Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 122 of 160
Found at i:22742954 original size:24 final size:24
Alignment explanation
Indices: 22742927--22742972 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
22742917 AACTAACCTT
22742927 AACC-GAAGCCCTAAACCTAAACCA
1 AACCTGAAGCCCTAAA-CTAAACCA
*
22742951 AACCTTAAGCCCTAAACTAAAC
1 AACCTGAAGCCCTAAACTAAAC
22742973 GCTGAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.46, C:0.35, G:0.07, T:0.13
Consensus pattern (24 bp):
AACCTGAAGCCCTAAACTAAACCA
Found at i:22746614 original size:13 final size:13
Alignment explanation
Indices: 22746598--22746622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22746588 TTTAAATTAA
22746598 TTTAATAATATTT
1 TTTAATAATATTT
22746611 TTTAATAATATT
1 TTTAATAATATT
22746623 AAAACTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAATAATATTT
Found at i:22747276 original size:2 final size:2
Alignment explanation
Indices: 22747269--22747306 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22747259 ATGCCCAAAA
22747269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22747307 CTAAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22747617 original size:15 final size:17
Alignment explanation
Indices: 22747590--22747638 Score: 66
Period size: 15 Copynumber: 3.0 Consensus size: 17
22747580 TAAAATTTTT
22747590 TTAATATAATATATAAA
1 TTAATATAATATATAAA
*
22747607 TT-ATA-AATATATTAA
1 TTAATATAATATATAAA
*
22747622 TTAATATAATATTTAAA
1 TTAATATAATATATAAA
22747639 AAATTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.41
16 6 0.22
17 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAATATAATATATAAA
Found at i:22747754 original size:29 final size:29
Alignment explanation
Indices: 22747712--22747771 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
22747702 AATCAATAAA
*
22747712 TTTATAATTCAAATATTACATTATAA-ATT
1 TTTAAAATTCAAATATTACATTA-AATATT
* *
22747741 TTTAAAATTTAAATATTATATTAAATATT
1 TTTAAAATTCAAATATTACATTAAATATT
22747770 TT
1 TT
22747772 AATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTAAAATTCAAATATTACATTAAATATT
Found at i:22747779 original size:19 final size:19
Alignment explanation
Indices: 22747742--22747791 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 19
22747732 TTATAAATTT
22747742 TTAAAATTTAAATATTATA
1 TTAAAATTTAAATATTATA
*
22747761 TTAAATATTTTAATATATATAA
1 TTAAA-ATTTAAATAT-TAT-A
22747783 TTTAAAATT
1 -TTAAAATT
22747792 ATTCATTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 3 0.12
22 4 0.15
23 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAAATTTAAATATTATA
Found at i:22748043 original size:26 final size:26
Alignment explanation
Indices: 22748009--22748064 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
22747999 CAAGCGAATT
22748009 AAAATCATTC-AAATTCGAGAAAAATA
1 AAAATCATTCAAAATTCGAGAAAAA-A
*
22748035 AAAATCATTCAAAATTTGAGAAAAAA
1 AAAATCATTCAAAATTCGAGAAAAAA
22748061 AAAA
1 AAAA
22748065 CTCAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.21
Consensus pattern (26 bp):
AAAATCATTCAAAATTCGAGAAAAAA
Found at i:22753216 original size:66 final size:64
Alignment explanation
Indices: 22753144--22753298 Score: 161
Period size: 66 Copynumber: 2.4 Consensus size: 64
22753134 AATAATCATC
* * * * *
22753144 AATAATAACTTAATAGTAAATCATGGATGAC-TTAATAGTAAATTAGTGATAACTTA-ATAGTAA
1 AATAATAACTTAATAGTAAATCAT-GAT-ACTTTAATAGTAAATCAATAATAA-TAATATAATAA
22753207 AT
63 AT
* * *
22753209 GAATAATAATTTAATAGTCAATAAATGATACTTTAATAGTAAATCAATAATAATAATATAATAAA
1 -AATAATAACTTAATAGTAAAT-CATGATACTTTAATAGTAAATCAATAATAATAATATAATAAA
22753274 T
64 T
*
22753275 ATATAATAACTTAGTAGTAAATCA
1 A-ATAATAACTTAATAGTAAATCA
22753299 ATTATAATAT
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
65 6 0.08
66 65 0.89
67 2 0.03
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (64 bp):
AATAATAACTTAATAGTAAATCATGATACTTTAATAGTAAATCAATAATAATAATATAATAAAT
Found at i:22753223 original size:44 final size:43
Alignment explanation
Indices: 22753148--22753328 Score: 152
Period size: 44 Copynumber: 4.1 Consensus size: 43
22753138 ATCATCAATA
* * *
22753148 ATAACTTAATAGTAAATC-ATGGATGACTTAATAGTAAATTAGTG
1 ATAACTTAATAGTAAATCAAT-AATAATTTAATAGTAAATTA-TG
* * *
22753192 ATAACTTAATAGTAAATGAATAATAATTTAATAGTCAATAAATG
1 ATAACTTAATAGTAAATCAATAATAATTTAATAGTAAAT-TATG
* * *
22753236 AT-ACTTTAATAGTAAATCAATAATAA-TAATATAATAAATATATA
1 ATAAC-TTAATAGTAAATCAATAATAATTTA-ATAGTAAAT-TATG
* * * * *
22753280 ATAACTTAGTAGTAAATCAATTATAATATAATTGTAAATGTATA
1 ATAACTTAATAGTAAATCAATAATAATTTAATAGTAAAT-TATG
22753324 ATAAC
1 ATAAC
22753329 ACAAAGGTAA
Statistics
Matches: 112, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
43 4 0.04
44 102 0.91
45 6 0.05
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCAATAATAATTTAATAGTAAATTATG
Found at i:22753295 original size:22 final size:23
Alignment explanation
Indices: 22753141--22753328 Score: 114
Period size: 22 Copynumber: 8.6 Consensus size: 23
22753131 CGTAATAATC
22753141 ATCA-ATAATAACTTAATAGTAA
1 ATCATATAATAACTTAATAGTAA
** *
22753163 ATCAT-GGATGACTTAATAGTAA
1 ATCATATAATAACTTAATAGTAA
*
22753185 AT--TAGTGATAACTTAATAGTAA
1 ATCATA-TAATAACTTAATAGTAA
* * *
22753207 ATGA-ATAATAATTTAATAGTCA
1 ATCATATAATAACTTAATAGTAA
* *
22753229 AT-AAATGAT-ACTTTAATAGTAA
1 ATCATATAATAAC-TTAATAGTAA
* *
22753251 ATCA-ATAATAA-TAATATAATAA
1 ATCATATAATAACTTA-ATAGTAA
*
22753273 AT-ATATAATAACTTAGTAGTAA
1 ATCATATAATAACTTAATAGTAA
* *
22753295 ATCA-ATTATAA-TATAATTGTAA
1 ATCATATAATAACT-TAATAGTAA
*
22753317 AT-GTATAATAAC
1 ATCATATAATAAC
22753329 ACAAAGGTAA
Statistics
Matches: 128, Mismatches: 22, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.01
21 6 0.05
22 115 0.90
23 6 0.05
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (23 bp):
ATCATATAATAACTTAATAGTAA
Found at i:22753569 original size:21 final size:21
Alignment explanation
Indices: 22753510--22753572 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
22753500 GTAAATAATT
* *
22753510 TATAATTTAGTAGTTAATTAT
1 TATAATTTAGTAGTAAATTAG
* ** *
22753531 TGAAAATTTAAAAATAAATTAG
1 T-ATAATTTAGTAGTAAATTAG
22753553 TATAATTTAGTAGTAAATTA
1 TATAATTTAGTAGTAAATTA
22753573 TCGATAACTT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
TATAATTTAGTAGTAAATTAG
Found at i:22753588 original size:22 final size:22
Alignment explanation
Indices: 22753554--22753606 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
22753544 ATAAATTAGT
* *
22753554 ATAATTTAGTAGTAAATTATCG
1 ATAATTTAATAGTAAATCATCG
* *
22753576 ATAACTTAATAGTAAATCATTG
1 ATAATTTAATAGTAAATCATCG
22753598 ATAATTTAA
1 ATAATTTAA
22753607 AATTAGTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATCG
Found at i:22753670 original size:22 final size:22
Alignment explanation
Indices: 22753636--22753698 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
22753626 ATGAATAATG
*
22753636 GATAATTTTGTAGTAAATTATT
1 GATAATTTAGTAGTAAATTATT
*
22753658 GATTATTTAGTAGTAAATTATT
1 GATAATTTAGTAGTAAATTATT
* *
22753680 GATAATTTAATACTAAATT
1 GATAATTTAGTAGTAAATT
22753699 GATAACATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.48
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATTATT
Found at i:22753865 original size:22 final size:22
Alignment explanation
Indices: 22753840--22753916 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
22753830 TAAAGTAGTT
*
22753840 ATAATTTTATAATAAATCATTA
1 ATAATTTAATAATAAATCATTA
* * *
22753862 ATAACTTAATAATAAATTATCA
1 ATAATTTAATAATAAATCATTA
* * *
22753884 ATAATTTAATAGTAAATCAATC
1 ATAATTTAATAATAAATCATTA
22753906 ATAATTTAATA
1 ATAATTTAATA
22753917 GCAAATCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAATAAATCATTA
Found at i:22753874 original size:11 final size:11
Alignment explanation
Indices: 22753848--22753916 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
22753838 TTATAATTTT
*
22753848 ATAATAAATCA
1 ATAATAAATTA
* *
22753859 TTAATAACTTA
1 ATAATAAATTA
22753870 ATAATAAATT-
1 ATAATAAATTA
*
22753880 ATCAATAATTTA
1 AT-AATAAATTA
* *
22753892 ATAGTAAATCA
1 ATAATAAATTA
* *
22753903 ATCATAATTTA
1 ATAATAAATTA
22753914 ATA
1 ATA
22753917 GCAAATCTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
10 2 0.05
11 38 0.90
12 2 0.05
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (11 bp):
ATAATAAATTA
Found at i:22754320 original size:22 final size:22
Alignment explanation
Indices: 22754293--22754431 Score: 118
Period size: 22 Copynumber: 6.3 Consensus size: 22
22754283 AAAAAATAGG
* *
22754293 TGATAACTTAATAATTAATCAT
1 TGATAACTTAATAATAAATCAA
* *
22754315 TAATAACTTATTAATAAATCAA
1 TGATAACTTAATAATAAATCAA
* * *
22754337 TGATAACTTAATAGTAAATTAG
1 TGATAACTTAATAATAAATCAA
*
22754359 TGATAACTTAATAATAAATTAA
1 TGATAACTTAATAATAAATCAA
** * * *
22754381 TTTTAATTTAATAGT-AATTAA
