Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 40 of 145
Found at i:12825549 original size:128 final size:127
Alignment explanation
Indices: 12825332--12825644 Score: 335
Period size: 128 Copynumber: 2.5 Consensus size: 127
12825322 GATGTGTGGG
* * * * ** *
12825332 AGCCTCGAACACCATTGGAACCTTGGTGGCTCGAATGT-CTGGGAGCCTTGAGCACCATCGGCAC
1 AGCCTCGAGCACCATCGGCACCTTGGTGCCT-GTCTGTAC-GGGAGCCTCGAGCACCATCGGCAC
* * * * *
12825396 CTTAGTGCTCGGATGTGCGAGAGCCTCGGCCACCATCGGCAACCTTGGTGCTTGGATGTGCGAA
64 CTTAGTGCACGGATGTACGAGAGCCTCAGACACCATCGGCAACCTTGATGCTTGGATGTGCGAA
* * *
12825460 AGCCTCGAGCACCATCGGCACCTTTGTGCCTGTCTGTACGGGAGCCTCGAGCAGCATGGGCACCT
1 AGCCTCGAGCACCATCGGCACCTTGGTGCCTGTCTGTACGGGAGCCTCGAGCACCATCGGCACCT
* ** * **
12825525 TGGTGGCACGGATGTACG-GAAGCCTCAGACGTCATCGGTAACCTTGATGCTTGGATGTGCGGG
66 TAGT-GCACGGATGTACGAG-AGCCTCAGACACCATCGGCAACCTTGATGCTTGGATGTGCGAA
* ** * *
12825588 AGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCATCGA-CACCATC
1 AGCCTCGAGCACCATCGGCACCTTGGTGCCTGTCTGTACGGGAGCCTCGAGCACCATC
12825645 AGCAAACTAG
Statistics
Matches: 153, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
127 36 0.24
128 117 0.76
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.21
Consensus pattern (127 bp):
AGCCTCGAGCACCATCGGCACCTTGGTGCCTGTCTGTACGGGAGCCTCGAGCACCATCGGCACCT
TAGTGCACGGATGTACGAGAGCCTCAGACACCATCGGCAACCTTGATGCTTGGATGTGCGAA
Found at i:12825710 original size:42 final size:42
Alignment explanation
Indices: 12825308--12825811 Score: 389
Period size: 42 Copynumber: 11.9 Consensus size: 42
12825298 AGCCTCCAGT
* * * * *
12825308 ACCTTGGTGGCTCGGATGTGTGGGAGCCTCGAACACCATTGGA
1 ACCTTGGT-GCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
* * *
12825351 ACCTTGGTGGCTCGAATGT-CTGGGAGCCTTGAGCACCATCGGC
1 ACCTTGGT-GCTTGGATGTGC-GGGAGCCTCGAGCACCATCGGC
* * *
12825394 ACCTTAGTGCTCGGATGTGCGAGAGCCTCG-GCCACCATCGGC
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAG-CACCATCGGC
**
12825436 AACCTTGGTGCTTGGATGTGCGAAAGCCTCGAGCACCATCGGC
1 -ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
* * ** * * *
12825479 ACCTTTGTGCCTGTCTGTACGGGAGCCTCGAGCAGCATGGGC
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
** * * *
12825521 ACCTTGGTGGCACGGATGTACGGAAGCCTC-AG-ACGTCATCGGTA
1 ACCTTGGT-GCTTGGATGTGCGGGAGCCTCGAGCAC--CATCGG-C
*
12825565 ACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
* * *
12825607 ACCTTGGTGCATGGATGTGCGGGAGCATCGA-CACCATCAGC
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
* * ** *
12825648 AAACTAGGCCCTTGGTTGTGCGGGAGCCTCGGAG-ACCATCGGC
1 -ACCTTGGTGCTTGGATGTGCGGGAGCCTC-GAGCACCATCGGC
* ** *
12825691 ACCTCGGTGCTAT-GATGTGCGGGAGCCTCG-GACACTGTTGGC
1 ACCTTGGTGCT-TGGATGTGCGGGAGCCTCGAG-CACCATCGGC
* ** *
12825733 AACCTAGGCCCTTGG-TCGTGAGGGAGCCTCGAGCACCA-CTGGC
1 -ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATC-GGC
* **
12825776 ACCTTGGTGCATGGATGTGCGGGAGGATCGAGCACC
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACC
12825812 GAAGCTAAAG
Statistics
Matches: 367, Mismatches: 71, Indels: 47
0.76 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 12 0.03
42 176 0.48
43 165 0.45
44 11 0.03
45 2 0.01
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (42 bp):
ACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGC
Found at i:12825777 original size:85 final size:84
Alignment explanation
Indices: 12825585--12825811 Score: 298
Period size: 85 Copynumber: 2.7 Consensus size: 84
12825575 TTGGATGTGC
12825585 GGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCATCGACACCATCAGCAA
1 GGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCATCGACACCATCAGCAA
* *
12825650 ACTAGGCCCTTGGTTGTGC
66 ACTAGGCCCTTGGTCGTGA
* * ** **
12825669 GGGAGCCTCGGAG-ACCATCGGCACCTCGGTGCTAT-GATGTGCGGGAGCCTCGGACACTGTTGG
1 GGGAGCCTC-GAGCACCATCGGCACCTTGGTGC-ATGGATGTGCGGGAGCATC-GACACCATCAG
*
12825732 CAACCTAGGCCCTTGGTCGTGA
63 CAAACTAGGCCCTTGGTCGTGA
*
12825754 GGGAGCCTCGAGCACCA-CTGGCACCTTGGTGCATGGATGTGCGGGAGGATCGAGCACC
1 GGGAGCCTCGAGCACCATC-GGCACCTTGGTGCATGGATGTGCGGGAGCATCGA-CACC
12825812 GAAGCTAAAG
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
84 50 0.41
85 73 0.59
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.19
Consensus pattern (84 bp):
GGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCATCGACACCATCAGCAA
ACTAGGCCCTTGGTCGTGA
Found at i:12826110 original size:85 final size:86
Alignment explanation
Indices: 12825997--12826386 Score: 436
Period size: 85 Copynumber: 4.6 Consensus size: 86
12825987 ATGGTGCACA
* * *
12825997 AGGCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCT-TGAGGCTCCCGCACGACCAATGG
1 AGGCTCCCGCACATCCATAGCACCAAGGTGCCGATGGT-CTCCGAGGCTCCCGCACAACCAAGGG
