Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 28 of 84
Found at i:6399033 original size:12 final size:12
Alignment explanation
Indices: 6399016--6399040 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6399006 GTCTTATGGA
6399016 TGTATATGTTTG
1 TGTATATGTTTG
6399028 TGTATATGTTTG
1 TGTATATGTTTG
6399040 T
1 T
6399041 TTGTGAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TGTATATGTTTG
Found at i:6399094 original size:58 final size:58
Alignment explanation
Indices: 6399004--6399119 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
6398994 GAGAGCATAT
*
6399004 GGGTCTTATGGATGTATATGTTTGTGTATATGTTTGTTTGTGAGTGTACTAAAGGAGA
1 GGGTCTTATGGATGTATATATTTGTGTATATGTTTGTTTGTGAGTGTACTAAAGGAGA
*
6399062 GGGTCTTATGGATGTATATATTTGTGTATATGTTTGTTTGTGAGTGTACTAGAGGAGA
1 GGGTCTTATGGATGTATATATTTGTGTATATGTTTGTTTGTGAGTGTACTAAAGGAGA
6399120 CTGAGAGGGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.22, C:0.03, G:0.31, T:0.43
Consensus pattern (58 bp):
GGGTCTTATGGATGTATATATTTGTGTATATGTTTGTTTGTGAGTGTACTAAAGGAGA
Found at i:6401964 original size:5 final size:5
Alignment explanation
Indices: 6401949--6401992 Score: 70
Period size: 5 Copynumber: 8.6 Consensus size: 5
6401939 GGGAAGATTA
*
6401949 AAAATG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAATG AAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
6401993 CTGTCAGCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (5 bp):
AAAAG
Found at i:6405931 original size:2 final size:2
Alignment explanation
Indices: 6405924--6405948 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6405914 ATCTTCATTT
6405924 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6405949 TTAATTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6407834 original size:22 final size:22
Alignment explanation
Indices: 6407797--6407969 Score: 150
Period size: 22 Copynumber: 7.9 Consensus size: 22
6407787 TTGACAATTT
* * *
6407797 AGTTATTACTGTTTTATTACTA
1 AGTTATTAATGATTTATTATTA
* *
6407819 TGTTATCAATGATTTATTATTA
1 AGTTATTAATGATTTATTATTA
* *
6407841 AATTATTAATGATTTACTATTA
1 AGTTATTAATGATTTATTATTA
*
6407863 AGTTATGAATGATTTATTATTA
1 AGTTATTAATGATTTATTATTA
* * *
6407885 AGTTATTGATGATTTAGTACTA
1 AGTTATTAATGATTTATTATTA
* * * *
6407907 AATTATTAGTAATTTATTATAA
1 AGTTATTAATGATTTATTATTA
* * *
6407929 AGTTA-TAACTAATTTAATATGA
1 AGTTATTAA-TGATTTATTATTA
* *
6407951 AATTATCAATGATTTATTA
1 AGTTATTAATGATTTATTA
6407970 CAAAATTATC
Statistics
Matches: 118, Mismatches: 31, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
21 2 0.02
22 114 0.97
23 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
AGTTATTAATGATTTATTATTA
Found at i:6407880 original size:66 final size:65
Alignment explanation
Indices: 6407809--6407986 Score: 187
Period size: 66 Copynumber: 2.7 Consensus size: 65
6407799 TTATTACTGT
* * *
6407809 TTTATTACTATGTTATCAATGATTTATTATTAAATTATTAATGATTTACTATTAAGTTATGAA-T
1 TTTATTA-TAAGTTATCAATGATTTATTACTAAATTATTAATGATTTACTATAAAGTTAT-AACT
*
6407873 GA
64 AA
** * * * *
6407875 TTTATTATTAAGTTATTGATGATTTAGTACTAAATTATTAGTAATTTATTATAAAGTTATAACTA
1 TTTATTA-TAAGTTATCAATGATTTATTACTAAATTATTAATGATTTACTATAAAGTTATAACTA
6407940 A
65 A
* * * *
6407941 TTTAATATGAAATTATCAATGATTTATTACAAAATTATCAATGATT
1 TTTATTAT-AAGTTATCAATGATTTATTACTAAATTATTAATGATT
6407987 AATAAATTTA
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
65 3 0.03
66 87 0.97
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.48
Consensus pattern (65 bp):
TTTATTATAAGTTATCAATGATTTATTACTAAATTATTAATGATTTACTATAAAGTTATAACTAA
Found at i:6407975 original size:22 final size:22
Alignment explanation
Indices: 6407821--6407986 Score: 147
Period size: 22 Copynumber: 7.5 Consensus size: 22
6407811 TATTACTATG
6407821 TTATCAATGATTTATTATTAAA
1 TTATCAATGATTTATTATTAAA
* * *
6407843 TTATTAATGATTTACTATTAAG
1 TTATCAATGATTTATTATTAAA
* *
6407865 TTATGAATGATTTATTATTAAG
1 TTATCAATGATTTATTATTAAA
** * *
6407887 TTATTGATGATTTAGTACTAAA
1 TTATCAATGATTTATTATTAAA
* * *
6407909 TTATTAGTAATTTATTA-TAAA
1 TTATCAATGATTTATTATTAAA
* * *
6407930 GTTAT-AACTAATTTAATATGAAA
1 -TTATCAA-TGATTTATTATTAAA
**
6407953 TTATCAATGATTTATTACAAAA
1 TTATCAATGATTTATTATTAAA
6407975 TTATCAATGATT
1 TTATCAATGATT
6407987 AATAAATTTA
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
21 5 0.04
22 109 0.92
23 5 0.04
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATCAATGATTTATTATTAAA
Found at i:6408484 original size:22 final size:22
Alignment explanation
Indices: 6408457--6408620 Score: 97
Period size: 22 Copynumber: 7.5 Consensus size: 22
6408447 TATCTTTCAC
*
6408457 TAATTTACTATTAAATTATCA-T
1 TAATTTACTATTAAATTAT-AGA
*
6408479 TAATTTA-TCACTAAATTATAGA
1 TAATTTACT-ATTAAATTATAGA
* * *
6408501 TGATTTACTATTAAGTTATAAA
1 TAATTTACTATTAAATTATAGA
* * * *
6408523 TGATTTATTACTAAATTATTGA
1 TAATTTACTATTAAATTATAGA
* *
6408545 TAATTTATTA-TAAAGTTATTGA
1 TAATTTACTATTAAA-TTATAGA
* *
6408567 TGATTTACTA-TAAAGTTATTGA
1 TAATTTACTATTAAA-TTATAGA
*
6408589 TGATTTACTA-TAAAGTTATTA-A
1 TAATTTACTATTAAA-TTA-TAGA
*
6408611 TAATTAACTA
1 TAATTTACTA
6408621 ATTTATAACT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
21 6 0.05
22 112 0.93
23 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATTTACTATTAAATTATAGA
Found at i:6408509 original size:44 final size:44
Alignment explanation
Indices: 6408457--6408615 Score: 128
Period size: 44 Copynumber: 3.6 Consensus size: 44
6408447 TATCTTTCAC
* *
6408457 TAATTTACTATTAAATTATCATTAATTTATCACTAAATTATAGA
1 TAATTTACTATTAAATTATAAATAATTTATCACTAAATTATAGA
* * * * *
6408501 TGATTTACTATTAAGTTATAAATGATTTATTACTAAATTATTGA
1 TAATTTACTATTAAATTATAAATAATTTATCACTAAATTATAGA
* ** * *
6408545 TAATTTATTA-TAAAGTTATTGATGATTTA-CTA-TAAAGTTATTGA
1 TAATTTACTATTAAA-TTATAAATAATTTATC-ACTAAA-TTATAGA
* *
6408589 TGATTTACTA-TAAAGTTATTAATAATT
1 TAATTTACTATTAAA-TTATAAATAATT
6408616 AACTAATTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 7 0.07
44 88 0.93
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (44 bp):
TAATTTACTATTAAATTATAAATAATTTATCACTAAATTATAGA
Found at i:6408549 original size:66 final size:66
Alignment explanation
Indices: 6408459--6408615 Score: 185
Period size: 66 Copynumber: 2.4 Consensus size: 66
6408449 TCTTTCACTA
* * *
6408459 ATTTACTATTAAA-TTATCATTAATTTATCACTAAA-TTATAGATGATTTACTATTAAGTTATAA
1 ATTTACTA-TAAAGTTATTAATAATTTATCA-TAAAGTTATAGATGATTTACTATAAAGTTATAA
6408522 ATG
64 ATG
* * * * **
6408525 ATTTATTACTAAA-TTATTGATAATTTATTATAAAGTTATTGATGATTTACTATAAAGTTATTGA
1 ATTTACTA-TAAAGTTATTAATAATTTATCATAAAGTTATAGATGATTTACTATAAAGTTATAAA
6408589 TG
65 TG
6408591 ATTTACTATAAAGTTATTAATAATT
1 ATTTACTATAAAGTTATTAATAATT
6408616 AACTAATTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 8 0.10
66 69 0.90
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (66 bp):
ATTTACTATAAAGTTATTAATAATTTATCATAAAGTTATAGATGATTTACTATAAAGTTATAAAT
G
Found at i:6408629 original size:11 final size:11
Alignment explanation
Indices: 6408615--6408676 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
6408605 TATTAATAAT
6408615 TAACTAATTTA
1 TAACTAATTTA
*
6408626 TAACTAAATTA
1 TAACTAATTTA
* * *
6408637 TCATTGATTTA
1 TAACTAATTTA
* *
6408648 TAATTAAATTA
1 TAACTAATTTA
* *
6408659 TCACTGATTTA
1 TAACTAATTTA
6408670 TAACTAA
1 TAACTAA
6408677 GTTTTCAGTG
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (11 bp):
TAACTAATTTA
Found at i:6408691 original size:22 final size:22
Alignment explanation
Indices: 6408621--6408676 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
6408611 TAATTAACTA
*
6408621 ATTTATAACTAAATTATCATTG
1 ATTTATAACTAAATTATCACTG
*
6408643 ATTTATAATTAAATTATCACTG
1 ATTTATAACTAAATTATCACTG
6408665 ATTTATAACTAA
1 ATTTATAACTAA
6408677 GTTTTCAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTTATAACTAAATTATCACTG
Found at i:6408724 original size:22 final size:22
Alignment explanation
Indices: 6408621--6408724 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
6408611 TAATTAACTA
* *
6408621 ATTTATAACTAAATTATCATTG
1 ATTTATAACTAAGTTATCAGTG
* * *
6408643 ATTTATAATTAAATTATCACTG
1 ATTTATAACTAAGTTATCAGTG
*
6408665 ATTTATAACTAAGTTTTCAGTG
1 ATTTATAACTAAGTTATCAGTG
* * * *
6408687 TTTTACT-ATTATGTTATTAGTG
1 ATTTA-TAACTAAGTTATCAGTG
*
6408709 ATTTATTACTAAGTTA
1 ATTTATAACTAAGTTA
6408725 ACGATAATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
21 1 0.02
22 64 0.97
23 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTATAACTAAGTTATCAGTG
Found at i:6408974 original size:22 final size:22
Alignment explanation
Indices: 6408930--6408992 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
6408920 GCTATCACTA
*
6408930 ATTTACTAC-AAAGTTTTCAATG
1 ATTTACTACTAAA-TTATCAATG
*
6408952 ATTTACTACTAAATTATCCATG
1 ATTTACTACTAAATTATCAATG
* * *
6408974 ATTAACTATTAAGTTATCA
1 ATTTACTACTAAATTATCA
6408993 TTTTTTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATG
Found at i:6409063 original size:22 final size:22
Alignment explanation
Indices: 6409007--6409064 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
6408997 TTTTATGAAG
* * * *
6409007 TTATCATTAATTTACAACTTTG
1 TTATAATTGATTTACAACTATA
*
6409029 TTATTA-TGTATTTACAACTATA
1 TTATAATTG-ATTTACAACTATA
6409051 TTATAATTGATTTA
1 TTATAATTGATTTA
6409065 TTATTAAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.03
22 26 0.90
23 2 0.07
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATAATTGATTTACAACTATA
Found at i:6409076 original size:22 final size:22
Alignment explanation
Indices: 6409051--6409218 Score: 75
Period size: 22 Copynumber: 7.6 Consensus size: 22
6409041 TACAACTATA
*
6409051 TTATAATTGATTTATTATTAAG
1 TTATAATTGATTTACTATTAAG
* *
6409073 TTATTA-TGCATTTACGATTATA-
1 TTATAATTG-ATTTACTATTA-AG
* * *
6409095 TTATTACTGATTAACTATTAA-
1 TTATAATTGATTTACTATTAAG
*
6409116 TT-T-ATTGATGATTATTATTAAG
1 TTATAATTGAT--TTACTATTAAG
* *
6409138 TTAT-ATTGATTTACTGTTAAT
1 TTATAATTGATTTACTATTAAG
*
6409159 TTTTAATT-ATTAATTACTACTT-AG
1 TTATAATTGA-T--TTACTA-TTAAG
*
6409183 TTATAAATT-ATTTACTATTAAA
1 TTAT-AATTGATTTACTATTAAG
* *
6409205 TTATCATTTATTTA
1 TTATAATTGATTTA
6409219 TTACTAAGCT
Statistics
Matches: 114, Mismatches: 17, Indels: 30
0.71 0.11 0.19
Matches are distributed among these distances:
19 5 0.04
20 1 0.01
21 30 0.26
22 51 0.45
23 10 0.09
24 10 0.09
25 7 0.06
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.54
Consensus pattern (22 bp):
TTATAATTGATTTACTATTAAG
Found at i:6409076 original size:44 final size:44
Alignment explanation
Indices: 6409028--6409121 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