1 TGATAACTTAATAATAAATCAA
* *
22754402 TTGATAAACTTACTAGTAAATCAA
1 -TGAT-AACTTAATAATAAATCAA
22754426 TGATAA
1 TGATAA
22754432 TTTTTGAAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
21 6 0.06
22 70 0.74
23 13 0.14
24 5 0.05
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (22 bp):
TGATAACTTAATAATAAATCAA
Found at i:22754380 original size:11 final size:11
Alignment explanation
Indices: 22754295--22754381 Score: 57
Period size: 11 Copynumber: 7.9 Consensus size: 11
22754285 AAAATAGGTG
*
22754295 ATAACTTAATA
1 ATAAATTAATA
* * *
22754306 ATTAATCATTA
1 ATAAATTAATA
* *
22754317 ATAACTTATTA
1 ATAAATTAATA
* *
22754328 ATAAATCAATG
1 ATAAATTAATA
*
22754339 ATAACTTAATA
1 ATAAATTAATA
* * *
22754350 GTAAATTAGTG
1 ATAAATTAATA
*
22754361 ATAACTTAATA
1 ATAAATTAATA
22754372 ATAAATTAAT
1 ATAAATTAAT
22754382 TTTAATTTAA
Statistics
Matches: 53, Mismatches: 23, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:22754443 original size:32 final size:32
Alignment explanation
Indices: 22754402--22754465 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
22754392 TAGTAATTAA
** *
22754402 TTGATAAACTTACTAGTAAATCAATGATAATTT
1 TTGATAAACTTAAAAATAAATCAAT-ATAATTT
22754435 TTGA-AAACTTAAAAATAAATCAATATAATTT
1 TTGATAAACTTAAAAATAAATCAATATAATTT
22754466 AGAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 7 0.25
32 17 0.61
33 4 0.14
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (32 bp):
TTGATAAACTTAAAAATAAATCAATATAATTT
Found at i:22754528 original size:22 final size:22
Alignment explanation
Indices: 22754471--22754519 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
22754461 AATTTAGAAA
*
22754471 TAAATC-ATCGATAACTTAATAG
1 TAAATCAAT-GATAACTAAATAG
*
22754493 TTAATCAATGATAACTAAATAG
1 TAAATCAATGATAACTAAATAG
22754515 TAAAT
1 TAAAT
22754520 TATGAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (22 bp):
TAAATCAATGATAACTAAATAG
Found at i:22754646 original size:22 final size:22
Alignment explanation
Indices: 22754621--22754720 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
22754611 AAAAGCTAAA
22754621 TAGTAAATCAATGATAACATAG
1 TAGTAAATCAATGATAACATAG
** * *
22754643 TAGTAAATGTATAATAACATAA
1 TAGTAAATCAATGATAACATAG
* * * *
22754665 TAATAAATTATTGATAACTTAG
1 TAGTAAATCAATGATAACATAG
* *
22754687 TAGTAAATTAATTATAACATATAG
1 TAGTAAATCAATGATAAC--ATAG
22754711 TAGTAAATCA
1 TAGTAAATCA
22754721 CTAGTTACAA
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
22 48 0.80
24 12 0.20
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (22 bp):
TAGTAAATCAATGATAACATAG
Found at i:22754672 original size:44 final size:44
Alignment explanation
Indices: 22754619--22754707 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
22754609 TCAAAAGCTA
*
22754619 AATAGTAAATCAATGATAACATAGTAGTAAATGT-ATAATAACAT
1 AATAATAAATCAATGATAACATAGTAGTAAAT-TAATAATAACAT
* * * *
22754663 AATAATAAATTATTGATAACTTAGTAGTAAATTAATTATAACAT
1 AATAATAAATCAATGATAACATAGTAGTAAATTAATAATAACAT
22754707 A
1 A
22754708 TAGTAGTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.34
Consensus pattern (44 bp):
AATAATAAATCAATGATAACATAGTAGTAAATTAATAATAACAT
Found at i:22754891 original size:22 final size:22
Alignment explanation
Indices: 22754866--22754943 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
22754856 CTTCAGCAAC
*
22754866 TTAGTAATAAGTCATTAACAAT
1 TTAGTAATAAATCATTAACAAT
*
22754888 TTAG-AAGTAAATCATTAATAAT
1 TTAGTAA-TAAATCATTAACAAT
* * *
22754910 TTAGTAATAAATCATTCATAAA
1 TTAGTAATAAATCATTAACAAT
*
22754932 TTAATAATAAAT
1 TTAGTAATAAAT
22754944 TTATGATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 2 0.04
22 45 0.92
23 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (22 bp):
TTAGTAATAAATCATTAACAAT
Found at i:22754972 original size:22 final size:22
Alignment explanation
Indices: 22754895--22754973 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
22754885 AATTTAGAAG
* *
22754895 TAAATCATTAATAATTTAGTAA
1 TAAATCATTGATAATTTAATAA
* *
22754917 TAAATCATTCATAAATTAATAA
1 TAAATCATTGATAATTTAATAA
* *
22754939 TAAAT-TTATGATAATTTAATAG
1 TAAATCAT-TGATAATTTAATAA
*
22754961 TAAATTATTGATA
1 TAAATCATTGATA
22754974 GCACAGTAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
21 1 0.02
22 45 0.96
23 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (22 bp):
TAAATCATTGATAATTTAATAA
Found at i:22755454 original size:21 final size:21
Alignment explanation
Indices: 22755425--22755481 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
22755415 ACTAATATTG
22755425 AAGGTTACTAAAATTGTATCA
1 AAGGTTACTAAAATTGTATCA
* * *
22755446 AATGTTACTAAGATTTTATCA
1 AAGGTTACTAAAATTGTATCA
22755467 AAGGTTA-TCAAAATT
1 AAGGTTACT-AAAATT
22755482 AGAATTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (21 bp):
AAGGTTACTAAAATTGTATCA
Found at i:22756144 original size:2 final size:2
Alignment explanation
Indices: 22756137--22756163 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22756127 AGACCAATTC
22756137 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22756164 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22764278 original size:2 final size:2
Alignment explanation
Indices: 22764271--22764302 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22764261 CACCACTGGA
22764271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22764303 GTATGGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22767673 original size:12 final size:12
Alignment explanation
Indices: 22767656--22767694 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22767646 TGCTTGTTGT
*
22767656 ACATACATACAC
1 ACATACAAACAC
22767668 ACATACAAACAC
1 ACATACAAACAC
* *
22767680 ACACACACACAC
1 ACATACAAACAC
22767692 ACA
1 ACA
22767695 CACCAACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.54, C:0.38, G:0.00, T:0.08
Consensus pattern (12 bp):
ACATACAAACAC
Found at i:22767681 original size:2 final size:2
Alignment explanation
Indices: 22767664--22767697 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
22767654 GTACATACAT
* *
22767664 AC AC AC AT AC AA AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
22767698 CAACATGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:22773121 original size:104 final size:103
Alignment explanation
Indices: 22772972--22773158 Score: 268
Period size: 104 Copynumber: 1.8 Consensus size: 103
22772962 GGAATTATTT
* * *
22772972 AGATTTAAAGAAAAAGAATATATATAAATTCATTGTTTTTTTTTATTGATCAATAAATCATTTTT
1 AGATTTAAAGAAAAAGAAGATATAAAAATTCATTGTTTTTTTTTATTAATCAATAAATCATTTTT
*
22773037 AATTAATTAAGTAATTTTTTGTCAAACAAATATGATTC
66 AATTAATTAAATAATTTTTTGTCAAACAAATATGATTC
* * * *
22773075 AGATTTAAAGAGAAA-AAGATATAAAAATTCATTTTTTTATTTTTTATTAATCAATAATTTATTT
1 AGATTTAAAGAAAAAGAAGATATAAAAATTCA-TTGTTT-TTTTTTATTAATCAATAAATCATTT
*
22773139 TTAATTTATTAAATAATTTT
64 TTAATTAATTAAATAATTTT
22773159 GTCAAATAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
102 14 0.19
103 19 0.26
104 40 0.55
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (103 bp):
AGATTTAAAGAAAAAGAAGATATAAAAATTCATTGTTTTTTTTTATTAATCAATAAATCATTTTT
AATTAATTAAATAATTTTTTGTCAAACAAATATGATTC
Found at i:22773153 original size:23 final size:22
Alignment explanation
Indices: 22773110--22773157 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
22773100 AATTCATTTT
* *
22773110 TTTATTTTTTATTAATCAATAA
1 TTTATTTTTAATTAATAAATAA
*
22773132 TTTATTTTTAATTTATTAAATAA
1 TTTATTTTTAA-TTAATAAATAA
22773155 TTT
1 TTT
22773158 TGTCAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATTTTTAATTAATAAATAA
Found at i:22774826 original size:29 final size:28
Alignment explanation
Indices: 22774770--22774831 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
22774760 ATATATATTA
*
22774770 AAAATTAATAATTTATTTAGGTTCAAATT
1 AAAATTAATAATTTATTTAGGATCAAA-T
* *
22774799 AAAATTGAATGATTTATTTA-GATGAAAT
1 AAAATT-AATAATTTATTTAGGATCAAAT
22774827 AAAAT
1 AAAAT
22774832 ATAAAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 11 0.38
30 12 0.41
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (28 bp):
AAAATTAATAATTTATTTAGGATCAAAT
Found at i:22778240 original size:30 final size:28
Alignment explanation
Indices: 22778169--22778241 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 28
22778159 GATTAATCAA
22778169 TAATTATAATTTGATTATAATATAACAGT
1 TAATTATAA-TTGATTATAATATAACAGT
*
22778198 TAATTATTTAATTGATTATATAATATAATA-T
1 TAATTA--TAATTGA-T-TATAATATAACAGT
22778229 TCAATTATAATTG
1 T-AATTATAATTG
22778242 TAACTTCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 6 0.16
30 10 0.26
31 6 0.16
32 16 0.42
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (28 bp):
TAATTATAATTGATTATAATATAACAGT
Found at i:22783665 original size:2 final size:2
Alignment explanation
