182373--18182438 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
18182363 GAGTTTTGGA
* *
18182373 TTTTGGGATTTTGGTTTAA-GTTTCA-AGGG
1 TTTTAGGATTTTGGTTTAAGGTTT-AGAGAG
18182402 TTTTAGGA-TTTGGTTTTAAGGTTTAGAGAG
1 TTTTAGGATTTTGG-TTTAAGGTTTAGAGAG
18182432 TTTTAGG
1 TTTTAGG
18182439 GCTTGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 5 0.16
29 13 0.41
30 14 0.44
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (30 bp):
TTTTAGGATTTTGGTTTAAGGTTTAGAGAG
Found at i:18182537 original size:30 final size:29
Alignment explanation
Indices: 18182444--18182657 Score: 109
Period size: 30 Copynumber: 7.4 Consensus size: 29
18182434 TTAGGGCTTG
* **
18182444 AATTTTAGAGTTTAAAAAGTTTAGGGTTTT
1 AATTTTAGGGTTTAAAGGGTTTA-GGTTTT
* * * *
18182474 GATTTTAGGGTTT--GGGGATTAGATTTTT
1 AATTTTAGGGTTTAAAGGGTTTAG-GTTTT
* *
18182502 TATTTTATGGTTTAAAGGGTTTAAGGTTTT
1 AATTTTAGGGTTTAAAGGGTTT-AGGTTTT
** ** *
18182532 AATTTTTCGGTTTGGAGGATTTAAGGTTTT
1 AATTTTAGGGTTTAAAGGGTTT-AGGTTTT
* *** * *
18182562 GATTTTAAATTTTAAGGGGTTTAGGGTTT
1 AATTTTAGGGTTTAAAGGGTTTAGGTTTT
* * *
18182591 GA----A-GGTTTTAAGGGTTTAGGATTT
1 AATTTTAGGGTTTAAAGGGTTTAGGTTTT
* *
18182615 AATTTTAGGGTTTGAAGGGTTTAGGGTTT
1 AATTTTAGGGTTTAAAGGGTTTAGGTTTT
18182644 AGATTTTAGGGTTT
1 A-ATTTTAGGGTTT
18182658 CAATTTTAGG
Statistics
Matches: 138, Mismatches: 36, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
24 17 0.12
25 1 0.01
27 1 0.01
28 20 0.14
29 28 0.20
30 69 0.50
31 2 0.01
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (29 bp):
AATTTTAGGGTTTAAAGGGTTTAGGTTTT
Found at i:18182588 original size:7 final size:7
Alignment explanation
Indices: 18182578--18182657 Score: 54
Period size: 7 Copynumber: 10.9 Consensus size: 7
18182568 AAATTTTAAG
18182578 GGGTTTA
1 GGGTTTA
18182585 GGGTTTGAA
1 GGGTTT--A
*
18182594 GGTTTTAA
1 GGGTTT-A
18182602 GGGTTTA
1 GGGTTTA
*
18182609 GGATTTA
1 GGGTTTA
**
18182616 -ATTTTA
1 GGGTTTA
18182622 GGGTTTGAA
1 GGGTTT--A
18182631 GGGTTTA
1 GGGTTTA
18182638 GGGTTTA
1 GGGTTTA
**
18182645 GATTTTA
1 GGGTTTA
18182652 GGGTTT
1 GGGTTT
18182658 CAATTTTAGG
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
6 4 0.07
7 33 0.58
8 7 0.12
9 13 0.23
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:18182625 original size:37 final size:35
Alignment explanation
Indices: 18182581--18182649 Score: 111
Period size: 37 Copynumber: 1.9 Consensus size: 35
18182571 TTTTAAGGGG
*
18182581 TTTAGGGTTTGAAGGTTTTAAGGGTTTAGGATTTAAT
1 TTTAGGGTTTGAAGGGTTT-AGGGTTTA-GATTTAAT
18182618 TTTAGGGTTTGAAGGGTTTAGGGTTTAGATTT
1 TTTAGGGTTTGAAGGGTTTAGGGTTTAGATTT
18182650 TAGGGTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 5 0.16
36 8 0.26
37 18 0.58
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (35 bp):
TTTAGGGTTTGAAGGGTTTAGGGTTTAGATTTAAT
Found at i:18182632 original size:29 final size:30
Alignment explanation
Indices: 18182594--18182657 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
18182584 AGGGTTTGAA
*
18182594 GGTTTTAAGGGTTTAGGATTTA-ATTTTAG
1 GGTTTGAAGGGTTTAGGATTTAGATTTTAG
*
18182623 GGTTTGAAGGGTTTAGGGTTTAGATTTTAG
1 GGTTTGAAGGGTTTAGGATTTAGATTTTAG
18182653 GGTTT
1 GGTTT
18182658 CAATTTTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (30 bp):
GGTTTGAAGGGTTTAGGATTTAGATTTTAG
Found at i:18182653 original size:14 final size:14
Alignment explanation
Indices: 18182605--18182761 Score: 104
Period size: 14 Copynumber: 10.9 Consensus size: 14