12826060 CCTAGGTTGCCGACAGTGTCCG
65 CCTAGGTTGCCGACAGTGTCCG
* * *
12826082 AGGCTCCCGCACAT-CATAGGACCGAGGTGCCGATGGTCTCTGAGGCTCCCGCACAACCAAGGGC
1 AGGCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTCTCCGAGGCTCCCGCACAACCAAGGGC
*
12826146 CTAGGTTGCCGACAGTGTCTG
66 CTAGGTTGCCGACAGTGTCCG
* *
12826167 AGGCTCCCGCACAT-CATAGCACCGAGGTGCCGATGGTCTCCGAGGCTCCCGCACAACTAAGGGC
1 AGGCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTCTCCGAGGCTCCCGCACAACCAAGGGC
* * **
12826231 CTAGTTTGCTGATGGTGTCCG
66 CTAGGTTGCCGACAGTGTCCG
* ** **
12826252 ATGCTCCCGCACATCCAT-GCACCAAGGTGCCGATGGTGCT-CGAGGCTCCCGCACATGCAAGCA
1 AGGCTCCCGCACATCCATAGCACCAAGGTGCCGATGGT-CTCCGAGGCTCCCGCACAACCAAGGG
* * * * ** *
12826315 TCAAGGTTTCTGATGGTGTCTG
65 CCTAGGTTGCCGACAGTGTCCG
* * *
12826337 AGGCTCCCGCACATCCGT-GCCACCAAGGTGCCCATGTTGCT-CGAGGCTCC
1 AGGCTCCCGCACATCCATAG-CACCAAGGTGCCGATGGT-CTCCGAGGCTCC
12826387 TGTACAGACA
Statistics
Matches: 271, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
84 4 0.01
85 234 0.86
86 33 0.12
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (86 bp):
AGGCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTCTCCGAGGCTCCCGCACAACCAAGGGC
CTAGGTTGCCGACAGTGTCCG
Found at i:12826350 original size:43 final size:41
Alignment explanation
Indices: 12825954--12826495 Score: 333
Period size: 42 Copynumber: 12.7 Consensus size: 41
12825944 TTCGGTGCTC
* * * * *
12825954 GAGGCTCCTGCACATCCATGCACCAAGCTACCGATGGTG-CAC
1 GAGGCTCCCGCACAT-CAAGCACCAAGGTGCCGATGGTGTC-T
*
12825996 AAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTG-CTT
1 GAGGCTCCCGCACAT-CAAGCACCAAGGTGCCGATGGTGTC-T
* * * ** *
12826038 GAGGCTCCCGCACGACCAATG-GCCTAGGTTGCCGACAGTGTCC
1 GAGGCTCCCGCAC-ATCAA-GCACCAAGG-TGCCGATGGTGTCT
* * *
12826081 GAGGCTCCCGCACATCATAGGACCGAGGTGCCGATGGTCTCT
1 GAGGCTCCCGCACATCA-AGCACCAAGGTGCCGATGGTGTCT
* ** * **
12826123 GAGGCTCCCGCACAACCAAGGGCCTAGGTTGCCGACAGTGTCT
1 GAGGCTCCCGCAC-ATCAAGCACCAAGG-TGCCGATGGTGTCT
* * *
12826166 GAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTCTCC
1 GAGGCTCCCGCACATCA-AGCACCAAGGTGCCGATGGTGTCT
* ** * * * *
12826208 GAGGCTCCCGCACAACTAAGGGCCTAGTTTGCTGATGGTGTCC
1 GAGGCTCCCGCACATC-AAGCACCAAG-GTGCCGATGGTGTCT
* *
12826251 GATGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTG-CT
1 GAGGCTCCCGCACAT-CAAGCACCAAGGTGCCGATGGTGTCT
* * *
12826292 CGAGGCTCCCGCACATGCAAGCATCAAGGTTTCTGATGGTGTCT
1 -GAGGCTCCCGCACAT-CAAGCACCAAGG-TGCCGATGGTGTCT
** * *
12826336 GAGGCTCCCGCACATCCGTGCCACCAAGGTGCCCATGTTG-CT
1 GAGGCTCCCGCACAT-CAAG-CACCAAGGTGCCGATGGTGTCT
* * * * *
12826378 CGAGGCTCCTGTACAGACAGGCACCAAGATGCCGATGGTG-CT
1 -GAGGCTCCCGCACA-TCAAGCACCAAGGTGCCGATGGTGTCT
* * * *
12826420 CGAGGCTCCCGGACATCCGAGCCACCGAGGTTCCGATGGTGT-T
1 -GAGGCTCCCGCACAT-CAAG-CACCAAGGTGCCGATGGTGTCT
* *
12826463 CGAGGCTCCCACACATCTGAGCCACCAAGGTGC
1 -GAGGCTCCCGCACATC-AAG-CACCAAGGTGC
12826496 TGGAGGCTCT
Statistics
Matches: 393, Mismatches: 85, Indels: 43
0.75 0.16 0.08
Matches are distributed among these distances:
41 1 0.00
42 194 0.49
43 187 0.48
44 11 0.03
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.18
Consensus pattern (41 bp):
GAGGCTCCCGCACATCAAGCACCAAGGTGCCGATGGTGTCT
Found at i:12826415 original size:85 final size:86
Alignment explanation
Indices: 12825947--12826478 Score: 367
Period size: 85 Copynumber: 6.3 Consensus size: 86
12825937 CTTTAGCTTC
* * * * * **
12825947 GGTGCTCGAGGCTCCTGCACATCCATGCACCAA-GCTACCGATGGTG-CACAAGGCTCCCGCACA
1 GGTGCTCGAGGCTCCCGCACATGCAAGCACCAAGGATGCCGATGGTGTC-TGAGGCTCCCGCACA
**
12826010 TCCAAG-CACCAAGGTGCCGAT
65 TCCGTGCCACCAAGGTGCCGAT
* * * * * ** *
12826031 GGTGCTTGAGGCTCCCGCACGA-CCAATG-GCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC
1 GGTGCTCGAGGCTCCCGCAC-ATGCAA-GCACCAAGGATGCCGATGGTGTCTGAGGCTCCCGCAC
* * *
12826094 AT-CATAG-GACCGAGGTGCCGAT
64 ATCCGT-GCCACCAAGGTGCCGAT
** ** * * **
12826116 GGT-CTCTGAGGCTCCCGCACAACCAAGGGCCTAGGTTGCCGACAGTGTCTGAGGCTCCCGCACA
1 GGTGCTC-GAGGCTCCCGCACATGCAAGCACCAAGGATGCCGATGGTGTCTGAGGCTCCCGCACA
* *
12826180 T-CATAG-CACCGAGGTGCCGAT
65 TCCGT-GCCACCAAGGTGCCGAT
* ** * ** * * *
12826201 GGT-CTCCGAGGCTCCCGCACA-ACTAAGGGCCTAGTTTGCTGATGGTGTCCGATGCTCCCGCAC
1 GGTGCT-CGAGGCTCCCGCACATGC-AAGCACCAAGGATGCCGATGGTGTCTGAGGCTCCCGCAC
*
12826264 ATCCATG-CACCAAGGTGCCGAT
64 ATCCGTGCCACCAAGGTGCCGAT
* * * *
12826286 GGTGCTCGAGGCTCCCGCACATGCAAGCATCAAGGTTTCTGATGGTGTCTGAGGCTCCCGCACAT
1 GGTGCTCGAGGCTCCCGCACATGCAAGCACCAAGGATGCCGATGGTGTCTGAGGCTCCCGCACAT
*
12826351 CCGTGCCACCAAGGTGCCCAT
66 CCGTGCCACCAAGGTGCCGAT
* * * * *
12826372 GTTGCTCGAGGCTCCTGTACA-GACAGGCACCAA-GATGCCGATGGTG-CTCGAGGCTCCCGGAC
1 GGTGCTCGAGGCTCCCGCACATG-CAAGCACCAAGGATGCCGATGGTGTCT-GAGGCTCCCGCAC
* * *
12826434 ATCCGAGCCACCGAGGTTCCGAT