Indices: 22783658--22783683 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22783648 GAACACAATT
22783658 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
22783684 ACACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22785243 original size:2 final size:2
Alignment explanation
Indices: 22785236--22785262 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22785226 ATGCCTACAA
22785236 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22785263 CAAGTAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22790129 original size:22 final size:22
Alignment explanation
Indices: 22790103--22790145 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22790093 TGTATATTTA
*
22790103 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
22790125 TATTTGTATCCCTAGAATTAA
1 TATTTGTATCCCTAGAATTAA
22790146 TGAAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:22790550 original size:18 final size:18
Alignment explanation
Indices: 22790527--22790561 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22790517 ATGTTCTTTG
*
22790527 GGTAAAGTTTCTAGTTCA
1 GGTAAAGCTTCTAGTTCA
*
22790545 GGTAAAGCTTCTGGTTC
1 GGTAAAGCTTCTAGTTC
22790562 TCATGGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GGTAAAGCTTCTAGTTCA
Found at i:22794030 original size:22 final size:22
Alignment explanation
Indices: 22794004--22794047 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22793994 TGTATATTTA
*
22794004 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
22794026 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
22794048 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:22807667 original size:25 final size:25
Alignment explanation
Indices: 22807639--22807722 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
22807629 GATTTATCTT
22807639 TATTGCAATGGTACAACGTAGATTG
1 TATTGCAATGGTACAACGTAGATTG
* * ** *
22807664 TATTG-AATGTCTA-ATAAGATTTATCG
1 TATTGCAATG-GTACA-ACG-TAGATTG
*
22807690 TTATTGCAATGGTTCAACGTAGATTG
1 -TATTGCAATGGTACAACGTAGATTG
22807716 TATTGCA
1 TATTGCA
22807723 TCTATAATTT
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
24 5 0.12
25 16 0.38
26 8 0.19
27 8 0.19
28 5 0.12
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (25 bp):
TATTGCAATGGTACAACGTAGATTG
Found at i:22811285 original size:2 final size:2
Alignment explanation
Indices: 22811278--22811313 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
22811268 AATTAATCTC
*
22811278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22811314 TGTGATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22820352 original size:14 final size:16
Alignment explanation
Indices: 22820330--22820371 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
22820320 AAATAAAAAT
*
22820330 TATATTTTAAAATTTCA
1 TATA-TTTAAAATGTCA
22820347 -A-ATTTAAAATGTCA
1 TATATTTAAAATGTCA
22820361 TATATTTAAAA
1 TATATTTAAAA
22820372 AATTAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (16 bp):
TATATTTAAAATGTCA
Found at i:22823640 original size:16 final size:17
Alignment explanation
Indices: 22823610--22823641 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22823600 AATTTTATGA
22823610 TTTAAAAAATAATTTTC
1 TTTAAAAAATAATTTTC
22823627 TTTAAAAAAT-ATTTT
1 TTTAAAAAATAATTTT
22823642 ATGGGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAAATAATTTTC
Found at i:22824922 original size:16 final size:16
Alignment explanation
Indices: 22824901--22824931 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22824891 CCTATTTTTT
22824901 GTTTTGATTTGATTTG
1 GTTTTGATTTGATTTG
22824917 GTTTTGATTTGATTT
1 GTTTTGATTTGATTT
22824932 TTATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.65
Consensus pattern (16 bp):
GTTTTGATTTGATTTG
Found at i:22826475 original size:20 final size:20
Alignment explanation
Indices: 22826420--22826476 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
22826410 TTGTCTATTT
*
22826420 TCATTCATTTCATTCATCTTAC
1 TCATTCA-TTCA-TCATCTCAC
**
22826442 TCATTCATAGATCATCATCA-
1 TCATTCATTCATCATC-TCAC
22826462 TCATTCATTCATCAT
1 TCATTCATTCATCAT
22826477 GTCATTGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 18 0.62
21 4 0.14
22 7 0.24
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (20 bp):
TCATTCATTCATCATCTCAC
Found at i:22831759 original size:84 final size:84
Alignment explanation
Indices: 22831494--22831981 Score: 258
Period size: 84 Copynumber: 5.8 Consensus size: 84
22831484 ATTTGTAAAA
* * * * * * * *
22831494 CCTTCGAGTAAGATTCATAAATCTTTCAAGCTGAATTTGTTTTAGA-CCTAAGATTTGTAAAACC
1 CCTTCGAGTAAGATTCGTAAGTCTTTCAAGCTAAATCTATTTAAGAGTC-GAGATTTGTAAAACC
* * ** *
22831558 TTCGGGCATAATTTCTAAGT
65 TCCGAGTGTAATCTCTAAGT
* * * * * * * * ** * * *
22831578 TC-TCCAGACAAGATTTGTAAGTCTTTTAAGTTAAATCTATTTTAGTGTTAAGATTAGTAAGACT
1 CCTTCGAG-TAAGATTCGTAAGTCTTTCAAGCTAAATCTATTTAAGAGTCGAGATTTGTAAAACC
*
22831642 TCC-ATGTGTAAT-TTTCAAGT
65 TCCGA-GTGTAATCTCT-AAGT
** * * * * * *
22831662 TTTTC-AGGCAAGATTTGTAATTCTTTCGAGTTAAATCTATTTAAGAGTCGAGATTTGTAAAATC
1 CCTTCGA-GTAAGATTCGTAAGTCTTTCAAGCTAAATCTATTTAAGAGTCGAGATTTGTAAAACC
*
22831726 TCCGAGTGTAATCTCTAAAT
65 TCCGAGTGTAATCTCTAAGT
* * * * * *
22831746 CCTTCGAGTAAGATTTGTATGTCTTTCAAGCTAAATTTATTTTATAGTCGAGAGTTGTAAGAAGA
1 CCTTCGAGTAAGATTCGTAAGTCTTTCAAGCTAAATCTATTTAAGAGTCGAGATTTGT-A-AA-A
** *
22831811 CCTCCGAGCATAATCTTTAAGT
63 CCTCCGAGTGTAATCTCTAAGT
* * * * *
22831833 CCTTC-AGGTAAGGTTCGTAAGTATTTCAAGCTGAAT-TATTTTAAGA-TTGAGATTTGTAAGAC
1 CCTTCGA-GTAAGATTCGTAAGTCTTTCAAGCTAAATCTA-TTTAAGAGTCGAGATTTGTAAAAC
* *
22831895 CTCTTG-GTGTAATGTCTAAGT
64 CTC-CGAGTGTAATCTCTAAGT
* ** * * * * *
22831916 CCTCTGGA-TAAGATTCGTAAGTCTTTTGAGGTGAATCTATTTTAGATTCGAGATTTATAAAACC
1 CCT-TCGAGTAAGATTCGTAAGTCTTTCAAGCTAAATCTATTTAAGAGTCGAGATTTGTAAAACC
22831980 TC
65 TC
22831982 TAGACGTAAT
Statistics
Matches: 308, Mismatches: 77, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
83 54 0.18
84 178 0.58
85 10 0.03
86 14 0.05
87 52 0.17
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (84 bp):
CCTTCGAGTAAGATTCGTAAGTCTTTCAAGCTAAATCTATTTAAGAGTCGAGATTTGTAAAACCT
CCGAGTGTAATCTCTAAGT
Found at i:22831933 original size:83 final size:84
Alignment explanation
Indices: 22831695--22831982 Score: 203
Period size: 87 Copynumber: 3.4 Consensus size: 84
22831685 TTTCGAGTTA
* * * * * * *
22831695 AATCTATTTAAGAGTCGAGATTTGTAAAATCTC-CGAGTGTAATCTCTAAATCCTTC-GAGTAAG
1 AATCTATTTTAGATTCGAGATTTATAAAACCTCTTG-GTGTAATGTCTAAGTCCTTCAG-GTAAG
* * * *
22831758 ATTTGTATGTCTTTCAAGCTA
64 ATTCGTAAGTATTTCAAGCTG
* * * * ** * *
22831779 AATTTATTTTATAGTCGAGAGTTGTA-AGAAGACCTC-CGAGCATAATCTTTAAGTCCTTCAGGT
1 AATCTATTTTAGATTCGAGA-TT-TATA-AA-ACCTCTTG-GTGTAATGTCTAAGTCCTTCAGGT
*
22831842 AAGGTTCGTAAGTATTTCAAGCTG
61 AAGATTCGTAAGTATTTCAAGCTG
* * *
22831866 AAT-TATTTTAAGATT-GAGATTTGTAAGACCTCTTGGTGTAATGTCTAAGTCC-TCTGGATAAG
1 AATCTATTTT-AGATTCGAGATTTATAAAACCTCTTGGTGTAATGTCTAAGTCCTTCAGG-TAAG
* ** *
22831928 ATTCGTAAGTCTTTTGAGGTG
64 ATTCGTAAGTATTTCAAGCTG
22831949 AATCTATTTTAGATTCGAGATTTATAAAACCTCT
1 AATCTATTTTAGATTCGAGATTTATAAAACCTCT
22831983 AGACGTAATC
Statistics
Matches: 162, Mismatches: 31, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
82 4 0.02
83 46 0.28
84 42 0.26
85 6 0.04
86 13 0.08
87 50 0.31
88 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (84 bp):
AATCTATTTTAGATTCGAGATTTATAAAACCTCTTGGTGTAATGTCTAAGTCCTTCAGGTAAGAT
TCGTAAGTATTTCAAGCTG
Found at i:22833351 original size:3 final size:3
Alignment explanation
Indices: 22833298--22833332 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22833288 TTATTTTCAC
22833298 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22833333 TCCATCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22834382 original size:17 final size:17
Alignment explanation
Indices: 22834360--22834497 Score: 101
Period size: 17 Copynumber: 8.4 Consensus size: 17
22834350 AAAAAAAAAA
*
22834360 AAAAACCTCGAAACCCT
1 AAAAACCTCAAAACCCT
*
22834377 AAAAACCTTCAAAACTCT
1 AAAAACC-TCAAAACCCT
22834395 AAAAACCTCAAAACCCT
1 AAAAACCTCAAAACCCT
* *
22834412 AAAACCCTCAAAACTCTT
1 AAAAACCTCAAAAC-CCT
* *
22834430 AAAATCCT-AAAA--TT
1 AAAAACCTCAAAACCCT
* * * *
22834444 CAAAACTTTAAAA-TCT
1 AAAAACCTCAAAACCCT
22834460 -AAAACCT-AAAA-CCT
1 AAAAACCTCAAAACCCT
* *
22834474 AAAATCCTTAAAACCCT
1 AAAAACCTCAAAACCCT
22834491 AAAAACC
1 AAAAACC
22834498 CTAAACTTTG
Statistics
Matches: 100, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.13
15 16 0.16
16 5 0.05
17 42 0.42
18 24 0.24
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.20
Consensus pattern (17 bp):
AAAAACCTCAAAACCCT
Found at i:22834407 original size:8 final size:8
Alignment explanation
Indices: 22834361--22834488 Score: 61
Period size: 9 Copynumber: 15.8 Consensus size: 8
22834351 AAAAAAAAAA
22834361 AAAACCTC
1 AAAACCTC
* *
22834369 GAAACCCTA