18182595 GTTTTAAGGG
*
18182605 TTTAGGATTTA-AT
1 TTTAGGGTTTAGAT
**
18182618 TTTAGGGTTTGAAGGG
1 TTTAGGGTTT--AGAT
18182634 TTTAGGGTTTAGAT
1 TTTAGGGTTTAGAT
18182648 TTTAGGGTTTCA-AT
1 TTTAGGGTTT-AGAT
* *
18182662 TTTAGGGTTTTGAAA
1 TTTAGGGTTTAG-AT
*
18182677 TTTAGGGTTTGGAT
1 TTTAGGGTTTAGAT
* *
18182691 TTTAGGGTTTAAAAGG
1 TTTAGGGTTT-AGA-T
*
18182707 TTTATGGTTTAGAT
1 TTTAGGGTTTAGAT
* * *
18182721 TTTAAGGTTTTGAAA
1 TTTAGGGTTTAG-AT
* *
18182736 TCTAGGGTTTA-AA
1 TTTAGGGTTTAGAT
18182749 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
18182762 GAAAAAGCAA
Statistics
Matches: 112, Mismatches: 22, Indels: 19
0.73 0.14 0.12
Matches are distributed among these distances:
13 21 0.19
14 46 0.41
15 26 0.23
16 19 0.17
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:18182681 original size:43 final size:42
Alignment explanation
Indices: 18182605--18182702 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 42
18182595 GTTTTAAGGG
* *
18182605 TTTAGGATTTAATTTTAGGGTTTGAAGGGTTTAGGGTTTAGAT
1 TTTAGGGTTTAATTTTAGGGTTTGAA-GATTTAGGGTTTAGAT
*
18182648 TTTAGGGTTTCAATTTTAGGGTTTTGAA-ATTTAGGGTTTGGAT
1 TTTAGGGTTT-AATTTTAGGG-TTTGAAGATTTAGGGTTTAGAT
18182691 TTTAGGGTTTAA
1 TTTAGGGTTTAA
18182703 AAGGTTTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 2 0.04
43 32 0.64
44 10 0.20
45 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (42 bp):
TTTAGGGTTTAATTTTAGGGTTTGAAGATTTAGGGTTTAGAT
Found at i:18182684 original size:59 final size:59
Alignment explanation
Indices: 18182618--18182762 Score: 158
Period size: 59 Copynumber: 2.5 Consensus size: 59
18182608 AGGATTTAAT
* * *
18182618 TTTAGGGTTTGAAGGGTTTAGGGTTTAGA-TTTTAGGGTTTCA-ATTTTAGGGTTTTGAAA
1 TTTAGGGTTTGAA-GATTTAGGGTTTAGAGGTTTAGGGTTT-AGATTTTAAGGTTTTGAAA
* *
18182677 TTTAGGGTTTG--GATTTTAGGGTTTAAAAGGTTTATGGTTTAGATTTTAAGGTTTTGAAA
1 TTTAGGGTTTGAAGA-TTTAGGGTTT-AGAGGTTTAGGGTTTAGATTTTAAGGTTTTGAAA
*
18182736 TCTAGGGTTT-AA-ATTTAGGGTTTAGAG
1 TTTAGGGTTTGAAGATTTAGGGTTTAGAG
18182763 AAAAAGCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
56 1 0.01
57 13 0.18
58 13 0.18
59 46 0.63
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (59 bp):
TTTAGGGTTTGAAGATTTAGGGTTTAGAGGTTTAGGGTTTAGATTTTAAGGTTTTGAAA
Found at i:18182686 original size:29 final size:28
Alignment explanation
Indices: 18182634--18182758 Score: 119
Period size: 29 Copynumber: 4.4 Consensus size: 28
18182624 GTTTGAAGGG
* *
18182634 TTTAGGGTTTAG-ATTTTAGGGTTTCAAT
1 TTTAGGGTTTTGAAATTTAGGGTTT-AAT
*
18182662 TTTAGGGTTTTGAAATTTAGGGTTTGGAT
1 TTTAGGGTTTTGAAATTTAGGGTTT-AAT
* *
18182691 TTTAGGG-TTTAAAAGGTTTATGGTTTAGAT
1 TTTAGGGTTTTGAAA--TTTAGGGTTTA-AT
* * *
18182721 TTTAAGGTTTTGAAATCTAGGGTTTAAA
1 TTTAGGGTTTTGAAATTTAGGGTTTAAT
18182749 TTTAGGGTTT
1 TTTAGGGTTT
18182759 AGAGAAAAAG
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
28 27 0.34
29 29 0.37
30 17 0.22
31 6 0.08
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTTGAAATTTAGGGTTTAAT
Found at i:18182694 original size:73 final size:72
Alignment explanation
Indices: 18182616--18182758 Score: 198
Period size: 73 Copynumber: 2.0 Consensus size: 72
18182606 TTAGGATTTA
* * * *
18182616 ATTTTAGGGTTTGAAGGGTTTAGGGTTTAGATTTT-AGGGTTTCAATTTTAGGGTTTTGAAATTT
1 ATTTTAGGGTTTAAAAGGTTTAGGGTTTAGATTTTAAGGGTTTCAAATCTAGGG-TTT-AAATTT
18182680 AGGGTTTGG
64 AGGGTTTGG
* * *
18182689 ATTTTAGGGTTTAAAAGGTTTATGGTTTAGATTTTAAGGTTTTGAAATCTAGGGTTTAAATTTAG
