Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 40 of 117
Found at i:7246428 original size:22 final size:21
Alignment explanation
Indices: 7246363--7246428 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
7246353 TACTAAATTA
* *
7246363 ATCATAATTCATTATCAAGTT
1 ATCATAATTTATTATTAAGTT
* *
7246384 ATCACTAATATA-TATTAAATT
1 ATCA-TAATTTATTATTAAGTT
7246405 ATCCATAATTTATTATTAAGTT
1 AT-CATAATTTATTATTAAGTT
7246427 AT
1 AT
7246429 TTAACTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (21 bp):
ATCATAATTTATTATTAAGTT
Found at i:7246487 original size:46 final size:45
Alignment explanation
Indices: 7246427--7246522 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
7246417 TTATTAAGTT
* *
7246427 ATTTAACTATTAAGTTATT-GATGATTAACTATTATTAAGTTA-TATTG
1 ATTTAACTATTAAGTT-TTCAATAATTAACTATTA--AA-TTATTATTG
*
7246474 ATTTAA-TTTTAAGTTTTCAATAATTAACTATTAAATTATTATTG
1 ATTTAACTATTAAGTTTTCAATAATTAACTATTAAATTATTATTG
7246518 ATTTA
1 ATTTA
7246523 TTACTAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.07
44 12 0.27
45 2 0.05
46 21 0.48
47 6 0.14
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (45 bp):
ATTTAACTATTAAGTTTTCAATAATTAACTATTAAATTATTATTG
Found at i:7246601 original size:11 final size:11
Alignment explanation
Indices: 7246587--7246625 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7246577 TGAAACTAAT
7246587 TTATCATTAAG
1 TTATCATTAAG
* *
7246598 TTATCATTGAT
1 TTATCATTAAG
*
7246609 TTATTATTAAG
1 TTATCATTAAG
7246620 TTATCA
1 TTATCA
7246626 ATTATTAACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (11 bp):
TTATCATTAAG
Found at i:7246641 original size:22 final size:22
Alignment explanation
Indices: 7246594--7246645 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7246584 AATTTATCAT
* * *
7246594 TAAGTTATCATTGATTTATTAT
1 TAAGTTATCATTGATTAACTAC
7246616 TAAGTTATCAATT-ATTAACTAC
1 TAAGTTATC-ATTGATTAACTAC
7246638 TAAGTTAT
1 TAAGTTAT
7246646 TGCTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (22 bp):
TAAGTTATCATTGATTAACTAC
Found at i:7247037 original size:22 final size:22
Alignment explanation
Indices: 7247012--7247073 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
7247002 TTATTTACTT
* *
7247012 TTAATTTAAAAATAATTTACCA
1 TTAAGTTATAAATAATTTACCA
* * *
7247034 TTAAGTTATGAATGATTTATCA
1 TTAAGTTATAAATAATTTACCA
7247056 TTAAGTTATAAATAATTT
1 TTAAGTTATAAATAATTT
7247074 CTATTAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (22 bp):
TTAAGTTATAAATAATTTACCA
Found at i:7247315 original size:41 final size:41
Alignment explanation
Indices: 7247179--7247302 Score: 117
Period size: 41 Copynumber: 3.0 Consensus size: 41
7247169 TTATTAATCA
* * * *
7247179 TTATCTAATTTACTACTAAATTA-TACTAA-TTAATAACTAAG
1 TTAT-TAATTTACTATTAAATTATTAATAATTTACT-ATTAAG
* * *
7247220 TTATTAGTAATTTACTATTATATTATTAGTAATTTACTGTTAAG
1 TTA-T--TAATTTACTATTAAATTATTAATAATTTACTATTAAG
*
7247264 TTATTAATTTACTATTAAATTATTAATTATTTACTATTA
1 TTATTAATTTACTATTAAATTATTAATAATTTACTATTA
7247303 TATTTTTTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 34 0.50
42 1 0.01
43 17 0.25
44 12 0.18
45 4 0.06
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (41 bp):
TTATTAATTTACTATTAAATTATTAATAATTTACTATTAAG
Found at i:7247320 original size:23 final size:22
Alignment explanation
Indices: 7247220--7247526 Score: 110
Period size: 22 Copynumber: 14.2 Consensus size: 22
7247210 AATAACTAAG
* * *
7247220 TTATTAGTAATTTACTATTATA
1 TTATTATTTATTTACTATTAAA
* * * *
7247242 TTATTAGTAATTTACTGTTAAG
1 TTATTATTTATTTACTATTAAA
7247264 TTATTA---ATTTACTATTAAA
1 TTATTATTTATTTACTATTAAA
* *
7247283 TTATTAATTATTTACTATTATAT
1 TTATTATTTATTTACTATTA-AA
* ***
7247306 TTTTTATTTATTTACTATTGTG
1 TTATTATTTATTTACTATTAAA
* * *
7247328 CTATCATTAATTTACTACTT-AA
1 TTATTATTTATTTACTA-TTAAA
* * **
7247350 TTTTTAATTATTTACTACAAAA
1 TTATTATTTATTTACTATTAAA
* ** * *
7247372 TTATCATCGATTTACTACTAGA
1 TTATTATTTATTTACTATTAAA
* *
7247394 TTATTTTTTATTTAC--TTAAG
1 TTATTATTTATTTACTATTAAA
**
7247414 TTATTACATATTTA-TATTAAA
1 TTATTATTTATTTACTATTAAA
* * * *
7247435 TTATGCA-TAATTTATTATCAAA
1 TTAT-TATTTATTTACTATTAAA
* * * * *
7247457 TTATCACTGATTAACTATTATA
1 TTATTATTTATTTACTATTAAA
* * * *
7247479 TTATCAATTATTTACTA-CAAT
1 TTATTATTTATTTACTATTAAA
* * * *
7247500 TTATCATTGATTTATTGTTAAA
1 TTATTATTTATTTACTATTAAA
7247522 TTATT
1 TTATT
7247527 TATGAATTAC
Statistics
Matches: 209, Mismatches: 64, Indels: 24
0.70 0.22 0.08
Matches are distributed among these distances:
19 17 0.08
20 13 0.06
21 29 0.14
22 130 0.62
23 20 0.10
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (22 bp):
TTATTATTTATTTACTATTAAA
Found at i:7247438 original size:21 final size:23
Alignment explanation
Indices: 7247400--7247460 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 23
7247390 TAGATTATTT
*
7247400 TTTATTTACTTAAGTTATTACAT-A
1 TTTA-TTA-TTAAATTATTACATAA
*
7247424 TTTA-TATTAAATTA-TGCATAA
1 TTTATTATTAAATTATTACATAA
*
7247445 TTTATTATCAAATTAT
1 TTTATTATTAAATTAT
7247461 CACTGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.13
21 12 0.39
22 11 0.35
24 4 0.13
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTATTATTAAATTATTACATAA
Found at i:7247495 original size:22 final size:22
Alignment explanation
Indices: 7247220--7247495 Score: 113
Period size: 22 Copynumber: 12.8 Consensus size: 22
7247210 AATAACTAAG
* * *
7247220 TTATTAGTAATTTACTATTATA
1 TTATTAATTATTTACTATTAAA
* * * *
7247242 TTATTAGTAATTTACTGTTAAG
1 TTATTAATTATTTACTATTAAA
7247264 TTATT-A--ATTTACTATTAAA
1 TTATTAATTATTTACTATTAAA
*
7247283 TTATTAATTATTTACTATTATAT
1 TTATTAATTATTTACTATTA-AA
* * ***
7247306 TTTTTATTTATTTACTATTGTG
1 TTATTAATTATTTACTATTAAA
* *
7247328 CTA-TCATTAATTTACTACTT-AA
1 TTATTAATT-ATTTACTA-TTAAA
* **
7247350 TTTTTAATTATTTACTACAAAA
1 TTATTAATTATTTACTATTAAA
* * * *
7247372 TTA-TCATCGATTTACTACTAGA
1 TTATTAAT-TATTTACTATTAAA
** *
7247394 TTATTTTTTATTTAC--TTAAG
1 TTATTAATTATTTACTATTAAA
7247414 TTATTACA-TATTTA-TATTAAA
1 TTATTA-ATTATTTACTATTAAA
** * * *
7247435 TTATGCATAATTTATTATCAAA
1 TTATTAATTATTTACTATTAAA
* * * * *
7247457 TTATCACTGATTAACTATTATA
1 TTATTAATTATTTACTATTAAA
*
7247479 TTATCAATTATTTACTA
1 TTATTAATTATTTACTA
7247496 CAATTTATCA
Statistics
Matches: 187, Mismatches: 52, Indels: 30
0.70 0.19 0.11
Matches are distributed among these distances:
19 16 0.09
20 15 0.08
21 19 0.10
22 111 0.59
23 26 0.14
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
TTATTAATTATTTACTATTAAA
Found at i:7247600 original size:11 final size:11
Alignment explanation
Indices: 7247584--7247663 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
7247574 TACTATTAAA
7247584 TTATTACTAAT
1 TTATTACTAAT
* *
7247595 TTATTATTAAG
1 TTATTACTAAT
*
7247606 TTATTATTAAT
1 TTATTACTAAT
**
7247617 TTATATACTACG
1 TTAT-TACTAAT
* *
7247629 TTATCAATAAT
1 TTATTACTAAT
* * *
7247640 TAACTACTAAG
1 TTATTACTAAT
*
7247651 TTATTACTTAT
1 TTATTACTAAT
7247662 TT
1 TT
7247664 TTGGTTAAGT
Statistics
Matches: 49, Mismatches: 19, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
11 41 0.84
12 8 0.16
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (11 bp):
TTATTACTAAT
Found at i:7247620 original size:22 final size:22
Alignment explanation
Indices: 7247571--7247677 Score: 74
Period size: 22 Copynumber: 4.8 Consensus size: 22
7247561 ACTGAAACTG
* * *
7247571 ATTTACTATTAAATTATTACTA
1 ATTTATTATTAAGTTATTATTA
7247593 ATTTATTATTAAGTTATTATTA
1 ATTTATTATTAAGTTATTATTA
* * * *
7247615 ATTTATATACTACGTTATCAATA
1 ATTTAT-TATTAAGTTATTATTA
* * *
7247638 ATTAACTACTAAGTTATTACTT-
1 ATTTATTATTAAGTTATTA-TTA
*
7247660 ATTT-TTGGTTAAGTTATT
1 ATTTATT-ATTAAGTTATT
7247678 TCTGATTTAA
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
21 1 0.02
22 48 0.73
23 17 0.26
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTTATTATTAAGTTATTATTA
Found at i:7247831 original size:22 final size:22
Alignment explanation
Indices: 7247761--7247865 Score: 72
Period size: 22 Copynumber: 4.8 Consensus size: 22
7247751 TATTGTTATT
* *
7247761 TTATTATTGATTTA-TAAAAAG
1 TTATTATTAATTTACTAATAAG
* * * * *
7247782 ATTATCAATTTATTTATTACTAAA
1 -TTAT-TATTAATTTACTAATAAG
* * *
7247806 TTATTATTCATTTACTATTTAG
1 TTATTATTAATTTACTAATAAG
7247828 TTATTATTAATTTACTAATAAG
1 TTATTATTAATTTACTAATAAG
7247850 TTATCTA-TAA-TTACTA
1 TTAT-TATTAATTTACTA
7247866 TTAAATTGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
21 6 0.09
22 42 0.64
23 14 0.21
24 4 0.06
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (22 bp):
TTATTATTAATTTACTAATAAG
Found at i:7248464 original size:25 final size:27
Alignment explanation
Indices: 7248436--7248486 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
7248426 TAAATTTACT
7248436 AAATAA-AATT-TATAAAAA-ATTAAAC
1 AAATAACAATTCTA-AAAAATATTAAAC
7248461 AAATAACAATTCTAAAAAATATTAAA
1 AAATAACAATTCTAAAAAATATTAAA
7248487 TTCACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.26
26 9 0.39
27 8 0.35
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (27 bp):
AAATAACAATTCTAAAAAATATTAAAC
Found at i:7253367 original size:1 final size:1
Alignment explanation
Indices: 7253361--7253388 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
7253351 TAAACTATAT
7253361 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
