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 90 of 313
Found at i:30066947 original size:24 final size:24
Alignment explanation
Indices: 30066914--30066974 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
30066904 ATACTAATTT
30066914 AGTATATTGGTTTAAGGTAAAATAA
1 AGTA-ATTGGTTTAAGGTAAAATAA
*
30066939 AGTAATTGGTCTAAGGTAAAATAA
1 AGTAATTGGTTTAAGGTAAAATAA
*
30066963 AGTAATCGGTTT
1 AGTAATTGGTTT
30066975 CAATTTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (24 bp):
AGTAATTGGTTTAAGGTAAAATAA
Found at i:30072681 original size:42 final size:42
Alignment explanation
Indices: 30072622--30072708 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
30072612 TGTAAAGATA
* *
30072622 CTTGGGTTTTGGGAGTGGAGTCTTTGGATGTGGAGGATGAGG
1 CTTGGGTTTTGGGAGTGGAGTATTCGGATGTGGAGGATGAGG
*
30072664 CTTGGGTTTTGGGAGTGGAGTATTCGGATGTGGGGGATGAGG
1 CTTGGGTTTTGGGAGTGGAGTATTCGGATGTGGAGGATGAGG
30072706 CTT
1 CTT
30072709 AGGATAAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.14, C:0.06, G:0.47, T:0.33
Consensus pattern (42 bp):
CTTGGGTTTTGGGAGTGGAGTATTCGGATGTGGAGGATGAGG
Found at i:30072844 original size:96 final size:96
Alignment explanation
Indices: 30072742--30073266 Score: 462
Period size: 96 Copynumber: 5.4 Consensus size: 96
30072732 TGGGATGTGA
* * * * * * *
30072742 TGGTGGTGGAGGGGACTTGTAGACATAAGGTGCAGGTGGGGAGCGAACTGGTGGGGGTGGAGATT
1 TGGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGTGAACTGGTGGTGGTGGAGACT
* * * *
30072807 TATGGACATATGGAGGAGGTGGGGAGTGGAT
66 TGTAGATATATGGAGGAGGTGGGGAGTGGAC
* * * *
30072838 TGGTGGTGGTGGAGACTTGT-GAATATAAGGAGG-GGATGGTGAATGAATTGGTGGTGGTGGAGA
1 TGGTGGTGGAGGAGACTTGTAG-ACATAAGGAGGAGG-TGGTGAGTGAACTGGTGGTGGTGGAGA
30072901 CTTGTAGATATATGGTA-GAGGTGGGGAGTGGAC
64 CTTGTAGATATATGG-AGGAGGTGGGGAGTGGAC
* * * * *
30072934 TGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACT
1 TGGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGTGAACTGGTGGTGGTGGAGACT
* * * * * *
30072999 TGTAAATGTAAGGAGGGGGTGGTGAATGGAC
66 TGTAGATATATGGAGGAGGTGGGGAGTGGAC
* * ** * * * *
30073030 TGGTGGTGGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACT
1 TGGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGTGAACTGGTGGTGGTGGAGACT
* * * * *
30073095 TATAGATGTATGGTGGAGGTGGTGAATGGAC
66 TGTAGATATATGGAGGAGGTGGGGAGTGGAC
* * * * ** * * * * *
30073126 AGGTGGTGGAGGGGACTTATATATGTAAGGAGGTGATGGTGACTTGTGAATATAAGGAGGGGGTG
1 TGGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGA---GTGAA-CT--GGTGGTGGTG
* *
30073191 GAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGAC
60 GAGACTTGTAGATATATGGAGGAGGTGGGGAGTGGAC
* *
30073228 TGGTGGTGGAGGGGACTTGTAGACATATGGAGGAGGTGG
1 TGGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGG
30073267 AGACTTGTAA
Statistics
Matches: 347, Mismatches: 70, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
95 4 0.01
96 267 0.77
97 4 0.01
99 3 0.01
100 1 0.00
102 68 0.20
ACGTcount: A:0.23, C:0.05, G:0.48, T:0.25
Consensus pattern (96 bp):
TGGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGTGAACTGGTGGTGGTGGAGACT
TGTAGATATATGGAGGAGGTGGGGAGTGGAC
Found at i:30072870 original size:48 final size:48
Alignment explanation
Indices: 30072742--30073266 Score: 327
Period size: 48 Copynumber: 10.8 Consensus size: 48
30072732 TGGGATGTGA
* * * * * * *
30072742 TGGTGGTGGAGGGGACTTGT-AGACATAAGGTGCAGGTGGGGAGCGAAC
1 TGGTGGTGGTGGAGACTTGTGA-ATATAAGGAGGAGGTGGGGAGTGGAC
* * * * * * *
30072790 TGGTGGGGGTGGAGATTTATGGACATATGGAGGAGGTGGGGAGTGGAT
1 TGGTGGTGGTGGAGACTTGTGAATATAAGGAGGAGGTGGGGAGTGGAC
* * * *
30072838 TGGTGGTGGTGGAGACTTGTGAATATAAGGAGG-GGATGGTGAATGAAT
1 TGGTGGTGGTGGAGACTTGTGAATATAAGGAGGAGG-TGGGGAGTGGAC
*
30072886 TGGTGGTGGTGGAGACTTGT-AGATATATGGTA-GAGGTGGGGAGTGGAC
1 TGGTGGTGGTGGAGACTTGTGA-ATATAAGG-AGGAGGTGGGGAGTGGAC
* *
30072934 TGGTGGTGGTGGAGACTTGTAGACATAT--GGAGGAGGAGGAGAGTGGAC
1 TGGTGGTGGTGGAGACTTGT-GA-ATATAAGGAGGAGGTGGGGAGTGGAC
* * * * *
30072982 TGGTGGTGGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGAC
1 TGGTGGTGGTGGAGACTTGTGAATATAAGGAGGAGGTGGGGAGTGGAC
* * * * *
30073030 TGGTGGTGGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGAC
1 TGGTGGTGGTGGAGACTTGTGAATATAAGGAGGAGGTGGGGAGTGGAC
* * * * * * *
30073078 TGGTGGTGGTGGGGACTTAT-AGATGTATGGTGGAGGTGGTGAATGGAC
1 TGGTGGTGGTGGAGACTTGTGA-ATATAAGGAGGAGGTGGGGAGTGGAC
* * * * * * * * * *
30073126 AGGTGGTGGAGGGGACTTAT-ATATGTAAGGAGGTGATGGTGACTTGTGAATA
1 TGGTGGTGGTGGAGACTTGTGA-ATATAAGGAGGAGGTGGGGA---GTGGA-C
* * *
30073178 TAAGGAGGGGGTGGAGATTTGTAGACATAT--GGAGGAGGTGGGGAGTGGAC
1 T--GGTGGTGGTGGAGACTTGT-GA-ATATAAGGAGGAGGTGGGGAGTGGAC
* *
30073228 TGGTGGTGGAGGGGACTTGTAGACATAT--GGAGGAGGTGG
1 TGGTGGTGGTGGAGACTTGT-GA-ATATAAGGAGGAGGTGG
30073267 AGACTTGTAA
Statistics
Matches: 389, Mismatches: 69, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
46 3 0.01
47 6 0.02
48 336 0.86
49 3 0.01
50 6 0.02
51 7 0.02
54 24 0.06
56 4 0.01
ACGTcount: A:0.23, C:0.05, G:0.48, T:0.25
Consensus pattern (48 bp):
TGGTGGTGGTGGAGACTTGTGAATATAAGGAGGAGGTGGGGAGTGGAC
Found at i:30072923 original size:144 final size:144
Alignment explanation
Indices: 30072742--30073269 Score: 464
Period size: 144 Copynumber: 3.6 Consensus size: 144
30072732 TGGGATGTGA
* * *
30072742 TGGTGGTGGAGGGGACTTGTAGACATAAGGTGCAGGTGGGGAGCGAACTGGTGGGGGTGGAGATT
1 TGGTGGTGGTGGAGACTTGTAGACATAAGGTGCAGGTGGGGAGCGAACTGGTGGGGGTGGAGACT
* * * * *
30072807 TATGGACATATGGAGGAGGTGGGGAGTGGATTGGTGGTGGTGGAGACTTGTGAATATAAGGAGGG
66 TATAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAAATATAAGGAGGG
*
30072872 GATGGTGAATGAAT
131 GATGGTGAATGAAC
* * * * *
30072886 TGGTGGTGGTGGAGACTTGTAGATATATGGTAG-AGGTGGGGAGTGGACTGGTGGTGGTGGAGAC
1 TGGTGGTGGTGGAGACTTGTAGACATAAGGT-GCAGGTGGGGAGCGAACTGGTGGGGGTGGAGAC
* *
30072950 TTGTAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAAATGTAAGGAGG
65 TTATAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAAATATAAGGAGG
* *
30073015 GGGTGGTGAATGGAC
130 GGATGGTGAATGAAC
* ** * ** * ** * * *
30073030 TGGTGGTGGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACT
1 TGGTGGTGGTGGAGACTTGTAGACATAAGGTGCAGGTGGGGAGCGAACTGGTGGGGGTGGAGACT
** * * * * * * * * * * *
30073095 TATAGATGTATGGTGGAGGTGGTGAATGGACAGGTGGTGGAGGGGACTTATATATGTAAGGAGGT
66 TATAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAAATATAAGGAGGG
* *
30073160 GATGGTGACTTGTGAATA
131 GATGGTGA---ATGAA-C
* * * * * * * * * * *
30073178 TAAGGAGGGGGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGA
1 T--GGTGGTGGTGGAGACTTGTAGACATAAGGTGCAGGTGGGGAGCGAACTGGTGGGGGTGGAGA
* *
30073243 CTTGTAGACATATGGAGGAGGTGGAGA
64 CTTATAGACATATGGAGGAGGAGGAGA
30073270 CTTGTAAATG
Statistics
Matches: 317, Mismatches: 59, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
143 1 0.00
144 238 0.75
145 1 0.00
147 3 0.01
148 1 0.00
150 73 0.23
ACGTcount: A:0.23, C:0.05, G:0.48, T:0.24
Consensus pattern (144 bp):
TGGTGGTGGTGGAGACTTGTAGACATAAGGTGCAGGTGGGGAGCGAACTGGTGGGGGTGGAGACT
TATAGACATATGGAGGAGGAGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAAATATAAGGAGGG
GATGGTGAATGAAC
Found at i:30073116 original size:75 final size:75
Alignment explanation
Indices: 30073037--30073341 Score: 231
Period size: 75 Copynumber: 4.1 Consensus size: 75
30073027 GACTGGTGGT
*
30073037 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTATAGAT
1 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTGTAGAT
* *
30073102 GTATGGTGGA
66 ATATGGAGGA
* * * * * ** * ** * * * * *
30073112 GGTGGTGA-ATGGACAGGTGGTGGAGGGGACTTAT-ATATGTA-AGGAGGTGATGGTGACTTGT-
1 GGTGGAGACTTGTAAATGT-AAGGAGGGG-GTGGTGA-ATGGACTGGTGGTGGTGGGGACTTGTA
* *
30073173 GAATATAAGGAGGG
63 G-ATATATGGAGGA
* * ** * * * * * *
30073187 GGTGGAGATTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGGGACTTGTAGAC
1 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTGTAGAT
30073252 ATATGGAGGA
66 ATATGGAGGA
* * * * *
30073262 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTGTAGAT
30073327 ATATGGAGGA
66 ATATGGAGGA
30073337 GGTGG
1 GGTGG
30073342 GGAGTGGACT
Statistics
Matches: 167, Mismatches: 55, Indels: 16
0.70 0.23 0.07
Matches are distributed among these distances:
74 11 0.07
75 144 0.86
76 12 0.07
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.25
Consensus pattern (75 bp):
GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGTGGTGGGGACTTGTAGAT
ATATGGAGGA
Found at i:30073211 original size:27 final size:26
Alignment explanation
Indices: 30073181--30073275 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 26
30073171 GTGAATATAA
*
30073181 GGAGGGGGTGGAGATTTGTAGACATAT
1 GGAGGAGGTGGAGA-TTGTAGACATAT
* * *
30073208 GGAGGAGGTGGGGA--GTGGAC-TGGT
1 GGAGGAGGTGGAGATTGTAGACAT-AT
* *
30073232 GGTGGAGG-GGA-CTTGTAGACATAT
1 GGAGGAGGTGGAGATTGTAGACATAT
30073256 GGAGGAGGTGGAGACTTGTA
1 GGAGGAGGTGGAGA-TTGTA
30073276 AATGTAAGGA
Statistics
Matches: 50, Mismatches: 11, Indels: 14
0.67 0.15 0.19
Matches are distributed among these distances:
23 3 0.06
24 26 0.52
25 4 0.08
27 17 0.34
ACGTcount: A:0.23, C:0.05, G:0.49, T:0.22
Consensus pattern (26 bp):
GGAGGAGGTGGAGATTGTAGACATAT
Found at i:30073381 original size:27 final size:26
Alignment explanation
Indices: 30073351--30073437 Score: 67
Period size: 27 Copynumber: 3.5 Consensus size: 26
30073341 GGGAGTGGAC
*
30073351 TGGTGGTGGTGGAGACTTGTAGATATA
1 TGGTGGAGGTGGAGACTTGTAGA-ATA
* *
30073378 TGGTAGAGGTGGAGA-ATG--G-AT-
1 TGGTGGAGGTGGAGACTTGTAGAATA
* * *
30073399 TGGTGGTGGTGGAGACTTATAAACATA
1 TGGTGGAGGTGGAGACTTGTAGA-ATA
30073426 TGGTGGAGGTGG
1 TGGTGGAGGTGG
30073438 GGAGTGAACT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
21 13 0.29
22 3 0.07
24 1 0.02
26 4 0.09
27 24 0.53
ACGTcount: A:0.24, C:0.03, G:0.44, T:0.29
Consensus pattern (26 bp):
TGGTGGAGGTGGAGACTTGTAGAATA
Found at i:30073449 original size:144 final size:144
Alignment explanation
Indices: 30073262--30075051 Score: 1717
Period size: 144 Copynumber: 12.4 Consensus size: 144
30073252 ATATGGAGGA
* ** * * * * * * *
30073262 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
*
30073327 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGTA-GAGGTGGA
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGG-AGGAGGTGGG
*
30073391 GAATGGATTGGTGGT
130 GAATGGACTGGTGGT
* * * * * * *
30073406 GGTGGAGACTTATAAACATATGGTGGAGGTGGGGAGTGAACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * * * * *
30073471 ATATGGAGGAGGTGGGGAGTGTACTGGTGGTGGTGGGGACTTATGGATGTAAGGTGGTGGTGGTG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
30073536 AATGGACTGGTGGT
131 AATGGACTGGTGGT
* * * * *
30073550 GGTGGAGACTTGTAGACAGATGGTGGAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGT-GTA
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAG-A
* * * ** * * *
30073614 CATATGGAGGAGGTGGGGAGTAGACTGGCGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGGA
65 CATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGG
*
30073679 GAATGGACTGGTGGG
130 GAATGGACTGGTGGT
* * * * * ***
30073694 GGTGGAGATTTGTGGATATATGGAGGAAGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTATTT
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * * * *
30073759 ATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGGATATATGGAGGAAGTGGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
*
30073824 AGTGGACTGGTGGT
131 AATGGACTGGTGGT
* * *
30073838 GGTGGAGACTTGTAAACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTAGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * ** * * *
30073903 ATGTGGAGGAGGAGGAGAGTGGACTGGAGGTGGTGGGGACTTGTATTTGTAGGGAGGAGGTGGTG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
30073968 AATGGACTGGTGGT
131 AATGGACTGGTGGT
* * * *
30073982 GGTGGTGACTTGTAGACATAGGGTGGAGGTGGGGAGTGGACTGGTAGG-GGTGGAGATTTGT-GT
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGT-GGTGGTGGAGACTTGTAG-
* * * ** * *
30074045 ACATATGAAGGAGGTGGGGAGTGGGCTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGG
64 ACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGG
*
30074110 AGAATGGACTGGTGAG-
129 GGAATGGACTGGTG-GT
* * * * * ***
30074126 GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGGGACTTGTATTT
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * *
30074191 GTAAGGAGGAGGTGGTGAATAGACTGGTGGTGGTGGAGACTTGTAGACATATGGTA-GAGGTGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGG-AGGAGGTGGG
* *
30074255 GAGTGGACTGGTGGG
130 GAATGGACTGGTGGT
* * * * **
30074270 GGTGGAGATTTGT-GTACATATGGAGGAGGTGGGGAGTGGACTGGTGGCGGAGGGGACTTGTATT
1 GGTGGAGACTTGTAG-ACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGA
* * * * * * * *
30074334 TATAGGGAGGGGGTGGAGAATGGACTGGTGAG-GGTGGAGATTTGTGGACATATGGAGGAGGTGG
65 CATATGGAGGAGGTGGGGAGTGGACTGGTG-GTGGTGGAGACTTGTAGATATATGGAGGAGGTGG
*
30074398 GGAGTGGACTGGTGGT
129 GGAATGGACTGGTGGT
* * **** * * * *
30074414 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATAGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * *
30074479 ATACGGTA-GAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGTGGACATATGGAGGAGGTGGG
66 ATATGG-AGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGG
* *
30074543 GAGTGGATTGGTGGT
130 GAATGGACTGGTGGT
* * **** * * *
30074558 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * *
30074623 ATATGGTGGAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGTGGACATATGGAGGAGGTGGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
* *
30074688 AGTGGATTGGTGGT
131 AATGGACTGGTGGT
* * **** * * *
30074702 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * ** * * *
30074767 ATATGGTGGAGGTGGGGAGTGGATTGGTGGTGGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
*
30074832 AATGGGCTGGTGGT
131 AATGGACTGGTGGT
* * * *
30074846 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
* * * * * * * *
30074911 ATATGGAGGAGGTGGGGTGTGGACTGGTGGTGGTGGGGACTTATAGATGTAGGGTGGTGGTGGTG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
30074976 AATGGACTGGTGGT
131 AATGGACTGGTGGT
* * * * ** * * * *
30074990 GGAGGGGACTTATATATGTAAGGAGGTGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTA
1 GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
30075052 CATGTATGGA
Statistics
Matches: 1407, Mismatches: 222, Indels: 34
0.85 0.13 0.02
Matches are distributed among these distances:
143 8 0.01
144 1393 0.99
145 6 0.00
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.26
Consensus pattern (144 bp):
GGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGAC
ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGAGGAGGTGGGG
AATGGACTGGTGGT
Found at i:30073450 original size:21 final size:21
Alignment explanation
Indices: 30073426--30073509 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 21
30073416 TATAAACATA
30073426 TGGTGGAGGTGGGGAGTGAAC
1 TGGTGGAGGTGGGGAGTGAAC
* * *
30073447 TGGTGGGGGTGGAGATTTGTGGACATA
1 TGGTGGAGGTGGGGA---GT-GA-A-C
* *
30073474 TGGAGGAGGTGGGGAGTGTAC
1 TGGTGGAGGTGGGGAGTGAAC
*
30073495 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
30073510 CTTATGGATG
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
21 26 0.55
22 1 0.02
23 1 0.02
24 4 0.09
25 2 0.04
26 1 0.02
27 12 0.26
ACGTcount: A:0.17, C:0.04, G:0.56, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGAAC
Found at i:30074650 original size:21 final size:21
Alignment explanation
Indices: 30074626--30074709 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
30074616 TGTAGACATA
30074626 TGGTGGAGGTGGGGAGTGGAT
1 TGGTGGAGGTGGGGAGTGGAT
* *
30074647 TGGTGGGGGTGGAGATTTGTGGACAT
1 TGGTGGAGGTGGGGA---GTGG--AT
*
30074673 ATGGAGGAGGTGGGGAGTGGAT
1 -TGGTGGAGGTGGGGAGTGGAT
* *
30074695 TGGTGGTGGAGGGGA
1 TGGTGGAGGTGGGGA
30074710 CTTGTATTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
21 25 0.51
22 2 0.04
24 8 0.16
26 2 0.04
27 12 0.24
ACGTcount: A:0.17, C:0.01, G:0.58, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAT
Found at i:30074684 original size:27 final size:26
Alignment explanation
Indices: 30074599--30074685 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 26
30074589 GTGAATGGAC
* *
30074599 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
30074626 TGGTGGAGGTGGGGA--GTGG--AT-
1 TGGTGGAGGTGGAGATTGTGGACATA
*
30074647 TGGTGGGGGTGGAGATTTGTGGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
30074674 TGGAGGAGGTGG
1 TGGTGGAGGTGG
30074686 GGAGTGGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 13 0.28
22 2 0.04
24 7 0.15
26 2 0.04
27 23 0.49
ACGTcount: A:0.18, C:0.03, G:0.52, T:0.26
Consensus pattern (26 bp):
TGGTGGAGGTGGAGATTGTGGACATA
Found at i:30074692 original size:24 final size:24
Alignment explanation
Indices: 30074620--30074693 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 24
30074610 GAGACTTGTA
30074620 GACATATGGTGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
* *
30074644 G--AT-TGGTGGGGGTGGAGATTTGTG
1 GACATATGGTGGAGGTGGGGA---GTG
*
30074668 GACATATGGAGGAGGTGGGGAGTG
1 GACATATGGTGGAGGTGGGGAGTG
30074692 GA
1 GA
30074694 TTGGTGGTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
21 13 0.33
22 2 0.05
24 10 0.26
26 2 0.05
27 12 0.31
ACGTcount: A:0.20, C:0.03, G:0.54, T:0.23
Consensus pattern (24 bp):
GACATATGGTGGAGGTGGGGAGTG
Found at i:30074705 original size:24 final size:24
Alignment explanation
Indices: 30074626--30074706 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
30074616 TGTAGACATA
30074626 TGGTGGAGGTGGGGAGTGGATTGG
1 TGGTGGAGGTGGGGAGTGGATTGG
* * *
30074650 T-G-GG-GGTGGAGATTTGTGGACAT-A
1 TGGTGGAGGTGGGGA---GTGGA-TTGG
*
30074674 TGGAGGAGGTGGGGAGTGGATTGG
1 TGGTGGAGGTGGGGAGTGGATTGG
30074698 TGGTGGAGG
1 TGGTGGAGG
30074707 GGACTTGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 16
0.65 0.11 0.25
Matches are distributed among these distances:
21 7 0.17
22 2 0.05
23 2 0.05
24 20 0.48
25 2 0.05
26 2 0.05
27 7 0.17
ACGTcount: A:0.16, C:0.01, G:0.58, T:0.25
Consensus pattern (24 bp):
TGGTGGAGGTGGGGAGTGGATTGG
Found at i:30074890 original size:21 final size:21
Alignment explanation
Indices: 30074866--30074949 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
30074856 TGTAGACATA
30074866 TGGTGGAGGTGGGGAGTGGAC
1 TGGTGGAGGTGGGGAGTGGAC
* *
30074887 TGGTGGGGGTGGAGATTTGTGGAC
1 TGGTGGAGGTGGGGA---GTGGAC
* *
30074911 ATATGGAGGAGGTGGGGTGTGGAC
1 ---TGGTGGAGGTGGGGAGTGGAC
*
30074935 TGGTGGTGGTGGGGA
1 TGGTGGAGGTGGGGA
30074950 CTTATAGATG
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
21 25 0.52
24 12 0.25
27 11 0.23
ACGTcount: A:0.14, C:0.04, G:0.58, T:0.24
Consensus pattern (21 bp):
TGGTGGAGGTGGGGAGTGGAC
Found at i:30074924 original size:27 final size:26
Alignment explanation
Indices: 30074839--30074925 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 26
30074829 GTGAATGGGC
* *
30074839 TGGTGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
30074866 TGGTGGAGGTGGGGA--GTGGAC---
1 TGGTGGAGGTGGAGATTGTGGACATA
*
30074887 TGGTGGGGGTGGAGATTTGTGGACATA
1 TGGTGGAGGTGGAGA-TTGTGGACATA
*
30074914 TGGAGGAGGTGG
1 TGGTGGAGGTGG
30074926 GGTGTGGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 13 0.28
24 11 0.23
27 23 0.49
ACGTcount: A:0.18, C:0.05, G:0.52, T:0.25
Consensus pattern (26 bp):
TGGTGGAGGTGGAGATTGTGGACATA
Found at i:30074987 original size:45 final size:45
Alignment explanation
Indices: 30074938--30075039 Score: 141
Period size: 48 Copynumber: 2.2 Consensus size: 45
30074928 TGTGGACTGG
* * *
30074938 TGGTGGTGGGGACTTATAGATGTAGGGTGGTGGTGGTGAATGGAC
1 TGGTGGTGGGGACTTATAGATGTAAGGAGGTGGTGGAGAATGGAC
*
30074983 TGGTGGTGGAGGGGACTTATATATGTAAGGAGGTGGTGGAGAATGGAC
1 TGGTGGT---GGGGACTTATAGATGTAAGGAGGTGGTGGAGAATGGAC
30075031 TGGTGGTGG
1 TGGTGGTGG
30075040 TGGAGACTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
45 9 0.18
48 41 0.82
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (45 bp):
TGGTGGTGGGGACTTATAGATGTAAGGAGGTGGTGGAGAATGGAC
Found at i:30075051 original size:240 final size:240
Alignment explanation
Indices: 30073262--30075051 Score: 1916
Period size: 240 Copynumber: 7.5 Consensus size: 240
30073252 ATATGGAGGA
* * * * * * * * *
30073262 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
** *
30073327 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAGATATATGGTA-GAGGTGGA
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATA-GGGAGGAGGTGGA
* * * * *
30073391 GAATGGATTGGTGGTGGTGGAGACTTATAAACATATGGTGGAGGTGGGGAGTGAACTGGTGGGGG
130 GAATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGG
* *
30073456 TGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGTACTGGTGGT
195 TGGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * *
30073502 GGTGGGGACTTATGGATGTAAGGTGGTGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
* * * * * * ** * *
30073567 AGATGGTGGAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGTGTACATATGGAGGAGGTGGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGAG
* * * * *** * * * *
30073632 AGTAGACTGGCGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGT
131 AATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGT
*
30073697 GGAGATTTGTGGATATATGGAGGAAGTGGGGAGTGGACTGGTGGT
196 GGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
** * * * * * *
30073742 GGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGGAT
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
* *** * * *
30073807 ATATGGAGGAAGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTAAACATATGGTGGAGGTGGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGAG
* * * * * * *
30073872 AGTGGACTGGTGGTGGTGGGGACTTGTAGACATGTGGAGGAGGAGGAGAGTGGACTGGAGGTGGT
131 AATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGT
* * *** * * * *
30073937 GGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGT
196 GGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * *
30073982 GGTGGTGACTTGTAGACATAGGGTGGAGGTGGGGAGTGGACTGGTAGGGGTGGAGATTTGT-GTA
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAG-A
* * * *
30074046 CATATGAAGGAGGTGGGGAGTGGGCTGGTGGTGGTGGGGACTTGTATTTATAGGGAGGGGGTGGA
65 CATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGA
* * * *
30074111 GAATGGACTGGTGAG-GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGAACTGGTGGTG
130 GAATGGACTGGTG-GTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGG
* * * *** * * * * *