64 ATCCGTGCCACCAAGGTGCCGAT
* *
12826457 GGTGTTCGAGGCTCCCACACAT
1 GGTGCTCGAGGCTCCCGCACAT
12826479 CTGAGCCACC
Statistics
Matches: 378, Mismatches: 53, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
84 33 0.09
85 297 0.79
86 48 0.13
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.19
Consensus pattern (86 bp):
GGTGCTCGAGGCTCCCGCACATGCAAGCACCAAGGATGCCGATGGTGTCTGAGGCTCCCGCACAT
CCGTGCCACCAAGGTGCCGAT
Found at i:12826417 original size:170 final size:169
Alignment explanation
Indices: 12825947--12826493 Score: 495
Period size: 170 Copynumber: 3.2 Consensus size: 169
12825937 CTTTAGCTTC
* * * * ** **
12825947 GGTGCTCGAGGCTCCTGCACATCCATGCACCAA-GCTACCGATGGTG-CACAAGGCTCCCGCACA
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTGCCGACAGTGTC-TGAGGCTCCCGCACA
* * * * *
12826010 TCCAAGCACCAAGGTGCCGATGGTGCTTGAGGCTCCCGCAC-GACCAATGGCCTAGGTTGCCGAC
65 TCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAGA-CAA-GGCCCAAGTTGCCGAT
* *
12826074 AGTGTCCGAGGCTCCCGCACAT-CATAGGACCGAGGTGCCGAT
128 GGTGTCCGAGGCTCCCGCACATCCAT-GCACCGAGGTGCCGAT
* ** *
12826116 GGT-CTCTGAGGCTCCCGCACAACCAAGGGCCTAGGTTGCCGACAGTGTCTGAGGCTCCCGCACA
1 GGTGCTC-GAGGCTCCCGCACATCCAAGCACCAAGGTTGCCGACAGTGTCTGAGGCTCCCGCACA
* * * *
12826180 T-CATAGCACCGAGGTGCCGATGGT-CTCCGAGGCTCCCGCACA-ACTAAGGGCCTAGTTTGCTG
65 TCCAT-GCACCAAGGTGCCGATGGTGCT-CGAGGCTCCCGCACAGAC-AAGGCCCAAG-TTGCCG
* *
12826242 ATGGTGTCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGAT
126 ATGGTGTCCGAGGCTCCCGCACATCCATGCACCGAGGTGCCGAT
* * * * **
12826286 GGTGCTCGAGGCTCCCGCACATGCAAGCATCAAGGTTTCTGATGGTGTCTGAGGCTCCCGCACAT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTGCCGACAGTGTCTGAGGCTCCCGCACAT
* * * * * *
12826351 CCGTGCCACCAAGGTGCCCATGTTGCTCGAGGCTCCTGTACAGAC-AGGCACCAAGATGCCGATG
66 CCATG-CACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAGACAAGGC-CCAAGTTGCCGATG
* *
12826415 GTG-CTCGAGGCTCCCGGACATCCGA-GCCACCGAGGTTCCGAT
129 GTGTC-CGAGGCTCCCGCACATCC-ATG-CACCGAGGTGCCGAT
* * **
12826457 GGTGTTCGAGGCTCCCACACATCTGAGCCACCAAGGT
1 GGTGCTCGAGGCTCCCGCACATCCAAG-CACCAAGGT
12826494 GCTGGAGGCT
Statistics
Matches: 304, Mismatches: 55, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
168 3 0.01
169 33 0.11
170 179 0.59
171 77 0.25
172 12 0.04
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.18
Consensus pattern (169 bp):
GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTGCCGACAGTGTCTGAGGCTCCCGCACAT
CCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAGACAAGGCCCAAGTTGCCGATGGT
GTCCGAGGCTCCCGCACATCCATGCACCGAGGTGCCGAT
Found at i:12835648 original size:4 final size:4
Alignment explanation
Indices: 12835639--12835663 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12835629 TTGCTTGTAC
12835639 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
12835664 GGCTCAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:12837296 original size:20 final size:21
Alignment explanation
Indices: 12837271--12837313 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
12837261 CAAAATTTAA
12837271 TTTTTAATTTATTT-AATTAT
1 TTTTTAATTTATTTCAATTAT
*
12837291 TTTTTATTTTATTTCAATTAT
1 TTTTTAATTTATTTCAATTAT
12837312 TT
1 TT
12837314 AGTTTCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTAATTTATTTCAATTAT
Found at i:12840951 original size:44 final size:44
Alignment explanation
Indices: 12840882--12840969 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
12840872 TCGATACCAA
** *
12840882 ATTACATTATTGTCTCCCTGTACATTTCAAAATCACAGAAGTAT
1 ATTACATTATTGTCTCCCTACACATTTCAAAATCAAAGAAGTAT
12840926 ATTACATTATTGTCTCCCTACACATTTCAAAATCAAAGAAGTAT
1 ATTACATTATTGTCTCCCTACACATTTCAAAATCAAAGAAGTAT
12840970 TATTTTTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (44 bp):
ATTACATTATTGTCTCCCTACACATTTCAAAATCAAAGAAGTAT
Found at i:12844940 original size:18 final size:19
Alignment explanation
Indices: 12844913--12844949 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12844903 AAAGACCTTG
*
12844913 GAAAAGCAAAAGCGAAAGC
1 GAAAAGCAAAAGCAAAAGC
12844932 GAAAA-CAAAAGCAAAAGC
1 GAAAAGCAAAAGCAAAAGC
12844950 CTAGCTAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (19 bp):
GAAAAGCAAAAGCAAAAGC
Found at i:12845894 original size:6 final size:7
Alignment explanation
Indices: 12845877--12845902 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12845867 AGGCCTTTTA
12845877 AAAAAAT
1 AAAAAAT
12845884 AAAAAAT
1 AAAAAAT
12845891 AAAAAAT
1 AAAAAAT
12845898 AAAAA
1 AAAAA
12845903 GTGGTGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:12847767 original size:4 final size:4
Alignment explanation
Indices: 12847760--12847804 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
12847750 TATATATATG