1 ATTTTAGGGTTTAAAAGGTTTAGGGTTTAGATTTTAAGGGTTTCAAATCTAGGGTTTAAATTTAG
18182754 GGTTT
66 GGTTT
18182759 AGAGAAAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
72 13 0.21
73 35 0.56
74 14 0.23
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (72 bp):
ATTTTAGGGTTTAAAAGGTTTAGGGTTTAGATTTTAAGGGTTTCAAATCTAGGGTTTAAATTTAG
GGTTTGG
Found at i:18182890 original size:21 final size:22
Alignment explanation
Indices: 18182849--18182902 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
18182839 ATATCTCTAA
18182849 AAATCTAAAAATCTAAAAGGTAT
1 AAATCT-AAAATCTAAAAGGTAT
*
18182872 AAATCTAAAATC-GAAAGGTAT
1 AAATCTAAAATCTAAAAGGTAT
18182893 AAATCTAAAA
1 AAATCTAAAA
18182903 ATCTTCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 18 0.60
22 6 0.20
23 6 0.20
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.24
Consensus pattern (22 bp):
AAATCTAAAATCTAAAAGGTAT
Found at i:18188980 original size:25 final size:25
Alignment explanation
Indices: 18188952--18189002 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18188942 GCAGAAAAGG
18188952 AATGGTCAAAAGCATTTGCTGTTCC
1 AATGGTCAAAAGCATTTGCTGTTCC
18188977 AATGGTCAAAAGCATTTGCTGTTCC
1 AATGGTCAAAAGCATTTGCTGTTCC
18189002 A
1 A
18189003 TATCGCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
AATGGTCAAAAGCATTTGCTGTTCC
Found at i:18190489 original size:12 final size:12
Alignment explanation
Indices: 18190472--18190496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18190462 ATCATGAATC
18190472 GTCAGTAAGATG
1 GTCAGTAAGATG
18190484 GTCAGTAAGATG
1 GTCAGTAAGATG
18190496 G
1 G
18190497 GAATTAACGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (12 bp):
GTCAGTAAGATG
Found at i:18197155 original size:10 final size:11
Alignment explanation
Indices: 18197129--18197154 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18197119 AACTTAGTTC
18197129 TTTTTCTTTTT
1 TTTTTCTTTTT
18197140 TTTTTCTTTTT
1 TTTTTCTTTTT
18197151 TTTT
1 TTTT
18197155 CCTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:18200148 original size:15 final size:16
Alignment explanation
Indices: 18200118--18200151 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18200108 ATTTTTTAAA
*
18200118 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
18200134 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
18200149 ATT
1 ATT
18200152 TTTAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:18202882 original size:17 final size:17
Alignment explanation
Indices: 18202854--18202886 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18202844 TAATTATATA
18202854 TAAATATAATATCTTTAT
1 TAAATATAATAT-TTTAT
18202872 TAAAT-TAATATTTTA
1 TAAATATAATATTTTA
18202887 AATTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATATAATATTTTAT
Found at i:18202889 original size:13 final size:13
Alignment explanation
Indices: 18202871--18202913 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
18202861 AATATCTTTA
18202871 TTAAATTAATATT
1 TTAAATTAATATT
* *
18202884 TTAAATTAAAATA
1 TTAAATTAATATT
18202897 TTAAA-TAATAATT
1 TTAAATTAAT-ATT
18202910 TTAA
1 TTAA
18202914 CAAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 3 0.12
13 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTAATATT
Found at i:18202902 original size:26 final size:26
Alignment explanation
Indices: 18202869--18202968 Score: 90
Period size: 26 Copynumber: 4.0 Consensus size: 26
18202859 ATAATATCTT
18202869 TATTAAATTAATATTTTAAATTAAAA
