Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 153 of 205
Found at i:46121834 original size:26 final size:28
Alignment explanation
Indices: 46121778--46121836 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
46121768 GACACAAATT
* * *
46121778 TAAAAATTATAAAAACTTATACATATTA
1 TAAAAATTATAAAAACCTATACAAATCA
46121806 TAAAAA-TATAAAAACCTA-ACAAATCA
1 TAAAAATTATAAAAACCTATACAAATCA
46121832 TAAAA
1 TAAAA
46121837 GTTTTATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.39
27 11 0.39
28 6 0.21
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (28 bp):
TAAAAATTATAAAAACCTATACAAATCA
Found at i:46121928 original size:10 final size:9
Alignment explanation
Indices: 46121773--46122039 Score: 126
Period size: 9 Copynumber: 29.3 Consensus size: 9
46121763 AAATGGACAC
46121773 AAATT-TAA
1 AAATTATAA
46121781 AAATTATAA
1 AAATTATAA
*
46121790 AAACTTATAC
1 AAA-TTATAA
*
46121800 ATATTATAA
1 AAATTATAA
46121809 AAA-TATAA
1 AAATTATAA
* *
46121817 AAACCTA-AC
1 AAA-TTATAA
*
46121826 AAATCATAA
1 AAATTATAA
* *
46121835 AAGTTTTATA
1 AAATTATA-A
46121845 AAATTAATAAA
1 AAATT-AT-AA
*
46121856 AAATATTTACA
1 AAAT-TATA-A
** *
46121867 ATTTTATGA
1 AAATTATAA
*
46121876 AAATCAT-A
1 AAATTATAA
46121884 AAA-TATTAA
1 AAATTA-TAA
*
46121893 AAA-TATAT
1 AAATTATAA
46121901 AAATTAGTAA
1 AAATTA-TAA
*
46121911 AAAATATAA
1 AAATTATAA
46121920 AAACTTATAA
1 AAA-TTATAA
*
46121930 ATATTATAA
1 AAATTATAA
46121939 AAA-TATAA
1 AAATTATAA
*
46121947 TAATTA-AA
1 AAATTATAA
**
46121955 ATTTTATAA
1 AAATTATAA
*
46121964 AAACATATAA
1 AAA-TTATAA
46121974 AAATTCATAA
1 AAATT-ATAA
46121984 ATAA-TATAA
1 A-AATTATAA
46121993 ATAA-TATAA
1 A-AATTATAA
*
46122002 AAATTCTAA
1 AAATTATAA
*
46122011 TAAATTGTAA
1 -AAATTATAA
46122021 AAA--ATAA
1 AAATTATAA
46122028 AAATTATAA
1 AAATTATAA
46122037 AAA
1 AAA
46122040 CTTGTCGAAA
Statistics
Matches: 196, Mismatches: 39, Indels: 47
0.70 0.14 0.17
Matches are distributed among these distances:
7 7 0.04
8 38 0.19
9 84 0.43
10 53 0.27
11 12 0.06
12 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:46121945 original size:44 final size:45
Alignment explanation
Indices: 46121875--46121996 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 45
46121865 CAATTTTATG
* *
46121875 AAAATCATA-AAATATTA-AAAATATATAAATTAGTAAAA-AATAT
1 AAAAACATATAAATATTATAAAA-ATATAAATAAGTAAAATAATAT
* * **
46121918 AAAAACTTATAAATATTATAAAAATAT-AATAATTAAAATTTTAT
1 AAAAACATATAAATATTATAAAAATATAAATAAGTAAAATAATAT
*
46121962 AAAAACATATAAAAATTCATAAATAATATAAATAA
1 AAAAACATATAAATATT-ATAAA-AATATAAATAA
46121997 TATAAAAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
43 16 0.25
44 30 0.46
45 9 0.14
46 5 0.08
47 5 0.08
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (45 bp):
AAAAACATATAAATATTATAAAAATATAAATAAGTAAAATAATAT
Found at i:46123337 original size:20 final size:22
Alignment explanation
Indices: 46123309--46123355 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
46123299 TTTTAAGTTA
*
46123309 AAAATTAAAAGAAT-AA-AAAT
1 AAAACTAAAAGAATAAATAAAT
*
46123329 AAAACTAAATGAATAAATAAAT
1 AAAACTAAAAGAATAAATAAAT
46123351 AAAAC
1 AAAAC
46123356 AAACACCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
22 9 0.39
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAACTAAAAGAATAAATAAAT
Found at i:46124197 original size:85 final size:85
Alignment explanation
Indices: 46124085--46124383 Score: 296
Period size: 85 Copynumber: 3.5 Consensus size: 85
46124075 GACGAGATTG
* ** * *
46124085 GTGGTTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCA
1 GTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGTA
46124150 ACTTCAGAGAGATAAGATCT
66 ACTTCAGAGAGATAAGATCT
* * * * * * * * * *
46124170 GTGGTTTTAATCCATTCCATTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCATT
1 GTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAG---ATGCGATCTGCTCTACT
*
46124235 GTAACTTCAGGGAGATAAGAT-T
63 GTAACTTCAGAGAGATAAGATCT
* ** * * *
46124257 G-GTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTTTACTG
1 GTGGTT-TT-AATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTG
* *
46124321 TAGCTTCAGAGGGATAAGATCT
64 TAACTTCAGAGAGATAAGATCT
* * *
46124343 GTGGTTTTAATCCACTCTACTACAACTTCAGAGAGATAAGA
1 GTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGA
46124384 TTGGTTTCTT
Statistics
Matches: 165, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
85 91 0.55
86 7 0.04
87 7 0.04
88 60 0.36
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (85 bp):
GTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGTA
ACTTCAGAGAGATAAGATCT
Found at i:46124198 original size:44 final size:44
Alignment explanation
Indices: 46124146--46124731 Score: 204
Period size: 44 Copynumber: 13.5 Consensus size: 44
46124136 TCTGCTCTAC
* *
46124146 TGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCCATTCCAT
1 TGCAACTTCAGGGAGATAAGAT-TG-GGTTCTTCAATCCACTCCAT
* * **
46124190 TGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * ** * *
46124234 TGTAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * * * * * ** *
46124278 TGCAACTTCAGGGAGATAAGACTAGATGC--GATAT--GCTTTAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCA-ATCCACTCCAT
* * * *
46124319 TGTAGCTTCAGAGG-GATAAGATCTGTGGTT-TT-AATCCACTCTAC
1 TGCAACTTCAG-GGAGATAAGAT-TG-GGTTCTTCAATCCACTCCAT
* * * ** * *
46124363 TACAACTTCAGAGAGATAAGATTGGTTTCTTCTGTCTACTCCAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * * * * * ** * *
46124407 TGTAACTTTAGGGAGATAAGACT-GGAT-GT-GATCTGCTCTAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * * *
46124448 TCCAACTTTAGAGAGATAAGATCTTGTGGTT-TT-AAT-CAGCTCCAC
1 TGCAACTTCAGGGAGATAAGA--TTG-GGTTCTTCAATCCA-CTCCAT
* * * * *** *
46124493 TGCAACTTCAGTGAGATATGATTTGTTTCTTCAATATGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * * ** * *
46124537 TGCAACTTTAGGGAGATAAGGTTGGTTTCTTCTGTCTACTCCAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * * * ** * *
46124581 TGCAACTTCAGGGAGATAAGACT-GG--ATGCGATCTGCTCTAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
* * *
46124622 TGCAACTTCAGAGAGATAAGATCTTGTGGTT-TT-AATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGA--TTG-GGTTCTTCAATCCACTCCAT
* * * *** *
46124667 TGTAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
46124711 TGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
46124732 CTTTATGATT
Statistics
Matches: 410, Mismatches: 103, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
41 76 0.19
42 18 0.04
43 27 0.07
44 231 0.56
45 57 0.14
46 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTGGGTTCTTCAATCCACTCCAT
Found at i:46124328 original size:129 final size:128
Alignment explanation
Indices: 46124192--46124556 Score: 412
Period size: 129 Copynumber: 2.8 Consensus size: 128
46124182 CATTCCATTG
* * * * * *
46124192 CAACTTCAGGGAGATAGGATTG-GTTTCTTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGATTGTGGTT-TT-AATCAGCTCCACTGCAACTTCAGAGAGATAAGAT
* * *
46124256 TGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTTTACTG
64 TGGTTTCTTCTGTCTACTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATATGCTCTACTC
* * * *
46124321 TAGCTTCAGAGG-GATAAGATCTGTGGTTTTAATCCA-CTCTACTACAACTTCAGAGAGATAAGA
1 CAACTTCAG-GGAGATAAGAT-TGTGGTTTTAAT-CAGCTCCACTGCAACTTCAGAGAGATAAGA
* * * *
46124384 TTGGTTTCTTCTGTCTACTCCACTGTAACTTTAGGGAGATAAGACTGGATGTGATCTGCTCTACT
63 TTGGTTTCTTCTGTCTACTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATATGCTCTACT
46124449 C
128 C
* * * *
46124450 CAACTTTAGAGAGATAAGATCTTGTGGTTTTAATCAGCTCCACTGCAACTTCAGTGAGATATGAT
1 CAACTTCAGGGAGATAAGA--TTGTGGTTTTAATCAGCTCCACTGCAACTTCAGAGAGATAAGAT
* ** * *
46124515 TTGTTTCTTCAATATGCTCCACTGCAACTTTAGGGAGATAAG
64 TGGTTTCTTCTGTCTACTCCACTGCAACTTTAGGGAGATAAG
46124557 GTTGGTTTCT
Statistics
Matches: 197, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 113 0.57
130 79 0.40
131 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (128 bp):
CAACTTCAGGGAGATAAGATTGTGGTTTTAATCAGCTCCACTGCAACTTCAGAGAGATAAGATTG
GTTTCTTCTGTCTACTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATATGCTCTACTC
Found at i:46124330 original size:173 final size:173
Alignment explanation
Indices: 46124094--46124642 Score: 510
Period size: 173 Copynumber: 3.2 Consensus size: 173
46124084 GGTGGTTTTA
* * *
46124094 GTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAG
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTACTGCAACTTCAGAG
* * * * *
46124159 AGATAAGATCTGTGGTTTTAATCCATTCCATTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAA
66 AGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGAGAGATAAGATTGGTTTCTTCAA
* *
46124224 TCTGCTCCATTGTAACTTCAGGGAGATAAGATTGGTTTCTTCT
131 TCTACTCCACTGTAACTTCAGGGAGATAAGATTGGTTTCTTCT
* * *
46124267 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTTTACTGTAGCTTCAGAG
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTACTGCAACTTCAGAG
* * **
46124332 GGATAAGATCTGTGGTTTTAATCCACTCTACTACAACTTCAGAGAGATAAGATTGGTTTCTTCTG
66 AGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGAGAGATAAGATTGGTTTCTTCAA
* * * **
46124397 TCTACTCCACTGTAACTTTAGGGAGATAAGACTGGATGTGATCT
131 TCTACTCCACTGTAACTTCAGGGAGATAAGATTGG-TTTCTTCT
* * * * * *
46124441 G-CT-CT--ACTCCAACTTTAGAGAGATAAGATCTTG-TG-GTTTTAATCAGCTCCACTGCAACT
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCG--AT-AT--GCTCTACTGCAACT
* * * *** * * * *
46124500 TCAGTGAGATATGAT-T-TGTTTCTTCAATATGCTCCACTGCAACTTTAGGGAGATAAGGTTGGT
60 TCAGAGAGATAAGATCTGTGGTT-TT-AATCCACTCCACTACAACTTCAGAGAGATAAGATTGGT
** * * * * *
46124563 TTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT
123 TTCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTGGTTTC-TTCT
*
46124615 G-CT-CT--ACTGCAACTTCAGAGAGATAAGA
1 GTCTACTCCACTGCAACTTCAGGGAGATAAGA
46124643 TCTTGTGGTT
Statistics
Matches: 315, Mismatches: 51, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
169 1 0.00
170 22 0.07
171 4 0.01
172 8 0.03
173 151 0.48
174 129 0.41
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (173 bp):
GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGAGAGATAAGATTGGTTTCTTCAA
TCTACTCCACTGTAACTTCAGGGAGATAAGATTGGTTTCTTCT
Found at i:46124569 original size:174 final size:174
Alignment explanation
Indices: 46124365--46124731 Score: 599
Period size: 174 Copynumber: 2.1 Consensus size: 174
46124355 CACTCTACTA
* * *
46124365 CAACTTCAGAGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGTAACTTTAGGGAGATAAGACT
1 CAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
* *
46124430 GGATGTGATCTGCTCTACTCCAACTTTAGAGAGATAAGATCTTGTGGTTTTAATCAGCTCCACTG
66 GGATGCGATCTGCTCTACTCCAACTTCAGAGAGATAAGATCTTGTGGTTTTAATCAGCTCCACTG
* * *
46124495 CAACTTCAGTGAGATATGATTTGTTTCTTCAATATGCTCCACTG
131 CAACTTCAGGGAGATAGGATTGGTTTCTTCAATATGCTCCACTG
* *
46124539 CAACTTTAGGGAGATAAGGTTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
1 CAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
* *
46124604 GGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGTGGTTTTAATCCGCTCCACTG
66 GGATGCGATCTGCTCTACTCCAACTTCAGAGAGATAAGATCTTGTGGTTTTAATCAGCTCCACTG
* * *
46124669 TAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGTTCCACTG
131 CAACTTCAGGGAGATAGGATTGGTTTCTTCAATATGCTCCACTG
46124713 CAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
46124732 CTTTATGATT
Statistics
Matches: 176, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
174 176 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (174 bp):
CAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
GGATGCGATCTGCTCTACTCCAACTTCAGAGAGATAAGATCTTGTGGTTTTAATCAGCTCCACTG
CAACTTCAGGGAGATAGGATTGGTTTCTTCAATATGCTCCACTG
Found at i:46124664 original size:130 final size:129
Alignment explanation
Indices: 46124486--46124733 Score: 340
Period size: 130 Copynumber: 1.9 Consensus size: 129
46124476 GTTTTAATCA
* * * *
46124486 GCTCCACTGCAACTTCAGTGAGATATGATTTGTTTCTTCAATATGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTTGTTTCTTCAATACGCTCCACTGCAACTTCAGGGA
**
46124551 GATAAGG-TTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT
66 GAT-AGGATTGGTTTCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT
* * *
