Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 33 of 113
Found at i:10207641 original size:22 final size:22
Alignment explanation
Indices: 10207573--10207651 Score: 56
Period size: 22 Copynumber: 3.6 Consensus size: 22
10207563 ATCATAAATA
*
10207573 ATTTAAT-ATAAAT-TAGTTATG
1 ATTTAATAATAAATCT-GTAATG
* * * *
10207594 ACTTAATAATGAATCATG-ATTA
1 ATTTAATAATAAATC-TGTAATG
10207616 ATTTAATAATAAATCTGTAATG
1 ATTTAATAATAAATCTGTAATG
* *
10207638 ATTTTATAGTAAAT
1 ATTTAATAATAAAT
10207652 AATTGAAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
21 8 0.19
22 33 0.77
23 1 0.02
24 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTAATAATAAATCTGTAATG
Found at i:10207742 original size:22 final size:22
Alignment explanation
Indices: 10207666--10207748 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
10207656 GAAAAATAAA
* * *
10207666 TAGTAAATTAATGATAATGTAG
1 TAGTAAATTAGTAATAATTTAG
* * * *
10207688 TTGTAAATCACTAATAACTTAG
1 TAGTAAATTAGTAATAATTTAG
*
10207710 TTGTAAATTAGTAATAATTTAG
1 TAGTAAATTAGTAATAATTTAG
10207732 TAGTAAATTAGTTAATA
1 TAGTAAATTAG-TAATA
10207749 TTGATAACTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 45 0.90
23 5 0.10
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (22 bp):
TAGTAAATTAGTAATAATTTAG
Found at i:10207834 original size:22 final size:22
Alignment explanation
Indices: 10207801--10207858 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
10207791 GAATTATAAT
* **
10207801 TTTA-TAACAAATCATCAGTAA
1 TTTAGTAATAAATCATCAACAA
*
10207822 TTTAGTAATAAATCATCAACGA
1 TTTAGTAATAAATCATCAACAA
*
10207844 TTTAGTATTAAATCA
1 TTTAGTAATAAATCA
10207859 GTTATAACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (22 bp):
TTTAGTAATAAATCATCAACAA
Found at i:10207945 original size:22 final size:22
Alignment explanation
Indices: 10207819--10207980 Score: 83
Period size: 22 Copynumber: 7.1 Consensus size: 22
10207809 AAATCATCAG
* **
10207819 TAATTTAGTAATAAATCATCAA
1 TAATTTAGTAGTAAATCATTGA
** *
10207841 CGATTTAGTATTAAATCAGTT-A
1 TAATTTAGTAGTAAATCA-TTGA
* * * *
10207863 TAACTTAGTGGTAAATTATTTA
1 TAATTTAGTAGTAAATCATTGA
* * * *
10207885 TAAATTAAGTAATAAATCAATGC
1 T-AATTTAGTAGTAAATCATTGA
10207908 TAATTTCGTATGTAGTAAATCATTGA
1 TAA-TT--TA-GTAGTAAATCATTGA
*
10207934 TAATTTAGTAGTAAATTATTGA
1 TAATTTAGTAGTAAATCATTGA
* ** * *
10207956 CAGCTTACTAGTAAATCATTAA
1 TAATTTAGTAGTAAATCATTGA
10207978 TAA
1 TAA
10207981 CATAATAGCA
Statistics
Matches: 102, Mismatches: 31, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
21 2 0.02
22 63 0.62
23 19 0.19
25 3 0.03
26 15 0.15
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (22 bp):
TAATTTAGTAGTAAATCATTGA
Found at i:10208440 original size:21 final size:21
Alignment explanation
Indices: 10208344--10208453 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
10208334 GATTGCTAAC
*
10208344 ATTTTATCAAAAATTA-CTAA
1 ATTTTATCAAAAATTATCAAA
* ***
10208364 ATTTATGTCAATGGTTATCAAA
1 ATTT-TATCAAAAATTATCAAA
* * * * *
10208386 ATTATATTATAAGTTATTAAA
1 ATTTTATCAAAAATTATCAAA
* **
10208407 ATTGTATGGAAAATTATCAAA
1 ATTTTATCAAAAATTATCAAA
*
10208428 ATTTTATCAAAAACTATC-AA
1 ATTTTATCAAAAATTATCAAA
10208448 ATTTTA
1 ATTTTA
10208454 CTTATATTAT
Statistics
Matches: 66, Mismatches: 22, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 12 0.18
21 48 0.73
22 6 0.09
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.41
Consensus pattern (21 bp):
ATTTTATCAAAAATTATCAAA
Found at i:10212930 original size:21 final size:21
Alignment explanation
Indices: 10212906--10213035 Score: 93
Period size: 21 Copynumber: 6.1 Consensus size: 21
10212896 TTAATTTCAA
*
10212906 TAACCTTTGATAAAATTTTGG
1 TAACCTTTGATATAATTTTGG
* * * *
10212927 TAACATTTGATATTAGTTTAG
1 TAACCTTTGATATAATTTTGG
*
10212948 TAA--TTAATGATGTAATTTTGG
1 TAACCTT--TGATATAATTTTGG
* * *
10212969 TAACCATTAATATAATTTTGA
1 TAACCTTTGATATAATTTTGG
*** * *
10212990 TAGTTTTTGATAAAATTTTAG
1 TAACCTTTGATATAATTTTGG
10213011 TAACCTCTTGATATAATTTTGG
1 TAACCT-TTGATATAATTTTGG
10213033 TAA
1 TAA
10213036 TATTTTGATA
Statistics
Matches: 78, Mismatches: 26, Indels: 9
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.03
21 59 0.76
22 16 0.21
23 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (21 bp):
TAACCTTTGATATAATTTTGG
Found at i:10213357 original size:22 final size:22
Alignment explanation
Indices: 10213332--10213373 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10213322 GACAATTAAA
*
10213332 TTATCATTGATTTAGTACTATT
1 TTATCATTGATTTACTACTATT
10213354 TTATCATTGATTTACTACTA
1 TTATCATTGATTTACTACTA
10213374 AATTGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (22 bp):
TTATCATTGATTTACTACTATT
Found at i:10213443 original size:22 final size:22
Alignment explanation
Indices: 10213418--10213553 Score: 82
Period size: 22 Copynumber: 6.2 Consensus size: 22
10213408 TACTGCTAAT
*
10213418 TTATGAATGATTTACTATTAAG
1 TTATGAATGATTTATTATTAAG
* * * * *
10213440 TTATAAATAATTTATAAATAAA
1 TTATGAATGATTTATTATTAAG
* * * *
10213462 TTATTAATGCTTTACTA-CAATG
1 TTATGAATGATTTATTATTAA-G
*
10213484 TTACTG-ATGATTTATTATAAAG
1 TTA-TGAATGATTTATTATTAAG
*
10213506 TTAT-AACTGATTTATTATTAAT
1 TTATGAA-TGATTTATTATTAAG
* *
10213528 TTATCG-ATAATTTATTATAAAG
1 TTAT-GAATGATTTATTATTAAG
10213550 TTAT
1 TTAT
10213554 TCATGATTAA
Statistics
Matches: 85, Mismatches: 22, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
21 4 0.05
22 77 0.91
23 4 0.05
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATGAATGATTTATTATTAAG
Found at i:10213561 original size:44 final size:44
Alignment explanation
Indices: 10213418--10213561 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 44
10213408 TACTGCTAAT
* * ** *
10213418 TTATGAATGATTTACTATTAAGTTATAAATAATTTATAAATAAA-
1 TTATTAATGATTTACTATTAATTTATCGATAATTTAT-TATAAAG
* * *
10213462 TTATTAATGCTTTACTA-CAATGTTA-CTGATGATTTATTATAAAG
1 TTATTAATGATTTACTATTAAT-TTATC-GATAATTTATTATAAAG
*
10213506 TTA-TAACTGATTTATTATTAATTTATCGATAATTTATTATAAAG
1 TTATTAA-TGATTTACTATTAATTTATCGATAATTTATTATAAAG
*
10213550 TTATTCATGATT
1 TTATTAATGATT
10213562 AATTAATTTA
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
43 10 0.12
44 64 0.80
45 6 0.08
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (44 bp):
TTATTAATGATTTACTATTAATTTATCGATAATTTATTATAAAG
Found at i:10213566 original size:22 final size:21
Alignment explanation
Indices: 10213490--10213566 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 21
10213480 AATGTTACTG
*
10213490 ATGATTTATTATAAAGTTATA
1 ATGATTTATTATAAAGTTATC
* *
10213511 ACTGATTTATTATTAATTTATC
1 A-TGATTTATTATAAAGTTATC
*
10213533 GATAATTTATTATAAAGTTATTC
1 -ATGATTTATTATAAAGTTA-TC
*
10213556 ATGATTAATTA
1 ATGATTTATTA
10213567 ATTTACTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
21 1 0.02
22 41 0.91
23 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (21 bp):
ATGATTTATTATAAAGTTATC
Found at i:10213569 original size:30 final size:30
Alignment explanation
Indices: 10213535--10213591 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10213525 AATTTATCGA
* *
10213535 TAATTTATTATAAAGTTATTCA-TGATTAAT
1 TAATTTACTATAAAATTA-TCACTGATTAAT
10213565 TAATTTACTATAAAATTATCACTGATT
1 TAATTTACTATAAAATTATCACTGATT
10213592 TATAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (30 bp):
TAATTTACTATAAAATTATCACTGATTAAT
Found at i:10213681 original size:22 final size:21
Alignment explanation
Indices: 10213577--10213681 Score: 86
Period size: 22 Copynumber: 4.9 Consensus size: 21
10213567 ATTTACTATA
*
10213577 AAATTATCACTGATTTATAATT
1 AAATTATCACTGATTTAT-ACT
* *
10213599 AAATTAAT-ACTGATTTACAAT
1 AAATT-ATCACTGATTTATACT
* *
10213620 AAATTATTACTAATTTACTACT
1 AAATTATCACTGATTTA-TACT
* * *
10213642 AAGTTATCAATAATTTATATCT
1 AAATTATCACTGATTTATA-CT
*
10213664 AAATTATCAATGATTTAT
1 AAATTATCACTGATTTAT
10213682 TATTATGTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
20 2 0.03
21 17 0.25
22 48 0.70
23 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (21 bp):
AAATTATCACTGATTTATACT
Found at i:10213692 original size:22 final size:22
Alignment explanation
Indices: 10213644--10213716 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
10213634 TTACTACTAA
* *
10213644 GTTATCAATAATTTA-TATCTAA
1 GTTATCAATGATTTATTAT-TAT
*
10213666 ATTATCAATGATTTATTATTAT
1 GTTATCAATGATTTATTATTAT
* * *
10213688 GTTAT-TAGGCATTTATTACTAT
1 GTTATCAATG-ATTTATTATTAT
10213710 GTTATCA
1 GTTATCA
10213717 TTGCTTTACT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.88
23 3 0.08
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (22 bp):
GTTATCAATGATTTATTATTAT
Found at i:10213724 original size:22 final size:21
Alignment explanation
Indices: 10213667--10213724 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
10213657 TATATCTAAA
* *
10213667 TTATCAATGATTTATTATTATG
1 TTATC-ATGCTTTATTACTATG
* *
10213689 TTATTAGGCATTTATTACTATG
1 TTATCATGC-TTTATTACTATG
10213711 TTATCATTGCTTTA
1 TTATCA-TGCTTTA
10213725 CTGCTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (21 bp):
TTATCATGCTTTATTACTATG
Found at i:10213829 original size:22 final size:22
Alignment explanation
Indices: 10213804--10213845 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10213794 CCAGGTAATT
10213804 ATGAATT-TATATTAAATTATCC
1 ATGAATTAT-TATTAAATTATCC
10213826 ATGAATTATTATTAAATTAT
1 ATGAATTATTATTAAATTAT
10213846 TAGTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (22 bp):
ATGAATTATTATTAAATTATCC
Found at i:10213909 original size:46 final size:46
Alignment explanation
Indices: 10213849--10213970 Score: 117
Period size: 44 Copynumber: 2.7 Consensus size: 46
10213839 AAATTATTAG
* *
10213849 TAATTAACTATTAAGTTATCGATAATTTACTACTACTAAATCAT-TT
1 TAATTTACTATTAAGTTATC-ATAATTTACTACTACTAAATCATCAT
* * * *
10213895 TAATTTACTTTTAAGTTTTTAATAA-TTA--ACTACTAAATTATCAT
1 TAATTTACTATTAAG-TTATCATAATTTACTACTACTAAATCATCAT
* *
10213939 TGATTTACTATTAAGTTATTCATGATTTACTA
1 TAATTTACTATTAAGTTA-TCATAATTTACTA
10213971 TAAAGGTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
43 14 0.24
44 18 0.31
45 6 0.10
46 17 0.29
47 4 0.07
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.48
Consensus pattern (46 bp):