1 -AAAACCTC
22834378 AAAACCTTC
1 AAAACC-TC
*
22834387 AAAACTCTA
1 AAAAC-CTC
22834396 AAAACCTC
1 AAAACCTC
22834404 AAAACC-C
1 AAAACCTC
22834411 TAAAACCCTC
1 -AAAA-CCTC
*
22834421 AAAACTCTT
1 AAAAC-CTC
22834430 AAAATCCT-
1 AAAA-CCTC
*
22834438 AAAA-TTC
1 AAAACCTC
* *
22834445 AAAACTTT
1 AAAACCTC
*
22834453 AAAATCT-
1 AAAACCTC
22834460 AAAACCT-
1 AAAACCTC
22834467 AAAACCT-
1 AAAACCTC
*
22834474 AAAATCCTT
1 AAAA-CCTC
22834483 AAAACC
1 AAAACC
22834489 CTAAAAACCC
Statistics
Matches: 96, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
6 1 0.01
7 22 0.23
8 34 0.35
9 36 0.38
10 3 0.03
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.20
Consensus pattern (8 bp):
AAAACCTC
Found at i:22834458 original size:23 final size:23
Alignment explanation
Indices: 22834419--22834463 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
22834409 CCTAAAACCC
22834419 TCAAAACTCTTAAAATCCTAAAAT
1 TCAAAACTCTTAAAAT-CTAAAAT
22834443 TCAAAACT-TTAAAATCTAAAA
1 TCAAAACTCTTAAAATCTAAAA
22834464 CCTAAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 8 0.38
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (23 bp):
TCAAAACTCTTAAAATCTAAAAT
Found at i:22834501 original size:62 final size:64
Alignment explanation
Indices: 22834378--22834555 Score: 161
Period size: 62 Copynumber: 2.8 Consensus size: 64
22834368 CGAAACCCTA
* * * *
22834378 AAAACCTTCAAAACTCTAAAAACCTCAAAACCCTAAAACCCTCAAAACTCTTAAAATCCTAAAAT
1 AAAA-CTTTAAAA-TCT-AAAACCTCAAAACCCTAAAACCCTCAAAACCCTAAAAACCCTAAAAT
22834443 TC
63 TC
* * * *
22834445 AAAACTTTAAAATCTAAAACCT-AAAA-CCTAAAATCCTTAAAACCCTAAAAACCCTAAACTTT
1 AAAACTTTAAAATCTAAAACCTCAAAACCCTAAAACCCTCAAAACCCTAAAAACCCTAAAATTC
* * * *
22834507 GAAACCTTAAAATCCAAAACCCTC--AACCATTAAAA-CCTC-AAACCCTAAA
1 AAAACTTTAAAATCTAAAA-CCTCAAAACC-CTAAAACCCTCAAAACCCTAAA
22834556 TAGTCAAAAC
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
62 57 0.61
63 11 0.12
64 12 0.13
65 3 0.03
66 7 0.07
67 4 0.04
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.21
Consensus pattern (64 bp):
AAAACTTTAAAATCTAAAACCTCAAAACCCTAAAACCCTCAAAACCCTAAAAACCCTAAAATTC
Found at i:22834526 original size:15 final size:15
Alignment explanation
Indices: 22834437--22834527 Score: 51
Period size: 15 Copynumber: 5.9 Consensus size: 15
22834427 CTTAAAATCC
* *
22834437 TAAAATTCAAAACTT
1 TAAAATCCAAAACCT
*
22834452 TAAAATCTAAAACC-
1 TAAAATCCAAAACCT
22834466 TAAAA-CCTAAAATCCT
1 TAAAATCC-AAAA-CCT
* *
22834482 TAAAACCCTAAAAACCC
1 TAAAATCC--AAAACCT
* ***
22834499 TAAACTTTGAAACCT
1 TAAAATCCAAAACCT
22834514 TAAAATCCAAAACC
1 TAAAATCCAAAACC
22834528 CTCAACCATT
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
13 1 0.02
14 9 0.16
15 28 0.51
16 5 0.09
17 8 0.15
18 4 0.07
ACGTcount: A:0.52, C:0.24, G:0.01, T:0.23
Consensus pattern (15 bp):
TAAAATCCAAAACCT
Found at i:22834632 original size:22 final size:23
Alignment explanation
Indices: 22834607--22834655 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
22834597 TTCGAAATTA
22834607 TAAAAT-CAAAATCCTAAAATCC-
1 TAAAATCCAAAATCCTAAAA-CCT
*
22834629 T-AAATCCTAAATCCTAAAACCT
1 TAAAATCCAAAATCCTAAAACCT
22834651 TAAAA
1 TAAAA
22834656 CTGTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 6 0.26
22 14 0.61
23 3 0.13
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAATCCAAAATCCTAAAACCT
Found at i:22834635 original size:7 final size:7
Alignment explanation
Indices: 22834615--22834646 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
22834605 TATAAAATCA
22834615 AAATCCT
1 AAATCCT
22834622 AAAATCCT
1 -AAATCCT
22834630 AAATCCT
1 AAATCCT
22834637 AAATCCT
1 AAATCCT
22834644 AAA
1 AAA
22834647 ACCTTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
AAATCCT
Found at i:22835376 original size:58 final size:58
Alignment explanation
Indices: 22835278--22835425 Score: 190
Period size: 58 Copynumber: 2.5 Consensus size: 58
22835268 AAGAATAGTT
* * *
22835278 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAA-AATTCCAAAAAATA
1 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGAATTCCAAAAAA-A
** *
22835336 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTCTAAAAAAA
1 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGAATTCCAAAAAAA
* * *
22835394 TATTTTAGGGAGAAGTTGAAAGTATTAATTTT
1 T-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
22835426 TCCTGTACAA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
58 43 0.54
59 36 0.46
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (58 bp):
TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGAATTCCAAAAAAA
Found at i:22835470 original size:18 final size:19
Alignment explanation
Indices: 22835447--22835483 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22835437 AGCAATCATT
*
22835447 TTTCTTTT-CTTTTTTTTA
1 TTTCTTTTGATTTTTTTTA
22835465 TTTCTTTTGATTTTTTTTA
1 TTTCTTTTGATTTTTTTTA
22835484 ATGTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTCTTTTGATTTTTTTTA
Found at i:22839125 original size:26 final size:24
Alignment explanation
Indices: 22839083--22839136 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
22839073 CTGGGAGTGA
*
22839083 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
22839107 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
22839133 GAAA
1 GAAA
22839137 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:22839204 original size:31 final size:32
Alignment explanation
Indices: 22839145--22839215 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
22839135 AATTTCCAGA
* **
22839145 TTCCGGCGAAAATTCCGGCGAAGTTTGAA-TT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGTT
22839176 TTCCGGCGAAAATTCCGGCCAACATTGAAGTT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGTT
22839208 TT-CGGCGA
1 TTCCGGCGA
22839216 CCTGCCCAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (32 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGTT
Found at i:22839313 original size:20 final size:20
Alignment explanation
Indices: 22839275--22839313 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22839265 AACTTCCGGT
* *
22839275 AAAATTTCCAGATTTCGGCG
1 AAAATTTCCAGAATCCGGCG
*
22839295 AAAATTTTCAGAATCCGGC
1 AAAATTTCCAGAATCCGGC
22839314 ACCGGTGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (20 bp):
AAAATTTCCAGAATCCGGCG
Found at i:22839673 original size:20 final size:19
Alignment explanation
Indices: 22839631--22839679 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
22839621 CCCCTCCAGG
* * *
22839631 TTTTTTTTTTTTTTATTTC
1 TTTTTTATTTGTTTATTTA
22839650 TTTTTTATTTGTTTATTTTA
1 TTTTTTATTTGTTTA-TTTA
22839670 TTTTTTATTT
1 TTTTTTATTT
22839680 ATTAGATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTTTATTTGTTTATTTA
Found at i:22839880 original size:117 final size:117
Alignment explanation
Indices: 22839759--22840218 Score: 660
Period size: 117 Copynumber: 3.9 Consensus size: 117
22839749 AAAAAATTCC
* *
22839759 AAAAAAAATATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTCCA
1 AAAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCCA
*
22839821 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
64 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* * *
22839875 AAAAAAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAAATTCCA
1 -AAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCCA
*
22839938 AAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
64 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
** * *
22839992 TCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAA
1 AAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCC--
22840057 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
63 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTT
** *
22840113 CAAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCC
1 -AAAAAAAA-AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCC
22840178 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
63 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
22840219 CTAAAAAAAA
Statistics
Matches: 317, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
116 45 0.14
117 110 0.35
118 7 0.02
120 51 0.16
121 44 0.14
122 6 0.02
123 54 0.17
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (117 bp):
AAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAA
AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
Found at i:22840000 original size:59 final size:58
Alignment explanation
Indices: 22839761--22840218 Score: 595
Period size: 57 Copynumber: 7.7 Consensus size: 58
22839751 AAAATTCCAA
*
22839761 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
1 AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* * **
22839819 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT--TC
* *