30074175 GAGGGGACTTGTATTTGTAAGGAGGAGGTGGTGAATAGACTGGTGGT
194 GTGGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * *
30074222 GGTGGAGACTTGTAGACATATGGTAGAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGT-GTA
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAG-A
* * * *
30074286 CATATGGAGGAGGTGGGGAGTGGACTGGTGGCGGAGGGGACTTGTATTTATAGGGAGGGGGTGGA
65 CATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGA
* * *
30074351 GAATGGACTGGTGAG-GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGGACTGGTGGTG
130 GAATGGACTGGTG-GTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGG
* * * *** * * * * *
30074415 GAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATAGACTGGTGGT
194 GTGGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30074462 GGTGGAGACTTGTAGACATACGGTAGAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
* * * * *
30074527 ATATGGAGGAGGTGGGGAGTGGATTGGTGGTGGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGAG
* *
30074592 AATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGATTGGTGGGGGT
131 AATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGT
* *
30074657 GGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGGATTGGTGGT
196 GGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* ** * * * *
30074702 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
* * * * * *
30074767 ATATGGTGGAGGTGGGGAGTGGATTGGTGGTGGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGAG
* *
30074832 AATGGGCTGGTGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGGGGT
131 AATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGT
* *
30074897 GGAGATTTGTGGACATATGGAGGAGGTGGGGTGTGGACTGGTGGT
196 GGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * * * *
30074942 GGTGGGGACTTATAGATGTAGGGTGGTGGTGGTGAATGGACTGGTGGTGGAGGGGACTTATATAT
1 GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
* * * * *
30075007 GTAAGGAGGTGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTA
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTA
30075052 CATGTATGGA
Statistics
Matches: 1355, Mismatches: 190, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
239 4 0.00
240 1349 1.00
241 2 0.00
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.26
Consensus pattern (240 bp):
GGTGGGGACTTGTAGATATAGGGTGGAGGTGGGGAATGGACTGGTGGGGGTGGAGACTTGTAGAC
ATATGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACTTGTATTTATAGGGAGGAGGTGGAG
AATGGACTGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGGGAGTGGACTGGTGGGGGT
GGAGATTTGTGGATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
Found at i:30075057 original size:96 final size:96
Alignment explanation
Indices: 30073262--30075063 Score: 1658
Period size: 96 Copynumber: 18.8 Consensus size: 96
30073252 ATATGGAGGA
* * * * * * * * *
30073262 GGTGGAGACTTGTAAATGTAAGGAGGGGGTGGTGAATGGACTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
30073327 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * *
30073358 GGTGGAGACTTGTAGATATATGGTA-GAGGTGGAGAATGGATTGGTGGTGGTGGAGACTTATAAA
1 GGTGGAGACTTGTATATATATGG-AGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGA
* * * *
30073422 CATATGGTGGAGGTGGGGAGTGAACTGGTGGG
65 TATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* ** * * * * * *
30073454 GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGTACTGGTGGTGGTGGGGACTTATGGAT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * * * * *
30073519 GTAAGGTGGTGGTGGTGAATGGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30073550 GGTGGAGACTTGTAGACAGATGGTGGAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGT-GTA
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAG-A
* * *
30073614 CATATGGAGGAGGTGGGGAGTAGACTGGCGGT
65 TATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30073646 GGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGGAT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
*
30073711 ATATGGAGGAAGTGGGGAGTGGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30073742 GGTGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGGGGGTGGAGATTTGTGGAT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
*
30073807 ATATGGAGGAAGTGGGGAGTGGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * *
30073838 GGTGGAGACTTGTAAACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGGGACTTGTAGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * * *
30073903 ATGTGGAGGAGGAGGAGAGTGGACTGGAGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * *
30073934 GGTGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGTGACTTGTAGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* *
30073999 ATAGGGTGGAGGTGGGGAGTGGACTGGTAGG-
66 ATATGGAGGAGGTGGGGAGTGGACTGGT-GGT
* * * * * * * **
30074030 GGTGGAGATTTGTGTACATATGAAGGAGGTGGGGAGTGGGCTGGTGGTGGTGGGGACTTGTATTT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * * *
30074095 ATAGGGAGGGGGTGGAGAATGGACTGGTGAG-
66 ATATGGAGGAGGTGGGGAGTGGACTGGTG-GT
* ** * * * * * **
30074126 GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGAACTGGTGGTGGAGGGGACTTGTATTT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * * * *
30074191 GTAAGGAGGAGGTGGTGAATAGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * *
30074222 GGTGGAGACTTGTAGACATATGGTA-GAGGTGGGGAGTGGACTGGTGGGGGTGGAGATTTGT-GT
1 GGTGGAGACTTGTATATATATGG-AGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAG-
* *
30074285 ACATATGGAGGAGGTGGGGAGTGGACTGGTGGC
64 ATATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30074318 GGAGGGGACTTGTATTTATAGGGAGGGGGTGGAGAATGGACTGGTGAG-GGTGGAGATTTGTGGA
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTG-GTGGTGGAGACTTGTAGA
*
30074382 CATATGGAGGAGGTGGGGAGTGGACTGGTGGT
65 TATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30074414 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATAGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * *
30074479 ATACGGTA-GAGGTGGGGAGTGGATTGGTGGG
66 ATATGG-AGGAGGTGGGGAGTGGACTGGTGGT
* ** * * * * * **
30074510 GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGAGTGGATTGGTGGTGGAGGGGACTTGTATTT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * * *
30074575 GTAGGGAGGAGGTGGTGAATGGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * * *
30074606 GGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGATTGGTGGGGGTGGAGATTTGTGGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
*
30074671 ATATGGAGGAGGTGGGGAGTGGATTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * *
30074702 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGACTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* *
30074767 ATATGGTGGAGGTGGGGAGTGGATTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30074798 GGAGGGGACTTGTATTTGTAGGGAGGAGGTGGTGAATGGGCTGGTGGTGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* *
30074863 ATATGGTGGAGGTGGGGAGTGGACTGGTGGG
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* ** * ** * *
30074894 GGTGGAGATTTGTGGACATATGGAGGAGGTGGGGTGTGGACTGGTGGTGGTGGGGACTTATAGAT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
* * * * * *
30074959 GTAGGGTGGTGGTGGTGAATGGACTGGTGGT
66 ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
* * * * * * * *
30074990 GGAGGGGACTTATATATGTAAGGAGGTGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTACAT
1 GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
*
30075055 GTATGGAGG
66 ATATGGAGG
30075064 TGATAGTGAT
Statistics
Matches: 1428, Mismatches: 263, Indels: 30
0.83 0.15 0.02
Matches are distributed among these distances:
95 7 0.00
96 1413 0.99
97 8 0.01
ACGTcount: A:0.20, C:0.04, G:0.50, T:0.26
Consensus pattern (96 bp):
GGTGGAGACTTGTATATATATGGAGGAGGTGGGGAATGGACTGGTGGTGGTGGAGACTTGTAGAT
ATATGGAGGAGGTGGGGAGTGGACTGGTGGT
Found at i:30075980 original size:1 final size:1
Alignment explanation
Indices: 30075974--30076063 Score: 144
Period size: 1 Copynumber: 90.0 Consensus size: 1
30075964 ATGAGTCGTG
** **
30075974 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTGG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30076039 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
30076064 ACAGTTCAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (1 bp):
T
Found at i:30080605 original size:43 final size:43
Alignment explanation
Indices: 30080544--30081026 Score: 342
Period size: 43 Copynumber: 11.2 Consensus size: 43
30080534 TAGCTTCGAT
* * * *
30080544 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
* *** * *
30080587 CTGTTACCCTACTGCTTAGGG-GTTTAAGGTCCATTGCCTT-TGAT
1 CTGTTACCCTACTGCTTAGGGTG-TTAAGGTCTA-TAAATTCAG-C
* * * * *
30080631 CTGTTTCCCTACTGCTCAGGGTGATAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
*
30080674 CTGTTACCCTATTGCTTAGGG-GTTTAAGGTCTATAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGTG-TTAAGGTCTATAAATTCAGC
* * ** *
30080717 CTGTTACCCTACTGCTTAAGGGT-TTAAGGCCCATCATCTTC-GAT
1 CTGTTACCCTACTGCTT-AGGGTGTTAAGGTCTAT-AAATTCAG-C
* * * * * *
30080761 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
* *
30080804 CTGTTACCCTACTACTTAGGGGGTTAAGGTCTATAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
* * ** *
30080847 CTGTTACCCTACTGCTTAGGAGT-TTAAGGCCCATCATCTTC-GAT
1 CTGTTACCCTACTGCTTAGG-GTGTTAAGGTCTAT-AAATTCAG-C
* * * * *
30080891 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
* * * *
30080934 CTGTTACCCTACTGCTTAGGG-GTTTAAGGCCCATCACATTC-GAT
1 CTGTTACCCTACTGCTTAGGGTG-TTAAGGTCTAT-AAATTCAG-C
* * * *
30080978 CTGTTTCCCTACTGC---GGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
30081018 CTGTTACCC
1 CTGTTACCC
30081027 CCTAAGCCTG
Statistics
Matches: 335, Mismatches: 83, Indels: 47
0.72 0.18 0.10
Matches are distributed among these distances:
40 13 0.04
41 11 0.03
42 4 0.01
43 196 0.59
44 110 0.33
45 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGTGTTAAGGTCTATAAATTCAGC
Found at i:30080690 original size:87 final size:87
Alignment explanation
Indices: 30080541--30081228 Score: 547
Period size: 87 Copynumber: 7.8 Consensus size: 87
30080531 TTATAGCTTC
* *
30080541 GATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
***
30080606 GGGTTTAAGGTCCATTGCCTTT
66 GGGTTTAAGGTCCATTAAATTT
* * * *
30080628 GATCTGTTTCCCTACTGCTCAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTATTGCTTAG
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
*
30080693 GGGTTTAAGGTCTA-TAAA-TT
66 GGGTTTAAGGTCCATTAAATTT
* * * * * ** ** ** * * *
30080713 CAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCATCTTC-GATCTATTTCCCTACTGCT
1 GA-TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAG-CCTGTTACCCTACTGCT
* *
30080777 TAGGGGGTTAAGAT-C-TGTAAATTT
63 TAGGGGTTTAAGGTCCAT-TAAATTT
* * * * *
30080801 -AGCCTGTTACCCTACTACTTAGGGGGTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTA
1 GA-TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA
* * * ** *
30080865 GGAGTTTAAGGCCCATCATCTTC
65 GGGGTTTAAGGTCCATTAAATTT
*
30080888 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAG
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
* * * *
30080953 GGGTTTAAGGCCCATCACATTC
66 GGGTTTAAGGTCCATTAAATTT