TAATTTACTATTAAGTTATCATAATTTACTACTACTAAATCATCAT
Found at i:10213957 original size:22 final size:22
Alignment explanation
Indices: 10213923--10214099 Score: 109
Period size: 22 Copynumber: 8.1 Consensus size: 22
10213913 TTAATAATTA
* *
10213923 ACTACTAAATTATCATTGATTT
1 ACTATTAAGTTATCATTGATTT
10213945 ACTATTAAGTTATTCA-TGATTT
1 ACTATTAAGTTA-TCATTGATTT
* *
10213967 ACTATAAAGGTTATCGATT-AATT
1 ACTATTAA-GTTATC-ATTGATTT
* * *
10213990 ACTATAAAATTGA-AATTGATTT
1 ACTATTAAGTT-ATCATTGATTT
* * *
10214012 ACTATTAAGTTATTACTAATTT
1 ACTATTAAGTTATCATTGATTT
* *
10214034 ACTATTGAA-CTATCATTAATTT
1 ACTATT-AAGTTATCATTGATTT
*
10214056 --TATTAAGTTATCACTTGTTTT
1 ACTATTAAGTTATCA-TTGATTT
*
10214077 TC-ATTAA-TCTATCATTGATTT
1 ACTATTAAGT-TATCATTGATTT
10214098 AC
1 AC
10214100 GAATATGTTG
Statistics
Matches: 122, Mismatches: 20, Indels: 27
0.72 0.12 0.16
Matches are distributed among these distances:
19 2 0.02
20 9 0.07
21 17 0.14
22 71 0.58
23 22 0.18
24 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (22 bp):
ACTATTAAGTTATCATTGATTT
Found at i:10214355 original size:22 final size:22
Alignment explanation
Indices: 10214330--10214399 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
10214320 ATAAAAAAAC
*
10214330 TTATCAATGA-TTGATAATTAAG
1 TTATCAATGATTTGAT-ACTAAG
* *
10214352 TTATCAGTGATTTGCTACTAAG
1 TTATCAATGATTTGATACTAAG
* *
10214374 TTATCAATAATTT-ATTACTAAA
1 TTATCAATGATTTGA-TACTAAG
10214396 TTAT
1 TTAT
10214400 TAATAGTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (22 bp):
TTATCAATGATTTGATACTAAG
Found at i:10214404 original size:22 final size:22
Alignment explanation
Indices: 10214361--10214575 Score: 114
Period size: 22 Copynumber: 9.8 Consensus size: 22
10214351 GTTATCAGTG
* * *
10214361 ATTTGCTACTAAGTTATCAATA
1 ATTTACTACTAAATTATTAATA
*
10214383 ATTTATTACTAAATTATTAATA
1 ATTTACTACTAAATTATTAATA
*
10214405 GTTTACTACTAAATTATTAATA
1 ATTTACTACTAAATTATTAATA
* ** * **
10214427 ATTTGCTGTTAAGTTAGAAATA
1 ATTTACTACTAAATTATTAATA
* *
10214449 ATTTACTATTAAATTATTAATG
1 ATTTACTACTAAATTATTAATA
* * * ** *
10214471 ATTT-CTATTAGATTGTTGTTG
1 ATTTACTACTAAATTATTAATA
* *
10214492 ATTTACCACTAAATTATTGATGA
1 ATTTACTACTAAATTATTAAT-A
* **
10214515 TTTTTTTTA-TAAATT-TATAACTA
1 -ATTTACTACTAAATTAT-TAA-TA
* * *
10214538 ATTTACTACTAATTTATCAATG
1 ATTTACTACTAAATTATTAATA
*
10214560 ATTTACTA-TAAGTTAT
1 ATTTACTACTAAATTAT
10214576 AAATGGTTAA
Statistics
Matches: 145, Mismatches: 41, Indels: 15
0.72 0.20 0.07
Matches are distributed among these distances:
21 24 0.17
22 99 0.68
23 16 0.11
24 6 0.04
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAATA
Found at i:10214952 original size:22 final size:22
Alignment explanation
Indices: 10214886--10215074 Score: 83
Period size: 22 Copynumber: 8.9 Consensus size: 22
10214876 GGTTTGTGAC
* *
10214886 TAAATTAT-ACTTATTTATTTT
1 TAAATTATCAATTATTTATTAT
* * * **
10214907 TAAATTTTCAATGATTAACGAT
1 TAAATTATCAATTATTTATTAT
10214929 TAAATTATCAATTATTTATTAT
1 TAAATTATCAATTATTTATTAT
* * *
10214951 TAAATTAT-TATTA-AT-TTAC
1 TAAATTATCAATTATTTATTAT
10214970 T-AA-TA--AATTATTTATTATT
1 TAAATTATCAATTATTTATTA-T
* * *
10214989 TACTATTATCAATTAGTTACTAT
1 TA-AATTATCAATTATTTATTAT
* * * * *
10215012 TAAGTTA-AAACTAATTTACTAA
1 TAAATTATCAA-TTATTTATTAT
* *
10215034 TAAATTATTAATAATTTATTAT
1 TAAATTATCAATTATTTATTAT
*
10215056 TAAGTTATC-ATTAATTTAT
1 TAAATTATCAATT-ATTTAT
10215075 AACTTAAGGA
Statistics
Matches: 122, Mismatches: 34, Indels: 23
0.68 0.19 0.13
Matches are distributed among these distances:
16 4 0.03
17 3 0.02
18 5 0.04
19 5 0.04
20 1 0.01
21 16 0.13
22 73 0.60
23 5 0.04
24 10 0.08
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.51
Consensus pattern (22 bp):
TAAATTATCAATTATTTATTAT
Found at i:10214977 original size:44 final size:43
Alignment explanation
Indices: 10214886--10214996 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 43
10214876 GGTTTGTGAC
* * * *
10214886 TAAATTATACTTATTTATTTTTAAATTTTCAATGATTAACGAT
1 TAAATTATAATTATTTATTATTAAATTTTCAATAATTAACGAA
* * *
10214929 TAAATTATCAATTATTTATTATTAAATTATT-ATTAATTTACTAA
1 TAAATTAT-AATTATTTATTATTAAATT-TTCAATAATTAACGAA
* *
10214973 TAAATTATTTATTATTTACTATTA
1 TAAATTA-TAATTATTTATTATTA
10214997 TCAATTAGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 8 0.14
44 45 0.80
45 3 0.05
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (43 bp):
TAAATTATAATTATTTATTATTAAATTTTCAATAATTAACGAA
Found at i:10215003 original size:61 final size:61
Alignment explanation
Indices: 10214932--10215057 Score: 171
Period size: 61 Copynumber: 2.1 Consensus size: 61
10214922 TAACGATTAA
* * ** * * *
10214932 ATTATCAATTATTTATTATTAAATTATTATTAATTTACTAATAAATTATTTATTATTTACT
1 ATTATCAATTAGTTACTATTAAATTAAAACTAATTTACTAATAAATTATTAATAATTTACT
* *
10214993 ATTATCAATTAGTTACTATTAAGTTAAAACTAATTTACTAATAAATTATTAATAATTTATT
1 ATTATCAATTAGTTACTATTAAATTAAAACTAATTTACTAATAAATTATTAATAATTTACT
10215054 ATTA
1 ATTA
10215058 AGTTATCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (61 bp):
ATTATCAATTAGTTACTATTAAATTAAAACTAATTTACTAATAAATTATTAATAATTTACT
Found at i:10215063 original size:11 final size:11
Alignment explanation
Indices: 10214942--10215074 Score: 59
Period size: 11 Copynumber: 11.5 Consensus size: 11
10214932 ATTATCAATT
10214942 ATTTATTATTA
1 ATTTATTATTA
*
10214953 AATTATTATTA
1 ATTTATTATTA
* *
10214964 ATTTACTAATA
1 ATTTATTATTA
*
10214975 AATTATTTATTA
1 ATTTA-TTATTA
* *
10214987 TTTACTATTATCA
1 ATT--TATTATTA
*
10215000 ATTAGTTACTATTA
1 A-T--TTATTATTA
* ** *
10215014 AGTTAAAACTA
1 ATTTATTATTA
* *
10215025 ATTTACTAATA
1 ATTTATTATTA
* *
10215036 AATTATTAATA
1 ATTTATTATTA
10215047 ATTTATTATTA
1 ATTTATTATTA
* *
10215058 AGTTATCATTA
1 ATTTATTATTA
10215069 ATTTAT
1 ATTTAT
10215075 AACTTAAGGA
Statistics
Matches: 88, Mismatches: 28, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
11 67 0.76
12 5 0.06
13 5 0.06
14 10 0.11
16 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:10216799 original size:23 final size:25
Alignment explanation
Indices: 10216764--10216809 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
10216754 TAATTAACGA
*
10216764 TTAAATTATTATT-T-TTGTTATCT
1 TTAAATTAGTATTATATTGTTATCT
*
10216787 TTAATTTAGTATTATATTGTTAT
1 TTAAATTAGTATTATATTGTTAT
10216810 GCATTTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 1 0.05
25 7 0.37
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (25 bp):
TTAAATTAGTATTATATTGTTATCT
Found at i:10223026 original size:2 final size:2
Alignment explanation
Indices: 10223019--10223061 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10223009 TAGATACTGA
10223019 AT AT AT AT 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 AT AT AT AT
10223061 A
1 A
10223062 CACTTTTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10225212 original size:13 final size:13
Alignment explanation
Indices: 10225196--10225265 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
10225186 TTTCTTCTTT
10225196 TTTTTTTATTTTA
1 TTTTTTTATTTTA
*
10225209 TTTTTTCT-TTGTATT
1 TTTTTT-TATT-T-TA
10225224 TTTTTTTATTTTA
1 TTTTTTTATTTTA
** *
10225237 TTTTTAGATTTTC
1 TTTTTTTATTTTA
*
10225250 TTTTATTATTATTA
1 TTTTTTTATT-TTA
10225264 TT
1 TT
10225266 GTTGTTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
13 26 0.60
14 8 0.19
15 9 0.21
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:10225223 original size:18 final size:15
Alignment explanation
Indices: 10225193--10225241 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
10225183 GTTTTTCTTC
10225193 TTTTTTTTTTATTTT
1 TTTTTTTTTTATTTT
10225208 ATTTTTTCTTTGTATTTT
1 -TTTTTT-TTT-TATTTT
*
10225226 TTTTTATTTTATTTT
1 TTTTTTTTTTATTTT
10225241 T
1 T
10225242 AGATTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.23
16 9 0.30
17 8 0.27
18 6 0.20
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTATTTT
Found at i:10225225 original size:23 final size:24
Alignment explanation
Indices: 10225185--10225262 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 24
10225175 AATCACATGT
* * *
10225185 TTTTCTTCTTTTTTTTTTATTTTA
1 TTTTATTCTTTGTATTTTATTTTA
*
10225209 TTTT-TTCTTTGTATTTTTTTTTA
1 TTTTATTCTTTGTATTTTATTTTA
*
10225232 TTTTATT-TTTAG-ATTTTCTTTTA
1 TTTTATTCTTT-GTATTTTATTTTA
10225255 TTATTATT
1 TT-TTATT
10225263 ATTGTTGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 35 0.74
24 12 0.26
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (24 bp):
TTTTATTCTTTGTATTTTATTTTA
Found at i:10225264 original size:27 final size:27
Alignment explanation
Indices: 10225224--10225289 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
10225214 TCTTTGTATT
* *
10225224 TTTTTTTATT-TTATTTTTAGATTT-TC
1 TTTTATTATTATTATTGTT-GATTTATC
*
10225250 TTTTATTATTATTATTGTTGTTTTATC
1 TTTTATTATTATTATTGTTGATTTATC
*
10225277 TTTAATTATTATT
1 TTTTATTATTATT
10225290 TTACTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.73
Consensus pattern (27 bp):
TTTTATTATTATTATTGTTGATTTATC
Found at i:10225300 original size:27 final size:27
Alignment explanation
Indices: 10225248--10225301 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
10225238 TTTTAGATTT
* * *
10225248 TCTTTTATTATTATTATTGTTGTTTTA
1 TCTTTAATTATTATTATTCTTATTTTA
10225275 TCTTTAATTATTATT-TTACTTATTTTA
1 TCTTTAATTATTATTATT-CTTATTTTA
10225302 AATTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (27 bp):
TCTTTAATTATTATTATTCTTATTTTA
Found at i:10245283 original size:40 final size:40
Alignment explanation
Indices: 10245228--10245542 Score: 237
Period size: 40 Copynumber: 7.7 Consensus size: 40
10245218 TGAGCTTTCT
* *
10245228 TTTTTCCAAA-TTGTTGAGCTTATGTTTAAAGAAGCCTTTA
1 TTTTT-CAAAGTTGTTGAGCTTCTGTTTAAAGGAGCCTTTA
* * * *
10245268 TTTTTTAAAGTTGTTGAGCCTCTATTTAGAA-GAGCCCTTA
1 TTTTTCAAAGTTGTTGAGCTTCTGTTTA-AAGGAGCCTTTA
** * *
10245308 TTTTTCAAAGTCATTGAGCCTT-TGCTTAGAA-AAGCCTTATTTA
1 TTTTTCAAAGTTGTTGAG-CTTCTGTTTA-AAGGAGCC---TTTA
** * * * * * *
10245351 TTTTTCAAAGTCATTGAACCTCTGCTTAGAGGAGCTTTGTTTG
1 TTTTTCAAAGTTGTTGAGCTTCTGTTTAAAGGAGC---CTTTA
*
10245394 TTTTTCAAAGTCGTTGAGCCTT-TGTTTAGAA-GAGCCCTTTA
1 TTTTTCAAAGTTGTTGAG-CTTCTGTTTA-AAGGAG-CCTTTA
* * *
10245435 TTTTTCAAAGTTATTGAGCTTCTGTCTAGAGGAGCCTTTA