22839879 AAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-ATTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
* *
22839936 CAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
** * *
22839994 AAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTC
22840055 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*
22840114 AAAAAAA-AGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAA-TTT
1 AAAAAAATA-----TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTT
22840176 C
58 C
*
22840177 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
22840219 CTAAAAAAAA
Statistics
Matches: 353, Mismatches: 28, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
57 96 0.27
58 23 0.07
59 78 0.22
60 50 0.14
61 46 0.13
62 46 0.13
63 10 0.03
64 4 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:22841081 original size:14 final size:14
Alignment explanation
Indices: 22841062--22841096 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
22841052 TTATGAGCTT
22841062 TGTTCAATAGATGA
1 TGTTCAATAGATGA
22841076 TGTTCAATAGATGA
1 TGTTCAATAGATGA
22841090 TGTTCAA
1 TGTTCAA
22841097 GAAAAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (14 bp):
TGTTCAATAGATGA
Found at i:22841675 original size:22 final size:21
Alignment explanation
Indices: 22841650--22841714 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
22841640 TGGATGAAAA
22841650 ATGAGAAAAAAGAAAAAAGATG
1 ATGAGAAAAAAGAAAAAA-ATG
* * *
22841672 ATGAAAAAAAATAAAAAAAAAG
1 ATGAGAAAAAA-GAAAAAAATG
* *
22841694 A-AAGAAAGAAGAAAAAAATG
1 ATGAGAAAAAAGAAAAAAATG
22841714 A
1 A
22841715 AGAAATGAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 9 0.26
21 6 0.18
22 13 0.38
23 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (21 bp):
ATGAGAAAAAAGAAAAAAATG
Found at i:22841711 original size:32 final size:32
Alignment explanation
Indices: 22841646--22841711 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
22841636 ATAATGGATG
* * * *
22841646 AAAAATGAGAAAAAAGAAAAAAGATGATGAAA
1 AAAAATAAAAAAAAAGAAAAAAGAAGATAAAA
22841678 AAAAATAAAAAAAAAGAAAGAAAGAAGA-AAAA
1 AAAAATAAAAAAAAAGAAA-AAAGAAGATAAAA
22841710 AA
1 AA
22841712 TGAAGAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (32 bp):
AAAAATAAAAAAAAAGAAAAAAGAAGATAAAA
Found at i:22841717 original size:19 final size:20
Alignment explanation
Indices: 22841684--22841728 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
22841674 GAAAAAAAAT
22841684 AAAAAAAAAGAAAGAAA-GA
1 AAAAAAAAAGAAAGAAATGA
*
22841703 AGAAAAAAATG-AAGAAATGA
1 A-AAAAAAAAGAAAGAAATGA
22841723 AAAAAA
1 AAAAAA
22841729 GAGATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAATGA
Found at i:22843637 original size:43 final size:42
Alignment explanation
Indices: 22843539--22843960 Score: 501
Period size: 43 Copynumber: 10.1 Consensus size: 42
22843529 TAGGAGAGCC
22843539 ATTTACTTTTCAAAGTCGTTGAGCCTCTG-TCTAGAGGAGCCGTTT
1 ATTTA-TTTTCAAAGTCGTTGAGCCTCTGAT-TAGAGGAG-C-TTT
* * *
22843584 A--T-TTTTCAAAGTTGTTGAGCCTCTGATTGGAAGAGCTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
*
22843623 ATTTATTTTCCAAAGTCGTTGCGCCTCTGATTAGAGGAGCTTT
1 ATTTATTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * *
22843666 ATTCATTTTCCAAAGTCATTAAGCCTCTGATTAGAGGAGCTTT
1 ATTTATTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
*
22843709 A-TT-TTTT-AAAGTCGTTGAGCCTCTGATTAGAGGAACTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
22843748 A--T-TCTTCAAAGTCATTGAACCTTTGATTAGAGGAGCTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
22843787 ATTTA-TTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
1 ATTTATTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* *
22843829 ATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGC--C
1 ATTTA-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
22843870 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
1 ATTTA-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
22843913 ATTCATTTTCAAAGTCATTGAGCCTCTAATTAGAGGAGCATT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
*
22843955 GTTTAT
1 ATTTAT
22843961 GTTTTTCAAA
Statistics
Matches: 329, Mismatches: 34, Indels: 31
0.84 0.09 0.08
Matches are distributed among these distances:
38 4 0.01
39 63 0.19
40 1 0.00
41 76 0.23
42 78 0.24
43 102 0.31
44 4 0.01
45 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (42 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
Found at i:22843927 original size:126 final size:126
Alignment explanation
Indices: 22843545--22843997 Score: 548
Period size: 126 Copynumber: 3.6 Consensus size: 126
22843535 AGCCATTTAC
* **
22843545 TTTTCAAAGTCGTTGAGCCTCTG-TCTAGAGGAGC--CGTTTATTTTTCAAAGTTGTTGAGCCTC
1 TTTTCAAAGTCATTGAGCCTCTGAT-TAGAGGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTC
* * * * *
22843607 TGATTGGAAGAGCTTTATTTATTTTCCAAAGTCGTTGCGCCTCTGATTAGAGGAGCTTTATTCA
65 TGATTAGAGGAGC--CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
* *
22843671 TTTTCCAAAGTCATTAAGCCTCTGATTAGAGGAGCTTTA--T-TTTTT-AAAGTCGTTGAGCCTC
1 TTTT-CAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTC
* * * * * *
22843732 TGATTAGAGGA-AC-TTTATTCTTCAAAGTCATTGAACCTTTGATTAGAGGAGCTTTATTTA
65 TGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
*
22843792 -TTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTC
1 TTTTC-AAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTC
22843856 TGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
65 TGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
* * * * * * *
22843918 TTTTCAAAGTCATTGAGCCTCTAATTAGAGGAGCATTGTTTATGTTTTTCAAATTTATTAAACCT
1 TTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTA--TTTTTCAAAGTTGTTGAGCCT
*
22843983 CTGCTTAGAGGAGCC
64 CTGATTAGAGGAGCC
22843998 TTGATCAAAT
Statistics
Matches: 279, Mismatches: 34, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
119 1 0.00
120 34 0.12
121 40 0.14
122 1 0.00
123 5 0.02
124 26 0.09
125 25 0.09
126 84 0.30
127 31 0.11
128 32 0.11
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (126 bp):
TTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCT
GATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
Found at i:22844214 original size:19 final size:19
Alignment explanation
Indices: 22844181--22844254 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
22844171 GTTGGTCTAG
22844181 TTTATTTT-T-TTTTAT-T
1 TTTATTTTATATTTTATAT
*
22844197 TTGTATTTTGTATTTTATAT
1 TT-TATTTTATATTTTATAT
22844217 TTTATTTTATATTATATATAT
1 TTTATTTTATATT-T-TATAT
*
22844238 ATTT-CTTTATATTTTAT
1 -TTTATTTTATATTTTAT
22844255 CTATTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 1 0.02
19 19 0.39
20 5 0.10
21 13 0.27
22 3 0.06
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTATTTTATATTTTATAT
Found at i:22844220 original size:7 final size:7
Alignment explanation
Indices: 22844188--22844254 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
22844178 TAGTTTATTT
*
22844188 TTTTTTA
1 TTTTATA
*
22844195 TTTTGTA
1 TTTTATA
*
22844202 TTTTGTA
1 TTTTATA
22844209 TTTTATA
1 TTTTATA
22844216 -TTT-TA
1 TTTTATA
22844221 TTTTATA
1 TTTTATA
*
22844228 TTATATA
1 TTTTATA
* *
22844235 -TATATT
1 TTTTATA
22844241 TCTTTATA
1 T-TTTATA
22844249 TTTTAT
1 TTTTAT
22844255 CTATTTATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 2 0.04
6 11 0.22
7 32 0.64
8 5 0.10
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (7 bp):
TTTTATA
Found at i:22844266 original size:7 final size:7
Alignment explanation
Indices: 22844250--22844292 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
22844240 TTCTTTATAT
22844250 TTTATCTA
1 TTTAT-TA
22844258 TTTATTA
1 TTTATTA
22844265 TTTATTTA
1 TTTA-TTA
22844273 TTTATTA
1 TTTATTA
*
22844280 -TTACTA
1 TTTATTA
22844286 TTTATTA
1 TTTATTA
22844293 ATGTATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:22844268 original size:15 final size:15
Alignment explanation
Indices: 22844250--22844292 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
22844240 TTCTTTATAT
22844250 TTTATCTATTTATTA
1 TTTATCTATTTATTA
*
22844265 TTTATTTATTTATTA
1 TTTATCTATTTATTA
22844280 -TTA-CTATTTATTA
1 TTTATCTATTTATTA
22844293 ATGTATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 14 0.54
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATCTATTTATTA
Found at i:22844269 original size:4 final size:4
Alignment explanation
Indices: 22844181--22844342 Score: 63
Period size: 4 Copynumber: 41.2 Consensus size: 4
22844171 GTTGGTCTAG
* * *
22844181 TTTA TTT- TTT- TTTA TTT- TGTA TTT- TGTA TTT- TATA TTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA
* * * * *
22844226 TATTA TATA TATA TTTC TTTA TAT- TTTA TCTA TTTA -TTA TTTA TTTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
22844273 TTTA -TTA TTACTA TTTA TTAA TGTA TGTT- TTTA TTTG TTAA TATA TTTA