46124615 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGTGGTT-TT-AATCCGCTCCACTGTAACTTCAG
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TTGT--TTCTTCAATACGCTCCACTGCAACTTCAG
**
46124678 GGAGATAGGATTGGTTTCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACT
63 GGAGATAGGATTGGTTTCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACT
46124734 TTATGATTTC
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
129 29 0.28
130 71 0.68
131 2 0.02
132 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (129 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTTGTTTCTTCAATACGCTCCACTGCAACTTCAGGGA
GATAGGATTGGTTTCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT
Found at i:46135596 original size:31 final size:31
Alignment explanation
Indices: 46135560--46135622 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
46135550 AAGTTTTTGA
46135560 CCAAAAGACAAAAATTAATCAATTTACGGCT
1 CCAAAAGACAAAAATTAATCAATTTACGGCT
46135591 CCAAAAGACAAAAATTAATCAATTTACGGCT
1 CCAAAAGACAAAAATTAATCAATTTACGGCT
46135622 C
1 C
46135623 GGCTCTCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.22
Consensus pattern (31 bp):
CCAAAAGACAAAAATTAATCAATTTACGGCT
Found at i:46136849 original size:17 final size:17
Alignment explanation
Indices: 46136815--46136862 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
46136805 AAGATATGGG
*
46136815 AAATAAATATGT-TACA
1 AAATATATATGTATACA
*
46136831 AAATGTATATGTATACA
1 AAATATATATGTATACA
*
46136848 AAATATAAATGTATA
1 AAATATATATGTATA
46136863 TGCATATACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (17 bp):
AAATATATATGTATACA
Found at i:46137009 original size:3 final size:3
Alignment explanation
Indices: 46137001--46137048 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
46136991 CGTACGTGGA
* * *
46137001 AAT AAT AAT TAT AAT ACT AAT AAT AAT AGT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
46137047 AA
1 AA
46137049 ATTTTCTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46137696 original size:20 final size:22
Alignment explanation
Indices: 46137668--46137714 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
46137658 TTTTAAGTTA
*
46137668 AAAATTAAAAGAAT-AA-AAAT
1 AAAACTAAAAGAATAAATAAAT
*
46137688 AAAACTAAATGAATAAATAAAT
1 AAAACTAAAAGAATAAATAAAT
46137710 AAAAC
1 AAAAC
46137715 AAACACCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
22 9 0.39
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAACTAAAAGAATAAATAAAT
Found at i:46138287 original size:9 final size:9
Alignment explanation
Indices: 46138248--46138538 Score: 141
Period size: 9 Copynumber: 31.4 Consensus size: 9
46138238 AACCATAATT
*
46138248 AAAATTATT
1 AAAATTATA
*
46138257 AAAATGGATA
1 AAAAT-TATA
*
46138267 CAAATT-TA
1 AAAATTATA
46138275 AAAATTATA
1 AAAATTATA
46138284 AAAACTTATA
1 AAAA-TTATA
* *
46138294 AATATTACA
1 AAAATTATA
46138303 AAAA-TATAA
1 AAAATTAT-A
*
46138312 AAAATCAT-
1 AAAATTATA
*
46138320 AAAATCATA
1 AAAATTATA
* *
46138329 AAATTTTTA
1 AAAATTATA
46138338 TAAAATTAATAA
1 -AAAATT-AT-A
*
46138350 AAAATATTTA
1 AAAAT-TATA
** *
46138360 CAATTTTATG
1 -AAAATTATA
*
46138370 AAAATCAT-
1 AAAATTATA
46138378 AAAA-TATTA
1 AAAATTA-TA
46138387 AAAA-TATA
1 AAAATTATA
*
46138395 TAAATTAGTA
1 AAAATTA-TA
*
46138405 AAAAATATA
1 AAAATTATA
46138414 AAAACTTATA
1 AAAA-TTATA
*
46138424 AATATTATA
1 AAAATTATA
46138433 AAAA-TATA
1 AAAATTATA
*
46138441 ATAATTA-A
1 AAAATTATA
**
46138449 AATTTTATA
1 AAAATTATA
*
46138458 AAAACATATA
1 AAAA-TTATA
46138468 AAAATTCATAAA
1 AAAATT-AT--A
46138480 AAAATTATA
1 AAAATTATA
46138489 AATAA-TATA
1 AA-AATTATA
* *
46138498 AAATTTCTA
1 AAAATTATA
46138507 ATAAATTATA
1 A-AAATTATA
**
46138517 AAAAAAATA
1 AAAATTATA
46138526 AAAATTATA
1 AAAATTATA
46138535 AAAA
1 AAAA
46138539 CTCATTTAAA
Statistics
Matches: 211, Mismatches: 46, Indels: 50
0.69 0.15 0.16
Matches are distributed among these distances:
7 1 0.00
8 40 0.19
9 92 0.44
10 57 0.27
11 12 0.06
12 9 0.04
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:46138399 original size:17 final size:17
Alignment explanation
Indices: 46138370--46138434 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
46138360 CAATTTTATG
46138370 AAAATCATA-AAATATTA
1 AAAAT-ATATAAATATTA
*
46138387 AAAATATATAAATTAGTA
1 AAAATATATAAA-TATTA
*
46138405 AAAA-ATATAAAAACTTA
1 AAAATATATAAATA-TTA
*
46138422 TAAATATTATAAA
1 AAAATA-TATAAA
46138435 AATATAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.10
17 20 0.51
18 9 0.23
19 6 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATATATAAATATTA
Found at i:46138425 original size:19 final size:18
Alignment explanation
Indices: 46138268--46138538 Score: 137
Period size: 19 Copynumber: 14.7 Consensus size: 18
46138258 AAATGGATAC
*
46138268 AAATT-TAAAAATTATAA
1 AAATTATAAAAAATATAA
* * *
46138285 AAACTTATAAATATTACAA
1 AAA-TTATAAAAAATATAA
46138304 AAA-TATAAAAAATCAT-A
1 AAATTATAAAAAAT-ATAA
* ** *
46138321 AAATCATAAAATTTTTATA
1 AAATTATAAAAAATATA-A
*
46138340 AAATTAATAAAAAATATTTA
1 AAATT-ATAAAAAATA-TAA
* * *
46138360 CAATTTTATGAAAATCAT-A
1 AAATTATA-AAAAAT-ATAA
* *
46138379 AAA-TATTAAAAATATAT
1 AAATTATAAAAAATATAA
46138396 AAATTAGTAAAAAATATAA
1 AAATTA-TAAAAAATATAA
* *
46138415 AAACTTATAAATATTATAA
1 AAA-TTATAAAAAATATAA
*
46138434 AAA-TAT-AATAAT-TAA
1 AAATTATAAAAAATATAA
*
46138449 AATTTTATAAAAACATATAA
1 AA-ATTATAAAAA-ATATAA
46138469 AAATTCATAAAAAAATTATAA
1 AAATT-AT-AAAAAA-TATAA
** *
46138490 ATAA-TATAAAATTTCTAA
1 A-AATTATAAAAAATATAA
*
46138508 TAAATTATAAAAAAAATAA
1 -AAATTATAAAAAATATAA
46138527 AAATTATAAAAA
1 AAATTATAAAAA
46138539 CTCATTTAAA
Statistics
Matches: 192, Mismatches: 37, Indels: 49
0.69 0.13 0.18
Matches are distributed among these distances:
15 5 0.03
16 7 0.04
17 30 0.16
18 35 0.18
19 68 0.35
20 31 0.16
21 14 0.07
22 2 0.01
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAAATATAA
Found at i:46138439 original size:11 final size:11
Alignment explanation
Indices: 46138423--46138496 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
46138413 AAAAACTTAT
46138423 AAATATTATAA
1 AAATATTATAA
*
46138434 AAATATAATAATTA
1 AAATAT--T-ATAA
*
46138448 AAATTTTATAA
1 AAATATTATAA
*
46138459 AAACA-TATAA
1 AAATATTATAA
*
46138469 AAAT-TCATAA
1 AAATATTATAA
*
46138479 AAAAATTATAA
1 AAATATTATAA
46138490 ATAATAT
1 A-AATAT
46138497 AAAATTTCTA
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
10 15 0.32
11 18 0.38
12 5 0.11
13 1 0.02
14 8 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATTATAA
Found at i:46138440 original size:44 final size:44
Alignment explanation
Indices: 46138370--46138481 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 44
46138360 CAATTTTATG
* *
46138370 AAAATCATA-AAATATTA-AAAATATATAAATTAGTAAAA-AATAT
1 AAAAACATATAAATATTATAAAA-ATAT-AATAAGTAAAATAATAT
* * **
46138413 AAAAACTTATAAATATTATAAAAATATAATAATTAAAATTTTAT
1 AAAAACATATAAATATTATAAAAATATAATAAGTAAAATAATAT
*
46138457 AAAAACATATAAAAATTCATAAAAA
1 AAAAACATATAAATATT-ATAAAAA
46138482 AATTATAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
43 16 0.28
44 30 0.53
45 11 0.19
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (44 bp):
AAAAACATATAAATATTATAAAAATATAATAAGTAAAATAATAT
Found at i:46138516 original size:28 final size:30
Alignment explanation
Indices: 46138453--46138538 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 30
46138443 AATTAAAATT
46138453 TTATAAAAACATATAAAAATTCATAAAAAAA
1 TTATAAAAA-ATATAAAAATTCATAAAAAAA
* * *
46138484 TTATAAATAATATAAAATTTC-T-AATAAA
1 TTATAAAAAATATAAAAATTCATAAAAAAA
*
46138512 TTATAAAAAAAATAAAAATT-ATAAAAA
1 TTATAAAAAATATAAAAATTCATAAAAA
46138539 CTCATTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 23 0.50
29 4 0.09
30 11 0.24
31 8 0.17
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.30
Consensus pattern (30 bp):
TTATAAAAAATATAAAAATTCATAAAAAAA
Found at i:46139112 original size:13 final size:14
Alignment explanation
Indices: 46139088--46139116 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46139078 TTGCCAATTT
46139088 TGATCTAACCAATC
1 TGATCTAACCAATC
46139102 TGATC-AACCAATC
1 TGATCTAACCAATC
46139115 TG
1 TG
46139117 GTCCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (14 bp):
TGATCTAACCAATC
Found at i:46139209 original size:18 final size:17
Alignment explanation
Indices: 46139140--46139212 Score: 56
Period size: 19 Copynumber: 4.0 Consensus size: 17
46139130 TTTTAACGAT
*
46139140 TTTTTTATAATTTTATA
1 TTTTTTATAAGTTTATA
* *
46139157 TGTTTATATTAATTTTAATA
1 T-TTTTTA-TAAGTTT-ATA
* *
46139177 TTTTTGAATATGTTTATGA
1 TTTTT-TATAAGTTTAT-A
46139196 TTTTTTATAAGTTTATA
1 TTTTTTATAAGTTTATA
46139213 AGAAATTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
17 2 0.05
18 16 0.36
19 21 0.48
20 5 0.11
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
TTTTTTATAAGTTTATA
Found at i:46139321 original size:25 final size:26
Alignment explanation
Indices: 46139293--46139348 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
46139283 TTTATTAGAG
46139293 TTTATTAAGTTCTTAT-TT-TATAATA
1 TTTATTAAGTTCTTATCTTATATAA-A
* *
46139318 TTTA-TAATTTTTTATCTTATATAAA
1 TTTATTAAGTTCTTATCTTATATAAA
46139343 TTTATT
1 TTTATT
46139349 TATATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 9 0.35
25 11 0.42
26 6 0.23
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTATTAAGTTCTTATCTTATATAAA
Found at i:46141470 original size:114 final size:113
Alignment explanation
Indices: 46141267--46141897 Score: 722
Period size: 114 Copynumber: 5.5 Consensus size: 113
46141257 GAAATTATTC
* * * * * * * *
46141267 GTGGCGCTTAT-CTAAAATTGCCGCTAAAGCATAGTATTAGCGGCGTGTCGTCAAATGTGGCGTA
1 GTGGCGCTTATGGTAAAA-CGCCGCTAAAACATAGTATTAGCGGCG-GTCGTGAAAAGCGCCGCA
* *
46141331 ATATATCATAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGCATTA
64 ATATATCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTATACTAGCATTA
* * * *
46141381 GTGGCGCTTTTAGG-AAAACGCCGTTAAAGCATAGTATTAGCGGCGAGTCGTGAAAAGTGCCGCA
1 GTGGCGCTTAT-GGTAAAACGCCGCTAAAACATAGTATTAGCGGCG-GTCGTGAAAAGCGCCGCA
* *
46141445 ATATATCTTAACTAAAACGCTGAGTTTGGTCTTGAGGTATACTAGCATTA
64 ATATATCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTATACTAGCATTA
* * * *
46141495 GTGGCGCTGAT-ATAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTCGTGAAAAGCGCCGCT
1 GTGGCGCTTATGGT-AAAACGCCGCTAAAACATAGTATTAGCGGCG-GTCGTGAAAAGCGCCGCA
*
46141559 ATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGCATTA
64 ATATATCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTATACTAGCATTA
* * * *
46141609 GTGGCGCTTATGGTAAAACGCCGCTAAAACATATTATTAGCGGCGCTTGTTGTAAAGCGCCGCAA
1 GTGGCGCTTATGGTAAAACGCCGCTAAAACATAGTATTAGCGGCGGTCG-TGAAAAGCGCCGCAA
* * *
46141674 -A-ATATTAACAAAAACGCA-ATGCTTTGGTCTTGATGTATACTAGCAGTA
65 TATATCTTAACAAAAACGCAGA-G-TTTGGTCTTGAGGTATACTAGCATTA
* * * *
46141722 GTGGCGCTTATGGTAAAACGCCGCTAAAACATATTATTAGCGGCGCTTGTTGTAAAGCGCCGCAA
1 GTGGCGCTTATGGTAAAACGCCGCTAAAACATAGTATTAGCGGCGGTCG-TGAAAAGCGCCGCAA
* * *
46141787 -A-ATATTAACAAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAATT-
65 TATATCTTAACAAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGC-ATTA
* * * **
46141835 GTGGCGCTTATGGTAAAACGCCGCTAAAACATATTAGTAGCGGCGCGTTGTGTGAAGCGCCGC
1 GTGGCGCTTATGGTAAAACGCCGCTAAAACATAGTATTAGCGGCG-GTCGTGAAAAGCGCCGC
46141898 GAAGTTATTA
Statistics
Matches: 469, Mismatches: 37, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
111 1 0.00
112 16 0.03
113 190 0.41
114 257 0.55
115 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (113 bp):
GTGGCGCTTATGGTAAAACGCCGCTAAAACATAGTATTAGCGGCGGTCGTGAAAAGCGCCGCAAT
ATATCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTATACTAGCATTA
Found at i:46141924 original size:17 final size:17
Alignment explanation
Indices: 46141902--46141993 Score: 152
Period size: 17 Copynumber: 5.5 Consensus size: 17
46141892 CGCCGCGAAG
46141902 TTATTATATAATGTAGT
1 TTATTATATAATGTAGT
*
46141919 TTATTATAT-ATTTAGT
1 TTATTATATAATGTAGT
46141935 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGT
*
46141951 TTATTATATAATGTAGG
1 TTATTATATAATGTAGT
46141968 TTATTATATAATGTAGT
1 TTATTATATAATGTAGT
46141985 TTATTATAT
1 TTATTATAT
46141994 TATATAATGT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
