Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 40 of 313
Found at i:13598724 original size:42 final size:42
Alignment explanation
Indices: 13598670--13598784 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 42
13598660 TAGGGTTATT
*
13598670 TGAGATTACGTGTAAGACCATATTTGGGATA-TGACATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATTGACATCGATA
* * *
13598712 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATATTGACATCGATA
* *
13598755 TGAGATCCCATGTAAGACCATATCTGGGAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGAT
13598785 TTGGCATTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATTGACATCGATA
Found at i:13601838 original size:18 final size:18
Alignment explanation
Indices: 13601815--13601849 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13601805 CAAAACTACG
*
13601815 GGCCCACATGCCCGTGTT
1 GGCCCACACGCCCGTGTT
13601833 GGCCCACACGCCCGTGT
1 GGCCCACACGCCCGTGT
13601850 GACTCGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.43, G:0.29, T:0.17
Consensus pattern (18 bp):
GGCCCACACGCCCGTGTT
Found at i:13612859 original size:29 final size:29
Alignment explanation
Indices: 13612826--13612885 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
13612816 CATCTAAGAC
13612826 AAATTACTTGGTACATCATTATTATGACT
1 AAATTACTTGGTACATCATTATTATGACT
13612855 AAATTACTTGGTACATCATTATTATGACT
1 AAATTACTTGGTACATCATTATTATGACT
13612884 AA
1 AA
13612886 CTTGTTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (29 bp):
AAATTACTTGGTACATCATTATTATGACT
Found at i:13618883 original size:43 final size:42
Alignment explanation
Indices: 13618792--13618896 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
13618782 ATGATTTATG
* * *
13618792 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
*
13618834 TATAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATTTGATTACA
*
13618877 TGTAAGACCACGTTTGGGAC
1 TGTAAGACCACGTCTGGGAC
13618897 GTTGACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 26 0.48
43 26 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:13620134 original size:13 final size:13
Alignment explanation
Indices: 13620113--13620146 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13620103 ACAGATATTT
*
13620113 AATTAAAATTTAA
1 AATTTAAATTTAA
13620126 AATTTAAATTTAA
1 AATTTAAATTTAA
13620139 AATATTAA
1 AAT-TTAA
13620147 TACTAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTTAAATTTAA
Found at i:13624431 original size:14 final size:14
Alignment explanation
Indices: 13624412--13624440 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13624402 TACAATATAT
13624412 ATAAGAATTATACG
1 ATAAGAATTATACG
13624426 ATAAGAATTATACG
1 ATAAGAATTATACG
13624440 A
1 A
13624441 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:13625402 original size:21 final size:20
Alignment explanation
Indices: 13625373--13625411 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
13625363 ACGCCTACGA
13625373 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
13625393 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
13625412 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:13625604 original size:15 final size:15
Alignment explanation
Indices: 13625584--13625622 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
13625574 TATCATTTCA
13625584 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
13625599 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
13625615 ATAT-TAAT
1 ATATATAAT
13625623 AATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:13625627 original size:11 final size:11
Alignment explanation
Indices: 13625611--13625693 Score: 99
Period size: 10 Copynumber: 8.2 Consensus size: 11
13625601 ATATAAATTT
13625611 TAATATATTAA
1 TAATATATTAA
13625622 TAATAT-TT--
1 TAATATATTAA
13625630 TAATATATTAA
1 TAATATATTAA
13625641 TAATAT-TTAA
1 TAATATATTAA
13625651 TAATAT-TTAA
1 TAATATATTAA
*
13625661 TAATATATAAA
1 TAATATATTAA
13625672 T-A-ATATTAA
1 TAATATATTAA
*
13625681 TAATATAATAA
1 TAATATATTAA
13625692 TA
1 TA
13625694 TAGAAAGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
8 6 0.10
9 9 0.14
10 24 0.38
11 24 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATATATTAA
Found at i:13625631 original size:19 final size:19
Alignment explanation
Indices: 13625591--13625686 Score: 110
Period size: 19 Copynumber: 5.1 Consensus size: 19
13625581 TCAATATATA
*
13625591 ATTTAAATATA-T-ATAA-
1 ATTTTAATATATTAATAAT
13625607 ATTTTAATATATTAATAAT
1 ATTTTAATATATTAATAAT
13625626 ATTTTAATATATTAATAAT
1 ATTTTAATATATTAATAAT
13625645 A-TTTAATAATATTTAATAAT
1 ATTTTAAT-ATA-TTAATAAT
* *
13625665 ATATAAATAATATTAATAAT
1 ATTTTAAT-ATATTAATAAT
13625685 AT
1 AT
13625687 AATAATATAG
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
16 10 0.14
17 1 0.01
18 10 0.14
19 23 0.32
20 19 0.27
21 8 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTAATATATTAATAAT
Found at i:13626558 original size:36 final size:34
Alignment explanation
Indices: 13626517--13626590 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
13626507 AATGAAATTC
*
13626517 TAAATTATTAAATTAATAATTTATTTTAATTATACT
1 TAAATTATTAAATTAATAATTT-TTCTAATTA-ACT
* *
13626553 T-AA--ATTAAATTATTAATTTTTCTATTTAACT
1 TAAATTATTAAATTAATAATTTTTCTAATTAACT
13626584 TAAATTA
1 TAAATTA
13626591 AATAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
31 4 0.12
32 9 0.28
33 15 0.47
34 1 0.03
35 2 0.06
36 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (34 bp):
TAAATTATTAAATTAATAATTTTTCTAATTAACT
Found at i:13626588 original size:31 final size:33
Alignment explanation
Indices: 13626523--13626630 Score: 118
Period size: 31 Copynumber: 3.4 Consensus size: 33
13626513 ATTCTAAATT
*
13626523 ATTAAATTAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
13626556 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
** *
13626587 ATTAAA-TAATAATAAATTCTAAATATAC-TAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
13626618 ATATAAA-TAATAA
1 AT-TAAATTAATAA
13626631 CTAAATAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
30 6 0.09
31 24 0.38
32 19 0.30
33 15 0.23
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:13626637 original size:11 final size:11
Alignment explanation
Indices: 13626621--13626678 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
13626611 ATACTAAATA
13626621 TAAATAATAAC
1 TAAATAATAAC
*
13626632 TAAATAATAAG
1 TAAATAATAAC
13626643 TAAATAGA-AATC
1 TAAATA-ATAA-C
13626655 T-AA-AAT--C
1 TAAATAATAAC
13626662 TAAATAATAAC
1 TAAATAATAAC
13626673 TAAATA
1 TAAATA
13626679 GAAATAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 4 0.11
10 1 0.03
11 27 0.71
12 2 0.05
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:13626638 original size:15 final size:14
Alignment explanation
Indices: 13626584--13626799 Score: 99
Period size: 15 Copynumber: 14.9 Consensus size: 14
13626574 CTATTTAACT
13626584 TAAATTAAATAATAA
1 TAAA-TAAATAATAA
*
13626599 TAAATTCTAAAT-ATAC
1 TAAA---TAAATAATAA
*
13626615 TAAATATA-AATAA
1 TAAATAAATAATAA
*
13626628 TAACTAAATAATAA
1 TAAATAAATAATAA
*
13626642 GTAAATAGAA-ATCTAA
1 -TAAATA-AATA-ATAA
*
13626658 -AATCTAAATAATAA
1 TAA-ATAAATAATAA
*
13626672 CTAAATAGA-AATAAA
1 -TAAATAAATAAT-AA
* *
13626687 TATATATATAATAA
1 TAAATAAATAATAA
*
13626701 TATATATAATAATAA
1 TAAATA-AATAATAA
*
13626716 TATATAAA-AATAA
1 TAAATAAATAATAA
*
13626729 TATATAAATAGATAA
1 TAAATAAATA-ATAA
*
13626744 CATAAT-AATAGATAA
1 TA-AATAAATA-ATAA
*
13626759 TAGATAATATAATAA
1 TAAATAA-ATAATAA
*
13626774 TAGATAGAATAAT-A
1 TAAATA-AATAATAA
13626788 -AAATAAATAATA
1 TAAATAAATAATA
13626800 TAGAAATATA
Statistics
Matches: 160, Mismatches: 20, Indels: 44
0.71 0.09 0.20
Matches are distributed among these distances:
12 6 0.04
13 29 0.18
14 35 0.22
15 65 0.41
16 20 0.12
17 5 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (14 bp):
TAAATAAATAATAA
Found at i:13626702 original size:3 final size:3
Alignment explanation
Indices: 13626694--13626799 Score: 69
Period size: 3 Copynumber: 34.0 Consensus size: 3
13626684 AAATATATAT
*
13626694 ATA ATA AT- ATA TATA ATA ATA ATA TATA AAA ATA ATA TATAA ATA GATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA -AT-A ATA -ATA
* *
13626743 A-C ATA ATA ATA GATA ATA GATA AT- ATA ATA ATA GAT- AGA ATA ATA
1 ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA
13626788 A-A ATAA ATA ATA
1 ATA AT-A ATA ATA
13626800 TAGAAATATA
Statistics
Matches: 83, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
2 8 0.10
3 50 0.60
4 24 0.29
5 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13626703 original size:12 final size:12
Alignment explanation
Indices: 13626688--13626851 Score: 92
Period size: 12 Copynumber: 13.4 Consensus size: 12
13626678 AGAAATAAAT
13626688 ATATATATAATA
1 ATATATATAATA
13626700 ATATATATAATA
1 ATATATATAATA
*
13626712 ATAATATATAAAA
1 AT-ATATATAATA
13626725 ATAATATATAAATA
1 AT-ATATAT-AATA
*
13626739 GATA-ACATAATA
1 -ATATATATAATA
*
13626751 ATAGATAATAGATA
1 ATATAT-ATA-ATA
13626765 ATATA-ATAATA
1 ATATATATAATA
*
13626776 GATAGA-ATAATA
1 -ATATATATAATA
13626788 A-A-ATA-AATA
1 ATATATATAATA
*
13626797 ATATAGA-AATA
1 ATATATATAATA
* *
13626808 TAGATTTATAAATA
1 -ATATATAT-AATA
*
13626822 GAAATATATTAAT-
1 -ATATATA-TAATA
*
13626835 ATAAATATAATA
1 ATATATATAATA
13626847 ATATA
1 ATATA
13626852 AATATTATTA
Statistics
Matches: 121, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
9 6 0.05
10 3 0.02
11 17 0.14
12 45 0.37
13 24 0.20
14 23 0.19
15 3 0.02
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (12 bp):
ATATATATAATA
Found at i:13626748 original size:20 final size:20
Alignment explanation
Indices: 13626673--13626856 Score: 114
Period size: 20 Copynumber: 9.1 Consensus size: 20
13626663 AAATAATAAC
13626673 TAAATAGA-AATA-AATATA
1 TAAATAGATAATATAATATA
*
13626691 TATATA-ATAATAT-ATATAA
1 TAAATAGATAATATAATAT-A
* *
13626710 TAATAATATATAAAAATAATATA
1 T-A-AATAGAT-AATATAATATA
*
13626733 TAAATAGATAACATAATAATA
1 TAAATAGATAATATAAT-ATA
*
13626754 GATAATAGATAATATAATA-A
1 TA-AATAGATAATATAATATA
* * *
13626774 TAGATAGAATAATAAAATAAA