1 TATTAAATTAATATTTTAAATTAAAA
18202895 TATTAAA-TAATAATTTTAACA--AAAA
1 TATTAAATTAAT-ATTTTAA-ATTAAAA
18202920 -A-T-AATT-A-ATTTTAAATTAAAA
1 TATTAAATTAATATTTTAAATTAAAA
* **
18202941 TATTAAAATAATATCATAAATATAAAA
1 TATTAAATTAATATTTTAAAT-TAAAA
18202968 T
1 T
18202969 TAAATAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 21
0.71 0.04 0.25
Matches are distributed among these distances:
19 1 0.02
20 7 0.12
21 4 0.07
22 4 0.07
23 3 0.05
24 4 0.07
25 9 0.15
26 21 0.35
27 7 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
TATTAAATTAATATTTTAAATTAAAA
Found at i:18204045 original size:26 final size:29
Alignment explanation
Indices: 18203996--18204055 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 29
18203986 ATGAAACGTG
18203996 ATATAATATTAAAATAATACATAAAAA-T
1 ATATAATATTAAAATAATACATAAAAATT
**
18204024 ATATAAT-TTAAAATTTTA-ATAAAAATT
1 ATATAATATTAAAATAATACATAAAAATT
18204051 ATATA
1 ATATA
18204056 TAAATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.24
27 15 0.52
28 7 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
ATATAATATTAAAATAATACATAAAAATT
Found at i:18204216 original size:2 final size:2
Alignment explanation
Indices: 18204209--18204233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18204199 GATGATGCGC
18204209 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18204234 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18213647 original size:19 final size:19
Alignment explanation
Indices: 18213593--18213647 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
18213583 GATAAAAAAT
18213593 AATTTTAAAA-TATTCTTAA
1 AATTTTAAAATTATT-TTAA
*
18213612 AATTAATT-ATATT-TTTTAA
1 AATT--TTAAAATTATTTTAA
18213631 AATTTTAAAATTATTTT
1 AATTTTAAAATTATTTT
18213648 TTATAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 16 0.55
20 4 0.14
21 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTAAAATTATTTTAA
Found at i:18214466 original size:17 final size:19
Alignment explanation
Indices: 18214421--18214463 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
18214411 TAATTTTATA
*
18214421 TTTACATTAAAAAAAATAT
1 TTTATATTAAAAAAAATAT
*
18214440 TTTATATTAAAAATAATAT
1 TTTATATTAAAAAAAATAT
18214459 TTTAT
1 TTTAT
18214464 TAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTATATTAAAAAAAATAT
Found at i:18214772 original size:22 final size:22
Alignment explanation
Indices: 18214743--18214805 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 22
18214733 ATATGTGTTA
18214743 AAAT-TTAAATTTAAAATTATT
1 AAATATTAAATTTAAAATTATT
* *
18214764 AAATATTAATTTTTAAATATAATT
1 AAATATTAA-ATTTAAA-ATTATT
* *
18214788 ATATAATAAA-TTAAAATT
1 AAATATTAAATTTAAAATT
18214806 TTGAATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 6 0.18
22 9 0.27
23 6 0.18
24 12 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATTAAATTTAAAATTATT
Found at i:18216589 original size:27 final size:27
Alignment explanation
Indices: 18216539--18216590 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
18216529 TTGATTACTA
* * * *
18216539 AAATTAAATATTTATTATTTTATTAAT
1 AAATCAAATAATTATTAATATATTAAT
18216566 AAATCAAATAATTATTAATATATTA
1 AAATCAAATAATTATTAATATATTA
18216591 TTTTACGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AAATCAAATAATTATTAATATATTAAT
Found at i:18219378 original size:22 final size:22
Alignment explanation
Indices: 18219351--18219397 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
18219341 TAGATTAATT