1 TTTA TTTA TT--TA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
* * *
22844322 TATA TTTA TTTG TCTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
22844343 ATGTTATTGT
Statistics
Matches: 115, Mismatches: 30, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
3 22 0.19
4 76 0.66
5 13 0.11
6 4 0.03
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:22844278 original size:28 final size:30
Alignment explanation
Indices: 22844228--22844332 Score: 83
Period size: 30 Copynumber: 3.5 Consensus size: 30
22844218 TTATTTTATA
* * *
22844228 TTATATATATATTTCTTTATATTTTATCTAT
1 TTATATATTTATTTATTTAT-TATTATCTAT
22844259 TTAT-TATTTATTTATTTATTATTA-CTAT
1 TTATATATTTATTTATTTATTATTATCTAT
* * *
22844287 TTAT-TAATGTATGTT-TTTATTTGTTAATATAT
1 TTATAT-ATTTAT-TTATTTA-TTATT-ATCTAT
22844319 TTATATATTTATTT
1 TTATATATTTATTT
22844333 GTCTATTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
28 9 0.15
29 13 0.21
30 19 0.31
31 7 0.11
32 12 0.20
33 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (30 bp):
TTATATATTTATTTATTTATTATTATCTAT
Found at i:22844367 original size:18 final size:18
Alignment explanation
Indices: 22844346--22844383 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22844336 TATTTATATG
*
22844346 TTATTGTTTATCTGTTAA
1 TTATTGTTTATCTATTAA
22844364 TTATTGTTTATCTATTAA
1 TTATTGTTTATCTATTAA
22844382 TT
1 TT
22844384 CAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (18 bp):
TTATTGTTTATCTATTAA
Found at i:22845297 original size:21 final size:20
Alignment explanation
Indices: 22845271--22845321 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
22845261 TGTTTAATAC
22845271 TTTTTATTTTT-GTTTTATT
1 TTTTTATTTTTAGTTTTATT
*
22845290 TTCCTTTATTTTTATTTTTATT
1 TT--TTTATTTTTAGTTTTATT
22845312 TTTTTATTTT
1 TTTTTATTTT
22845322 ATTTTCTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 8 0.29
21 9 0.32
22 9 0.32
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTTATTTTTAGTTTTATT
Found at i:22845317 original size:14 final size:13
Alignment explanation
Indices: 22845294--22845331 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
22845284 TTTATTTTCC
*
22845294 TTTATTTTTAT-T
1 TTTATTTTTTTAT
22845306 TTTATTTTTTTAT
1 TTTATTTTTTTAT
22845319 TTTATTTTCTTTA
1 TTTATTTT-TTTA
22845332 AATAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 9 0.39
14 4 0.17
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:22845464 original size:49 final size:49
Alignment explanation
Indices: 22845368--22845463 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
22845358 AAGAAAAAGT
*
22845368 TGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTAAAAAAAGATTTTTG
1 TGAAAGTATCAATTTTCCTTAAAAATAAGATTTTAAAAAAAGATTTTTG
* * *
22845417 TGAAAGTATCAATTTTCTTTAAAAATAA-ATTTTCAAAAAAGTTTTTT
1 TGAAAGTATCAATTTTCCTTAAAAATAAGATTTTAAAAAAAGATTTTT
22845464 TAAGGAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 16 0.37
49 27 0.63
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (49 bp):
TGAAAGTATCAATTTTCCTTAAAAATAAGATTTTAAAAAAAGATTTTTG
Found at i:22845585 original size:114 final size:117
Alignment explanation
Indices: 22845417--22845663 Score: 360
Period size: 114 Copynumber: 2.1 Consensus size: 117
22845407 AAGATTTTTG
* * *
22845417 TGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAGTTTTTTTAAGGAAAAGTTGAAAGT
1 TGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATTTTTTTAAGGAAAAGTTGAAAAT
*
22845482 GATCAA-TTTTCTCGAAATAAAATTTTTC-AAAAAAATA-TTGGA-GAAAAGT
66 -ATCAATTTTTCTCGAAATAAAAGTTTTCTAAAAAAATATTTGGAGGAAAAGT
* *
22845531 TGAAAGTATCCAATTTTCCTTAAAAATAAA-TTTGAAAAAAATTTTTTTGAGGAAAAGTTGAAAA
1 TGAAAGTAT-CAATTTTCCTTAAAAATAAATTTTCAAAAAAATTTTTTTAAGGAAAAGTTGAAAA
* * *
22845595 TATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAAAATATTTTGAGGAGAAGT
65 TATCAATTTTTCTCGAAATAAAAGTTTTCTAAAAAAATATTTGGAGGAAAAGT
22845648 TGAAAGTATCAATTTT
1 TGAAAGTATCAATTTT
22845664 TCCTGTACAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
113 5 0.04
114 60 0.50
115 28 0.24
116 11 0.09
117 15 0.13
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (117 bp):
TGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATTTTTTTAAGGAAAAGTTGAAAAT
ATCAATTTTTCTCGAAATAAAAGTTTTCTAAAAAAATATTTGGAGGAAAAGT
Found at i:22845664 original size:59 final size:57
Alignment explanation
Indices: 22845417--22845665 Score: 249
Period size: 59 Copynumber: 4.3 Consensus size: 57
22845407 AAGATTTTTG
* * * *
22845417 TGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTCAAAAAAGTTTTTTTAAGGAAAAGT
1 TGAAAGTATCAATTTTTC-TCAAAAATAAATTTTCAAAAAA-ATATTTTGAGGAAAAGT
* *
22845475 TGAAAGTGATCAA-TTTTCTCGAAATAA-AATTTTTCAAAAAAATA-TTGGA-GAAAAGT
1 TGAAAGT-ATCAATTTTTCTC-AAA-AATAAATTTTCAAAAAAATATTTTGAGGAAAAGT
* * * *
22845531 TGAAAGTATCCAATTTTCCTTAAAAATAAA-TTTGAAAAAAATTTTTTTGAGGAAAAGT
1 TGAAAGTAT-CAATTTTTCTCAAAAATAAATTTTCAAAAAAA-TATTTTGAGGAAAAGT
* * * *
22845589 TGAAAATATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAAAATATTTTGAGGAGAAGT
1 TGAAAGTATCAATTTTTCTCAAAAATAAA-TTTTC-AAAAAAATATTTTGAGGAAAAGT
22845648 TGAAAGTATCAATTTTTC
1 TGAAAGTATCAATTTTTC
22845666 CTGTACAAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 23
0.78 0.10 0.11
Matches are distributed among these distances:
55 14 0.09
56 23 0.15
57 28 0.18
58 24 0.15
59 60 0.38
60 9 0.06
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (57 bp):
TGAAAGTATCAATTTTTCTCAAAAATAAATTTTCAAAAAAATATTTTGAGGAAAAGT
Found at i:22849875 original size:2 final size:2
Alignment explanation
Indices: 22849870--22849918 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
22849860 TATATATATA
22849870 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22849912 TG TG TG T
1 TG TG TG T
22849919 CAAAATGACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:22850027 original size:2 final size:2
Alignment explanation
Indices: 22850020--22850050 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22850010 AGTATTATTC
22850020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22850051 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22850094 original size:160 final size:160
Alignment explanation
Indices: 22849794--22850111 Score: 415
Period size: 160 Copynumber: 2.0 Consensus size: 160
22849784 ATTAGTGTAG
22849794 ACTGTAGATTAGAAAAATAAATTGCAAACCTTCAAAATGACTGCCCAAAATGTATAAGTATTATT
1 ACTGTAGATTAGAAAAATAAATTGCAAACCTTCAAAATGACTGCCCAAAATGTATAAGTATTATT
* * * * * * * * * * * * * * *
22849859 CTATATATATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCAAAA
66 CTATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGCGCGCGCGCGTCAAAA
*
22849924 TGACTGCCCAAAATGTATAAGTATTATTCT
131 TGACTGCCCAAAATATATAAGTATTATTCT
*
22849954 ACTGTAGATTAGAAAAATAAATTGCAAACCTTCAAAATGACTGCCTAAAATGTATAAGTATTATT
1 ACTGTAGATTAGAAAAATAAATTGCAAACCTTCAAAATGACTGCCCAAAATGTATAAGTATTATT
***
22850019 CTATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGCGCGCGCGCG-C-GCG
66 CTATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGCGCGCGCGCGTCAAAA
*
22850082 TGTCATTGCCCAAAATATATAAGTATTATT
131 TG--ACTGCCCAAAATATATAAGTATTATT
22850112 TTATATATAT
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
158 2 0.01
159 1 0.01
160 132 0.98
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (160 bp):
ACTGTAGATTAGAAAAATAAATTGCAAACCTTCAAAATGACTGCCCAAAATGTATAAGTATTATT
CTATATATATATATATATATATATATATATATGTGTGTGTGTGTGTGTGCGCGCGCGCGTCAAAA
TGACTGCCCAAAATATATAAGTATTATTCT
Found at i:22850363 original size:3 final size:3
Alignment explanation
Indices: 22850355--22850407 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
22850345 ATTTATTTAT
22850355 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22850403 TTA TT
1 TTA TT
22850408 TTGGTTGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22850886 original size:19 final size:19
Alignment explanation
Indices: 22850864--22850902 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22850854 CATAATCCAA
*
22850864 TTGAATTTTTTGACGACTT
1 TTGAATTTTTCGACGACTT
*
22850883 TTGAATTTTTCGATGACTT
1 TTGAATTTTTCGACGACTT
22850902 T
1 T
22850903 CTAGCAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (19 bp):
TTGAATTTTTCGACGACTT
Found at i:22851611 original size:16 final size:16
Alignment explanation
Indices: 22851590--22851622 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22851580 ATTTTCAATT
22851590 TAAAAAATAATAAAAA
1 TAAAAAATAATAAAAA
*
22851606 TAAAAATTAATAAAAA
1 TAAAAAATAATAAAAA
22851622 T
1 T
22851623 TTCAGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAATAATAAAAA
Found at i:22859235 original size:11 final size:12
Alignment explanation
Indices: 22859199--22859230 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
22859189 TTGGCGATAA
22859199 ATATTATTATTT