30080975 GATCTGTTTCCCTACTGC---GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCCCTAAGCCTG
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTA--CCCT-A--CTG
*** * * *
30081037 -TTACCCTACTGCTTAGGGGT---TTAAGGCCCATCAT
61 CTTA----GGGGTTTA-AGGTCCATTAA-----AT-TT
**
30081071 TTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
1 GATC----TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* * * *
30081136 TTAAGGGTTTAAGGCCCATCACATTT
62 TTAGGGGTTTAAGGTCCATTAAATTT
* * *
30081162 GATCTGTTTCTCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTATTGCTTAG
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
30081227 GG
66 GG
30081229 AGATAAGGCT
Statistics
Matches: 483, Mismatches: 81, Indels: 74
0.76 0.13 0.12
Matches are distributed among these distances:
84 30 0.06
85 3 0.01
86 58 0.12
87 300 0.62
88 7 0.01
89 3 0.01
90 2 0.00
91 3 0.01
92 6 0.01
93 2 0.00
94 2 0.00
95 7 0.01
96 2 0.00
97 2 0.00
98 3 0.01
99 3 0.01
100 15 0.03
101 4 0.01
103 31 0.06
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (87 bp):
GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
GGGTTTAAGGTCCATTAAATTT
Found at i:30080762 original size:130 final size:130
Alignment explanation
Indices: 30080544--30081228 Score: 696
Period size: 130 Copynumber: 5.2 Consensus size: 130
30080534 TAGCTTCGAT
* * * * *
30080544 CTGTTTCCCTACTGCTTA-GGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAAGG
* ** * * * *
30080608 GTTTAAGGTCCATTGCCTTTGATCTGTTTCCCTACTGCTCAGGGTGATAAGATCTGTAAATTCAG
65 GTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
30080673 C
130 C
*
30080674 CTGTTACCCTATTGCTTAGGGGTTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAAGGG
* * *
30080739 TTTAAGGCCCATCATCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
66 TTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
* *
30080804 CTGTTACCCTACTACTTAGGGGGTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTT-AGGA
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAAGG-
* *
30080868 GTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTCAG
65 GTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
30080933 C
130 C
* * * * *
30080934 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACATTC-GATCTGTTTCCCTACTGCGGGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTAT-AAATTCAG-CCTGTTACCCTACTGC-----
* * ** * ** * * * *
30080998 TTAA-GATCTGTAAATTCAGCCTGTTACCCCCTAAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
59 TTAAGGGT-T-T-AA---GGCCCATCACCTTC-GA-TCTGTTTCCCTACTGCTTAGGGGGTTAAG
** ** ** *
30081062 GCCCATCATTTTC-GAT
116 ATCTGT-AAATTCAG-C
* * * *
30081078 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAAGGG
* * * *
30081143 TTTAAGGCCCATCACATTTGATCTGTTTCTCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGC
66 TTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
*
30081208 CTGTTACCCTATTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
30081229 AGATAAGGCT
Statistics
Matches: 450, Mismatches: 82, Indels: 46
0.78 0.14 0.08
Matches are distributed among these distances:
129 3 0.01
130 283 0.63
131 50 0.11
132 1 0.00
133 6 0.01
135 1 0.00
136 6 0.01
137 3 0.01
138 7 0.02
139 2 0.00
141 7 0.02
142 1 0.00
143 47 0.10
144 33 0.07
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (130 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAAGGG
TTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
Found at i:30081097 original size:44 final size:44
Alignment explanation
Indices: 30081034--30081192 Score: 153
Period size: 44 Copynumber: 3.6 Consensus size: 44
30081024 CCCCCTAAGC
* *
30081034 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATTTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCAATTTCGAT
* ** ** * *
30081078 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCAATTTCGA-T
* *
30081121 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACATTT-GAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCA-ATTTCGAT
* * *
30081165 CTGTTTCTCTACTACTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
30081193 ATCTGTAAAT
Statistics
Matches: 88, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.35
44 52 0.59
45 4 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCAATTTCGAT
Found at i:30081103 original size:187 final size:189
Alignment explanation
Indices: 30080844--30081216 Score: 660
Period size: 187 Copynumber: 2.0 Consensus size: 189
30080834 CTATAAATTC
30080844 AGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA
* *
30080909 GGGGGTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACATT
66 GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACATT
*
30080974 CGATCTGTTTC-C-CTACTGCGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCCCTA
131 CGATCTGTTTCTCACTACTGAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCCCTA
* *
30081031 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATTTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA
30081096 GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACATT
66 GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACATT
* *
30081161 TGATCTGTTTCTCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCC
131 CGATCTGTTTCTC-ACTACTGAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCC
30081217 TATTGCTTAG
Statistics
Matches: 176, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
187 136 0.77
188 1 0.01
190 39 0.22
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (189 bp):
AGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA
GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACATT
CGATCTGTTTCTCACTACTGAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCCCTA
Found at i:30081148 original size:43 final size:43
Alignment explanation
Indices: 30081078--30081228 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
30081068 CATTTTCGAT
*
30081078 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
* * ** ** * * *
30081121 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACATT-TGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAG-C
* * *
30081165 CTGTTTCTCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
*
30081208 CTGTTACCCTATTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
30081229 AGATAAGGCT
Statistics
Matches: 79, Mismatches: 26, Indels: 6
0.71 0.23 0.05
Matches are distributed among these distances:
43 49 0.62
44 30 0.38
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
Found at i:30081413 original size:64 final size:64
Alignment explanation
Indices: 30081312--30081435 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
30081302 ATATCTATGT
*
30081312 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAAATAAATGTGATGC
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAAATAAATGTGATGC
* * *
30081376 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTG
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAAATAAATGTG
30081436 TTATGAATGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAAATAAATGTGATGC
Found at i:30083237 original size:9 final size:9
Alignment explanation
Indices: 30083223--30083257 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
30083213 ATCTTTCCTC
30083223 TTTTTTTAT
1 TTTTTTTAT
*
30083232 TTTTTTTGT
1 TTTTTTTAT
30083241 TTTTTTTAT
1 TTTTTTTAT
30083250 ATTTTTTT
1 -TTTTTTT
30083258 TGAATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.89
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:30083574 original size:21 final size:21
Alignment explanation
Indices: 30083543--30083590 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
30083533 GGCCATCATA
30083543 AAACTATTAGCATATGCTGTTC
1 AAAC-ATTAGCATATGCTGTTC
*
30083565 AAACATTAGCATATGTTGTTC
1 AAACATTAGCATATGCTGTTC
30083586 AAACA
1 AAACA
30083591 CCTTGCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
AAACATTAGCATATGCTGTTC
Found at i:30088818 original size:3 final size:3
Alignment explanation
Indices: 30088812--30088865 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
30088802 TCTACTTTAA
* *
30088812 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30088860 ATAT TA
1 -TAT TA
30088866 GTATATACTC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:30089130 original size:3 final size:3
Alignment explanation
Indices: 30089110--30089163 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
30089100 TGTATTTCAA
*
30089110 TAT TGT TAT TA- TATT TAT TA- TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
30089155 TAT TAT TAT
1 TAT TAT TAT
30089164 AATAGTGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 37 0.82
4 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30089321 original size:11 final size:11
Alignment explanation
Indices: 30089279--30089348 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
30089269 TATGCTTTGT
30089279 TATA-TACGTA
1 TATATTACGTA
* *
30089289 TATATTATGTG
1 TATATTACGTA
*
30089300 TATTTTA--TA
1 TATATTACGTA
30089309 TATATTACGTA
1 TATATTACGTA
* *
30089320 TATTATTA-TTT
1 TA-TATTACGTA
30089331 TATATTACGTA
1 TATATTACGTA
30089342 TATATTA
1 TATATTA
30089349 AATATCGTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
9 7 0.15
10 9 0.20
11 25 0.54
12 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (11 bp):
TATATTACGTA
Found at i:30089323 original size:20 final size:22
Alignment explanation
Indices: 30089287--30089348 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 22
30089277 GTTATATACG
* *
30089287 TATATATTATGTGTATT-TTA-
1 TATATATTACGTATATTATTAT
30089307 TATATATTACGTATATTATTAT
1 TATATATTACGTATATTATTAT
*
30089329 TTTATATTACGTATA-TATTA
1 TATATATTACGTATATTATTA
30089349 AATATCGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.41
21 8 0.22
22 14 0.38
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (22 bp):
TATATATTACGTATATTATTAT
Found at i:30089344 original size:31 final size:31
Alignment explanation
Indices: 30089279--30089344 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
30089269 TATGCTTTGT
* *
30089279 TATA-TACGTATATATTATGTGTATTTTATA
1 TATATTACGTATATATTATGTGTATATTACA
* *
30089309 TATATTACGTATATTATTAT-TTTATATTACG
1 TATATTACGTATA-TATTATGTGTATATTACA
30089340 TATAT
1 TATAT
30089345 ATTAAATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 4 0.13
31 20 0.67
32 6 0.20
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.55
Consensus pattern (31 bp):
TATATTACGTATATATTATGTGTATATTACA
Found at i:30089421 original size:16 final size:16
Alignment explanation
Indices: 30089396--30089426 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30089386 ATATCTTTAA
30089396 TATATATTTATGTAAG
1 TATATATTTATGTAAG
*
30089412 TATATCTTTATGTAA
1 TATATATTTATGTAA
30089427 TATTAGTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (16 bp):
TATATATTTATGTAAG
Found at i:30089771 original size:31 final size:29
Alignment explanation
Indices: 30089719--30089779 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
30089709 TAATATTGGC
*
30089719 ACATATATTTTATTCTTGTATACACATTTT
1 ACATATATATTATTCTTGTATA-ACATTTT
*
30089749 ACATATAGTATTATT-TTCGTATATCATTTT
1 ACATATA-TATTATTCTT-GTATAACATTTT