1 TTTTTCAAAGTTGTTGAGCTTCTGTTTAAAGGAGCCTTTA
* *
10245475 TTTTTCAAAGTTGTTGAGCTTCTGTCTAGAGGAGCCTTTA
1 TTTTTCAAAGTTGTTGAGCTTCTGTTTAAAGGAGCCTTTA
* *
10245515 TTTTTCAAAGTTGTTGAGCCTCTATTTA
1 TTTTTCAAAGTTGTTGAGCTTCTGTTTA
10245543 GAAGAGCTTT
Statistics
Matches: 224, Mismatches: 35, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
39 3 0.01
40 127 0.57
41 31 0.14
42 3 0.01
43 56 0.25
44 4 0.02
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (40 bp):
TTTTTCAAAGTTGTTGAGCTTCTGTTTAAAGGAGCCTTTA
Found at i:10245361 original size:43 final size:39
Alignment explanation
Indices: 10245260--10245584 Score: 244
Period size: 40 Copynumber: 7.9 Consensus size: 39
10245250 TGTTTAAAGA
* **
10245260 AGCCTTTATTTTTTAAAGTTGTTGAGCCTCTAT-TTAGAAG
1 AGCCTTTATTTTTCAAAGTCATTGAGCCT-T-TGTTAGAAG
* *
10245300 AGCCCTTATTTTTCAAAGTCATTGAGCCTTTGCTTAGAAA
1 AGCCTTTATTTTTCAAAGTCATTGAGCCTTTG-TTAGAAG
* * *
10245340 AGCCTTATTTATTTTTCAAAGTCATTGAACCTCTGCTTAGAGG
1 AGCC---TTTATTTTTCAAAGTCATTGAGCCTTTG-TTAGAAG
* * *
10245383 AGCTTTGTTTGTTTTTCAAAGTCGTTGAGCCTTTGTTTAGAAG
1 AGC---CTTTATTTTTCAAAGTCATTGAGCCTTTG-TTAGAAG
* *
10245426 AGCCCTTTATTTTTCAAAGTTATTGAG-CTTCTGTCTAGAGG
1 AG-CCTTTATTTTTCAAAGTCATTGAGCCTT-TGT-TAGAAG
** *
10245467 AGCCTTTATTTTTCAAAGTTGTTGAG-CTTCTGTCTAGAGG
1 AGCCTTTATTTTTCAAAGTCATTGAGCCTT-TGT-TAGAAG
**
10245507 AGCCTTTATTTTTCAAAGTTGTTGAGCCTCTAT-TTAGAAG
1 AGCCTTTATTTTTCAAAGTCATTGAGCCT-T-TGTTAGAAG
* *
10245547 AGCTTTGTTTACTTTTTCAAAGTCATGGAGCCTTTGTT
1 AGC---CTTTA-TTTTTCAAAGTCATTGAGCCTTTGTT
10245585 TATAGGAGTT
Statistics
Matches: 238, Mismatches: 29, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 110 0.46
41 31 0.13
42 3 0.01
43 73 0.31
44 19 0.08
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.43
Consensus pattern (39 bp):
AGCCTTTATTTTTCAAAGTCATTGAGCCTTTGTTAGAAG
Found at i:10245799 original size:17 final size:17
Alignment explanation
Indices: 10245777--10245812 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
10245767 TTAATTCTAT
10245777 TAATAAAAAAT-AAAAAA
1 TAAT-AAAAATGAAAAAA
10245794 TAATAAAAATGAAAAAA
1 TAATAAAAATGAAAAAA
10245811 TA
1 TA
10245813 GTTGTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
TAATAAAAATGAAAAAA
Found at i:10246344 original size:11 final size:10
Alignment explanation
Indices: 10246298--10246350 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
10246288 TAAGGATTTT
10246298 AGAGAGAGAA
1 AGAGAGAGAA
*
10246308 AGAGAGAAAA
1 AGAGAGAGAA
*
10246318 AGGAGAGAAGAG
1 A-GAGAG-AGAA
10246330 AGAGAGAGGAA
1 AGAGAGA-GAA
10246341 AGAG-GAGAA
1 AGAGAGAGAA
10246350 A
1 A
10246351 TTTGGTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 4 0.11
10 13 0.36
11 16 0.44
12 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AGAGAGAGAA
Found at i:10248362 original size:17 final size:18
Alignment explanation
Indices: 10248340--10248384 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
10248330 TAAAATGGAC
10248340 CTTTTTTTTTT-CTTTTG
1 CTTTTTTTTTTGCTTTTG
*
10248357 CTTTTTTTTTTGTTTTTG
1 CTTTTTTTTTTGCTTTTG
10248375 -TTTTTTTTTT
1 CTTTTTTTTTT
10248385 TATAATGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (18 bp):
CTTTTTTTTTTGCTTTTG
Found at i:10253664 original size:7 final size:7
Alignment explanation
Indices: 10253654--10253708 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
10253644 TTTTATTTTT
10253654 AGGTTTG
1 AGGTTTG
10253661 AGGTTT-
1 AGGTTTG
10253667 AGGGTTT-
1 A-GGTTTG
* *
10253674 TGGTTTT
1 AGGTTTG
10253681 AGGGTTTG
1 A-GGTTTG
10253689 AGGTTTG
1 AGGTTTG
10253696 AGGTTTG
1 AGGTTTG
*
10253703 GGGTTT
1 AGGTTT
10253709 CGATTTTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 6 0.15
7 29 0.71
8 6 0.15
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (7 bp):
AGGTTTG
Found at i:10253672 original size:35 final size:35
Alignment explanation
Indices: 10253633--10253721 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 35
10253623 TCAGATTTTG
** * *
10253633 GGGTTTGGGTTTTTTATTTTTAGGTTTGAGGTTTA
1 GGGTTTGGGTTTTAGAGTTTGAGGTTTGAGGTTTA
* * *
10253668 GGGTTTTGGTTTTAGGGTTTGAGGTTTGAGGTTTG
1 GGGTTTGGGTTTTAGAGTTTGAGGTTTGAGGTTTA
* *
10253703 GGGTTTCGATTTTA-AGTTT
1 GGGTTTGGGTTTTAGAGTTT
10253722 TAAAGGATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 4 0.09
35 40 0.91
ACGTcount: A:0.11, C:0.01, G:0.35, T:0.53
Consensus pattern (35 bp):
GGGTTTGGGTTTTAGAGTTTGAGGTTTGAGGTTTA
Found at i:10253680 original size:28 final size:27
Alignment explanation
Indices: 10253579--10253694 Score: 83
Period size: 28 Copynumber: 4.1 Consensus size: 27
10253569 GATTCTGGAT
* *
10253579 TTTAGGGTTTGGGATTTT-GGATTTTAGG
1 TTTAGGGTTTTGG-TTTTAGG-TTTGAGG
* * * *
10253607 GTTAGGGTTTTGAGTTTCAGATTTTGGGG
1 TTTAGGGTTTTG-GTTTTAG-GTTTGAGG
**
10253636 TTT-GGGTTTTTTATTTTTAGGTTTGAGG
1 TTTAGGG--TTTTGGTTTTAGGTTTGAGG
10253664 TTTAGGGTTTTGGTTTTAGGGTTTGAGG
1 TTTAGGGTTTTGGTTTTA-GGTTTGAGG
10253692 TTT
1 TTT
10253695 GAGGTTTGGG
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
27 9 0.13
28 37 0.55
29 17 0.25
30 4 0.06
ACGTcount: A:0.12, C:0.01, G:0.34, T:0.53
Consensus pattern (27 bp):
TTTAGGGTTTTGGTTTTAGGTTTGAGG
Found at i:10253700 original size:14 final size:14
Alignment explanation
Indices: 10253651--10253708 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
10253641 GTTTTTTATT
10253651 TTTA-GGTTTGAGG
1 TTTAGGGTTTGAGG
*
10253664 TTTAGGGTTTTG-GT
1 TTTAGGG-TTTGAGG
10253678 TTTAGGGTTTGAGG
1 TTTAGGGTTTGAGG
*
10253692 TTT-GAGGTTTGGGG
1 TTTAG-GGTTTGAGG
10253706 TTT
1 TTT
10253709 CGATTTTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 25 0.66
15 4 0.11
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTGAGG
Found at i:10253763 original size:15 final size:14
Alignment explanation
Indices: 10253729--10253783 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
10253719 TTTTAAAGGA
*
10253729 TTTAGGGTTTCGAT
1 TTTAGGGTTTGGAT
10253743 TTTAGGGTTTGGAT
1 TTTAGGGTTTGGAT
* *
10253757 GTTTAGGATTTTGAT
1 -TTTAGGGTTTGGAT
10253772 TTTAGGGTTTGG
1 TTTAGGGTTTGG
10253784 GGTATAGGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.15, C:0.02, G:0.33, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTGGAT
Found at i:10253876 original size:21 final size:21
Alignment explanation
Indices: 10253842--10253896 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
10253832 TAGGATTTGA
*
10253842 GATTTGAGA-TTTGAGGTTTT
1 GATTTTAGAGTTTGAGGTTTT
*
10253862 GATTTTAGGGTTTGAGGTTTT
1 GATTTTAGAGTTTGAGGTTTT
10253883 GATTTTAGAGTTTG
1 GATTTTAGAGTTTG
10253897 GAGGATTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (21 bp):
GATTTTAGAGTTTGAGGTTTT
Found at i:10253934 original size:29 final size:29
Alignment explanation
Indices: 10253884--10253970 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
10253874 TGAGGTTTTG
*
10253884 ATTTTAGAGTTTGGAG-GATTTAGGATTTA
1 ATTTTAGGGTTTGGAGAG-TTTAGGATTTA
* *
10253913 TTTTTAGGGTTTAGAGAGTTTA-GAGTTTA
1 ATTTTAGGGTTTGGAGAGTTTAGGA-TTTA
* * *
10253942 ATTTTAAGGTTTGGAGAATTTAGGGTTTA
1 ATTTTAGGGTTTGGAGAGTTTAGGATTTA
10253971 GAGGATTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 2 0.04
29 43 0.91
30 2 0.04
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (29 bp):
ATTTTAGGGTTTGGAGAGTTTAGGATTTA
Found at i:10253968 original size:16 final size:16
Alignment explanation
Indices: 10253915--10253987 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 16
10253905 AGGATTTATT
*
10253915 TTTAGGGTTTAGAGAG
1 TTTAGGGTTTAGAGAA
* *
10253931 TTTAGAGTTT--A-AT
1 TTTAGGGTTTAGAGAA
* *
10253944 TTTAAGGTTTGGAGAA
1 TTTAGGGTTTAGAGAA
*
10253960 TTTAGGGTTTAGAGGA
1 TTTAGGGTTTAGAGAA
*
10253976 TTTAAGGTTTAG
1 TTTAGGGTTTAG
10253988 TTTTAGGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
13 9 0.20
14 1 0.02
15 1 0.02
16 34 0.76
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (16 bp):
TTTAGGGTTTAGAGAA
Found at i:10254341 original size:3 final size:3
Alignment explanation
Indices: 10254333--10254370 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
10254323 TCTTATCATT
10254333 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T
10254371 GAAACAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10254446 original size:14 final size:14
Alignment explanation
Indices: 10254427--10254469 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
10254417 CATAAGTAAC
10254427 AATAATATAAATAA
1 AATAATATAAATAA
10254441 AATAATATAAATAA
1 AATAATATAAATAA
*
10254455 TAT-ATATAAA-AA
1 AATAATATAAATAA
10254467 AAT
1 AAT
10254470 CCAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 4 0.15
13 7 0.26
14 16 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATATAAATAA
Found at i:10254481 original size:12 final size:12
Alignment explanation
Indices: 10254462--10254495 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10254452 TAATATATAT
10254462 AAAAAAATCCAA
1 AAAAAAATCCAA
* *
10254474 AGAAAAATCTAA
1 AAAAAAATCCAA
10254486 AAAAAAATCC
1 AAAAAAATCC
10254496 TGAACCAGAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAAAATCCAA
Found at i:10255668 original size:20 final size:20
Alignment explanation
Indices: 10255640--10255717 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
10255630 AATTCATTTT
* *
10255640 TTAATTTTATATTATTTAAA
1 TTAAATTTATATAATTTAAA
* *
10255660 TTAAATTTAAATAAATT-AA
1 TTAAATTTATATAATTTAAA
* *
10255679 TCAAAATTATAT-ATTTAAA
1 TTAAATTTATATAATTTAAA
*
10255698 GATAAATTTAT-TAATTTAAA
1 -TTAAATTTATATAATTTAAA
10255718 ATTTTAAAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 3 0.07
19 14 0.32
20 27 0.61
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (20 bp):
TTAAATTTATATAATTTAAA
Found at i:10255818 original size:12 final size:12
Alignment explanation
Indices: 10255778--10255820 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
10255768 ACTTTTTAAT
10255778 ATAT-ATATAT-
1 ATATGATATATG
10255788 ATATAGATATATG
1 ATAT-GATATATG
10255801 TATATGATATATG
1 -ATATGATATATG
10255814 ATATGAT
1 ATATGAT
10255821 CATTCCTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.14
12 13 0.45
13 8 0.28
14 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
ATATGATATATG
Found at i:10256831 original size:15 final size:15