*
18219351 AAAATTAATATATTTTTATAAA
1 AAAATTAATATATATTTATAAA
*
18219373 AAAATTAATATATATTTATAGA
1 AAAATTAATATATATTTATAAA
18219395 AAA
1 AAA
18219398 TTATCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTAATATATATTTATAAA
Found at i:18230946 original size:21 final size:20
Alignment explanation
Indices: 18230904--18230946 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
18230894 TGAATTTTTA
*
18230904 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGAATT
18230924 GAAAAAG-AAATTTGATGAATT
1 GAAAAAGAAAATTT--TGAATT
18230945 GA
1 GA
18230947 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGAATT
Found at i:18233696 original size:16 final size:16
Alignment explanation
Indices: 18233672--18233706 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18233662 CTTAAAGACA
* *
18233672 TATCTTTAACAATTGG
1 TATCCTTAACAATTAG
18233688 TATCCTTAACAATTAG
1 TATCCTTAACAATTAG
18233704 TAT
1 TAT
18233707 GAGCTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTAG
Found at i:18236821 original size:23 final size:23
Alignment explanation
Indices: 18236795--18236850 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
18236785 TAGGCAGCTT
* *
18236795 TAGAATCAATTTTAGGAAACGGA
1 TAGAATCAATTTTAAGAAACAGA
*
18236818 TAGAATCAATTTTAAGAAATAGA
1 TAGAATCAATTTTAAGAAACAGA
18236841 TAGAATCAAT
1 TAGAATCAAT
18236851 CCTAGGCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (23 bp):
TAGAATCAATTTTAAGAAACAGA
Found at i:18237060 original size:22 final size:20
Alignment explanation
Indices: 18237026--18237069 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
18237016 AAAATGAAAA
18237026 AAAAATAATAATATAGTATAT
1 AAAAATAATAATATAGTA-AT
*
18237047 AAAAATGATGAATATAGTAAT
1 AAAAATAAT-AATATAGTAAT
18237068 AA
1 AA
18237070 TGCTTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (20 bp):
AAAAATAATAATATAGTAAT
Found at i:18237274 original size:36 final size:36
Alignment explanation
Indices: 18237227--18237301 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
18237217 CCCTCTTTGC
18237227 ACATCTCTGTTAGATAGAGATGATGCAAAGACTTAA
1 ACATCTCTGTTAGATAGAGATGATGCAAAGACTTAA
18237263 ACATCTCTGTTAGATAGAGATGATGCAAAGACTTAA
1 ACATCTCTGTTAGATAGAGATGATGCAAAGACTTAA
18237299 ACA
1 ACA
18237302 CCTACTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (36 bp):
ACATCTCTGTTAGATAGAGATGATGCAAAGACTTAA
Found at i:18237640 original size:119 final size:119
Alignment explanation
Indices: 18237402--18238098 Score: 578
Period size: 119 Copynumber: 5.9 Consensus size: 119
18237392 GATCGAGTTA
* * * ** * *
18237402 AAACCATGAGTAAAAAAAAAGTG-ACCAGGATCAAGTCGAGATCGAAAATAAATGATCGGGATGA
1 AAACCATGAGTAAAAAAAAAGTGAACTAGGATCGAGTCGAGGTAAAAAATGAATGACCGGGATGA
* * * *
18237466 AACCATGAGTTATAAAAAATAATCTGAACTGAGCCAAGATCAGGTGAC-TGGGATG
66 AACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGACAT--GATG
* * *
18237521 AAACCATAACTAAAAAAAAAGTGAAC-AGGATCGAGTTGAGGTAAAAAATGAATGACCGGGATGA
1 AAACCATGAGTAAAAAAAAAGTGAACTAGGATCGAGTCGAGGTAAAAAATGAATGACCGGGATGA
* *
18237585 AACTATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGATCATGATG
66 AACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGA-CATGATG
* * * ** * * * * * **
18237640 AAACTACGAGTTAGGAAGAAG-CAACTAGGACCGAGTCGAGGTCAAAAATGAGTGACCGAAATGA
1 AAACCATGAGTAAAAAAAAAGTGAACTAGGATCGAGTCGAGGTAAAAAATGAATGACCGGGATGA
** * * ** * **
18237704 AACCACAAGTCATAAGAAATGATTTGGAATGAGCCAAGATTGGGTGACTAAGACA