12847760 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
12847805 CATATAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:12848931 original size:19 final size:19
Alignment explanation
Indices: 12848904--12848940 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12848894 AAAAAAATCA
*
12848904 TTTTAATTTTTTATTTAAT
1 TTTTAATTTTTTAGTTAAT
*
12848923 TTTTCATTTTTTAGTTAA
1 TTTTAATTTTTTAGTTAA
12848941 ATGAAAATGG
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:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTTTAGTTAAT
Found at i:12857282 original size:29 final size:28
Alignment explanation
Indices: 12857211--12857282 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
12857201 AACAATGGCT
*
12857211 CAAAGTGCCTGATACTGTAACACCGGTA
1 CAAAGTGCCTGAAACTGTAACACCGGTA
* *
12857239 CAAAGTACCTAAAACTGTAATCACC-G-A
1 CAAAGTGCCTGAAACTGTAA-CACCGGTA
12857266 CAATTAGTGCCTGAAAC
1 CAA--AGTGCCTGAAAC
12857283 ACCCTAAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.11
28 18 0.50
29 14 0.39
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (28 bp):
CAAAGTGCCTGAAACTGTAACACCGGTA
Found at i:12860033 original size:36 final size:36
Alignment explanation
Indices: 12859992--12860060 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
12859982 AACCAACTAA
*
12859992 TAGCTTGATCTCATCATTTAATCCATCTTCAAAGCG
1 TAGCTTGATCTCATCATTTAATCCACCTTCAAAGCG
* *
12860028 TAGCTTGATCTCGTCGTTTAATCCACCTTCAAA
1 TAGCTTGATCTCATCATTTAATCCACCTTCAAA
12860061 ACAAATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (36 bp):
TAGCTTGATCTCATCATTTAATCCACCTTCAAAGCG
Found at i:12863366 original size:18 final size:21
Alignment explanation
Indices: 12863334--12863374 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
12863324 CTAATGCAAT
12863334 ATATATATATGCATGC-TAAA
1 ATATATATATGCATGCATAAA
12863354 ATATA-ATAT-CATGCATAAA
1 ATATATATATGCATGCATAAA
12863373 AT
1 AT
12863375 TAGGGCATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATATATGCATGCATAAA
Found at i:12870783 original size:17 final size:17
Alignment explanation
Indices: 12870757--12870790 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12870747 TGCAAACCCA
12870757 TGTGGGCCCACA-AGCC
1 TGTGGGCCCACACAGCC
12870773 TGTGTGGCCCACACAGCC
1 TGTG-GGCCCACACAGCC
12870791 CAAAATGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.18, C:0.38, G:0.29, T:0.15
Consensus pattern (17 bp):
TGTGGGCCCACACAGCC
Found at i:12874150 original size:16 final size:17
Alignment explanation
Indices: 12874126--12874163 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12874116 AGATGAAGCC
* *
12874126 ATTTTGGTTTT-ATTTA
1 ATTTAGGTTTTAATTGA
12874142 ATTTAGGTTTTAATTGA
1 ATTTAGGTTTTAATTGA
12874159 ATTTA
1 ATTTA
12874164 TTCAATTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (17 bp):
ATTTAGGTTTTAATTGA
Found at i:12876568 original size:22 final size:21
Alignment explanation
Indices: 12876521--12876569 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
12876511 CATCCAGTTT
* * *
12876521 ATATTTTTTTTTGCAATCAAT
1 ATATTTTTTATTCCAATCAAG
*
12876542 TTATTTCTTTATTCCAATCAAG
1 ATATTT-TTTATTCCAATCAAG
12876564 ATATTT
1 ATATTT
12876570 ACTACTCTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (21 bp):
ATATTTTTTATTCCAATCAAG
Found at i:12877067 original size:19 final size:17
Alignment explanation
Indices: 12877043--12877078 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
12877033 TGATTGGTTT
12877043 ATTTATTTTTATTTCTTTA
1 ATTTA-TTTTATTT-TTTA
12877062 ATTTATTTTATTTTTTA
1 ATTTATTTTATTTTTTA
12877079 TCGCAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTATTTTATTTTTTA
Found at i:12896182 original size:21 final size:21
Alignment explanation
Indices: 12896151--12896237 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
12896141 AGAACACGTC
* *
12896151 AACAGAAGCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTG
* * *
12896172 AATAAAAGCTCATGAGAGCCG
1 AACAAAAGCTCATAAGAGCTG
* * *
12896193 AACAGAAGCTCGTGAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
12896214 AACAAAAGCTCATAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
12896235 AAC
1 AAC
12896238 CACCCAAATC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTG
Found at i:12896211 original size:42 final size:42
Alignment explanation
Indices: 12896151--12896237 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
12896141 AGAACACGTC
* *
12896151 AACAGAAGCTCATAAGAGCTAAATAAAAGCTCATGAGAGCCG
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCATAAGAGCCG
* * * *
12896193 AACAGAAGCTCGTGAGAGCTGAACAAAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTAAACAAAAGCTCATAAGAGCCG
12896235 AAC
1 AAC
12896238 CACCCAAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAGCTCATAAGAGCCG
Found at i:12897185 original size:11 final size:11
Alignment explanation
Indices: 12897169--12897207 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
12897159 ATTAAAGTGT
12897169 TTTAATTTCAC
1 TTTAATTTCAC
**
12897180 TTTAATTT-GT
1 TTTAATTTCAC
12897190 TTTAATTTCAC
1 TTTAATTTCAC
12897201 TTTAATT
1 TTTAATT
12897208 ACAAAATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTAATTTCAC
Found at i:12897190 original size:21 final size:21
Alignment explanation
Indices: 12897166--12897207 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12897156 GAAATTAAAG
12897166 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
12897187 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
12897208 ACAAAATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTAATT
Found at i:12898216 original size:41 final size:40
Alignment explanation
Indices: 12898177--12898437 Score: 254
Period size: 41 Copynumber: 6.4 Consensus size: 40
12898167 TAATCAAGGT
** *
12898177 CACGTATGTGCAATTCAGGAGTAGTGAAGTACAAACAAGGG
1 CACGTATGTGCAATTCAGG-GTACCGAAGTACAAACAGGGG
* * *
12898218 CACGTATGTGGAATTCAGTGGTACCGAATTACAATCAGGGG
1 CACGTATGTGCAATTCAG-GGTACCGAAGTACAAACAGGGG
* *
12898259 CACGTATGTGCAATGCAGAGGTACCGAAGTATAATA-AGGGG
1 CACGTATGTGCAATTCAG-GGTACCGAAGTACAA-ACAGGGG
* * * * * *
12898300 AACATCTGTGAAATTCAGGGGTACTGAAGTACAATCAGGGG
1 CACGTATGTGCAATTCA-GGGTACCGAAGTACAAACAGGGG
* * *
12898341 CACGTATATGCAATTCAAGGGTACCAAAATACAAACAGGGG
1 CACGTATGTGCAATTC-AGGGTACCGAAGTACAAACAGGGG
* * * *
12898382 CACATATGTGTAATTCAAGGGTATCGAAGTACAAAAAGGGG
1 CACGTATGTGCAATTC-AGGGTACCGAAGTACAAACAGGGG
*
12898423 CACATATGTGCAATT
1 CACGTATGTGCAATT
12898438 TATGGGATAA
Statistics
Matches: 178, Mismatches: 37, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
41 175 0.98
42 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (40 bp):
CACGTATGTGCAATTCAGGGTACCGAAGTACAAACAGGGG
Found at i:12898410 original size:123 final size:123
Alignment explanation
Indices: 12898181--12898437 Score: 320
Period size: 123 Copynumber: 2.1 Consensus size: 123
12898171 CAAGGTCACG
* * * *
12898181 TATGTGCAATTCAGGAGTAGTGAAGTACAAACAAGGGCACGTATGTGGAATTCAGTGGTACCGAA
1 TATGTGCAATTCAGGAGTACTGAAGTACAAACAAGGGCACGTATATGCAATTCAGTGGTACCAAA
* * * * *
12898246 TTACAATCAGGGGCACGTATGTGCAATGCAGAGGTACCGAAGTATAATAAGGGGAACA
66 ATACAAACAGGGGCACATATGTGCAATGCAGAGGTACCGAAGTACAAAAAGGGGAACA
* * * * *
12898304 TCTGTGAAATTCAGGGGTACTGAAGTACAATCAGGGGCACGTATATGCAATTCAAG-GGTACCAA
1 TATGTGCAATTCAGGAGTACTGAAGTACAAACAAGGGCACGTATATGCAATTC-AGTGGTACCAA
* * * *
12898368 AATACAAACAGGGGCACATATGTGTAATTCA-AGGGTATCGAAGTACAAAAAGGGGCACA
65 AATACAAACAGGGGCACATATGTGCAATGCAGA-GGTACCGAAGTACAAAAAGGGGAACA
12898427 TATGTGCAATT
1 TATGTGCAATT
12898438 TATGGGATAA
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
122 1 0.01
123 109 0.97
124 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (123 bp):
TATGTGCAATTCAGGAGTACTGAAGTACAAACAAGGGCACGTATATGCAATTCAGTGGTACCAAA
ATACAAACAGGGGCACATATGTGCAATGCAGAGGTACCGAAGTACAAAAAGGGGAACA
Found at i:12928744 original size:26 final size:26
Alignment explanation
Indices: 12928714--12928765 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
12928704 TACTTAGTGG
12928714 ACAAAGATGAACACCATTTAAGTGAT
1 ACAAAGATGAACACCATTTAAGTGAT
* *
12928740 ACAAAGATGGACATCATTTAAGTGAT
1 ACAAAGATGAACACCATTTAAGTGAT
12928766 TTTTAAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.25
Consensus pattern (26 bp):
ACAAAGATGAACACCATTTAAGTGAT
Found at i:12930924 original size:12 final size:12
Alignment explanation
Indices: 12930909--12930938 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
12930899 TCAGGTTGTT
12930909 ACACGGCCTAGC
1 ACACGGCCTAGC
12930921 ACACGGCCTAGC
1 ACACGGCCTAGC
12930933 ACACGG
1 ACACGG
12930939 GCAAGTGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.40, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:12932489 original size:24 final size:24
Alignment explanation
Indices: 12932461--12932516 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
12932451 GGGGAGTTGG
* * *
12932461 AGGAGAAATTAGTGGAGTGATTCT
1 AGGAGAAATAAGGGGAGAGATTCT
** *
12932485 AGGAGGGATAAGGGGAGAGATTTT
1 AGGAGAAATAAGGGGAGAGATTCT
12932509 AGGAGAAA
1 AGGAGAAA
12932517 ATCAAGGAGT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.39, T:0.21
Consensus pattern (24 bp):
AGGAGAAATAAGGGGAGAGATTCT
Found at i:12933546 original size:27 final size:27
Alignment explanation
Indices: 12933507--12933777 Score: 217
Period size: 27 Copynumber: 10.0 Consensus size: 27
12933497 AGTTTGTGGG
** *
12933507 AAAATGATTGAAATACCCTCCAAAGGT
1 AAAATGACCGAAATACCCTCCAAGGGT
*
12933534 AAAATGACCGAAATACCC-CCGATGGGT