Alignment explanation
Indices: 10256813--10256845 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10256803 TTATAAATTT
10256813 TCTTTACAAAATTAA
1 TCTTTACAAAATTAA
10256828 TCTTTACAAAATTAA
1 TCTTTACAAAATTAA
10256843 TCT
1 TCT
10256846 GAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (15 bp):
TCTTTACAAAATTAA
Found at i:10258080 original size:9 final size:10
Alignment explanation
Indices: 10258059--10258084 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10258049 TCACATCTGT
10258059 AAAATTCTAA
1 AAAATTCTAA
10258069 AAAATTCTAA
1 AAAATTCTAA
10258079 AAAATT
1 AAAATT
10258085 TACCTAAACG
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:10258556 original size:16 final size:17
Alignment explanation
Indices: 10258535--10258568 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10258525 AAATAAATTT
10258535 TTAAAA-TTTTTAAAAA
1 TTAAAAGTTTTTAAAAA
10258551 TTAAAATGTTTTTAAAAA
1 TTAAAA-GTTTTTAAAAA
10258569 ATTATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTAAAAGTTTTTAAAAA
Found at i:10258568 original size:28 final size:26
Alignment explanation
Indices: 10258532--10258583 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
10258522 TAAAAATAAA
* *
10258532 TTTTTAAAATTTTTAAAAATTAAAATG
1 TTTTTAAAAATTAT-AAAATTAAAATG
10258559 TTTTTAAAAAATTATAAAATTAAAA
1 TTTTT-AAAAATTATAAAATTAAAA
10258584 AAAAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTTTAAAAATTATAAAATTAAAATG
Found at i:10258616 original size:21 final size:19
Alignment explanation
Indices: 10258592--10258672 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 19
10258582 AAAAAAATAG
*
10258592 AAATTTTATTAAAAAATCTCA
1 AAATTTTAAT-AAAAAT-TCA
10258613 AAATTTTAATAAAAATTCA
1 AAATTTTAATAAAAATTCA
* *
10258632 AAA--ATAA-AAAAATATGA
1 AAATTTTAATAAAAAT-TCA
10258649 AAATTTTAATAAAAA-T-A
1 AAATTTTAATAAAAATTCA
10258666 AAATTTT
1 AAATTTT
10258673 CTTCAAATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.12
17 16 0.31
18 1 0.02
19 9 0.17
20 11 0.21
21 9 0.17
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (19 bp):
AAATTTTAATAAAAATTCA
Found at i:10261629 original size:5 final size:5
Alignment explanation
Indices: 10261611--10261649 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
10261601 GATTTGATTT
10261611 TTTTA TTATT- TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
10261650 TGAAAGGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 28 0.88
6 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:10261761 original size:48 final size:48
Alignment explanation
Indices: 10261657--10261838 Score: 231
Period size: 48 Copynumber: 3.7 Consensus size: 48
10261647 TTTTGAAAGG
*
10261657 GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
*
10261704 GCTTCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* * * * * *
10261752 GCTCATCTCAGCAGAGGCTCCACAACTTTAAAATTTTCATTTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCA-TCTGAAAAA
10261801 GCTCCTCTGCTCTCAACAGAGGCTCAACAACTTTAAAA
1 G---CTC--CTCTCAACAGAGGCTCAACAACTTTAAAA
10261839 TTTTCATTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
47 27 0.23
48 51 0.44
49 9 0.08
52 3 0.03
54 26 0.22
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (48 bp):
GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
Found at i:10265634 original size:16 final size:19
Alignment explanation
Indices: 10265613--10265661 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
10265603 TTTTATGTAT
10265613 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
10265630 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
10265648 TGTATATATTTATT
1 TGTAT-TATTTATT
10265662 TTTTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:10266146 original size:25 final size:25
Alignment explanation
Indices: 10266117--10266170 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10266107 CTGGGAGTGA
*
10266117 GAAAAAATTTT-TAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
* *
10266141 CGAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
10266167 GAAA
1 GAAA
10266171 TTTCCAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:10266215 original size:31 final size:31
Alignment explanation
Indices: 10266180--10266247 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
10266170 ATTTCCAGAA
* * *
10266180 TCCGGCGAAAATTCCGGCGAAGTTTGAATTT
1 TCCGGCGAAAATTCCGGCCAACTTTGAAGTT
* **
10266211 TCCGGTGAATTTTCCGGCCAACTTTGAAGTT
1 TCCGGCGAAAATTCCGGCCAACTTTGAAGTT
10266242 TCCGGC
1 TCCGGC
10266248 TGTCTGCCCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.31
Consensus pattern (31 bp):
TCCGGCGAAAATTCCGGCCAACTTTGAAGTT
Found at i:10266869 original size:57 final size:57
Alignment explanation
Indices: 10266792--10267186 Score: 524
Period size: 57 Copynumber: 6.7 Consensus size: 57
10266782 AAAATTCCAA
*
10266792 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
10266850 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC---C
*
10266910 AAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
*
10266972 AAAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 ----AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
10267033 AAAAACTATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTTCA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTCC
** *
10267090 AAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 AAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
10267147 AAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTT
10267187 TCCCACACAA
Statistics
Matches: 303, Mismatches: 18, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
56 35 0.12
57 90 0.30
58 67 0.22
59 1 0.00
60 40 0.13
61 12 0.04
63 4 0.01
65 11 0.04
66 43 0.14
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:10270499 original size:3 final size:3
Alignment explanation
Indices: 10270487--10270515 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10270477 GTATTCTATG
10270487 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10270516 GTATATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:10270532 original size:4 final size:4
Alignment explanation
Indices: 10270523--10270633 Score: 56
Period size: 4 Copynumber: 27.8 Consensus size: 4
10270513 TATGTATATC
** *
10270523 TTTA TTTA TTTA TTTA TTT- TTTA TCAGA TTAGA TTTA TATGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT-TA TTTA T-T-TA -TTTA
* * *
10270571 TTTA TATA GTTA TATA TTTA -TTA -TTA TATTA -TTA -TTA TTT- TATT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA T-TTA
10270615 TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
10270634 TTTCTTTTCT
Statistics
Matches: 86, Mismatches: 10, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
3 18 0.21
4 52 0.60
5 12 0.14
6 3 0.03
7 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:10270599 original size:14 final size:15
Alignment explanation
Indices: 10270569--10270632 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
10270559 ATATGTATTT
10270569 TATTTATATAGTTATA
1 TATTTAT-TAGTTATA
10270585 TATTTATTA-TTATA
1 TATTTATTAGTTATA
10270599 T-TATTATTA-TT-T-
1 TAT-TTATTAGTTATA
* *
10270611 TATTT-TTATTTATT
1 TATTTATTAGTTATA
10270625 TATTTATT
1 TATTTATT
10270633 TTTTCTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
11 3 0.07
12 5 0.12
13 4 0.10
14 19 0.45
15 4 0.10
16 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTATTAGTTATA
Found at i:10270602 original size:11 final size:11
Alignment explanation
Indices: 10270583--10270624 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10270573 TATATAGTTA
10270583 TATATTTATTAT
1 TATA-TTATTAT
10270595 TATATTATTAT
1 TATATTATTAT
* *
10270606 TATTTTATTTT
1 TATATTATTAT
10270617 TAT-TTATT
1 TATATTATT
10270625 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 5 0.18
11 19 0.68
12 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTAT
Found at i:10270618 original size:48 final size:46
Alignment explanation
Indices: 10270494--10270634 Score: 128
Period size: 48 Copynumber: 3.0 Consensus size: 46
10270484 ATGTATTTTA
* * *
10270494 TTATTATTATTATTATTATTATGTATATCTTTATTTATTTATTTATT
1 TTATTATTA-TATTATTATTATATATATTTTTATTTATATATTTATT
* * * *
10270541 TT-TTATCAGATTA-GATT-TATATGTATTTTATTTATATAGTTATATAT
1 TTATTATTATATTATTATTATATATAT-TTTTATTTATATA-TT-TAT-T
* *
10270588 TTATTATTATATTATTATTAT-TTTATTTTTATTTATTTATTTATT
1 TTATTATTATATTATTATTATATATATTTTTATTTATATATTTATT
10270633 TT
1 TT
10270635 TTCTTTTCTT
Statistics
Matches: 74, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
43 5 0.07
44 14 0.19
45 9 0.12
46 11 0.15
47 7 0.09
48 21 0.28
49 6 0.08
50 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (46 bp):
TTATTATTATATTATTATTATATATATTTTTATTTATATATTTATT
Found at i:10271030 original size:26 final size:25
Alignment explanation
Indices: 10271001--10271055 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
10270991 CTGGGAGTGA
10271001 GAAAAAAATTTCTAGAAATTTCTGG
1 GAAAAAAATTTCTAGAAATTTCTGG
* *
10271026 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAAATTTCTAGAAATTTCTGG
10271052 GAAA
1 GAAA
10271056 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (25 bp):
GAAAAAAATTTCTAGAAATTTCTGG
Found at i:10271222 original size:20 final size:20
Alignment explanation
Indices: 10271197--10271245 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
10271187 TCCGGCGAAC
*
10271197 TTCCGGCGAGATTTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
10271217 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
10271237 ATCCGGCGA
1 TTCCGGCGA
10271246 AATCCCACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:10271507 original size:14 final size:15
Alignment explanation
Indices: 10271488--10271529 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10271478 CCGAGCCGAG
10271488 CCGAGCCGTTCTT-T
1 CCGAGCCGTTCTTCT
10271502 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
10271515 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
10271529 C
1 C
10271530 TTCCTTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 9 0.36
14 13 0.52
ACGTcount: A:0.07, C:0.40, G:0.21, T:0.31