6409018 TTACAACTTT
* * * *
6409028 GTTATTATGTATTTACAACTATATTATAATTGATTTATTATTAA
1 GTTATTATGCATTTACAACTATATTATAACTGATTAACTATTAA
* * *
6409072 GTTATTATGCATTTACGATTATATTATTACTGATTAACTATTAA
1 GTTATTATGCATTTACAACTATATTATAACTGATTAACTATTAA
*
6409116 TTTATT
1 GTTATT
6409122 GATGATTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.52
Consensus pattern (44 bp):
GTTATTATGCATTTACAACTATATTATAACTGATTAACTATTAA
Found at i:6409499 original size:22 final size:22
Alignment explanation
Indices: 6409474--6409565 Score: 107
Period size: 22 Copynumber: 4.2 Consensus size: 22
6409464 ATTGAATCTT
*
6409474 ATTTATTATTAAGTTATCATTG
1 ATTTATTATTAAGTTATCATTA
* *
6409496 ATTTATCATTAAGTTATCAATA
1 ATTTATTATTAAGTTATCATTA
* *
6409518 ATTAACTATTAAGTTATCACTT-
1 ATTTATTATTAAGTTATCA-TTA
*
6409540 ATTT-TTATTAAGTTATCCTTA
1 ATTTATTATTAAGTTATCATTA
6409561 ATTTA
1 ATTTA
6409566 CTACTATGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.04
21 16 0.28
22 38 0.67
23 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCATTA
Found at i:6409512 original size:11 final size:11
Alignment explanation
Indices: 6409476--6409536 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
6409466 TGAATCTTAT
*
6409476 TTATTATTAAG
1 TTATCATTAAG
* *
6409487 TTATCATTGAT
1 TTATCATTAAG
6409498 TTATCATTAAG
1 TTATCATTAAG
*
6409509 TTATCAATAA-
1 TTATCATTAAG
*
6409519 TTAACTATTAAG
1 TTATC-ATTAAG
6409531 TTATCA
1 TTATCA
6409537 CTTATTTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 4 0.10
11 31 0.79
12 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (11 bp):
TTATCATTAAG
Found at i:6409658 original size:22 final size:22
Alignment explanation
Indices: 6409603--6409660 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6409593 TGTATAAATC
*
6409603 ATTTACTATTAAGTTATTTGTT
1 ATTTACTATTATGTTATTTGTT
*
6409625 ATTTCCTATTATGTTATTATG-T
1 ATTTACTATTATGTTATT-TGTT
*
6409647 ATTTATTATTATGT
1 ATTTACTATTATGT
6409661 CATCGTACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (22 bp):
ATTTACTATTATGTTATTTGTT
Found at i:6409708 original size:22 final size:22
Alignment explanation
Indices: 6409676--6409759 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
6409666 TACAACTATT
* *
6409676 TTATTAATTATTTACTATTAAA
1 TTATTATTTATTTACTATTAAG
*
6409698 TTATTATTTATTTACAATTAAG
1 TTATTATTTATTTACTATTAAG
*
6409720 TTATTA-TTATTCTATTATTAAG
1 TTATTATTTATT-TACTATTAAG
*
6409742 TTATTCATAT-TTTACTAT
1 TTATT-ATTTATTTACTAT
6409760 ACTGTTATCA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.10
22 43 0.83
23 3 0.06
24 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTATTTATTTACTATTAAG
Found at i:6411664 original size:23 final size:24
Alignment explanation
Indices: 6411637--6411683 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
6411627 ACTATTTCTC
*
6411637 AATAATATTTTTAT-AA-TTTAATT
1 AATAAT-TTTGTATGAACTTTAATT
6411660 AATAATTTTGTATGAACTTTAATT
1 AATAATTTTGTATGAACTTTAATT
6411684 TTAATTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATAATTTTGTATGAACTTTAATT
Found at i:6412277 original size:37 final size:37
Alignment explanation
Indices: 6412227--6412305 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
6412217 GAATACAAAA
**
6412227 ATATTCTAGAGCATTCTTAATTGAAAAAAATAATTTT
1 ATATTCTAGAGCATTCTTAATTGAAAAAAATAAAATT
*
6412264 ATATTTTAGAGCATTCTTAATTGAAAAAAATAAAATT
1 ATATTCTAGAGCATTCTTAATTGAAAAAAATAAAATT
6412301 ATATT
1 ATATT
6412306 ATTCAAGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (37 bp):
ATATTCTAGAGCATTCTTAATTGAAAAAAATAAAATT
Found at i:6413578 original size:152 final size:151
Alignment explanation
Indices: 6413418--6413708 Score: 376
Period size: 152 Copynumber: 1.9 Consensus size: 151
6413408 AATTGATTTA
* *
6413418 AATTTAAATAATTAACAAATAAAAACTACT-TATTTAATGACAAATAATCTTTATTAAATAAATG
1 AATTTAAATAATTAACAAATAAAAACTA-TATATTTAATGAAAAATAATCTTTATTAAATAAATA
* *
6413482 AATAAATGCTAAAAATTTAAA-AGTAAATTT-TTTATTT-TTTAAAATTTAT-AAAGATATTTAT
65 AAAAAAT--TAAAAATTTAAAGA-TAAATTTGTTT-TTTCTTT-AAATTTATAAAAAATATTTAT
6413543 GTTATTCACTTTTAACACTTTTGGATT
125 GTTATTCACTTTTAACACTTTTGGATT
* ** ** * *
6413570 AATTTAAATAATTAACTAATAAATGCTATATATTTAATGAAAAATTTTTTTTATTACATAAATAA
1 AATTTAAATAATTAACAAATAAAAACTATATATTTAATGAAAAATAATCTTTATTAAATAAATAA
*
6413635 AAAAATTAGAAATTTAAAGATAAATTTGTTTTTTCTTTAAATTTATAAAAAATATTTATGTTATT
66 AAAAATTAAAAATTTAAAGATAAATTTGTTTTTTCTTTAAATTTATAAAAAATATTTATGTTATT
*
6413700 CATTTTTAA
131 CACTTTTAA
6413709 TAGTTTTGAA
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
150 29 0.24
151 33 0.27
152 59 0.49
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (151 bp):
AATTTAAATAATTAACAAATAAAAACTATATATTTAATGAAAAATAATCTTTATTAAATAAATAA
AAAAATTAAAAATTTAAAGATAAATTTGTTTTTTCTTTAAATTTATAAAAAATATTTATGTTATT
CACTTTTAACACTTTTGGATT
Found at i:6418815 original size:2 final size:2
Alignment explanation
Indices: 6418808--6418854 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6418798 GCATTCATAG
6418808 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6418850 GA GA G
1 GA GA G
6418855 CATGTCAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6430988 original size:7 final size:8
Alignment explanation
Indices: 6430976--6431010 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
6430966 TTGATCATTC
6430976 TTTTATT-
1 TTTTATTA
6430983 TTTTATTA
1 TTTTATTA
6430991 TTTTATTA
1 TTTTATTA
6430999 TTATTATTA
1 TT-TTATTA
6431008 TTT
1 TTT
6431011 GGTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.27
8 11 0.42
9 8 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:6431007 original size:17 final size:15
Alignment explanation
Indices: 6430976--6431010 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
6430966 TTGATCATTC
6430976 TTTTATTTTTTATTA
1 TTTTATTTTTTATTA
6430991 TTTTATTATTATTATTA
1 TTTTATT-TT-TTATTA
6431008 TTT
1 TTT
6431011 GGTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 9 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTTTTTATTA
Found at i:6431865 original size:18 final size:18
Alignment explanation
Indices: 6431844--6431888 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6431834 ATTTTTTTGG
*
6431844 TATTT-TTTAGTATTTGTT
1 TATTTATTT-GTATGTGTT
*
6431862 TATTTATTTTTATGTGTT
1 TATTTATTTGTATGTGTT
6431880 TATTTATTT
1 TATTTATTT
6431889 TTGTTCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (18 bp):
TATTTATTTGTATGTGTT
Found at i:6431885 original size:22 final size:21
Alignment explanation
Indices: 6431847--6431888 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6431837 TTTTTGGTAT
*
6431847 TTTTTAGTATTTGTTTATTTA
1 TTTTTAGTATTTATTTATTTA
*
6431868 TTTTTATGTGTTTATTTATTT
1 TTTTTA-GTATTTATTTATTT
6431889 TTGTTCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.74
Consensus pattern (21 bp):
TTTTTAGTATTTATTTATTTA
Found at i:6432373 original size:55 final size:56
Alignment explanation
Indices: 6432257--6432373 Score: 166
Period size: 54 Copynumber: 2.1 Consensus size: 56
6432247 TCAATAGGCC
* * *
6432257 CAAAAAAATAACAAAAATTTTTTTAAATAGGTCCAAATGGTGAAAAATTTAGAAAT
1 CAAAAAAAGAACAAAAATATTTTTAAATAGGCCCAAATGGTGAAAAATTTAGAAAT
* *
6432313 AAAAAAAAGAA-AAAAA-ATTTTTAAATAGGCCCAAATGGTGAAAAGTTTAGAAATT
1 CAAAAAAAGAACAAAAATATTTTTAAATAGGCCCAAATGGTGAAAAATTTAGAAA-T
6432368 CAAAAA
1 CAAAAA
6432374 GATAAAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
54 34 0.63
55 11 0.20
56 9 0.17
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (56 bp):
CAAAAAAAGAACAAAAATATTTTTAAATAGGCCCAAATGGTGAAAAATTTAGAAAT
Found at i:6436344 original size:60 final size:60
Alignment explanation
Indices: 6436276--6436438 Score: 190
Period size: 60 Copynumber: 2.7 Consensus size: 60
6436266 TGCTTTTATA
* *
6436276 CAAGAAAAATTGATACTTTCAACTTTTCTTTAAAATA-TTTTTCT-TGATAATTTTTATTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTTCTCTGA-AA-TTTTA-ATTT
* * * * *
6436337 TAA-AAAAATTGGTATTTTCAACTTTT-TCTCAAAATATTTTTTTTCTGAAATTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCT-TCAAAATACTTTTTCTCTGAAATTTTAATTT
*
6436396 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTT
6436439 GAAAAATTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
59 6 0.07
60 67 0.78
61 10 0.12
62 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (60 bp):
CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTTCTCTGAAATTTTAATTT
Found at i:6436457 original size:14 final size:15
Alignment explanation
Indices: 6436440--6436473 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6436430 ATACTTTTTG
6436440 AAAAATTTA-TTTAA
1 AAAAATTTACTTTAA
*
6436454 AAAATTTTACTTTAA
1 AAAAATTTACTTTAA
6436469 AAAAA
1 AAAAA
6436474 AATTGATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATTTACTTTAA
Found at i:6436475 original size:71 final size:73
Alignment explanation
Indices: 6436384--6436530 Score: 201
Period size: 71 Copynumber: 2.0 Consensus size: 73
6436374 TTTTTTTCTG
* * *
6436384 AAATTTTAATTTCAAGAAAAATTGATACTTTCAAC-TTT-TCCTCAAAATACTTTTTGAAAAATT
1 AAATTTTAATTTAAAAAAAAATTGATACTTTCAACTTTTCTCCT-AAAATACTTTTAGAAAAATT
6436447 TATTTAA-A
65 TATTTAAGA
* * **
6436455 AAATTTTACTTTAAAAAAAAATTGATACTTTCAACTTTTCTCCTAAAATGCTTTTAGAAATTTTT
1 AAATTTTAATTTAAAAAAAAATTGATACTTTCAACTTTTCTCCTAAAATACTTTTAGAAAAATTT
6436520 ATTTAAGA
66 ATTTAAGA
6436528 AAA
1 AAA
6436531 ATTGATACTT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
71 32 0.48
72 26 0.39
73 8 0.12
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (73 bp):
AAATTTTAATTTAAAAAAAAATTGATACTTTCAACTTTTCTCCTAAAATACTTTTAGAAAAATTT
ATTTAAGA
Found at i:6436537 original size:56 final size:58
Alignment explanation
Indices: 6436471--6436590 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 58
6436461 TACTTTAAAA
**
6436471 AAAAATTGATACTTTCAACTTTT-CTCCTAAA-A-TGCTTTTAGAAATTTTTATTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTG-TTTTAGAAATTTTTATTTAAG
* *
6436527 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGAAATTTTTATTTTAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTAGAAATTTTTATTTAAG
6436585 AAAAAT
1 AAAAAT
6436591 CACTAAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
56 23 0.40
57 6 0.11
58 26 0.46
59 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTAGAAATTTTTATTTAAG
Found at i:6436638 original size:17 final size:18
Alignment explanation
Indices: 6436607--6436643 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6436597 AAAATAAAAT
*
6436607 AAAATTAGAATAAAATTA
1 AAAATTAGAAAAAAATTA
6436625 AAAATTA-AAAAAAATTA
1 AAAATTAGAAAAAAATTA
6436642 AA
1 AA