16 30 0.43
17 40 0.57
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (17 bp):
TTATTATATAATGTAGT
Found at i:46142011 original size:17 final size:17
Alignment explanation
Indices: 46141902--46142011 Score: 52
Period size: 17 Copynumber: 6.3 Consensus size: 17
46141892 CGCCGCGAAG
*
46141902 TTATTATATAATGTAGT-
1 TTATTATATAATGT-TTA
46141919 TTATTATAT-A--TTTA
1 TTATTATATAATGTTTA
*
46141933 GTTTATTATAT-ATGTAGT-
1 --TTATTATATAATGT-TTA
***
46141951 TTATTATATAATGTAGG
1 TTATTATATAATGTTTA
46141968 TTATTATATAATGTAGTTTA
1 TTATTATATAA--T-GTTTA
46141988 TTATATTATATAATGTTTA
1 -T-TATTATATAATGTTTA
46142007 TTATT
1 TTATT
46142012 TTTGGATTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
13 1 0.01
14 1 0.01
16 20 0.27
17 28 0.38
18 2 0.03
19 7 0.10
20 3 0.04
21 1 0.01
22 10 0.14
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (17 bp):
TTATTATATAATGTTTA
Found at i:46143629 original size:20 final size:20
Alignment explanation
Indices: 46143591--46143630 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46143581 GCTTCATCAC
*
46143591 CATCACCGTCTCATCTACTG
1 CATCACCGTCCCATCTACTG
46143611 CATCACCGTCACCAT-TACTG
1 CATCACCGTC-CCATCTACTG
46143631 TCACCATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.23, C:0.40, G:0.10, T:0.28
Consensus pattern (20 bp):
CATCACCGTCCCATCTACTG
Found at i:46145134 original size:9 final size:9
Alignment explanation
Indices: 46145086--46145451 Score: 265
Period size: 9 Copynumber: 42.2 Consensus size: 9
46145076 TATCTTAGAC
46145086 AACTTACAT
1 AACTTACAT
46145095 AA--TACAT
1 AACTTACAT
* *
46145102 AGCATACAT
1 AACTTACAT
*
46145111 AACTTCCAT
1 AACTTACAT
*
46145120 AA--TACAA
1 AACTTACAT
46145127 AACTTACAT
1 AACTTACAT
*
46145136 AACTTAAAT
1 AACTTACAT
* *
46145145 ATCTTACAC
1 AACTTACAT
46145154 AACTTACAT
1 AACTTACAT
*
46145163 AACCTACAT
1 AACTTACAT
46145172 AA--TACATTT
1 AACTTACA--T
46145181 AACTTACAT
1 AACTTACAT
*
46145190 AACTTATAT
1 AACTTACAT
*
46145199 AA--TACAA
1 AACTTACAT
46145206 AACTTACAT
1 AACTTACAT
*
46145215 AACTTAAAT
1 AACTTACAT
* *
46145224 ATCTTACAC
1 AACTTACAT
*
46145233 AACTTACAC
1 AACTTACAT
*
46145242 AACCTACAT
1 AACTTACAT
46145251 AA--TACATTT
1 AACTTACA--T
46145260 AACTTACAT
1 AACTTACAT
46145269 AACTTACAT
1 AACTTACAT
*
46145278 AATACATA-AT
1 -A-ACTTACAT
46145288 AACTTAC--
1 AACTTACAT
46145295 AACTTACAT
1 AACTTACAT
*
46145304 AA--TACAC
1 AACTTACAT
46145311 AACTTACAT
1 AACTTACAT
46145320 AACTT--AT
1 AACTTACAT
*
46145327 ACACGTACAT
1 A-ACTTACAT
46145337 AACTTACAT
1 AACTTACAT
46145346 AACTT--AT
1 AACTTACAT
*
46145353 ACACGTACAT
1 A-ACTTACAT
46145363 AACTTACAT
1 AACTTACAT
*
46145372 AACTTAAAT
1 AACTTACAT
* *
46145381 ATCTTACAC
1 AACTTACAT
46145390 AACTTACAT
1 AACTTACAT
* *
46145399 AGCTTACTT
1 AACTTACAT
46145408 AA--TACAT
1 AACTTACAT
46145415 AACTTACAT
1 AACTTACAT
46145424 AACTT--AT
1 AACTTACAT
*
46145431 ACACGTACAT
1 A-ACTTACAT
46145441 AACTTACAT
1 AACTTACAT
46145450 AA
1 AA
46145452 TTTAGTTAAT
Statistics
Matches: 280, Mismatches: 45, Indels: 64
0.72 0.12 0.16
Matches are distributed among these distances:
7 52 0.19
8 13 0.05
9 191 0.68
10 12 0.04
11 12 0.04
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:46145173 original size:52 final size:50
Alignment explanation
Indices: 46145086--46145429 Score: 269
Period size: 52 Copynumber: 6.6 Consensus size: 50
46145076 TATCTTAGAC
* * * *
46145086 AACTTACATAATACATAGCATACATAACTTCCATAATACAAAACTTACAT
1 AACTTACATAATACACAACTTACATAACTTACATAATACAAAACTTACAT
* * * *
46145136 AACTTAAATATCTTACACAACTTACATAACCTACATAATACATTTAACTTACAT
1 AACTTACATA--ATACACAACTTACATAACTTACATAATACA--AAACTTACAT
* * * * * *
46145190 AACTTATATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACAC
1 AACTTACATAATACACAACTTACATAACTTACATA--ATACAAAACTTACAT
* *
46145242 AACCTACATAATACATTTAACTTACATAACTTACATAATACATAATAACTTAC--
1 AACTTACATAATACA--CAACTTACATAACTTACATAATAC--AA-AACTTACAT
* * * *
46145295 AACTTACATAATACACAACTTACATAACTTATACACGTACATAACTTACAT
1 AACTTACATAATACACAACTTACATAACTTACATA-ATACAAAACTTACAT
* * * * * * *
46145346 AACTTATACACGTACATAACTTACATAACTTAAATATCTTACACAACTTACAT
1 AACTTACATA-ATACACAACTTACATAACTTACATA--ATACAAAACTTACAT
* * *
46145399 AGCTTACTTAATACATAACTTACATAACTTA
1 AACTTACATAATACACAACTTACATAACTTA
46145430 TACACGTACA
Statistics
Matches: 237, Mismatches: 41, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
49 7 0.03
50 10 0.04
51 25 0.11
52 113 0.48
53 34 0.14
54 41 0.17
55 7 0.03
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (50 bp):
AACTTACATAATACACAACTTACATAACTTACATAATACAAAACTTACAT
Found at i:46145201 original size:79 final size:77
Alignment explanation
Indices: 46145090--46145451 Score: 417
Period size: 79 Copynumber: 4.6 Consensus size: 77
46145080 TTAGACAACT
* * **
46145090 TACATAATACATAGCATACATAACTTCCATAATACAAAACTTACATAACTTAAATATCTTACACA
1 TACATAATACATAACTTACATAACTTATATAATACAAAACTTACATAACTTAAATATCTTACACA
46145155 ACTTACATAACC
66 ACTTACATAACC
46145167 TACATAATACATTTAACTTACATAACTTATATAATACAAAACTTACATAACTTAAATATCTTACA
1 TACATAATACA--TAACTTACATAACTTATATAATACAAAACTTACATAACTTAAATATCTTACA
*
46145232 CAACTTACACAACC
64 CAACTTACATAACC
* * *
46145246 TACATAATACATTTAACTTACATAACTTACATAATACATAATAACTTAC--AACTTACATA--AT
1 TACATAATACA--TAACTTACATAACTTATATAATAC--AA-AACTTACATAACTTAAATATCTT
*
46145307 ACACAACTTACATAACT
61 ACACAACTTACATAACC
* * * * * *
46145324 TATACACGTACATAACTTACATAACTTATACACGTACATAACTTACATAACTTAAATATCTTACA
1 TACATA-ATACATAACTTACATAACTTATATA-ATACAAAACTTACATAACTTAAATATCTTACA
* *
46145389 CAACTTACATAGCT
64 CAACTTACATAACC
* * * *
46145403 TACTTAATACATAACTTACATAACTTATACACGTACATAACTTACATAA
1 TACATAATACATAACTTACATAACTTATATA-ATACAAAACTTACATAA
46145452 TTTAGTTAAT
Statistics
Matches: 250, Mismatches: 24, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
75 7 0.03
76 1 0.00
77 38 0.15
78 65 0.26
79 121 0.48
80 9 0.04
81 2 0.01
82 7 0.03
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (77 bp):
TACATAATACATAACTTACATAACTTATATAATACAAAACTTACATAACTTAAATATCTTACACA
ACTTACATAACC
Found at i:46145209 original size:16 final size:16
Alignment explanation
Indices: 46145185--46145321 Score: 55
Period size: 16 Copynumber: 8.0 Consensus size: 16
46145175 ACATTTAACT
* *
46145185 TACATAACTTATATAA
1 TACAAAACTTACATAA
46145201 TACAAAACTTACATAA
1 TACAAAACTTACATAA
* *
46145217 CTTA-AATATCTTACACAA
1 --TACAA-AACTTACATAA
* *
46145235 CTTACACAACCTACATAA
1 --TACAAAACTTACATAA
*
46145253 TACATTTAACTTACATAA
1 TACA--AAACTTACATAA
*
46145271 CTTACATAA--TACATAA
1 --TACAAAACTTACATAA
*
46145287 TAACTTACAACTTACATAA
1 T-AC--AAAACTTACATAA
*
46145306 TACACAACTTACATAA
1 TACAAAACTTACATAA
46145322 CTTATACACG
Statistics
Matches: 97, Mismatches: 11, Indels: 26
0.72 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 2 0.02
16 38 0.39
17 5 0.05
18 38 0.39
19 9 0.09
20 4 0.04
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (16 bp):
TACAAAACTTACATAA
Found at i:46145302 original size:19 final size:19
Alignment explanation
Indices: 46145267--46145321 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
46145257 TTTAACTTAC
*
46145267 ATAACTTACATA-ATACATA
1 ATAACTTACA-ACTTACATA
46145286 ATAACTTACAACTTACATA
1 ATAACTTACAACTTACATA
46145305 AT-AC--ACAACTTACATA
1 ATAACTTACAACTTACATA
46145321 A
1 A
46145322 CTTATACACG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.38
18 3 0.09
19 18 0.53
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAACTTACAACTTACATA
Found at i:46145445 original size:130 final size:127
Alignment explanation
Indices: 46145118--46145451 Score: 282
Period size: 130 Copynumber: 2.6 Consensus size: 127
46145108 CATAACTTCC
* * * * * *
46145118 ATAATACA-AAACTTACATAACTTAAATATCTTAC-ACAACTTACATAACCTACATAATACATTT
1 ATAATACATCAACTTACATAACTTACATA--ATACAATAACTTAC--AACTTACACAATACA--T
* * *
46145181 AACTTACATAACTTATATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACACAACC
60 AACTTACATAACTTATACAATACAAAACTTACATAACTTAAACATCGTACACAACTTACACAACC
*
46145246 TAC
125 TAA
* * *
46145249 ATAATACATTTAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACACAAC
1 ATAATACA-TCAACTTACATAACTTACATAATAC--AATAACTTACAACTTACACAATACATAAC
* * * * * *
46145314 TTACATAACTTATACACGTACATAACTTACATAACTTATACA-CGTACATAACTTACATAACTTA
63 TTACATAACTTATACA-ATACAAAACTTACATAACTTAAACATCGTACACAACTTACACAACCTA
46145378 A
127 A
* * * * *
46145379 ATATCTTACA-CAACTTACATAGCTTACTTAATAC-ATAACTTACATAACTTATACACGTACATA
1 ATA--ATACATCAACTTACATAACTTACATAATACAATAACTTAC--AACTTACACA-ATACATA
46145442 ACTTACATAA
61 ACTTACATAA
46145452 TTTAGTTAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
127 9 0.05
129 8 0.05
130 75 0.45
131 32 0.19
132 18 0.11
133 18 0.11
134 8 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (127 bp):
ATAATACATCAACTTACATAACTTACATAATACAATAACTTACAACTTACACAATACATAACTTA
CATAACTTATACAATACAAAACTTACATAACTTAAACATCGTACACAACTTACACAACCTAA
Found at i:46145492 original size:104 final size:101
Alignment explanation
Indices: 46145084--46145451 Score: 307
Period size: 104 Copynumber: 3.5 Consensus size: 101
46145074 AATATCTTAG
* * * * * *
46145084 ACAACTTACATAATACATAGCATACATAACTTCCATA-A--TACAAAACTTACATAACTTAAATA
1 ACAACTTACATAATACACAACTTACATAACTT--ATACACGTACATAACTTACATAACTTATACA
* * * * *
46145146 TCTTACACAACTTACATAACCTACATA--ATACATTTAACTT
64 -C-TACATAACTTACATAACTTAAATATCTTACA--CAACTT
* * * * * * * * * *
46145186 ACATAACTTATATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACACAACCTACAT
1 AC--AACTTACATAATACACAACTTACATAACTTATACA-CGTACATAACTTACATAACTTATAC
* * * *
46145251 AATACATTTAACTTACATAACTTACATAATACATA-ATAACTT
63 ACTACA--TAACTTACATAACTTAAAT-AT-CTTACACAACTT
46145293 ACAACTTACATAATACACAACTTACATAACTTATACACGTACATAACTTACATAACTTATACACG
1 ACAACTTACATAATACACAACTTACATAACTTATACACGTACATAACTTACATAACTTATACAC-
46145358 TACATAACTTACATAACTTAAATATCTTACACAACTT
65 TACATAACTTACATAACTTAAATATCTTACACAACTT
* *
46145395 ACATAGCTTACTTAATACATAACTTACATAACTTATACACGTACATAACTTACATAA
1 ACA-A-CTTACATAATACACAACTTACATAACTTATACACGTACATAACTTACATAA
46145452 TTTAGTTAAT
Statistics
Matches: 222, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
101 3 0.01
102 15 0.07
103 20 0.09
104 99 0.45
105 35 0.16
106 37 0.17
107 9 0.04
109 1 0.00
110 3 0.01
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (101 bp):
ACAACTTACATAATACACAACTTACATAACTTATACACGTACATAACTTACATAACTTATACACT
ACATAACTTACATAACTTAAATATCTTACACAACTT
Found at i:46147199 original size:18 final size:18
Alignment explanation
Indices: 46147176--46147215 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
46147166 CCCATAGAAA
46147176 TATTATTGATATTAATAT
1 TATTATTGATATTAATAT
46147194 TATTATTGATATTAATAT
1 TATTATTGATATTAATAT
46147212 TATT
1 TATT
46147216 TTATTCGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTATTGATATTAATAT
Found at i:46154574 original size:23 final size:23
Alignment explanation
Indices: 46154531--46154574 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
46154521 AAATTAAAAT
*
46154531 TAAAATTAAATTGATATAATTTA
1 TAAAATTAAATTGATAAAATTTA
*
46154554 TAAATATTAAA-TGTTAAAATT
1 TAAA-ATTAAATTGATAAAATT
46154575 ACTATTATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
TAAAATTAAATTGATAAAATTTA
Found at i:46155443 original size:15 final size:15
Alignment explanation
Indices: 46155423--46155453 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46155413 AAAAAGATCG
46155423 TTTTATAAACTCCGA
1 TTTTATAAACTCCGA
46155438 TTTTATAAACTCCGA
1 TTTTATAAACTCCGA
46155453 T
1 T
46155454 GACTCTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TTTTATAAACTCCGA
Found at i:46156898 original size:35 final size:33
Alignment explanation
Indices: 46156829--46156899 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
46156819 AAGAAAATCA
**
46156829 ATAAAATTATAAAAATATAAAATATATATGTGT
1 ATAAAATTATAAAAATATAAAATATATACATGT
**
46156862 ATAAAATTATGGAAATATGAAAAATATATACATGT
1 ATAAAATTATAAAAATAT--AAAATATATACATGT
46156897 ATA
1 ATA
46156900 CATATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 16 0.50
35 16 0.50
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.34
Consensus pattern (33 bp):