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:10271602 original size:17 final size:17
Alignment explanation
Indices: 10271580--10271640 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
10271570 TCCAGGTTTT
*
10271580 TTTTTTTTTTTTTTGAA
1 TTTTTTTTTTATTTGAA
*
10271597 TTTTTTTTTTATTTGAC
1 TTTTTTTTTTATTTGAA
** *
10271614 TTTGATTTTGATCTTG-A
1 TTTTTTTTTTAT-TTGAA
10271631 TTTTTTTTTT
1 TTTTTTTTTT
10271641 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 31 0.91
18 3 0.09
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTATTTGAA
Found at i:10272060 original size:152 final size:152
Alignment explanation
Indices: 10271661--10272100 Score: 801
Period size: 151 Copynumber: 2.9 Consensus size: 152
10271651 TTTTTTCATC
* *
10271661 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
10271726 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
10271791 ATTAATTGGATGATTTTGTATT
131 ATTAATTGGATGATTTTGTATT
10271813 TT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
*
10271877 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
*
10271942 ATTAATTGGATGATTTTGTTTT
131 ATTAATTGGATGATTTTGTATT
* *
10271964 TTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
*
10272029 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAACA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
*
10272094 ACTAATT
131 ATTAATT
10272101 ACTTGGTAAA
Statistics
Matches: 278, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
151 147 0.53
152 131 0.47
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (152 bp):
TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
ATTAATTGGATGATTTTGTATT
Found at i:10275809 original size:15 final size:13
Alignment explanation
Indices: 10275782--10275852 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 13
10275772 ACAATAGATG
10275782 AAAAATGAGAAAAA
1 AAAAATGA-AAAAA
*
10275796 AGAAGATGAAAAAA
1 A-AAAATGAAAAAA
*
10275810 AAAAAAGAAAAAA
1 AAAAATGAAAAAA
*
10275823 AAAGAA-AAAAAAA
1 AAA-AATGAAAAAA
10275836 TGAGAAAATGAAAAAA
1 --A-AAAATGAAAAAA
10275852 A
1 A
10275853 GATATTCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 19 0.41
14 10 0.22
15 9 0.20
16 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (13 bp):
AAAAATGAAAAAA
Found at i:10275815 original size:19 final size:20
Alignment explanation
Indices: 10275779--10275854 Score: 67
Period size: 19 Copynumber: 4.0 Consensus size: 20
10275769 TCAACAATAG
10275779 ATGAAAAATGAGAAAAAAGAA
1 ATGAAAAA-GAGAAAAAAGAA
10275800 GATGAAAAA-A-AAAAAAGAA
1 -ATGAAAAAGAGAAAAAAGAA
10275819 A--AAAAA-AGAAAAAA-AA
1 ATGAAAAAGAGAAAAAAGAA
10275835 ATGAGAAAATGA-AAAAAAGA
1 ATGA-AAAA-GAGAAAAAAGA
10275855 TATTCAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
16 9 0.19
17 6 0.13
18 2 0.04
19 13 0.28
20 7 0.15
21 2 0.04
22 8 0.17
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (20 bp):
ATGAAAAAGAGAAAAAAGAA
Found at i:10275841 original size:13 final size:13
Alignment explanation
Indices: 10275782--10275843 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 13
10275772 ACAATAGATG
10275782 AAAAATGAGAAAA
1 AAAAATGAGAAAA
10275795 AAGAAGATGA-AAAA
1 AA-AA-ATGAGAAAA
*
10275809 AAAAA-AAG-AAA
1 AAAAATGAGAAAA
10275820 AAAAA--AGAAAA
1 AAAAATGAGAAAA
10275831 AAAAATGAGAAAA
1 AAAAATGAGAAAA
10275844 TGAAAAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
10 2 0.05
11 17 0.40
12 1 0.02
13 10 0.24
14 8 0.19
15 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAATGAGAAAA
Found at i:10275843 original size:11 final size:10
Alignment explanation
Indices: 10275807--10275835 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10275797 GAAGATGAAA
10275807 AAAAAAAAAG
1 AAAAAAAAAG
10275817 AAAAAAAAAG
1 AAAAAAAAAG
10275827 AAAAAAAAA
1 AAAAAAAAA
10275836 TGAGAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:10275896 original size:1 final size:1
Alignment explanation
Indices: 10275890--10275928 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
10275880 TGATTTTGAT
*
10275890 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10275929 GAGATCCAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10277237 original size:41 final size:40
Alignment explanation
Indices: 10277096--10277709 Score: 850
Period size: 41 Copynumber: 15.2 Consensus size: 40
10277086 ATGATTGTCA
* *
10277096 AGGAGCAATTTAATTTTC-AAGTTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGTGCCTCTGTTGAG
* *
10277135 AGGAGCAATTTACATTTC-AAGTTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTGTGCCTCTGTTGAG
* *
10277174 AGGAGCAATTTACTATTCCAAAGTTCCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACT-TTTCAAAG-T-CGTGTGCCTCTGTTGAG
10277216 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
*
10277257 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
10277298 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
10277339 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
*
10277380 AGGAGCAATTTACTTTTCAAAGTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTGAG
*
10277419 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
*
10277460 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
*
10277501 AGGAGCAATTTACTTTTCAAAGTCCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGTGCCTCTGTTGAG
10277541 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
*
10277582 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
* * *
10277623 AGGAGCAATTTACTTTCCAAAGTCCAT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTGTGCCTCTGTTGAG
* * *
10277663 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCG-TGTGCCTCTGTTGAG
10277704 AGGAGC
1 AGGAGC
10277710 TTCAGCAAAA
Statistics
Matches: 538, Mismatches: 23, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
39 98 0.18
40 68 0.13
41 337 0.63
42 35 0.07
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTGAG
Found at i:10277265 original size:122 final size:121
Alignment explanation
Indices: 10277096--10277709 Score: 920
Period size: 122 Copynumber: 5.0 Consensus size: 121
10277086 ATGATTGTCA
* * *
10277096 AGGAGCAATTTAATTTTC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACATTTC-AAGT
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGT
* *
10277157 TCGTTGCCTCTGTTTAGAGGAGCAATTTACTATTCCAAAGTTCCGT-TGCCTCTGTTTAG
65 TCGTTGCCTCTGTTTAGAGGAGCAATTTACT-TTTCAAAG-T-CGTGTGCCTCTGTTGAG
*
10277216 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAG-T
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTT
*
10277280 CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
66 CGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
10277339 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-T
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTT
*
10277403 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
* *
10277460 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTT
10277525 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAG
* * *
10277582 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTT
* * * *
10277647 CATTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCG-TGTGCCTCTGTTGAG
10277704 AGGAGC
1 AGGAGC
10277710 TTCAGCAAAA
Statistics
Matches: 465, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
120 21 0.05
121 124 0.27
122 205 0.44
123 89 0.19
124 26 0.06
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (121 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTT
CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTGAG
Found at i:10277733 original size:8 final size:8
Alignment explanation
Indices: 10277716--10277788 Score: 89
Period size: 8 Copynumber: 9.4 Consensus size: 8
10277706 GAGCTTCAGC
10277716 AAAAAA-A
1 AAAAAACA
10277723 AAAAAAC-
1 AAAAAACA
10277730 AAAAAACA
1 AAAAAACA
10277738 AAAAAACA
1 AAAAAACA
10277746 AAAAAA-A
1 AAAAAACA
*
10277753 AAAAATCA
1 AAAAAACA
*
10277761 AAAAATCA
1 AAAAAACA
*
10277769 AAAAATCA
1 AAAAAACA
10277777 AAAAAATCA
1 AAAAAA-CA
10277786 AAA
1 AAA
10277789 CAAAAATAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
7 19 0.32
8 36 0.60
9 5 0.08
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (8 bp):
AAAAAACA
Found at i:10277752 original size:30 final size:30
Alignment explanation
Indices: 10277716--10277811 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
10277706 GAGCTTCAGC
10277716 AAAAAAAAAAAAACAAAAAACAAAAAAACA
1 AAAAAAAAAAAAACAAAAAACAAAAAAACA
* *
10277746 AAAAAAAAAAAATCAAAAAATCAAAAAATC-
1 AAAAAAAAAAAAACAAAAAA-CAAAAAAACA
**
10277776 AAAAAAATCAAAACAAAAATA-AAAAAAATCA
1 AAAAAAAAAAAAACAAAAA-ACAAAAAAA-CA
10277807 AAAAA
1 AAAAA
10277812 TGTTGAGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 6 0.11
30 36 0.64
31 14 0.25
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.06
Consensus pattern (30 bp):
AAAAAAAAAAAAACAAAAAACAAAAAAACA
Found at i:10277800 original size:46 final size:45
Alignment explanation
Indices: 10277717--10277812 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 45
10277707 AGCTTCAGCA
10277717 AAAAA-AAAAAAACAAAAAACAAAAAAACAAAAAAAAAAAAATCA
1 AAAAATAAAAAAACAAAAAACAAAAAAACAAAAAAAAAAAAATCA
* **
10277761 AAAAATCAAAAAATCAAAAAA-ATCAAAACAAAAATAAAAAAAATCA
1 AAAAAT-AAAAAAACAAAAAACAAAAAAACAAAAA-AAAAAAAATCA
10277807 AAAAAT
1 AAAAAT
10277813 GTTGAGTTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
44 5 0.11
45 11 0.24
46 30 0.65
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.07
Consensus pattern (45 bp):
AAAAATAAAAAAACAAAAAACAAAAAAACAAAAAAAAAAAAATCA
Found at i:10277811 original size:1 final size:1
Alignment explanation
Indices: 10277716--10277803 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
10277706 GAGCTTCAGC
* * * ** ** **
10277716 AAAAAAAAAAAAACAAAAAACAAAAAAACAAAAAAAAAAAAATCAAAAAATCAAAAAATCAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
10277781 AATCAAAACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
10277804 TCAAAAAATG
Statistics
Matches: 65, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:10278010 original size:3 final size:3
Alignment explanation
Indices: 10277998--10278026 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10277988 GTATTCTATG