6436644 GAATACCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAATTAGAAAAAAATTA
Found at i:6436712 original size:3 final size:3
Alignment explanation
Indices: 6436706--6436758 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6436696 CAACAACAAC
6436706 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6436754 AAT AA
1 AAT AA
6436759 ATAAAAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6437576 original size:3 final size:3
Alignment explanation
Indices: 6437568--6437675 Score: 91
Period size: 3 Copynumber: 36.7 Consensus size: 3
6437558 AATTAATCAA
* *
6437568 AAT AAT AAT AAT AAT AAT -AT AAT AGT AAAT AAT AAA AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT
* * * * *
6437614 AA- ACA- AAA AAT AAT AAT AA- AAT AAA AAA AAT AAT GAT AAT AAA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6437657 AAT AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
6437676 ATAAAAAAGG
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
2 8 0.09
3 74 0.85
4 5 0.06
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:6437616 original size:20 final size:19
Alignment explanation
Indices: 6437567--6437676 Score: 122
Period size: 20 Copynumber: 5.8 Consensus size: 19
6437557 AAATTAATCA
*
6437567 AAATAATAATAATAATAAT
1 AAATAATAATAATAAAAAT
*
6437586 ATAATAGTAAATAATAAAAAT
1 A-AATAAT-AATAATAAAAAT
6437607 AAATAATAA-ACA-AAAAAT
1 AAATAATAATA-ATAAAAAT
6437625 -AATAATAA-AATAAAAA-
1 AAATAATAATAATAAAAAT
*
6437641 AAATAATGATAATAAAAAT
1 AAATAATAATAATAAAAAT
6437660 AAAATAATAATAATAAA
1 -AAATAATAATAATAAA
6437677 TAAAAAAGGC
Statistics
Matches: 78, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
16 1 0.01
17 21 0.27
18 15 0.19
19 4 0.05
20 25 0.32
21 12 0.15
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.25
Consensus pattern (19 bp):
AAATAATAATAATAAAAAT
Found at i:6437854 original size:14 final size:13
Alignment explanation
Indices: 6437828--6437866 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 13
6437818 AACTTGACAC
6437828 TTTTTTTTGTTTTG
1 TTTTTTTT-TTTTG
6437842 TTGTTTTTTTTTTG
1 TT-TTTTTTTTTTG
6437856 TTTTTTTTTTT
1 TTTTTTTTTTT
6437867 GGGTTAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 9 0.38
15 6 0.25
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:6438030 original size:45 final size:45
Alignment explanation
Indices: 6437901--6438104 Score: 184
Period size: 45 Copynumber: 4.6 Consensus size: 45
6437891 TCCTAAGCAA
* ** ** *
6437901 AGGCTCAACAACTTTGGAA-AAATAAACAAAGCTTTTCTAATCAG
1 AGGCTCAATAACTTTTAAAGAAATAAACAAAGCTCATCTAAACAG
* * *
6437945 A-GCTTCAATGACTTTTAAAAAAAATAAATAAAGCTCATCTAAACAG
1 AGGC-TCAATAACTTTT-AAAGAAATAAACAAAGCTCATCTAAACAG
* * *
6437991 AGGCTCTACAACTTTTAAAGAAATAAACAAAGCTCATCTAAGCAG
1 AGGCTCAATAACTTTTAAAGAAATAAACAAAGCTCATCTAAACAG
* * * * * *
6438036 AGACTCATTGACTTTTGAAGAAAT--A-AATGCTCCTCTAAACAG
1 AGGCTCAATAACTTTTAAAGAAATAAACAAAGCTCATCTAAACAG
*
6438078 AGGCTCCATAACTTTTAAAGAAATAAA
1 AGGCTCAATAACTTTTAAAGAAATAAA
6438105 TGCTCCTCTA
Statistics
Matches: 126, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
42 33 0.26
43 3 0.02
44 11 0.09
45 46 0.37
46 31 0.25
47 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (45 bp):
AGGCTCAATAACTTTTAAAGAAATAAACAAAGCTCATCTAAACAG
Found at i:6438092 original size:42 final size:41
Alignment explanation
Indices: 6437970--6438218 Score: 202
Period size: 42 Copynumber: 5.9 Consensus size: 41
6437960 TAAAAAAAAT
* *
6437970 AAATAAA-GCTCATCTAAACAGAGGCTCTACAACTTTTAAAG
1 AAATAAATGCTCCTCTAAACAGAGGCTCCACAACTTTT-AAG
* * * * **
6438011 AAATAAACAAAGCTCATCTAAGCAGAGACT-CATTGACTTTTGAAG
1 AAAT--A-AATGCTCCTCTAAACAGAGGCTCCA-CAACTTTT-AAG
*
6438056 AAATAAATGCTCCTCTAAACAGAGGCTCCATAACTTTTAAAG
1 AAATAAATGCTCCTCTAAACAGAGGCTCCACAACTTTT-AAG
* * *
6438098 AAATAAATGCTCCTCTAAACAGAGGCAACCACGAC-TTTAAA
1 AAATAAATGCTCCTCTAAACAGAGGC-TCCACAACTTTTAAG
** *
6438139 AAATAAATTGCTCCTCTAAACAGAGG-TAACCATGAC-TTTAAA
1 AAATAAA-TGCTCCTCTAAACAGAGGCT--CCACAACTTTTAAG
* *
6438181 AAATAAATTGTTCCTCTAAACAGAGGCACCACAACTTT
1 AAATAAA-TGCTCCTCTAAACAGAGGCTCCACAACTTT
6438219 GAAAATAAAT
Statistics
Matches: 174, Mismatches: 22, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
41 18 0.10
42 114 0.66
43 9 0.05
44 3 0.02
45 30 0.17
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (41 bp):
AAATAAATGCTCCTCTAAACAGAGGCTCCACAACTTTTAAG
Found at i:6438103 original size:87 final size:89
Alignment explanation
Indices: 6437901--6438104 Score: 245
Period size: 87 Copynumber: 2.3 Consensus size: 89
6437891 TCCTAAGCAA
* ** ** *
6437901 AGGCTCAACAACTTTGGAA-AAATAAACAAAGCTTTTCTAATCAGAGCTTCAATGACTTTTAAAA
1 AGGCTCCACAACTTTTAAAGAAATAAACAAAGCTCATCTAAGCAGAGCTTCAATGACTTTTAAAA
6437965 AAAATAAATAAAGCTCATCTAAACAG
66 AAAATAAAT--AGCTCATCTAAACAG
* * *
6437991 AGGCTCTACAACTTTTAAAGAAATAAACAAAGCTCATCTAAGCAGAGAC-TCATTGACTTTT-GA
1 AGGCTCCACAACTTTTAAAGAAATAAACAAAGCTCATCTAAGCAGAG-CTTCAATGACTTTTAAA
* *
6438054 AGAAATAAAT-GCTCCTCTAAACAG
65 AAAAATAAATAGCTCATCTAAACAG
*
6438078 AGGCTCCATAACTTTTAAAGAAATAAA
1 AGGCTCCACAACTTTTAAAGAAATAAA
6438105 TGCTCCTCTA
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 38 0.38
90 26 0.26
91 35 0.35
92 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (89 bp):
AGGCTCCACAACTTTTAAAGAAATAAACAAAGCTCATCTAAGCAGAGCTTCAATGACTTTTAAAA
AAAATAAATAGCTCATCTAAACAG
Found at i:6438179 original size:84 final size:82
Alignment explanation
Indices: 6438056--6438229 Score: 239
Period size: 84 Copynumber: 2.1 Consensus size: 82
6438046 ACTTTTGAAG
6438056 AAATAAA-TGCTCCTCTAAACAGAGGCTCCATAACTTTTAAAGAAATAAA-TGCTCCTCTAAACA
1 AAATAAATTGCTCCTCTAAACAGAGGCTCCATAACTTTTAAA-AAATAAATTGCTCCTCTAAACA
*
6438119 GAGGCAACCACGACTTTAAA
65 GAGGC-ACCACAACTTT-AA
* *
6438139 AAATAAATTGCTCCTCTAAACAGAGG-TAACCATGAC-TTTAAAAAATAAATTGTTCCTCTAAAC
1 AAATAAATTGCTCCTCTAAACAGAGGCT--CCATAACTTTTAAAAAATAAATTGCTCCTCTAAAC
*
6438202 AGAGGCACCACAACTTTGA
64 AGAGGCACCACAACTTTAA
6438221 AAATAAATT
1 AAATAAATT
6438230 AATGCTCTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
82 10 0.12
83 25 0.30
84 42 0.51
85 6 0.07
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (82 bp):
AAATAAATTGCTCCTCTAAACAGAGGCTCCATAACTTTTAAAAAATAAATTGCTCCTCTAAACAG
AGGCACCACAACTTTAA
Found at i:6449711 original size:73 final size:73
Alignment explanation
Indices: 6449601--6449745 Score: 202
Period size: 73 Copynumber: 2.0 Consensus size: 73
6449591 AAAATAAAAT
* * **
6449601 AAAAATATTTTTTTTGAAATTTTAATTTCAAGAAAAATTGATACTTTCAACATTTTTCCTTAAAA
1 AAAAATATTATTTTAGAAATTTTAATTTCAAGAAAAATTGATACTTTCAAC-TTTTTCCAAAAAA
6449666 TAATTTTTG
65 TAATTTTTG
* * *
6449675 AAAAAT-TTATTTTAGAAATTTTACTTTCGAGGAAAATTGATACTTTCAACTTTTTCCAAAAAAT
1 AAAAATATTATTTTAGAAATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCCAAAAAAT
*
6449739 ATTTTTT
66 AATTTTT
6449746 TTGAAATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 18 0.29
73 39 0.62
74 6 0.10
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (73 bp):
AAAAATATTATTTTAGAAATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCCAAAAAAT
AATTTTTG
Found at i:6449770 original size:59 final size:58
Alignment explanation
Indices: 6449675--6449944 Score: 251
Period size: 59 Copynumber: 4.6 Consensus size: 58
6449665 ATAATTTTTG
* * * ** *
6449675 AAAAAT-TTATTTTAGAAATTTTACTTTCGAGGAAAATTGATACTTTCAACTTTTTCC
1 AAAAATATTTTTTTAAAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTTCC
** *
6449732 AAAAAATATTTTTTTTGAAATTTTAATTTTAAGAAAAATTAATACTTTCAACTTTTCTCC
1 -AAAAATATTTTTTTAAAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTT-TCC
* *** * * **
6449792 AAAAATATATTTTTAAGCCTTTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTTTT
1 AAAAATATTTTTTTAAAAATTTTAATTTT-AAGAAAAATTGATACTTTCAACTTT-TTCC
** *
6449852 AAAAATA--TTTTTAAAAAAATT-ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATATTTTTTTAAAAATTTTAATTTT-AAGAAAAATTGATACTTTCAACTTTTTC-C
* * *
6449909 AAAAATATATTTTTAAAAATTTTTATTTTAGGAAAA
1 AAAAATATTTTTTTAAAAATTTTAATTTTAAGAAAA
6449945 TCACTGAAAG
Statistics
Matches: 174, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
56 1 0.01
57 37 0.21
58 15 0.09
59 81 0.47
60 39 0.22
61 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAAATATTTTTTTAAAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTTCC
Found at i:6449875 original size:15 final size:16
Alignment explanation
Indices: 6449852--6449888 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6449842 ACTTTCTTTT
*
6449852 AAAAA-TATTTTTAA-
1 AAAAATTATTTTCAAG
6449866 AAAAATTATTTTCAAG
1 AAAAATTATTTTCAAG
6449882 AAAAATT
1 AAAAATT
6449889 GATACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATTATTTTCAAG
Found at i:6449932 original size:117 final size:118
Alignment explanation
Indices: 6449675--6449945 Score: 308
Period size: 117 Copynumber: 2.3 Consensus size: 118
6449665 ATAATTTTTG
* * * *
6449675 AAAAATTTA-TTTTAGAAA-TTTTACTTTCGAGGAAAATTGATACTTTCAACTTTTTCCAAAAAA
1 AAAAATATATTTTTAAAAATTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCCAAAAAA
** **
6449738 TATTTTTTTTGAAATTTTAATTTTAAGAAAAATTAATACTTTCAACTTTTCTCC
66 TA-TTTTTTAAAAAAATTAATTTTAAGAAAAATTAATACTTTCAACTTTTCTCC
*** **
6449792 AAAAATATATTTTTAAGCCTTTTTATTTTCAA-GAGAAATTGATACTTTCAACTTTCTT-TTAAA
1 AAAAATATATTTTTAAAAATTTTTATTTTCAAGGA-AAATTGATACTTTCAACTTT-TTCCAAAA
*
6449855 AATA-TTTTTAAAAAAATT-ATTTTCAAGAAAAATTGATACTTTCAACTTTTC-CTC
64 AATATTTTTTAAAAAAATTAATTTT-AAGAAAAATTAATACTTTCAACTTTTCTC-C
6449909 AAAAATATATTTTTAAAAATTTTTATTTT--AGGAAAAT
1 AAAAATATATTTTTAAAAATTTTTATTTTCAAGGAAAAT
6449946 CACTGAAAGA
Statistics
Matches: 130, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
115 5 0.04
116 8 0.06
117 71 0.55
118 7 0.05
119 37 0.28
120 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (118 bp):
AAAAATATATTTTTAAAAATTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCCAAAAAA
TATTTTTTAAAAAAATTAATTTTAAGAAAAATTAATACTTTCAACTTTTCTCC
Found at i:6449976 original size:16 final size:15
Alignment explanation
Indices: 6449955--6450021 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
6449945 TCACTGAAAG
6449955 AAATAAAATAAAATAA
1 AAATAAAA-AAAATAA
* *
6449971 AAATAAAATAGAATGA
1 AAATAAAA-AAAATAA
* *
6449987 AATTAAAAATAA-AA
1 AAATAAAAAAAATAA
*
6450001 AAATAAAAAAATTAA
1 AAATAAAAAAAATAA
6450016 AGAATA
1 A-AATA
6450022 CCCAAATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 10 0.24
15 6 0.15
16 25 0.61
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (15 bp):
AAATAAAAAAAATAA
Found at i:6450323 original size:14 final size:15
Alignment explanation