ATAAAATTATAAAAATATAAAATATATACATGT
Found at i:46157008 original size:39 final size:39
Alignment explanation
Indices: 46156957--46157039 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
46156947 ATGTACATAC
* *
46156957 ATATATACGTATATAACTATCATAAAATATAAA-AAGTAT
1 ATATATACGTATATAACAACCATAAAATATAAAGAA-TAT
* **
46156996 ATATATAGGTATATATGAACCATAAAATATAAAGAATAT
1 ATATATACGTATATAACAACCATAAAATATAAAGAATAT
46157035 ATATA
1 ATATA
46157040 AAATATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (39 bp):
ATATATACGTATATAACAACCATAAAATATAAAGAATAT
Found at i:46157127 original size:12 final size:12
Alignment explanation
Indices: 46157110--46157139 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46157100 AAATGAAAAA
46157110 TATATAGATAGG
1 TATATAGATAGG
*
46157122 TATATAGATATG
1 TATATAGATAGG
46157134 TATATA
1 TATATA
46157140 AATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (12 bp):
TATATAGATAGG
Found at i:46158643 original size:43 final size:43
Alignment explanation
Indices: 46158595--46158678 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
46158585 TCAACTCCAC
* *
46158595 TGCACTTCAAAAAGTTACGACTTATAGCTTCAATCTACTCTAA
1 TGCACTTCAAAAAGATACGACTTATAGCTTCAATCCACTCTAA
* * * *
46158638 TGCACTTCAGAGAGATACGGCTTGTAGCTTCAATCCACTCT
1 TGCACTTCAAAAAGATACGACTTATAGCTTCAATCCACTCT
46158679 GCTGCAACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (43 bp):
TGCACTTCAAAAAGATACGACTTATAGCTTCAATCCACTCTAA
Found at i:46159136 original size:89 final size:89
Alignment explanation
Indices: 46158985--46159485 Score: 617
Period size: 89 Copynumber: 5.6 Consensus size: 89
46158975 CTGCAAACTA
* * ** *
46158985 TGGTGTCTTCGATCTACTTCACTGTCAGTACAGGAAGGTGAGATCTGTTATCTTCAATCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCC
* *
46159050 ACTGTCAGTACAGAAAGGTAAGGC
66 ACTGTCAATACAGAAAGGCAAGGC
* * * *
46159074 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTATTTTTAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCC
* *
46159139 GCTGTCAATACAGGAAGGCAAGGC
66 ACTGTCAATACAGAAAGGCAAGGC
* * *
46159163 CGGTGTCTTCAATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCC
* * *
46159228 GCTGTTAATACAGAAAGGCAAGAC
66 ACTGTCAATACAGAAAGGCAAGGC
* * * * * *
46159252 TAGTGTCTTTGATCTGCTTTGCTATCAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTTC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCC
*
46159317 ACTGTCCATACAGAAAGGCAAGGC
66 ACTGTCAATACAGAAAGGCAAGGC
* * *
46159341 TGGTGTCTTCGATTTTCTTCGCTGTCAGTACAGGAAGG-AATGATCTATTATCTTCAGTCTGCTC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAA-GATCTGTTATCTTCAGTCTGCTC
* * ** ** *
46159405 TACTGTAAACCCAGGGAGGTAAGGC
65 CACTGTCAATACAGAAAGGCAAGGC
* * * * *
46159430 TAGTGTCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGTAAGATCTGCTGTCTTCA
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCA
46159486 CTGATCTGTT
Statistics
Matches: 352, Mismatches: 58, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
88 2 0.01
89 348 0.99
90 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCC
ACTGTCAATACAGAAAGGCAAGGC
Found at i:46160693 original size:42 final size:42
Alignment explanation
Indices: 46160600--46160702 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
46160590 GCTCCCAATA
* * *
46160600 TGATCAAAATTTAAGCTACTCCGATCACCTCATGTCCCATTC
1 TGATCAAAATTTGAGCTGCTCCAATCACCTCATGTCCCATTC
* * * * *
46160642 CGATCAAAATTTGAGCTGCTCTAATCACCTTATGTCCTATTT
1 TGATCAAAATTTGAGCTGCTCCAATCACCTCATGTCCCATTC
*
46160684 TGATAAAAATTTGAGCTGC
1 TGATCAAAATTTGAGCTGC
46160703 CCTTTTCAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (42 bp):
TGATCAAAATTTGAGCTGCTCCAATCACCTCATGTCCCATTC
Found at i:46160795 original size:8 final size:8
Alignment explanation
Indices: 46160784--46160809 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
46160774 CATTTTTCAT
46160784 TTTTCTTC
1 TTTTCTTC
46160792 TTTTCTTC
1 TTTTCTTC
46160800 TTTTCTTC
1 TTTTCTTC
46160808 TT
1 TT
46160810 CTTTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCTTC
Found at i:46160943 original size:14 final size:15
Alignment explanation
Indices: 46160920--46160952 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46160910 ATCAACGCTT
*
46160920 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
46160934 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
46160949 TTCC
1 TTCC
46160953 CAGCTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:46163424 original size:51 final size:52
Alignment explanation
Indices: 46163325--46163429 Score: 160
Period size: 51 Copynumber: 2.0 Consensus size: 52
46163315 CGCTGAGGCC
*
46163325 TGATTGTGACAGAAGACCTGCGTGGGTGTACATCAGCTTGGGATTGTACATG
1 TGATTGTGACAGAAGACCTGCGTGGGTGTACATCAGCTTGGGACTGTACATG
* *
46163377 TGATTGTGACA-AAGGACCTGCGT-GGTGTACATCAGCTTGGGGCTGTACTTG
1 TGATTGTGACAGAA-GACCTGCGTGGGTGTACATCAGCTTGGGACTGTACATG
46163428 TG
1 TG
46163430 GAGAAGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 29 0.59
52 20 0.41
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (52 bp):
TGATTGTGACAGAAGACCTGCGTGGGTGTACATCAGCTTGGGACTGTACATG
Found at i:46166031 original size:39 final size:39
Alignment explanation
Indices: 46165980--46166062 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
46165970 ATGTACATAC
* *
46165980 ATATATACGTATATAACTATCATAAAATATAAA-AAGTAT
1 ATATATACGTATATAACAACCATAAAATATAAAGAA-TAT
* **
46166019 ATATATAGGTATATATGAACCATAAAATATAAAGAATAT
1 ATATATACGTATATAACAACCATAAAATATAAAGAATAT
46166058 ATATA
1 ATATA
46166063 AAATATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (39 bp):
ATATATACGTATATAACAACCATAAAATATAAAGAATAT
Found at i:46166280 original size:27 final size:27
Alignment explanation
Indices: 46166229--46166280 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46166219 AAATTATGCG
* *
46166229 CATGTATATATATATATGATAAAAACA
1 CATGTATATATATATATAACAAAAACA
* *
46166256 CATGTATGTATATATATAACGAAAA
1 CATGTATATATATATATAACAAAAA
46166281 TTTTGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.33
Consensus pattern (27 bp):
CATGTATATATATATATAACAAAAACA
Found at i:46167995 original size:39 final size:39
Alignment explanation
Indices: 46167944--46168026 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
46167934 ATGTACATAC
* *
46167944 ATATATACGTATATAACTATCATAAAATATAAA-AAGTAT
1 ATATATACGTATATAACAACCATAAAATATAAAGAA-TAT
* **
46167983 ATATATAGGTATATATGAACCATAAAATATAAAGAATAT
1 ATATATACGTATATAACAACCATAAAATATAAAGAATAT
46168022 ATATA
1 ATATA
46168027 AAATATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (39 bp):
ATATATACGTATATAACAACCATAAAATATAAAGAATAT
Found at i:46168244 original size:27 final size:27
Alignment explanation
Indices: 46168193--46168244 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46168183 AAATTATGCG
* *
46168193 CATGTATATATATATATGATAAAAACA
1 CATGTATATATATATATAACAAAAACA
* *
46168220 CATGTATGTATATATATAACGAAAA
1 CATGTATATATATATATAACAAAAA
46168245 TTTTGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.33
Consensus pattern (27 bp):
CATGTATATATATATATAACAAAAACA
Found at i:46174263 original size:19 final size:19
Alignment explanation
Indices: 46174239--46174275 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46174229 TAAATTTGCT
*
46174239 ATTATTATCATTATTATTA
1 ATTATTATCATTACTATTA
*
46174258 ATTATTATTATTACTATT
1 ATTATTATCATTACTATT
46174276 TACTCATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTATCATTACTATTA
Found at i:46179447 original size:40 final size:39
Alignment explanation
Indices: 46179403--46179505 Score: 145
Period size: 39 Copynumber: 2.6 Consensus size: 39
46179393 TGAGAATCGC
*
46179403 CGCTATAGGTAGATCATTAGCGGCACTT-TTTAAAAAATGT
1 CGCTATAGGT-GACCATTAGCGGCACTTCTTT-AAAAATGT
* *
46179443 CGCTATAGATGAGCATTAGCGGCACTTCTTTAAAAATGT
1 CGCTATAGGTGACCATTAGCGGCACTTCTTTAAAAATGT
46179482 CGCTATAGGTCGACCATTAGCGGC
1 CGCTATAGGT-GACCATTAGCGGC
46179506 GCTTGTTGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (39 bp):
CGCTATAGGTGACCATTAGCGGCACTTCTTTAAAAATGT
Found at i:46179464 original size:39 final size:39
Alignment explanation
Indices: 46179338--46179505 Score: 144
Period size: 39 Copynumber: 4.3 Consensus size: 39
46179328 AGCTTTACTG
* * *
46179338 GCATTAGCGGCGCGTTTTAAAAACGCCGCTATAGAT-GA
1 GCATTAGCGGCACTTTTTAAAAATGCCGCTATAGATAGA
* * * * * *
46179376 GAATTAGC-GAAGCTTCTTGAGAATCGCCGCTATAGGTAGA
1 GCATTAGCGGCA-CTTTTTAAAAAT-GCCGCTATAGATAGA
* *
46179416 TCATTAGCGGCACTTTTTAAAAAATGTCGCTATAGAT-GA
1 GCATTAGCGGCACTTTTT-AAAAATGCCGCTATAGATAGA
* * *
46179455 GCATTAGCGGCACTTCTTTAAAAATGTCGCTATAGGTCGA
1 GCATTAGCGGCACTT-TTTAAAAATGCCGCTATAGATAGA
*
46179495 CCATTAGCGGC
1 GCATTAGCGGC
46179506 GCTTGTTGAG
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
37 1 0.01
38 14 0.14
39 44 0.43
40 38 0.37
41 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (39 bp):
GCATTAGCGGCACTTTTTAAAAATGCCGCTATAGATAGA
Found at i:46179471 original size:79 final size:78
Alignment explanation
Indices: 46179339--46179505 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 78
46179329 GCTTTACTGG
* * *
46179339 CATTAGCGGCGCGTTTTAAAAACGCCGCTATAGATGAGAATTAGCGAAGCTTC-TTGAGAATCGC
1 CATTAGCGGCACGTTTTAAAAACGCCGCTATAGATGAGAATTAGCGAAGCTTCTTTAAAAAT-GC
*
46179403 CGCTATAGGTAGAT
65 CGCTATAGGTAGAC
* * * * *
46179417 CATTAGCGGCACTTTTTAAAAAATGTCGCTATAGATGAGCATTAGCGGCA-CTTCTTTAAAAATG
1 CATTAGCGGCACGTTTT-AAAAACGCCGCTATAGATGAGAATTAGC-GAAGCTTCTTTAAAAATG
* *
46179481 TCGCTATAGGTCGAC
64 CCGCTATAGGTAGAC
46179496 CATTAGCGGC
1 CATTAGCGGC
46179506 GCTTGTTGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
78 15 0.20
79 52 0.69
80 8 0.11
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (78 bp):
CATTAGCGGCACGTTTTAAAAACGCCGCTATAGATGAGAATTAGCGAAGCTTCTTTAAAAATGCC
GCTATAGGTAGAC
Found at i:46179669 original size:116 final size:115
Alignment explanation
Indices: 46179482--46179701 Score: 289
Period size: 116 Copynumber: 1.9 Consensus size: 115
46179472 TTAAAAATGT
* * * * * *
46179482 CGCTATAGGTCGACCATTAGCGGCGCTTGTTGAGAAACACCGCAAAAAGTTTAAGCACAACGACA
1 CGCTATAGATCGACCATTAGCGGCGCTTCTTGAAAAACACCACAAAAAGATGAAGCACAACGACA
*
46179547 TTGTTTTATATTGAGCTTTTAGTGGCATTAACGGTGCTTTCCTGAAAACGC
66 TCGTTTTATATTGAGC-TTTAGTGGCATTAACGGTGCTTTCCTGAAAACGC
* * * *
46179598 CGCTATAGATTGACCATTAGCGGTGCTTCTTGAAAAACACCACAAGAAA-ATGAAGCACAATGCC
1 CGCTATAGATCGACCATTAGCGGCGCTTCTTGAAAAACACCACAA-AAAGATGAAGCACAACGAC
* * *
46179662 GTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGTGCTTT
65 ATCGTTTTATATTGAGCTTTAGTGGCATTAACGGTGCTTT
46179702 GTCAGAAACA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
115 22 0.25
116 64 0.72
117 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (115 bp):
CGCTATAGATCGACCATTAGCGGCGCTTCTTGAAAAACACCACAAAAAGATGAAGCACAACGACA
TCGTTTTATATTGAGCTTTAGTGGCATTAACGGTGCTTTCCTGAAAACGC
Found at i:46180018 original size:7 final size:7
Alignment explanation
Indices: 46180008--46180188 Score: 62
Period size: 7 Copynumber: 25.7 Consensus size: 7
46179998 AATATGTATA
46180008 TTTAGGG
1 TTTAGGG
* *
46180015 TTTATGA
1 TTTAGGG
*
46180022 TGTA-GG
1 TTTAGGG
*
46180028 TTTATGG
1 TTTAGGG
*
46180035 TTTGGGG
1 TTTAGGG
*
46180042 TTTGGGG
1 TTTAGGG
**
46180049 TTTAAAG
1 TTTAGGG
*
46180056 TGTAGGG
1 TTTAGGG
* *
46180063 TTTATGA
1 TTTAGGG
*
46180070 TCTAGGG
1 TTTAGGG
*
46180077 TGTA-GG
1 TTTAGGG
*
46180083 TTTATGG
1 TTTAGGG
*
46180090 TTTAGTG
1 TTTAGGG
*
46180097 TTTAGTG
1 TTTAGGG
*
46180104 TTTATGG
1 TTTAGGG
*
46180111 TTTAAGGT
1 TTT-AGGG
*
46180119 TTTAGGT
1 TTTAGGG
46180126 TTTAAGGG
1 TTT-AGGG
46180134 -TTAGCGG
1 TTTAG-GG
* *
46180141 CTTATGG
1 TTTAGGG
*
46180148 TTTAGAG
1 TTTAGGG
*
46180155 ATTAGGGG
1 TTTA-GGG
* *
46180163 CTTATGG
1 TTTAGGG
* *
46180170 TCTAAGG
1 TTTAGGG
46180177 TTTAGGG
1 TTTAGGG
46180184 TTTAG
1 TTTAG
46180189 CTAAAATCAT
Statistics
Matches: 126, Mismatches: 41, Indels: 14
0.70 0.23 0.08
Matches are distributed among these distances:
6 11 0.09
7 99 0.79
8 16 0.13
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:46180181 original size:22 final size:21
Alignment explanation
Indices: 46180127--46180183 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
46180117 GTTTTAGGTT