1 AAAATGACCGAAATACCCTCC-AAGGGT
** **
12933561 AAAATGACCGAAATACCCTTGAAGTAT
1 AAAATGACCGAAATACCCTCCAAGGGT
* * ***
12933588 AAAATGACCAAAATACCCTCGAAATAT
1 AAAATGACCGAAATACCCTCCAAGGGT
* ** *
12933615 AAAATGACCAAAATACCCTTGAAAGGT
1 AAAATGACCGAAATACCCTCCAAGGGT
* * *
12933642 AAAGTGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCCAAGGGT
** * *
12933669 AAAATGATAGAAATACCATCTAAGGGT
1 AAAATGACCGAAATACCCTCCAAGGGT
12933696 AAAATGACCGAAATA-CCTCCGAAGGGT
1 AAAATGACCGAAATACCCTCC-AAGGGT
* * *
12933723 AAAATGACCTAAACACCC-CTAGAGGGT
1 AAAATGACCGAAATACCCTCCA-AGGGT
**
12933750 AAAATGAATGAAATACCC-CCGAAGGGT
1 AAAATGACCGAAATACCCTCC-AAGGGT
12933777 A
1 A
12933778 TGATATATAT
Statistics
Matches: 202, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.03
27 193 0.96
28 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCCAAGGGT
Found at i:12933591 original size:54 final size:53
Alignment explanation
Indices: 12933507--12933777 Score: 263
Period size: 54 Copynumber: 5.0 Consensus size: 53
12933497 AGTTTGTGGG
** * * *
12933507 AAAATGATTGAAATACCCTCCAAAGGTAAAATGACCGAAATACCCCCGATGGGT
1 AAAATGACCGAAATACCCT-TAAGGGTAAAATGACCGAAATACCCCCGAAGGGT
** * * ***
12933561 AAAATGACCGAAATACCCTTGAAGTATAAAATGACCAAAATACCCTCGAAATAT
1 AAAATGACCGAAATACCCTT-AAGGGTAAAATGACCGAAATACCCCCGAAGGGT
* * * * *
12933615 AAAATGACCAAAATACCCTTGAAAGGTAAAGTGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTT-AAGGGTAAAATGACCGAAATACCCCCGAAGGGT
** * *
12933669 AAAATGATAGAAATACCATCTAAGGGTAAAATGACCGAAATACCTCCGAAGGGT
1 AAAATGACCGAAATACCCT-TAAGGGTAAAATGACCGAAATACCCCCGAAGGGT
* * * **
12933723 AAAATGACCTAAACACCCCTAGAGGGTAAAATGAATGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCTTA-AGGGTAAAATGACCGAAATACCCCCGAAGGGT
12933777 A
1 A
12933778 TGATATATAT
Statistics
Matches: 176, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.01
54 173 0.98
55 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (53 bp):
AAAATGACCGAAATACCCTTAAGGGTAAAATGACCGAAATACCCCCGAAGGGT
Found at i:12933749 original size:81 final size:80
Alignment explanation
Indices: 12933507--12933767 Score: 267
Period size: 81 Copynumber: 3.2 Consensus size: 80
12933497 AGTTTGTGGG
* * *
12933507 AAAATGATTGAAATACCCTCCAAAGGTAAAATGACCGAAATACCCCCGATGGGTAAAATGACCGA
1 AAAATGATAGAAATACCCTCCAAAGGTAAAATGACCGAAATA-CCCCGAAGGGTAAAATGACCAA
* **
12933572 AATACCCTTGAAGTAT
65 AATACCCTAGAAGGGT
* * ** * * * *
12933588 AAAATGACCA-AAATACCCTCGAAATATAAAATGACCAAAATACCCTTGAAAGGTAAAGTGACCA
1 AAAATGA-TAGAAATACCCTCCAAAGGTAAAATGACCGAAATACCC-CGAAGGGTAAAATGACCA
*
12933652 AAATACCCTCGAAGGGT
64 AAATACCCTAGAAGGGT
* * * *
12933669 AAAATGATAGAAATACCATCTAAGGGTAAAATGACCGAAATACCTCCGAAGGGTAAAATGACCTA
1 AAAATGATAGAAATACCCTCCAAAGGTAAAATGACCGAAATACC-CCGAAGGGTAAAATGACCAA
*
12933734 AACACCCCTAG-AGGGT
65 AATA-CCCTAGAAGGGT
12933750 AAAATGA-ATGAAATACCC
1 AAAATGATA-GAAATACCC
12933768 CCGAAGGGTA
Statistics
Matches: 146, Mismatches: 28, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
80 5 0.03
81 135 0.92
82 6 0.04
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (80 bp):
AAAATGATAGAAATACCCTCCAAAGGTAAAATGACCGAAATACCCCGAAGGGTAAAATGACCAAA
ATACCCTAGAAGGGT
Found at i:12934750 original size:14 final size:15
Alignment explanation
Indices: 12934727--12934759 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12934717 TACAAGTTAG
12934727 TTTAAGTTAGTTTAA
1 TTTAAGTTAGTTTAA
*
12934742 TTTAA-TTAGTTTTA
1 TTTAAGTTAGTTTAA
12934756 TTTA
1 TTTA
12934760 TATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTAAGTTAGTTTAA
Found at i:12936233 original size:17 final size:17
Alignment explanation
Indices: 12936191--12936234 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
12936181 TGGTCCAAAA
12936191 TTAT-ATATATATTAAT
1 TTATAATATATATTAAT
12936207 TTATAATATA-ATTAAT
1 TTATAATATATATTAAT
*
12936223 TT-TAATTTATAT
1 TTATAATATATAT
12936235 CCAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 6 0.24
16 14 0.56
17 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATAATATATATTAAT
Found at i:12936311 original size:14 final size:14
Alignment explanation
Indices: 12936292--12936318 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12936282 ATGGTCCAGT
12936292 TGAACTGAACCGAG
1 TGAACTGAACCGAG
12936306 TGAACTGAACCGA
1 TGAACTGAACCGA
12936319 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:12967109 original size:60 final size:60
Alignment explanation
Indices: 12967016--12967137 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
12967006 CCGACTTGGG
*
12967016 TAAACGAATGGATGAGGACCAATAGCGTATGATGGAGGCTCAATTAGCTAATTTAACGGC
1 TAAACGAATGGATGAGGACCAATAGAGTATGATGGAGGCTCAATTAGCTAATTTAACGGC
12967076 TAAACGAATGGATGAGGACCAATAGAGTATGATGGAGGCTCAATTAGCTAATTTAACGGC