7253389 CCCACTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7255062 original size:2 final size:2
Alignment explanation
Indices: 7255055--7255085 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7255045 TCAATAGACC
7255055 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
7255086 AATGTTTGGT
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:7265793 original size:8 final size:8
Alignment explanation
Indices: 7265776--7265888 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 8
7265766 ATAATGGATG
*
7265776 AAATTAAA
1 AAATGAAA
7265784 AAATTGAAA
1 AAA-TGAAA
*
7265793 AACTG-AA
1 AAATGAAA
*
7265800 AAA-GTAA
1 AAATGAAA
7265807 AAA--AAA
1 AAATGAAA
7265813 AAATGAAAA
1 AAATG-AAA
7265822 AAATGAAA
1 AAATGAAA
*
7265830 GAAGTGAAA
1 -AAATGAAA
*
7265839 ACATGAAA
1 AAATGAAA
7265847 AAATGAGAA
1 AAATGA-AA
**
7265856 ATGTGAAAAA
1 AAATG--AAA
7265866 AAATGAAA
1 AAATGAAA
7265874 ACAATGAGAA
1 A-AATGA-AA
7265884 AAATG
1 AAATG
7265889 TGAAACGAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
6 6 0.07
7 9 0.11
8 23 0.28
9 35 0.43
10 8 0.10
11 1 0.01
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.14
Consensus pattern (8 bp):
AAATGAAA
Found at i:7265821 original size:9 final size:9
Alignment explanation
Indices: 7265809--7265888 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
7265799 AAAAGTAAAA
7265809 AAAAAAATG
1 AAAAAAATG
7265818 AAAAAAATG
1 AAAAAAATG
* *
7265827 AAAGAAGTG
1 AAAAAAATG
*
7265836 -AAAACATG
1 AAAAAAATG
7265844 -AAAAAATG
1 AAAAAAATG
* **
7265852 AGAAATGTG
1 AAAAAAATG
7265861 AAAAAAAATG
1 -AAAAAAATG
*
7265871 AAAACAATG
1 AAAAAAATG
*
7265880 AGAAAAATG
1 AAAAAAATG
7265889 TGAAACGAGA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
8 12 0.22
9 36 0.67
10 6 0.11
ACGTcount: A:0.68, C:0.03, G:0.17, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:7265823 original size:29 final size:29
Alignment explanation
Indices: 7265781--7265839 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
7265771 GGATGAAATT
* *
7265781 AAAAAATTGAAAAACTGAAA-AAGTAAAA
1 AAAAAAATGAAAAAATGAAAGAAGTAAAA
*
7265809 AAAAAAATGAAAAAAATGAAAGAAGTGAAA
1 AAAAAAATG-AAAAAATGAAAGAAGTAAAA
7265839 A
1 A
7265840 CATGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 10 0.38
30 8 0.31
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.12
Consensus pattern (29 bp):
AAAAAAATGAAAAAATGAAAGAAGTAAAA
Found at i:7267427 original size:18 final size:18
Alignment explanation
Indices: 7267371--7267429 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
7267361 TCTTTAAGAA
7267371 TGAAAATTCTTGCGAATC
1 TGAAAATTCTTGCGAATC
* * *
7267389 TAAAAATTCTTGCAAAAC
1 TGAAAATTCTTGCGAATC
*
7267407 TGAAAATTCTTGTGAATC
1 TGAAAATTCTTGCGAATC
7267425 TGAAA
1 TGAAA
7267430 GCCTTGTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (18 bp):
TGAAAATTCTTGCGAATC
Found at i:7267737 original size:11 final size:11
Alignment explanation
Indices: 7267717--7267760 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
7267707 TTTGTCCAAG
*
7267717 ATTTAAATTTT
1 ATTTATATTTT
*
7267728 ATTTTTATTTT
1 ATTTATATTTT
*
7267739 ATTTATAGTTT
1 ATTTATATTTT
*
7267750 ATTTATCTTTT
1 ATTTATATTTT
7267761 TAGTTTAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:7268317 original size:27 final size:27
Alignment explanation
Indices: 7268287--7268357 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
7268277 CGATGTTCAT
* *
7268287 ATAAAGTAGAGAGAGATGGAGAGAAAA
1 ATAAAGTAAAGAGAGAGGGAGAGAAAA
*
7268314 ATAAAGTAAAGAAAGAGGGAGAGAAAA
1 ATAAAGTAAAGAGAGAGGGAGAGAAAA
7268341 ATAAAGTAAAGAGAGAG
1 ATAAAGTAAAGAGAGAG
7268358 CAAATGGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (27 bp):
ATAAAGTAAAGAGAGAGGGAGAGAAAA
Found at i:7268652 original size:25 final size:23
Alignment explanation
Indices: 7268618--7268680 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 23
7268608 CTAAGCTGAT
* *
7268618 TTTTTTTTTATATATTTTCTTGTCA
1 TTTTTATTTATTTATTTT-TT-TCA
7268643 TTTTTATTTATTTATTTTTTTCA
1 TTTTTATTTATTTATTTTTTTCA
*
7268666 -ATTTATTTATTTATT
1 TTTTTATTTATTTATT
7268681 CATTTGCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.40
23 3 0.09
24 2 0.06
25 16 0.46
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTTATTTATTTTTTTCA
Found at i:7268692 original size:22 final size:22
Alignment explanation
Indices: 7268644--7268695 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7268634 TTCTTGTCAT
* *
7268644 TTTTATTTATTTATTTTTTTCA
1 TTTTATTTATTTATTATTTGCA
*
7268666 ATTTATTTATTTATTCATTTGC-
1 TTTTATTTATTTATT-ATTTGCA
7268688 TTTTATTT
1 TTTTATTT
7268696 TTAAAATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTATTTATTTATTATTTGCA
Found at i:7271579 original size:21 final size:20
Alignment explanation
Indices: 7271555--7271654 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 20
7271545 AATATATTTT
7271555 GATAAAATTTTGATAACAATC
1 GATAAAATTTTGATAAC-ATC
* *
7271576 GATACAATTTTGATAACTTC
1 GATAAAATTTTGATAACATC
** *
7271596 GATATTAGTTTGATAAC-TC
1 GATAAAATTTTGATAACATC
* *
7271615 ATGATATAATTTTGATAAGCATT
1 --GATAAAATTTTGATAA-CATC
*
7271638 GATAAAATTTTGCTAAC
1 GATAAAATTTTGATAAC
7271655 TGCTTTATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 2 0.03
20 17 0.26
21 44 0.68
22 1 0.02
23 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (20 bp):
GATAAAATTTTGATAACATC
Found at i:7272127 original size:44 final size:44
Alignment explanation
Indices: 7272015--7272154 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
7272005 ATTATTAGCA
* ** * * * * *
7272015 ATTTATTATTAAGCTATTAATGATATACTACTAAATTATCAACG
1 ATTTACTATTAAATTATGAATGATTTATTACTAAATTATGAATG
* * * *
7272059 ATTTATTAATAAATTA-GCATTGATTTATTACTAATTTATGAATG
1 ATTTACTATTAAATTATG-AATGATTTATTACTAAATTATGAATG
*
7272103 ATTTACTATTAAATTATGAATGATTTACTT-CTAAATCATTG-ATG
1 ATTTACTATTAAATTATGAATGATTTA-TTACTAAATTA-TGAATG
7272147 ATTTACTA
1 ATTTACTA
7272155 CTATGTTCCT
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
44 72 0.94
45 5 0.06
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (44 bp):
ATTTACTATTAAATTATGAATGATTTATTACTAAATTATGAATG
Found at i:7272147 original size:26 final size:22
Alignment explanation
Indices: 7272015--7272154 Score: 97
Period size: 22 Copynumber: 6.4 Consensus size: 22
7272005 ATTATTAGCA
* ** *
7272015 ATTTATTATTAAGCTATTAATG
1 ATTTACTATTAAATTATGAATG
* * * *
7272037 ATATACTACTAAATTATCAACG
1 ATTTACTATTAAATTATGAATG
* * *
7272059 ATTTATTAATAAATTA-GCATTG
1 ATTTACTATTAAATTATG-AATG
* * *
7272081 ATTTATTACTAATTTATGAATG
1 ATTTACTATTAAATTATGAATG
7272103 ATTTACTATTAAATTATGAATG
1 ATTTACTATTAAATTATGAATG
*
7272125 ATTTACT-TCTAAATCATTG-ATG
1 ATTTACTAT-TAAATTA-TGAATG
7272147 ATTTACTA
1 ATTTACTA
7272155 CTATGTTCCT
Statistics
Matches: 93, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
21 1 0.01
22 89 0.96
23 3 0.03
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (22 bp):
ATTTACTATTAAATTATGAATG
Found at i:7272219 original size:22 final size:21
Alignment explanation
Indices: 7272175--7272219 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
7272165 GATAATTTAT
*
7272175 TATAAAGTTTAATTGATTTAC
1 TATAAAGTTTAATTGATTAAC
7272196 TATAAAGTTATCAA-TGATTAAC
1 TATAAAGTT-T-AATTGATTAAC
7272218 TA
1 TA
7272220 ATTTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 10 0.48
23 2 0.10
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (21 bp):
TATAAAGTTTAATTGATTAAC
Found at i:7272312 original size:22 final size:22
Alignment explanation
Indices: 7272229--7272312 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 22
7272219 AATTTGTTAT
* * *
7272229 TAAATTATCATTGATTTATAAC
1 TAAATTATCAATGATTTACATC
* *
7272251 TAAATTATTAGTGATTTAC-TAC
1 TAAATTATCAATGATTTACAT-C
** *
7272273 -AAGCTATCAATAATTTACATC
1 TAAATTATCAATGATTTACATC
7272294 TAAATTATCAATGATTTAC
1 TAAATTATCAATGATTTAC
7272313 TATTATGTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
21 14 0.30
22 33 0.70
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (22 bp):
TAAATTATCAATGATTTACATC
Found at i:7272323 original size:22 final size:22
Alignment explanation
Indices: 7272298--7272340 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7272288 TACATCTAAA
7272298 TTATCAATG-ATTTACTATTATG
1 TTAT-AATGCATTTACTATTATG
*
7272320 TTATTATGCATTTACTATTAT
1 TTATAATGCATTTACTATTAT
7272341 ATTTGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (22 bp):
TTATAATGCATTTACTATTATG
Found at i:7272412 original size:3 final size:3
Alignment explanation
Indices: 7272400--7272446 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
7272390 CACCATTTTG
* *
7272400 TAT T-T TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA- TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7272446 T
1 T
7272447 TTTTTCTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7272669 original size:23 final size:23
Alignment explanation
Indices: 7272636--7272685 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
7272626 TAGGCCGGTT
7272636 GAAAATATGGGATTTCAATCCCA
1 GAAAATATGGGATTTCAATCCCA
* *
7272659 GAAAATCTGGGATTTGAATCCCA
1 GAAAATATGGGATTTCAATCCCA
7272682 -AAAA
1 GAAAA
7272686 GCTCTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (23 bp):
GAAAATATGGGATTTCAATCCCA