* *
46180127 TTAAGGGTTAGCGGCTTATGG
1 TTAAGGATTAGGGGCTTATGG
*
46180148 TTTAGAGATTAGGGGCTTATGG
1 TTAAG-GATTAGGGGCTTATGG
*
46180170 TCTAAGGTTTAGGG
1 T-TAAGGATTAGGG
46180184 TTTAGCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 22 0.76
23 3 0.10
ACGTcount: A:0.21, C:0.07, G:0.37, T:0.35
Consensus pattern (21 bp):
TTAAGGATTAGGGGCTTATGG
Found at i:46180617 original size:23 final size:22
Alignment explanation
Indices: 46180591--46180668 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
46180581 CCCACTCAGC
*
46180591 TTTCCTCGATTTCATTTCCCCAA
1 TTTCC-CGAATTCATTTCCCCAA
*
46180614 TTTCCC-AATTCCTTCTCCCCCAA
1 TTTCCCGAATTCATT-T-CCCCAA
*
46180637 TTTCTTCCCCGAGTTCATTTCCCCAA
1 --T-TT-CCCGAATTCATTTCCCCAA
46180663 TTTCCC
1 TTTCCC
46180669 AACTGACCTG
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
21 6 0.14
22 5 0.11
23 13 0.30
24 1 0.02
25 1 0.02
26 8 0.18
27 4 0.09
28 6 0.14
ACGTcount: A:0.15, C:0.41, G:0.04, T:0.40
Consensus pattern (22 bp):
TTTCCCGAATTCATTTCCCCAA
Found at i:46181919 original size:31 final size:32
Alignment explanation
Indices: 46181844--46181938 Score: 138
Period size: 34 Copynumber: 2.9 Consensus size: 32
46181834 GTTCAGAATT
*
46181844 TTTTGCAAGATGTTCTTACATCAAATTCTTTAG
1 TTTTGCAAGATGTTCTTACATCAAA-TCTATAG
46181877 TTTCTGCAAGATGTTCTTACATCAAATCTATAG
1 TTT-TGCAAGATGTTCTTACATCAAATCTATAG
*
46181910 -TTTGCAAGATGTTCTTACAACAAAATCTA
1 TTTTGCAAGATGTTCTTACATC-AAATCTA
46181939 ACTAGTCGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
31 18 0.31
32 9 0.16
33 9 0.16
34 22 0.38
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (32 bp):
TTTTGCAAGATGTTCTTACATCAAATCTATAG
Found at i:46182114 original size:28 final size:29
Alignment explanation
Indices: 46182074--46182186 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 29
46182064 TTTTATTCGG
*
46182074 TTTAATGTAAATAAATTATTAATTTTCAA
1 TTTAATGTGAATAAATTATTAATTTTCAA
*
46182103 TTTAAT-TGAATAAATTATGTTTGATTAGTTTATTCAG
1 TTTAATGTGAATAAATTA---TT-A--A--TT-TTCAA
** *
46182140 TTTAATGTGAATAAATTATCGATTTTTAA
1 TTTAATGTGAATAAATTATTAATTTTCAA
46182169 TTTAAT-TGAATAAATTAT
1 TTTAATGTGAATAAATTAT
46182187 GTTTCATTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
28 22 0.32
29 15 0.22
30 2 0.03
31 2 0.03
32 2 0.03
34 1 0.01
35 1 0.01
36 2 0.03
37 10 0.15
38 11 0.16
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (29 bp):
TTTAATGTGAATAAATTATTAATTTTCAA
Found at i:46182116 original size:66 final size:66
Alignment explanation
Indices: 46182029--46182201 Score: 258
Period size: 66 Copynumber: 2.6 Consensus size: 66
46182019 TATTTAATTG
* * *
46182029 AATTTTTAA-TTAATTGAATAAATTATGTTTTATTATTTTATTCGGTTTAATGTAAATAAATTAT
1 AATTTTTAATTTAATTGAATAAATTATGTTTCATTAATTTATTCAGTTTAATGTAAATAAATTAT
*
46182093 T
66 C
* * * *
46182094 AATTTTCAATTTAATTGAATAAATTATGTTTGATTAGTTTATTCAGTTTAATGTGAATAAATTAT
1 AATTTTTAATTTAATTGAATAAATTATGTTTCATTAATTTATTCAGTTTAATGTAAATAAATTAT
46182159 C
66 C
*
46182160 GATTTTTAATTTAATTGAATAAATTATGTTTCATTAATTTAT
1 AATTTTTAATTTAATTGAATAAATTATGTTTCATTAATTTAT
46182202 CAATTTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 8 0.08
66 89 0.92
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (66 bp):
AATTTTTAATTTAATTGAATAAATTATGTTTCATTAATTTATTCAGTTTAATGTAAATAAATTAT
C
Found at i:46182613 original size:9 final size:9
Alignment explanation
Indices: 46182596--46183174 Score: 251
Period size: 9 Copynumber: 64.9 Consensus size: 9
46182586 AATTTAATAT
*
46182596 ATAATTTAC
1 ATAACTTAC
46182605 ATAACTTAC
1 ATAACTTAC
46182614 ATAACTTA-
1 ATAACTTAC
46182622 ATAACTTAC
1 ATAACTTAC
46182631 ATAA--TAC
1 ATAACTTAC
* *
46182638 ATAAATTAATAT
1 AT-AACT--TAC
*
46182650 ATAATTTAC
1 ATAACTTAC
*
46182659 ATAACTCAC
1 ATAACTTAC
46182668 ATAACTTA-
1 ATAACTTAC
46182676 ATAACTTAC
1 ATAACTTAC
46182685 ATAA--TAC
1 ATAACTTAC
* *
46182692 ATAAATTAATAT
1 AT-AACT--TAC
*
46182704 ATAATTTAC
1 ATAACTTAC
*
46182713 ATAACTCAC
1 ATAACTTAC
*
46182722 ATAACTTAT
1 ATAACTTAC
*
46182731 AAAACTTA-
1 ATAACTTAC
46182739 ATAACTTAC
1 ATAACTTAC
46182748 ATAA--TAC
1 ATAACTTAC
* *
46182755 ATAAATTAATAT
1 AT-AACT--TAC
*
46182767 ATAATTTAC
1 ATAACTTAC
*
46182776 ATAACTCAC
1 ATAACTTAC
*
46182785 ATAACTTAT
1 ATAACTTAC
*
46182794 AAAACTTA-
1 ATAACTTAC
46182802 ATAACTTAC
1 ATAACTTAC
46182811 ATAA--TAC
1 ATAACTTAC
* *
46182818 ATAA-ATAT
1 ATAACTTAC
* * *
46182826 ATATCATATT
1 ATAACTTA-C
*
46182836 ATAACTCAC
1 ATAACTTAC
46182845 ATAACTTAC
1 ATAACTTAC
46182854 ATAACTTAC
1 ATAACTTAC
*
46182863 ATAACTT-T
1 ATAACTTAC
*
46182871 ATATCTTATC
1 ATAACTTA-C
* *
46182881 AAAACATAC
1 ATAACTTAC
46182890 ATAACTTAC
1 ATAACTTAC
*
46182899 ATAATTTTTA-
1 ATAA--CTTAC
** *
46182909 AGT-GTTTGC
1 A-TAACTTAC
*
46182918 TTAACTTAC
1 ATAACTTAC
46182927 ATAACTTA-
1 ATAACTTAC
*
46182935 ATATCTTAC
1 ATAACTTAC
46182944 ATAA--TAC
1 ATAACTTAC
* *
46182951 ATAA-ATAT
1 ATAACTTAC
* *
46182959 ATATCATATC
1 ATAACTTA-C
*
46182969 ATAACTCAC
1 ATAACTTAC
46182978 ATAACTTAC
1 ATAACTTAC
46182987 ATAACTTAC
1 ATAACTTAC
46182996 ATAA--TAC
1 ATAACTTAC
* *
46183003 ATAA-ATAT
1 ATAACTTAC
* *
46183011 ATATCATATC
1 ATAACTTA-C
*
46183021 AAAACTTAC
1 ATAACTTAC
*
46183030 ATAATTTAC
1 ATAACTTAC
*
46183039 ATAATTTAC
1 ATAACTTAC
*
46183048 ATAACTCAC
1 ATAACTTAC
46183057 ATAACTTAC
1 ATAACTTAC
46183066 ATAACTTA-
1 ATAACTTAC
*
46183074 ATAACTTAT
1 ATAACTTAC
* *
46183083 ATGTATCATATC
1 A--TAACTTA-C
46183095 ATAACTTAC
1 ATAACTTAC
**
46183104 ATAACACAC
1 ATAACTTAC
*
46183113 A-AATTTCAGAC
1 ATAACTT---AC
46183124 ATAACTTAC
1 ATAACTTAC
46183133 ATAA--TAC
1 ATAACTTAC
* *
46183140 ATAA-ATAT
1 ATAACTTAC
* *
46183148 ATATCATATC
1 ATAACTTA-C
46183158 ATAACTTAC
1 ATAACTTAC
46183167 ATAACTTA
1 ATAACTTA
46183175 ATTATACTTG
Statistics
Matches: 442, Mismatches: 81, Indels: 94
0.72 0.13 0.15
Matches are distributed among these distances:
7 43 0.10
8 83 0.19
9 242 0.55
10 33 0.07
11 24 0.05
12 17 0.04
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:46182724 original size:63 final size:63
Alignment explanation
Indices: 46182601--46183174 Score: 435
Period size: 63 Copynumber: 9.2 Consensus size: 63
46182591 AATATATAAT
46182601 TTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACAT-A-
1 TTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
46182662 --AC-T--C--ACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
1 TTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
* * *
46182718 TCACATAACTTATAAAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
1 TTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
* * * * *
46182781 TCACATAACTTATAAAACTTAATAACTTACATAATACATAAATATATATCATATTATAACTCACA
1 TTACATAACTTACATAACTTAATAACTTACATAATACAT-AA-AT-TA--ATA-TATAATTTACA
46182846 TAAC
60 TAAC
* * * * *
46182850 TTACATAACTTACATAACTTTATATCTTATCAAAACATACATAACTTACATA-AT-TTTTA-AGT
1 TTACATAACTTACATAACTTAATAACTTA-C-ATA-ATACATAAATTA-ATATATAATTTACA-T
**
46182912 -GT
61 AAC
* * * * *
46182914 TTGCTTAACTTACATAACTTAATATCTTACATAATACATAAA-T-ATATATCATAT-CATAAC
1 TTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
* * * * * * *
46182974 TCACATAACTTACATAACTTACATAA--TACATAA-ATATATA-TCATATCAAAACTTACATAAT
1 TTACATAACTTACATAACTTA-ATAACTTACATAATACATAAATTAATAT-ATAATTTACATAAC
* * * * * *
46183035 TTACATAATTTACATAACTCACATAACTTACATAACTTA-ATAACTTATATGTATCATAT-CATA
1 TTACATAACTTACATAACTTA-ATAACTTACATAA--TACATAAATTA-ATATATAATTTACATA
46183098 AC
62 AC
** * * *
46183100 TTACATAACACACA-AATTTCAGACATAACTTACATAATACATAAA-T-ATATATCATAT-CATA
1 TTACATAACTTACATAACTT---A-ATAACTTACATAATACATAAATTAATATATAATTTACATA
46183161 AC
62 AC
46183163 TTACATAACTTA
1 TTACATAACTTA
46183175 ATTATACTTG
Statistics
Matches: 418, Mismatches: 57, Indels: 74
0.76 0.10 0.13
Matches are distributed among these distances:
54 49 0.12
55 1 0.00
56 1 0.00
58 12 0.03
59 17 0.04
60 25 0.06
61 40 0.10
62 2 0.00
63 123 0.29
64 32 0.08
65 27 0.06
66 13 0.03
67 18 0.04
68 7 0.02
69 39 0.09
70 2 0.00
71 4 0.01
72 6 0.01
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (63 bp):
TTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTACATAAC
Found at i:46182950 original size:133 final size:138
Alignment explanation
Indices: 46182786--46183045 Score: 404
Period size: 133 Copynumber: 1.9 Consensus size: 138
46182776 ATAACTCACA
* *
46182786 TAACTTATAAAACTTAATAACTTACATAATACATAAATATATATCATATTATAACTCACATAACT
1 TAACTTACAAAACTTAATAACTTACATAATACATAAATATATATCATATCATAACTCACATAACT
*
46182851 TACATAACTTACAT-A-AC-T-T-TATATCTTATCAAAACATACATAACTTACATAATTTTTAAG
66 TACATAACTTACATAATACATATATATATCATATCAAAACATACATAACTTACATAATTTTTAAG
46182911 TGTTTGCT
131 TGTTTGCT
* *
46182919 TAACTTACATAACTTAATATCTTACATAATACATAAATATATATCATATCATAACTCACATAACT
1 TAACTTACAAAACTTAATAACTTACATAATACATAAATATATATCATATCATAACTCACATAACT
* *
46182984 TACATAACTTACATAATACATAAATATATATCATATCAAAACTTACATAATTTACATAATTT
66 TACATAACTTACATAATACAT--ATATATATCATATCAAAACATACATAACTTACATAATTT
46183046 ACATAACTCA
Statistics
Matches: 113, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
133 75 0.66
134 1 0.01
135 2 0.02
136 1 0.01
139 1 0.01
140 33 0.29
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (138 bp):
TAACTTACAAAACTTAATAACTTACATAATACATAAATATATATCATATCATAACTCACATAACT
TACATAACTTACATAATACATATATATATCATATCAAAACATACATAACTTACATAATTTTTAAG
TGTTTGCT
Found at i:46182998 original size:52 final size:52
Alignment explanation
Indices: 46182919--46183060 Score: 214
Period size: 52 Copynumber: 2.7 Consensus size: 52
46182909 AGTGTTTGCT
*
46182919 TAACTTACATAACTTA-ATATCTTACATAATACATAAATATATATCATATCA
1 TAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
*
46182970 TAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
1 TAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
* * *
46183022 AAACTTACATAATTTACATAATTTACATAACTCACATAA
1 TAACTTACATAACTTACATAACTTACATAA-T-ACATAA
46183061 CTTACATAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
51 15 0.18
52 60 0.73
53 1 0.01
54 6 0.07
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.35
Consensus pattern (52 bp):
TAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
Found at i:46188707 original size:21 final size:21
Alignment explanation
Indices: 46188683--46188722 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46188673 AAGCAAAGAC
46188683 AGCAACGAGGGAAACAGAGGT
1 AGCAACGAGGGAAACAGAGGT
* *
46188704 AGCAGCGAGGGAAGCAGAG
1 AGCAACGAGGGAAACAGAG
46188723 CAGAGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.15, G:0.42, T:0.03
Consensus pattern (21 bp):
AGCAACGAGGGAAACAGAGGT
Found at i:46189065 original size:42 final size:43
Alignment explanation
Indices: 46189018--46189107 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
46189008 TCTACCAAAG
* * * *
46189018 TTAGCAACGTTTGTGAAA-AAGCGCCGTTAAAGATGATGTTCT
1 TTAGCAACGTTTGTAAAATAAGCACCGCTAAAGATCATGTTCT
* *
46189060 TTAGCAGCGTTTGTAAAATAAGCACCGCTAAAGGTCATGTTCT
1 TTAGCAACGTTTGTAAAATAAGCACCGCTAAAGATCATGTTCT
46189103 TTAGC
1 TTAGC
46189108 GGTGCTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 16 0.39
43 25 0.61
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
TTAGCAACGTTTGTAAAATAAGCACCGCTAAAGATCATGTTCT
Found at i:46189220 original size:43 final size:43
Alignment explanation
Indices: 46189173--46189322 Score: 201
Period size: 43 Copynumber: 3.5 Consensus size: 43
46189163 AAAAATGCCA
*
46189173 CTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAAAGCGCTG
1 CTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAAAGCGCCG
* * * ** *
46189216 CTAAAGGACATGGCCTTTAGCGGTGTTTGTTACCAAAGCGCCA
1 CTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAAAGCGCCG
* * *
46189259 CTAAAGAATATAACCTTTAGCGGCGTTTGTTATGAAAGCACCG
1 CTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAAAGCGCCG
*
46189302 CTAAAGAACATGACATTTAGC
1 CTAAAGAACATGACCTTTAGC
46189323 AGTATTGATT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAAAGCGCCG
Found at i:46189235 original size:86 final size:86
Alignment explanation
Indices: 46189145--46189324 Score: 209
Period size: 86 Copynumber: 2.1 Consensus size: 86
46189135 GATGATGTTT
* *