1 TAAACGAATGGATGAGGACCAATAGAGTATGATGGAGGCTCAATTAGCTAATTTAACGGC
12967136 TA
1 TA
12967138 TGGTAAGAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (60 bp):
TAAACGAATGGATGAGGACCAATAGAGTATGATGGAGGCTCAATTAGCTAATTTAACGGC
Found at i:12969920 original size:23 final size:23
Alignment explanation
Indices: 12969889--12969936 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
12969879 GCTGTGTAAG
12969889 GATGCCGCATTTGAATTTAATGA
1 GATGCCGCATTTGAATTTAATGA
*
12969912 GATGTCGCATTTGAATTTAATGA
1 GATGCCGCATTTGAATTTAATGA
12969935 GA
1 GA
12969937 ATTGCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (23 bp):
GATGCCGCATTTGAATTTAATGA
Found at i:12974003 original size:28 final size:28
Alignment explanation
Indices: 12973961--12974194 Score: 291
Period size: 28 Copynumber: 8.4 Consensus size: 28
12973951 CTATTTAGTG
*
12973961 ACAGT-ACAGTATGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
12973988 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
12974016 ACAGTAACAGTGTGGGCTTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
12974044 ACAG-AATTAGTGTGGGCCTTAGCCAAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
* *
12974072 ACAG-AATTAGTGTAGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
12974100 ACAG-AATCAGTGTGGGCCTTAGTCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
12974128 ACAGTGACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
12974156 ACAG-AATCAGTGTAGGCGTTA-CTCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
12974183 ACAGTAACAGTG
1 ACAGTAACAGTG
12974195 CAATGCAATA
Statistics
Matches: 186, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
27 22 0.12
28 163 0.88
29 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:12974056 original size:56 final size:56
Alignment explanation
Indices: 12973961--12974194 Score: 323
Period size: 56 Copynumber: 4.2 Consensus size: 56
12973951 CTATTTAGTG
*
12973961 ACAGT-ACAGTATGGGCCTTAGCCCAATACAGTAA-CAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAATACAG-AATCAGTGTGGGCCTTAGCCCAAT
* * *
12974016 ACAGTAACAGTGTGGGCTTTAGCCCAATACAGAATTAGTGTGGGCCTTAGCCAAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAAT
* * *
12974072 ACAG-AATTAGTGTAGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGTCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAAT
* * * *
12974128 ACAGTGACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTAGGCGTTA-CTCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAAT
12974183 ACAGTAACAGTG
1 ACAGTAACAGTG
12974195 CAATGCAATA
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
55 24 0.15
56 132 0.84
57 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (56 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAAT
Found at i:12974611 original size:27 final size:27
Alignment explanation
Indices: 12974581--12974738 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 27
12974571 CCATAACAGA
***
12974581 CATTTTACCCTATAAAGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGAT
* *
12974608 CATTTTACCCTATGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGAT
* *
12974635 CATTTTATCCTATGGGGGTATTTTGAT
1 CATTTTACCCTATGGGGGTATTTCGAT
* *
12974662 CATTTTACCATATGGTGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGAT
* *
12974689 AATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGAT
*
12974716 CATTTTATCCTATGGGGGTATTT
1 CATTTTACCCTATGGGGGTATTT
12974739 TAGTCATTTT
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCGAT
Found at i:12974716 original size:81 final size:81
Alignment explanation
Indices: 12974597--12974748 Score: 270
Period size: 81 Copynumber: 1.9 Consensus size: 81
12974587 ACCCTATAAA
*
12974597 GGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTT-GA
1 GGTATTTCGATAATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTAG-
12974661 TCATTTTACCATATGGT
65 TCATTTTACCATATGGT
*
12974678 GGTATTTCGATAATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTAGT
1 GGTATTTCGATAATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTAGT
12974743 CATTTT
66 CATTTT
12974749 CATCTATTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
81 67 0.99
82 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.45
Consensus pattern (81 bp):
GGTATTTCGATAATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTAGT
CATTTTACCATATGGT
Found at i:12974744 original size:27 final size:26
Alignment explanation
Indices: 12974597--12974809 Score: 174
Period size: 27 Copynumber: 7.9 Consensus size: 26
12974587 ACCCTATAAA
* * *
12974597 GGTATTTCGATCATTTTACCCTATGAG
1 GGTATTTTGGTCATTTTA-CCTATGGG
*
12974624 GGTATTTCGGTCATTTTATCCTATGGG
1 GGTATTTTGGTCATTTTA-CCTATGGG
* *