1 TAAATAG-ATAATATAATATA
*
13626795 TAATATAGA-AATATAGATTTA
1 TAA-ATAGATAATATA-ATATA
*
13626816 TAAATAGA-AATATATTAATA
1 TAAATAGATAATATAAT-ATA
*
13626836 TAAATATAATAATATAA-ATA
1 TAAATA-GATAATATAATATA
13626856 T
1 T
13626857 TATTAATTAC
Statistics
Matches: 131, Mismatches: 18, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
17 1 0.01
18 13 0.10
19 7 0.05
20 48 0.37
21 25 0.19
22 27 0.21
23 6 0.05
24 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAATAGATAATATAATATA
Found at i:13626763 original size:22 final size:22
Alignment explanation
Indices: 13626675--13626779 Score: 100
Period size: 22 Copynumber: 5.0 Consensus size: 22
13626665 ATAATAACTA
*
13626675 AATAGA-AATA-AAT-ATATAT
1 AATAGATAATATAATAATAGAT
13626694 -ATA-ATAATATATATAATA-AT
1 AATAGATAATATA-ATAATAGAT
* *
13626714 AATATATAA-A-AATAATATAT
1 AATAGATAATATAATAATAGAT
*
13626734 AAATAGATAACATAATAATAGAT
1 -AATAGATAATATAATAATAGAT
13626757 AATAGATAATATAATAATAGAT
1 AATAGATAATATAATAATAGAT
13626779 A
1 A
13626780 GAATAATAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 17
0.78 0.03 0.18
Matches are distributed among these distances:
17 1 0.01
18 7 0.10
19 7 0.10
20 7 0.10
21 15 0.21
22 27 0.37
23 9 0.12
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (22 bp):
AATAGATAATATAATAATAGAT
Found at i:13626794 original size:58 final size:58
Alignment explanation
Indices: 13626664--13626796 Score: 139
Period size: 61 Copynumber: 2.3 Consensus size: 58
13626654 CTAAAATCTA
* * * * *
13626664 AATAAT-AACTAAATAGAAATAAATATATATATAATAATATATATAATAATAATATAT
1 AATAATAAAATAAATAGAAACAAATATATAGATAATAATATATATAATAATAAGATAG
*
13626721 AAAAATAATATATAAATAGATAACATAATA-ATAGATAATAGATA-ATATAATAAT-AGATAG
1 AATAATAA-A-ATAAATAGA-AACA-AATATATAGATAATA-ATATATATAATAATAAGATAG
13626781 AATAATAAAATAAATA
1 AATAATAAAATAAATA
13626797 ATATAGAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
57 5 0.08
58 8 0.13
59 2 0.03
60 19 0.30
61 22 0.35
62 7 0.11
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (58 bp):
AATAATAAAATAAATAGAAACAAATATATAGATAATAATATATATAATAATAAGATAG
Found at i:13626806 original size:15 final size:14
Alignment explanation
Indices: 13626667--13626807 Score: 59
Period size: 13 Copynumber: 10.3 Consensus size: 14
13626657 AAATCTAAAT
*
13626667 AATAACTAA-ATAGA
1 AATAAATAATATA-A
*
13626681 AATAAATATATATAT
1 AATAAATA-ATATAA
*
13626696 AAT-AAT-ATATAT
1 AATAAATAATATAA
*
13626708 AAT-AATAATATAT
1 AATAAATAATATAA
13626721 AA-AAATAATAT--
1 AATAAATAATATAA
*
13626732 -ATAAAT-AGATAA
1 AATAAATAATATAA
* * *
13626744 CAT-AATAATAGAT
1 AATAAATAATATAA
*
13626757 AATAGATAATATAA
1 AATAAATAATATAA
*
13626771 TAATAGATAGAATAATAA
1 -AATA-A-ATAAT-ATAA
13626789 AATAAATAATATAGA
1 AATAAATAATATA-A
13626804 AATA
1 AATA
13626808 TAGATTTATA
Statistics
Matches: 99, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
10 4 0.04
11 4 0.04
12 15 0.15
13 23 0.23
14 20 0.20
15 17 0.17
16 4 0.04
17 8 0.08
18 4 0.04
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (14 bp):
AATAAATAATATAA
Found at i:13630688 original size:18 final size:19
Alignment explanation
Indices: 13630657--13630695 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13630647 GGGAATTTGG
13630657 AATGGAGAAGAAGAAAGAA
1 AATGGAGAAGAAGAAAGAA
*
13630676 AATGGAG-AGAAGAGAGAA
1 AATGGAGAAGAAGAAAGAA
13630694 AA
1 AA
13630696 GATGTGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (19 bp):
AATGGAGAAGAAGAAAGAA
Found at i:13653175 original size:38 final size:38
Alignment explanation
Indices: 13653126--13653201 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
13653116 TGGGTTGTGT
*
13653126 AAATTCCTGAACTTCCAAGTCTAATAGTTTGAACTGTA
1 AAATTCCTGAACTTCCAAGTCTAACAGTTTGAACTGTA
* *
13653164 AAATTCTTGAACTTCCAAGTTTAACAGTTTGAACTGTA
1 AAATTCCTGAACTTCCAAGTCTAACAGTTTGAACTGTA
13653202 GTTGTTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (38 bp):
AAATTCCTGAACTTCCAAGTCTAACAGTTTGAACTGTA
Found at i:13656272 original size:27 final size:26
Alignment explanation
Indices: 13656183--13656297 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
13656173 AGCATGGCTG
*
13656183 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
**
13656209 CC-GATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
*
13656235 CCAGAAACAGATATCTGTGGCAGAGCCA
1 CCAG-AACAGATAT-TGTGACAGAGCCA
*
13656263 CCAGATCAGATATTTGTGACAGAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
*
13656290 CTAGAACA
1 CCAGAACA
13656298 CTTCCTCCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
25 2 0.03
26 22 0.29
27 34 0.45
28 18 0.24
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:13656273 original size:54 final size:54
Alignment explanation
Indices: 13656183--13656295 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
13656173 AGCATGGCTG
* **
13656183 CCAG-AACAGATATTGTGACAGAGTCACCGATACAGATA-TTGTGGTAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCGATACAGATATTTGTGACAGAGCCA
*
13656235 CCAGAAACAGATATCTGTGGCAGAGCCACCAGAT-CAGATATTTGTGACAGAGCCA
1 CCAGAAACAGATAT-TGTGACAGAGCCACC-GATACAGATATTTGTGACAGAGCCA
*
13656290 CTAGAA
1 CCAGAA
13656296 CACTTCCTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 4 0.08
53 9 0.17
54 19 0.37
55 20 0.38
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAAACAGATATTGTGACAGAGCCACCGATACAGATATTTGTGACAGAGCCA
Found at i:13656456 original size:26 final size:27
Alignment explanation
Indices: 13656399--13656456 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
13656389 AAATTAATCC
*
13656399 TAGGGTTATAATGGTAAATTTGCACCT
1 TAGGGTTATAATGGTAAATTTGCAACT
* *
13656426 AAGGG-TATAATGGT-AATTTTCATACT
1 TAGGGTTATAATGGTAAATTTGCA-ACT
13656452 TAGGG
1 TAGGG
13656457 GTATTTTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.27
26 15 0.58
27 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (27 bp):
TAGGGTTATAATGGTAAATTTGCAACT
Found at i:13664110 original size:27 final size:27
Alignment explanation
Indices: 13664020--13664131 Score: 126
Period size: 27 Copynumber: 4.2 Consensus size: 27
13664010 AGCATGACTG
* *
13664020 CCAGAACAGATA-TTGTA-CAGAGTCA
1 CCAGATCAGATATTTGTAGCAGAGCCA
13664045 CCAGATACAGATATTATG--GCAGAGCCA
1 CCAGAT-CAGATATT-TGTAGCAGAGCCA
*
13664072 CTAGAAAT-AGATATTTGTAGCAGAGCCA
1 CCAG--ATCAGATATTTGTAGCAGAGCCA
13664100 CCAGATCAGATATTTGTAGCAGAGCCA
1 CCAGATCAGATATTTGTAGCAGAGCCA
13664127 CCAGA
1 CCAGA
13664132 ACGCTTCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
25 5 0.07
26 10 0.14
27 43 0.58
28 14 0.19
29 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
CCAGATCAGATATTTGTAGCAGAGCCA
Found at i:13664122 original size:55 final size:53
Alignment explanation
Indices: 13664027--13664132 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 53
13664017 CTGCCAGAAC
* *
13664027 AGATATTGTACAGAGTCACCAGATACAGATATTATGGCAGAGCCACTAGAAAT
1 AGATATTGTACAGAGCCACCAGATACAGATATTATGGCAGAGCCACCAGAAAT
13664080 AGATATTTGTAGCAGAGCCACCAGAT-CAGATATT-TGTAGCAGAGCCACCAGAA
1 AGATA-TTGTA-CAGAGCCACCAGATACAGATATTATG--GCAGAGCCACCAGAA
13664133 CGCTTCCTCC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
53 7 0.15
54 13 0.28
55 27 0.57
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (53 bp):
AGATATTGTACAGAGCCACCAGATACAGATATTATGGCAGAGCCACCAGAAAT
Found at i:13664265 original size:26 final size:26
Alignment explanation
Indices: 13664236--13664298 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 26
13664226 AAAATTAACC
13664236 CTAGGGGTATAATGGTAATTTTACAT-
1 CTAGGGGTATAATGGTAATTTT-CATA
13664262 CTAGGGGTATAATGGTAATTTTCATA
1 CTAGGGGTATAATGGTAATTTTCATA
13664288 CTTAGGGGTAT
1 C-TAGGGGTAT
13664299 TTTAGTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.09
26 23 0.66
27 9 0.26
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (26 bp):
CTAGGGGTATAATGGTAATTTTCATA
Found at i:13679554 original size:27 final size:27
Alignment explanation
Indices: 13679477--13679556 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
13679467 CTTTGTGCAA
*
13679477 ATCGTATTTAC-CAATGGCTATGTGCCT
1 ATCGTATTTACTC-ATGGCTATGTGCCG
* * * * * *
13679504 ATCATATTTATTGATGACTCTGTGTCG
1 ATCGTATTTACTCATGGCTATGTGCCG
*
13679531 ATCGTATTTACTCATGGCTGTGTGCC
1 ATCGTATTTACTCATGGCTATGTGCC
13679557 AATTATATTA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
ATCGTATTTACTCATGGCTATGTGCCG
Found at i:13679589 original size:32 final size:32
Alignment explanation
Indices: 13679544--13679634 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
13679534 GTATTTACTC
* * *
13679544 ATGGCTGTGTGCCAATTATATTACCGTCGCTG
1 ATGGCTATGTGCCAATTATATTACCGTCACCG
* * *
13679576 ATGGCTATATGCCAAATT-TATTACAGTTACCG
1 ATGGCTATGTGCC-AATTATATTACCGTCACCG
* *
13679608 ATGGCTTTGTGCCAATTATAATACCGT
1 ATGGCTATGTGCCAATTATATTACCGT
13679635 TGTTGAAGGC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 4 0.09
32 39 0.83
33 4 0.09
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (32 bp):
ATGGCTATGTGCCAATTATATTACCGTCACCG
Found at i:13679902 original size:25 final size:26
Alignment explanation
Indices: 13679845--13679902 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
13679835 AGATGGACTA
*
13679845 GGCCCAATTGATTCTATTATGGGCTGT
1 GGCCCAAATGATTCTA-TATGGGCTGT
* * *
13679872 GACCCAAATGATTGTA-ATGGGCTTT
1 GGCCCAAATGATTCTATATGGGCTGT
13679897 GGCCCA
1 GGCCCA
13679903 CTTATGCTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 13 0.50
27 13 0.50
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (26 bp):
GGCCCAAATGATTCTATATGGGCTGT
Found at i:13684593 original size:48 final size:50
Alignment explanation
Indices: 13684522--13684690 Score: 172
Period size: 48 Copynumber: 3.5 Consensus size: 50
13684512 TATGTGTGCT
* *
13684522 AGACCATGTTTGGGACATGGCATCGGCCACATT-ATA-A-GAGCCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGG-CACATTGAGACATGAGCCAGTGTA
* *
13684570 AGACCATGTCTCGGACATGGCATC-G-ACATTGAGACATGAGCTAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCACATTGAGACATGAGCCAGTGTA
* * * **
13684618 AGACCATGTCTGGGACATGGCATCGG--CGTCGACATGTGAGCCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCACATTGAGACATGAGCCAGTGTA
* * *
13684666 AAACCATATCTGGGATATGGCATCG
1 AGACCATGTCTGGGACATGGCATCG
13684691 ACAATTTACC
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
45 5 0.05
46 2 0.02
47 2 0.02
48 93 0.90
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AGACCATGTCTGGGACATGGCATCGGCACATTGAGACATGAGCCAGTGTA
Found at i:13685915 original size:28 final size:28
Alignment explanation
Indices: 13685875--13685939 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
13685865 CACGGGCTGA
*
13685875 GACACGGGTGTGTCATGGCCGTATGAGG
1 GACACGGGCGTGTCATGGCCGTATGAGG
* *
13685903 GACAAGGGCGTGTCATGGCCGTGTGAGG
1 GACACGGGCGTGTCATGGCCGTATGAGG
13685931 GACACGGGC
1 GACACGGGC
13685940 CATGGAGACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.18, C:0.20, G:0.45, T:0.17
Consensus pattern (28 bp):
GACACGGGCGTGTCATGGCCGTATGAGG
Found at i:13688520 original size:47 final size:45
Alignment explanation
Indices: 13688449--13688576 Score: 134
Period size: 47 Copynumber: 2.8 Consensus size: 45
13688439 GGGTTATTGT
*
13688449 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGACCACATT-AT-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG---ACATTGATAGA
* * *
13688495 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGATACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGATA-GA
* *
13688543 GTGCTAGTGTAAGGCATGTCTGGGACATGCATCG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG
13688577 GCCTCGAGAC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
45 4 0.06
46 21 0.30
47 25 0.36
48 19 0.28
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGATAGA
Found at i:13688667 original size:46 final size:45
Alignment explanation
Indices: 13688499--13688670 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 45
13688489 TTATGAGAGC
* * * *
13688499 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCATT-GATACGAGT
1 CAGTGTAAGACCATGTCTAGGACA-GGCATCGGC-TTCGAGATGAGT
* * * * *
13688545 GCTAGTGTAAG-GCATGTCTGGGACATGCATCGGCCTCGAGACATAAGT
1 -C-AGTGTAAGACCATGTCTAGGACAGGCATCGGCTTCGAG--ATGAGT
* * * * *
13688593 CAGCGTAATA-CATGTCTAAGACATGCATCGGCTTCGAGATGTGT
1 CAGTGTAAGACCATGTCTAGGACAGGCATCGGCTTCGAGATGAGT
13688637 CAGTGTAAGACCATGTCTAGGACACGGCATCGGC
1 CAGTGTAAGACCATGTCTAGGACA-GGCATCGGC
13688671 ACGGATATGC
Statistics
Matches: 100, Mismatches: 18, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 49 0.49
47 14 0.14
48 12 0.12
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTAGGACAGGCATCGGCTTCGAGATGAGT
Found at i:13690304 original size:53 final size:53
Alignment explanation
Indices: 13690206--13690310 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
13690196 ATAAACTACG
* * * ** *
13690206 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTC
* *
13690259 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
13690311 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTC
Found at i:13693705 original size:47 final size:47
Alignment explanation
Indices: 13693636--13693731 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
13693626 GCTTTTTGTG
* *
13693636 AAAAAAAAGATGGTTTGATGAGATTGTGCATAAATTATTGGCAGCTT
1 AAAAAAAAGATGGTTCGATGAGATTGTGCATAAATTATCGGCAGCTT
*
13693683 AAAAAAAAGATGGTTCGATGAGATTGTGCATAGATTATCGGCAGCTT
1 AAAAAAAAGATGGTTCGATGAGATTGTGCATAAATTATCGGCAGCTT
13693730 AA
1 AA
13693732 CAAGGTGACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (47 bp):
AAAAAAAAGATGGTTCGATGAGATTGTGCATAAATTATCGGCAGCTT
Found at i:13699963 original size:40 final size:41
Alignment explanation
Indices: 13699906--13699996 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
13699896 TCGGGGTGTT
*
13699906 ACACTAAGTG-TCATATATAGCCCAAGCTAT-TCCAATTCGC
1 ACACTAAGTGCTCATATATAGCCCAAGCTATCTCCAAAT-GC
* * *
13699946 ACACTAAGTGCT-TTATATAGCCGAAGCTATCTCGAAATGC
1 ACACTAAGTGCTCATATATAGCCCAAGCTATCTCCAAATGC
13699986 ACACTAAGTGC
1 ACACTAAGTGC
13699997 CAAACATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 39 0.87
41 6 0.13
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
ACACTAAGTGCTCATATATAGCCCAAGCTATCTCCAAATGC
Found at i:13703284 original size:15 final size:15
Alignment explanation
Indices: 13703264--13703292 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13703254 TGCTCGGATT
13703264 GTGTACAATTTAACC
1 GTGTACAATTTAACC
13703279 GTGTACAATTTAAC
1 GTGTACAATTTAAC
13703293 GGATCGAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (15 bp):
GTGTACAATTTAACC
Found at i:13707168 original size:21 final size:21
Alignment explanation
Indices: 13707142--13707183 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13707132 AAAATTGACA
*
13707142 GCAGGAATTAGAAGTATGAAC
1 GCAGGAATGAGAAGTATGAAC
13707163 GCAGGAATGAGAAGTATGAAC
1 GCAGGAATGAGAAGTATGAAC
13707184 TCCGCAAACC
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:0.43, C:0.10, G:0.31, T:0.17
Consensus pattern (21 bp):
GCAGGAATGAGAAGTATGAAC
Found at i:13715293 original size:17 final size:17
Alignment explanation
Indices: 13715261--13715293 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13715251 TTCGTTTTTG
13715261 TTTAGTTTTTGATAATT
1 TTTAGTTTTTGATAATT
13715278 TTTATGTTTTTG-TAAT
1 TTTA-GTTTTTGATAAT
13715294 CGTTGCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTAGTTTTTGATAATT
Found at i:13718678 original size:47 final size:47
Alignment explanation
Indices: 13718560--13718824 Score: 266
Period size: 47 Copynumber: 5.7 Consensus size: 47
13718550 GGATGATTGA
*
13718560 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
13718608 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
13718651 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
13718701 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
13718744 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* * *
13718793 AC-GCCTAAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTC
13718825 GCTTATGGGC
Statistics
Matches: 183, Mismatches: 15, Indels: 39
0.77 0.06 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 62 0.34
47 82 0.45
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:13718719 original size:93 final size:93
Alignment explanation
Indices: 13718560--13718825 Score: 489
Period size: 93 Copynumber: 2.8 Consensus size: 93
13718550 GGATGATTGA
13718560 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
13718625 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
13718653 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
13718718 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
13718746 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACG-CCTAAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AATGTCCGAA-CTCGTTGA
13718810 GTTGAGTCCGAGTTCG
64 GTTGAGTCCGAGTTCG
13718826 CTTATGGGCG
Statistics
Matches: 169, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
93 142 0.84
94 27 0.16
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13730960 original size:46 final size:46
Alignment explanation
Indices: 13730907--13731079 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
13730897 TGGTTGAGCA
* *
13730907 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * *
13730953 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
*
13731000 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
13731046 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13731080 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.64
47 35 0.34
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:13731063 original size:93 final size:93
Alignment explanation
Indices: 13730904--13731074 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
13730894 GGATGGTTGA
* *
13730904 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
13730969 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
13730997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
*
13731062 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
13731075 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:13736629 original size:40 final size:40
Alignment explanation
Indices: 13736592--13736735 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
13736582 TGAGGAATTG
** *
13736592 TATCCGGGCTTAAAGACCCGTAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATGC
*
13736632 TATCCGGGCTTAAAGACCTACAGGCTATATGCTGGAATGC
1 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATGC
* * * *
13736672 TATCCGGGCTTAAAGACCCACAGGTTTTTTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATGC
* *
13736712 TATCCGGGC-TAGAGACCCGCAGGC
1 TATCCGGGCTTAAAGACCCACAGGC
13736736 CACGAGCTAG
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.13
40 80 0.87
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATGC
Found at i:13738757 original size:31 final size:31
Alignment explanation
Indices: 13738722--13738784 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
13738712 TGTAATAGGA
13738722 AAGTCTATTTTTTTATATCAAATTACGACAT
1 AAGTCTATTTTTTTATATCAAATTACGACAT
13738753 AAGTCTATTTTTTTATATCAAATTACGACAT
1 AAGTCTATTTTTTTATATCAAATTACGACAT
13738784 A
1 A
13738785 TCATGTGCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (31 bp):
AAGTCTATTTTTTTATATCAAATTACGACAT
Found at i:13739844 original size:57 final size:59
Alignment explanation
Indices: 13739745--13739865 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 59
13739735 TCATTTTTCT
* *
13739745 TTTTCTTTTTCATTTTGGAAAAAAACCACATTCATTTTCAAATATTTC-CATTTCTCCA
1 TTTTCTTTTTCATTTTAGAAAAAAACCACATTCATTTCCAAATATTTCTCATTTCTCCA
* ** *
13739803 TTTTCTTTTTCATTTTAG-AGAAAACCACATTTGTTTCCAAATGTTTCTCATTTCTCCA
1 TTTTCTTTTTCATTTTAGAAAAAAACCACATTCATTTCCAAATATTTCTCATTTCTCCA
13739861 TTTTC
1 TTTTC
13739866 GCCATTTCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 24 0.43
58 32 0.57
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (59 bp):
TTTTCTTTTTCATTTTAGAAAAAAACCACATTCATTTCCAAATATTTCTCATTTCTCCA
Found at i:13741084 original size:23 final size:23
Alignment explanation
Indices: 13741056--13741102 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13741046 TAAGCCTGTA
13741056 TGTGGTATATGAATAGTAAGTTG