1 ATATTATTATTT
22859211 ATATTA-TATTT
1 ATATTATTATTT
22859222 ATATTATTA
1 ATATTATTA
22859231 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:22860025 original size:13 final size:13
Alignment explanation
Indices: 22860007--22860047 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
22859997 GATAATTTTA
22860007 AATATAATATAAT
1 AATATAATATAAT
* *
22860020 AATATATTATAAA
1 AATATAATATAAT
*
22860033 AATAAAATATAAT
1 AATATAATATAAT
22860046 AA
1 AA
22860048 ATTTATATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATAATATAAT
Found at i:22860042 original size:16 final size:16
Alignment explanation
Indices: 22860006--22860048 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
22859996 TGATAATTTT
*
22860006 AAATATAAT-ATAATA
1 AAATATAATAAAAATA
* *
22860021 ATATATTATAAAAATA
1 AAATATAATAAAAATA
22860037 AAATATAATAAA
1 AAATATAATAAA
22860049 TTTATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATAATAAAAATA
Found at i:22860056 original size:26 final size:26
Alignment explanation
Indices: 22860006--22860054 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
22859996 TGATAATTTT
*
22860006 AAATATAATATAATAATATATTATAA
1 AAATAAAATATAATAATATATTATAA
22860032 AAATAAAATATAATAA-AT-TTATA
1 AAATAAAATATAATAATATATTATA
22860055 TATATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 15 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATAAAATATAATAATATATTATAA
Found at i:22860384 original size:19 final size:19
Alignment explanation
Indices: 22860362--22860401 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
22860352 CAATATTTTA
*
22860362 ATATTAATTATATTTAATT
1 ATATTAATCATATTTAATT
22860381 ATATTAATCATATTTAATT
1 ATATTAATCATATTTAATT
22860400 AT
1 AT
22860402 GTTTATTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTAATCATATTTAATT
Found at i:22860387 original size:9 final size:10
Alignment explanation
Indices: 22860365--22860406 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
22860355 TATTTTAATA
22860365 TTAATTATAT
1 TTAATTATAT
22860375 TTAATTATA-
1 TTAATTATAT
*
22860384 TTAATCATAT
1 TTAATTATAT
*
22860394 TTAATTATGT
1 TTAATTATAT
22860404 TTA
1 TTA
22860407 TTGTGTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
TTAATTATAT
Found at i:22860555 original size:22 final size:22
Alignment explanation
Indices: 22860503--22860557 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
22860493 TTATTATGAT
* *
22860503 TATTTAAATATTTGTTTTATATT
1 TATTTAAA-ATTTGATTTATATA
*
22860526 TATGTAAAATTT-ATTTATATCA
1 TATTTAAAATTTGATTTATAT-A
22860548 TATTTAAAAT
1 TATTTAAAAT
22860558 CATATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 7 0.26
22 13 0.48
23 7 0.26
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTAAAATTTGATTTATATA
Found at i:22861650 original size:25 final size:23
Alignment explanation
Indices: 22861622--22861693 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
22861612 TTATCACTTT
22861622 AAATTTTGATATAATATGATATGAA
1 AAATTTT-ATATAATAT-ATATGAA
* **
22861647 AAA-TATATATAATATATGATTTA
1 AAATTTTATATAATATAT-ATGAA
*
22861670 AAATTTTAATAAAATATATATGAA
1 AAATTTT-ATATAATATATATGAA
22861694 TTTAACAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
22 2 0.05
23 15 0.41
24 7 0.19
25 13 0.35
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
AAATTTTATATAATATATATGAA
Found at i:22862361 original size:2 final size:2
Alignment explanation
Indices: 22862354--22862394 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22862344 AAGCAAAACA
22862354 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22862395 AATGGAGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22869167 original size:2 final size:2
Alignment explanation
Indices: 22869160--22869189 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22869150 TGTCATGTTC
22869160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22869190 GTTGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22869874 original size:12 final size:10
Alignment explanation
Indices: 22869836--22869946 Score: 75
Period size: 10 Copynumber: 10.9 Consensus size: 10
22869826 CAATAAAATT
22869836 TTTTAAAAAA
1 TTTTAAAAAA
*
22869846 TTTTAAAATA
1 TTTTAAAAAA
*
22869856 TTCTAAAAAA
1 TTTTAAAAAA
*
22869866 CTTTTTAAAAA
1 -TTTTAAAAAA
22869877 TTTTAAATAAGA
1 TTTTAAA-AA-A
* *
22869889 -TTTGAAATA
1 TTTTAAAAAA
22869898 TTTT-AAAAA
1 TTTTAAAAAA
22869907 TTTATAAAAAA
1 TTT-TAAAAAA
*
22869918 -TTAAAAAAA
1 TTTTAAAAAA
* *
22869927 TATTTTAGAAA
1 T-TTTAAAAAA
*
22869938 TTATAAAAA
1 TTTTAAAAA
22869947 TTAGAAAAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
9 14 0.18
10 35 0.45
11 27 0.35
12 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:22869882 original size:9 final size:9
Alignment explanation
Indices: 22869836--22869992 Score: 57
Period size: 9 Copynumber: 16.3 Consensus size: 9
22869826 CAATAAAATT
22869836 TTTTAAAAAA
1 TTTT-AAAAA
22869846 TTTTAAAATA
1 TTTTAAAA-A
*
22869856 TTCTAAAAAA
1 TT-TTAAAAA
22869866 CTTTTTAAAAA
1 --TTTTAAAAA
22869877 TTTTAAATAAGA
1 TTTT-AA-AA-A
* *
22869889 TTTGAAATA
1 TTTTAAAAA
22869898 TTTTAAAAA
1 TTTTAAAAA
22869907 TTTATAAAAAA
1 TTT-T-AAAAA
**
22869918 TTAAAAAAATA
1 TT-TTAAAA-A
*
22869929 TTTTAGAAA
1 TTTTAAAAA
*
22869938 TTATAAAAA
1 TTTTAAAAA
**
22869947 TTAGAAAAA
1 TTTTAAAAA
* *
22869956 TTATGAAAA
1 TTTTAAAAA
* *
22869965 -CTTAGAAA
1 TTTTAAAAA
*
22869973 -TTAAAAAA
1 TTTTAAAAA
*
22869981 ATTTAAAAA
1 TTTTAAAAA
22869990 TTT
1 TTT
22869993 AATAAAATAA
Statistics
Matches: 110, Mismatches: 25, Indels: 25
0.69 0.16 0.16
Matches are distributed among these distances:
8 9 0.08
9 51 0.46
10 19 0.17
11 25 0.23
12 6 0.05
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:22869931 original size:31 final size:30
Alignment explanation
Indices: 22869830--22869956 Score: 100
Period size: 31 Copynumber: 4.2 Consensus size: 30
22869820 AATCAACAAT
* *
22869830 AAAATTTTTTAAAAAATTTTAAAATATTCTAAA
1 AAAATATTTT-AAAAATTTTAAAA-AAT-TAAA
* *
22869863 AAACT-TTTTAAAAATTTTAAATAAGATT--T
1 AAAATATTTTAAAAATTTTAAA-AA-ATTAAA
*
22869892 GAAATATTTTAAAAATTTATAAAAAATTAAA
1 AAAATATTTTAAAAATTT-TAAAAAATTAAA
* * *
22869923 AAAATATTTTAGAAATTAT-AAAAATTAGA
1 AAAATATTTTAAAAATTTTAAAAAATTAAA
22869952 AAAAT
1 AAAAT
22869957 TATGAAAACT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
29 20 0.26
30 15 0.19
31 33 0.42
32 6 0.08
33 4 0.05
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATATTTTAAAAATTTTAAAAAATTAAA
Found at i:22869958 original size:18 final size:19
Alignment explanation
Indices: 22869935--22869972 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22869925 AATATTTTAG
22869935 AAATTAT-AAAAATTAGAA
1 AAATTATGAAAAATTAGAA
*
22869953 AAATTATGAAAACTTAGAA
1 AAATTATGAAAAATTAGAA
22869972 A
1 A
22869973 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (19 bp):
AAATTATGAAAAATTAGAA
Found at i:22870043 original size:17 final size:17
Alignment explanation
Indices: 22869984--22870045 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
22869974 TAAAAAAATT
*
22869984 TAAAAATTTA-ATAAAA
1 TAAAATTTTATATAAAA
*
22870000 TAAATATTATTATAAAAAA
1 TAAA-ATT-TTATATAAAA
*
22870019 TGAAAATTTTATTTAAAA
1 T-AAAATTTTATATAAAA
22870037 TAAAATTTT
1 TAAAATTTT
22870046 CTTAAAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.11
17 10 0.26
18 12 0.32
19 9 0.24
20 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAAATTTTATATAAAA
Found at i:22870052 original size:16 final size:18
Alignment explanation
Indices: 22870015--22870053 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
22870005 ATTATTATAA
*
22870015 AAAATGAAAATTTTATTT
1 AAAATGAAAATTTTACTT
22870033 AAAAT-AAAATTTT-CTT
1 AAAATGAAAATTTTACTT
22870049 AAAAT
1 AAAAT
22870054 TCAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAATGAAAATTTTACTT
Found at i:22870193 original size:20 final size:21
Alignment explanation
Indices: 22870142--22870193 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
22870132 TATTTTTTTT
*
22870142 AAATATGAAAATTTATAAATA
1 AAATCTGAAAATTTATAAATA
* *
22870163 AATTCTTAAAATTT-TAAA-A
1 AAATCTGAAAATTTATAAATA
22870182 ATAATCTGAAAA
1 A-AATCTGAAAA
22870194 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 11 0.44
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATCTGAAAATTTATAAATA
Found at i:22870279 original size:17 final size:17
Alignment explanation
Indices: 22870238--22870284 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
22870228 CAAAATTATA
22870238 AAAAAT-TAAAAAATCT
1 AAAAATATAAAAAATCT
*
22870254 GAAAA-ATAAAAAATCT
1 AAAAATATAAAAAATCT
22870270 AAAAATATAATAAAA
1 AAAAATATAA-AAAA
22870285 AATCCTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.69
17 4 0.15
18 4 0.15
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAATATAAAAAATCT
Found at i:22870293 original size:10 final size:9
Alignment explanation
Indices: 22870236--22870294 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
22870226 AACAAAATTA
22870236 TAAAAAAT-
1 TAAAAAATC
22870244 TAAAAAATC
1 TAAAAAATC
*
22870253 TGAAAAA--
1 TAAAAAATC
22870260 TAAAAAATC
1 TAAAAAATC
*
22870269 TAAAAATATAA
1 TAAAAA-AT-C
22870280 TAAAAAATCC
1 TAAAAAAT-C
22870290 TAAAA
1 TAAAA
22870295 TTTCAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.15
8 8 0.20
9 12 0.29
10 9 0.22
11 6 0.15
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (9 bp):
TAAAAAATC
Found at i:22870513 original size:10 final size:10
Alignment explanation
Indices: 22870500--22870524 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22870490 CATTTTCAAA
22870500 ATTTTTTTGG
1 ATTTTTTTGG
22870510 ATTTTTTTGG
1 ATTTTTTTGG
22870520 ATTTT
1 ATTTT
22870525 ATGATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (10 bp):
ATTTTTTTGG
Found at i:22870631 original size:35 final size:34
Alignment explanation
Indices: 22870553--22870631 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 34
22870543 AAAGTTTTCA
* *
22870553 TAATTTTTT-TAGTTTTTAAAATATTTCAGTTTT
1 TAATTTTTTATACTTTTTAAAATATTTCAGATTT
*
22870586 TATTTTTTTTATAACTTTTT-AAATAATTTCAGATTT
1 TA-ATTTTTTAT-ACTTTTTAAAAT-ATTTCAGATTT
22870622 TAATTTTTTA
1 TAATTTTTTA
22870632 AAAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
33 2 0.05
34 6 0.16
35 12 0.32
36 18 0.47
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (34 bp):
TAATTTTTTATACTTTTTAAAATATTTCAGATTT
Found at i:22870661 original size:20 final size:20
Alignment explanation
Indices: 22870618--22870655 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22870608 ATAATTTCAG
22870618 ATTT-TAATTTTTTAAAAAA
1 ATTTATAATTTTTTAAAAAA
22870637 ATTTATAATTTTTTTAAAA
1 ATTTATAA-TTTTTTAAAA
22870656 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATAATTTTTTAAAAAA
Found at i:22873535 original size:13 final size:14
Alignment explanation
Indices: 22873519--22873551 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22873509 AAAATATAAT
22873519 AAAAATT-AATTAC
1 AAAAATTAAATTAC
22873532 AAAAATTAAATTAC
1 AAAAATTAAATTAC
22873546 ATAAAA
1 A-AAAA
22873552 AAGAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATTAAATTAC
Found at i:22873544 original size:18 final size:17
Alignment explanation
Indices: 22873521--22873571 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
22873511 AATATAATAA
*
22873521 AAATTAATTACAAAAATT
1 AAATTAATTACAAAAA-G
22873539 AAATTACA-TA-AAAAAG
1 AAATTA-ATTACAAAAAG
22873555 AAATTAAATTACAAAAA
1 AAATT-AATTACAAAAA
22873572 AAAGGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 6 0.21
17 8 0.29
18 13 0.46
19 1 0.04
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATTAATTACAAAAAG
Found at i:22873560 original size:21 final size:21
Alignment explanation
Indices: 22873534--22873575 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22873524 TTAATTACAA
*
22873534 AAATTAAATTACATAAAAAAG
1 AAATTAAATTACAAAAAAAAG
22873555 AAATTAAATTACAAAAAAAAG
1 AAATTAAATTACAAAAAAAAG
22873576 GAAAAAAAAA
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:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (21 bp):
AAATTAAATTACAAAAAAAAG
Found at i:22885593 original size:52 final size:51
Alignment explanation
Indices: 22885506--22885661 Score: 168
Period size: 52 Copynumber: 3.0 Consensus size: 51
22885496 TATAACCATA
* * ** **
22885506 TAAACTTGCCCATTAAGAATCCCTCTTCTCCTAGAATTCTTCTCTTGTAAGT
1 TAAACTTGCCTATTAAGAATCTCT-TTCTTTTAGAATTCTTCTCTTACAAGT
*
22885558 TAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTTTCTTACAAGT
1 TAAACTTGCCTATTAAGAATCTCTTT-CTTTTAGAATTCTTCTCTTACAAGT
* * * * * *
22885610 CAAACTTACTTATTAAAAATCTTCTTTCTTTTAGAATTTTTCTTTTACAAGT
1 TAAACTTGCCTATTAAGAATC-TCTTTCTTTTAGAATTCTTCTCTTACAAGT
22885662 CTTCTTGTCC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.92
53 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (51 bp):
TAAACTTGCCTATTAAGAATCTCTTTCTTTTAGAATTCTTCTCTTACAAGT
Found at i:22885961 original size:23 final size:24
Alignment explanation
Indices: 22885921--22885982 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
22885911 TAAGCTTACT
** *
22885921 TCTTCCCATGTCTCAAACC-AAGC
1 TCTTCCCACATCTTAAACCTAAGC
*
22885944 TCTTCCCACATCTTAAACCTTTAGC
1 TCTTCCCACATCTTAAACC-TAAGC
*
22885969 TCTTCTCACATCTT
1 TCTTCCCACATCTT
22885983 CAACTTTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 16 0.50
25 16 0.50
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (24 bp):
TCTTCCCACATCTTAAACCTAAGC
Found at i:22885978 original size:25 final size:25
Alignment explanation
Indices: 22885941--22886070 Score: 113
Period size: 25 Copynumber: 5.2 Consensus size: 25
22885931 TCTCAAACCA
* *
22885941 AGCTCTTCCCACATCTTAAACCTTT
1 AGCTCTTCTCACATCTTAAACCTTC
* *
22885966 AGCTCTTCTCACATCTTCAACTTTC
1 AGCTCTTCTCACATCTTAAACCTTC
* **
22885991 AGCTCTT-TCACGTCTCGAACCTTC
1 AGCTCTTCTCACATCTTAAACCTTC
* *
22886015 GGCTCTT-TCCACATCTTAAATCTTC
1 AGCTCTTCT-CACATCTTAAACCTTC
* * *
22886040 AACTCTTCTCACGT-TTCGAACCTTC
1 AGCTCTTCTCACATCTT-AAACCTTC
22886065 AGCTCT
1 AGCTCT
22886071 GATACCACTT
Statistics
Matches: 83, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
24 22 0.27
25 60 0.72
26 1 0.01
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (25 bp):
AGCTCTTCTCACATCTTAAACCTTC
Found at i:22886692 original size:52 final size:51
Alignment explanation
Indices: 22886602--22886758 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 51
22886592 TATAACCAAA
* * *
22886602 CAAACTTGCCCATTAAGAAT-CCTTCTACTCTTAGAATTCTTCTTCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTT-T-CTTTTAGAATTCTTCTTTTGTAAGT
*
22886654 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAAAATTCTTCTTTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTTTTAGAATTCTTCTTTTGTAAGT
* * *
22886706 CAAACTTACCTATTAAGAATCATCTTTCTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCTTTTAGAATTCTTCTTTTGTAAGT
22886758 C
1 C
22886759 TTTTTGTCCA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 86 0.91
53 8 0.09
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.42
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTTTTAGAATTCTTCTTTTGTAAGT
Found at i:22887010 original size:35 final size:30
Alignment explanation
Indices: 22886936--22887005 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
22886926 GTCCCCTTGA
*
22886936 AAATACTTATAATATAAGCTATATATTTTC
1 AAATAATTATAATATAAGCTATATATTTTC
22886966 AAATAATTATAATATAAGCTATATATTTTC
1 AAATAATTATAATATAAGCTATATATTTTC
22886996 AAGATAATTA
1 AA-ATAATTA
22887006 ATTATTACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (30 bp):
AAATAATTATAATATAAGCTATATATTTTC
Found at i:22887289 original size:2 final size:2
Alignment explanation
Indices: 22887282--22887306 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22887272 GCTTACTATT
22887282 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22887307 TATTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22888585 original size:1 final size:1
Alignment explanation
Indices: 22888579--22888603 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22888569 AGATAATGGG
22888579 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
22888604 ATGAGATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22891197 original size:33 final size:32
Alignment explanation
Indices: 22891151--22891217 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
22891141 AAGTCCTCTT
22891151 AAAAAAATAATATTTAATAAATTTA-AAT-TTTA
1 AAAAAAATAATATTT-A-AAATTTATAATATTTA
*
22891183 AAAAAAATTTATATTTAAAATTTATAATATTTA
1 AAAAAAA-TAATATTTAAAATTTATAATATTTA
22891216 AA
1 AA
22891218 TCTTGATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 7 0.23
32 11 0.35
33 13 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAAAAATAATATTTAAAATTTATAATATTTA
Found at i:22891201 original size:17 final size:18
Alignment explanation
Indices: 22891169--22891202 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22891159 AATATTTAAT
22891169 AAATTTAAATTTTAAAAA
1 AAATTTAAATTTTAAAAA
*
22891187 AAATTTATA-TTTAAAA
1 AAATTTAAATTTTAAAA
22891203 TTTATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTAAATTTTAAAAA
Found at i:22893610 original size:35 final size:35
Alignment explanation
Indices: 22893564--22893635 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
22893554 TAACTTACAC
*
22893564 TAATATTAATGGATCCTTTATTTTTAAAAAATTTG
1 TAATATTAATGGATCCCTTATTTTTAAAAAATTTG
22893599 TAATATTAATGGATCCCTTATTTTTAAAAAATTTG
1 TAATATTAATGGATCCCTTATTTTTAAAAAATTTG
22893634 TA
1 TA
22893636 TCATACTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (35 bp):
TAATATTAATGGATCCCTTATTTTTAAAAAATTTG
Done.