66 AACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGAC-ATGATG
* * * * * *
18237759 AAACCATGAGTCAAAAAGAAA-TG-A-T-CGA-CTGAGTTGAAGTAAAAAATGAATGACCAGAAT
1 AAACCATGAGT-AAAAAAAAAGTGAACTAGGATC-GAGTCGAGGTAAAAAATGAATGACCGGGAT
* * * * *
18237819 GAAACCATGAGTCATAAGAAATGGTCTAGATTGAGCCAAGATTAGGTGATCAGGATG
64 GAAACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGA-CATGATG
* * * * **
18237876 AAACCATGAGTCAGAAAGAAA-TG-ACTAGGATCGAGTCGAGATAAAAAATGAATAATTGGGATG
1 AAACCATGAGT-AAAAAAAAAGTGAACTAGGATCGAGTCGAGGTAAAAAATGAATGACCGGGATG
* * * *
18237939 AAAACATGAGTCATAGGAAATGATTTGGATTGAGCCAAGATC-GAGTGACCGA-GATG
65 AAACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAG-GTGA-C-ATGATG
* * ** * * * *
18237995 AAACCAAGAGTAAAAAAAAAG-CAACTAAAATCGAGTTGAGGTCAAAAATAAATGACCGGGATAA
1 AAACCATGAGTAAAAAAAAAGTGAACTAGGATCGAGTCGAGGTAAAAAATGAATGACCGGGATGA
* *
18238059 AACCATGA-TCATAAGAAATGATTTGGGCTGAGCCAAGATC
66 AACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATC
18238099 GAGTGAATGA
Statistics
Matches: 463, Mismatches: 99, Indels: 33
0.78 0.17 0.06
Matches are distributed among these distances:
116 1 0.00
117 94 0.20
118 44 0.10
119 314 0.68
120 9 0.02
121 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (119 bp):
AAACCATGAGTAAAAAAAAAGTGAACTAGGATCGAGTCGAGGTAAAAAATGAATGACCGGGATGA
AACCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGACATGATG
Found at i:18237856 original size:236 final size:236
Alignment explanation
Indices: 18237553--18237979 Score: 575
Period size: 236 Copynumber: 1.8 Consensus size: 236
18237543 GAACAGGATC
* * * * *
18237553 GAGTTGAGGTAAAAAATGAATGACCGGGATGAAACTATAAGTCATAAGAAATGATCTGGACTGAG
1 GAGTTGAAGTAAAAAATGAATGACCAGAATGAAACCATAAGTCATAAGAAATGATCTAGACTGAG
* * * * * * *
18237618 CCAAGATCAGGTGATCATGATGAAACTACGAGTTAGGAAGAAGCAACTAGGACCGAGTCGAGGTC
66 CCAAGATCAGGTGATCAGGATGAAACCACGAGTCAGAAAGAAACAACTAGGACCGAGTCGAGATA
* * *
18237683 AAAAATGAGTGACCGAAATGAAACCACAAGTCATAAGAAATGATTTGGAATGAGCCAAGATTGGG
131 AAAAATGAATAACCGAAATGAAAACACAAGTCATAAGAAATGATTTGGAATGAGCCAAGATTGGG
18237748 TGACTAAGACAAAACCATGAGTCAAAAAGAAATGATCGACT
196 TGACTAAGACAAAACCATGAGTCAAAAAGAAATGATCGACT
* * *
18237789 GAGTTGAAGTAAAAAATGAATGACCAGAATGAAACCATGAGTCATAAGAAATGGTCTAGATTGAG
1 GAGTTGAAGTAAAAAATGAATGACCAGAATGAAACCATAAGTCATAAGAAATGATCTAGACTGAG
* * ** *
18237854 CCAAGATTAGGTGATCAGGATGAAACCATGAGTCAGAAAGAAATGACTAGGATCGAGTCGAGATA
66 CCAAGATCAGGTGATCAGGATGAAACCACGAGTCAGAAAGAAACAACTAGGACCGAGTCGAGATA
** ** ** * *
18237919 AAAAATGAATAATTGGGATGAAAACATGAGTCATAGGAAATGATTTGGATTGAGCCAAGAT
131 AAAAATGAATAACCGAAATGAAAACACAAGTCATAAGAAATGATTTGGAATGAGCCAAGAT
18237980 CGAGTGACCG
Statistics
Matches: 160, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
236 160 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (236 bp):
GAGTTGAAGTAAAAAATGAATGACCAGAATGAAACCATAAGTCATAAGAAATGATCTAGACTGAG
CCAAGATCAGGTGATCAGGATGAAACCACGAGTCAGAAAGAAACAACTAGGACCGAGTCGAGATA
AAAAATGAATAACCGAAATGAAAACACAAGTCATAAGAAATGATTTGGAATGAGCCAAGATTGGG
TGACTAAGACAAAACCATGAGTCAAAAAGAAATGATCGACT
Found at i:18246488 original size:155 final size:156
Alignment explanation
Indices: 18246206--18246515 Score: 595
Period size: 155 Copynumber: 2.0 Consensus size: 156
18246196 GCACCCATAT
18246206 ATATGCCATGGCTATTTTTGAAGTTCTGACTCCTCATATAACTCTATTTGATATGAGTCAATTAG
1 ATATGCCATGGCTATTTTTGAAGTTCTGACTCCTCATATAACTCTATTTGATATGAGTCAATTAG
* *
18246271 TTTCTGTACCTCTTCATGAAATTGTTCACAGACATCAATGGAATGTCTTGGAGTTCTATTATGAT