Found at i:7274025 original size:20 final size:21
Alignment explanation
Indices: 7273982--7274027 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7273972 GAGTATTTAT
7273982 AAAAAAGTTTTTAATACAATA
1 AAAAAAGTTTTTAATACAATA
*
7274003 AAAAAATTTTGTTAATA-AA-A
1 AAAAAAGTTT-TTAATACAATA
7274023 AAAAA
1 AAAAA
7274028 TTATTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 11 0.48
22 6 0.26
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAAAAGTTTTTAATACAATA
Found at i:7274920 original size:22 final size:21
Alignment explanation
Indices: 7274878--7274934 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
7274868 ACCATAAGTC
7274878 ATCATAGATTTATTACTAAATTT
1 ATCAT-GATTTATTACTAAA-TT
7274901 ATCATGATTTATTA-TCAAATT
1 ATCATGATTTATTACT-AAATT
*
7274922 ATCACTAATTTAT
1 ATCA-TGATTTAT
7274935 ATTAAATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 7 0.23
22 19 0.61
23 5 0.16
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.47
Consensus pattern (21 bp):
ATCATGATTTATTACTAAATT
Found at i:7274941 original size:21 final size:21
Alignment explanation
Indices: 7274878--7274965 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
7274868 ACCATAAGTC
*
7274878 ATCATAGATTTATTACTAAATTT
1 ATCATA-ATTTATTATTAAA-TT
* *
7274901 ATCATGATTTATTATCAAATT
1 ATCATAATTTATTATTAAATT
*
7274922 ATCACTAATTTA-TATTAAATG
1 ATCA-TAATTTATTATTAAATT
* * *
7274943 ATCTTAATTTACTATTAAGTT
1 ATCATAATTTATTATTAAATT
7274964 AT
1 AT
7274966 TTAATAATGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
20 7 0.13
21 25 0.46
22 17 0.31
23 5 0.09
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (21 bp):
ATCATAATTTATTATTAAATT
Found at i:7275031 original size:46 final size:45
Alignment explanation
Indices: 7274975--7275081 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 45
7274965 TTTAATAATG
* * * *
7274975 AAGTTGTTGATGATTAATTACTACTAAGTTAT-ATTGATTTACTTTT
1 AAGTTTTTGATGATT--TAACTACTAAATTATCATTGATTTACTATT
* *
7275021 AAGTTTTTGAT-ATTTAACTATTAAATTGTCATTGATTTACTATT
1 AAGTTTTTGATGATTTAACTACTAAATTATCATTGATTTACTATT
7275065 AAGTTATTT-ATGATTTA
1 AAGTT-TTTGATGATTTA
7275082 TTTCTAAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
43 11 0.21
44 20 0.38
45 11 0.21
46 10 0.19
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (45 bp):
AAGTTTTTGATGATTTAACTACTAAATTATCATTGATTTACTATT
Found at i:7275078 original size:22 final size:21
Alignment explanation
Indices: 7274992--7275081 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 21
7274982 TGATGATTAA
* *
7274992 TTACTACTAAG-TTATATTGAT
1 TTACTATTAAGTTTTTA-TGAT
*
7275013 TTACTTTTAAGTTTTTGAT-AT
1 TTACTATTAAGTTTTT-ATGAT
* * *
7275034 TTAACTATTAAATTGTCATTGAT
1 TT-ACTATTAAGTTTTTA-TGAT
7275057 TTACTATTAAGTTATTTATGAT
1 TTACTATTAAGTT-TTTATGAT
7275079 TTA
1 TTA
7275082 TTTCTAAGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
21 14 0.26
22 32 0.60
23 7 0.13
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (21 bp):
TTACTATTAAGTTTTTATGAT
Found at i:7275127 original size:22 final size:22
Alignment explanation
Indices: 7275102--7275151 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7275092 TATCAATTAA
7275102 TTACTACTAAATTGA-AACTAAT
1 TTACTACTAAATT-ATAACTAAT
* * *
7275124 TTACTAGTAAGTTATCACTAAT
1 TTACTACTAAATTATAACTAAT
7275146 TTACTA
1 TTACTA
7275152 TAAGATATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (22 bp):
TTACTACTAAATTATAACTAAT
Found at i:7275182 original size:22 final size:22
Alignment explanation
Indices: 7275152--7275234 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
7275142 TAATTTACTA
*
7275152 TAAGATATCATTGTTTTATTAT
1 TAAGTTATCATTGTTTTATTAT
* ** * *
7275174 TAAGTTATCAATGACTAATTAC
1 TAAGTTATCATTGTTTTATTAT
7275196 TAAGTTATCACTT-TTTT-TTAT
1 TAAGTTATCA-TTGTTTTATTAT
** *
7275217 TAACCTATCATTGCTTTA
1 TAAGTTATCATTGTTTTA
7275235 CTAATATGTT
Statistics
Matches: 44, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
20 2 0.05
21 14 0.32
22 27 0.61
23 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (22 bp):
TAAGTTATCATTGTTTTATTAT
Found at i:7275544 original size:22 final size:22
Alignment explanation
Indices: 7275477--7275553 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
7275467 TATAAAAAAA
* * * *
7275477 ATCAATAATTAACAATTATGTT
1 ATCAATAATTTACTACTAAGTT
*
7275499 ATCAATTATTTACTACTAAGTT
1 ATCAATAATTTACTACTAAGTT
*
7275521 ATCAATGATTTACTACTCAA-TT
1 ATCAATAATTTACTACT-AAGTT
*
7275543 ATTAATAATTT
1 ATCAATAATTT
7275554 GTTTCTAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 44 0.96
23 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (22 bp):
ATCAATAATTTACTACTAAGTT
Found at i:7275588 original size:22 final size:22
Alignment explanation
Indices: 7275563--7275628 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
7275553 TGTTTCTAAT
7275563 TTATGAATGATTTATCATTAAA
1 TTATGAATGATTTATCATTAAA
* * *
7275585 TTATGACTAATTTAACATTAAA
1 TTATGAATGATTTATCATTAAA
*
7275607 TTATGAATGATTTCT-ATTAAA
1 TTATGAATGATTTATCATTAAA
7275628 T
1 T
7275629 CATTGGTGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (22 bp):
TTATGAATGATTTATCATTAAA
Found at i:7275797 original size:19 final size:19
Alignment explanation
Indices: 7275775--7275816 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7275765 CTATTATGTT
* *
7275775 ATTAGTGATTTGCTACTAA
1 ATTAGTAATTTACTACTAA
*
7275794 ATTATTAATTTACTACTAA
1 ATTAGTAATTTACTACTAA
7275813 ATTA
1 ATTA
7275817 TCAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (19 bp):
ATTAGTAATTTACTACTAA
Found at i:7275827 original size:22 final size:22
Alignment explanation
Indices: 7275782--7276103 Score: 92
Period size: 22 Copynumber: 14.9 Consensus size: 22
7275772 GTTATTAGTG
*
7275782 ATTTGCTACTAAATTAT---TA
1 ATTTACTACTAAATTATCAATA
7275801 ATTTACTACTAAATTATCAATA
1 ATTTACTACTAAATTATCAATA
* *
7275823 ATTTACTA-T-GA-TATCTTTATA
1 ATTTACTACTAAATTATC--AATA
* ** * *
7275844 TATTTACTATTATGTTATCATTG
1 -ATTTACTACTAAATTATCAATA
* * ** *
7275867 ATTTACTACTTAATTTTTGATT
1 ATTTACTACTAAATTATCAATA
** ***
7275889 ATTTACTAAAAAATTATCACCG
1 ATTTACTACTAAATTATCAATA
*
7275911 ATTTA-TCACTAAATTATCTATA
1 ATTTACT-ACTAAATTATCAATA
* * * *
7275933 ATTCACTACCAAGTTATTACA-A
1 ATTTACTACTAAATTATCA-ATA
* *
7275955 ATTTA-TATTAAATTAT-ACATG
1 ATTTACTACTAAATTATCA-ATA
* * * * *
7275976 ATTTATTATTAAGTTAGT-ATTG
1 ATTTACTACTAAATTA-TCAATA
* * *
7275998 ATTAACTATTATATTATCAATA
1 ATTTACTACTAAATTATCAATA
* * * *
7276020 ATTTACTACGAAGTTAT-AGTG
1 ATTTACTACTAAATTATCAATA
** * * *
7276041 ATTTACTTTTAAGTTTTCAATG
1 ATTTACTACTAAATTATCAATA
* *
7276063 ATTAACTACTAAATTATCAATT
1 ATTTACTACTAAATTATCAATA
*
7276085 ATTTACTACTAATTTATCA
1 ATTTACTACTAAATTATCA
7276104 TTGATTTATT
Statistics
Matches: 216, Mismatches: 70, Indels: 31
0.68 0.22 0.10
Matches are distributed among these distances:
19 20 0.09
20 4 0.02
21 34 0.16
22 148 0.69
23 6 0.03
25 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATA
Found at i:7276023 original size:65 final size:67
Alignment explanation
Indices: 7275805--7276122 Score: 192
Period size: 65 Copynumber: 4.8 Consensus size: 67
7275795 TTATTAATTT
* * * * * *
7275805 ACTACTAAATTATCAATAATTTACTA-TGATATCTTTATAT-ATTTACTATTATGTTA-TCATTG
1 ACTACTAAATTATCAATAATTTACTACT-AAAT-TATACATGATTTATTATTAAGTTAGTCAATG
*
7275867 ATTT
64 ATTA
* * ** * ** * * * * * *
7275871 ACTACTTAATTTTTGATTATTTACTAAAAAATTAT-CACCGATTTATCACTAAATTA-TCTATAA
1 ACTACTAAATTATCAATAATTTACTACTAAATTATACA-TGATTTATTATTAAGTTAGTCAATGA
*
7275934 TTC
65 TTA
* * * * *
7275937 ACTACCAAGTTATTACA-AATTTA-TATTAAATTATACATGATTTATTATTAAGTTAGT-ATTGA
1 ACTACTAAATTATCA-ATAATTTACTACTAAATTATACATGATTTATTATTAAGTTAGTCAATGA
7275999 TTA
65 TTA
* * * * * *
7276002 ACTATTATATTATCAATAATTTACTACGAAGTTATA-GTGATTTACTT-TTAAGTT-TTCAATGA
1 ACTACTAAATTATCAATAATTTACTACTAAATTATACATGATTTA-TTATTAAGTTAGTCAATGA
7276064 TTA
65 TTA
* *
7276067 ACTACTAAATTATCAATTATTTACTACTAATTTAT-CATTGATTTATTATTAAGTTA
1 ACTACTAAATTATCAATAATTTACTACTAAATTATACA-TGATTTATTATTAAGTTA
7276123 TTTAGGATTT
Statistics
Matches: 186, Mismatches: 52, Indels: 27
0.70 0.20 0.10
Matches are distributed among these distances:
64 3 0.02
65 98 0.53
66 84 0.45
67 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.47
Consensus pattern (67 bp):
ACTACTAAATTATCAATAATTTACTACTAAATTATACATGATTTATTATTAAGTTAGTCAATGAT
TA
Found at i:7276123 original size:22 final size:22
Alignment explanation
Indices: 7275845--7276123 Score: 108
Period size: 22 Copynumber: 12.8 Consensus size: 22
7275835 ATCTTTATAT
*
7275845 ATTTACTATTATGTTATCATTG
1 ATTTACTATTAAGTTATCATTG
* * *
7275867 ATTTACTACTTAATTTTTGATT-
1 ATTTACTA-TTAAGTTATCATTG
** * **
7275889 ATTTACTAAAAAATTATCACCG
1 ATTTACTATTAAGTTATCATTG
* * *
7275911 ATTTA-TCACTAAATTATC-TATA
1 ATTTACT-ATTAAGTTATCAT-TG
* ** * ***
7275933 ATTCACTACCAAGTTATTACAA
1 ATTTACTATTAAGTTATCATTG
*
7275955 ATTTA-TATTAAATTATACA-TG
1 ATTTACTATTAAGTTAT-CATTG
*
7275976 ATTTATTATTAAGTTAGT-ATTG
1 ATTTACTATTAAGTTA-TCATTG
* * *
7275998 ATTAACTATTATA-TTATCAATA
1 ATTTACTATTA-AGTTATCATTG
** *
7276020 ATTTACTACGAAGTTAT-AGTG
1 ATTTACTATTAAGTTATCATTG
* * *
7276041 ATTTACTTTTAAGTTTTCAATG
1 ATTTACTATTAAGTTATCATTG
* * *
7276063 ATTAACTACTAAATTATCAATT-
1 ATTTACTATTAAGTTATC-ATTG
* *
7276085 ATTTACTACTAATTTATCATTG