1 TGTGGTATATGAATAGTAAGTTG
13741079 TGTGGTATATGAATAGTAAGTTG
1 TGTGGTATATGAATAGTAAGTTG
13741102 T
1 T
13741103 AAGTATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (23 bp):
TGTGGTATATGAATAGTAAGTTG
Found at i:13742108 original size:88 final size:83
Alignment explanation
Indices: 13741987--13742160 Score: 242
Period size: 88 Copynumber: 2.0 Consensus size: 83
13741977 GCCCATGCTG
* * *
13741987 CTTTTTTTTTTTTTGCATTCATTTGGGTACTTGAACTTTCACAATACATAAAAAAAGCCATCAAA
1 CTTTTTTTTTTTTTGCATTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAAACC-TCAAA
*
13742052 CCTTCTAAAAAAAGAATTAAGC
65 -C-T-TAAAAAAAAAATTAAGC
*
13742074 CTTTATTTTTTTTTTGCACTT-AATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCTCAA
1 CTTT-TTTTTTTTTTGCA-TTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAAACCTCAA
13742138 ACTTAAAAAAAAAATTAAGC
64 ACTTAAAAAAAAAATTAAGC
13742158 CTT
1 CTT
13742161 GCTTTTATTA
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
84 19 0.24
85 1 0.01
86 1 0.01
87 9 0.11
88 48 0.60
89 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (83 bp):
CTTTTTTTTTTTTTGCATTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAAACCTCAAAC
TTAAAAAAAAAATTAAGC
Found at i:13742193 original size:9 final size:9
Alignment explanation
Indices: 13742181--13742360 Score: 72
Period size: 10 Copynumber: 19.6 Consensus size: 9
13742171 AAAAGTAGAA
13742181 AAAAATTAT
1 AAAAATTAT
*
13742190 AAAAA-AAT
1 AAAAATTAT
*
13742198 CAAAATTA-
1 AAAAATTAT
13742206 ATAAAATCTAT
1 A-AAAAT-TAT
*
13742217 AAATATTATT
1 AAAAATTA-T
**
13742227 AAATTTTAAT
1 AAAAATT-AT
13742237 AAAAAAATT-T
1 --AAAAATTAT
*
13742247 AAATATTA-
1 AAAAATTAT
*
13742255 AAAATTTAT
1 AAAAATTAT
*
13742264 TAAAATT-T
1 AAAAATTAT
13742272 AGAAAATATAT
1 A-AAAAT-TAT
*
13742283 AAAAATTAGA
1 AAAAATTA-T
13742293 AAAAATATAT
1 AAAAAT-TAT
13742303 AAAAATCGTA-
1 AAAAAT--TAT
13742313 AAAAATTAT
1 AAAAATTAT
13742322 -AAAATATAT
1 AAAAAT-TAT
*
13742331 AGAAA-TAT
1 AAAAATTAT
*
13742339 AAAAA-AAT
1 AAAAATTAT
*
13742347 AAAAATTTT
1 AAAAATTAT
13742356 AAAAA
1 AAAAA
13742361 GTGGTAAGAA
Statistics
Matches: 129, Mismatches: 22, Indels: 40
0.68 0.12 0.21
Matches are distributed among these distances:
8 40 0.31
9 34 0.26
10 42 0.33
11 8 0.06
12 5 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13742277 original size:19 final size:18
Alignment explanation
Indices: 13742246--13742346 Score: 73
Period size: 18 Copynumber: 5.4 Consensus size: 18
13742236 TAAAAAAATT
* *
13742246 TAAATATTA-AAAATTTA
1 TAAAAATTAGAAAATATA
*
13742263 TTAAAATTTAGAAAATATA
1 -TAAAAATTAGAAAATATA
13742282 TAAAAATTAGAAAAAATATA
1 TAAAAATTAG--AAAATATA
*
13742302 TAAAAATCGTAAAAAAT-TA
1 TAAAAAT--TAGAAAATATA
13742321 TAAAATATATAG-AAATATA
1 TAAAA-AT-TAGAAAATATA
*
13742340 AAAAAAT
1 TAAAAAT
13742347 AAAAATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
18 22 0.32
19 22 0.32
20 22 0.32
22 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAAATTAGAAAATATA
Found at i:13742467 original size:17 final size:18
Alignment explanation
Indices: 13742440--13742480 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
13742430 CAAAAAAAAC
13742440 ATTTTTAATTTTTCTATA
1 ATTTTTAATTTTTCTATA
* *
13742458 ATTTTT-ATTTTTTTATC
1 ATTTTTAATTTTTCTATA
13742475 ATTTTT
1 ATTTTT
13742481 CGCCAATGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTAATTTTTCTATA
Found at i:13742665 original size:22 final size:22
Alignment explanation
Indices: 13742635--13742691 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13742625 TTTATTAAAA
*
13742635 TTTAATTATTTTTCTAAAATTT
1 TTTATTTATTTTTCTAAAATTT
* *
13742657 TTTATTTATTATTTTTATAATTT
1 TTTATTTATT-TTTCTAAAATTT
*
13742680 TTT-TCTATTTTT
1 TTTATTTATTTTT
13742692 AATAAGAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 14 0.47
23 13 0.43
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATTTATTTTTCTAAAATTT
Found at i:13742682 original size:25 final size:27
Alignment explanation
Indices: 13742634--13742689 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
13742624 ATTTATTAAA
*
13742634 ATTTAATTATTTTTCTAAAATTTTT-T
1 ATTTAATTATTTTTATAAAATTTTTCT
**
13742660 ATTT-ATTATTTTTATAATTTTTTTCT
1 ATTTAATTATTTTTATAAAATTTTTCT
13742686 ATTT
1 ATTT
13742690 TTAATAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (27 bp):
ATTTAATTATTTTTATAAAATTTTTCT
Found at i:13742821 original size:89 final size:90
Alignment explanation
Indices: 13742707--13742897 Score: 251
Period size: 90 Copynumber: 2.1 Consensus size: 90
13742697 GAGTAGGGGT
* * * *
13742707 TTAATTACTTTTTTGAAAAATTTTGAGGGTC-TTTTTGATGCATTTTGAAAGTTTAAGTACCCAA
1 TTAATTGCTTTTTTGAAAAAGTTTGAGGGCCGTTTTTGATGCATTTTAAAAGTTTAAGTACCCAA
*
13742771 TTGAGTG-AAAAAAAAAGCAAGGGC
66 TTAAGTGCAAAAAAAAAGCAAGGGC
* * *
13742795 TTAATTGCATTTTTTGAAGAAGTTTGAGGGCCGTTTTTGATGCATTTTAAAAGTTTAAGTGCTCA
1 TTAATTGC-TTTTTTGAAAAAGTTTGAGGGCCGTTTTTGATGCATTTTAAAAGTTTAAGTACCCA
** * *
13742860 ATTAAGTGCAAAAAATGAGGAGGGGC
65 ATTAAGTGCAAAAAAAAAGCAAGGGC
13742886 TTAATTGCTTTT
1 TTAATTGCTTTT
13742898 ATTTTCAAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
88 7 0.08
89 20 0.23
90 40 0.45
91 21 0.24
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (90 bp):
TTAATTGCTTTTTTGAAAAAGTTTGAGGGCCGTTTTTGATGCATTTTAAAAGTTTAAGTACCCAA
TTAAGTGCAAAAAAAAAGCAAGGGC
Found at i:13746466 original size:182 final size:182
Alignment explanation
Indices: 13746159--13746522 Score: 638
Period size: 182 Copynumber: 2.0 Consensus size: 182
13746149 CAAAAGCAAG
* * * *
13746159 ACTATTGATTTGAGGTGCGCAAATAACGAGGTAATCCGAGTTGAGTCTACGGATTTGGAGGGGTT
1 ACTATTGATTTGAGGTGCGCAAATAACGAAGTAATCCGAATTGAGTCTACGGACTTGGAGGGGAT
13746224 GCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTG
66 GCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTG
*
13746289 CGTATGTACTTGATGAGAAAGAATTAGAAAAGAAACCCGAATCTATGCGGGT
131 CGTATGTACTTGATGACAAAGAATTAGAAAAGAAACCCGAATCTATGCGGGT
* *
13746341 ACTATTGATTTGAGGTGCGCAAATAACGAAGTAGTCCGAATTGAGTCTGCGGACTTGGAGGGGAT
1 ACTATTGATTTGAGGTGCGCAAATAACGAAGTAATCCGAATTGAGTCTACGGACTTGGAGGGGAT
*
13746406 GCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTGAGAAAAGGGTGCGAAGCATACCTTG
66 GCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTG
* *
13746471 CGTATGTACTTGATGACAAAGAGTTAGAAAAGAAACCCGAATCTGTGCGGGT
131 CGTATGTACTTGATGACAAAGAATTAGAAAAGAAACCCGAATCTATGCGGGT
13746523 GGTTTGTGAA
Statistics
Matches: 172, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 172 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (182 bp):
ACTATTGATTTGAGGTGCGCAAATAACGAAGTAATCCGAATTGAGTCTACGGACTTGGAGGGGAT
GCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTTG
CGTATGTACTTGATGACAAAGAATTAGAAAAGAAACCCGAATCTATGCGGGT
Found at i:13747401 original size:56 final size:56
Alignment explanation
Indices: 13747315--13747429 Score: 203
Period size: 56 Copynumber: 2.1 Consensus size: 56
13747305 TGAGGTTCGG
13747315 AGCTTTTTGGGACTCGCCGGTTACTACCGACGATTTGTAAAAGGTTTCTCGATGAT
1 AGCTTTTTGGGACTCGCCGGTTACTACCGACGATTTGTAAAAGGTTTCTCGATGAT
* * *
13747371 AGCTTTTTGGGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTTCTCGATGAT
1 AGCTTTTTGGGACTCGCCGGTTACTACCGACGATTTGTAAAAGGTTTCTCGATGAT
13747427 AGC
1 AGC
13747430 CACACCAATG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (56 bp):
AGCTTTTTGGGACTCGCCGGTTACTACCGACGATTTGTAAAAGGTTTCTCGATGAT
Found at i:13748018 original size:124 final size:124
Alignment explanation
Indices: 13747798--13748042 Score: 472
Period size: 124 Copynumber: 2.0 Consensus size: 124
13747788 ATGACTCAGC
*
13747798 GAGACTTGAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGAT
1 GAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGAT
*
13747863 TACCACCTGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAGTCATTGTTAAA
66 TACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAGTCATTGTTAAA
13747922 GAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGAT
1 GAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGAT
13747987 TACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAGTCATTGTT
66 TACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAGTCATTGTT
13748043 TGCTTTACGA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (124 bp):
GAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGAT
TACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCGGAAGTCATTGTTAAA
Found at i:13750762 original size:51 final size:53
Alignment explanation
Indices: 13750686--13750796 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 53
13750676 TAGGTGTATG
*
13750686 TATGATTAGGTATATTCGGCCATATGAGT-AA-ATATATAGACGATTTTAAAT
1 TATGATTAGGTATATTCGGCCATATGAGTAAATATATATAGACGATGTTAAAT
*
13750737 TATGATTAGGTATATTCGGCCATATGAGTAAATATATATAGATGATGTTAAAT
1 TATGATTAGGTATATTCGGCCATATGAGTAAATATATATAGACGATGTTAAAT
13750790 T-TGATTA
1 TATGATTA
13750797 TATATAATGG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 29 0.52
52 8 0.14
53 19 0.34
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (53 bp):
TATGATTAGGTATATTCGGCCATATGAGTAAATATATATAGACGATGTTAAAT
Found at i:13751290 original size:29 final size:28
Alignment explanation
Indices: 13751254--13751331 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
13751244 TCATGAGATT
13751254 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
13751284 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13751311 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
13751332 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13752271 original size:150 final size:150
Alignment explanation
Indices: 13752000--13752299 Score: 573
Period size: 150 Copynumber: 2.0 Consensus size: 150
13751990 TTGGTTTCAT
13752000 AACGTTAGGTCGTAAATCTTGATAATTCGACCTTTTTATGCCATATGTCATGGTTGATTATTTTG
1 AACGTTAGGTCGTAAATCTTGATAATTCGACCTTTTTATGCCATATGTCATGGTTGATTATTTTG
*
13752065 GTGTTAAAATTCATGATATGGCAATAGTGTAGTAGGGGGATGTTTGACAATGATTAGCCTTTGGC
66 GTGTTAAAATTCACGATATGGCAATAGTGTAGTAGGGGGATGTTTGACAATGATTAGCCTTTGGC
13752130 ATGGCTAGTCATGATCATAA
131 ATGGCTAGTCATGATCATAA
*