30089779 A
1 A
30089780 TTTATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.31, C:0.11, G:0.05, T:0.52
Consensus pattern (29 bp):
ACATATATATTATTCTTGTATAACATTTT
Found at i:30090032 original size:14 final size:14
Alignment explanation
Indices: 30090013--30090046 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30090003 ATGTATATCC
30090013 ATTCATTGTTTTCA
1 ATTCATTGTTTTCA
30090027 ATTCATTGTTTTCA
1 ATTCATTGTTTTCA
*
30090041 TTTCAT
1 ATTCAT
30090047 GTTCAATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.59
Consensus pattern (14 bp):
ATTCATTGTTTTCA
Found at i:30094811 original size:30 final size:29
Alignment explanation
Indices: 30094752--30094812 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
30094742 GATATCAAAA
*
30094752 TTATATATAAATTTTGATTTTATGTAATT
1 TTATATATAAATTTTGATTTGATGTAATT
30094781 TTATATATGAAATTTTGATTTGAT-TCAATT
1 TTATATAT-AAATTTTGATTTGATGT-AATT
30094811 TT
1 TT
30094813 CCTAAATCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (29 bp):
TTATATATAAATTTTGATTTGATGTAATT
Found at i:30094869 original size:23 final size:23
Alignment explanation
Indices: 30094843--30094887 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30094833 ATTAAATCAA
**
30094843 CACCATTTTATGTTGATATATGG
1 CACCATTTTACATTGATATATGG
*
30094866 CACCGTTTTACATTGATATATG
1 CACCATTTTACATTGATATATG
30094888 ACATACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (23 bp):
CACCATTTTACATTGATATATGG
Found at i:30097625 original size:26 final size:26
Alignment explanation
Indices: 30097596--30097647 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30097586 AATATTAAGA
30097596 TAAATAATATTTATATTTATCATAAT
1 TAAATAATATTTATATTTATCATAAT
* *
30097622 TAAATAATATTTATTTTTATGATAAT
1 TAAATAATATTTATATTTATCATAAT
30097648 ATTATTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TAAATAATATTTATATTTATCATAAT
Found at i:30097673 original size:22 final size:22
Alignment explanation
Indices: 30097622--30097673 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
30097612 TTATCATAAT
* *
30097622 TAAATAATATTTATTTTTATGA
1 TAAATATTATTTATCTTTATGA
30097644 T-AATATTATTTATCTTTATGA
1 TAAATATTATTTATCTTTATGA
30097665 TAAATATTA
1 TAAATATTA
30097674 AATACTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
TAAATATTATTTATCTTTATGA
Found at i:30097749 original size:53 final size:51
Alignment explanation
Indices: 30097596--30097726 Score: 137
Period size: 53 Copynumber: 2.6 Consensus size: 51
30097586 AATATTAAGA
* * * *
30097596 TAAATAATATTTATATTTATCAT--A-ATTAAATAATATTTATT-TTTA-T
1 TAAATATTATTTATCTTTATCATAAATATTAAATACTATTTATTATTAATT
* *
30097642 GATAATATTATTTATCTTTATGATAAATATTAAATACTAAATTTATTATTAATT
1 TA-AATATTATTTATCTTTATCATAAATATTAAATACT--ATTTATTATTAATT
*
30097696 TAAATATTATTTATCTTTATCATAAGTATTA
1 TAAATATTATTTATCTTTATCATAAATATTA
30097727 TATTACGTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
46 1 0.01
47 18 0.26
49 1 0.01
50 9 0.13
52 7 0.10
53 30 0.44
54 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (51 bp):
TAAATATTATTTATCTTTATCATAAATATTAAATACTATTTATTATTAATT
Found at i:30103732 original size:26 final size:26
Alignment explanation
Indices: 30103703--30103810 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
30103693 TGATACAAAT
30103703 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
30103729 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30103755 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30103781 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30103807 TGAT
1 TGAT
30103811 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30108080 original size:18 final size:20
Alignment explanation
Indices: 30108059--30108104 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
30108049 AAGTGAAATA
30108059 GTGAATTGAAAAT-AGA-AT
1 GTGAATTGAAAATGAGACAT
*
30108077 GTGAAATGAAAATGAGACAT
1 GTGAATTGAAAATGAGACAT
*
30108097 ATGAATTG
1 GTGAATTG
30108105 TGTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 3 0.13
20 8 0.35
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (20 bp):
GTGAATTGAAAATGAGACAT
Found at i:30108276 original size:37 final size:37
Alignment explanation
Indices: 30108235--30108315 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
30108225 CTGAAATATT
**
30108235 TGGAAATGATATTTACTTGATATATTGAAATGTGACA
1 TGGAAATGATATTTACTTGATATATTGAAAAATGACA
30108272 TGGAAATGATATTTACTTGATATATTGAAAAATGACA
1 TGGAAATGATATTTACTTGATATATTGAAAAATGACA
*
30108309 TGTAAAT
1 TGGAAAT
30108316 ATGTGATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (37 bp):
TGGAAATGATATTTACTTGATATATTGAAAAATGACA
Found at i:30112678 original size:17 final size:17
Alignment explanation
Indices: 30112656--30112695 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
30112646 AATCAACCTT
30112656 CACCTCCGGCACCAATC
1 CACCTCCGGCACCAATC
*
30112673 CACCT-C--CACCGATC
1 CACCTCCGGCACCAATC
30112687 CACCTCCGG
1 CACCTCCGG
30112696 TCCTTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 1 0.05
17 5 0.26
ACGTcount: A:0.20, C:0.55, G:0.12, T:0.12
Consensus pattern (17 bp):
CACCTCCGGCACCAATC
Found at i:30116182 original size:91 final size:91
Alignment explanation
Indices: 30116044--30116251 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
30116034 TTGATTTTAG
* *
30116044 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
30116109 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
30116136 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
30116201 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
30116227 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30116252 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:30116220 original size:26 final size:28
Alignment explanation
Indices: 30116166--30116226 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
30116156 TATTATCAAG
* *
30116166 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
30116194 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
30116220 AATTATA
1 AATTATA
30116227 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:30116226 original size:44 final size:43
Alignment explanation
Indices: 30116084--30116226 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
30116074 GAATTTTATG
* *
30116084 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
30116128 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
30116175 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
30116219 AAATTATA
1 AAATTATA
30116227 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:30116416 original size:18 final size:17
Alignment explanation
Indices: 30116388--30116422 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30116378 ATTATTAAGA
*
30116388 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30116405 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30116423 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30116422 original size:16 final size:16
Alignment explanation
Indices: 30116388--30116442 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
30116378 ATTATTAAGA
30116388 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
30116405 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
30116421 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
30116435 ATGTTTAA
1 AT-TTTAA
30116443 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:30116679 original size:16 final size:16
Alignment explanation
Indices: 30116658--30116726 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
30116648 GATTTGCTAT
30116658 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30116674 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
30116691 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30116707 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30116723 TACA
1 TACA
30116727 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30116700 original size:33 final size:32
Alignment explanation
Indices: 30116658--30116726 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
30116648 GATTTGCTAT
30116658 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
30116691 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
30116723 TACA
1 TACA
30116727 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:30121732 original size:3 final size:3
Alignment explanation
Indices: 30121724--30121756 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
30121714 ACTACCTTAG
*
30121724 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30121757 CAATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30121948 original size:27 final size:25
Alignment explanation
Indices: 30121896--30121957 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
30121886 TTTGCTGTCC
* *
30121896 TTTTATTTATTTTATAATCAGTTTATT
1 TTTTATTT-TTTTAAAACCAGTTTA-T
*
30121923 TTTTATTTTTTTAAAACCCGTATTAT
1 TTTTATTTTTTTAAAACCAGT-TTAT
*
30121949 TGTTATTTT
1 TTTTATTTT
30121958 ATCATTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (25 bp):
TTTTATTTTTTTAAAACCAGTTTAT
Found at i:30127134 original size:39 final size:40
Alignment explanation
Indices: 30127031--30127138 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
30127021 AGATTAACCG
* *
30127031 AACACATCAGACAGAAGCTCATAAGAGCTGATCCAACCAA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * * * * *
30127071 AATACACCAAACAAAAGCTTATAAGAGCTGCTCCACCCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
**
30127111 AACATGCC-AACAGAAGCTCATAAGAGCT
1 AACACACCAAACAGAAGCTCATAAGAGCT
30127139 AAGCAGAAGC
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 18 0.33
40 37 0.67
ACGTcount: A:0.44, C:0.28, G:0.15, T:0.14
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
Found at i:30137613 original size:47 final size:47
Alignment explanation
Indices: 30137526--30138539 Score: 1947
Period size: 47 Copynumber: 21.6 Consensus size: 47
30137516 CCCTTCGGGA
* * * * * *
30137526 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30137573 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137620 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137667 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137714 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137761 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137902 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137949 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137996 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138043 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138137 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138466 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30138513 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30138540 ACCAACCCTT
Statistics
Matches: 955, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 955 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30138801 original size:40 final size:39
Alignment explanation
Indices: 30138764--30138855 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
30138754 GCTACTCGTT
*
30138764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