46189145 TTTAGCAGCGCCTTAATA-AAAAATGCCACTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAA
1 TTTAGCAGCG-CTTAATACAAAAACGCCACTAAAGAACATAACCTTTAGCGGCGTTTGTTATGAA
* * * * *
46189209 AGCGCTGCTAAAGGACATGGCC
65 AGCACCGCTAAAGAACATGACA
* * * ** * * *
46189231 TTTAGCGGTGTTTGTTACCAAAGCGCCACTAAAGAATATAACCTTTAGCGGCGTTTGTTATGAAA
1 TTTAGCAGCGCTTAATACAAAAACGCCACTAAAGAACATAACCTTTAGCGGCGTTTGTTATGAAA
46189296 GCACCGCTAAAGAACATGACA
66 GCACCGCTAAAGAACATGACA
46189317 TTTAGCAG
1 TTTAGCAG
46189325 TATTGATTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
85 4 0.05
86 73 0.95
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (86 bp):
TTTAGCAGCGCTTAATACAAAAACGCCACTAAAGAACATAACCTTTAGCGGCGTTTGTTATGAAA
GCACCGCTAAAGAACATGACA
Found at i:46197795 original size:24 final size:24
Alignment explanation
Indices: 46197739--46197784 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46197729 AAGCCTAATT
*
46197739 CTAATTAATGTAAAATATATTATG
1 CTAATAAATGTAAAATATATTATG
*
46197763 CTAATAAATGTTAAATATATTA
1 CTAATAAATGTAAAATATATTA
46197785 GACTACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
CTAATAAATGTAAAATATATTATG
Found at i:46198014 original size:24 final size:24
Alignment explanation
Indices: 46197987--46198033 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
46197977 CATACTAAAT
46197987 GTTTTAAATATTTTTAAAAAGTTA
1 GTTTTAAATATTTTTAAAAAGTTA
46198011 GTTTTAAATATTTTTAAAAAGTT
1 GTTTTAAATATTTTTAAAAAGTT
46198034 TATTGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (24 bp):
GTTTTAAATATTTTTAAAAAGTTA
Found at i:46200579 original size:111 final size:111
Alignment explanation
Indices: 46200385--46200607 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
46200375 AATTCTAAGA
* *
46200385 TCATTTGAATTTATCATTGTGAGCAAAGCTTTGCTCTTTTAGTTTATTTATTTGTCATCCTACCA
1 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
*
46200450 TCATCAAATCTTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
66 TCATCAAATATTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
46200496 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
1 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
* * *
46200561 TCATTAAATATTGATTGTAGTTAAAATGTCACTATATTTAGTAAAT
66 TCATCAAATATTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
46200607 T
1 T
46200608 AAAATTTTTG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (111 bp):
TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
TCATCAAATATTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
Found at i:46202253 original size:16 final size:16
Alignment explanation
Indices: 46202232--46202265 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46202222 TATTGTACAT
* *
46202232 ATATATATGTATTTGA
1 ATATATACGTATATGA
46202248 ATATATACGTATATGA
1 ATATATACGTATATGA
46202264 AT
1 AT
46202266 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:46202681 original size:18 final size:20
Alignment explanation
Indices: 46202641--46202681 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
46202631 ACTATACATC
* *
46202641 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
46202661 AAGGTT-TTTT-TTGAATAA
1 AAGGTTATTTTCTTGAATAA
46202679 AAG
1 AAG
46202682 CATTATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:46203799 original size:16 final size:16
Alignment explanation
Indices: 46203778--46203812 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46203768 TTGTGTTTTG
*
46203778 TTTTGACTGCATGACA
1 TTTTGACTGCATAACA
*
46203794 TTTTGACTTCATAACA
1 TTTTGACTGCATAACA
46203810 TTT
1 TTT
46203813 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (16 bp):
TTTTGACTGCATAACA
Found at i:46204318 original size:19 final size:20
Alignment explanation
Indices: 46204279--46204318 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46204269 TCTTTAGGCC
* *
46204279 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
46204299 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
46204318 T
1 T
46204319 AGACACCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:46208633 original size:89 final size:89
Alignment explanation
Indices: 46208476--46209080 Score: 868
Period size: 89 Copynumber: 6.8 Consensus size: 89
46208466 CGGATCCTGT
* * * *
46208476 CTTCCTATACTGGTGGCGAAGTAGGTCAAAGAAAGCAGATATTGTCTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
* *
46208541 TAGATCAGAGATACCAGATCTTGC
66 TAGATCAAAGATAACAGATCTTGC
* * * ** * *
46208565 CTTCTCATACTGGTGGCGAAGCAGGTAAAAGAAAGCAGATCTTGTCTTCATGTACTGGCATAAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
* *
46208630 TAGATCAAAGATACCAGATCTTGT
66 TAGATCAAAGATAACAGATCTTGC
* * *
46208654 CTTCCCATACTGGTGGCGAAGTAGGTCAAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
*
46208719 TAGATCAAAGATAATAGATCTTGC
66 TAGATCAAAGATAACAGATCTTGC
* * * *
46208743 CTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAACGGATCTTGTGTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
*
46208808 TAGATCAAAGATAATAGATCTTGC
66 TAGATCAAAGATAACAGATCTTGC
* * * *
46208832 CTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAACGGATCTTGTGTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
*
46208897 TAGATCAAAGATAATAGATCTTGC
66 TAGATCAAAGATAACAGATCTTGC
* ** *
46208921 CTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAATAGATCTTGTCTTCATGTACTGGCATGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
*
46208986 TAGATCAAAGAAAACAGATCTTGC
66 TAGATCAAAGATAACAGATCTTGC
* * * *
46209010 CTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAGCAGATATTGTCTTCATGTATTGGCATGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
46209075 TAGATC
66 TAGATC
46209081 GAAAAAATAA
Statistics
Matches: 477, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 477 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (89 bp):
CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
TAGATCAAAGATAACAGATCTTGC
Found at i:46210712 original size:16 final size:16
Alignment explanation
Indices: 46210691--46210724 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46210681 TATTGTACAT
* *
46210691 ATATATATGTATTTGA
1 ATATATACGTATATGA
46210707 ATATATACGTATATGA
1 ATATATACGTATATGA
46210723 AT
1 AT
46210725 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:46211139 original size:20 final size:20
Alignment explanation
Indices: 46211097--46211139 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
46211087 ACTATACATC
* *
46211097 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
* *
46211117 AAGGTTTTTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
46211137 AAG
1 AAG
46211140 CATTATTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:46220388 original size:21 final size:21
Alignment explanation
Indices: 46220362--46220429 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
46220352 TTCTGTCCTG
46220362 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
46220383 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
46220404 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
46220425 CTCTG
1 CTCTG
46220430 ATTTAAGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.03, C:0.44, G:0.19, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:46220799 original size:7 final size:7
Alignment explanation
Indices: 46220789--46220830 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
46220779 TAACTAAACC
46220789 CTAATAT
1 CTAATAT
46220796 CTAATAT
1 CTAATAT
*
46220803 C-AATAC
1 CTAATAT
*
46220809 CAAATAT
1 CTAATAT
46220816 CTAATAT
1 CTAATAT
46220823 CTAATAT
1 CTAATAT
46220830 C
1 C
46220831 AAATTCACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (7 bp):
CTAATAT
Found at i:46220816 original size:20 final size:21
Alignment explanation
Indices: 46220791--46220834 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
46220781 ACTAAACCCT
46220791 AATATCTAATATC-AATACCA
1 AATATCTAATATCTAATACCA
*
46220811 AATATCTAATATCTAATATCA
1 AATATCTAATATCTAATACCA
46220832 AAT
1 AAT
46220835 TCACATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATCTAATATCTAATACCA
Found at i:46220891 original size:7 final size:7
Alignment explanation
Indices: 46220879--46220920 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
46220869 TAATCACAGC
46220879 CTAATAT
1 CTAATAT
46220886 CTAATAT
1 CTAATAT
*
46220893 C-AATAC
1 CTAATAT
*
46220899 CAAATAT
1 CTAATAT
*
46220906 CTAAAAT
1 CTAATAT
46220913 CTAATAT
1 CTAATAT
46220920 C
1 C
46220921 AAATTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (7 bp):
CTAATAT
Found at i:46220904 original size:20 final size:21
Alignment explanation
Indices: 46220881--46220924 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46220871 ATCACAGCCT
*
46220881 AATATCTAATATC-AATACCA
1 AATATCTAAAATCTAATACCA
*
46220901 AATATCTAAAATCTAATATCA
1 AATATCTAAAATCTAATACCA
46220922 AAT
1 AAT
46220925 TCACATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATCTAAAATCTAATACCA
Found at i:46220917 original size:90 final size:90
Alignment explanation
Indices: 46220764--46220951 Score: 306
Period size: 90 Copynumber: 2.1 Consensus size: 90
46220754 AAAATGCAGA
* *
46220764 ACAGTAGCAAACATTTAACTAAACCCTAATATCTAATATCAATACCAAATATCTAATATCTAATA
1 ACAGTAGCAAACATGTAACTAAACCCTAATATCTAATATCAATACCAAATATCTAAAATCTAATA
* *
46220829 TCAAATTCACATCAAAGAACATTTG
66 TCAAATTCACATAAAAAAACATTTG
* *
46220854 ACAGTAGCAAACATGTAA-TCACAGCCTAATATCTAATATCAATACCAAATATCTAAAATCTAAT
1 ACAGTAGCAAACATGTAACT-AAACCCTAATATCTAATATCAATACCAAATATCTAAAATCTAAT
46220918 ATCAAATTCACATAAAAAAACATTTG
65 ATCAAATTCACATAAAAAAACATTTG
46220944 ACAGTAGC
1 ACAGTAGC
46220952 CTAAAGTTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 1 0.01
90 90 0.99
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (90 bp):
ACAGTAGCAAACATGTAACTAAACCCTAATATCTAATATCAATACCAAATATCTAAAATCTAATA
TCAAATTCACATAAAAAAACATTTG
Found at i:46221212 original size:7 final size:7
Alignment explanation
Indices: 46221200--46221241 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
46221190 TAATCACAGC
46221200 CTAATAT
1 CTAATAT
46221207 CTAATAT
1 CTAATAT
**
46221214 C-AATGC
1 CTAATAT
*
46221220 CAAATAT
1 CTAATAT
46221227 CTAATAT
1 CTAATAT
46221234 CTAATAT
1 CTAATAT
46221241 C
1 C
46221242 AAATTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (7 bp):
CTAATAT
Found at i:46222200 original size:84 final size:83
Alignment explanation
Indices: 46222059--46222309 Score: 369
Period size: 84 Copynumber: 3.0 Consensus size: 83
46222049 TAGTTCACTT
* * *
46222059 TTGCGGCGTTTTCCTAAAAATCGCCACTATTAGATTTTTTTCCAGTATAGAAACGGCGCCGCATT
1 TTGCGGCGTTTTCTTAAAAA-CGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATT
46222124 GGGAAAATTTAATAAATCA
65 GGGAAAATTTAATAAATCA
*
46222143 TTGCGGCGTTTTCTTACAAAACGCCACTATCAAATTTTTTTCCAGTACAGAAACGGCGCCGCATT
1 TTGCGGCGTTTTCTTA-AAAACGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATT
*
46222208 GGGAAAATTTAATAAATCT
65 GGGAAAATTTAATAAATCA
* * * *
46222227 TTGCGGCGTTTTCTTAAAAAATGCCACTATCAGATTTTATTCCAGTACAGAAACGACGCCTCATT
1 TTGCGGCGTTTTCTT-AAAAACGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATT
*
46222292 GGCAAAATGTTAA-AAATC
65 GGGAAAAT-TTAATAAATC
46222310 CTTGTGACGC
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
84 144 0.94
85 9 0.06
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (83 bp):
TTGCGGCGTTTTCTTAAAAACGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATTG
GGAAAATTTAATAAATCA
Found at i:46222844 original size:21 final size:21
Alignment explanation
Indices: 46222820--46222864 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
46222810 TTAAACACTA
* *
46222820 AATCACTAACTCTAAACCTCT
1 AATCACTAACCCTAAACCCCT
*
46222841 AATCTCTAACCCTAAACCCCT
1 AATCACTAACCCTAAACCCCT
46222862 AAT
1 AAT
46222865 TAACCACTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.27
Consensus pattern (21 bp):
AATCACTAACCCTAAACCCCT
Found at i:46222973 original size:21 final size:20
Alignment explanation
Indices: 46222956--46222994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46222946 CCTTAACCTT
46222956 AAACCCTAAACCCCTAACCAC
1 AAACCCT-AACCCCTAACCAC
*
46222977 AACCCCTAACCCCTAACC
1 AAACCCTAACCCCTAACC
46222995 CCTAAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.51, G:0.00, T:0.10