13752150 AACGTTAGGTCGTAAATCTTGATAATTCGACCTTTTTATGCCATATGTCATTGTTGATTATTTTG
1 AACGTTAGGTCGTAAATCTTGATAATTCGACCTTTTTATGCCATATGTCATGGTTGATTATTTTG
13752215 GTGTTAAAATTCACGATATGGCAATAGTGTAGTAGGGGGATGTTTGACAATGATTAGCCTTTGGC
66 GTGTTAAAATTCACGATATGGCAATAGTGTAGTAGGGGGATGTTTGACAATGATTAGCCTTTGGC
*
13752280 ATGGCTAGTCATGATTATAA
131 ATGGCTAGTCATGATCATAA
13752300 TTTGTGATAT
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (150 bp):
AACGTTAGGTCGTAAATCTTGATAATTCGACCTTTTTATGCCATATGTCATGGTTGATTATTTTG
GTGTTAAAATTCACGATATGGCAATAGTGTAGTAGGGGGATGTTTGACAATGATTAGCCTTTGGC
ATGGCTAGTCATGATCATAA
Found at i:13759419 original size:29 final size:28
Alignment explanation
Indices: 13759383--13759455 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 28
13759373 TCATGAGATT
*
13759383 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
13759413 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
13759440 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
13759456 CGATTGATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:13759678 original size:174 final size:174
Alignment explanation
Indices: 13759413--13759914 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
13759403 AAATTGTACA
* * *
13759413 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGATTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
13759478 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
13759543 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
13759587 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
13759652 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
13759717 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
13759761 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * * *
13759826 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
13759891 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13759915 ACCTTGAGTT
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 319 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13766051 original size:38 final size:38
Alignment explanation
Indices: 13765982--13766099 Score: 146
Period size: 38 Copynumber: 3.1 Consensus size: 38
13765972 ATAACACCAA
* ***
13765982 CACGAAGCCTACGGGACTTTAAACTTAGATATAATACTAG
1 CACGAAGCCTGCGGGA-TTT-AACCCGGATATAATACTAG
* * *
13766022 CACTAGGCCTGCGGGATTTAACCCGGATATAATACCAG
1 CACGAAGCCTGCGGGATTTAACCCGGATATAATACTAG
*
13766060 CACGAAGCCTGCGGGATTTAACCCGGATATAATTCTAG
1 CACGAAGCCTGCGGGATTTAACCCGGATATAATACTAG
13766098 CA
1 CA
13766100 TATAGCCCGC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
38 51 0.76
39 3 0.04
40 13 0.19
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
CACGAAGCCTGCGGGATTTAACCCGGATATAATACTAG
Found at i:13766112 original size:38 final size:38
Alignment explanation
Indices: 13766009--13766128 Score: 152
Period size: 38 Copynumber: 3.1 Consensus size: 38
13765999 TTTAAACTTA
*
13766009 GATATAATACTAGCACTAGGCCTGCGGGATTTAACCCG
1 GATATAATACTAGCACTAAGCCTGCGGGATTTAACCCG
* *
13766047 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACTAGCACTAAGCCTGCGGGATTTAACCCG
* * *
13766085 GATATAATTCTAGCA-TATAGCCCGCGGGTCTTTAAGCCCG
1 GATATAATACTAGCACTA-AGCCTGCGGG-ATTTAA-CCCG
13766125 GATA
1 GATA
13766129 CACATCAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 57 0.80
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (38 bp):
GATATAATACTAGCACTAAGCCTGCGGGATTTAACCCG
Found at i:13766125 original size:78 final size:78
Alignment explanation
Indices: 13765963--13766128 Score: 176
Period size: 78 Copynumber: 2.1 Consensus size: 78
13765953 CCAGGTATAA
* * ** *
13765963 AACCCGAACATAACACCAACACGAAGCCTACGGGACTTTAAACTTAGATATAATACTAGCACTAG
1 AACCCGGATATAACACCAACACGAAGCCTACGGGACTTTAAACCCAGATATAATACTAGCACTAA
*
13766028 GCCTGCGGGATTT
66 GCCCGCGGGATTT
* * * * *
13766041 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCTAGCA-TAT
1 AACCCGGATATAACACCAACACGAAGCCTACGGGACTTTAAACCCAGATATAATACTAGCACTA-
*
13766103 AGCCCGCGGGTCTTT
65 AGCCCGCGGG-ATTT
13766118 AAGCCCGGATA
1 AA-CCCGGATA
13766129 CACATCAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
75 2 0.03
76 25 0.34
77 8 0.11
78 38 0.52
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (78 bp):
AACCCGGATATAACACCAACACGAAGCCTACGGGACTTTAAACCCAGATATAATACTAGCACTAA
GCCCGCGGGATTT
Found at i:13781563 original size:53 final size:53
Alignment explanation
Indices: 13781489--13781676 Score: 211
Period size: 53 Copynumber: 3.5 Consensus size: 53
13781479 TTTAAATTTG
* *
13781489 CCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCA
1 CCATTGCCACGCCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCA
* ** *
13781542 CCATTGCCACGCCTTGGCATGGTCTTACAT-TGGATAT--TTGCCTTATCGTAGTTTA
1 CCATTGCCACGCCTTGACATGGTCTT--ATGTGG-TATCCTTGCCTTAT-G-AACTCA
* * * *
13781597 TCAATGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCA
1 CCATTGCCACGCCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCA
*
13781650 CCATTGCCACGCCTTGGCATGGTCTTA
1 CCATTGCCACGCCTTGACATGGTCTTA
13781677 CATTGGATAT
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
53 62 0.57
54 8 0.07
55 38 0.35
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (53 bp):
CCATTGCCACGCCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCA
Found at i:13781682 original size:108 final size:108
Alignment explanation
Indices: 13781493--13781790 Score: 499
Period size: 108 Copynumber: 2.8 Consensus size: 108
13781483 AATTTGCCAT
13781493 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCATTGCCACGCCTTG
1 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCATTGCCACGCCTTG
13781558 GCATGGTCTTACATTGGATATTTGCCTTATCGTAGTTTATCAA
66 GCATGGTCTTACATTGGATATTTGCCTTATCGTAGTTTATCAA
13781601 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCATTGCCACGCCTTG
1 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCATTGCCACGCCTTG
13781666 GCATGGTCTTACATTGGATATTTGCCTTATCGTAGTTTATCAA
66 GCATGGTCTTACATTGGATATTTGCCTTATCGTAGTTTATCAA
** * * * * * * *
13781709 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTCACCATTGCCACGCCTT
13781774 GGCATGGTCTTAC-TTGG
65 GGCATGGTCTTACATTGG
13781791 TATCCTTAAA
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
108 149 0.83
109 31 0.17
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCATTGCCACGCCTTG
GCATGGTCTTACATTGGATATTTGCCTTATCGTAGTTTATCAA
Found at i:13781691 original size:53 final size:53
Alignment explanation
Indices: 13781526--13781695 Score: 202
Period size: 53 Copynumber: 3.2 Consensus size: 53
13781516 TGTGGTATCC
13781526 TTGCCTTATGAACTCACCATTGCCACGCCTTGGCATGGTCTTACATTGGATAT
1 TTGCCTTATGAACTCACCATTGCCACGCCTTGGCATGGTCTTACATTGGATAT
** * * * * * *
13781579 TTGCCTTATCGTAGTTTATCAATGCCATGTCTTGACATGGTCTT--ATGTGG-TAT
1 TTGCCTTAT-G-AACTCACCATTGCCACGCCTTGGCATGGTCTTACAT-TGGATAT
13781632 CCTTGCCTTATGAACTCACCATTGCCACGCCTTGGCATGGTCTTACATTGGATAT
1 --TTGCCTTATGAACTCACCATTGCCACGCCTTGGCATGGTCTTACATTGGATAT
13781687 TTGCCTTAT
1 TTGCCTTAT
13781696 CGTAGTTTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
53 47 0.51
54 8 0.09
55 38 0.41
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
TTGCCTTATGAACTCACCATTGCCACGCCTTGGCATGGTCTTACATTGGATAT
Found at i:13781746 original size:55 final size:53
Alignment explanation
Indices: 13781493--13781797 Score: 231
Period size: 55 Copynumber: 5.7 Consensus size: 53
13781483 AATTTGCCAT
** * *
13781493 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
* * * ** * *
13781546 TGCCACGCCTTGGCATGGTCTTACATTGGATAT--TTGCCTTATCGTAGTTTATCAA
1 TGCCATGTCTTGACATGGTCTTACA-T-GATATCCTTGCCTTAT-G-AACTCACCAA
** * *
13781601 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
* * * ** * *
13781654 TGCCACGCCTTGGCATGGTCTTACATTGGATAT--TTGCCTTATCGTAGTTTATCAA
1 TGCCATGTCTTGACATGGTCTTACA-T-GATATCCTTGCCTTAT-G-AACTCACCAA
* * * *
13781709 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAA
* * * *
13781763 TGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTT
13781798 AAACCCTAAT
Statistics
Matches: 192, Mismatches: 48, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
53 71 0.37
54 44 0.23
55 77 0.40
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
Found at i:13785651 original size:49 final size:49
Alignment explanation
Indices: 13785579--13785884 Score: 489
Period size: 49 Copynumber: 6.4 Consensus size: 49
13785569 NNNNNNNNNN
13785579 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
13785628 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
13785677 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
13785726 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
* *
13785775 G----TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGT
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
* * * * * * *
13785820 GTATATATATGTGACAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGT
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
13785869 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
13785885 TCCCGAAGGG
Statistics
Matches: 240, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
45 43 0.18
47 8 0.03
48 1 0.00
49 188 0.78
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:13785762 original size:22 final size:22
Alignment explanation
Indices: 13785734--13785807 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
13785724 GTGTATATAT
13785734 ATGTGATAAGGCTTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
* * * ***
13785756 ATGTGATGAATG-TGAAAGTGTAT
1 ATGTGAT-AAGGCTTAATG-GCCG
*
13785779 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
13785801 ATGTGAT
1 ATGTGAT
13785808 GAATGTGGAA
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCG
Found at i:13785848 original size:143 final size:144
Alignment explanation
Indices: 13785579--13785884 Score: 483
Period size: 143 Copynumber: 2.1 Consensus size: 144
13785569 NNNNNNNNNN
13785579 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG---ATATATGTGATA
* * * * *
13785644 AGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGAT
63 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTGAATGGCCAAC
13785709 GTGATGAATGTGAAAGT
128 GTGATGAATGTGAAAGT
13785726 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG-TATATGTGATAAGG
1 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGG
* * *
13785790 CCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCTGAGTGGCCAACGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTGAATGGCCAACGTG
*
13785855 ATGGATGTGAAAGT
131 ATGAATGTGAAAGT
13785869 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
13785885 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
141 10 0.07
142 1 0.01
143 89 0.59
147 50 0.33
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (144 bp):
GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCTGAATGGCCAACGTG
ATGAATGTGAAAGT
Found at i:13786059 original size:37 final size:37
Alignment explanation
Indices: 13786003--13786081 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13785993 CCGAGCTCTA
* * *
13786003 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13786040 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13786077 AAGAC
1 AAGAC
13786082 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13817564 original size:42 final size:43
Alignment explanation
Indices: 13817457--13817573 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
13817447 TACCAATGCT
* ** *
13817457 ATATCCTAGATATGGTCTTACATGGGATCTCATATCGATGCCA
1 ATATCCTAGATATGGTCTTACACGAAATCTCATATCGATACCA
* *
13817500 ATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCGATACC-
1 ATATCCTAGA-TATGGTCTTACACGAAATCTCATATCGATACCA
*
13817542 ATATCCTAGATATGGTCTTACACGTAATCTCA
1 ATATCCTAGATATGGTCTTACACGAAATCTCA
13817574 ACTAACCCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (43 bp):
ATATCCTAGATATGGTCTTACACGAAATCTCATATCGATACCA
Found at i:13823348 original size:24 final size:24
Alignment explanation
Indices: 13823298--13823348 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
13823288 GTGATCAGTT
* *
13823298 GAGGGATTTAAGGAGTGATTTGAG
1 GAGGGATTTAAGGAGAGATTAGAG
** *
13823322 GAGGGATTTTGGGAGAGATTAGGG
1 GAGGGATTTAAGGAGAGATTAGAG
13823346 GAG
1 GAG
13823349 AAAAATGTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.25
Consensus pattern (24 bp):
GAGGGATTTAAGGAGAGATTAGAG
Found at i:13824794 original size:47 final size:47
Alignment explanation
Indices: 13824721--13824986 Score: 240
Period size: 47 Copynumber: 5.7 Consensus size: 47
13824711 TGGGTAAGGT
* *
13824721 GCCGATGCCATGTCCTAGACACGGTCTTACATTGGCTCACATCTCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAA
* * *
13824768 GTCGATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCA-CATCTC-AA
* * * * *
13824816 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTTGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATC-TCAA
* * *** *
13824862 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCTCAGT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCA-A
* * ***
13824908 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-CTCAA
*
13824956 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT
13824987 AGCCAACAAC
Statistics
Matches: 184, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 71 0.39
47 80 0.43
48 30 0.16
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:13824962 original size:94 final size:92
Alignment explanation
Indices: 13824719--13824989 Score: 309
Period size: 94 Copynumber: 2.9 Consensus size: 92
13824709 TGTGGGTAAG
* * * * * * * *
13824719 GTGCCGATGCCATGTCCTAGACACGGTCTTACATTGGCTCACATCTCAAGTCGATGCCATGTCCT
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATGAGGCCGATG-CATGTCCC
13824784 AGACATGGTCTTACACT-GACTATCATCTC
65 AGACAT-GTCTTACACTAG-CTATCATCTC
*
13824813 GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-T-TGAGGCCGATGCATGT
1 GT-GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-T-C-TCATATGAGGCCGATGCATGT
* **
13824874 CCCAGACATGTCTTACACTAGCTCTTGTCTC
62 CCCAGACATGTCTTACACTAGCTATCATCTC
*
13824905 AGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCC
1 -GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-ATGAGGCCGATGCATGTCC
13824970 CAGACATGTCTTACACTAGC
64 CAGACATGTCTTACACTAGC
13824990 CAACAACAAC
Statistics
Matches: 153, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
91 2 0.01
92 26 0.17
93 42 0.27
94 73 0.48
95 9 0.06
96 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (92 bp):
GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATGAGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCTATCATCTC
Found at i:13826775 original size:17 final size:18
Alignment explanation
Indices: 13826747--13826782 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
13826737 GGGCAGAAAT
13826747 AGGCCGTGTGGGCCCCAC
1 AGGCCGTGTGGGCCCCAC
13826765 AGGCC-TGTGGGCCCCAC
1 AGGCCGTGTGGGCCCCAC
13826782 A
1 A
13826783 CGGACGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.14, C:0.39, G:0.36, T:0.11
Consensus pattern (18 bp):
AGGCCGTGTGGGCCCCAC
Found at i:13827029 original size:27 final size:27
Alignment explanation
Indices: 13826999--13827141 Score: 223
Period size: 27 Copynumber: 5.3 Consensus size: 27
13826989 CAATGTGATG
*
13826999 AAATGACTGTTTTGCCCTTATGTGGTG
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
13827026 AAATGACTGTTTTGCCCTTAAGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
13827053 AAATGACTGTTTTGCCCCTATGAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
13827080 AAATGACTGTTTTGCCCTTATGAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
13827107 AAATAACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
13827134 AAATGACT
1 AAATGACT
13827142 AAAATGCTCC
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:13827161 original size:81 final size:81
Alignment explanation
Indices: 13826999--13827182 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 81
13826989 CAATGTGATG
* * * ***
13826999 AAATGACTGTTTTGCCCTTATGTGGTGAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTT
1 AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTAAA
* *
13827064 TTGCCCCTATGAGGTA
66 ATGCCCCTAAGAGGTA
13827080 AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTATA-TGGTAAAATGACTAA
1 AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTA-AGTGGTAAAATGACTAA
*
13827144 AATGCTCCTACAG-GGTA
65 AATGCCCCTA-AGAGGTA
* * * *
13827161 AATTGACTATTTTTCCCCTATG
1 AAATGACTGTTTTGCCCTTATG
13827183 TGAGGTGTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 86 0.98
82 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (81 bp):
AAATGACTGTTTTGCCCTTATGAGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTAAA
ATGCCCCTAAGAGGTA
Found at i:13827620 original size:40 final size:41
Alignment explanation
Indices: 13827559--13827642 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 41
13827549 ATTACTACGC
*
13827559 TGTTTACTGTTATTGCAATGGGCCAAGGCCCAAACACATGAT
1 TGTTTACTGTTATTGCAATGGGCCAAAGCCCAAACACAT-AT
* *
13827601 TGTTT-CTG-TATTG-AGATGGGCTAAAGCCCAAACAGATAT
1 TGTTTACTGTTATTGCA-ATGGGCCAAAGCCCAAACACATAT
13827640 TGT
1 TGT
13827643 CACTATTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 6 0.16
40 24 0.63
41 3 0.08
42 5 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (41 bp):
TGTTTACTGTTATTGCAATGGGCCAAAGCCCAAACACATAT
Found at i:13841957 original size:26 final size:26
Alignment explanation
Indices: 13841928--13841979 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13841918 ATACACAAGC
13841928 ACATAAAATCGAGCCATAAAATTTCA
1 ACATAAAATCGAGCCATAAAATTTCA
*
13841954 ACATAAAATCGGGCCATAAAATTTCA
1 ACATAAAATCGAGCCATAAAATTTCA
13841980 TTCAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (26 bp):
ACATAAAATCGAGCCATAAAATTTCA
Found at i:13843729 original size:28 final size:28
Alignment explanation
Indices: 13843688--13843758 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
13843678 GATGTCTCAT
* *
13843688 ACACTAAGTACCATACTCAATATCTTGC
1 ACACTAAGTGCCATACTCAATATCTTAC
* * * *
13843716 ACACCAAGTGCCATTCTTAATATTTTAC
1 ACACTAAGTGCCATACTCAATATCTTAC
13843744 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
13843759 TACATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (28 bp):
ACACTAAGTGCCATACTCAATATCTTAC
Found at i:13856840 original size:27 final size:27
Alignment explanation
Indices: 13856787--13856840 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
13856777 ATATATAAAT
* *
13856787 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATTAATTTGTAATTAA
*
13856814 ATTATTAACATAATTAATTT-TAATTAA
1 ATTA-TAAAATAATTAATTTGTAATTAA
13856841 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATAAAATAATTAATTTGTAATTAA
Found at i:13858566 original size:26 final size:26
Alignment explanation
Indices: 13858528--13858622 Score: 68
Period size: 26 Copynumber: 3.7 Consensus size: 26
13858518 CCAACACACC
**
13858528 AATATCGTGGCAAAGCTACAAGTAAT
1 AATATCGCAGCAAAGCTACAAGTAAT
* *
13858554 AATATCGCAGCAAAGCTGCCAGT-AT
1 AATATCGCAGCAAAGCTACAAGTAAT
* * * * *
13858579 CAGTAACGCAGTAAAGCTGCCAA-TAAC
1 -AATATCGCAGCAAAGCT-ACAAGTAAT
*
13858606 AGTATCGCAGCAAAGCT
1 AATATCGCAGCAAAGCT
13858623 GCCAATATCA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.04
26 49 0.91
27 3 0.06
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTACAAGTAAT
Found at i:13858623 original size:26 final size:26
Alignment explanation
Indices: 13858556--13858636 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
13858546 CAAGTAATAA
*
13858556 TATCGCAGCAAAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAATATCAG
* * *
13858582 TAACGCAGTAAAGCTGCCAATAACAG
1 TATCGCAGCAAAGCTGCCAATATCAG
13858608 TATCGCAGCAAAGCTGCCAATATCAG
1 TATCGCAGCAAAGCTGCCAATATCAG
13858634 TAT
1 TAT
13858637 ATGTGGCCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATATCAG
Found at i:13863298 original size:31 final size:31
Alignment explanation
Indices: 13863239--13863298 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
13863229 TTTGAGCCTT
* *
13863239 TAACTCCACAAGCTCTTTCGATGTCATTCCA
1 TAACTCCACAAGCTATTTCGATGCCATTCCA
* *
13863270 TAACTCCACAAGCTATTTTGGTGCCATTC
1 TAACTCCACAAGCTATTTCGATGCCATTC