10277998 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10278027 GTATATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:10278043 original size:4 final size:4
Alignment explanation
Indices: 10278034--10278142 Score: 50
Period size: 4 Copynumber: 26.8 Consensus size: 4
10278024 TATGTATATC
** *
10278034 TTTA TTTA TTTA TTTA -TT- TTTA TCAGA TTAGA TTTA TATGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT-TA TTTA T-T-TA T-TTA
* * *
10278081 TTTA TATA GTTA TATA TTTA -TTA -TTA TATTA -TTA -TTA TTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA -TTTA
10278128 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
10278143 TTTCTTTTCT
Statistics
Matches: 84, Mismatches: 11, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
3 16 0.19
4 43 0.51
5 21 0.25
6 4 0.05
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:10278112 original size:11 final size:11
Alignment explanation
Indices: 10278093--10278133 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10278083 TATATAGTTA
10278093 TATATTTATTAT
1 TATA-TTATTAT
10278105 TATATTATTAT
1 TATATTATTAT
*
10278116 TATTTTATT-T
1 TATATTATTAT
10278126 TAT-TTATT
1 TATATTATT
10278134 TATTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 5 0.18
10 4 0.14
11 15 0.54
12 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTAT
Found at i:10278537 original size:27 final size:26
Alignment explanation
Indices: 10278506--10278562 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
10278496 CTGGGAGTGA
10278506 GAAAAAAAATTTCTAGAAATTTCTGG
1 GAAAAAAAATTTCTAGAAATTTCTGG
* *
10278532 CGAAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAAAATTTCTAGAAATTTCTGG
10278559 GAAA
1 GAAA
10278563 TTTCCAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.30
Consensus pattern (26 bp):
GAAAAAAAATTTCTAGAAATTTCTGG
Found at i:10278728 original size:20 final size:20
Alignment explanation
Indices: 10278703--10278751 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
10278693 CCCGGCGAAC
*
10278703 TTCCGGCGAGATTTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
10278723 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
10278743 ATCCGGCGA
1 TTCCGGCGA
10278752 AATCCCACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:10279086 original size:1 final size:1
Alignment explanation
Indices: 10279080--10279116 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
10279070 CCGCTCCAGG
10279080 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10279117 CATCTTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10279520 original size:152 final size:152
Alignment explanation
Indices: 10279121--10279548 Score: 795
Period size: 151 Copynumber: 2.8 Consensus size: 152
10279111 TTTTTTCATC
* *
10279121 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
10279186 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
10279251 ATTAATTGGATGATTTTGTATT
131 ATTAATTGGATGATTTTGTATT
10279273 TT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
*
10279337 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
*
10279402 ATTAATTGGATGATTTTGTTTT
131 ATTAATTGGATGATTTTGTATT
* *
10279424 TTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
10279489 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
10279549 AACAACTAAT
Statistics
Matches: 268, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
151 147 0.55
152 121 0.45
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (152 bp):
TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
ATTAATTGGATGATTTTGTATT
Found at i:10282858 original size:1 final size:1
Alignment explanation
Indices: 10282854--10282880 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10282844 CAAAGATCTC
10282854 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
10282881 CACCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10283265 original size:22 final size:20
Alignment explanation
Indices: 10283240--10283317 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
10283230 TCAACAATAG
10283240 ATGAAAAATGAGAAAAAAGAA
1 ATGAAAAA-GAGAAAAAAGAA
*
10283261 GATGAAAAA-AAAAAAAAGAA
1 -ATGAAAAAGAGAAAAAAGAA
*
10283281 A--AAAAAAAGAAAAAA-AA
1 ATGAAAAAGAGAAAAAAGAA
10283298 ATGAGAAAATGA-AAAAAAGA
1 ATGA-AAAA-GAGAAAAAAGA
10283318 TATTCAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
17 8 0.17
18 7 0.15
19 2 0.04
20 20 0.43
21 2 0.04
22 8 0.17
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (20 bp):
ATGAAAAAGAGAAAAAAGAA
Found at i:10283306 original size:11 final size:11
Alignment explanation
Indices: 10283268--10283298 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
10283258 GAAGATGAAA
10283268 AAAAAAAAAAG
1 AAAAAAAAAAG
10283279 AAAAAAAAAAG
1 AAAAAAAAAAG
10283290 AAAAAAAAA
1 AAAAAAAAA
10283299 TGAGAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:10283315 original size:1 final size:1
Alignment explanation
Indices: 10283265--10283298 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
10283255 AAAGAAGATG
* *
10283265 AAAAAAAAAAAAAGAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10283299 TGAGAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:10283359 original size:1 final size:1
Alignment explanation
Indices: 10283353--10283383 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
10283343 TGATTTTGAT
10283353 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10283384 GAGATCCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10284666 original size:41 final size:39
Alignment explanation
Indices: 10284547--10285154 Score: 787
Period size: 41 Copynumber: 15.2 Consensus size: 39
10284537 ATGATTGTCA
* *
10284547 AGGAGCAATTTAATTTTC-AAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTGAG
* *
10284586 AGGAGCAATTTACATTTC-AAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTGAG
*
10284625 AGGAGCAATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTTGCCTCTGTTGAG
* *
10284666 AGGAGCAATTTACTTTTCAAAGTTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTGAG
*
10284705 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAG
*
10284746 AGGAGCAATTTACTTTTCAAAGTCGTGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-TGCCTCTGTTGAG
*
10284786 AGGAGCAATTTACTTTTCAAAGTCGTGGTACC-C--TTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAG
*
10284824 AGGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTGAG
*
10284864 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAG
*
10284905 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAG
*
10284946 AGGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTGAG
10284986 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAG
*
10285027 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAG
* * *
10285068 AGGAGCAATTTACTTTCCAAAGTCCATTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTGAG
* *
10285108 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTT--GCCTCTGTTGAG
10285149 AGGAGC
1 AGGAGC
10285155 TTCAGCAAAA
Statistics
Matches: 525, Mismatches: 26, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
37 3 0.01
38 29 0.06
39 105 0.20
40 136 0.26
41 247 0.47
42 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (39 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTGAG
Found at i:10284810 original size:81 final size:81
Alignment explanation
Indices: 10284547--10285154 Score: 825
Period size: 81 Copynumber: 7.6 Consensus size: 81
10284537 ATGATTGTCA
* * *
10284547 AGGAGCAATTTAATTTTC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACATTTC-AAGT
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-
*
10284608 TCGT-TGCCTCTGTTTAG
64 TCGTGTGCCTCTGTTGAG
*
10284625 AGGAGCAATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG
*
10284688 TTG-GTGCCTCTGTTGAG
64 TCGTGTGCCTCTGTTGAG
*
10284705 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
*
10284770 GTGTACCTCTGTTGAG
66 GTGTGCCTCTGTTGAG
*
10284786 AGGAGCAATTTACTTTTCAAAGTCGTGGTACC-C--TTGAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGT-
*
10284848 CGT-TGCCTCTGTTTAG
65 CGTGTGCCTCTGTTGAG
*
10284864 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
*
10284929 GTGGTACCTCTGTTGAG
66 GT-GTGCCTCTGTTGAG
*
10284946 AGGAGCAATTTACTTTTCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGT
10285009 CGTGGTGCCTCTGTTGAG
65 CGT-GTGCCTCTGTTGAG
* *
10285027 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGT-
* *
10285092 CAT-TGCCTCTGTTTAG
65 CGTGTGCCTCTGTTGAG
* * * *
10285108 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTGAGAGGAGC
10285155 TTCAGCAAAA
Statistics
Matches: 485, Mismatches: 27, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
78 91 0.19
79 10 0.02
80 115 0.24
81 197 0.41
82 67 0.14
83 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (81 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
GTGTGCCTCTGTTGAG
Found at i:10284986 original size:122 final size:122
Alignment explanation
Indices: 10284547--10285154 Score: 906
Period size: 122 Copynumber: 5.0 Consensus size: 122
10284537 ATGATTGTCA
* * * *
10284547 AGGAGCAATTTAATTTTC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACATTTC-AAGT
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGT
* * *
10284608 TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAG
65 CCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-T-CGTGGTACCTCTGTTGAG
* *
10284666 AGGAGCAATTTACTTTTCAAAGT--TGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGT-
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
*
10284728 CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGT-GTACCTCTGTTGAG
66 CGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
10284786 AGGAGCAATTTACTTTTCAAAGTCGTGGTACC-C--TTGAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
10284848 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
10284905 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
*
10284970 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
*
10285027 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
* *
10285092 CATTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGT--CTCTGTTTAG
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCG-TG-GTACCTCTGTTGAG
10285149 AGGAGC