Indices: 6450306--6450335 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6450296 TCAGATGCTT
6450306 TCTTT-CCCTTTCTC
1 TCTTTCCCCTTTCTC
6450320 TCTTTCCCCTTTCTC
1 TCTTTCCCCTTTCTC
6450335 T
1 T
6450336 AGCAGAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TCTTTCCCCTTTCTC
Found at i:6450835 original size:3 final size:3
Alignment explanation
Indices: 6450829--6450905 Score: 52
Period size: 3 Copynumber: 25.7 Consensus size: 3
6450819 ATCAAAAAAA
* * *
6450829 AAT AAT AA- ATAT AAT AGT AAAT AAT AAT ATT AAAT AAT AA- AAA AAT
1 AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * *
6450875 AAT AAT GAC AAT AAA AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6450906 ATAAAAAAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
2 5 0.09
3 47 0.82
4 5 0.09
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:6450851 original size:7 final size:7
Alignment explanation
Indices: 6450828--6450909 Score: 57
Period size: 7 Copynumber: 11.9 Consensus size: 7
6450818 AATCAAAAAA
6450828 AAATAAT
1 AAATAAT
6450835 AAAT-AT
1 AAATAAT
*
6450841 -AATAGT
1 AAATAAT
6450847 AAATAAT
1 AAATAAT
*
6450854 -AATATT
1 AAATAAT
6450860 AAATAAT
1 AAATAAT
*
6450867 AAA-AAA
1 AAATAAT
6450873 ATAATAAT
1 A-AATAAT
6450881 GACAATAA-
1 -A-AATAAT
*
6450889 AAATAAA
1 AAATAAT
6450896 ATAATAAT
1 A-AATAAT
6450904 AAATAA
1 AAATAA
6450910 AAAAGACCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 3 0.05
6 16 0.27
7 26 0.44
8 8 0.14
9 6 0.10
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:6450887 original size:23 final size:21
Alignment explanation
Indices: 6450824--6450913 Score: 87
Period size: 23 Copynumber: 4.2 Consensus size: 21
6450814 AATCAATCAA
*
6450824 AAAAAAATAATAA-ATATAAT
1 AAAAAAATAATAATAAATAAT
* *
6450844 AGTAAATAATAATATTAAATAAT
1 A--AAAAAATAATAATAAATAAT
6450867 AAAAAAATAATAATGACAATAA-
1 AAAAAAATAATAAT-A-AATAAT
6450889 AAATAAAATAATAATAAATAA-
1 AAA-AAAATAATAATAAATAAT
6450910 AAAA
1 AAAA
6450914 GACCCATCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
20 2 0.03
21 19 0.32
22 15 0.25
23 23 0.39
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAAAATAATAATAAATAAT
Found at i:6450905 original size:40 final size:44
Alignment explanation
Indices: 6450824--6450913 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 44
6450814 AATCAATCAA
* * *
6450824 AAAAAAATAATAAATATAATAGTAAATAATAATATTAAAT-AAT
1 AAAAAAATAATAAATACAATAGAAAATAATAATAATAAATAAAT
6450867 AAAAAAATAAT-AATGACAATA-AAAATAA-AATAAT-AATAAAT
1 AAAAAAATAATAAAT-ACAATAGAAAATAATAATAATAAATAAAT
6450908 AAAAAA
1 AAAAAA
6450914 GACCCATCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 3 0.07
41 14 0.33
42 9 0.21
43 16 0.38
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (44 bp):
AAAAAAATAATAAATACAATAGAAAATAATAATAATAAATAAAT
Found at i:6450911 original size:20 final size:20
Alignment explanation
Indices: 6450822--6450913 Score: 94
Period size: 21 Copynumber: 4.3 Consensus size: 20
6450812 AAAATCAATC
6450822 AAAAAAAAATAATAAATATAAT
1 AAAAAAAAATAAT-AATA-AAT
** * *
6450844 AGTAAATAATAATATTAAAT
1 AAAAAAAAATAATAATAAAT
6450864 AATAAAAAAATAATAATGACAAT
1 AA-AAAAAAATAATAAT-A-AAT
6450887 AAAAATAAAATAATAATAAAT
1 AAAAA-AAAATAATAATAAAT
6450908 AAAAAA
1 AAAAAA
6450914 GACCCATCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.09
21 22 0.38
22 15 0.26
23 16 0.28
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAAAAATAATAATAAAT
Found at i:6451576 original size:10 final size:9
Alignment explanation
Indices: 6451557--6451632 Score: 82
Period size: 9 Copynumber: 8.1 Consensus size: 9
6451547 CTAATGAATG
6451557 AAAAAAGAA
1 AAAAAAGAA
*
6451566 AAAAAAGGA
1 AAAAAAGAA
6451575 AAAAAAGAA
1 AAAAAAGAA
6451584 AAAAAAGAA
1 AAAAAAGAA
6451593 GAAAAAA-ATTA
1 -AAAAAAGA--A
**
6451604 AAAAATTAA
1 AAAAAAGAA
6451613 AAAAAAGAA
1 AAAAAAGAA
6451622 AAAAAATGAA
1 AAAAAA-GAA
6451632 A
1 A
6451633 GAATGAGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
9 40 0.70
10 15 0.26
11 2 0.04
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:6451624 original size:35 final size:36
Alignment explanation
Indices: 6451552--6451665 Score: 81
Period size: 37 Copynumber: 3.1 Consensus size: 36
6451542 TATCACTAAT
* *
6451552 GAATGAAAAAA-GAAAAAAAAG-GAAAAAAAGAAAAAA
1 GAATGAAAAAATG-AAAAAATGTAAAAAAAAG-AAAAA
* * *
6451588 AAGAAGAAAAAAATTAAAAAAT-TAAAAAAAAGAAAAA
1 GA-ATGAAAA-AATGAAAAAATGTAAAAAAAAGAAAAA
* * * *
6451625 AAATGAAAGAATGAGAAAATGTAAAAGAAGAGAAAAA
1 GAATGAAAAAATGAAAAAATGTAAAA-AAAAGAAAAA
6451662 GAAT
1 GAAT
6451666 ACTCAAATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
35 9 0.15
36 11 0.18
37 25 0.41
38 16 0.26
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (36 bp):
GAATGAAAAAATGAAAAAATGTAAAAAAAAGAAAAA
Found at i:6452895 original size:46 final size:46
Alignment explanation
Indices: 6452757--6453073 Score: 343
Period size: 46 Copynumber: 6.8 Consensus size: 46
6452747 CTTTAAGAAA
* *
6452757 TCTTCAAATGAGAATCTTTAAAAAATTCTCAAATGA-AATCTTTACGAAA
1 TCTT-AAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTT--G-AG
** * *
6452806 TCCCAAATGAGAATCTTT-AAGAATCCTCAAATGAGAATATTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
* **
6452851 TCTTAAATGAGAATATTTAAAAAATAATCAAATGAGAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
* * * *
6452897 TCTTAAATAAGAATTTTTAAGAAATCTTCAAATGAGAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
* * * *
6452943 TCTTAAATGAGAATCTTTACAAAATCTTAAAATGAAAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
* * * *
6452989 TCTTAAATGATAATTTTTAAGAAATACTCAAATGAGAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
* ** *
6453035 TCTTAAATG-GAAATCTTTAAGAAATTTTTAAATGAGAAT
1 TCTTAAATGAG-AATCTTTAAAAAATCCTCAAATGAGAAT
6453074 ATATAAGAAA
Statistics
Matches: 228, Mismatches: 37, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
45 16 0.07
46 176 0.77
47 14 0.06
48 20 0.09
49 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (46 bp):
TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
Found at i:6452988 original size:138 final size:137
Alignment explanation
Indices: 6452810--6453073 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 137
6452800 ACGAAATCCC
* * *
6452810 AAATGAGAATCTTTAAGAATCCTCAAATGAGAATATTTGAGTCTTAAATGAGAATATTTAAAAAA
1 AAATGAGAATCTTTAAAAATCCTAAAATGAAAATATTTGAGTCTTAAATGAGAATATTTAAAAAA
*
6452875 TAATCAAATGAGAATCTTTGAGTCTTAAATA-AGAATTTTTAAGAAATCTTCAAATGAGAATCTT
66 TAATCAAATGAGAATCTTTGAGTCTTAAATAGA-AATCTTTAAGAAATCTTCAAATGAGAATCTT
6452939 TGAGTCTT
130 TGAGTCTT
* * * * *
6452947 AAATGAGAATCTTTACAAAATCTTAAAATGAAAATCTTTGAGTCTTAAATGATAATTTTTAAGAA
1 AAATGAGAATCTTTA-AAAATCCTAAAATGAAAATATTTGAGTCTTAAATGAGAATATTTAAAAA
* * * *
6453012 ATACTCAAATGAGAATCTTTGAGTCTTAAATGGAAATCTTTAAGAAATTTTTAAATGAGAAT
65 ATAATCAAATGAGAATCTTTGAGTCTTAAATAGAAATCTTTAAGAAATCTTCAAATGAGAAT
6453074 ATATAAGAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
137 15 0.13
138 96 0.86
139 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (137 bp):
AAATGAGAATCTTTAAAAATCCTAAAATGAAAATATTTGAGTCTTAAATGAGAATATTTAAAAAA
TAATCAAATGAGAATCTTTGAGTCTTAAATAGAAATCTTTAAGAAATCTTCAAATGAGAATCTTT
GAGTCTT
Found at i:6453072 original size:117 final size:117
Alignment explanation
Indices: 6452945--6453192 Score: 329
Period size: 117 Copynumber: 2.1 Consensus size: 117
6452935 TCTTTGAGTC
* * * * *
6452945 TTAAATGAGAATCTTTACA-AAA-TCTTAAAATGAAAATCTTTGAGTCTTAAATGATAATTTTTA
1 TTAAATGAGAATATATA-AGAAATTCTT-AAATAAAAATCTTTGAGTCTTAAATGAGAATTTGTA
* * * *
6453008 AGAAATACTCAAATGAGAATCTTTGAGTCTTAAATGGAAATCTTTAAGAAATTT
64 AAAAATAATCAAATGAGAATATTTGAGTCTTAAATGAAAATCTTTAAGAAATTT
* *
6453062 TTAAATGAGAATATATAAGAAATTCTTAAGTAAAAATCTTTGAGTCTTAAATGAGAGTTTGTAAA
1 TTAAATGAGAATATATAAGAAATTCTTAAATAAAAATCTTTGAGTCTTAAATGAGAATTTGTAAA
* **
6453127 AAATAATCAAATGAGAATATTTGAGTCTTAAATGAAAATCTTTAAGAACTCA
66 AAATAATCAAATGAGAATATTTGAGTCTTAAATGAAAATCTTTAAGAAATTT
*
6453179 TCAAATGAGAATAT
1 TTAAATGAGAATAT
6453193 TTTAGTCTTA
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 1 0.01
117 109 0.96
118 4 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (117 bp):
TTAAATGAGAATATATAAGAAATTCTTAAATAAAAATCTTTGAGTCTTAAATGAGAATTTGTAAA
AAATAATCAAATGAGAATATTTGAGTCTTAAATGAAAATCTTTAAGAAATTT
Found at i:6453103 original size:163 final size:163
Alignment explanation
Indices: 6452933--6453232 Score: 417
Period size: 163 Copynumber: 1.8 Consensus size: 163
6452923 TTCAAATGAG
* ** *
6452933 AATCTTTGAGTCTTAAATGAGAATCTT-TACAAAATCTTAAAATGAAAATCTTTGAGTCTTAAAT
1 AATCTTTGAGTCTTAAATGAGAAT-TTGTAAAAAATAATAAAATGAAAATATTTGAGTCTTAAAT
* * *
6452997 GATAATTTTTAAGAAAT-ACTCAAATGAGAATCTTTGAGTCTTAAATG-GAAATCTTTAAGAAAT
65 GAAAATCTTTAAGAAATCA-TCAAATGAGAATATTTGAGTCTTAAATGAG-AATCTTTAAGAAAT
* *
6453060 TTTTAAATGAGAATATATAAGAAATTCTTAAGTAAA
128 CTTCAAATGAGAATATATAAGAAATTCTTAAGTAAA
* * *
6453096 AATCTTTGAGTCTTAAATGAGAGTTTGTAAAAAATAATCAAATGAGAATATTTGAGTCTTAAATG
1 AATCTTTGAGTCTTAAATGAGAATTTGTAAAAAATAATAAAATGAAAATATTTGAGTCTTAAATG
* * *
6453161 AAAATCTTTAAGAACTCATCAAATGAGAATATTTTAGTCTTAAATGAGAATGTTTAAGAAATCTT
66 AAAATCTTTAAGAAATCATCAAATGAGAATATTTGAGTCTTAAATGAGAATCTTTAAGAAATCTT
6453226 CAAATGA
131 CAAATGA
6453233 AAATCCTTGA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
162 2 0.02
163 115 0.97
164 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (163 bp):
AATCTTTGAGTCTTAAATGAGAATTTGTAAAAAATAATAAAATGAAAATATTTGAGTCTTAAATG
AAAATCTTTAAGAAATCATCAAATGAGAATATTTGAGTCTTAAATGAGAATCTTTAAGAAATCTT
CAAATGAGAATATATAAGAAATTCTTAAGTAAA
Found at i:6453106 original size:209 final size:207
Alignment explanation
Indices: 6452709--6453284 Score: 635
Period size: 209 Copynumber: 2.8 Consensus size: 207
6452699 ATGAAGTCCT
* *
6452709 AAATCTTCAAATGA-AACCTTTGAGTCTTAAATAAGAATCTTTAAGAAATCTTCAAATGAGAATC
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAGAATC
* * * * * *
6452773 TTTAAAAAATTCTCAAATGAAATCTTTACGAAATCCCAAATGAGAATCTTTAAGAATCCTCAAAT
66 TTT----AAGTCTTAAATGAAATCTTTAAGAAATCTCAAATGAGAATCTTT--GAGT-CTTAAAT
* * * * * *
6452838 GAGAATATTT--G--AGTCTTAAATGAGAATATTTAAAAAATAATCAAATGAGAATCTTTGAGTC
124 GAGAATCTTTAAGAAATTTTTAAATGAGAATATATAAAAAATAATCAAATAAAAATCTTTGAGTC
* *
6452899 TTAAATAAGAATTTTTAAG
189 TTAAATAAGAATTTGTAAA
* *
6452918 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTACA-AAATCTTAAAATGAAAAT
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTA-AGAAATCTTCAAATGAGAAT
* *
6452982 CTTTGAGTCTTAAATGATAATTTTTAAGAAATACTCAAATGAGAATCTTTGAGTCTTAAATG-GA
65 CTTTAAGTCTTAAATGA-AATCTTTAAGAAAT-CTCAAATGAGAATCTTTGAGTCTTAAATGAG-
* ** * *