Consensus pattern (20 bp):
AAACCCTAACCCCTAACCAC
Found at i:46222982 original size:13 final size:14
Alignment explanation
Indices: 46222964--46222999 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
46222954 TTAAACCCTA
46222964 AACCCCTAACCAC-
1 AACCCCTAACCACT
*
46222977 AACCCCTAACCCCT
1 AACCCCTAACCACT
46222991 AACCCCTAA
1 AACCCCTAA
46223000 ACTGTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.36, C:0.53, G:0.00, T:0.11
Consensus pattern (14 bp):
AACCCCTAACCACT
Found at i:46223068 original size:25 final size:25
Alignment explanation
Indices: 46223040--46223104 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
46223030 TAAATAATGT
*
46223040 AAACCTTAAACCCTAACCTAACACC
1 AAACCATAAACCCTAACCTAACACC
*
46223065 AAACCATAAACCATAACCTAACACC
1 AAACCATAAACCCTAACCTAACACC
46223090 AAACCATAAACCCTA
1 AAACCATAAACCCTA
46223105 TAAATCCCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (25 bp):
AAACCATAAACCCTAACCTAACACC
Found at i:46223075 original size:116 final size:118
Alignment explanation
Indices: 46222865--46223076 Score: 254
Period size: 116 Copynumber: 1.8 Consensus size: 118
46222855 AACCCCTAAT
* *
46222865 TAACCACTAACCCCTAAACCTTATTTAATATATATAAATTAAAAAACACTAATTAAATAAAATAT
1 TAACCACTAACCCCTAAACCTTATTTAATATATATAAATTAAAAAACACTAAATAAATAAAACAT
* * * * *
46222930 TATACTCTAACCCGACCCTTAACCTTAAACCCTAAACCCCTAACCACAACCCC
66 TAAACCCTAACCCAACCCTAAACCATAAACCCTAAACCCCTAACCACAACCCC
* * *
46222983 TAACCCCTAACCCCTAAA-CTGTATTT-A-ATATATAAATTAAAACACACTAAAT-AATGTAAAC
1 TAACCACTAACCCCTAAACCT-TATTTAATATATATAAATTAAAAAACACTAAATAAAT-AAAAC
* *
46223044 CTTAAACCCTAACCTAACACC-AAACCATAAACC
64 ATTAAACCCTAACCCAAC-CCTAAACCATAAACC
46223077 ATAACCTAAC
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
115 3 0.04
116 49 0.62
117 5 0.06
118 22 0.28
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (118 bp):
TAACCACTAACCCCTAAACCTTATTTAATATATATAAATTAAAAAACACTAAATAAATAAAACAT
TAAACCCTAACCCAACCCTAAACCATAAACCCTAAACCCCTAACCACAACCCC
Found at i:46223920 original size:41 final size:41
Alignment explanation
Indices: 46223638--46223929 Score: 213
Period size: 41 Copynumber: 7.1 Consensus size: 41
46223628 CGAGTTTTCA
* * *
46223638 AAAAACGCCGCTAATACTAC-GAGCATTAGCGGCGCTT-TTAA
1 AAAAACGCCGCTAAAAC-CCTGAGCATTAGCGGCGCTTCTT-C
* * *
46223679 AAAAATGCCGCTAAAACCAC-AAGCATTAGTGGCGCTT-TTAC
1 AAAAACGCCGCTAAAACC-CTGAGCATTAGCGGCGCTTCTT-C
*
46223720 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCACTT-TTC
1 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTC
* * *
46223760 TAAAAACACCGCTAAAACCCCGAGTATTAGCGGCGCTTCGTT-
1 -AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTC-TTC
* * * * * * * * *
46223802 AAAGACGCCACCAAAGCTCTGAGCAATT-GCGTCACTTTTTA
1 AAAAACGCCGCTAAAACCCTGAGC-ATTAGCGGCGCTTCTTC
* *
46223843 AAAAACGCCGCTAAAA-CCTCGAACATTTGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAACCCT-GAGCATTAGCGGCGCTTCTTC
* * * * * *
46223884 AAAAACACCGCTAAAGCTCTGAGCATTAGTGTCGCTTCTTT
1 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTC
46223925 AAAAA
1 AAAAA
46223930 AGCTACTAAA
Statistics
Matches: 198, Mismatches: 43, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
40 9 0.05
41 182 0.92
42 5 0.03
43 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTC
Found at i:46223939 original size:82 final size:81
Alignment explanation
Indices: 46223638--46223932 Score: 280
Period size: 82 Copynumber: 3.6 Consensus size: 81
46223628 CGAGTTTTCA
* * * *
46223638 AAAAACGCCGCTAATA-CTAC-GAGCATTAGCGGCGCTTTTAAAAAAATGCCGCTAAAACCAC-A
1 AAAAACGCCGCTAA-AGCT-CTGAGCATTAGCGTCACTTTTTAAAAAA-GCCGCTAAAACCCCGA
*
46223700 AGCATTAGTGGCGCTT-TTAC
63 A-CATTAGCGGCGCTTCTT-C
* * * *
46223720 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCACTTTTCTAAAAACA-CCGCTAAAACCCCGAG
1 AAAAACGCCGCTAAAGCTCTGAGCATTAGCGTCACTTTT-TAAAAA-AGCCGCTAAAACCCCGAA
*
46223784 TATTAGCGGCGCTTCGTT-
64 CATTAGCGGCGCTTC-TTC
* * * *
46223802 AAAGACGCCACCAAAGCTCTGAGCAATT-GCGTCACTTTTTAAAAAACGCCGCTAAAACCTCGAA
1 AAAAACGCCGCTAAAGCTCTGAGC-ATTAGCGTCACTTTTTAAAAAA-GCCGCTAAAACCCCGAA
*
46223866 CATTTGCGGCGCTTCTTC
64 CATTAGCGGCGCTTCTTC
* * *
46223884 AAAAACACCGCTAAAGCTCTGAGCATTAGTGTCGCTTCTTTAAAAAAGC
1 AAAAACGCCGCTAAAGCTCTGAGCATTAGCGTCACTT-TTTAAAAAAGC
46223933 TACTAAAGCT
Statistics
Matches: 177, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
80 1 0.01
81 13 0.07
82 142 0.80
83 18 0.10
84 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGCTCTGAGCATTAGCGTCACTTTTTAAAAAAGCCGCTAAAACCCCGAACA
TTAGCGGCGCTTCTTC
Found at i:46223941 original size:123 final size:124
Alignment explanation
Indices: 46223714--46223942 Score: 293
Period size: 123 Copynumber: 1.9 Consensus size: 124
46223704 TTAGTGGCGC
*
46223714 TTTTACAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCACTTTTCTAAAAACACCGCTAAAACC
1 TTTTACAAAAACGCCGCTAAAACCCTGAACATTAGCGGCACTTTTCTAAAAACACCGCTAAAACC
* * *
46223779 CCGAGTATTAGCGGCGCTTCGTTAAAGACGCCACCAAAGCTCTGAGCAATTGCGTCACT
66 CCGAGCATTAGCGGCGCTTCGTTAAAAAAGCCACCAAAGCTCTGAGCAATTGCGTCACT
* * *
46223838 TTTTA-AAAAACGCCGCTAAAA-CCTCGAACATTTGCGGCGCTTCTTC-AAAAACACCGCTAAAG
1 TTTTACAAAAACGCCGCTAAAACCCT-GAACATTAGCGGCACTT-TTCTAAAAACACCGCTAAAA
* * * * * * *
46223900 CTCTGAGCATTAGTGTCGCTTCTTTAAAAAAGCTACTAAAGCT
64 CCCCGAGCATTAGCGGCGCTTCGTTAAAAAAGCCACCAAAGCT
46223943 AAGTGCCGCT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
122 3 0.03
123 78 0.88
124 8 0.09
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (124 bp):
TTTTACAAAAACGCCGCTAAAACCCTGAACATTAGCGGCACTTTTCTAAAAACACCGCTAAAACC
CCGAGCATTAGCGGCGCTTCGTTAAAAAAGCCACCAAAGCTCTGAGCAATTGCGTCACT
Found at i:46228667 original size:113 final size:111
Alignment explanation
Indices: 46228278--46228797 Score: 389
Period size: 115 Copynumber: 4.5 Consensus size: 111
46228268 GTAAAACAAG
* *
46228278 TATTAGCGGC-ATTTACTAAAAGCGCCGCAAA-ATATGATAACCAAAACGCAGAGTTTGGTCTTG
1 TATTAGCGGCGCTTT-CTAGAAGCGCCGCAAATATAT--TAACCAAAACGCAGAGTTTGGTCTTG
*
46228341 AGGTATATTAGGATTAGTGGCGC-TTACAGACAAACGCCGCTAAAG-AGTAC
63 AGGTATATTAGGATTAGTGGCGCTTTATAG--AAACGCCGCTAAAGTA-TAC
* * * * * * *
46228391 TATTAGCGGTGCGTTCGGAGAAGCGCCGCTATATTTCTTAACCAAAACTG-AGCGTTTTGGTCTT
1 TATTAGCGGCGCTTTC-TAGAAGCGCCGC-AAATATATTAACCAAAAC-GCAGAG-TTTGGTCTT
* * ** *
46228455 GATGTATAATATAATTAGTGGCGCTTATAATA-AAACGCCGCTAAA-TATCAG
62 GAGGTATATTAGGATTAGTGGCGCTT-T-ATAGAAACGCCGCTAAAGTAT-AC
* *
46228506 TATTAGCGGCGCTTT-TAGTTAAGCGCCGC-AATATATGCACACCAAAACGCAGAGTTTGGTATT
1 TATTAGCGGCGCTTTCTAG--AAGCGCCGCAAATATAT-TA-ACCAAAACGCAGAGTTTGGTCTT
*
46228569 GAGGTATATTAGGATTAGTGGCGCTTTTTAGAAACGCCGCTAAAGTATAC
62 GAGGTATATTAGGATTAGTGGCGCTTTATAGAAACGCCGCTAAAGTATAC
* * * **
46228619 TATTAGCGGCGCTTTCTCAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCT-AGAAGCGCCGCAA-ATATATTAACCAAAACGCAGAGTTT-GGTCTTG
* * * * * *
46228684 ATGTATACT-GGAATTAGTGGCG-TTCACGAGAAATCACCGCTAAA-TCATAT
63 AGGTATATTAGG-ATTAGTGGCGCTTTA-TAGAAA-CGCCGCTAAAGT-ATAC
* * * * * * *
46228734 TATTAGCGGCGCATTTTTATAAGCGCCGTAAAAGATCTTTACCAAAACGCACAGTTTTGGTCTT
1 TATTAGCGGCGC-TTTCTAGAAGCGCCG-CAAATATATTAACCAAAACGCAGAG-TTTGGTCTT
46228798 AACCATGCAT
Statistics
Matches: 321, Mismatches: 56, Indels: 58
0.74 0.13 0.13
Matches are distributed among these distances:
112 2 0.01
113 73 0.23
114 91 0.28
115 140 0.44
116 12 0.04
117 1 0.00
118 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (111 bp):
TATTAGCGGCGCTTTCTAGAAGCGCCGCAAATATATTAACCAAAACGCAGAGTTTGGTCTTGAGG
TATATTAGGATTAGTGGCGCTTTATAGAAACGCCGCTAAAGTATAC
Found at i:46228726 original size:228 final size:229
Alignment explanation
Indices: 46228228--46228790 Score: 569
Period size: 228 Copynumber: 2.5 Consensus size: 229
46228218 TTTTAGTATC
* * ** * *
46228228 GATGTATATTAGAATTAGTGGCGCTTACAAAAAAATGCTAG-TAAAACA-AGTATTAGC-G-GCA
1 GATGTATAATAGAATTAGTGGCGCTTACAAGAAAACAC-CGCTAAATCATAGTATTAGCGGCGCA
* * *
46228289 -TTTACTAAAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGG
65 TTTTAGT-TAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGG
* *
46228353 ATTAGTGGCGCTTACAGACAAACGCCGCTAAAGAGTACTATTAGCGGTGCGTTCGGAGAAGCGCC
129 ATTAGTGGCGCTTACAGA-AAACGCCGCTAAAGAGTACTATTAGCGGCGCGTTCGCAGAAGCGCC
* * * * ***
46228418 GCTATATTTCTTAACCAAAACTGAGCGTTTTGGTCTT
193 GCAAGATATATTAACCAAAACTGAGCGTTTAAATCTT
* * * *
46228455 GATGTATAATATAATTAGTGGCGCTTATAATAAAACGCCGCTAAAT-ATCAGTATTAGCGGCGC-
1 GATGTATAATAGAATTAGTGGCGCTTACAAGAAAACACCGCTAAATCAT-AGTATTAGCGGCGCA
* *
46228518 TTTTAGTTAAGCGCCGCAATATATGCA-CACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGG
65 TTTTAGTTAAGCGCCGCAAAATATG-ATAACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGG
** * *
46228582 ATTAGTGGCGCTTTTTAG-AAACGCCGCTAAAGTA-TACTATTAGCGGCGCTTTCTCAGAAGCGC
129 ATTAGTGGCGC-TTACAGAAAACGCCGCTAAAG-AGTACTATTAGCGGCGCGTTCGCAGAAGCGC
* *
46228645 CGCAAGATATATTAACCGAAAC-GCTGCGTTTAAATCTT
192 CGCAAGATATATTAACCAAAACTG-AGCGTTTAAATCTT
* * * * *
46228683 GATGTATACTGGAATTAGTGGCG-TTCACGAGAAATCACCGCTAAATCATATTATTAGCGGCGCA
1 GATGTATAATAGAATTAGTGGCGCTT-ACAAGAAAACACCGCTAAATCATAGTATTAGCGGCGCA
* * ** * *
46228747 TTTT--TATAAGCGCCGTAAAAGATCTTTACCAAAACGCACAGTTT
65 TTTTAGT-TAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTT
46228791 TGGTCTTAAC
Statistics
Matches: 278, Mismatches: 43, Indels: 29
0.79 0.12 0.08
Matches are distributed among these distances:
226 2 0.01
227 41 0.15
228 153 0.55
229 70 0.25
230 12 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (229 bp):
GATGTATAATAGAATTAGTGGCGCTTACAAGAAAACACCGCTAAATCATAGTATTAGCGGCGCAT
TTTAGTTAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGGAT
TAGTGGCGCTTACAGAAAACGCCGCTAAAGAGTACTATTAGCGGCGCGTTCGCAGAAGCGCCGCA
AGATATATTAACCAAAACTGAGCGTTTAAATCTT
Found at i:46229123 original size:7 final size:7
Alignment explanation
Indices: 46229109--46229162 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
46229099 GTTATGGTGT
46229109 TTTA-GG
1 TTTAGGG
46229115 TTTAGGG
1 TTTAGGG
46229122 TTTAGGAG
1 TTTAGG-G
*
46229130 GTTAGGG
1 TTTAGGG
**
46229137 TTTAAAG
1 TTTAGGG
46229144 TTTAGGG
1 TTTAGGG
*
46229151 TTTGGGG
1 TTTAGGG
46229158 TTTAG
1 TTTAG
46229163 ACTGCTTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
6 4 0.11
7 28 0.74
8 6 0.16
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:46229138 original size:22 final size:21
Alignment explanation
Indices: 46229113--46229163 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
46229103 TGGTGTTTTA
*
46229113 GGTTTAGGGTTTAGGAGGTTAG
1 GGTTTAGAGTTTAGG-GGTTAG
* * *
46229135 GGTTTAAAGTTTAGGGTTTGG
1 GGTTTAGAGTTTAGGGGTTAG
46229156 GGTTTAGA
1 GGTTTAGA
46229164 CTGCTTTAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (21 bp):
GGTTTAGAGTTTAGGGGTTAG
Found at i:46229139 original size:29 final size:34
Alignment explanation
Indices: 46229078--46229153 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 34
46229068 TAGAGTATTG
*
46229078 AGTTTAGGGTTTATGATGTAGGTTATGGTGTTTTA
1 AGTTTAGGGTTTATGA-GTAGGTTATGGTGTTTAA
*
46229113 GGTTTAGGGTTTA-G-G-AGGTTA-GG-GTTTAA
1 AGTTTAGGGTTTATGAGTAGGTTATGGTGTTTAA
46229142 AGTTTAGGGTTT
1 AGTTTAGGGTTT
46229154 GGGGTTTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 16 0.42
30 2 0.05
31 6 0.16
32 1 0.03
34 1 0.03
35 12 0.32
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.45
Consensus pattern (34 bp):
AGTTTAGGGTTTATGAGTAGGTTATGGTGTTTAA
Found at i:46229577 original size:24 final size:23
Alignment explanation
Indices: 46229550--46229595 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
46229540 TTGAATAATA
*
46229550 TAAATAATTTATA-ATTTATAATTT
1 TAAAT-ATTGATATATTTA-AATTT
46229574 TAAATATTGATATATTTAAATT
1 TAAATATTGATATATTTAAATT
46229596 ATACAGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAATATTGATATATTTAAATTT
Found at i:46230393 original size:44 final size:44
Alignment explanation
Indices: 46230333--46230428 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
46230323 AATTGTTGCG
* * * **
46230333 TCCTTCCTGCCCAATTTCTTGAATTCCCAAATCTGTAAATCACC
1 TCCTTCCTGCCAAATTTCTTAAAATCCCAAATCCCTAAATCACC
* **
46230377 TCCTTCTTGCCAAATTTCTTAAAATCTGAAATCCCTAAATCACC
1 TCCTTCCTGCCAAATTTCTTAAAATCCCAAATCCCTAAATCACC
46230421 TCCTTCCT