1 AGGAGC
10285155 TTCAGCAAAA
Statistics
Matches: 458, Mismatches: 14, Indels: 31
0.91 0.03 0.06
Matches are distributed among these distances:
117 1 0.00
118 38 0.08
119 125 0.27
120 46 0.10
121 39 0.09
122 205 0.45
123 2 0.00
124 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (122 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAG
Found at i:10285179 original size:9 final size:9
Alignment explanation
Indices: 10285161--10285244 Score: 82
Period size: 9 Copynumber: 9.2 Consensus size: 9
10285151 GAGCTTCAGC
10285161 AAAA-AAAA
1 AAAACAAAA
10285169 AAAAC-AAA
1 AAAACAAAA
*
10285177 AAAACCAAA
1 AAAACAAAA
10285186 AAAACAAAA
1 AAAACAAAA
*
10285195 AAATCAAAA
1 AAAACAAAA
*
10285204 AAATCAAAA
1 AAAACAAAA
*
10285213 AAATCAAAACA
1 AAAAC-AAA-A
*
10285224 AAAATAAAA
1 AAAACAAAA
10285233 AAAATCAAAA
1 AAAA-CAAAA
10285243 AA
1 AA
10285245 TGTTGAGTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
8 12 0.18
9 38 0.58
10 12 0.18
11 4 0.06
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAACAAAA
Found at i:10285188 original size:17 final size:17
Alignment explanation
Indices: 10285166--10285244 Score: 95
Period size: 17 Copynumber: 4.4 Consensus size: 17
10285156 TCAGCAAAAA
*
10285166 AAAAAAACAAAAAAACC
1 AAAAAAACAAAAAAATC
10285183 AAAAAAACAAAAAAATC
1 AAAAAAACAAAAAAATC
10285200 AAAAAAATCAAAAAAATC
1 AAAAAAA-CAAAAAAATC
*
10285218 AAAACAAAAATAAAAAAAATC
1 --AA-AAAAA-CAAAAAAATC
10285239 AAAAAA
1 AAAAAA
10285245 TGTTGAGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
17 23 0.41
18 14 0.25
19 2 0.04
20 2 0.04
21 15 0.27
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAAACAAAAAAATC
Found at i:10285188 original size:18 final size:18
Alignment explanation
Indices: 10285165--10285244 Score: 99
Period size: 18 Copynumber: 4.3 Consensus size: 18
10285155 TTCAGCAAAA
10285165 AAAAAAAACAAAAAAA-C
1 AAAAAAAACAAAAAAATC
*
10285182 CAAAAAAACAAAAAAATC
1 AAAAAAAACAAAAAAATC
*
10285200 AAAAAAATCAAAAAAATC
1 AAAAAAAACAAAAAAATC
*
10285218 AAAACAAAAATAAAAAAAATC
1 -AAA-AAAAA-CAAAAAAATC
10285239 AAAAAA
1 AAAAAA
10285245 TGTTGAGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
17 15 0.28
18 17 0.31
19 6 0.11
20 7 0.13
21 9 0.17
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.06
Consensus pattern (18 bp):
AAAAAAAACAAAAAAATC
Found at i:10285442 original size:3 final size:3
Alignment explanation
Indices: 10285430--10285458 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10285420 GTATTCTATG
10285430 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10285459 GTATATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:10285475 original size:4 final size:4
Alignment explanation
Indices: 10285466--10285576 Score: 56
Period size: 4 Copynumber: 27.8 Consensus size: 4
10285456 TATGTATATC
** *
10285466 TTTA TTTA TTTA TTTA TTT- TTTA TCAGA TTAGA TTTA TATGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT-TA TTTA T-T-TA -TTTA
* * *
10285514 TTTA TATA GTTA TATA TTTA -TTA -TTA TATTA -TTA -TTA TTT- TATT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA T-TTA
10285558 TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
10285577 TTTCTTTTCT
Statistics
Matches: 86, Mismatches: 10, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
3 18 0.21
4 52 0.60
5 12 0.14
6 3 0.03
7 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:10285542 original size:14 final size:15
Alignment explanation
Indices: 10285512--10285575 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
10285502 ATATGTATTT
10285512 TATTTATATAGTTATA
1 TATTTAT-TAGTTATA
10285528 TATTTATTA-TTATA
1 TATTTATTAGTTATA
10285542 T-TATTATTA-TT-T-
1 TAT-TTATTAGTTATA
* *
10285554 TATTT-TTATTTATT
1 TATTTATTAGTTATA
10285568 TATTTATT
1 TATTTATT
10285576 TTTTCTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
11 3 0.07
12 5 0.12
13 4 0.10
14 19 0.45
15 4 0.10
16 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTATTAGTTATA
Found at i:10285545 original size:11 final size:11
Alignment explanation
Indices: 10285526--10285567 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10285516 TATATAGTTA
10285526 TATATTTATTAT
1 TATA-TTATTAT
10285538 TATATTATTAT
1 TATATTATTAT
* *
10285549 TATTTTATTTT
1 TATATTATTAT
10285560 TAT-TTATT
1 TATATTATT
10285568 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 5 0.18
11 19 0.68
12 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTAT
Found at i:10285561 original size:48 final size:46
Alignment explanation
Indices: 10285437--10285577 Score: 128
Period size: 48 Copynumber: 3.0 Consensus size: 46
10285427 ATGTATTTTA
* * *
10285437 TTATTATTATTATTATTATTATGTATATCTTTATTTATTTATTTATT
1 TTATTATTA-TATTATTATTATATATATTTTTATTTATATATTTATT
* * * *
10285484 TT-TTATCAGATTA-GATT-TATATGTATTTTATTTATATAGTTATATAT
1 TTATTATTATATTATTATTATATATAT-TTTTATTTATATA-TT-TAT-T
* *
10285531 TTATTATTATATTATTATTAT-TTTATTTTTATTTATTTATTTATT
1 TTATTATTATATTATTATTATATATATTTTTATTTATATATTTATT
10285576 TT
1 TT
10285578 TTCTTTTCTT
Statistics
Matches: 74, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
43 5 0.07
44 14 0.19
45 9 0.12
46 11 0.15
47 7 0.09
48 21 0.28
49 6 0.08
50 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (46 bp):
TTATTATTATATTATTATTATATATATTTTTATTTATATATTTATT
Found at i:10285975 original size:26 final size:25
Alignment explanation
Indices: 10285946--10286000 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
10285936 CTGGGAGTGA
10285946 GAAAAAAATTTCTAGAAATTTCTGG
1 GAAAAAAATTTCTAGAAATTTCTGG
* *
10285971 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAAATTTCTAGAAATTTCTGG
10285997 GAAA
1 GAAA
10286001 TTTCCAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (25 bp):
GAAAAAAATTTCTAGAAATTTCTGG
Found at i:10286167 original size:20 final size:20
Alignment explanation
Indices: 10286142--10286190 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
10286132 TCCGGCGAAC
*
10286142 TTCCGGCGAGATTTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
10286162 TTCCGGCGAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
10286182 ATCCGGCGA
1 TTCCGGCGA
10286191 AATCCCACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:10286513 original size:1 final size:1
Alignment explanation
Indices: 10286507--10286535 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
10286497 CCGCTCCAGG
10286507 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10286536 ATTTGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10286989 original size:152 final size:152
Alignment explanation
Indices: 10286590--10287029 Score: 801
Period size: 151 Copynumber: 2.9 Consensus size: 152
10286580 TTTTTTCATC
* *
10286590 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
10286655 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
10286720 ATTAATTGGATGATTTTGTATT
131 ATTAATTGGATGATTTTGTATT
10286742 TT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
*
10286806 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCCAATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
*
10286871 ATTAATTGGATGATTTTGTTTT
131 ATTAATTGGATGATTTTGTATT
* *
10286893 TTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
*
10286958 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAACA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
*
10287023 ACTAATT
131 ATTAATT
10287030 ACTTGGTAAA
Statistics
Matches: 278, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
151 147 0.53
152 131 0.47
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (152 bp):
TTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCAATA
ATTAATTGGATGATTTTGTATT
Found at i:10288015 original size:18 final size:18
Alignment explanation
Indices: 10287970--10288018 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
10287960 ACACTGGATG
*
10287970 AAAAATGAGAAAA-GAGA
1 AAAAATGAAAAAAGGAGA
** *
10287987 AAAAAAAAAAAAAGGGGA
1 AAAAATGAAAAAAGGAGA
10288005 AAAAATGAAAAAAG
1 AAAAATGAAAAAAG
10288019 AGATCCAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (18 bp):
AAAAATGAAAAAAGGAGA
Found at i:10289330 original size:40 final size:40
Alignment explanation
Indices: 10289209--10289870 Score: 852
Period size: 40 Copynumber: 16.0 Consensus size: 40
10289199 GTCTAGGAGT
*
10289209 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
10289251 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10289293 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
10289333 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10289374 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
10289414 ATTTACTTTTCAAAGT-TTGTCGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGT-GCCTCTGTTTAGAGGAGCA
* *
10289454 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10289495 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
10289535 ATTTACTTTTCAAAGT-TTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
* *
10289575 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTT--A-GAG-------GAGCA
*
10289626 ATTTACTTTTCAAAGT-TTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
* *
10289666 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
10289707 ATTTACTTTTCAAAGT-TTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
* *
10289747 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10289788 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10289829 ATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTT-C-AAAGTCGT-GTGCCTCTGTTTAGAGGAGC
10289871 TTTGGTAAAA
Statistics
Matches: 558, Mismatches: 31, Indels: 61
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.00
39 8 0.01
40 225 0.40
41 186 0.33
42 68 0.12
43 30 0.05
44 3 0.01
47 3 0.01
48 1 0.00
49 1 0.00
50 11 0.02
51 20 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:10289361 original size:81 final size:81
Alignment explanation
Indices: 10289209--10289870 Score: 960
Period size: 81 Copynumber: 8.0 Consensus size: 81
10289199 GTCTAGGAGT
* *
10289209 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGG
10289273 TACCTCTGTTTAGAGGAGCA
62 TACCTCTGTTTAGAGGAGCA
10289293 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