66 TTTCTATACCTCTTCATGAAATTGTTCACAGACATCAATGGAATGCCTTGGAGTTCTATTATGAT
18246336 ACTTATATATTT-TTTGAGGATGTAA
131 ACTTATATATTTGTTTGAGGATGTAA
18246361 ATATGCCATGGCTATTTTTGAAGTTCTGACTCCTCATATAACTCTATTTGATATGAGTCAATTAG
1 ATATGCCATGGCTATTTTTGAAGTTCTGACTCCTCATATAACTCTATTTGATATGAGTCAATTAG
18246426 TTTCTATACCTCTTCATGAAATTGTTCACAGACATCAATGGAATGCCTTGGAGTTCTATTATGAT
66 TTTCTATACCTCTTCATGAAATTGTTCACAGACATCAATGGAATGCCTTGGAGTTCTATTATGAT
18246491 ACTTATATATTTGTTTGAGGATGTA
131 ACTTATATATTTGTTTGAGGATGTA
18246516 TCATCCTATA
Statistics
Matches: 152, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
155 140 0.92
156 12 0.08
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (156 bp):
ATATGCCATGGCTATTTTTGAAGTTCTGACTCCTCATATAACTCTATTTGATATGAGTCAATTAG
TTTCTATACCTCTTCATGAAATTGTTCACAGACATCAATGGAATGCCTTGGAGTTCTATTATGAT
ACTTATATATTTGTTTGAGGATGTAA
Found at i:18247097 original size:12 final size:12
Alignment explanation
Indices: 18247062--18247105 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
18247052 ATGACTTACG
18247062 GTGTGATGGTAT
1 GTGTGATGGTAT
*
18247074 GTG-G--GATAT
1 GTGTGATGGTAT
18247083 GTGTGATGGTAT
1 GTGTGATGGTAT
18247095 GTGTGATGGTA
1 GTGTGATGGTA
18247106 AGGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.26
10 1 0.04
11 1 0.04
12 18 0.67
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (12 bp):
GTGTGATGGTAT
Found at i:18252108 original size:14 final size:12
Alignment explanation
Indices: 18252083--18252128 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 12
18252073 TTTTGAAAAA
18252083 AAAATGAAAACTAG
1 AAAAT-AAAACT-G
18252097 TAAAATAAAACTG
1 -AAAATAAAACTG
18252110 AAAATAAAA-T-
1 AAAATAAAACTG
18252120 AAAATAAAA
1 AAAATAAAA
18252129 TATTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.29
11 1 0.03
12 9 0.29
13 1 0.03
14 6 0.19
15 5 0.16
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAATAAAACTG
Found at i:18252117 original size:17 final size:16
Alignment explanation
Indices: 18252097--18252158 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
18252087 TGAAAACTAG
18252097 TAAAATAAAACTGAAAA
1 TAAAATAAAA-TGAAAA
*
18252114 TAAAATAAAATAAAATA
1 TAAAATAAAATGAAA-A
18252131 TTAAAATAATAA-GATAAA
1 -TAAAATAA-AATGA-AAA
18252149 TAAAATAAAA
1 TAAAATAAAA
18252159 AAAATCTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 6 0.15
17 19 0.49
18 10 0.26
19 4 0.10
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAAATAAAATGAAAA
Found at i:18252175 original size:5 final size:5
Alignment explanation
Indices: 18252097--18252163 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 5
18252087 TGAAAACTAG
*
18252097 TAAAA TAAAA CTGAAAA TAAAA TAAAA TAAAA T--AT TAAAA TAATAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA
*
18252143 GATAAA TAAAA TAAAA -AAAA T
1 TA-AAA TAAAA TAAAA TAAAA T
18252164 CTAAAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 2 0.04
4 4 0.08
5 32 0.63
6 8 0.16
7 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:18252972 original size:3 final size:3
Alignment explanation
Indices: 18252966--18253004 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
18252956 AAAACGAAAT
*
18252966 TAA TAA TAA TAA TAA TAA TGA TAA TAA T-A TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18253005 TATTAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18252989 original size:15 final size:15
Alignment explanation