30138804 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
30138843 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30138856 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:30138835 original size:39 final size:40
Alignment explanation
Indices: 30138745--30138905 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
30138735 CGAAATTTAA
** *
30138745 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
30138785 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30138824 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30138864 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30138904 CC
1 CC
30138906 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30141415 original size:20 final size:20
Alignment explanation
Indices: 30141392--30141453 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
30141382 TTTCTATCAC
30141392 TCTTTCCTTCTTTTAATTAT
1 TCTTTCCTTCTTTTAATTAT
** *
30141412 TCTTT-CTTC-CATAA-T-C
1 TCTTTCCTTCTTTTAATTAT
30141428 TCTTTCCTTCTTTTAATTAT
1 TCTTTCCTTCTTTTAATTAT
30141448 TCTTTC
1 TCTTTC
30141454 TTCCATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 5 0.16
17 5 0.16
18 6 0.19
19 5 0.16
20 11 0.34
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTTCCTTCTTTTAATTAT
Found at i:30141418 original size:16 final size:16
Alignment explanation
Indices: 30141399--30141455 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
30141389 CACTCTTTCC
30141399 TTCTTTTAATTATTCT
1 TTCTTTTAATTATTCT
* * *
30141415 TTCTTCCATAATCTCTTTCC
1 TTCTT--TTAAT-T-ATTCT
30141435 TTCTTTTAATTATTCT
1 TTCTTTTAATTATTCT
30141451 TTCTT
1 TTCTT
30141456 CCATAATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 13 0.42
17 1 0.03
18 8 0.26
19 1 0.03
20 8 0.26
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (16 bp):
TTCTTTTAATTATTCT
Found at i:30141431 original size:36 final size:36
Alignment explanation
Indices: 30141391--30141462 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
30141381 GTTTCTATCA
30141391 CTCTTTCCTTCTTTTAATTATTCTTTCTTCCATAAT
1 CTCTTTCCTTCTTTTAATTATTCTTTCTTCCATAAT
30141427 CTCTTTCCTTCTTTTAATTATTCTTTCTTCCATAAT
1 CTCTTTCCTTCTTTTAATTATTCTTTCTTCCATAAT
30141463 ATAAAGCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.58
Consensus pattern (36 bp):
CTCTTTCCTTCTTTTAATTATTCTTTCTTCCATAAT
Found at i:30161494 original size:40 final size:40
Alignment explanation
Indices: 30161418--30161494 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
30161408 ACACCATGTG
* * * *
30161418 GGGATAAAATCGACCCACCTAGCCTTACACACCAAGTATA
1 GGGATAAAATCAACCCACCTAACCCTACACAACAAGTATA
* * *
30161458 GGGATAGAATCAACCCATCTAACCCTACATAACAAGT
1 GGGATAAAATCAACCCACCTAACCCTACACAACAAGT
30161495 GGTACTGTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.18
Consensus pattern (40 bp):
GGGATAAAATCAACCCACCTAACCCTACACAACAAGTATA
Found at i:30164327 original size:20 final size:21
Alignment explanation
Indices: 30164293--30164348 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
30164283 TGATGATATT
*
30164293 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
30164314 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
30164334 TTTTATTATTTTAAT
1 TTATATTATTTTAAT
30164349 ATTATTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.13
20 14 0.45
21 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:30164339 original size:18 final size:20
Alignment explanation
Indices: 30164298--30164348 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
30164288 ATATTTTATG
*
30164298 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
*
30164317 ATTATTTTAATGAGATATTTT
1 ATTATTTTAATGAGATA-TAT
30164338 ATTATTTTAAT
1 ATTATTTTAAT
30164349 ATTATTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:30164353 original size:11 final size:11
Alignment explanation
Indices: 30164336--30164374 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
30164326 ATGAGATATT
30164336 TTATTATTTTA
1 TTATTATTTTA
* *
30164347 ATATTATTTCA
1 TTATTATTTTA
30164358 TTATTATTTTA
1 TTATTATTTTA
30164369 TTATTA
1 TTATTA
30164375 ATTATTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:30166563 original size:46 final size:46
Alignment explanation
Indices: 30166511--30166682 Score: 238
Period size: 46 Copynumber: 3.7 Consensus size: 46
30166501 AGTGTGCTCT
*
30166511 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
30166557 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
30166603 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
30166649 ATGACA-GAAAATAAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
30166683 CACTACGGCA
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 113 0.99
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30175529 original size:40 final size:38
Alignment explanation
Indices: 30175443--30175531 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 38
30175433 CCATCTCCGT
* * *
30175443 CCAACCC-AGCACACCATGTAGGGATAAAATTAACCCAC
1 CCAACCCTA-CACACCAAGTAGGGATAAAATCAACCCAA
* *
30175481 CCAGCCCTACACACCAAGTATGGGTATAGAATCAACCCAA
1 CCAACCCTACACACCAAGTA-GGG-ATAAAATCAACCCAA
30175521 CCAACCCTACA
1 CCAACCCTACA
30175532 TAACAAGTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
38 16 0.38
39 4 0.10
40 22 0.52
ACGTcount: A:0.38, C:0.36, G:0.12, T:0.13
Consensus pattern (38 bp):
CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAA
Found at i:30186518 original size:17 final size:17
Alignment explanation
Indices: 30186498--30186530 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30186488 TGTTTTACTA
*
30186498 TTGTTTTTATTTTTATC
1 TTGTTTCTATTTTTATC
30186515 TTGTTTCTATTTTTAT
1 TTGTTTCTATTTTTAT
30186531 TCCATTGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (17 bp):
TTGTTTCTATTTTTATC
Found at i:30195793 original size:5 final size:5
Alignment explanation
Indices: 30195783--30195849 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 5
30195773 TATGTTTTTC
*
30195783 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT -AAAAT
30195831 AAAAT AAGAAT -AAAT AAAA
1 AAAAT AA-AAT AAAAT AAAA
30195850 AAATAGGAGG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.06
4 3 0.06
5 19 0.36
6 28 0.53
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:30195812 original size:6 final size:6
Alignment explanation
Indices: 30195803--30195854 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
30195793 AATAAAATTG
* *
30195803 AAATGA AAATAA AAATAA AAATAA AAAT-A AAATAA GAATAA ATAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA
30195850 AAATA
1 AAATA
30195855 GGAGGAGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 7 0.17
6 31 0.77
7 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:30195818 original size:12 final size:11
Alignment explanation
Indices: 30195783--30195850 Score: 66
Period size: 12 Copynumber: 5.9 Consensus size: 11
30195773 TATGTTTTTC
30195783 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
30195796 AAAATTGAAAT
1 AAAATAAAAAT
30195807 GAAAATAAAAAT
1 -AAAATAAAAAT
30195819 AAAAATAAAAAT
1 -AAAATAAAAAT
*
30195831 AAAATAAGAAT
1 AAAATAAAAAT
30195842 -AAATAAAAA
1 AAAATAAAAA
30195851 AATAGGAGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
10 8 0.17
11 13 0.28
12 21 0.45
13 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:30195834 original size:23 final size:23
Alignment explanation
Indices: 30195803--30195854 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
30195793 AATAAAATTG
30195803 AAATGAAAATAAAAATAAA-AATAA
1 AAAT-AAAATAAAAATAAATAA-AA
*
30195827 AAATAAAATAAGAATAAATAAAA
1 AAATAAAATAAAAATAAATAAAA
30195850 AAATA
1 AAATA
30195855 GGAGGAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (23 bp):
AAATAAAATAAAAATAAATAAAA
Found at i:30206207 original size:27 final size:27
Alignment explanation
Indices: 30206169--30206222 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
30206159 ACTAGGTGTT
*
30206169 AATTAGAAAGAGATTTTAATTAATCAA
1 AATTAGAAAGAGATTTCAATTAATCAA
30206196 AATTAGAAAGAGATTTCAATTAATCAA
1 AATTAGAAAGAGATTTCAATTAATCAA
30206223 CCTAGGGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTAGAAAGAGATTTCAATTAATCAA
Found at i:30211688 original size:6 final size:6
Alignment explanation
Indices: 30211667--30211706 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
30211657 GTTTAAAAAC
* *
30211667 TTTTTA TTTATTA TTTTTA TTTTTA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
30211707 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:30216047 original size:50 final size:50
Alignment explanation
Indices: 30215923--30216059 Score: 165
Period size: 50 Copynumber: 2.8 Consensus size: 50
30215913 AATCAATAAG
* * *
30215923 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA--ACT-TATCCCTGAG
1 TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTCTATCACTGAA
* * *
30215970 TACCTATACTATGGCTCGTAGCCAAATCAAGGTATTACTCT-TTACTGACA
1 TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTCTATCACTGA-A
* *
30216020 TACTTATACCATGGCACGTAGCTAAATCAAGGTATTACTC
1 TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTC
30216060 ACACCCGAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 32 0.42
49 8 0.10
50 37 0.48
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (50 bp):
TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTCTATCACTGAA
Found at i:30219285 original size:27 final size:27
Alignment explanation
Indices: 30219246--30219360 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
30219236 TGGAAGAAGC
* *
30219246 GTTCTGGTTGCTATGTCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
30219273 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
*
30219300 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* * * *
30219327 GCATCTGGTGACTTTGTCAC-AATATCT
1 G-TTCTGGTGGCTATGCCACAAATATCT
30219354 GTTCTGG
1 GTTCTGG
30219361 CATCCATGCT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.06
27 60 0.76
28 14 0.18
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:30223461 original size:27 final size:28
Alignment explanation
Indices: 30223431--30223507 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 28
30223421 ATATCTATTT
*
30223431 TGGTGCCTCTGCT-ACAATATCTGCATA
1 TGGTGACTCTGCTCACAATATCTGCATA
* * *
30223458 TGGTGACTCT-CTCATAATATCTGTATC
1 TGGTGACTCTGCTCACAATATCTGCATA
30223485 TGGTGACTCTG-TCACAATATCTG
1 TGGTGACTCTGCTCACAATATCTG
30223508 TTCTGTTAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (28 bp):
TGGTGACTCTGCTCACAATATCTGCATA
Found at i:30224504 original size:16 final size:16
Alignment explanation
Indices: 30224483--30224515 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30224473 TTAAGTCCTT
30224483 TTGTCAAATTAAGCAC
1 TTGTCAAATTAAGCAC
30224499 TTGTCAAATTAAGCAC
1 TTGTCAAATTAAGCAC
30224515 T
1 T
30224516 CAAACTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (16 bp):
TTGTCAAATTAAGCAC
Found at i:30242590 original size:19 final size:19
Alignment explanation
Indices: 30242566--30242602 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30242556 AAAGGGTGTT
*
30242566 TTTTTATTTCTATTTTCTA
1 TTTTTATTTCAATTTTCTA