13863299 TATAGGGGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (31 bp):
TAACTCCACAAGCTATTTCGATGCCATTCCA
Found at i:13866331 original size:27 final size:27
Alignment explanation
Indices: 13866312--13866411 Score: 121
Period size: 27 Copynumber: 3.6 Consensus size: 27
13866302 ATATATTAAG
*
13866312 TCCGCACACTCAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
13866339 -CTCGCACACTTAGTGCTATATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* *
13866366 ACTCGCACACTTAGTGCTATACAATCTAAA
1 TC-CGCACACTTAGTGCTATATAATC--AA
*
13866396 CCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
13866412 CAATCTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 24 0.36
28 24 0.36
29 14 0.21
30 3 0.05
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:13866377 original size:28 final size:28
Alignment explanation
Indices: 13866314--13866411 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
13866304 ATATTAAGTC
*
13866314 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
13866341 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
13866369 CGCACACTTAGTGCTATACAATCTAAACC
1 CGCACACTTAGTGCTATATAATC-AAACT
13866398 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13866412 CAATCTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 22 0.33
28 26 0.39
29 18 0.27
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:13866875 original size:12 final size:12
Alignment explanation
Indices: 13866858--13866884 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13866848 TGGGCATACT
13866858 TATGTATATATA
1 TATGTATATATA
13866870 TATGTATATATA
1 TATGTATATATA
13866882 TAT
1 TAT
13866885 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:13869487 original size:59 final size:59
Alignment explanation
Indices: 13869386--13869527 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 59
13869376 TAATGCAACC
* * * *
13869386 CAACCCAAACCAGCCAACACACTACTTCGTACCAACCAACACACCATGTGGGGACAAAGT
1 CAACCC-ACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
*
13869446 CGACCCACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
1 CAACCCACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
* * *
13869505 TAACCCACTCAGCAAACACACCA
1 CAACCCACCCAGCCAACACACCA
13869528 ATATCGCAGC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 68 0.93
60 5 0.07
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.10
Consensus pattern (59 bp):
CAACCCACCCAGCCAACACACCACTCCATACCAACCAACACACCATGTGGGGACAAAGT
Found at i:13869927 original size:27 final size:27
Alignment explanation
Indices: 13869890--13869953 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
13869880 AAGGCCCATT
* *
13869890 TTGTGGGCCAAATGGGCCCACACGCCC
1 TTGTGGCCCAAATGGGCCCACACACCC
*
13869917 TTGTGGCCCAAGTGGGCCCACACACCC
1 TTGTGGCCCAAATGGGCCCACACACCC
*
13869944 TTATGGCCCA
1 TTGTGGCCCA
13869954 TAAATCCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.38, G:0.27, T:0.17
Consensus pattern (27 bp):
TTGTGGCCCAAATGGGCCCACACACCC
Found at i:13873432 original size:68 final size:67
Alignment explanation
Indices: 13873360--13873509 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
13873350 CATCATGTGT
* * * *
13873360 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
13873422 ATGTAG
62 ATGTAG
** * *
13873428 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
13873493 AG
66 AG
13873495 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
13873510 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:13873465 original size:64 final size:64
Alignment explanation
Indices: 13873384--13873567 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
13873374 AGACATTATG
* *
13873384 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
13873448 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
13873513 AA
63 AA
* * * *
13873515 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
13873568 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13876125 original size:376 final size:378
Alignment explanation
Indices: 13875532--13876252 Score: 1329
Period size: 376 Copynumber: 1.9 Consensus size: 378
13875522 CGAATATAGA
* *
13875532 GAAAAGAAATAAGGTTTGAAGCTTGGTGAATTTCGGCACCTTTAAATCTTGATTTAGGTATGTTC
1 GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
*
13875597 TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCGTTACTTCGTATTCTAGCTAGCCCAT
66 TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCATTACTTCGTATTCTAGCTAGCCCAT
* *
13875662 GCCCTAATTTTTAGAATTTATGATAAATTTGTGATTTTTCATTGATGATAGCTTGATGTTTTTGT
131 GCCCTAATTTTTAGAATTTATGATAAATTTGTAATTTTTCATTGATGATAGCTTCATGTTTTTGT
*
13875727 TGTTTGATGATGAAAAATAAATATTTTTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
196 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
*
13875792 AAAATCCTTATTAAGGATT-AATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
261 AAAATCCTTATGAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
13875856 AAATTAATGGGATGTTAGGGTTTGAAGCTTAAAATAAGGTTTGAAATAAGCTT
326 AAATTAATGGGATGTTAGGGTTTGAAGCTTAAAATAAGGTTTGAAATAAGCTT
*
13875909 GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTTGACACCTTTAAATCTTGATTTAGGTATGTTC
1 GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
*
13875974 TTTGCTCGACTTTTGATAATTTTTATG-TTTTTGAGATCATTGCTTCGTATTCTAGCTAGCCCAT
66 TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCATTACTTCGTATTCTAGCTAGCCCAT
*
13876038 GCCCTAATTTTTAGAATTTATGATGAATTTGTAATTTTTCATTGATGATAGCTTCATGTTTTTGT
131 GCCCTAATTTTTAGAATTTATGATAAATTTGTAATTTTTCATTGATGATAGCTTCATGTTTTTGT
13876103 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
196 TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
*
13876168 AAAATGCTTATGAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
261 AAAATCCTTATGAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
13876233 AAATTAATGGGATGTTAGGG
326 AAATTAATGGGATGTTAGGG
13876253 ACTTAAGGAA
Statistics
Matches: 332, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
376 178 0.54
377 154 0.46
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (378 bp):
GAAAAGAAATAAGGTTCGAAGCTTGGTGAATTTCGACACCTTTAAATCTTGATTTAGGTATGTTC
TTTGCTCGACTTTTGATAATTTTTATGTTTTTTGAGATCATTACTTCGTATTCTAGCTAGCCCAT
GCCCTAATTTTTAGAATTTATGATAAATTTGTAATTTTTCATTGATGATAGCTTCATGTTTTTGT
TGTTTGATGATGAAAAATAAATATTTGTTGATAGATTATTATGTTTAATTAAGTGATTTTTGATA
AAAATCCTTATGAAGGATTAAATTGTGAAATTTGCAAATTTAGGGGTCAAAATGTGAAATAAATG
AAATTAATGGGATGTTAGGGTTTGAAGCTTAAAATAAGGTTTGAAATAAGCTT
Found at i:13876963 original size:43 final size:43
Alignment explanation
Indices: 13876901--13877118 Score: 244
Period size: 43 Copynumber: 5.1 Consensus size: 43
13876891 TGTATATAGA
* * *
13876901 CATCGATATGTGATTACGTGTAAGACCATGCCTGGGACGTTGG
1 CATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
* * *
13876944 TATCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGG
1 CATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
13876987 CATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
* * * * * *
13877030 CATCTATATGTGTTTACAAGTAAGACC-CTATCTAGGATAG-TGG
1 CATCGATATGTGATTACATGTAAGACCAC-GTCTGGGA-CGTTGG
** * *
13877073 CATCGATATAAGATTACATGTAAGTCCACGT-TAGGAACGTTGG
1 CATCGATATGTGATTACATGTAAGACCACGTCT-GGGACGTTGG
13877116 CAT
1 CAT
13877119 TATACCATAT
Statistics
Matches: 147, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
42 3 0.02
43 142 0.97
44 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
CATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
Found at i:13882026 original size:16 final size:16
Alignment explanation
Indices: 13882007--13882038 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13881997 AATTGTTTTA
13882007 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
13882023 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
13882039 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:13882324 original size:50 final size:50
Alignment explanation
Indices: 13882249--13882509 Score: 308
Period size: 50 Copynumber: 5.2 Consensus size: 50
13882239 CCGGTAGGCA
*
13882249 TAGTAGCCTGAACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * * *
13882299 TAGTATCCTGCACTTATTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* ** * * ** *
13882349 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAAT-GGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
* * *
13882400 TAGTAGCCTTCACTTAGTACTACACATGTAACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* *
13882450 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
13882500 TAGTAGCCTG
1 TAGTAGCCTG
13882510 AACTAAGTGT
Statistics
Matches: 171, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 4 0.02
50 131 0.77
51 34 0.20
52 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:13884475 original size:18 final size:20
Alignment explanation
Indices: 13884444--13884490 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13884434 AAAAACATGT
*
13884444 TATATCATCAAAATAATCACA
1 TATAT-ATCAAATTAATCACA
*
13884465 TA-ATATCAAATTATTCACA
1 TATATATCAAATTAATCACA
13884484 TATATAT
1 TATATAT
13884491 ACTTATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAATTAATCACA
Found at i:13887030 original size:15 final size:16
Alignment explanation
Indices: 13887010--13887050 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
13887000 AACCAAGATC
13887010 TCCAAGATAGA-GAAA
1 TCCAAGATAGAGGAAA
13887025 TCCAAGATA-AGGAAA
1 TCCAAGATAGAGGAAA
13887040 TCCAAGATAGA
1 TCCAAGATAGA
13887051 ATATCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.15
Consensus pattern (16 bp):
TCCAAGATAGAGGAAA
Found at i:13890589 original size:50 final size:50
Alignment explanation
Indices: 13890530--13890714 Score: 219
Period size: 50 Copynumber: 3.7 Consensus size: 50
13890520 CGAAGCTCTT
* * *
13890530 TGGTACACATAGTAACCTGTACTTAGAAC-ATCACATGCGACCTATCAATC
1 TGGTACACATAGTAGCCTGAACTTAGTACTA-CACATGCGACCTATCAATC
* * * * * *
13890580 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATC
1 TGGTACACATAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATC
* * *