Indices: 18252966--18253043 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 15
18252956 AAAACGAAAT
*
18252966 TAATAATAATAATAA
1 TAATGATAATAATAA
18252981 TAATGATAATAAT-A
1 TAATGATAATAATAA
18252995 TAAT-ATAATATATTAA
1 TAATGATAATA-A-TAA
18253011 -AATGATGAATATAGTAA
1 TAATGAT-AATA-A-TAA
*
18253028 TAATGTTAAT-ATAA
1 TAATGATAATAATAA
18253042 TA
1 TA
18253044 TATTATATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
13 6 0.11
14 11 0.20
15 17 0.31
16 3 0.06
17 12 0.22
18 5 0.09
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
TAATGATAATAATAA
Found at i:18253121 original size:19 final size:18
Alignment explanation
Indices: 18253081--18253126 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
18253071 ACACTAATAG
*
18253081 TAATA-ATACTACTATAC
1 TAATATATATTACTATAC
18253098 TAATATTATATTACTATAAC
1 TAATA-TATATTACTAT-AC
18253118 -AATATATAT
1 TAATATATAT
18253127 AAAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 13 0.52
20 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATATATATTACTATAC
Found at i:18253123 original size:56 final size:56
Alignment explanation
Indices: 18253021--18253128 Score: 123
Period size: 56 Copynumber: 1.9 Consensus size: 56
18253011 AATGATGAAT
**
18253021 ATAGTAATAATGTTAATATAATATATTATATTATATACTATGATATA-ATAACACTA
1 ATAGTAATAATACTAATATAATATATTATATTATATACTA-GATATATATAACACTA
* *
18253077 ATAGTAATAATACTACTATACTAATATTATATTACTATAAC-A-ATATATATAA
1 ATAGTAATAATACTAATATAAT-ATATTATATTA-TAT-ACTAGATATATATAA
18253129 AAAAAATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
56 23 0.52
57 15 0.34
58 4 0.09
59 2 0.05
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (56 bp):
ATAGTAATAATACTAATATAATATATTATATTATATACTAGATATATATAACACTA
Found at i:18253497 original size:20 final size:20
Alignment explanation
Indices: 18253472--18253510 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18253462 GTCTGTCTAT
18253472 ATCTTTCCTATTAATTAACG
1 ATCTTTCCTATTAATTAACG
18253492 ATCTTTCCTATTAATTAAC
1 ATCTTTCCTATTAATTAAC
18253511 TCCACATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.46
Consensus pattern (20 bp):
ATCTTTCCTATTAATTAACG
Found at i:18261720 original size:31 final size:31
Alignment explanation
Indices: 18261685--18261745 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
18261675 GATAATTGGA
18261685 TTAGACTATTACCAAAACTCATTAATTTAAG
1 TTAGACTATTACCAAAACTCATTAATTTAAG
*
18261716 TTAGACTATTACCAAAATTCATTAATTTAA
1 TTAGACTATTACCAAAACTCATTAATTTAA
18261746 TTAAGAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.38
Consensus pattern (31 bp):
TTAGACTATTACCAAAACTCATTAATTTAAG
Found at i:18263019 original size:10 final size:10
Alignment explanation
Indices: 18263004--18263040 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
18262994 AAATGATAAC
18263004 GATGATTTAT
1 GATGATTTAT
*
18263014 GATGA-TGAT
1 GATGATTTAT
18263023 GATGATTTAT
1 GATGATTTAT
18263033 GATGATTT
1 GATGATTT
18263041 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (10 bp):
GATGATTTAT
Found at i:18263117 original size:27 final size:28
Alignment explanation
Indices: 18263087--18263141 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
18263077 TTTGAATGAC
18263087 AACATATGTTG-CAATGATTTATGAATT
1 AACATATGTTGACAATGATTTATGAATT
* * * *
18263114 AACATGTTTTGACATTGGTTTATGAATT
1 AACATATGTTGACAATGATTTATGAATT
18263142 TACGAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (28 bp):
AACATATGTTGACAATGATTTATGAATT
Done.