30242585 TTTTTATTTCAATTTTCT
1 TTTTTATTTCAATTTTCT
30242603 TTTCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTCAATTTTCTA
Found at i:30242669 original size:23 final size:23
Alignment explanation
Indices: 30242639--30242685 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
30242629 AGGTTTAAAA
30242639 AAAGAGGGTAGTCGATTTTTTTT
1 AAAGAGGGTAGTCGATTTTTTTT
*
30242662 AAAGAGGGTAGTCTATTTTTTTT
1 AAAGAGGGTAGTCGATTTTTTTT
30242685 A
1 A
30242686 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
AAAGAGGGTAGTCGATTTTTTTT
Found at i:30243583 original size:20 final size:20
Alignment explanation
Indices: 30243558--30243597 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30243548 CTATCTTTTA
* *
30243558 TTATTTTTTTATTTTTACTT
1 TTATTTATTTATTTATACTT
30243578 TTATTTATTTATTTATACTT
1 TTATTTATTTATTTATACTT
30243598 GAGGCTCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATTTATTTATTTATACTT
Found at i:30245226 original size:13 final size:13
Alignment explanation
Indices: 30245208--30245241 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30245198 GCCACATAGT
30245208 CGTGTGGCCACAC
1 CGTGTGGCCACAC
*
30245221 CGTGTGGCCAGAC
1 CGTGTGGCCACAC
*
30245234 CATGTGGC
1 CGTGTGGC
30245242 ACCAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (13 bp):
CGTGTGGCCACAC
Found at i:30254244 original size:25 final size:25
Alignment explanation
Indices: 30254216--30254293 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
30254206 GCAAGCTTCA
*
30254216 TGCCGATGTATATTATCAGGCTTTG
1 TGCCGATGTAAATTATCAGGCTTTG
*
30254241 TGCCGGTGTAAATTAGT-AGGCTTTG
1 TGCCGATGTAAATTA-TCAGGCTTTG
* *
30254266 T-CCCAGGGTAAATTATCAGGCTTTG
1 TGCCGA-TGTAAATTATCAGGCTTTG
30254291 TGC
1 TGC
30254294 TTAACAAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.07
25 39 0.89
26 2 0.05
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.36
Consensus pattern (25 bp):
TGCCGATGTAAATTATCAGGCTTTG
Found at i:30257266 original size:14 final size:14
Alignment explanation
Indices: 30257240--30257277 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
30257230 TCACATGACC
30257240 AATTAATTT-AATTT
1 AATT-ATTTAAATTT
*
30257254 AATTTTTTAAATTT
1 AATTATTTAAATTT
30257268 AATTATTTAA
1 AATTATTTAA
30257278 TTAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTATTTAAATTT
Found at i:30260939 original size:11 final size:11
Alignment explanation
Indices: 30260889--30260939 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
30260879 ACTTTTATAA
30260889 TTTTTCAAAAT
1 TTTTTCAAAAT
*
30260900 ATTTTT-AAAAC
1 -TTTTTCAAAAT
*
30260911 TTTTTAAATAACT
1 TTTTTCAA-AA-T
30260924 TTTTTCAAAAT
1 TTTTTCAAAAT
30260935 TTTTT
1 TTTTT
30260940 GAAATTATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 5 0.15
11 12 0.36
12 9 0.27
13 7 0.21
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTTCAAAAT
Found at i:30261814 original size:13 final size:13
Alignment explanation
Indices: 30261798--30261823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30261788 GTTTATTTTT
30261798 CTTCTGGAATTCA
1 CTTCTGGAATTCA
30261811 CTTCTGGAATTCA
1 CTTCTGGAATTCA
30261824 ATTATGGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTCTGGAATTCA
Found at i:30263441 original size:6 final size:6
Alignment explanation
Indices: 30263430--30263467 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
30263420 AGCATAATCG
* *
30263430 TCGTCA TCGTCA TCGTCA TCGTCA TCATCG TCGTCA TC
1 TCGTCA TCGTCA TCGTCA TCGTCA TCGTCA TCGTCA TC
30263468 ATTATCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.16, C:0.34, G:0.16, T:0.34
Consensus pattern (6 bp):
TCGTCA
Found at i:30263453 original size:18 final size:18
Alignment explanation
Indices: 30263430--30263479 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
30263420 AGCATAATCG
*
30263430 TCGTCATCGTCATCGTCA
1 TCGTCATCATCATCGTCA
*
30263448 TCGTCATCATCGTCGTCA
1 TCGTCATCATCATCGTCA
* *
30263466 TCATTATCATCATC
1 TCGTCATCATCATC
30263480 ATCCTCACTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (18 bp):
TCGTCATCATCATCGTCA
Found at i:30263468 original size:12 final size:12
Alignment explanation
Indices: 30263433--30263482 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
30263423 ATAATCGTCG
*
30263433 TCATCGTCATCG
1 TCATCGTCATCA
30263445 TCATCGTCATCA
1 TCATCGTCATCA
*
30263457 TCGTCGTCATCA
1 TCATCGTCATCA
* *
30263469 TTATCATCATCA
1 TCATCGTCATCA
30263481 TC
1 TC
30263483 CTCACTGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.22, C:0.32, G:0.10, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCA
Found at i:30265419 original size:20 final size:20
Alignment explanation
Indices: 30265383--30265426 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30265373 TTATAATGTT
*
30265383 TTTAAAATTATCAAAAATTC
1 TTTAAAATTATCAAAAATTA
*
30265403 TTTAAAATT-TTAGAAAATTA
1 TTTAAAATTATCA-AAAATTA
30265423 TTTA
1 TTTA
30265427 TTTATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAATTATCAAAAATTA
Found at i:30266288 original size:20 final size:21
Alignment explanation
Indices: 30266261--30266309 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
30266251 TACCCTAATT
*
30266261 AATTTTTTGA-ATTTTT-A-A
1 AATTTTTTTATATTTTTGATA
30266279 AGATTTTTTTATATTTTTGATA
1 A-ATTTTTTTATATTTTTGATA
30266301 AATTTTTTT
1 AATTTTTTT
30266310 CAACATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 6 0.23
21 9 0.35
22 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
AATTTTTTTATATTTTTGATA
Found at i:30267751 original size:46 final size:46
Alignment explanation
Indices: 30267650--30267737 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
30267640 TGTAACCCGC
* * *
30267650 CCATAAGTGAACTCCGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCCGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
30267696 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC
1 CCATAAGTGAACTCCGACTCAACTCAACGAGCTCGGACGCTC
30267738 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCCGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:30275642 original size:3 final size:3
Alignment explanation
Indices: 30275634--30275688 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
30275624 TAATGGAAGG
* * * *
30275634 AAT AAT AAT AAT AAT AGT AAT AAT AGT AAT AAT ACAG AGAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT
30275681 AAT AAT AA
1 AAT AAT AA
30275689 AGAAACATTG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 38 0.90
4 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:30282819 original size:16 final size:17
Alignment explanation
Indices: 30282798--30282835 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
30282788 TTATATCAAC
30282798 AAAATAAA-AAATTTTA
1 AAAATAAACAAATTTTA
**
30282814 AAAATAAACTTATTTTA
1 AAAATAAACAAATTTTA
30282831 AAAAT
1 AAAAT
30282836 TTAAATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAACAAATTTTA
Found at i:30282932 original size:11 final size:11
Alignment explanation
Indices: 30282918--30282961 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
30282908 TTATTAAAAC
30282918 TTATAAAATCA
1 TTATAAAATCA
30282929 TTATAAAATCA
1 TTATAAAATCA
30282940 TTAT-AAA--A
1 TTATAAAATCA
30282948 TTATAAAATCA
1 TTATAAAATCA
30282959 TTA
1 TTA
30282962 GAAGTTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.17
9 3 0.10
10 3 0.10
11 19 0.63
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (11 bp):
TTATAAAATCA
Found at i:30282952 original size:19 final size:18
Alignment explanation
Indices: 30282928--30282992 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 18
30282918 TTATAAAATC
30282928 ATTATAAAATCATTATAAA
1 ATTATAAAATCATTA-AAA
*
30282947 ATTATAAAATCATTAGAA
1 ATTATAAAATCATTAAAA
*
30282965 GTTATAGAAAATCA-TAAAA
1 ATTAT--AAAATCATTAAAA
30282984 ATTATAAAA
1 ATTATAAAA
30282993 ACCATAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 23 0.57
20 7 0.17
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTATAAAATCATTAAAA
Found at i:30287074 original size:27 final size:27
Alignment explanation
Indices: 30287032--30287114 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
30287022 ATAGTGACAA
30287032 TGGCACTTCGATGCAAATCAATGATAG
1 TGGCACTTCGATGCAAATCAATGATAG
* * *
30287059 TGGTACTTCGGTGCAAATC-A-GTTAG
1 TGGCACTTCGATGCAAATCAATGATAG
* * *
30287084 TGGCACCTCGATGCAATTCAGTGATAG
1 TGGCACTTCGATGCAAATCAATGATAG
30287111 TGGC
1 TGGC
30287115 TCATTGGAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 19 0.42
26 1 0.02
27 25 0.56
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGCACTTCGATGCAAATCAATGATAG
Found at i:30289082 original size:182 final size:182
Alignment explanation
Indices: 30288775--30289139 Score: 694
Period size: 182 Copynumber: 2.0 Consensus size: 182
30288765 ACACAGACGT
*
30288775 GTGACTGATTTGGAAATTAAGGATTCCACACGGATGTGTGTTTTGGGACACACGGTCGTGTCTGG
1 GTGACTGATTTGGAAATTAAGGATTCCACACGGACGTGTGTTTTGGGACACACGGTCGTGTCTGG
30288840 TGGCCACACGGGCATGTGAGACCCTCACACGGCCGTGTCTACTCTGCACTTGAGCTTAGTGAAAT
66 TGGCCACACGGGCATGTGAGACCCTCACACGGCCGTGTCTACTCTGCACTTGAGCTTAGTGAAAT
* *
30288905 AGGATAGTGTCTTACACGGCCTGATTACATGGTCGTGCCTCTACACCACACG
131 AGGATAGTGTCTTACACGGCCTGATCACATGGCCGTGCCTCTACACCACACG
*
30288957 GTGACTGATTTGGGAATTAAGGATTCCACACGGACGTGTGTTTTGGGACACACGGTCGTGTCTGG
1 GTGACTGATTTGGAAATTAAGGATTCCACACGGACGTGTGTTTTGGGACACACGGTCGTGTCTGG
30289022 TGGCCACACGGGCATGTGAGACCCTCACACGGCCGTGTCTACTCTGCACTTGAGCTTAGTGAAAT
66 TGGCCACACGGGCATGTGAGACCCTCACACGGCCGTGTCTACTCTGCACTTGAGCTTAGTGAAAT
30289087 AGGATAGTGTCTTACACGGCCTGATCACATGGCCGTGCCTCTACACCACACG
131 AGGATAGTGTCTTACACGGCCTGATCACATGGCCGTGCCTCTACACCACACG
30289139 G
1 G
30289140 GCGTATGTCT
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (182 bp):
GTGACTGATTTGGAAATTAAGGATTCCACACGGACGTGTGTTTTGGGACACACGGTCGTGTCTGG
TGGCCACACGGGCATGTGAGACCCTCACACGGCCGTGTCTACTCTGCACTTGAGCTTAGTGAAAT
AGGATAGTGTCTTACACGGCCTGATCACATGGCCGTGCCTCTACACCACACG
Found at i:30294708 original size:37 final size:37
Alignment explanation
Indices: 30294631--30294716 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
30294621 GATAAGATAA
** *
30294631 TCTGCTGGACTTATCCGTATGTTTCAAGGTAAAACAG
1 TCTGCTGGACTTATCCGTACATTTCAAGCTAAAACAG
* *
30294668 TCTGCTGGACTTATCCTTACATTTCAAGCTAAGATC-G
1 TCTGCTGGACTTATCCGTACATTTCAAGCTAA-AACAG
*
30294705 TCTGTTGGACTT
1 TCTGCTGGACTT
30294717 GTCTCTAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 40 0.95
38 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (37 bp):
TCTGCTGGACTTATCCGTACATTTCAAGCTAAAACAG
Found at i:30294856 original size:28 final size:28
Alignment explanation
Indices: 30294833--30294947 Score: 117
Period size: 28 Copynumber: 4.1 Consensus size: 28
30294823 TGTACATATA
30294833 AATCTGCATATATGATTTCGTA-CATATG
1 AATCTGCATATATGATTTCGTATC-TATG
*
30294861 AAT-TAGCATATAAGATTTCGTATCTATG
1 AATCT-GCATATATGATTTCGTATCTATG
* * *
30294889 AATCTGCCTATGTGATTTTGTATCTATG
1 AATCTGCATATATGATTTCGTATCTATG
* * ** *
30294917 AATCTGCCTATGTGATCACGTTTCTATG
1 AATCTGCATATATGATTTCGTATCTATG
30294945 AAT
1 AAT
30294948 TTCACCTATG
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.01
28 72 0.96