6453046 AATCTTTAAGAAATTTTTAAATGAGAATATATAAGAAATTCTTAAGTAAAAATCTTTGAGTCTTA
127 AATCTTTAAGAAATTTTTAAATGAGAATATATAAAAAATAATCAAATAAAAATCTTTGAGTCTTA
* *
6453111 AATGAGAGTTTGTAAA
192 AATAAGAATTTGTAAA
** * * * * *
6453127 AAATAATCAAATGAGAATATTTGAGTCTTAAATGAAAATCTTTAAGAACTCATCAAATGAGAATA
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAGAATC
* * * *
6453192 TTTTAGTCTTAAATGAGAATGTTTAAGAAATCTTCAAATGAAAATCCTTGAGTCTTAAATGAGAA
66 TTTAAGTCTTAAATGA-AATCTTTAAGAAATC-TCAAATGAGAATCTTTGAGTCTTAAATGAGAA
*
6453257 TCTTTAAGAAATTTTCAAATGAGAATAT
129 TCTTTAAGAAATTTTTAAATGAGAATAT
6453285 TTGAGTTTTC
Statistics
Matches: 313, Mismatches: 42, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
204 1 0.00
205 13 0.04
206 13 0.04
207 13 0.04
208 18 0.06
209 206 0.66
210 48 0.15
211 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (207 bp):
AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAGAATC
TTTAAGTCTTAAATGAAATCTTTAAGAAATCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATC
TTTAAGAAATTTTTAAATGAGAATATATAAAAAATAATCAAATAAAAATCTTTGAGTCTTAAATA
AGAATTTGTAAA
Found at i:6453112 original size:46 final size:46
Alignment explanation
Indices: 6453062--6453394 Score: 251
Period size: 46 Copynumber: 7.3 Consensus size: 46
6453052 TAAGAAATTT
* * * * * *
6453062 TTAAATGAGAATATATAAGAAATTCTTAAGTAAAAATCTTTGAGTC
1 TTAAATGAGAATCTTTAAGAAATTCTTAAATGAGAATATTTGAGTC
* * ** *
6453108 TTAAATGAGAGT-TTGTAAAAAATAATCAAATGAGAATATTTGAGTC
1 TTAAATGAGAATCTT-TAAGAAATTCTTAAATGAGAATATTTGAGTC
* * * *
6453154 TTAAATGAAAATCTTTAAG-AACTCATCAAATGAGAATATTTTAGTC
1 TTAAATGAGAATCTTTAAGAAATTC-TTAAATGAGAATATTTGAGTC
* * **
6453200 TTAAATGAGAATGTTTAAGAAA-TCTTCAAATGAAAATCCTTGAGTC
1 TTAAATGAGAATCTTTAAGAAATTCTT-AAATGAGAATATTTGAGTC
*
6453246 TTAAATGAGAATCTTTAAGAAATT-TTCAAATGAGAATATTTGAGTT
1 TTAAATGAGAATCTTTAAGAAATTCTT-AAATGAGAATATTTGAGTC
* * * * *
6453292 TTCAAATGAGAATCTTT--G-AGTT-TCAAATGAAAATCTTTGAGTT
1 TT-AAATGAGAATCTTTAAGAAATTCTTAAATGAGAATATTTGAGTC
* **
6453335 TTCAAATGAGAATCTTT--G--AGTCTTCAAATGAGAACCTTTGAGT-
1 TT-AAATGAGAATCTTTAAGAAATTCTT-AAATGAGAATATTTGAGTC
6453378 TTCAAATGAGAATCTTT
1 TT-AAATGAGAATCTTT
6453395 GAGGTGTAAA
Statistics
Matches: 240, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.00
43 53 0.22
44 20 0.08
45 5 0.02
46 142 0.59
47 19 0.08
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.36
Consensus pattern (46 bp):
TTAAATGAGAATCTTTAAGAAATTCTTAAATGAGAATATTTGAGTC
Found at i:6453115 original size:138 final size:136
Alignment explanation
Indices: 6452817--6453102 Score: 331
Period size: 138 Copynumber: 2.1 Consensus size: 136
6452807 CCCAAATGAG
* * *
6452817 AATCTTTAAGAATCCTCAAATGAGAATATTTGAGTCTTAAATGAGAATATTTAAAAAATAATCAA
1 AATCTTTAA-AATCTTAAAATGAAAATATTTGAGTCTTAAATGAGAATATTTAAAAAATAATCAA
* * *
6452882 ATGAGAATCTTTGAGTCTTAAATAAGAATTTTTAAGAAATCTTCAAATGAGAATCTTTGAGTCTT
65 ATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAATCTTCAAATGAGAATATTAGAGTCTT
* *
6452947 AAATGAG
130 AAATAAA
* * * * *
6452954 AATCTTTACAAAATCTTAAAATGAAAATCTTTGAGTCTTAAATGATAATTTTTAAGAAATACTCA
1 AATCTTT--AAAATCTTAAAATGAAAATATTTGAGTCTTAAATGAGAATATTTAAAAAATAATCA
* * *
6453019 AATGAGAATCTTTGAGTCTTAAAT-GGAAATCTTTAAGAAATTTTTAAATGAGAATATATAAGAA
64 AATGAGAATCTTTGAGTCTTAAATAAG-AATCTTTAAGAAATCTTCAAATGAGAATAT-T-AG--
* *
6453083 ATTCTTAAGTAAA
124 AGTCTTAAATAAA
6453096 AATCTTT
1 AATCTTT
6453103 GAGTCTTAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
137 8 0.06
138 96 0.77
139 3 0.02
140 1 0.01
142 16 0.13
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (136 bp):
AATCTTTAAAATCTTAAAATGAAAATATTTGAGTCTTAAATGAGAATATTTAAAAAATAATCAAA
TGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAATCTTCAAATGAGAATATTAGAGTCTTA
AATAAA
Found at i:6453160 original size:138 final size:134
Alignment explanation
Indices: 6453016--6453347 Score: 341
Period size: 138 Copynumber: 2.4 Consensus size: 134
6453006 TAAGAAATAC
*
6453016 TCAAATGAGAATCTTTGAGTCTTAAATGGAAATCTTTAAGAAATTTTTAAATGAGAATATATAAG
1 TCAAATGAGAATCTTTGAGTCTTAAATGGAAATCTTT-AG----TCTTAAATGAGAATATATAAG
* * *
6453081 AAATTCTT-AAGTAAAAATCTTTGAGTCTTAAATGAGAGT-TTGTAAAAAATAATCAAATGAGAA
61 AAA-TCTTCAAATAAAAATCCTTGAGTCTTAAATGAGAATCTT-TAAAAAATAATCAAATGAGAA
6453144 TATTTGAGTCT
124 TATTTGAGTCT
* * * * *
6453155 T-AAATGAAAATCTTTAAGAACTCATCAAATGAGAATAT-TTTAGTCTTAAATGAGAATGTTTAA
1 TCAAATGAGAATCTTT--G-AGTC-TTAAATG-GAA-ATCTTTAGTCTTAAATGAGAATATATAA
* * **
6453218 GAAATCTTCAAATGAAAATCCTTGAGTCTTAAATGAGAATCTTTAAGAAATTTTCAAATGAGAAT
60 GAAATCTTCAAATAAAAATCCTTGAGTCTTAAATGAGAATCTTTAAAAAATAATCAAATGAGAAT
*
6453283 ATTTGAGTTT
125 ATTTGAGTCT
* *
6453293 TCAAATGAGAATCTTTGAGT-TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAAT
1 TCAAATGAGAATCTTTGAGTCTT-AAATGGAAATCTTT-AGTCTT-AAATGAGAAT
6453348 CTTTGAGTCT
Statistics
Matches: 161, Mismatches: 19, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
133 2 0.01
134 6 0.04
135 10 0.06
136 12 0.07
137 5 0.03
138 90 0.56
139 16 0.10
140 1 0.01
141 3 0.02
142 8 0.05
143 6 0.04
144 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (134 bp):
TCAAATGAGAATCTTTGAGTCTTAAATGGAAATCTTTAGTCTTAAATGAGAATATATAAGAAATC
TTCAAATAAAAATCCTTGAGTCTTAAATGAGAATCTTTAAAAAATAATCAAATGAGAATATTTGA
GTCT
Found at i:6453247 original size:22 final size:22
Alignment explanation
Indices: 6453133--6453397 Score: 261
Period size: 21 Copynumber: 11.9 Consensus size: 22
6453123 TAAAAAATAA
*
6453133 TCAAATGAGAATATTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
* * *
6453155 T-AAATGAAAATCTTTAAGAACTCA
1 TCAAATGAGAATCTTT--G-AGTCT
* *
6453179 TCAAATGAGAATATTTTAGTCT
1 TCAAATGAGAATCTTTGAGTCT
* *
6453201 T-AAATGAGAATGTTTAAGAAATCT
1 TCAAATGAGAATCTTT--G-AGTCT
* *
6453225 TCAAATGAAAATCCTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
* *
6453247 T-AAATGAGAATCTTTAAGAAATTT
1 TCAAATGAGAATCTTT--G-AGTCT
* *
6453271 TCAAATGAGAATATTTGAGTTT
1 TCAAATGAGAATCTTTGAGTCT
6453293 TCAAATGAGAATCTTTGAGT-T
1 TCAAATGAGAATCTTTGAGTCT
* *
6453314 TCAAATGAAAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGAGTCT
6453336 TCAAATGAGAATCTTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
*
6453358 TCAAATGAGAACCTTTGAGT-T
1 TCAAATGAGAATCTTTGAGTCT
6453379 TCAAATGAGAATCTTTGAG
1 TCAAATGAGAATCTTTGAG
6453398 GTGTAAAAAC
Statistics
Matches: 202, Mismatches: 28, Indels: 27
0.79 0.11 0.11
Matches are distributed among these distances:
21 76 0.38
22 73 0.36
23 4 0.02
24 13 0.06
25 36 0.18
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCT
Found at i:6453331 original size:43 final size:43
Alignment explanation
Indices: 6453224--6453397 Score: 226
Period size: 43 Copynumber: 4.0 Consensus size: 43
6453214 TTAAGAAATC
* * *
6453224 TTCAAATGAAAATCCTTGAGTCTT-AAATGAGAATCTTTAAGAAATT
1 TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTT--G--AGT
* *
6453270 TTCAAATGAGAATATTTGAGTTTTCAAATGAGAATCTTTGAGT
1 TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTTGAGT
6453313 TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTTGAGT
1 TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTTGAGT
* *
6453356 CTTCAAATGAGAACCTTTGAG-TTTCAAATGAGAATCTTTGAG
1 -TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTTGAG
6453398 GTGTAAAAAC
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
43 64 0.55
44 18 0.15
45 1 0.01
46 20 0.17
47 14 0.12
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (43 bp):
TTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTTGAGT
Found at i:6453884 original size:42 final size:41
Alignment explanation
Indices: 6453815--6454062 Score: 289
Period size: 42 Copynumber: 6.0 Consensus size: 41
6453805 CGAGAAGCCT
* * *
6453815 TTTACTTTTTAAAAGTTGTGGTGCCTCTGTTTAGATGAGTAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * **
6453857 TTTATTTTTTCAAAGTTATGGTACCTCTATTTAGAAAAGCAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
*
6453899 TTTATTTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAGCAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
*
6453941 TTTATTTTTCTAAAGTTGTGATGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * * *
6453983 TTTACTTTTCAAAGTTATGGTGTCTCTGTTTAGAGAAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * *
6454024 TTTATTTTTCAAAATCGTTGAGCCTCTGTTTAGAGGAGC
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
6454063 TTTGTTACTT
Statistics
Matches: 177, Mismatches: 28, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
41 63 0.36
42 114 0.64
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:6455167 original size:23 final size:22
Alignment explanation
Indices: 6455119--6455174 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
6455109 CCGAGCCATT
*
6455119 TTTTTTTATATATTTTTTAGTA
1 TTTTTTTATTTATTTTTTAGTA
*
6455141 TTTTGTTTATTTA-TTTTTATGTG
1 TTTT-TTTATTTATTTTTTA-GTA
6455164 TTTTTTT-TTTA
1 TTTTTTTATTTA
6455175 GTATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.13
22 13 0.43
23 13 0.43
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTTATTTTTTAGTA
Found at i:6455181 original size:14 final size:15
Alignment explanation
Indices: 6455117--6455184 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
6455107 AGCCGAGCCA
*
6455117 TTTTTTTTTATATAT
1 TTTTTTTTTATGTAT
6455132 TTTTTAGTATTT-TGT-T
1 TTTTT--T-TTTATGTAT
*
6455148 TATTTATTTTTATGTGT
1 T-TTT-TTTTTATGTAT
6455165 TTTTTTTTTA-GTAT
1 TTTTTTTTTATGTAT
6455179 TTTTTT
1 TTTTTT
6455185 CATTATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
14 9 0.20
15 14 0.32
16 9 0.20
17 8 0.18
18 4 0.09
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTATGTAT
Found at i:6455181 original size:23 final size:23
Alignment explanation
Indices: 6455116--6455181 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
6455106 CAGCCGAGCC
*
6455116 ATTTTTTTTTATATATTTTTTAGT
1 ATTTTTTTTT-TATATTTTATAGT
6455140 ATTTTGTTTATTTAT-TTTTAT-GT
1 ATTTT-TTT-TTTATATTTTATAGT
*
6455163 GTTTTTTTTTTAGTATTTT
1 ATTTTTTTTTTA-TATTTT
6455182 TTTCATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 10 0.28
24 10 0.28
25 6 0.17
26 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.76
Consensus pattern (23 bp):
ATTTTTTTTTTATATTTTATAGT
Found at i:6460218 original size:2 final size:2
Alignment explanation
Indices: 6460211--6460242 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6460201 TAAAAAGATT
6460211 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6460243 ATTTGTCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6464169 original size:20 final size:20
Alignment explanation