13890630 TGATAGACGTAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATC
1 TGGTACACATAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATC
* * *
13890680 TGGTACACGTAGTAGCTTGCACTTAGTACTACACA
1 TGGTACACATAGTAGCCTGAACTTAGTACTACACA
13890715 CGTGACTCAC
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
50 112 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGAACTTAGTACTACACATGCGACCTATCAATC
Found at i:13890673 original size:100 final size:100
Alignment explanation
Indices: 13890539--13890721 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
13890529 TTGGTACACA
*
13890539 TAGTAACCTGTACTTAGAACATCACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAACCTGAACTTAGAACATCACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
13890604 AGTACTACACACGTGACTTAACCATCTGATAGACG
66 AGTACTACACACGTGACTTAACCATCTGATAGACG
* * * *
13890639 TAGTAGCCTGAACTTAGTAC-TACACATGCGACCTATCAATCTGGTACACGTAGTAGCTTGCACT
1 TAGTAACCTGAACTTAGAACAT-CACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACT
13890703 TAGTACTACACACGTGACT
65 TAGTACTACACACGTGACT
13890722 CACAACGGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 76 0.99
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (100 bp):
TAGTAACCTGAACTTAGAACATCACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
AGTACTACACACGTGACTTAACCATCTGATAGACG
Found at i:13893701 original size:20 final size:20
Alignment explanation
Indices: 13893676--13893715 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13893666 TGCAATTTTG
* *
13893676 AAAATTTTATAAGTTTCTGA
1 AAAATTCTATAAATTTCTGA
*
13893696 AAAATTCTCTAAATTTCTGA
1 AAAATTCTATAAATTTCTGA
13893716 TTTAGTCCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (20 bp):
AAAATTCTATAAATTTCTGA
Found at i:13896389 original size:19 final size:19
Alignment explanation
Indices: 13896365--13896420 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
13896355 GTATTCGATT
13896365 ACATGTGAATTTATATTGA
1 ACATGTGAATTTATATTGA
* *
13896384 ACATGTGTATTTA-GTT--
1 ACATGTGAATTTATATTGA
*
13896400 ACATGTGAGTTTATATTGA
1 ACATGTGAATTTATATTGA
13896419 AC
1 AC
13896421 TTATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 11 0.38
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (19 bp):
ACATGTGAATTTATATTGA
Found at i:13896436 original size:33 final size:35
Alignment explanation
Indices: 13896363--13896429 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
13896353 GAGTATTCGA
*
13896363 TTACATGTGAATTTATATTGAACATGTGTATTTAG
1 TTACATGTGAATTTATATTGAACATGTATATTTAG
*
13896398 TTACATGTGAGTTTATATTGAAC-T-TATATTTA
1 TTACATGTGAATTTATATTGAACATGTATATTTA
13896430 TATACATTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 7 0.23
34 1 0.03
35 22 0.73
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (35 bp):
TTACATGTGAATTTATATTGAACATGTATATTTAG
Found at i:13898692 original size:126 final size:126
Alignment explanation
Indices: 13898467--13898717 Score: 475
Period size: 126 Copynumber: 2.0 Consensus size: 126
13898457 GCACAACCCT
*
13898467 CACCCCCGAATAATACAAACCCTGCACCTGTAATATCTTCTGTAGTTGACCCGTTGAGGTTGAAC
1 CACCCCCGAATAATACAAACCCTGCACCTGTAATATCTTCTGTAGTTGACCCGTTAAGGTTGAAC
*
13898532 AAGCCCCCGGTTGATAGGATTCGGAAGCATGGGGCTACTGAGTTCAAGGCTACTAACAGTA
66 AAGCCCACGGTTGATAGGATTCGGAAGCATGGGGCTACTGAGTTCAAGGCTACTAACAGTA
13898593 CACCCCCGAATAATACAAACCCTGCACCTGTAATATCTTCTGTAGTTGACCCGTTAAGGTTGAAC
1 CACCCCCGAATAATACAAACCCTGCACCTGTAATATCTTCTGTAGTTGACCCGTTAAGGTTGAAC
*
13898658 AAGCCCACGGTTGATAGGATTCGGAAGCATGGGGCTACTGAGTTCAAGGCTACTGACAGT
66 AAGCCCACGGTTGATAGGATTCGGAAGCATGGGGCTACTGAGTTCAAGGCTACTAACAGT
13898718 GATGATGCTG
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (126 bp):
CACCCCCGAATAATACAAACCCTGCACCTGTAATATCTTCTGTAGTTGACCCGTTAAGGTTGAAC
AAGCCCACGGTTGATAGGATTCGGAAGCATGGGGCTACTGAGTTCAAGGCTACTAACAGTA
Found at i:13904740 original size:47 final size:47
Alignment explanation
Indices: 13904689--13905208 Score: 968
Period size: 47 Copynumber: 11.1 Consensus size: 47
13904679 TTAGGATTTT
13904689 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13904736 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13904783 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13904830 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13904877 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13904924 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13904971 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13905018 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13905065 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
13905112 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
13905159 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13905206 ATG
1 ATG
13905209 CGAAACGTGT
Statistics
Matches: 466, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 466 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:13905271 original size:46 final size:46
Alignment explanation
Indices: 13905182--13905272 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
13905172 GAACATGAAT
* * * *
13905182 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
13905228 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
13905273 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:13905521 original size:37 final size:37
Alignment explanation
Indices: 13905417--13905525 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
13905407 GGAAATATAT
*
13905417 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
13905454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
13905491 TCCGGGTAAGACCCGATAACTTCATATGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
13905526 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:13917148 original size:40 final size:40
Alignment explanation
Indices: 13917104--13917183 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
13917094 AGAATAACTT
*
13917104 AGTCATTGTTTTACTTAATCAAACATCTTAACGAGGCCTA
1 AGTCATGGTTTTACTTAATCAAACATCTTAACGAGGCCTA
13917144 AGTCATGGTTTTACTTAATCAAACATCTTAACGAGGCCTA
1 AGTCATGGTTTTACTTAATCAAACATCTTAACGAGGCCTA
13917184 TAATAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (40 bp):
AGTCATGGTTTTACTTAATCAAACATCTTAACGAGGCCTA
Found at i:13923402 original size:40 final size:41
Alignment explanation
Indices: 13923337--13923433 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
13923327 TAAGTCGATA
*
13923337 TCGCACACTTAGTGCC-TCATATAGCCAAAGC-TATGCCAAC
1 TCGCACACTTAGTGCCATCATATAGCCAAAGCTTAT-CAAAC
* * * *
13923377 TCGCACACTTAGTGCCAT-TTGTAGCCGAAGCTTTATTAAAC
1 TCGCACACTTAGTGCCATCATATAGCCAAAGC-TTATCAAAC
13923418 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
13923434 AACACTTTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 42 0.86
41 4 0.08
42 3 0.06
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATCATATAGCCAAAGCTTATCAAAC
Found at i:13923767 original size:8 final size:8
Alignment explanation
Indices: 13923754--13923783 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
13923744 AGTCCCTATT
13923754 TCACAAAA
1 TCACAAAA
13923762 TCACAAAA
1 TCACAAAA
13923770 TCACAAAA
1 TCACAAAA
13923778 TACACA
1 T-CACA
13923784 TAATTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:13941011 original size:17 final size:15
Alignment explanation
Indices: 13940986--13941042 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
13940976 TAGCTTCTTC
13940986 TTTTTTTTCACGAAAT
1 TTTTTTTTCACG-AAT
*
13941002 TTTGTTTTTCACTAAT
1 TTT-TTTTTCACGAAT
13941018 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
13941033 TTTTTTTTCA
1 TTTTTTTTCA
13941043 ACTTGATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 21 0.55
16 9 0.24
17 8 0.21
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTTTTTCACGAAT
Found at i:13941097 original size:12 final size:12
Alignment explanation
Indices: 13941080--13941130 Score: 93
Period size: 12 Copynumber: 4.2 Consensus size: 12
13941070 ATGGAAACCA
13941080 AATTTTTTTTTG
1 AATTTTTTTTTG
13941092 AATTTTTTTTTG
1 AATTTTTTTTTG
13941104 AATTTTTTTTTTG
1 AA-TTTTTTTTTG
13941117 AATTTTTTTTTG
1 AATTTTTTTTTG
13941129 AA
1 AA
13941131 GAAACTACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
12 26 0.68
13 12 0.32
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.73
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:13941100 original size:13 final size:13
Alignment explanation
Indices: 13941082--13941127 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
13941072 GGAAACCAAA
13941082 TTTTTTTTTGAA-
1 TTTTTTTTTGAAT
13941094 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
13941107 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
13941120 TTTTTTTT
1 TTTTTTTT
13941128 GAAGAAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 12 0.36
13 21 0.64
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:13941116 original size:25 final size:25
Alignment explanation
Indices: 13941082--13941130 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
13941072 GGAAACCAAA
13941082 TTTTTTTTTGAATTTTTTTTTGAAT
1 TTTTTTTTTGAATTTTTTTTTGAAT
13941107 TTTTTTTTTGAATTTTTTTTTGAA
1 TTTTTTTTTGAATTTTTTTTTGAA
13941131 GAAACTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTGAATTTTTTTTTGAAT
Found at i:13941810 original size:27 final size:27
Alignment explanation
Indices: 13941772--13941824 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13941762 AAATAACTCC
13941772 TTCCATAAAATCAATTTAATTCAGCTA
1 TTCCATAAAATCAATTTAATTCAGCTA
*
13941799 TTCCATAAAATCACTTTAATTCAGCT
1 TTCCATAAAATCAATTTAATTCAGCT
13941825 GATTTGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (27 bp):
TTCCATAAAATCAATTTAATTCAGCTA
Found at i:13943322 original size:21 final size:21
Alignment explanation
Indices: 13943298--13943344 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13943288 GCGAAACTAC
13943298 AAAAGAAAAGAAAAAT-GAGAA
1 AAAAGAAAAGAAAAATCGA-AA
*
13943319 AAAAG-AAAGAAAACTCGAAA
1 AAAAGAAAAGAAAAATCGAAA
13943339 AAAAGA
1 AAAAGA
13943345 GAGTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAGAAAAATCGAAA
Done.