1 ATTTACTATTAAGTTATCATTG
*
7276107 ATTTATTATTAAGTTAT
1 ATTTACTATTAAGTTAT
7276124 TTAGGATTTA
Statistics
Matches: 186, Mismatches: 55, Indels: 32
0.68 0.20 0.12
Matches are distributed among these distances:
21 41 0.22
22 131 0.70
23 14 0.08
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTG
Found at i:7276200 original size:44 final size:44
Alignment explanation
Indices: 7276152--7276241 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
7276142 AATTAATTAT
* * *
7276152 TATTAAATTGA-AATTGATTTATTATAAAATTATTACTAATTTAC
1 TATTAAATT-ATAATTGATATATTATAAAATTATTAATAATTAAC
* * * *
7276196 TATTAAGTTATGATTGATATATTATTAAGTTATTAATAATTAAC
1 TATTAAATTATAATTGATATATTATAAAATTATTAATAATTAAC
7276240 TA
1 TA
7276242 CAAGTTATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (44 bp):
TATTAAATTATAATTGATATATTATAAAATTATTAATAATTAAC
Found at i:7276206 original size:22 final size:22
Alignment explanation
Indices: 7276181--7276251 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
7276171 TATTATAAAA
*
7276181 TTATTACTAATTTACTATTAAG
1 TTATTAATAATTTACTATTAAG
* * * * *
7276203 TTATGATTGATATATTATTAAG
1 TTATTAATAATTTACTATTAAG
* *
7276225 TTATTAATAATTAACTA-CAAG
1 TTATTAATAATTTACTATTAAG
7276246 TTATTA
1 TTATTA
7276252 TTTTTTTTTT
Statistics
Matches: 37, Mismatches: 12, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
21 9 0.24
22 28 0.76
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATTAATAATTTACTATTAAG
Found at i:7276370 original size:22 final size:22
Alignment explanation
Indices: 7276275--7276367 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
7276265 GTTATCATTA
*
7276275 ATTTAGTATTATATTATTATAC-
1 ATTTACTATTATATTATTAT-CG
* * * *
7276297 ATTTACAACTATATTATAATTG
1 ATTTACTATTATATTATTATCG
* *
7276319 ATTTACCATTA-AGGTATTAT-G
1 ATTTACTATTATA-TTATTATCG
* *
7276340 TATATATTATTATATTATTATCG
1 -ATTTACTATTATATTATTATCG
7276363 ATTTA
1 ATTTA
7276368 TTAAAAAGTT
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
21 2 0.04
22 48 0.92
23 2 0.04
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTTACTATTATATTATTATCG
Found at i:7276401 original size:22 final size:22
Alignment explanation
Indices: 7276376--7276464 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 22
7276366 TATTAAAAAG
7276376 TTATCAATTATTTACTACTAAA
1 TTATCAATTATTTACTACTAAA
* * *
7276398 TTATC-GTTCATTTACTATTAAG
1 TTATCAATT-ATTTACTACTAAA
* * * *
7276420 TTATTACTAATTTACTA-TAAT
1 TTATCAATTATTTACTACTAAA
*
7276441 TTATCGATTA-TTACTACTAAA
1 TTATCAATTATTTACTACTAAA
7276462 TTA
1 TTA
7276465 AACTGATTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
20 6 0.12
21 17 0.33
22 28 0.54
23 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (22 bp):
TTATCAATTATTTACTACTAAA
Found at i:7279283 original size:2 final size:2
Alignment explanation
Indices: 7279278--7279305 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7279268 TATATATATA
7279278 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7279306 AGAATAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7289213 original size:20 final size:20
Alignment explanation
Indices: 7289176--7289220 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7289166 AAATAATATA
* *
7289176 AAAAATTTTAAAATTTTAAT
1 AAAAATTATAAAATTTTAAC
7289196 AAAAATTATATAAA-TTTAAC
1 AAAAATTATA-AAATTTTAAC
7289216 AAAAA
1 AAAAA
7289221 CAAAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTATAAAATTTTAAC
Found at i:7297421 original size:373 final size:371
Alignment explanation
Indices: 7296727--7297715 Score: 1450
Period size: 373 Copynumber: 2.7 Consensus size: 371
7296717 GAACTTATGA
* * * *
7296727 AAGAGTTTTGAAT-CTCACATCGAACATAATAGGAGGGTCATTGGAATATATAAAGATTTCACAT
1 AAGAGTCTTGAATCCT-ACATCGAACATAATAGGAGGGTCATTGGAGTATATAAGGATTTCACAC
* * * *
7296791 CACCTCCGCCTTGTGAGGCATCTTTTGTAAGACAAAATCGTGAGGCCA--GGGGCCAGAGCAGAT
65 CACCTCCGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGGGGCCAGAGCAGAC
* ** * * * * *
7296854 AATACCTCAT-AAGGATGTGAACCGTGGTGGTCATGCTGATCT-GGAAATGTCAGAAGGGTGAAT
130 AATACCTC-TCAAGGGTGTGAACCGTGCAGG-AAGGCTGATCTGGGACA--CCGGAAGGGTGAAT
* * *
7296917 GCCCGAGTCCCGGAGCCGTGCGGATTCAGAGCTTAAGTATCGACCCGTGACAAGTGATATCAAAG
191 GCCCGAGTCCCGGAGCCGCGCGGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGATATCAAAG
* * *
7296982 TCAGTCCTAAACCGTTCGATCCACGCCAAACACCTCGAGGGAGGTAGGCAGGGTGACCAACCTCC
256 CCAGCCCTAAACCGTTCGATCCACACCAAACACCTCGAGGGAGGTAGGCAGGGTGACCAACCTCC
* *
7297047 GTGACGAGGGCGTCACGAGGTTGGGTGCGAGAGAATGTCACGGACCTAAGG
321 GTAACGAGGGCGTCACGAGGTTGAGTGCGAGAGAATGTCACGGACCTAAGG
* *
7297098 AAGAGTCTTGAATCCTACATCGAACATAATAGGAGGATCACTGGAGTATATAAGGATTTCACACC
1 AAGAGTCTTGAATCCTACATCGAACATAATAGGAGGGTCATTGGAGTATATAAGGATTTCACACC
*
7297163 ACCTCCACCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGGGGGCCAGAGCAGAC
66 ACCTCCGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCA-GGGGGGCCAGAGCAGAC
7297228 AATACCTCTCAAGGGTGTGAACCGTGACAGGAAGGCTGATCTGGGACACCGGAAGGGTGAATGCC
130 AATACCTCTCAAGGGTGTGAACCGTG-CAGGAAGGCTGATCTGGGACACCGGAAGGGTGAATGCC
* *
7297293 CGAGTCCCGGAGCCGCGCGGGTTC-GAAACTTAAGTCTCGACCCGTGACAAGTGGTATCAAAGCC
194 CGAGTCCCGGAGCCGCGCGGGTTCAG-AGCTTAAGTCTCGACCCGTGACAAGTGATATCAAAGCC
* * * *
7297357 AGCCCTAAACCGTTCGATCCACACCAAGCATCTCGAGGGAGGTAGGCAGGGTGGCCAGCCTCCGT
258 AGCCCTAAACCGTTCGATCCACACCAAACACCTCGAGGGAGGTAGGCAGGGTGACCAACCTCCGT
7297422 AACGAGGGCGTCACGAGGTTGAGTGCGAGAGAATGTCACGGACCTAAGG
323 AACGAGGGCGTCACGAGGTTGAGTGCGAGAGAATGTCACGGACCTAAGG
* * *
7297471 AAGAGTCATGAATCCTACATCGAACATAATAGGAGGGTCATTGGGGTATATAAGGATTTCATACC
1 AAGAGTCTTGAATCCTACATCGAACATAATAGGAGGGTCATTGGAGTATATAAGGATTTCACACC
* *
7297536 ACCTCCGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCTAGGGGGGCCAGAGCGGACA
66 ACCTCCGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGGGGCCAGAGCAGACA
* * * * *
7297601 ATACCTCACAAGGGTGTGAACCGTGGTAGGAAGGCTAATCTGGGACGCCGGAAGGATGAATGCCC
131 ATACCTCTCAAGGGTGTGAACCGT-GCAGGAAGGCTGATCTGGGACACCGGAAGGGTGAATGCCC
* *
7297666 GGGTCCCGGAGCCGCGCGAGTTCAGAGCTTAAGTCTCGACCCGTGACAAG
195 GAGTCCCGGAGCCGCGCGGGTTCAGAGCTTAAGTCTCGACCCGTGACAAG
7297716 CCGTGACAGG
Statistics
Matches: 559, Mismatches: 49, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
371 99 0.18
372 123 0.22
373 285 0.51
374 46 0.08
375 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (371 bp):
AAGAGTCTTGAATCCTACATCGAACATAATAGGAGGGTCATTGGAGTATATAAGGATTTCACACC
ACCTCCGCCTTGTGAGGCACCTTTTGTAGGACAAAACCGTGAGGCCAGGGGGGCCAGAGCAGACA
ATACCTCTCAAGGGTGTGAACCGTGCAGGAAGGCTGATCTGGGACACCGGAAGGGTGAATGCCCG
AGTCCCGGAGCCGCGCGGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGATATCAAAGCCAGC
CCTAAACCGTTCGATCCACACCAAACACCTCGAGGGAGGTAGGCAGGGTGACCAACCTCCGTAAC
GAGGGCGTCACGAGGTTGAGTGCGAGAGAATGTCACGGACCTAAGG
Found at i:7297791 original size:95 final size:95
Alignment explanation
Indices: 7297628--7297810 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 95
7297618 GAACCGTGGT
*
7297628 AGGAAGGCTAATCTGGGACGCCGGAAGGATGAATGCCCGGGTCCCGGAGCCGCGCGAGTTCAGAG
1 AGGAAGGCTAATCTGGGACGCCGGAAGGATGAATGCCCGGGTCCCGGAGCCGCACGAGTTCAGAG
7297693 CTTAAGTCTCGACCCGTGACAAGCCGTGAC
66 CTTAAGTCTCGACCCGTGACAAGCCGTGAC
* * * * * * *
7297723 AGGAAGGCTGATTTGGGACGCCGGAAGGGTGAATGCCCGTGTCCCGGAGCCGCACGGGTGT-GGG
1 AGGAAGGCTAATCTGGGACGCCGGAAGGATGAATGCCCGGGTCCCGGAGCCGCACGAGT-TCAGA
7297787 GCTTAAGTCTCGACCCGTGACAAG
65 GCTTAAGTCTCGACCCGTGACAAG
7297811 TGCTATCAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 78 0.99
96 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (95 bp):
AGGAAGGCTAATCTGGGACGCCGGAAGGATGAATGCCCGGGTCCCGGAGCCGCACGAGTTCAGAG
CTTAAGTCTCGACCCGTGACAAGCCGTGAC
Found at i:7298174 original size:6 final size:6
Alignment explanation
Indices: 7298162--7298196 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7298152 CCACCAAATA
* *
7298162 AAGCAG CAGCAG CAGCAG AAGCAG AAGCAG AAGCA
1 AAGCAG AAGCAG AAGCAG AAGCAG AAGCAG AAGCA
7298197 TCAAGCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.31, T:0.00
Consensus pattern (6 bp):
AAGCAG
Found at i:7300614 original size:25 final size:24
Alignment explanation
Indices: 7300586--7300633 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7300576 TATATAACAT
7300586 TAAAA-CATTTAATATTAATATTTTC
1 TAAAATCA-TTAAT-TTAATATTTTC
*
7300611 TAAAATCATTACTTTAATATTTT
1 TAAAATCATTAATTTAATATTTT
7300634 TACCAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 9 0.43
26 2 0.10
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (24 bp):
TAAAATCATTAATTTAATATTTTC
Found at i:7301884 original size:18 final size:20
Alignment explanation
Indices: 7301851--7301889 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7301841 AGTTCAAATA
7301851 TTTTTTTTACCATTTA-GTT
1 TTTTTTTTACCATTTATGTT
*
7301870 TTTTTTTTA-CTTTTATGTT
1 TTTTTTTTACCATTTATGTT
7301889 T
1 T
7301890 CTCTCAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTTTTACCATTTATGTT
Found at i:7305523 original size:31 final size:31
Alignment explanation
Indices: 7305482--7305548 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
7305472 GCCGAGCCAA
* * *
7305482 CATTCTTACTTAACAGTAGCCGAATACGCAT
1 CATTATTACTTAAAAGTAGCCGAATACGCAC
7305513 CATTATTACTTAAAAGTAGCCGAATACGCAC
1 CATTATTACTTAAAAGTAGCCGAATACGCAC
7305544 CATTA
1 CATTA