29 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (28 bp):
AATCTGCATATATGATTTCGTATCTATG
Found at i:30301367 original size:24 final size:24
Alignment explanation
Indices: 30301340--30301389 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
30301330 GGTTATGAAG
30301340 TTCAACTCCACTTACTTATTTTAT
1 TTCAACTCCACTTACTTATTTTAT
30301364 TTCAACTCCACTTACTTATTTTAT
1 TTCAACTCCACTTACTTATTTTAT
30301388 TT
1 TT
30301390 TCGATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (24 bp):
TTCAACTCCACTTACTTATTTTAT
Found at i:30306729 original size:20 final size:21
Alignment explanation
Indices: 30306704--30306742 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
30306694 CACTGAAAAA
30306704 AAATAA-ACGAAAAT-AACTAT
1 AAATAATA-GAAAATGAACTAT
30306724 AAATAATAGAAAATGAACT
1 AAATAATAGAAAATGAACT
30306743 TGATGATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.21
Consensus pattern (21 bp):
AAATAATAGAAAATGAACTAT
Found at i:30308434 original size:27 final size:27
Alignment explanation
Indices: 30308415--30308560 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
30308405 ATTACCAAAG
*
30308415 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
30308442 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30308469 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30308496 TATCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30308523 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
30308550 TACCCTCGATT
1 TACCCTCGATT
30308561 GTGAAATTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:30308581 original size:27 final size:26
Alignment explanation
Indices: 30308550--30308716 Score: 106
Period size: 27 Copynumber: 6.2 Consensus size: 26
30308540 ATTACCATTT
* *
30308550 TACCCTCGATTGTGAAATTACTGAAA
1 TACCCTAGATTGTGAAATTACCGAAA
* ** *
30308576 TAACCCTATAGGGT-AGAATTACCAAAA
1 T-ACCCTAGATTGTGA-AATTACCGAAA
* *
30308603 TACCCCTAGTTTGTAAAATTACCGAAA
1 TA-CCCTAGATTGTGAAATTACCGAAA
* *
30308630 TACCACTAGTTTGTGAAATTACTGAAA
1 TACC-CTAGATTGTGAAATTACCGAAA
* *
30308657 TACCCTCA-ATTTGTAAAATTACCAAAA
1 TACCCT-AGA-TTGTGAAATTACCGAAA
* * *
30308684 TACCCCT-GATTTATAAAATTACAGAAA
1 TA-CCCTAGA-TTGTGAAATTACCGAAA
30308711 TACCCT
1 TACCCT
30308717 TGACTTTCTA
Statistics
Matches: 112, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
26 11 0.10
27 96 0.86
28 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (26 bp):
TACCCTAGATTGTGAAATTACCGAAA
Found at i:30308677 original size:81 final size:81
Alignment explanation
Indices: 30308559--30308714 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 81
30308549 TTACCCTCGA
* *
30308559 TTGTGAAATTACTGAAATAACCCTATAGGGTAGAATTACCAAAATACCCCT-AGTTTGTAAAATT
1 TTGTGAAATTACTGAAATAACCCTATAGGGTAAAATTACCAAAATACCCCTGA-TTTATAAAATT
*
30308623 ACCGAAATACCACTAGT
65 ACAGAAATACCACTAGT
**
30308640 TTGTGAAATTACTGAAAT-ACCCTCA-ATTTGTAAAATTACCAAAATACCCCTGATTTATAAAAT
1 TTGTGAAATTACTGAAATAACCCT-ATA-GGGTAAAATTACCAAAATACCCCTGATTTATAAAAT
30308703 TACAGAAATACC
64 TACAGAAATACC
30308715 CTTGACTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 6 0.09
81 60 0.90
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATAACCCTATAGGGTAAAATTACCAAAATACCCCTGATTTATAAAATTA
CAGAAATACCACTAGT
Found at i:30308703 original size:54 final size:54
Alignment explanation
Indices: 30308612--30308772 Score: 164
Period size: 54 Copynumber: 2.9 Consensus size: 54
30308602 ATACCCCTAG
* * *
30308612 TTTGTAAAATTACCGAAATACCACT-AGTTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGA-TTTATAAAATTACTGAAATACCCTCAA
* * * *
30308666 TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTACTGAAATACCC-TCAA
* * * * *
30308721 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TTTGT-AAAATTACCA-AAATACCACTGATTTATAAAATTACTGAAATACCCT
30308773 TGGTTTGTAG
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
54 43 0.48
55 9 0.10
56 37 0.42
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTACTGAAATACCCTCAA
Found at i:30308738 original size:29 final size:27
Alignment explanation
Indices: 30308592--30308771 Score: 118
Period size: 27 Copynumber: 6.6 Consensus size: 27
30308582 TATAGGGTAG
*
30308592 AATTACCA-AAATACCCCT-AGTTTGTAA
1 AATTA-CAGAAATACCCCTGA-TTTATAA
* * * *
30308619 AATTACCGAAATACCACT-AGTTTGTGA
1 AATTACAGAAATACCCCTGA-TTTATAA
* * *
30308646 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACAGAAATACCCCT-GATTTATAA
30308673 AATTACCA-AAATACCCCTGATTTATAA
1 AATTA-CAGAAATACCCCTGATTTATAA
* *
30308700 AATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACAGAAATACCCCTGA-TTTAT-AA
* ** * *
30308729 AATTATAGAAATACCATTGGTTTACAA
1 AATTACAGAAATACCCCTGATTTATAA
*
30308756 AATTACTGAAATACCC
1 AATTACAGAAATACCC
30308772 TTGGTTTGTA
Statistics
Matches: 126, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.05
27 88 0.70
28 13 0.10
29 19 0.15
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGATTTATAA
Found at i:30308766 original size:27 final size:27
Alignment explanation
Indices: 30308727--30308778 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30308717 TGACTTTCTA
30308727 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
30308754 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
30308779 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:30309666 original size:16 final size:16
Alignment explanation
Indices: 30309645--30309675 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30309635 CAAATATGGG
*
30309645 CATGACATTCTGCATA
1 CATGACATGCTGCATA
30309661 CATGACATGCTGCAT
1 CATGACATGCTGCAT
30309676 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
CATGACATGCTGCATA
Found at i:30309782 original size:24 final size:25
Alignment explanation
Indices: 30309706--30309775 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
30309696 AGGAAGTGCT
* * *
30309706 AAAAGGGATTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
30309731 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
30309756 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
30309776 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:30309788 original size:24 final size:24
Alignment explanation
Indices: 30309705--30309788 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
30309695 GAGGAAGTGC
* *
30309705 TAAAAGGGATTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
30309730 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
30309754 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
30309778 TAAAAGAGGCT
1 TAAAAG-GGCT
30309789 AAGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:30309799 original size:50 final size:50
Alignment explanation
Indices: 30309706--30309800 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
30309696 AGGAAGTGCT
**
30309706 AAAAGGGATTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGATTTGCCCCAGTTTACCGAAAAGGGCTAAGCCCCAGTTTATCA
* **
30309756 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAAGCCTCCAGTT
1 AAAAGGGATTTGCCCCAGTTTACCGAAAAG-GGCTAAGCC-CCAGTT
30309801 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGGGATTTGCCCCAGTTTACCGAAAAGGGCTAAGCCCCAGTTTATCA
Found at i:30309982 original size:42 final size:43
Alignment explanation
Indices: 30309923--30310015 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
30309913 TAGTCTCCCC
* * *
30309923 AAATGGTCTTGCATACATTCATTGGTA-TTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTTAATGTGATATTG
*
30309965 AAATGGGCTTGCATACATTCATTGATATTTTAATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTTAATGTGATATTG
30310008 AAATGGGC
1 AAATGGGC
30310016 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (43 bp):
AAATGGGCTTGCATACATTCATTGATATTTTAATGTGATATTG
Found at i:30312222 original size:27 final size:27
Alignment explanation
Indices: 30312203--30312348 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
30312193 ATTACCAAAG
* *
30312203 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
30312230 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
30312257 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * ***
30312284 TATCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
30312311 TACCCTTGATTTACACAATTAGCATTT
1 TACCCTCGATTTATAGAATTACCATTT
30312338 TACCCTCGATT
1 TACCCTCGATT
30312349 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:30312312 original size:54 final size:54
Alignment explanation
Indices: 30312203--30312348 Score: 184
Period size: 54 Copynumber: 2.7 Consensus size: 54
30312193 ATTACCAAAG
*
30312203 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * ***
30312257 TACCCTCGATTTATAGAATTATCGTTTTATCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * * *
30312311 TACCCTTGATTTACACAATTAGCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
30312349 GTGAAATTAC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:30312410 original size:27 final size:27
Alignment explanation
Indices: 30312380--30312502 Score: 106
Period size: 27 Copynumber: 4.6 Consensus size: 27
30312370 TATAGGGTAG
*
30312380 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * * ** *
30312407 AATTATC-GAATATCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
30312433 AATTATCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
30312460 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
30312487 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
30312503 TTGACTTTCT
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 23 0.30
27 53 0.70
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:30312562 original size:27 final size:27
Alignment explanation
Indices: 30312480--30312565 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
30312470 ATACCCCTAA
* *
30312480 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
30312508 TTT-CTAAAAGTTA-TAGAAATACCATTGG
1 TTTAC-AAAA-TTACT-GAAATACCCTTGG
30312536 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
30312563 TTT
1 TTT
30312566 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 19 0.39
28 15 0.31
29 15 0.31
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:30313516 original size:61 final size:61
Alignment explanation
Indices: 30313441--30313558 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
30313431 CTATGCTGCC
* *
30313441 AGTGGAGAGTTTGGTTGCGTGGGTTGAGTTATTCCCTACATGGAGAACTTGGTTGGTACGA
1 AGTGGAGAGTTTGGTTGCGTGGGTTGAGTTATTCCCCACATAGAGAACTTGGTTGGTACGA
* *
30313502 AGTGGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCCCACATAGAGAGCTTGGTTGGT
1 AGTGGAGAGTTTGGTTGCGTGGGTTGAGTTATTCCCCACATAGAGAACTTGGTTGGT
30313559 TCCGGTGGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.19, C:0.11, G:0.37, T:0.33
Consensus pattern (61 bp):
AGTGGAGAGTTTGGTTGCGTGGGTTGAGTTATTCCCCACATAGAGAACTTGGTTGGTACGA
Found at i:30313659 original size:42 final size:42
Alignment explanation
Indices: 30313600--30313691 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
30313590 TAGTCTCCCC
*
30313600 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
30313642 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
30313684 AAATGGGC
1 AAATGGGC
30313692 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Done.