Indices: 6464131--6464169 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6464121 CGGTTTTAAA
*
6464131 ATTTAAGGTTTGGGGTTTTG
1 ATTTAAGGTTTGGGATTTTG
6464151 ATTTAAGGGTTT-GGATTTT
1 ATTTAA-GGTTTGGGATTTT
6464170 AGAGGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (20 bp):
ATTTAAGGTTTGGGATTTTG
Found at i:6464176 original size:15 final size:14
Alignment explanation
Indices: 6464143--6464186 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6464133 TTAAGGTTTG
*
6464143 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
*
6464157 GGGTTTGGATTTTA
1 GGGTTTGGATTTAA
*
6464171 GAGGTTTGAATTTAA
1 G-GGTTTGGATTTAA
6464186 G
1 G
6464187 AATTAGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:6465645 original size:21 final size:20
Alignment explanation
Indices: 6465619--6465663 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6465609 ACCATCCCAA
6465619 TTTTTTTGGTTCTGTTTCTAT
1 TTTTTTTGGTTCTGTTTCT-T
** *
6465640 TTTTTTTTTTTTTGTTTCTT
1 TTTTTTTGGTTCTGTTTCTT
6465660 TTTT
1 TTTT
6465664 GTATTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.82
Consensus pattern (20 bp):
TTTTTTTGGTTCTGTTTCTT
Found at i:6465995 original size:37 final size:37
Alignment explanation
Indices: 6465907--6466029 Score: 108
Period size: 37 Copynumber: 3.3 Consensus size: 37
6465897 TTTAAAACCA
* ** *
6465907 CAAGTCAAGTAA-TAAAGAAAACGACCAGGATGACACCG
1 CAAGTCAAG-AAGTAAAG-AAACGACCGGGACAACATCG
*
6465945 CAAGTCGAA-AAGT-AAGATAACGACGGGGACAACATCG
1 CAAGTC-AAGAAGTAAAGA-AACGACCGGGACAACATCG
* * *
6465982 CGAGTCAAGAAGTAAAGAATCGACCGGGACAACGTCG
1 CAAGTCAAGAAGTAAAGAAACGACCGGGACAACATCG
*
6466019 TAAGTCAAGAA
1 CAAGTCAAGAA
6466030 ATTATGCCTG
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
36 3 0.04
37 53 0.77
38 11 0.16
39 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.11
Consensus pattern (37 bp):
CAAGTCAAGAAGTAAAGAAACGACCGGGACAACATCG
Found at i:6466320 original size:99 final size:99
Alignment explanation
Indices: 6466148--6466344 Score: 261
Period size: 99 Copynumber: 2.0 Consensus size: 99
6466138 ACCATGCCCA
* * * * ** * * **
6466148 GAGGTCTTACAGAATTGATTGGGACAACACCGCATGTTGAGAATAATGAATCAATTGGGATAACA
1 GAGGTCTTACAGAATCGACTGGAACAACACCGCAAGTCAAAAATAATAAATCAATAAGGATAACA
*
6466213 TCGTGAATCGAAATTATG-CTCGGAGGTCTTAGAG
66 TCGCGAATCGAAATTATGTC-CGGAGGTCTTAGAG
* *
6466247 GAGGTCTTACAGAATCGACTGGAACAACACCGTAAGTCAAAAATAATAAATCGATAAGGATAACA
1 GAGGTCTTACAGAATCGACTGGAACAACACCGCAAGTCAAAAATAATAAATCAATAAGGATAACA
6466312 TCGCGAATCGAAATTATGTCCGGAGGTCTTAGA
66 TCGCGAATCGAAATTATGTCCGGAGGTCTTAGA
6466345 AATCAAAATC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 83 0.99
100 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (99 bp):
GAGGTCTTACAGAATCGACTGGAACAACACCGCAAGTCAAAAATAATAAATCAATAAGGATAACA
TCGCGAATCGAAATTATGTCCGGAGGTCTTAGAG
Found at i:6471204 original size:46 final size:46
Alignment explanation
Indices: 6471123--6471322 Score: 240
Period size: 46 Copynumber: 4.3 Consensus size: 46
6471113 NNNAATTTTT
* * *
6471123 AATGAGAATCTATATAAGAAATTC-TTAAGTAAGAATCTTTGAGTCTTA
1 AATGAGAATCT-T-TAAGAAA-TCATCAAATAAGAATATTTGAGTCTTA
* * * *
6471171 AATGAGAGTCTGTAAAAAATAATCAAATAAGAATATTTGAGTCTTA
1 AATGAGAATCTTTAAGAAATCATCAAATAAGAATATTTGAGTCTTA
* * *
6471217 AATGAAAATCTTTAAGAACTCATCAAATGAGAATATTTGAGTCTTA
1 AATGAGAATCTTTAAGAAATCATCAAATAAGAATATTTGAGTCTTA
* * *
6471263 AATGAGAATCTTTAAGAAATCTTCAAATAAGAATCTTTGAGTTTTCA
1 AATGAGAATCTTTAAGAAATCATCAAATAAGAATATTTGAGTCTT-A
6471310 AATGAGAATCTTT
1 AATGAGAATCTTT
6471323 GAGTTTCAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
45 1 0.01
46 105 0.81
47 14 0.11
48 10 0.08
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (46 bp):
AATGAGAATCTTTAAGAAATCATCAAATAAGAATATTTGAGTCTTA
Found at i:6471244 original size:25 final size:24
Alignment explanation
Indices: 6471216--6471367 Score: 65
Period size: 22 Copynumber: 6.7 Consensus size: 24
6471206 TTTGAGTCTT
*
6471216 AAATGAAAATCTTTAAGAACTCATC
1 AAATGAAAATCTTTAAGAAATC-TC
* * * *
6471241 AAATGAGAATATTT--G-AGTCTT
1 AAATGAAAATCTTTAAGAAATCTC
*
6471262 AAATGAGAATCTTTAAGAAATCTTC
1 AAATGAAAATCTTTAAGAAATC-TC
** *
6471287 AAAT-AAGAATCTTT--GAGTTTTC
1 AAATGAA-AATCTTTAAGAAATCTC
* * *
6471309 AAATGAGAATCTTT--G-AGTTTC
1 AAATGAAAATCTTTAAGAAATCTC
* *
6471330 AAATGAAAATCTTTAAG--TTTTC
1 AAATGAAAATCTTTAAGAAATCTC
*
6471352 AAATGAGAATCTTTAA
1 AAATGAAAATCTTTAA
6471368 TTATTCAAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
21 31 0.30
22 36 0.35
23 7 0.07
24 4 0.04
25 24 0.24
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (24 bp):
AAATGAAAATCTTTAAGAAATCTC
Found at i:6471267 original size:21 final size:22
Alignment explanation
Indices: 6471193--6471432 Score: 220
Period size: 21 Copynumber: 10.9 Consensus size: 22
6471183 TAAAAAATAA
* *
6471193 TCAAATAAGAATATTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
* * *
6471215 T-AAATGAAAATCTTTAAGAACTCA
1 TCAAATGAGAATCTTT--G-AGTCT
*
6471239 TCAAATGAGAATATTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
*
6471261 T-AAATGAGAATCTTTAAGAAATCT
1 TCAAATGAGAATCTTT--G-AGTCT
* *
6471285 TCAAATAAGAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGAGTCT
6471307 TCAAATGAGAATCTTTGAGT-T
1 TCAAATGAGAATCTTTGAGTCT
* * *
6471328 TCAAATGAAAATCTTTAAGTTT
1 TCAAATGAGAATCTTTGAGTCT
* * *
6471350 TCAAATGAGAATCTTTAATTAT
1 TCAAATGAGAATCTTTGAGTCT
* *
6471372 TCAAATGAGAACCTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTCT
* *
6471393 TCAAATGAGAACCTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTCT
6471414 TCAAATGAGAATCTTTGAG
1 TCAAATGAGAATCTTTGAG
6471433 GTGTAAAACC
Statistics
Matches: 185, Mismatches: 24, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
21 82 0.44
22 65 0.35
23 4 0.02
24 9 0.05
25 25 0.14
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCT
Found at i:6471343 original size:43 final size:44
Alignment explanation
Indices: 6471193--6471432 Score: 247
Period size: 43 Copynumber: 5.4 Consensus size: 44
6471183 TAAAAAATAA
* * * * *
6471193 TCAAATAAGAATATTTGAGTCTT-AAATGAAAATCTTTAAGAACT
1 TCAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGTA-T
* * *
6471237 CATCAAATGAGAATATTTGAGTCTT-AAATGAGAATCTTTAAGAAATCT
1 --TCAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAG---TAT
* *
6471285 TCAAATAAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGT-T
1 TCAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGTAT
* * *
6471328 TCAAATGAAAATCTTTAAGTTTTCAAATGAGAATCTTTAATTAT
1 TCAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGTAT
* * *
6471372 TCAAATGAGAACCTTTAAG-TTTCAAATGAGAACCTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGTAT
6471414 TCAAATGAGAATCTTTGAG
1 TCAAATGAGAATCTTTGAG
6471433 GTGTAAAACC
Statistics
Matches: 170, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
42 18 0.11
43 58 0.34
44 19 0.11
46 58 0.34
47 16 0.09
48 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (44 bp):
TCAAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTAAGTAT
Found at i:6471927 original size:42 final size:42
Alignment explanation
Indices: 6471867--6472077 Score: 223
Period size: 42 Copynumber: 5.1 Consensus size: 42
6471857 CATGATTGTC
** * *
6471867 GAGAAGCCTTTTACTTTTTAAAAGTTGTGGTGCCTCTATTTA
1 GAGAAGCAATTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTA
* *
6471909 GAGAAGCAATTTATTTTTTCAAAGTTGTGATGCCTCTGTTTA
1 GAGAAGCAATTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTA
*
6471951 GA-AGAGCAATTTATTTTTCT-AAAGTTGTGATGCCTCTGTTTA
1 GAGA-AGCAATTTATTTTT-TAAAAGTTGTGGTGCCTCTGTTTA
* * * * ** *
6471993 GAGGAGCAATTTA-CTTTTCAAAGTTATGGTATCTCTATTTA
1 GAGAAGCAATTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTA
* * *
6472034 GAGAAGCATTTTATTTTTTAAAA-TTGTTGAGCCTCTGTTTA
1 GAGAAGCAATTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTA
6472075 GAG
1 GAG
6472078 GAGCTTTGTT
Statistics
Matches: 141, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.01
41 47 0.33
42 92 0.65
43 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (42 bp):
GAGAAGCAATTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTA
Found at i:6472052 original size:84 final size:83
Alignment explanation
Indices: 6471867--6472081 Score: 256
Period size: 83 Copynumber: 2.6 Consensus size: 83
6471857 CATGATTGTC
* * * * * *
6471867 GAGAAGCCTTTTACTTTTTAAAAGTTGTGGTGCCTCTATTTAGAGAAGCAATTTATTTTTTCAAA
1 GAGAAGCATTTTA-TTTTTTAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAAA
* * *
6471932 GTTGTGATGCCTCTGTTTA
65 GTTATGATACCTCTATTTA
*
6471951 GA-AGAGCAATTTATTTTTCTAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAA
1 GAGA-AGCATTTTATTTTT-TAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAA
* *
6472014 AGTTATGGTATCTCTATTTA
64 AGTTATGATACCTCTATTTA
*
6472034 GAGAAGCATTTTATTTTTTAAAATTGTTGA-GCCTCTGTTTAGAGGAGC
1 GAGAAGCATTTTATTTTTTAAAGTTG-TGATGCCTCTGTTTAGAGGAGC
6472082 TTTGTTACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
82 25 0.22
83 46 0.41
84 42 0.37
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (83 bp):
GAGAAGCATTTTATTTTTTAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAAAG
TTATGATACCTCTATTTA
Found at i:6472719 original size:21 final size:21
Alignment explanation
Indices: 6472677--6472722 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6472667 ATAGAAGCAA
*
6472677 TTTTAGAAATTTTAGGAATTT
1 TTTTAGAAATTTTAGAAATTT
*
6472698 TTTTTGAAATTTT-GAAAGTTT
1 TTTTAGAAATTTTAGAAA-TTT
6472719 TTTT
1 TTTT
6472723 CTAGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (21 bp):
TTTTAGAAATTTTAGAAATTT
Found at i:6473184 original size:9 final size:10
Alignment explanation
Indices: 6473161--6473221 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 10
6473151 GACATTTTGT
*
6473161 TTTTTTGGTA
1 TTTTTTAGTA
6473171 TTTTTTAGTA
1 TTTTTTAGTA
*
6473181 TTTTGTTTATTTA
1 -TTT-TTTA-GTA
*
6473194 TTTTTATATGTT
1 TTTTT-TA-GTA
6473206 TTTTTTAGTA
1 TTTTTTAGTA
6473216 TTTTTT
1 TTTTTT
6473222 TCATTATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 17 0.40
11 7 0.17
12 16 0.38
13 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (10 bp):
TTTTTTAGTA
Found at i:6473262 original size:23 final size:22
Alignment explanation
Indices: 6473232--6473274 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
6473222 TCATTATTAA
6473232 ATTTAGAAAAAATAAAAATTTT
1 ATTTAGAAAAAATAAAAATTTT
* *
6473254 ATTTGAGAATAAATAATAATT
1 ATTT-AGAAAAAATAAAAATT
6473275 ATTCAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTTAGAAAAAATAAAAATTTT
Found at i:6478223 original size:2 final size:2