7305549 GTGTGTCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (31 bp):
CATTATTACTTAAAAGTAGCCGAATACGCAC
Found at i:7316893 original size:15 final size:13
Alignment explanation
Indices: 7316870--7316913 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 13
7316860 GTAAACCAAG
7316870 AAGAGAAAAAAAA
1 AAGAGAAAAAAAA
7316883 AAGCCAGAAAAAATAAA
1 AAG--AG-AAAAA-AAA
7316900 AAGAGAAAAAAAA
1 AAGAGAAAAAAAA
7316913 A
1 A
7316914 GGAAGAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 4 0.15
16 5 0.19
17 6 0.22
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (13 bp):
AAGAGAAAAAAAA
Found at i:7317670 original size:25 final size:23
Alignment explanation
Indices: 7317641--7317694 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
7317631 ATATATAACA
7317641 TTAAAA-CATTTAATATTAATATTT
1 TTAAAATCA-TTAAT-TTAATATTT
*
7317665 TCTAAAATCATTACTTTAATATTT
1 T-TAAAATCATTAATTTAATATTT
7317689 TTAAAA
1 TTAAAA
7317695 AGGCAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 9 0.33
26 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAAATCATTAATTTAATATTT
Found at i:7320401 original size:42 final size:42
Alignment explanation
Indices: 7320342--7320425 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
7320332 TCTAGTGACA
7320342 ATATTGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGC
1 ATATTGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGC
7320384 ATATTGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGC
1 ATATTGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGC
7320426 GACTGCATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
ATATTGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGC
Found at i:7320438 original size:42 final size:42
Alignment explanation
Indices: 7320346--7320438 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
7320336 GTGACAATAT
* *
7320346 TGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGCATAT
1 TGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGCAGAC
7320388 TGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGC-GAC
1 TGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGCAGAC
7320429 TGCATAGGCT
1 TGCA-AGGCT
7320439 TTGACGAGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 5 0.10
42 43 0.90
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (42 bp):
TGCAAGGCTGCAAGCAACTTGTCCATTTAGATGTCCGCAGAC
Found at i:7334651 original size:15 final size:13
Alignment explanation
Indices: 7334628--7334671 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 13
7334618 GTAAACCAAG
7334628 AAGAGAAAAAAAA
1 AAGAGAAAAAAAA
7334641 AAGCTAGAAAAAATAAA
1 AAG--AG-AAAAA-AAA
7334658 AAGAGAAAAAAAA
1 AAGAGAAAAAAAA
7334671 A
1 A
7334672 GGAAGAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 4 0.15
16 5 0.19
17 6 0.22
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (13 bp):
AAGAGAAAAAAAA
Found at i:7335429 original size:25 final size:23
Alignment explanation
Indices: 7335400--7335453 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
7335390 CTATATAACA
7335400 TTAAAA-CATTTAATATTAATATTT
1 TTAAAATCA-TTAAT-TTAATATTT
*
7335424 TCTAAAATCATTACTTTAATATTT
1 T-TAAAATCATTAATTTAATATTT
7335448 TTAAAA
1 TTAAAA
7335454 AGGCAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 9 0.33
26 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAAATCATTAATTTAATATTT
Found at i:7335585 original size:4 final size:4
Alignment explanation
Indices: 7335576--7335603 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7335566 TTCCAACATT
7335576 TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC
7335604 ACCATCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:7340373 original size:31 final size:31
Alignment explanation
Indices: 7340332--7340398 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
7340322 GCCGAGCCAA
* * *
7340332 CATTCTTACTTAACAGTAGCCGAATACGCAT
1 CATTATTACTTAAAAGTAGCCGAATACGCAC
7340363 CATTATTACTTAAAAGTAGCCGAATACGCAC
1 CATTATTACTTAAAAGTAGCCGAATACGCAC
7340394 CATTA
1 CATTA
7340399 GTGTGTCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (31 bp):
CATTATTACTTAAAAGTAGCCGAATACGCAC
Found at i:7352536 original size:29 final size:28
Alignment explanation
Indices: 7352493--7352557 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
7352483 TTAGTTATTT
* *
7352493 AAATTTAAATCAA-TTAAAATTCATTAA
1 AAATTTATATCAATTTAAAATACATTAA
*
7352520 TAGAATTTATATCAATTTAAACTACATTAA
1 -A-AATTTATATCAATTTAAAATACATTAA
7352550 AAATTTAT
1 AAATTTAT
7352558 TTGTAGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.25
29 12 0.38
30 12 0.38
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (28 bp):
AAATTTATATCAATTTAAAATACATTAA
Found at i:7354942 original size:22 final size:22
Alignment explanation
Indices: 7354907--7354965 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
7354897 AACTTTGTAC
7354907 TAAATTAATGATAACTGT-ATAG
1 TAAATTAATGATAA-TGTAATAG
*
7354929 TAAATT-ATGAATAATTTAATAG
1 TAAATTAATG-ATAATGTAATAG
* *
7354951 TAAATAAATAATAAT
1 TAAATTAATGATAAT
7354966 AACTTAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 5 0.16
22 24 0.77
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (22 bp):
TAAATTAATGATAATGTAATAG
Found at i:7354968 original size:47 final size:48
Alignment explanation
Indices: 7354907--7355004 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 48
7354897 AACTTTGTAC
* * ** *
7354907 TAAATTAATGATAACTGT-ATAGTAAATTATGAATAATTTAATAGTAAA
1 TAAATTAATAATAACT-TAATAGTAAATGAACAATAATTTAATAATAAA
*
7354955 TAAA-TAATAATAACTTAATAGTAAATGAACAATAATTTAGTAATAAA
1 TAAATTAATAATAACTTAATAGTAAATGAACAATAATTTAATAATAAA
7355002 TAA
1 TAA
7355005 TTGATAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 38 0.88
48 4 0.09
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (48 bp):
TAAATTAATAATAACTTAATAGTAAATGAACAATAATTTAATAATAAA
Found at i:7354972 original size:25 final size:25
Alignment explanation
Indices: 7354929--7354990 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
7354919 AACTGTATAG
* *
7354929 TAAATTATGAATAATTTAATAGTAAA
1 TAAATAAT-AATAACTTAATAGTAAA
7354955 TAAATAATAATAACTTAATAGTAAA
1 TAAATAATAATAACTTAATAGTAAA
* *
7354980 TGAACAATAAT
1 TAAATAATAAT
7354991 TTAGTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (25 bp):
TAAATAATAATAACTTAATAGTAAA
Found at i:7355001 original size:22 final size:21
Alignment explanation
Indices: 7354948--7355004 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
7354938 AATAATTTAA
*
7354948 TAGTAAATAAATAATAATAACT
1 TAGT-AATAAATAACAATAACT
* * *
7354970 TAATAGTAAATGAACAATAATT
1 TAGTAATAAAT-AACAATAACT
7354992 TAGTAATAAATAA
1 TAGTAATAAATAA
7355005 TTGATAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.32
Consensus pattern (21 bp):
TAGTAATAAATAACAATAACT
Found at i:7355559 original size:22 final size:22
Alignment explanation
Indices: 7355534--7355972 Score: 86
Period size: 22 Copynumber: 20.0 Consensus size: 22
7355524 AGCTTAGTAA
7355534 TAAATTAATGATAATTTAATAG
1 TAAATTAATGATAATTTAATAG
* *
7355556 TAAA-TAATTTATAA-CTAAGTAG
1 TAAATTAA-TGATAATTTAA-TAG
* * * *
7355578 T-AATTAATAATTAAAATTAAAAA
1 TAAATTAATGA-T-AATTTAATAG
* *
7355601 TAAATCAAT-ATAACTTAATAG
1 TAAATTAATGATAATTTAATAG
*
7355622 T-AATT-A-GCAGTAAATTAATAG
1 TAAATTAATG-A-TAATTTAATAG
* * *
7355643 TTAATCAATAATAATTTAGTATAG
1 TAAATTAATGATAATTTA--ATAG
* *
7355667 TAAATTAGA-GATATAACTTAATTG
1 TAAATTA-ATG--ATAATTTAATAG
* * * *
7355691 TATATCAATTATAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
* * *
7355713 TAAATTAGTAATAATATAATAG
1 TAAATTAATGATAATTTAATAG
** * *
7355735 TCAAA-GCATAATAATTTAATAA
1 T-AAATTAATGATAATTTAATAG
* * *** *
7355757 TAAATCAATTATAACGCAATTG
1 TAAATTAATGATAATTTAATAG
** * ** *
7355779 TAAATGCATAATAACATAATTG
1 TAAATTAATGATAATTTAATAG
* * *
7355801 TAAATTAATAATAACTTCATA-
1 TAAATTAATGATAATTTAATAG
* *
7355822 -AAA--AAAGATAACTTAATAG
1 TAAATTAATGATAATTTAATAG
* * * *
7355841 TTAATCATTGATAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
* **
7355863 T-AATTAGTGATAAGATAATAG
1 TAAATTAATGATAATTTAATAG
* ** *
7355884 TAAATTTATTTTAGTTTAATAG
1 TAAATTAATGATAATTTAATAG
*
7355906 T-AATTAAATTATAAATTTAATAG
1 TAAATT-AATGAT-AATTTAATAG
* *
7355929 TAAATCATAA--ATAACTTAGT-G
1 TAAAT--TAATGATAATTTAATAG
*
7355950 ATAAATCAATGATAATTTAATAG
1 -TAAATTAATGATAATTTAATAG
7355973 CTAATCACTA
Statistics
Matches: 299, Mismatches: 83, Indels: 69
0.66 0.18 0.15
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
20 11 0.04
21 53 0.18
22 158 0.53
23 24 0.08
24 29 0.10
25 3 0.01
26 8 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAATTAATGATAATTTAATAG
Found at i:7356057 original size:22 final size:22
Alignment explanation
Indices: 7356032--7356358 Score: 139
Period size: 22 Copynumber: 14.6 Consensus size: 22
7356022 CATAACTGTA
*
7356032 TAGTAGTAAATCACTAATAATT
1 TAGTAGTAAATCATTAATAATT
*
7356054 TAGTAGTAAATTATTAATAACTT
1 TAGTAGTAAATCATTAATAA-TT
* * **
7356077 AAG-AGTAAATCACTAATAACG
1 TAGTAGTAAATCATTAATAATT
* * *
7356098 TAATAGTAAAACATTGATAATT
1 TAGTAGTAAATCATTAATAATT
* * *
7356120 TAGTTGTAATTCATTGATAATT
1 TAGTAGTAAATCATTAATAATT
* * *
7356142 TATTTA-TAAATTAAT-ATAATT
1 TA-GTAGTAAATCATTAATAATT
*
7356163 TAGTTA-TAAATTAGTTAATTATTAATAACT
1 TAG-TAGTAAATCA-TT-A--A-TAAT---T