1 TCCTTCCT
46230429 CCTTCCAGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.35
Consensus pattern (44 bp):
TCCTTCCTGCCAAATTTCTTAAAATCCCAAATCCCTAAATCACC
Found at i:46232105 original size:35 final size:34
Alignment explanation
Indices: 46232061--46232151 Score: 123
Period size: 32 Copynumber: 2.7 Consensus size: 34
46232051 TAAAGTTATA
* *
46232061 TTTTAAATATTTTATTTTATTTTAATCATGAATTT
1 TTTTAAATATTTTATTTT-TTTTAATCACGAATAT
46232096 TTTTAAATATTTTA--TTTTTTAATCACGAATAT
1 TTTTAAATATTTTATTTTTTTTAATCACGAATAT
**
46232128 TTTTAAATATTAAATTTTTTTTAA
1 TTTTAAATATTTTATTTTTTTTAA
46232152 AGTTCAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
32 26 0.52
33 2 0.04
34 8 0.16
35 14 0.28
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (34 bp):
TTTTAAATATTTTATTTTTTTTAATCACGAATAT
Found at i:46232189 original size:18 final size:17
Alignment explanation
Indices: 46232158--46232213 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
46232148 TTAAAGTTCA
46232158 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
46232175 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
46232193 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
46232209 AATTT
1 AATTT
46232214 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:46232233 original size:29 final size:33
Alignment explanation
Indices: 46232163--46232235 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
46232153 GTTCAAATTT
*
46232163 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
46232197 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
*
46232226 CTTAACTTAC
1 CATAACTTAC
46232236 ATATCTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 14 0.38
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.49
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:46232285 original size:19 final size:19
Alignment explanation
Indices: 46232263--46232300 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
46232253 ATATATAGTT
46232263 TTTATATATATATTTAAAA
1 TTTATATATATATTTAAAA
*
46232282 TTTATATATATTTTTAAAA
1 TTTATATATATATTTAAAA
46232301 ATTGATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATATATATATTTAAAA
Found at i:46232410 original size:10 final size:10
Alignment explanation
Indices: 46232395--46232430 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
46232385 TATCATAACT
46232395 TACATAATAA
1 TACATAATAA
46232405 TACATAATAA
1 TACATAATAA
*
46232415 TACATAA-CA
1 TACATAATAA
46232424 TACATAA
1 TACATAA
46232431 ATTAAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (10 bp):
TACATAATAA
Found at i:46232504 original size:95 final size:95
Alignment explanation
Indices: 46232405--46232740 Score: 496
Period size: 95 Copynumber: 3.5 Consensus size: 95
46232395 TACATAATAA
* *
46232405 TACATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
*
46232470 ATAACTTACATAATATCCTACATCCCTACT
66 ATAACTTACATAATATCCTACATCACTACT
* * *
46232500 TACATAATAATACATACCGTACATAAATTTAATAAGTTACATAATATACAAAAACAAAAACTTGC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
* *
46232565 ATAGCTTACATAATATCCTACATCTCTACT
66 ATAACTTACATAATATCCTACATCACTACT
*
46232595 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
* * *
46232660 ATAACTTACATAATAACTTACAT-AATAAC-
66 ATAACTTACATAATATCCTACATCACT-ACT
* * * *
46232689 AATGATAATAATGCATACCCTACATAAATTAAATAAGTTACATAATACACAA
1 TA-CATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAA
46232741 TAAGGTTAAA
Statistics
Matches: 219, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
94 2 0.01
95 217 0.99
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (95 bp):
TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
ATAACTTACATAATATCCTACATCACTACT
Found at i:46232523 original size:52 final size:52
Alignment explanation
Indices: 46232467--46232629 Score: 130
Period size: 52 Copynumber: 3.3 Consensus size: 52
46232457 AACAAAAACT
*
46232467 TACATAACTTACATAATATCCTACATCCCTACTTACATAATAATACATACCG
1 TACATAACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
* * * * * * *
46232519 TACATAAATTTA-ATAA-GT--TACAT-AATA--TACA-AA-AACA-AAAACT
1 TACAT-AACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
* * *
46232562 TGCATAGCTTACATAATATCCTACATCTCTACTTACATAATAATACATACCG
1 TACATAACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
* *
46232614 TACATAAATTAAATAA
1 TACATAACTTACATAA
46232630 GTTACATAAT
Statistics
Matches: 78, Mismatches: 22, Indels: 22
0.64 0.18 0.18
Matches are distributed among these distances:
42 4 0.05
43 11 0.14
44 4 0.05
45 2 0.03
46 9 0.12
47 2 0.03
48 2 0.03
49 9 0.12
50 2 0.03
51 4 0.05
52 24 0.31
53 5 0.06
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (52 bp):
TACATAACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
Found at i:46232677 original size:12 final size:12
Alignment explanation
Indices: 46232660--46232688 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46232650 AAAAACTTAC
46232660 ATAACTTACATA
1 ATAACTTACATA
46232672 ATAACTTACATA
1 ATAACTTACATA
46232684 ATAAC
1 ATAAC
46232689 AATGATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:46232777 original size:12 final size:12
Alignment explanation
Indices: 46232760--46232786 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46232750 AAACACAGTG
46232760 TAACTTACATAA
1 TAACTTACATAA
46232772 TAACTTACATAA
1 TAACTTACATAA
46232784 TAA
1 TAA
46232787 TACATACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:46232801 original size:19 final size:19
Alignment explanation
Indices: 46232771--46232837 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
46232761 AACTTACATA
46232771 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
46232790 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
*
46232809 ATAACTTAC---ATAAGAC
1 ATAACTTACATAATAATAC
46232825 ATAACTTACATAA
1 ATAACTTACATAA
46232838 GTTTCATAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.36
18 3 0.07
19 21 0.50
20 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:46232818 original size:9 final size:9
Alignment explanation
Indices: 46232771--46232920 Score: 134
Period size: 9 Copynumber: 16.9 Consensus size: 9
46232761 AACTTACATA
46232771 ATAACTTAC
1 ATAACTTAC
46232780 ATAA-TAATAC
1 ATAACT--TAC
46232790 AT-ACTCTAC
1 ATAACT-TAC
46232799 ATAA-TAATAC
1 ATAACT--TAC
46232809 ATAACTTAC
1 ATAACTTAC
*
46232818 ATAA--GAC
1 ATAACTTAC
46232825 ATAACTTAC
1 ATAACTTAC
* *
46232834 ATAAGTTTC
1 ATAACTTAC
*
46232843 AT-A-GTAC
1 ATAACTTAC
*
46232850 ACAACTTAC
1 ATAACTTAC
*
46232859 ACAACTTAC
1 ATAACTTAC
*
46232868 ACAACTTAC
1 ATAACTTAC
*
46232877 ACAACTTAC
1 ATAACTTAC
46232886 ATAACTTAC
1 ATAACTTAC
46232895 ATAACTTAC
1 ATAACTTAC
46232904 ATAACTTAC
1 ATAACTTAC
46232913 ATAACTTA
1 ATAACTTA
46232921 TTCCTAAATC
Statistics
Matches: 120, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
7 9 0.08
8 3 0.03
9 93 0.77
10 14 0.12
11 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:46236058 original size:191 final size:191
Alignment explanation
Indices: 46235731--46236107 Score: 682
Period size: 191 Copynumber: 2.0 Consensus size: 191
46235721 CACCACGAAT
*
46235731 CATTGGAACCTTTACGAAAGTAAGTTCTACAAATTTTATAAATATTTATCAAACTAAAAATTGTT
1 CATTGGAACCTTTACGAAAGTAAGTTCTACAAATTTGATAAATATTTATCAAACTAAAAATTGTT
*
46235796 TATCTTCTAACAAAGATCACATTTTTTAAACATAGTGAGTACAAACAAATATTGAGATCTCGTTC
66 TATCTTCTAACAAAGATCACATTTTTTAAACACAGTGAGTACAAACAAATATTGAGATCTCGTTC
*
46235861 GCGCTCCCGAAGAACACAACATCAAGATATTAATAAGTTGTTTACAGAATCTTTTTATAAA
131 GCGCTCCCGAAGAACACAACATCAAGATATCAATAAGTTGTTTACAGAATCTTTTTATAAA
* *
46235922 CATTGGAACCTTTACGGAAGTAAGTTCTACAAATTTGATAAATATTTATCAAACTAATAATTGTT
1 CATTGGAACCTTTACGAAAGTAAGTTCTACAAATTTGATAAATATTTATCAAACTAAAAATTGTT
* *
46235987 TATCTTCTAACAAAGATCACATTTTTTTAACACAGTGAGTACAAACAAATATTGAGATCTCGTTT
66 TATCTTCTAACAAAGATCACATTTTTTAAACACAGTGAGTACAAACAAATATTGAGATCTCGTTC
*
46236052 GCGCTCCCGAAGAACACAACATCGAGATATCAATAAGTTGTTTACAGAATCTTTTT
131 GCGCTCCCGAAGAACACAACATCAAGATATCAATAAGTTGTTTACAGAATCTTTTT
46236108 TTGAATGGTT
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
191 178 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (191 bp):
CATTGGAACCTTTACGAAAGTAAGTTCTACAAATTTGATAAATATTTATCAAACTAAAAATTGTT
TATCTTCTAACAAAGATCACATTTTTTAAACACAGTGAGTACAAACAAATATTGAGATCTCGTTC
GCGCTCCCGAAGAACACAACATCAAGATATCAATAAGTTGTTTACAGAATCTTTTTATAAA
Found at i:46238823 original size:17 final size:17
Alignment explanation
Indices: 46238801--46238839 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
46238791 GCGGCGTTTT
*
46238801 GAACAAGCGCCGCTATA
1 GAACAAGCGCCACTATA
46238818 GAACAAGCGCCACTATA
1 GAACAAGCGCCACTATA
46238835 GAACA
1 GAACA
46238840 TTACTTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.28, G:0.21, T:0.10
Consensus pattern (17 bp):
GAACAAGCGCCACTATA
Found at i:46238919 original size:42 final size:42
Alignment explanation
Indices: 46238822--46239072 Score: 301
Period size: 42 Copynumber: 5.9 Consensus size: 42
46238812 GCTATAGAAC
* * * *
46238822 AAGCGCCACTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCA
*
46238865 AAGCGCCGCTAAAGAACATGATCTTTCGCGGCGTTTTTTCCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
** * *
46238907 AAGCGCTACTAAAGAACATGATCTTTAACGGCGTTTTTTTCGA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCA
*
46238950 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT-CA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* * *
46238991 TAAGCGACGCTAAAGAAAATAATCTTTAGCGGCGTTTTTT-CA
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* *
46239033 TAAGCGTCACTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
46239073 TCTATAAGTA
Statistics
Matches: 182, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 113 0.62
43 67 0.37
44 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
Found at i:46239073 original size:85 final size:84
Alignment explanation
Indices: 46238845--46239080 Score: 298
Period size: 85 Copynumber: 2.8 Consensus size: 84
46238835 GAACATTACT
* * *
46238845 TTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGTTTTTTCCA-AA
1 TTTAGCGGCGTTTT-TT-CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAA
* *
46238909 GCGCTACTAAAGAACATGATC
64 GCGCTACTAAAGAAAATAATC
* *
46238930 TTTAACGGCGTTTTTTTCGAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTTCATAA
1 TTTAGCGGCG-TTTTTTC-AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAA
*
46238994 GCGAC-GCTAAAGAAAATAATC
64 GCG-CTACTAAAGAAAATAATC
* *
46239015 TTTAGCGGCGTTTTTTCATAAGCGTCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTATAA
1 TTTAGCGGCGTTTTTTCA-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-ATAA
46239080 G
64 G
46239081 TACCGTAAAA
Statistics
Matches: 132, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
83 1 0.01
84 45 0.34
85 76 0.58
86 10 0.08
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (84 bp):
TTTAGCGGCGTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAAGC
GCTACTAAAGAAAATAATC
Found at i:46241958 original size:19 final size:20
Alignment explanation
Indices: 46241936--46241973 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46241926 TTTTTTTATA
46241936 TTTTCCTT-ATTCTTTATCT
1 TTTTCCTTAATTCTTTATCT
*
46241955 TTTTCCTTAATTTTTTATC
1 TTTTCCTTAATTCTTTATC
46241974 CCTTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCCTTAATTCTTTATCT
Found at i:46242437 original size:19 final size:19
Alignment explanation
Indices: 46242385--46242438 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
46242375 AATTATATGC
* *
46242385 ATTTTTTAAATTATGTATAT
1 ATTTTTTATATT-TATATAT
*
46242405 ATTTTTTCTTTATTTATATAT
1 A-TTTTT-TATATTTATATAT
46242426 ATTTTTTATATTT
1 ATTTTTTATATTT
46242439 TTACAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 12 0.43
22 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTTATATTTATATAT
Found at i:46249536 original size:3 final size:3
Alignment explanation
Indices: 46249528--46249570 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
46249518 CATTTTTAAA
46249528 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
46249571 GAATTTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.