Alignment explanation
Indices: 6478216--6478280 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
6478206 TTTTATTTAA
6478216 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6478258 AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
6478281 ATTTGTCAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6482055 original size:21 final size:21
Alignment explanation
Indices: 6482026--6482075 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
6482016 AAGATTCGGA
6482026 TTTT-AGGGTTTT-GGTTTGAG
1 TTTTAAGGGTTTTAGGTTTG-G
6482046 TTTTAAGGGTTTTAGGGTTTGG
1 TTTTAAGGGTTTTA-GGTTTGG
6482068 TTTTAAGG
1 TTTTAAGG
6482076 TTTAAAGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.15
21 8 0.30
22 9 0.33
23 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (21 bp):
TTTTAAGGGTTTTAGGTTTGG
Found at i:6482077 original size:21 final size:20
Alignment explanation
Indices: 6482026--6482078 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
6482016 AAGATTCGGA
*
6482026 TTTTAGGGTTTTGGTTTGAG
1 TTTTAAGGTTTTGGTTTGAG
6482046 TTTTAAGGGTTTTAGGGTTTG-G
1 TTTTAA-GGTTTT--GGTTTGAG
6482068 TTTTAAGGTTT
1 TTTTAAGGTTT
6482079 AAAGAGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.17
21 11 0.38
22 7 0.24
23 6 0.21
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (20 bp):
TTTTAAGGTTTTGGTTTGAG
Found at i:6482202 original size:14 final size:15
Alignment explanation
Indices: 6482177--6482222 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6482167 TTTGAGGTTT
*
6482177 GAGGTTTTGATTTAA
1 GAGGTTTGGATTTAA
*
6482192 G-GGTTTGGATTTTA
1 GAGGTTTGGATTTAA
*
6482206 GAGGTTTGAATTTAA
1 GAGGTTTGGATTTAA
6482221 GA
1 GA
6482223 ATTAGTGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.43
Consensus pattern (15 bp):
GAGGTTTGGATTTAA
Found at i:6484272 original size:87 final size:87
Alignment explanation
Indices: 6484125--6484289 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 87
6484115 ATCATGTCCG
*
6484125 GAGGTCTTACAGAATCGACTGAGACAACACAATAAGTCAAAATTAAAGAATCGATCGGGATAACA
1 GAGGTCTTACAGAATCGACTGAGACAACACAACAAGTCAAAATTAAAGAATCGATCGGGATAACA
6484190 CCGTGAATCGAAACCATGCCTA
66 CCGTGAATCGAAACCATGCCTA
* * ** * * * *
6484212 GAGGTCTTACAGAATCGATTGGGACAACACCGCATGTCGAGAA-TAATGAATCGATTGGGATAAC
1 GAGGTCTTACAGAATCGACTGAGACAACACAACAAGTC-AAAATTAAAGAATCGATCGGGATAAC
*
6484276 ATCGTGAATCGAAA
65 ACCGTGAATCGAAA
6484290 TTATGCTCGG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
87 64 0.96
88 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (87 bp):
GAGGTCTTACAGAATCGACTGAGACAACACAACAAGTCAAAATTAAAGAATCGATCGGGATAACA
CCGTGAATCGAAACCATGCCTA
Found at i:6484303 original size:87 final size:86
Alignment explanation
Indices: 6484117--6484303 Score: 214
Period size: 87 Copynumber: 2.1 Consensus size: 86
6484107 TCTTAAAAAT
*
6484117 CATGTCCGGAGGTCTTACAGAATCGACTGAGACAACACAATAAGTCAAAATTAAAGAATCGATCG
1 CATG-CCGGAGGTCTTACAGAATCGACTGAGACAACACAACAAGTCAAAATTAAAGAATCGATCG
6484182 GGATAACACCGTGAATCGAAAC
65 GGATAACACCGTGAATCGAAAC
* * * ** * * * *
6484204 CATGCCTAGAGGTCTTACAGAATCGATTGGGACAACACCGCATGTCGAGAA-TAATGAATCGATT
1 CATGCC-GGAGGTCTTACAGAATCGACTGAGACAACACAACAAGTC-AAAATTAAAGAATCGATC
* *
6484268 GGGATAACATCGTGAATCGAAAT
64 GGGATAACACCGTGAATCGAAAC
*
6484291 TATGCTCGGAGGT
1 CATGC-CGGAGGT
6484304 TTTATAAATC
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
86 2 0.02
87 77 0.93
88 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (86 bp):
CATGCCGGAGGTCTTACAGAATCGACTGAGACAACACAACAAGTCAAAATTAAAGAATCGATCGG
GATAACACCGTGAATCGAAAC
Found at i:6484366 original size:109 final size:109
Alignment explanation
Indices: 6484212--6484535 Score: 414
Period size: 112 Copynumber: 2.9 Consensus size: 109
6484202 ACCATGCCTA
* *
6484212 GAGGTCTTACAGAATCGATTGGGACAACACCGCATGTCGAGAATAATGAATCGATTGGGATAACA
1 GAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCGAGAATAATGAATCGATTGGGATAACA
* * * **
6484277 TCGTGAATCGAAATTATGCTCGGAGGTTTTATAAATCATGTTCG
66 CCGCGAATCGAAATTATGCTCGGAGGTTTTAAAAATCATGCCCG
* * * ** * * *
6484321 GAGGTCTTACAAAATCGACTGGAACAACACCGTAAGTAAAAAATAATAAATCGATTAGGATAACA
1 GAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCGAGAATAATGAATCGATTGGGATAACA
* * *
6484386 CCGCGAATCAAAATTTATGCTCGAAGGTCTTACAGAAATCATGCCCG
66 CCGCGAATCGAAA-TTATGCTCGGAGGTTTTA-A-AAATCATGCCCG
* *
6484433 GAGGCCTTACAGAATCGACTGGGACAACACCACAAGTCGAGAATAATGAATCGATTGGGATAACA
1 GAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCGAGAATAATGAATCGATTGGGATAACA
* * *
6484498 CCGCGAATCGAAATTATGCCCAGAGGTCTTAAAAATCA
66 CCGCGAATCGAAATTATGCTCGGAGGTTTTAAAAATCA
6484536 AAATCTTTAA
Statistics
Matches: 180, Mismatches: 32, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
109 71 0.39
110 17 0.09
111 15 0.08
112 77 0.43
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (109 bp):
GAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCGAGAATAATGAATCGATTGGGATAACA
CCGCGAATCGAAATTATGCTCGGAGGTTTTAAAAATCATGCCCG
Found at i:6485184 original size:33 final size:33
Alignment explanation
Indices: 6485112--6485467 Score: 333
Period size: 33 Copynumber: 11.2 Consensus size: 33
6485102 TTGAGACCAA
* * * * *
6485112 ATAAACTGGGCTT-CAATTTTATTGAAGGTCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
* * * *
6485144 CTAAACTGGACTTAAAACCTCATTTGAT-GCTAG
1 ATAAACTGGGCTTAAAACTTCA-TTGATGGCCAG
* * * *
6485177 ATAAACTGGGCTTAAAGCTTTATTAATGGCCAA
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
** *
6485210 ATAAACTGAACTTAAAACTTCATTGATGGTCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
* * * * *
6485243 ATAAACTGGGCTTACAGCATCATTAATGGTCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
*
6485276 ATAAACTGGGTTTAAAA---C--TG-T---CAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
*
6485300 ATAAACTGGGCTTAAAACTTCATTGATGGCCAA
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
*
6485333 ATAAACTAGGCTTAAAAC-TCATTGATGGCCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
* * * *
6485365 ATAAACTGGACTTAAAGCTTCATTAAAGGCCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
*
6485398 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
* *
6485431 ATAAATTGGGTTTAAAAC-TCATTGATGGCCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
6485463 ATAAA
1 ATAAA
6485468 TTACGCTTAA
Statistics
Matches: 260, Mismatches: 51, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.07
27 2 0.01
28 1 0.00
29 2 0.01
30 2 0.01
32 62 0.24
33 168 0.65
34 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
Found at i:6485298 original size:24 final size:24
Alignment explanation
Indices: 6485271--6485318 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6485261 ATCATTAATG
*
6485271 GTCAGATAAACTGGGTTTAAAACT
1 GTCAGATAAACTGGGCTTAAAACT
6485295 GTCAGATAAACTGGGCTTAAAACT
1 GTCAGATAAACTGGGCTTAAAACT
6485319 TCATTGATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (24 bp):
GTCAGATAAACTGGGCTTAAAACT
Found at i:6485309 original size:57 final size:57
Alignment explanation
Indices: 6485238--6485416 Score: 169
Period size: 65 Copynumber: 3.0 Consensus size: 57
6485228 TTCATTGATG
* * * * * *
6485238 GTCAGATAAACTGGGCTTACAGCATCATTAATGGTCAGATAAACTGGGTTTAAAACT
1 GTCAGATAAACTGGGCTTAAAACATCATTAATGGCCAAATAAACTAGGCTTAAAACT
* *
6485295 GTCAGATAAACTGGGCTTAAAACTTCATTGATGGCCAAATAAACTAGGCTTAAAACTCATT
1 GTCAGATAAACTGGGCTTAAAACATCATTAATGGCCAAATAAACTAGGCTTAAAA--C--T
* * * * *
6485356 GATGGCCAGATAAACTGGACTTAAAGCTTCATTAAAGGCCAGATAAACTAGGCTTAAAACT
1 G-T---CAGATAAACTGGGCTTAAAACATCATTAATGGCCAAATAAACTAGGCTTAAAACT
6485417 TCATTGATGG
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
57 47 0.47
59 1 0.01
61 3 0.03
62 1 0.01
63 1 0.01
65 48 0.48
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (57 bp):
GTCAGATAAACTGGGCTTAAAACATCATTAATGGCCAAATAAACTAGGCTTAAAACT
Found at i:6485413 original size:122 final size:123
Alignment explanation
Indices: 6485175--6485416 Score: 353
Period size: 122 Copynumber: 2.0 Consensus size: 123
6485165 ATTTGATGCT
* * *
6485175 AGATAAACTGGGCTTAAAGCTTTATTAATGGCCAAATAAACTGAACTTAAAACTTCATTGATGGT
1 AGATAAACTGGGCTTAAAACTTCATTAATGGCCAAATAAACTGAACTTAAAACTTCATTGATGGC
* * * * * *
6485240 CAGATAAACTGGGCTTACAGCATCATTAATGGTCAGATAAACTGGGTTTAAAACTGTC
66 CAGATAAACTGGACTTAAAGCATCATTAAAGGCCAGATAAACTAGGCTTAAAACTGTC
* *
6485298 AGATAAACTGGGCTTAAAACTTCATTGATGGCCAAATAAACT-AGGCTTAAAAC-TCATTGATGG
1 AGATAAACTGGGCTTAAAACTTCATTAATGGCCAAATAAACTGA-ACTTAAAACTTCATTGATGG
*
6485361 CCAGATAAACTGGACTTAAAGCTTCATTAAAGGCCAGATAAACTAGGCTTAAAACT
65 CCAGATAAACTGGACTTAAAGCATCATTAAAGGCCAGATAAACTAGGCTTAAAACT
6485417 TCATTGATGG
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
122 59 0.56
123 47 0.44
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (123 bp):
AGATAAACTGGGCTTAAAACTTCATTAATGGCCAAATAAACTGAACTTAAAACTTCATTGATGGC
CAGATAAACTGGACTTAAAGCATCATTAAAGGCCAGATAAACTAGGCTTAAAACTGTC
Found at i:6485432 original size:155 final size:156
Alignment explanation
Indices: 6485139--6485449 Score: 401
Period size: 155 Copynumber: 2.0 Consensus size: 156
6485129 TTTATTGAAG
* * * * * *
6485139 GTCAGCTAAACTGGACTTAAAACCTCATTTGATGCTAGATAAACTGGGCTTAAAGCTTTATTAAT
1 GTCAGATAAACTGGACTTAAAACCTCATTTGATGCCAAATAAACTAGGCTTAAAACTTCATTAAT
* * * * * *
6485204 GGCCAAATAAACTGAACTTAAAACTTCATTGATGGTCAGATAAACTGGGCTTACAGCATCATTAA
66 GGCCAAATAAACTGAACTTAAAACTTCATTAAAGGCCAGATAAACTAGGCTTAAAACATCATTAA
*
6485269 TGGTCAGATAAACTGGGTTTAAAACT
131 TGGCCAGATAAACTGGGTTTAAAACT
* * *
6485295 GTCAGATAAACTGGGCTTAAAACTTCA-TTGATGGCCAAATAAACTAGGCTTAAAAC-TCATTGA
1 GTCAGATAAACTGGACTTAAAACCTCATTTGAT-GCCAAATAAACTAGGCTTAAAACTTCATTAA
* * * * *
6485358 TGGCCAGATAAACTGGACTTAAAGCTTCATTAAAGGCCAGATAAACTAGGCTTAAAACTTCATTG
65 TGGCCAAATAAACTGAACTTAAAACTTCATTAAAGGCCAGATAAACTAGGCTTAAAACATCATTA
*
6485423 ATGGCCAGATAAATTGGGTTTAAAACT
130 ATGGCCAGATAAACTGGGTTTAAAACT
6485450 CATTGATGGC
Statistics
Matches: 132, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
155 89 0.67
156 43 0.33
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (156 bp):
GTCAGATAAACTGGACTTAAAACCTCATTTGATGCCAAATAAACTAGGCTTAAAACTTCATTAAT
GGCCAAATAAACTGAACTTAAAACTTCATTAAAGGCCAGATAAACTAGGCTTAAAACATCATTAA
TGGCCAGATAAACTGGGTTTAAAACT
Found at i:6485453 original size:65 final size:65
Alignment explanation
Indices: 6485297--6485478 Score: 267
Period size: 65 Copynumber: 2.8 Consensus size: 65
6485287 TTAAAACTGT
*
6485297 CAGATAAACTGGGCTTAAAACTTCATTGATGGCCAAATAAACTAGGCTTAAAACTCATTGATGGC
1 CAGATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACTCATTGATGGC
* * * *