** *
7356193 TTATAGTAAATCATCAATAACTT
1 TAGTAGTAAATCATTAATAA-TT
***
7356216 TA-TAGTAAATTGGTAATAATAT
1 TAGTAGTAAATCATTAATAAT-T
* * *
7356238 TA-TAATAAATTATTAATAACT
1 TAGTAGTAAATCATTAATAATT
* * * *
7356259 TAATAGTAAATTATCAATAACT
1 TAGTAGTAAATCATTAATAATT
* * * *
7356281 TAGTAATAAATCGTTTATAACT
1 TAGTAGTAAATCATTAATAATT
* * *
7356303 TAGTGGTAAATCATTTATAACT
1 TAGTAGTAAATCATTAATAATT
*
7356325 TAGT-GATAAATCA-TGATAATT
1 TAGTAG-TAAATCATTAATAATT
7356346 TAGTAGTAAATCA
1 TAGTAGTAAATCA
7356359 ATGATAAGGT
Statistics
Matches: 235, Mismatches: 51, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
21 40 0.17
22 166 0.71
23 7 0.03
25 3 0.01
26 3 0.01
27 4 0.02
28 1 0.00
29 3 0.01
30 8 0.03
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (22 bp):
TAGTAGTAAATCATTAATAATT
Found at i:7356150 original size:11 final size:11
Alignment explanation
Indices: 7356114--7356179 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
7356104 TAAAACATTG
7356114 ATAATTTAGTT
1 ATAATTTAGTT
* *
7356125 GTAATTCA-TT
1 ATAATTTAGTT
*
7356135 GATAATTTATTT
1 -ATAATTTAGTT
* *
7356147 ATAAATTA-AT
1 ATAATTTAGTT
7356157 ATAATTTAGTT
1 ATAATTTAGTT
*
7356168 ATAAATTAGTT
1 ATAATTTAGTT
7356179 A
1 A
7356180 ATTATTAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 10 0.23
11 31 0.72
12 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (11 bp):
ATAATTTAGTT
Found at i:7356162 original size:21 final size:21
Alignment explanation
Indices: 7356114--7356175 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
7356104 TAAAACATTG
* *
7356114 ATAATTTAGTTGT-AATTCATT
1 ATAATTTAGTTATAAATT-AAT
*
7356135 GATAATTTATTTATAAATTAAT
1 -ATAATTTAGTTATAAATTAAT
7356157 ATAATTTAGTTATAAATTA
1 ATAATTTAGTTATAAATTA
7356176 GTTAATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.51
22 13 0.37
23 4 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (21 bp):
ATAATTTAGTTATAAATTAAT
Found at i:7356245 original size:11 final size:11
Alignment explanation
Indices: 7356229--7356291 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
7356219 AGTAAATTGG
7356229 TAATAATATTA-
1 TAATAA-ATTAT
7356240 TAATAAATTAT
1 TAATAAATTAT
* *
7356251 TAATAACTTAA
1 TAATAAATTAT
*
7356262 TAGTAAATTAT
1 TAATAAATTAT
* * *
7356273 CAATAACTTAG
1 TAATAAATTAT
7356284 TAATAAAT
1 TAATAAAT
7356292 CGTTTATAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 4 0.10
11 36 0.90
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATAAATTAT
Found at i:7356365 original size:22 final size:21
Alignment explanation
Indices: 7356297--7356365 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
7356287 TAAATCGTTT
* *
7356297 ATAACTTAGTGGTAAATCATTT
1 ATAACTTAGT-GTAAATCAATG
7356319 ATAACTTAGTGATAAATC-ATG
1 ATAACTTAGTG-TAAATCAATG
*
7356340 ATAATTTAGTAGTAAATCAATG
1 ATAACTTAGT-GTAAATCAATG
7356362 ATAA
1 ATAA
7356366 GGTAGTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 17 0.41
22 24 0.59
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (21 bp):
ATAACTTAGTGTAAATCAATG
Found at i:7356371 original size:22 final size:21
Alignment explanation
Indices: 7356331--7356372 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7356321 AACTTAGTGA
**
7356331 TAAATCATGATAATTTAGTAG
1 TAAATCATGATAAGGTAGTAG
7356352 TAAATCAATGATAAGGTAGTA
1 TAAATC-ATGATAAGGTAGTA
7356373 ATAAGCGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (21 bp):
TAAATCATGATAAGGTAGTAG
Found at i:7356641 original size:22 final size:22
Alignment explanation
Indices: 7356616--7356667 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
7356606 TATTTCATAA
*
7356616 ATAACTTAGTAGTAATTAAATG
1 ATAACTTAGTAGTAAATAAATG
* *
7356638 ATAATTTAGTAGTAAATAATTG
1 ATAACTTAGTAGTAAATAAATG
7356660 ATAACTTA
1 ATAACTTA
7356668 ATAACTAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAAATG
Found at i:7356878 original size:11 final size:11
Alignment explanation
Indices: 7356845--7356968 Score: 74
Period size: 11 Copynumber: 11.3 Consensus size: 11
7356835 AACTTCATAG
*
7356845 TAAATTAGTTA
1 TAAATTAGTAA
*
7356856 TAACTTTA-TAA
1 TAA-ATTAGTAA
*
7356867 TAAATTATTAA
1 TAAATTAGTAA
* *
7356878 TAACTTAGTAC
1 TAAATTAGTAA
*
7356889 TAAATCA-TCAA
1 TAAATTAGT-AA
* *
7356900 TAACTTAGTAG
1 TAAATTAGTAA
* *
7356911 TAAATCATTAA
1 TAAATTAGTAA
* *
7356922 TAATTTAATAA
1 TAAATTAGTAA
* *
7356933 TAAATTACTGA
1 TAAATTAGTAA
7356944 TAACA-TAGTAA
1 TAA-ATTAGTAA
7356955 TAAATTAGTAA
1 TAAATTAGTAA
7356966 TAA
1 TAA
7356969 CTTAATTATC
Statistics
Matches: 83, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
10 5 0.06
11 73 0.88
12 5 0.06
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (11 bp):
TAAATTAGTAA
Found at i:7356893 original size:66 final size:66
Alignment explanation
Indices: 7356823--7356972 Score: 173
Period size: 66 Copynumber: 2.3 Consensus size: 66
7356813 AATTTTATAG
* * * *
7356823 TAAATCATCGATAACTTCA-TAGTAAATTAGTT-ATAACTTT-ATAATAAATTATTAATAACTTA
1 TAAATCATCAATAACTT-AGTAGTAAATCA-TTAATAA-TTTAATAATAAATTACTAATAACATA
*
7356885 GTAC
63 GTAA
*
7356889 TAAATCATCAATAACTTAGTAGTAAATCATTAATAATTTAATAATAAATTACTGATAACATAGTA
1 TAAATCATCAATAACTTAGTAGTAAATCATTAATAATTTAATAATAAATTACTAATAACATAGTA
7356954 A
66 A
*
7356955 TAAATTAGT-AATAACTTA
1 TAAATCA-TCAATAACTTA
7356973 ATTATCAATC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
65 6 0.08
66 66 0.90
67 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (66 bp):
TAAATCATCAATAACTTAGTAGTAAATCATTAATAATTTAATAATAAATTACTAATAACATAGTA
A
Found at i:7356923 original size:22 final size:22
Alignment explanation
Indices: 7356750--7356972 Score: 107
Period size: 22 Copynumber: 10.1 Consensus size: 22
7356740 ATCACTGAAT
*
7356750 TTAGTAGTAAATCACTAATAA-
1 TTAGTAGTAAATCATTAATAAC
* * *
7356771 TGTAGAAATAAGTCACTT-ATAAC
1 T-TAGTAGTAAATCA-TTAATAAC
* * * * * *
7356794 TTAATTGTATATCAATGATAATT
1 TTAGTAGTAAATCATTAATAA-C
**
7356817 TTA-TAGTAAATCATCGATAAC
1 TTAGTAGTAAATCATTAATAAC
*
7356838 TTCA-TAGTAAATTAGTT-ATAAC
1 TT-AGTAGTAAATCA-TTAATAAC
* *
7356860 TTTA-TAATAAATTATTAATAAC
1 -TTAGTAGTAAATCATTAATAAC
* *
7356882 TTAGTACTAAATCATCAATAAC
1 TTAGTAGTAAATCATTAATAAC
*
7356904 TTAGTAGTAAATCATTAATAAT
1 TTAGTAGTAAATCATTAATAAC
* * * * *
7356926 TTAATAATAAATTACTGATAAC
1 TTAGTAGTAAATCATTAATAAC
* * * *
7356948 ATAGTAATAAATTAGTAATAAC
1 TTAGTAGTAAATCATTAATAAC
7356970 TTA
1 TTA
7356973 ATTATCAATC
Statistics
Matches: 155, Mismatches: 37, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
21 9 0.06
22 138 0.89
23 8 0.05
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (22 bp):
TTAGTAGTAAATCATTAATAAC
Found at i:7356974 original size:44 final size:43
Alignment explanation
Indices: 7356833--7356974 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 43
7356823 TAAATCATCG
* * *
7356833 ATAACTTCATAGTAAATTAGTTATAACTTTA-TAATAAATTATTA
1 ATAACTTAATAATAAATTA-TAATAAC-TTAGTAATAAATTATTA
* * * * *
7356877 ATAACTTAGTACTAAATCATCAATAACTTAGTAGTAAATCATTA
1 ATAACTTAATAATAAATTAT-AATAACTTAGTAATAAATTATTA
* * * *
7356921 ATAATTTAATAATAAATTACTGATAACATAGTAATAAATTAGTA
1 ATAACTTAATAATAAATTA-TAATAACTTAGTAATAAATTATTA
7356965 ATAACTTAAT
1 ATAACTTAAT
7356975 TATCAATCGA
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
43 4 0.05
44 73 0.94
45 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (43 bp):
ATAACTTAATAATAAATTATAATAACTTAGTAATAAATTATTA
Found at i:7357262 original size:22 final size:22
Alignment explanation
Indices: 7357197--7357262 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
7357187 TCAGTTTTAG
* *
7357197 CTTAATAATAAAGTTTG-GATAA
1 CTTAATAATAAA-TTAGTGATAT
* * *
7357219 CTTAATAGTAAATTATTCATAT
1 CTTAATAATAAATTAGTGATAT
*
7357241 TTTAATAATAAATTAGTGATAT
1 CTTAATAATAAATTAGTGATAT
7357263 AACTTAGCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
CTTAATAATAAATTAGTGATAT
Found at i:7368345 original size:3 final size:3
Alignment explanation
Indices: 7368339--7368369 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7368329 CACCAATTAA
*
7368339 AGC AGC AGC AGC AGC AGC AGC AGC AGA AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC A
7368370 TCAAGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.29, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:7371261 original size:10 final size:10
Alignment explanation
Indices: 7371228--7371273 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
7371218 GTTTCTATTT
*
7371228 AAAA-AAAAA
1 AAAACAAAAC
7371237 AAAAC-AAAC
1 AAAACAAAAC
7371246 -AAACAAAAC
1 AAAACAAAAC
*
7371255 AAAACAAAAT
1 AAAACAAAAC
7371265 AAAACAAAA
1 AAAACAAAA
7371274 TTGCAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 4 0.12
9 11 0.34
10 17 0.53
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAACAAAAC
Found at i:7372568 original size:12 final size:12
Alignment explanation
Indices: 7372535--7372568 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7372525 ATAAGGAGGT
7372535 GAGGAAGATGAA
1 GAGGAAGATGAA
*
7372547 GATGAAGATGAA
1 GAGGAAGATGAA
*
7372559 GAGGATGATG
1 GAGGAAGATG
7372569 TTGATGACGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (12 bp):
GAGGAAGATGAA
Found at i:7381248 original size:84 final size:84
Alignment explanation
Indices: 7381107--7381276 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 84
7381097 GCATAACAAC