10289358 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
* * *
10289374 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT--TTGTCGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGT-AC
10289437 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* * *
10289454 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--T
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTGGT
*
10289516 GCCTCTGTTTAGAGGAGCA
63 ACCTCTGTTTAGAGGAGCA
*
10289535 ATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
10289600 TCTGTTTAGAGGAGCAATTTAGAGCA
66 TCTGTTT--A-GAG-------GAGCA
*
10289626 ATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
10289691 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
*
10289707 ATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
10289772 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
10289788 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAGTCGTGG
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCC-AAAGTCGTGG
*
10289852 TGCCTCTGTTTAGAGGAGC
62 TACCTCTGTTTAGAGGAGC
10289871 TTTGGTAAAA
Statistics
Matches: 540, Mismatches: 14, Indels: 48
0.90 0.02 0.08
Matches are distributed among these distances:
79 11 0.02
80 68 0.13
81 268 0.50
82 55 0.10
83 11 0.02
84 46 0.09
88 3 0.01
89 1 0.00
91 77 0.14
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
TCTGTTTAGAGGAGCA
Found at i:10289449 original size:121 final size:120
Alignment explanation
Indices: 10289209--10289870 Score: 943
Period size: 121 Copynumber: 5.3 Consensus size: 120
10289199 GTCTAGGAGT
*
10289209 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-TCGTGG
1 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--
* *
10289273 TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
62 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-GGTGCCTCTGTTTAGAGGAGCA
10289333 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
1 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
*
10289398 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTGTCGCCTCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGGT-GCCTCTGTTTAGAGGAGCA
10289454 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
1 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
*
10289519 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TTGGTGCCTCTGTTTAGAGGAGCA
10289575 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAGAGCAATTTACTTTTCAAA
1 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTT--A-GAG-------GAGCAATTTACTTTTCAAA
* * *
10289640 GTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAG
56 GTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT--TGGTGCCTCTGTTTAGAGGAG
10289705 CA
119 CA
* * * * * *
10289707 ATTTACTTTTCAAAGT-TTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTA
1 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TG
10289770 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT--TGGTGCCTCTGTTTAGAGGAGCA
*
10289829 ATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTAC-TTTCC-AAAGTCGTGGTACCTCTGTTTAGAGGAGC
10289871 TTTGGTAAAA
Statistics
Matches: 496, Mismatches: 22, Indels: 39
0.89 0.04 0.07
Matches are distributed among these distances:
120 4 0.01
121 221 0.45
122 72 0.15
123 53 0.11
124 14 0.03
125 21 0.04
128 3 0.01
129 1 0.00
130 1 0.00
131 70 0.14
132 36 0.07
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (120 bp):
ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGGTGCCTCTGTTTAGAGGAGCA
Found at i:10289731 original size:212 final size:213
Alignment explanation
Indices: 10289409--10289833 Score: 771
Period size: 212 Copynumber: 2.0 Consensus size: 213
10289399 CTGTTTAGAG
10289409 GAGCAATTTACTTTTCAAAGTTTGTCGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
1 GAGCAATTTACTTTTCAAAGTTTGTCGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
10289474 GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT
66 GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT
* * * *
10289539 ACTTTTCAAAGT-TTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCT
131 ACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCT
10289603 GTTTAGAGGAGCAATTTA
196 GTTTAGAGGAGCAATTTA
*
10289621 GAGCAATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
1 GAGCAATTTACTTTTCAAAGTTTGTCGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
*
10289686 GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTT
66 GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT
* *
10289751 ACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT
131 ACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCT
10289816 GTTTAGAGGAGCAATTTA
196 GTTTAGAGGAGCAATTTA
10289834 CTTTTCCAAA
Statistics
Matches: 204, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
212 139 0.68
213 65 0.32
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (213 bp):
GAGCAATTTACTTTTCAAAGTTTGTCGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTG
GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT
ACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCT
GTTTAGAGGAGCAATTTA
Found at i:10289894 original size:8 final size:8
Alignment explanation
Indices: 10289877--10289976 Score: 143
Period size: 8 Copynumber: 12.5 Consensus size: 8
10289867 GAGCTTTGGT
10289877 AAAA-AAA
1 AAAACAAA
10289884 AAAACAAA
1 AAAACAAA
10289892 AAAACAAA
1 AAAACAAA
10289900 AAAAC-AA
1 AAAACAAA
10289907 AAAACAAA
1 AAAACAAA
10289915 AAAAC-AA
1 AAAACAAA
10289922 AAAACAAA
1 AAAACAAA
10289930 AAAACAAA
1 AAAACAAA
10289938 AAAACAAAAA
1 AAAAC--AAA
10289948 AAAACAAAA
1 AAAAC-AAA
10289957 AAAACAAA
1 AAAACAAA
*
10289965 AAAACCAA
1 AAAACAAA
10289973 AAAA
1 AAAA
10289977 TGTTGAGTTG
Statistics
Matches: 87, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
7 18 0.21
8 52 0.60
9 9 0.10
10 8 0.09
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:10289900 original size:15 final size:16
Alignment explanation
Indices: 10289877--10289976 Score: 143
Period size: 15 Copynumber: 6.2 Consensus size: 16
10289867 GAGCTTTGGT
10289877 AAAA-AAAAAAACAAA
1 AAAACAAAAAAACAAA
10289892 AAAACAAAAAAAC-AA
1 AAAACAAAAAAACAAA
10289907 AAAACAAAAAAAC-AA
1 AAAACAAAAAAACAAA
10289922 AAAACAAAAAAACAAA
1 AAAACAAAAAAACAAA
10289938 AAAACAAAAAAAAACAAAA
1 AAAAC--AAAAAAAC-AAA
10289957 AAAACAAAAAAACCAAA
1 AAAACAAAAAAA-CAAA
10289974 AAA
1 AAA
10289977 TGTTGAGTTG
Statistics
Matches: 79, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
15 34 0.43
16 15 0.19
17 13 0.16
18 9 0.11
19 8 0.10
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAACAAA
Found at i:10289908 original size:23 final size:24
Alignment explanation
Indices: 10289877--10289976 Score: 143
Period size: 23 Copynumber: 4.2 Consensus size: 24
10289867 GAGCTTTGGT
10289877 AAAA-AAAAAAACAAAAAAACAAA
1 AAAACAAAAAAACAAAAAAACAAA
10289900 AAAAC-AAAAAACAAAAAAAC-AA
1 AAAACAAAAAAACAAAAAAACAAA
10289922 AAAACAAAAAAACAAAAAAACAAAAA
1 AAAACAAAAAAACAAAAAAAC--AAA
*
10289948 AAAACAAAAAAAACAAAAAAACCAA
1 AAAAC-AAAAAAACAAAAAAACAAA
10289973 AAAA
1 AAAA
10289977 TGTTGAGTTG
Statistics
Matches: 70, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
22 7 0.10
23 34 0.49
25 6 0.09
26 7 0.10
27 16 0.23
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAACAAAAAAACAAAAAAACAAA
Found at i:10289976 original size:1 final size:1
Alignment explanation
Indices: 10289877--10289968 Score: 94
Period size: 1 Copynumber: 92.0 Consensus size: 1
10289867 GAGCTTTGGT
* * * * * * *
10289877 AAAAAAAAAAACAAAAAAACAAAAAAACAAAAAACAAAAAAACAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
10289942 CAAAAAAAAACAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
10289969 CCAAAAAATG
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10290072 original size:41 final size:42
Alignment explanation
Indices: 10290015--10290099 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
10290005 ACGTCTTTTC
10290015 GCAATTTACTTTCC-AAAGTCGTGGTACCTCTGTTTAGAGGA
1 GCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGA
*
10290056 GCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 GCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGA
10290098 GC
1 GC
10290100 TTTGGTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 14 0.33
42 28 0.67
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
GCAATTTACTTTCCAAAAGTCGTGGTACCTCTGTTTAGAGGA
Found at i:10290120 original size:9 final size:9
Alignment explanation
Indices: 10290106--10290172 Score: 82
Period size: 9 Copynumber: 7.3 Consensus size: 9
10290096 GAGCTTTGGT
10290106 AAAAACAAA
1 AAAAACAAA
10290115 AAAAACAAA
1 AAAAACAAA
*
10290124 AAAAAAACAA
1 AAAAACA-AA
10290134 AAAAACAAA
1 AAAAACAAA
10290143 AAAAA-ACAA
1 AAAAACA-AA
*
10290152 AAAAATAAA
1 AAAAACAAA
*
10290161 AAAACCAAA
1 AAAAACAAA
10290170 AAA
1 AAA
10290173 TGTTGAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
8 1 0.02
9 41 0.80
10 9 0.18
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (9 bp):
AAAAACAAA
Found at i:10290124 original size:8 final size:8
Alignment explanation
Indices: 10290106--10290172 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
10290096 GAGCTTTGGT
10290106 AAAAACAAA
1 AAAAAC-AA
10290115 AAAAACAA
1 AAAAACAA
10290123 AAAAA-AA
1 AAAAACAA
*
10290130 ACAAA-AA
1 AAAAACAA
*
10290137 AACAA-AA
1 AAAAACAA
10290144 AAAAACAA
1 AAAAACAA
*
10290152 AAAAATAA
1 AAAAACAA
10290160 AAAAACCAA
1 AAAAA-CAA
10290169 AAAA
1 AAAA
10290173 TGTTGAGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
7 17 0.34
8 21 0.42
9 12 0.24
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (8 bp):
AAAAACAA
Found at i:10290135 original size:18 final size:17
Alignment explanation
Indices: 10290106--10290172 Score: 82
Period size: 17 Copynumber: 3.9 Consensus size: 17
10290096 GAGCTTTGGT
* *
10290106 AAAAACAAA-AAAAACA
1 AAAAAAAAACAAAAAAA
10290122 AAAAAAAAACAAAAAAA
1 AAAAAAAAACAAAAAAA
10290139 CAAAAAAAAACAAAAAAA
1 -AAAAAAAAACAAAAAAA
* *
10290157 TAAAAAAACCAAAAAA
1 AAAAAAAAACAAAAAA
10290173 TGTTGAGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
16 8 0.18
17 20 0.44
18 17 0.38
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAA
Done.