6485362 CAGATAAACTGGACTTAAAGCTTCATTAAAGGCCAGATAAACTAGGCTTAAAACTTCATTGATGG
1 CAGATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAAC-TCATTGATGG
6485427 C
65 C
* * * *
6485428 CAGATAAATTGGGTTTAAAAC-TCATTGATGGCCAGATAAATTACGCTTAAA
1 CAGATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAA
6485479 GCTTTTTTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 75 0.73
66 28 0.27
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (65 bp):
CAGATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAACTAGGCTTAAAACTCATTGATGGC
Found at i:6485477 original size:98 final size:98
Alignment explanation
Indices: 6485297--6485482 Score: 293
Period size: 98 Copynumber: 1.9 Consensus size: 98
6485287 TTAAAACTGT
*
6485297 CAGATAAACTGGGCTTAAAACTTCATTGATGGCCAAATAAACTAGGCTTAAAACTCATTGATGGC
1 CAGATAAACTAGGCTTAAAACTTCATTGATGGCCAAATAAACTAGGCTTAAAACTCATTGATGGC
*
6485362 CAGATAAACTGGACTTAAAGCTTCATTAAAGGC
66 CAGATAAACTCGACTTAAAGCTTCATTAAAGGC
* * * *
6485395 CAGATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAATTGGGTTTAAAACTCATTGATGGC
1 CAGATAAACTAGGCTTAAAACTTCATTGATGGCCAAATAAACTAGGCTTAAAACTCATTGATGGC
*
6485460 CAGATAAATTACG-CTTAAAGCTT
66 CAGATAAACT-CGACTTAAAGCTT
6485483 TTTTTTTAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 79 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (98 bp):
CAGATAAACTAGGCTTAAAACTTCATTGATGGCCAAATAAACTAGGCTTAAAACTCATTGATGGC
CAGATAAACTCGACTTAAAGCTTCATTAAAGGC
Found at i:6498090 original size:20 final size:20
Alignment explanation
Indices: 6498053--6498090 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6498043 TTACTTCAAA
*
6498053 TTAGATTTTCACATATGTCC
1 TTAGATTTTCACAAATGTCC
6498073 TTAGAGTTTTCA-AAATGT
1 TTAGA-TTTTCACAAATGT
6498091 TTTGAGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAGATTTTCACAAATGTCC
Found at i:6498259 original size:30 final size:29
Alignment explanation
Indices: 6498223--6498290 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
6498213 TTAAGGCTTG
*
6498223 GATTTTAAGGTATGAAAAGTTTAGGGTTTT
1 GATTTTAA-GTATGAAAAGTTTAGGGTTTC
* * *
6498253 GATTTTATAGTTTGAAGATTTTAGGGTTTC
1 GATTTTA-AGTATGAAAAGTTTAGGGTTTC
*
6498283 GGTTTTAA
1 GATTTTAA
6498291 AATTTGAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.47
Consensus pattern (29 bp):
GATTTTAAGTATGAAAAGTTTAGGGTTTC
Found at i:6498323 original size:14 final size:14
Alignment explanation
Indices: 6498304--6498347 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
6498294 TTGAGGTTTG
*
6498304 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
6498318 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
6498332 GGGGTTTGGATTTAA
1 -GGGTTTGGATTTAA
6498347 G
1 G
6498348 AATTAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:6498338 original size:15 final size:15
Alignment explanation
Indices: 6498303--6498347 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
6498293 TTTGAGGTTT
*
6498303 GGGGTTTTGATTTAA
1 GGGGTTTGGATTTAA
6498318 -GGGTTTGGATTTAA
1 GGGGTTTGGATTTAA
6498332 GGGGTTTGGATTTAA
1 GGGGTTTGGATTTAA
6498347 G
1 G
6498348 AATTAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (15 bp):
GGGGTTTGGATTTAA
Found at i:6498723 original size:18 final size:19
Alignment explanation
Indices: 6498682--6498727 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
6498672 ACATGTATGA
*
6498682 ATAAAAAAATACTCAAAAT
1 ATAAAAAAATAATCAAAAT
*
6498701 A-AAAAAAATAAT-AATAT
1 ATAAAAAAATAATCAAAAT
6498718 ATAAAAAAAT
1 ATAAAAAAAT
6498728 TAAGAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 18 0.75
19 1 0.04
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAAAATAATCAAAAT
Found at i:6498739 original size:17 final size:19
Alignment explanation
Indices: 6498699--6498744 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6498689 AATACTCAAA
*
6498699 ATAAAAAAAATAATAATAT
1 ATAAAAAAAATAAGAATAT
*
6498718 ATAAAAAAATTAAGAA-AT
1 ATAAAAAAAATAAGAATAT
6498736 -TAAAAAAAA
1 ATAAAAAAAA
6498745 AATTTTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 14 0.58
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAAAAATAAGAATAT
Found at i:6499371 original size:18 final size:18
Alignment explanation
Indices: 6499348--6499387 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6499338 TTTATGTTTT
* * *
6499348 GGTTTCTGGTGGGTGAGG
1 GGTTTCTAGTAGGCGAGG
6499366 GGTTTCTAGTAGGCGAGG
1 GGTTTCTAGTAGGCGAGG
6499384 GGTT
1 GGTT
6499388 GATTAGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.07, G:0.50, T:0.33
Consensus pattern (18 bp):
GGTTTCTAGTAGGCGAGG
Found at i:6506256 original size:2 final size:2
Alignment explanation
Indices: 6506249--6506282 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6506239 AAATAAATAT
*
6506249 AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6506283 GGAGGGGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6506283 original size:12 final size:12
Alignment explanation
Indices: 6506249--6506286 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
6506239 AAATAAATAT
*
6506249 AGAGAGAGAGAG
1 AGAGAGAGAGGG
6506261 AGAGAGAGAGGG
1 AGAGAGAGAGGG
6506273 AGAGAGAGAGGG
1 AGAGAGAGAGGG
6506285 AG
1 AG
6506287 GGGGGAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGGG
Found at i:6518838 original size:12 final size:12
Alignment explanation
Indices: 6518823--6518847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6518813 TTAAAAAATG
6518823 AAATATATATAT
1 AAATATATATAT
6518835 AAATATATATAT
1 AAATATATATAT
6518847 A
1 A
6518848 TAATGTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATATATAT
Found at i:6519574 original size:12 final size:12
Alignment explanation
Indices: 6519557--6519581 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6519547 AAACTATGGA
6519557 TAATTAATTGAT
1 TAATTAATTGAT
6519569 TAATTAATTGAT
1 TAATTAATTGAT
6519581 T
1 T
6519582 GATTGATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAATTAATTGAT
Found at i:6522857 original size:77 final size:77
Alignment explanation
Indices: 6522703--6522857 Score: 240
Period size: 77 Copynumber: 2.0 Consensus size: 77
6522693 AGTACAAAAC
*
6522703 TAATCTCAAACCAAAACTTAATATTCATATTTAATTAGTATTTATTAGCCAAATTACTTTCATAC
1 TAATCTCAAACCAAAACTTAATATTCATATTTAATTAATATTTATTAGCCAAATTACTTTCATAC
* * *
6522768 GCTATAATGAAA
66 CCTAAAAAGAAA
* *
6522780 TAATCTCAAACCAGAAA-TTAATATTCATATTTGATTAATATTTATTGGCCAAATTACTTTCATA
1 TAATCTCAAACCA-AAACTTAATATTCATATTTAATTAATATTTATTAGCCAAATTACTTTCATA
6522844 CCCTAAAAAGAAA
65 CCCTAAAAAGAAA
6522857 T
1 T
6522858 TAGGGTTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 68 0.96
78 3 0.04
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (77 bp):
TAATCTCAAACCAAAACTTAATATTCATATTTAATTAATATTTATTAGCCAAATTACTTTCATAC
CCTAAAAAGAAA
Found at i:6530474 original size:29 final size:29
Alignment explanation
Indices: 6530415--6530474 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
6530405 AAATTATAAC
* *
6530415 AAAATGTTTAAAATGATATTTGAAATTTA
1 AAAATGTTTAAAATGATATATGAAATATA
* * * *
6530444 AAAATTTTTAATATGGTATATGAACTATA
1 AAAATGTTTAAAATGATATATGAAATATA
6530473 AA
1 AA
6530475 TATATTGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (29 bp):
AAAATGTTTAAAATGATATATGAAATATA
Found at i:6530504 original size:23 final size:23
Alignment explanation
Indices: 6530474--6530521 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
6530464 TGAACTATAA
* *
6530474 ATATATTGATTAATATGAAATTT
1 ATATATTGACTAATATAAAATTT
6530497 ATATATTGACTAATATAAAATTT
1 ATATATTGACTAATATAAAATTT
6530520 AT
1 AT
6530522 CTCCAACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (23 bp):
ATATATTGACTAATATAAAATTT
Found at i:6541375 original size:29 final size:29
Alignment explanation
Indices: 6541318--6541375 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
6541308 TTTAGATTCC
* * *
6541318 AAAATTAATAAAATAATACATATTTTTAA
1 AAAATTAATAAAATAAAACATAATGTTAA
6541347 AAAATTAAATAAAATAAAACA-AATGTTAA
1 AAAATT-AATAAAATAAAACATAATGTTAA
6541376 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATTAATAAAATAAAACATAATGTTAA
Found at i:6551893 original size:2 final size:2
Alignment explanation
Indices: 6551886--6551926 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6551876 ATGAAATCTG
6551886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6551927 CCTTTAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6560947 original size:14 final size:14
Alignment explanation
Indices: 6560888--6560949 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
6560878 ATTTTAATTT
* *
6560888 AATTAATTTAT-AT
1 AATTAATTTTTAAA
6560901 AATT-ATTTTTAAA
1 AATTAATTTTTAAA
* *
6560914 AAATAATATTTAATA
1 AATTAATTTTTAA-A
6560929 AATTAATTTTTAAA
1 AATTAATTTTTAAA
*
6560943 TATTAAT
1 AATTAAT
6560950 ACTTACAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.13
13 8 0.21
14 14 0.36
15 12 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAATTTTTAAA
Found at i:6561397 original size:17 final size:17
Alignment explanation
Indices: 6561377--6561412 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6561367 GTGTTTAGAT
*
6561377 AATAAAATAATAATAAA
1 AATAAAATAAAAATAAA
*
6561394 AATAACATAAAAATAAA
1 AATAAAATAAAAATAAA
6561411 AA
1 AA
6561413 ATATCATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAAAATAAAAATAAA
Found at i:6561998 original size:15 final size:16
Alignment explanation
Indices: 6561969--6562004 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6561959 TTTAATTGTA
6561969 ATTATAATAATTTTTT
1 ATTATAATAATTTTTT
*
6561985 ATTATGATAA-TTTTT
1 ATTATAATAATTTTTT
6562000 ATTAT
1 ATTAT
6562005 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTATAATAATTTTTT
Found at i:6564432 original size:21 final size:21
Alignment explanation
Indices: 6564406--6564447 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6564396 ATTCTAAAAG
*
6564406 AGAGGTTCTTTTTGTTTGTGC
1 AGAGGTTCCTTTTGTTTGTGC
6564427 AGAGGTTCCTTTTGTTTGTGC
1 AGAGGTTCCTTTTGTTTGTGC
6564448 TCTTATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.29, T:0.50
Consensus pattern (21 bp):
AGAGGTTCCTTTTGTTTGTGC
Found at i:6565594 original size:40 final size:40
Alignment explanation
Indices: 6565539--6565616 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
6565529 TTAAAGTATA
6565539 TTTTTTCTCTGAACATTCAATTGATATATAACTTGCTATG
1 TTTTTTCTCTGAACATTCAATTGATATATAACTTGCTATG
6565579 TTTTTTCTCTGAACATTCAATTGATATATAACTTGCTA
1 TTTTTTCTCTGAACATTCAATTGATATATAACTTGCTA
6565617 AAACTAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.47
Consensus pattern (40 bp):
TTTTTTCTCTGAACATTCAATTGATATATAACTTGCTATG
Done.