7381107 AACATTGAATGGCTAAATTACTATTATCCTCATCAAGCTTGATTTATGTAACAGTTACTTAGAGA
1 AACATTGAATGGCTAAATTACTATTATCCTCATCAAGCTTGATTTATGTAACAGTTACTTAGAGA
7381172 TAACGAATCATCATATAAA
66 TAACGAATCATCATATAAA
*
7381191 AACATTGAATGGCTAAATTCCTATTATCCTCATCAAGCTTGATTTATGTAACAGTTACTTAGAGA
1 AACATTGAATGGCTAAATTACTATTATCCTCATCAAGCTTGATTTATGTAACAGTTACTTAGAGA
7381256 TAACGAATCATCATATAAA
66 TAACGAATCATCATATAAA
7381275 AA
1 AA
7381277 GTAAAGTCGA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (84 bp):
AACATTGAATGGCTAAATTACTATTATCCTCATCAAGCTTGATTTATGTAACAGTTACTTAGAGA
TAACGAATCATCATATAAA
Found at i:7395395 original size:10 final size:9
Alignment explanation
Indices: 7395356--7395405 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
7395346 AATAACACGG
*
7395356 TTTAAAAAT
1 TTTAAAAAA
7395365 TTTAAAAAA
1 TTTAAAAAA
7395374 TTATAAATAAA
1 TT-TAAA-AAA
7395385 TTTAATAAAA
1 TTTAA-AAAA
7395395 --TAAAAAA
1 TTTAAAAAA
7395402 TTTA
1 TTTA
7395406 TATTTTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
7 4 0.11
8 3 0.09
9 12 0.34
10 10 0.29
11 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:7395472 original size:18 final size:18
Alignment explanation
Indices: 7395426--7395474 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7395416 ATTCATATCG
*
7395426 ATATAAATTATAATATATA
1 ATATAAA-TATAAAATATA
* **
7395445 ATTTTTATATAAAATATA
1 ATATAAATATAAAATATA
7395463 ATATAAATATAA
1 ATATAAATATAA
7395475 TATTTTACAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAAATATAAAATATA
Found at i:7395495 original size:31 final size:30
Alignment explanation
Indices: 7395425--7395501 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
7395415 TATTCATATC
* *
7395425 GATATAA-ATTATAATATATAATTTTTATAT
1 GATATAATAATATAA-ATATAATTTTTACAT
* *
7395455 AAAAT-ATAATATAAATATAATATTTTACAT
1 GATATAATAATATAAATATAAT-TTTTACAT
*
7395485 GATATAATAATACAAAT
1 GATATAATAATATAAAT
7395502 TATTAGATCT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
29 8 0.22
30 19 0.51
31 10 0.27
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
GATATAATAATATAAATATAATTTTTACAT
Found at i:7409107 original size:28 final size:27
Alignment explanation
Indices: 7409050--7409106 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7409040 AATAACGTGA
*
7409050 TTTATTGATAAAATGTTAAAATTTAAT
1 TTTATTGATAAAATGTTAAAATTGAAT
7409077 TTTATTGATTAAAAT-TT-AAATATGAAT
1 TTTATTGA-TAAAATGTTAAAAT-TGAAT
7409104 TTT
1 TTT
7409107 TTTCAGTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 17 0.63
28 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (27 bp):
TTTATTGATAAAATGTTAAAATTGAAT
Found at i:7410264 original size:27 final size:27
Alignment explanation
Indices: 7410242--7410295 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
7410232 AATTAATTTA
*
7410242 AAATTTAATACCTT-ATAAATTAAATAT
1 AAATCTAATA-CTTCATAAATTAAATAT
7410269 AAATCTAATACTTCATAAATTAAATAT
1 AAATCTAATACTTCATAAATTAAATAT
7410296 GAGTATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (27 bp):
AAATCTAATACTTCATAAATTAAATAT
Found at i:7417474 original size:20 final size:20
Alignment explanation
Indices: 7417449--7417490 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7417439 AAAAAACTTC
7417449 AAAGTTCACAT-TTTTATATA
1 AAAGTTCACATCTTTTAT-TA
*
7417469 AAAGTTTACATCTTTTATTA
1 AAAGTTCACATCTTTTATTA
7417489 AA
1 AA
7417491 TGATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAGTTCACATCTTTTATTA
Found at i:7419026 original size:7 final size:7
Alignment explanation
Indices: 7419009--7419045 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
7418999 ATTACATGAT
7419009 ACACTCTG
1 ACACTC-G
7419017 ACACTCG
1 ACACTCG
7419024 ACACTCG
1 ACACTCG
7419031 ACACTCG
1 ACACTCG
*
7419038 ATACTCG
1 ACACTCG
7419045 A
1 A
7419046 ATGACACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.30, C:0.38, G:0.14, T:0.19
Consensus pattern (7 bp):
ACACTCG
Found at i:7424141 original size:2 final size:2
Alignment explanation
Indices: 7424134--7424165 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7424124 GCATGTCATT
7424134 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7424166 TGAATATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7426198 original size:20 final size:20
Alignment explanation
Indices: 7426173--7426212 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7426163 CTTGAGCAGC
*
7426173 TATAACTTGTCATATTTACA
1 TATAACTTGTCATACTTACA
7426193 TATAACTTGTCATACTTACA
1 TATAACTTGTCATACTTACA
7426213 AAGTTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (20 bp):
TATAACTTGTCATACTTACA
Found at i:7435398 original size:35 final size:34
Alignment explanation
Indices: 7435352--7435423 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 34
7435342 GTGAACCTCT
* *
7435352 TGTACACTGAAATGAATTGTTTATTTATGAAGTTA
1 TGTACACTGAAATGAACTGTTTA-TTATGAAGTCA
7435387 TGTACACTGAAATGAACTGTTTATTATGAAGTCA
1 TGTACACTGAAATGAACTGTTTATTATGAAGTCA
7435421 TGT
1 TGT
7435424 TCTCAGAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 13 0.37
35 22 0.63
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (34 bp):
TGTACACTGAAATGAACTGTTTATTATGAAGTCA
Found at i:7436921 original size:10 final size:10
Alignment explanation
Indices: 7436906--7436931 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7436896 CATGAATGAA
7436906 AAAAAAAAAT
1 AAAAAAAAAT
7436916 AAAAAAAAAT
1 AAAAAAAAAT
7436926 AAAAAA
1 AAAAAA
7436932 GAAGGAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:7437269 original size:176 final size:176
Alignment explanation
Indices: 7437043--7437387 Score: 437
Period size: 176 Copynumber: 2.0 Consensus size: 176
7437033 GATCCATCGG
* * * *
7437043 CATCGGTACGATGGGTGATTTATTGGAAAGTGAAATATTTCAATTTGGATTCATAAAAAAA-TAT
1 CATCGGTACGATGGGTGATTGATTGGAAAGTAAAATACTTCAACTTGGATTCATAAAAAAATTAT
* ** * * * *
7437107 GCTTTTATTTTTGCATGTCACGGAAACTCAAAAAATTTAATGGTGG-TTTTTTTAACTGGTTTTT
66 GCCTTTATTTTTGCATGTCACCAAAACTCAAAAAATCTAATGATGGTTTTTTTTAACTGATTTAT
* * *
7437171 GGTAAGTTTTTTTTTTGTTTTTAAATTTTTAGG-TTTTGTTTGTTCTGA
131 GATAAG--TTTCTTTGGTTTTTAAATTTTT-GGATTTTGTTTGTTCTGA
* * *
7437219 CATCGGTACGGTGGGTGATTGATT-GAAATGTAAAATGCTTCAGCTTGGATTCATAAAAAAATTA
1 CATCGGTACGATGGGTGATTGATTGGAAA-GTAAAATACTTCAACTTGGATTCATAAAAAAATTA
* * * *
7437283 TGCCTTTATTTTTGCATGTCACCAAAACTTAAAAGATCTAATGATGGTTTTTTTTTATTGATTTA
65 TGCCTTTATTTTTGCATGTCACCAAAACTCAAAAAATCTAATGATGGTTTTTTTTAACTGATTTA
7437348 TGATAAGTTTCTTTGGTTTTTAAATTTTTGGATTTTGTTT
130 TGATAAGTTTCTTTGGTTTTTAAATTTTTGGATTTTGTTT
7437388 TTTTTCTTGA
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
175 6 0.04
176 77 0.53
177 42 0.29
178 19 0.13
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.46
Consensus pattern (176 bp):
CATCGGTACGATGGGTGATTGATTGGAAAGTAAAATACTTCAACTTGGATTCATAAAAAAATTAT
GCCTTTATTTTTGCATGTCACCAAAACTCAAAAAATCTAATGATGGTTTTTTTTAACTGATTTAT
GATAAGTTTCTTTGGTTTTTAAATTTTTGGATTTTGTTTGTTCTGA
Found at i:7442807 original size:41 final size:41
Alignment explanation
Indices: 7442757--7442839 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
7442747 TTTTGTTTTC
* *
7442757 TAAGATTGCTACAAGTATCATTATGGTGGTTGTTCAAATAA
1 TAAGATTGCTACAAGTATCATTACGGCGGTTGTTCAAATAA
7442798 TAAGATTGCTACAAGTATCATTACGGCGGTTGTTCAAATAA
1 TAAGATTGCTACAAGTATCATTACGGCGGTTGTTCAAATAA
7442839 T
1 T
7442840 CCTACTTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (41 bp):
TAAGATTGCTACAAGTATCATTACGGCGGTTGTTCAAATAA
Found at i:7446535 original size:125 final size:125
Alignment explanation
Indices: 7446385--7446670 Score: 291
Period size: 125 Copynumber: 2.3 Consensus size: 125
7446375 TTCAAAAAAG
* * * * ** * *
7446385 TTAAAGGTATTATTTAAGATTTTTTTTTATGAAAAACATCTT-AAATAATCAT-TTTTTAAAAAA
1 TTAAAGATATTATTTAAGGTATTTTTTGACCAAAAACACCTTAAAATAATC-TCCTTTT--AAAA
**
7446448 TATTAGAGATTATTTAAGGCGTTTGTGG-T-AAAAAATGCTTTAAATAATACCTTTCA-ATTTT
63 TATTAGAGATTATTTAAGGCGTTTGTGGATAAAAAAAAACTTTAAATAATACC-TTCATATTTT
*
7446509 TTGAAAGATATTATTTAAGGTA-TTTTTGACCAAAAATACCTTAAAATAATCTCCTTTTAAAATA
1 TT-AAAGATATTATTTAAGGTATTTTTTGACCAAAAACACCTTAAAATAATCTCCTTTTAAAATA
** * *
7446573 TTAGAGATTATTTAAGGTTTTTTTGGATAAAAAAAAACTTTAAATAATTCCTTCATATTTT
65 TTAGAGATTATTTAAGGCGTTTGTGGATAAAAAAAAACTTTAAATAATACCTTCATATTTT
* *
7446634 TTAAATGGCAT-TTATTTAAGGCATTTTTAGA-CAAAAA
1 TTAAA--G-ATATTATTTAAGGTATTTTTTGACCAAAAA
7446671 TTACCATAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
123 29 0.21
124 26 0.19
125 54 0.40
126 18 0.13
127 8 0.06
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (125 bp):
TTAAAGATATTATTTAAGGTATTTTTTGACCAAAAACACCTTAAAATAATCTCCTTTTAAAATAT
TAGAGATTATTTAAGGCGTTTGTGGATAAAAAAAAACTTTAAATAATACCTTCATATTTT
Found at i:7446683 original size:126 final size:123
Alignment explanation
Indices: 7446444--7446684 Score: 303
Period size: 126 Copynumber: 1.9 Consensus size: 123
7446434 CATTTTTTAA
**
7446444 AAAATATTAGAGATTATTTAAGGCGTTTGTGGTAAAAAATGCTTTAAATAATACCTTTCAATTTT
1 AAAATATTAGAGATTATTTAAGGCGTTTGTGGTAAAAAAAACTTTAAATAATACCTTTCAATTTT
* *
7446509 TTGAAAGATATTATTTAAGGTATTTTTGACCAAAAATACCTTAAAATAATCTCCTTTT
66 TTGAAAGATATTATTTAAGGCATTTTTGACCAAAAATACCATAAAATAATCTCCTTTT
** * *
7446567 AAAATATTAGAGATTATTTAAGGTTTTTTTGGATAAAAAAAAACTTTAAATAATTCC-TTCATAT
1 AAAATATTAGAGATTATTTAAGGCGTTTGTGG-T-AAAAAAAACTTTAAATAATACCTTTCA-AT
7446631 TTTTT-AAATGGCAT-TTATTTAAGGCATTTTTAGA-CAAAAATTACCAT-AAATAAT
63 TTTTTGAAA--G-ATATTATTTAAGGCATTTTT-GACCAAAAA-TACCATAAAATAAT
7446685 TCATTTAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
123 29 0.28
124 8 0.08
125 26 0.25
126 30 0.29
127 9 0.09
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (123 bp):
AAAATATTAGAGATTATTTAAGGCGTTTGTGGTAAAAAAAACTTTAAATAATACCTTTCAATTTT
TTGAAAGATATTATTTAAGGCATTTTTGACCAAAAATACCATAAAATAATCTCCTTTT
Found at i:7449915 original size:5 final size:5
Alignment explanation
Indices: 7449905--7449932 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7449895 TTTTATGAAA
7449905 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
7449933 TTCCCCAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7452494 original size:33 final size:36
Alignment explanation
Indices: 7452457--7452522 Score: 84
Period size: 33 Copynumber: 1.9 Consensus size: 36
7452447 TATATCTATT
7452457 AAATATCTACAAGA-ATGAA-AT-ATGATAGATTTA
1 AAATATCTACAAGATATGAATATGATGATAGATTTA
* **
7452490 AAATATTTATTAGATATGAATATGATGATAGAT
1 AAATATCTACAAGATATGAATATGATGATAGAT
7452523 ATAACATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.41
34 5 0.19
35 2 0.07
36 9 0.33
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (36 bp):
AAATATCTACAAGATATGAATATGATGATAGATTTA
Found at i:7453821 original size:20 final size:20
Alignment explanation
Indices: 7453784--7453823 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7453774 AATTTTTTAT
*
7453784 TAAAAATAATTAAATAAAAA
1 TAAAAATAATAAAATAAAAA
*
7453804 TAAAAATAA-AAAATTAAAA
1 TAAAAATAATAAAATAAAAA
7453823 T
1 T
7453824 TGATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAAAATAATAAAATAAAAA
Found at i:7453993 original size:12 final size:12
Alignment explanation
Indices: 7453976--7454000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7453966 TTAAATTATA
7453976 AATAATTTTTTT
1 AATAATTTTTTT
7453988 AATAATTTTTTT
1 AATAATTTTTTT
7454000 A
1 A
7454001 TATATTATTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATAATTTTTTT
Found at i:7454674 original size:13 final size:13
Alignment explanation
Indices: 7454657--7454696 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7454647 AATTATTTAA
7454657 ATATATTAAAATT
1 ATATATTAAAATT
* *
7454670 TTATATTAAAATA
1 ATATATTAAAATT
*
7454683 ATATATAAAAATT
1 ATATATTAAAATT
7454696 A
1 A
7454697 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:7454697 original size:32 final size:31
Alignment explanation
Indices: 7454624--7454699 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 31
7454614 TTTGTAAAAT
* *
7454624 AAAATTAATAATTTTATATCAAAAATTATTTA
1 AAAATTAA-AATTTTATATCAAAAAATATATA
*
7454656 AATATATTAAAATTTTATATTAAAATAATATATA
1 AA-A-ATTAAAATTTTATATCAAAA-AATATATA
7454690 AAAATTAAAA
1 AAAATTAAAA
7454700 AATTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 9 0.24
33 16 0.42
34 13 0.34
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATTAAAATTTTATATCAAAAAATATATA
Found at i:7457193 original size:34 final size:34
Alignment explanation
Indices: 7457153--7457224 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
7457143 TGAAAGTGAA
*
7457153 TGATAGAATAATTATACATTATAGTAGTGATAAT
1 TGATAGAATAATTATACATTAAAGTAGTGATAAT
*
7457187 TGATAGAATAATTATGCATTAAAGTAGTGATAAT
1 TGATAGAATAATTATACATTAAAGTAGTGATAAT
7457221 TGAT
1 TGAT
7457225 TAAGAATGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (34 bp):
TGATAGAATAATTATACATTAAAGTAGTGATAAT
Found at i:7460606 original size:36 final size:36
Alignment explanation
Indices: 7460541--7460625 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
7460531 ACATGTAAAT
7460541 AAATATTTAATTTTAATTTATACCCAAATAAATTCTT-
1 AAAT-TTTAATTTTAATTTATACCCAAAT-AATTCTTA
* * *** *
7460578 AACTTTTAATTTTAATTTGTATTTAAATAGTTCTTA
1 AAATTTTAATTTTAATTTATACCCAAATAATTCTTA
7460614 AAATTTTAATTT
1 AAATTTTAATTT
7460626 ATGCCTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 6 0.15
36 31 0.77
37 3 0.08
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (36 bp):
AAATTTTAATTTTAATTTATACCCAAATAATTCTTA
Found at i:7473903 original size:28 final size:28
Alignment explanation
Indices: 7473844--7473905 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
7473834 TTTTTCATTA
* *
7473844 AAATTTTTTTTTCAATCGTAGGTACAAT
1 AAATTTTTTTTTCAATCATAAGTACAAT
* **
7473872 -AATTTTTTTTTCAATCATAATTATGAT
1 AAATTTTTTTTTCAATCATAAGTACAAT
7473899 AAATTTT
1 AAATTTT
7473906 ATTATTGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (28 bp):
AAATTTTTTTTTCAATCATAAGTACAAT
Found at i:7475827 original size:31 final size:31
Alignment explanation
Indices: 7475756--7475828 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
7475746 GTTTTTGGAT
* *
7475756 TAAGAAGAGAACAGAGGAGAATTGGAAAGAC
1 TAAGAAAAGAACAGAGAAGAATTGGAAAGAC
* * * *
7475787 CAAGGAAAGAACAGAGAAGGATT-GAGGAGAC
1 TAAGAAAAGAACAGAGAAGAATTGGA-AAGAC
7475818 TAAGAAAAGAA
1 TAAGAAAAGAA
7475829 TAAAAAGGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.53, C:0.07, G:0.32, T:0.08
Consensus pattern (31 bp):
TAAGAAAAGAACAGAGAAGAATTGGAAAGAC
Found at i:7477528 original size:13 final size:13
Alignment explanation
Indices: 7477510--7477546 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7477500 TAATTCAATA
7477510 AAAATAAATAAAT
1 AAAATAAATAAAT
**
7477523 AAAATACTTAAAT
1 AAAATAAATAAAT
7477536 AAAATAAATAA
1 AAAATAAATAA
7477547 GAAAATACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:7478405 original size:3 final size:3
Alignment explanation
Indices: 7478335--7478384 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
7478325 AAAAGAAAAG
*
7478335 ATA A-A ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7478381 ATA A
1 ATA A
7478385 ACGAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:7484462 original size:14 final size:15
Alignment explanation
Indices: 7484399--7484465 Score: 75
Period size: 14 Copynumber: 4.5 Consensus size: 15
7484389 TTAAATTTTA
*
7484399 AATTTTAGTTTATAT
1 AATTTTAATTTATAT
*
7484414 -ATTGTAATTTATAT
1 AATTTTAATTTATAT
*
7484428 AAATTTAATTCTCATAT
1 AATTTTAATT-T-ATAT
7484445 AATTTTAATTTA-AT
1 AATTTTAATTTATAT
7484459 AATTTTA
1 AATTTTA
7484466 TACTGTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 21 0.48
15 8 0.18
16 2 0.05
17 13 0.30
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
AATTTTAATTTATAT
Found at i:7486001 original size:29 final size:29
Alignment explanation
Indices: 7485951--7486022 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
7485941 ATTTATATCT
7485951 TTAAATTATAATAAAATATTTAATATAA-AA
1 TTAAATTAT-A-AAAATATTTAATATAATAA
* *
7485981 TTTAAATTTTAAAAATTTTTAATATAATAA
1 -TTAAATTATAAAAATATTTAATATAATAA
7486011 TTAAATTATAAA
1 TTAAATTATAAA
7486023 TTTATTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 26 0.70
30 3 0.08
31 8 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTAATATAATAA
Found at i:7486023 original size:27 final size:29
Alignment explanation
Indices: 7485963--7486036 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
7485953 AAATTATAAT
*
7485963 AAAATATTTAATATAA-AATTTAAATTTTA
1 AAAATTTTTAATATAATAATTTAAA-TTTA
7485992 AAAATTTTTAATATAATAA-TTAAA-TTA
1 AAAATTTTTAATATAATAATTTAAATTTA
*
7486019 TAAATTTATTAAT-TAATA
1 AAAATTT-TTAATATAATA
7486037 TAATACTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 14 0.34
28 5 0.12
29 20 0.49
30 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAATTTTTAATATAATAATTTAAATTTA
Found at i:7486411 original size:28 final size:28
Alignment explanation
Indices: 7486369--7486426 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
7486359 AATTAACATA
* *
7486369 TTTATAATTTAAATATTATAATAAATAT
1 TTTAAAATTTAAATATCATAATAAATAT
* **
7486397 TTTAAAATTTGAATATCATTTTAAATAT
1 TTTAAAATTTAAATATCATAATAAATAT
7486425 TT
1 TT
7486427 AACTATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
TTTAAAATTTAAATATCATAATAAATAT
Found at i:7486437 original size:20 final size:19
Alignment explanation
Indices: 7486371--7486437 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
7486361 TTAACATATT
7486371 TATAA-TTTAAATATTATAA
1 TATAATTTTAAATATT-TAA
*
7486390 TAAATATTTTAAA-ATTTGAA
1 TATA-ATTTTAAATATTT-AA
*
7486410 TATCATTTTAAATATTTAA
1 TATAATTTTAAATATTTAA
7486429 CTATAATTT
1 -TATAATTT
7486438 AAGGATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 14 0.36
20 19 0.49
21 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (19 bp):
TATAATTTTAAATATTTAA
Found at i:7486770 original size:21 final size:21
Alignment explanation
Indices: 7486744--7486783 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7486734 AAGGTTTGGG
7486744 ACATTTTTCATAATAAATTAA
1 ACATTTTTCATAATAAATTAA
7486765 ACATTTTTCATAATAAATT
1 ACATTTTTCATAATAAATT
7486784 GTCTCAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
ACATTTTTCATAATAAATTAA
Found at i:7492686 original size:17 final size:18
Alignment explanation
Indices: 7492666--7492699 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7492656 AAAAACTTAC
*
7492666 AGAAGAAAAATT-TTAAG
1 AGAAAAAAAATTATTAAG
7492683 AGAAAAAAAATTATTAA
1 AGAAAAAAAATTATTAA
7492700 TAGGCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (18 bp):
AGAAAAAAAATTATTAAG
Done.