12974651 GGTATTTTGATCATTTTACCATATGGT
1 GGTATTTTGGTCATTTTACC-TATGGG
* * *
12974678 GGTATTTCGATAATTTTACCCTATGGG
1 GGTATTTTGGTCATTTTA-CCTATGGG
*
12974705 GGTATTTCGGTCATTTTATCCTATGGG
1 GGTATTTTGGTCATTTTA-CCTATGGG
* * *
12974732 GGTATTTTAGTCATTTTCATCTATTTGG
1 GGTATTTTGGTCATTTT-ACCTA-TGGG
*** * * *
12974760 GGTAAAATAGTCATTTTACACTTTAGG
1 GGTATTTTGGTCATTTTAC-CTATGGG
*
12974787 GGTATTTTGGTAATTTTACCTAT
1 GGTATTTTGGTCATTTTACCTAT
12974810 TTTGGGGCTT
Statistics
Matches: 153, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
26 5 0.03
27 126 0.82
28 22 0.14
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (26 bp):
GGTATTTTGGTCATTTTACCTATGGG
Found at i:12982218 original size:22 final size:22
Alignment explanation
Indices: 12982188--12982238 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
12982178 CATCTGTGTT
* *
12982188 ATCAATGACAATTTATATGTAA
1 ATCAGTGACAATTTATATGCAA
*
12982210 ATCAGTGACAATTTATCTGCAA
1 ATCAGTGACAATTTATATGCAA
12982232 ATCAGTG
1 ATCAGTG
12982239 GTGGCTTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCAGTGACAATTTATATGCAA
Found at i:12990623 original size:18 final size:19
Alignment explanation
Indices: 12990587--12990624 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
12990577 ACCTGTCATC
* *
12990587 TTAAGCATATAATTTGAAT
1 TTAAGCATATAACTAGAAT
12990606 TTAA-CATATAACTAGAAT
1 TTAAGCATATAACTAGAAT
12990624 T
1 T
12990625 CCATGCCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
TTAAGCATATAACTAGAAT
Found at i:13003024 original size:20 final size:19
Alignment explanation
Indices: 13002999--13003048 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13002989 GATCTATTTG
13002999 TGAAAAATA-GTGAAATAGAA
1 TGAAAAATATGTGAAAT-G-A
13003019 TG-AAAATAATGTGAAATGA
1 TGAAAAAT-ATGTGAAATGA
13003038 TGAAAAATATG
1 TGAAAAATATG
13003049 GGTTGTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 11 0.41
20 9 0.33
21 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (19 bp):
TGAAAAATATGTGAAATGA
Found at i:13021555 original size:114 final size:115
Alignment explanation
Indices: 13021354--13021584 Score: 455
Period size: 114 Copynumber: 2.0 Consensus size: 115
13021344 TTTTTAAAAT
13021354 TAATAAATGTAAATTAAATATAATTATTTTTTTTATAATCACACGTGTTTTCATCCGTTTTATAG
1 TAATAAATGTAAATTAAATATAATTATTTTTTTTATAATCACACGTGTTTTCATCCGTTTTATAG
13021419 CTTAGGATCAATCTAGTTCGGGCCAGAGTATTTCAGTAAAGCTCTCCCAA
66 CTTAGGATCAATCTAGTTCGGGCCAGAGTATTTCAGTAAAGCTCTCCCAA
13021469 TAATAAATGT-AATTAAATATAATTATTTTTTTTATAATCACACGTGTTTTCATCCGTTTTATAG
1 TAATAAATGTAAATTAAATATAATTATTTTTTTTATAATCACACGTGTTTTCATCCGTTTTATAG
13021533 CTTAGGATCAATCTAGTTCGGGCCAGAGTATTTCAGTAAAGCTCTCCCAA
66 CTTAGGATCAATCTAGTTCGGGCCAGAGTATTTCAGTAAAGCTCTCCCAA
13021583 TA
1 TA
13021585 GTGGCAAAGC
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 106 0.91
115 10 0.09
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (115 bp):
TAATAAATGTAAATTAAATATAATTATTTTTTTTATAATCACACGTGTTTTCATCCGTTTTATAG
CTTAGGATCAATCTAGTTCGGGCCAGAGTATTTCAGTAAAGCTCTCCCAA
Found at i:13022130 original size:18 final size:19
Alignment explanation
Indices: 13022098--13022134 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
13022088 CTTTTATATA
13022098 GATTATAAATATTAAACTT
1 GATTATAAATATTAAACTT
*
13022117 GATTA-AAATGTTAAACTT
1 GATTATAAATATTAAACTT
13022135 AGTTTCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
GATTATAAATATTAAACTT
Found at i:13029547 original size:23 final size:23
Alignment explanation
Indices: 13029517--13029579 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
13029507 TTTGAACCAT
**
13029517 TACCATTTCGTACCAAATCGTAA
1 TACCATTTCGTACCAAATCACAA
* *
13029540 TACCATTTCGAACCAAATCACAT
1 TACCATTTCGTACCAAATCACAA
*
13029563 TACCATTTCGTAACAAA
1 TACCATTTCGTACCAAA
13029580 CCTAAACTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (23 bp):
TACCATTTCGTACCAAATCACAA
Found at i:13049055 original size:4 final size:4
Alignment explanation
Indices: 13049046--13049075 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13049036 TATTTTAGAT
13049046 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
13049076 TTAGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:13051780 original size:61 final size:61
Alignment explanation
Indices: 13051706--13051827 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
13051696 TCTGCGAAAA
* *
13051706 ATTCCCTATGATTCTGATTTAATCCCAGTAGGTTCCTAATAAATGTTTTGGGCTTTGAGAG
1 ATTCCCTATGATTCTGATTTAATCCCAGTAGGCTCCTAATAAATGTTTTGGGCTTCGAGAG
13051767 ATTCCCTATGATTCTGATTTAATCCCAGTAGGCTCCTAATAAATGTTTTGGGCTTCGAGAG
1 ATTCCCTATGATTCTGATTTAATCCCAGTAGGCTCCTAATAAATGTTTTGGGCTTCGAGAG
13051828 CCCAATAGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (61 bp):
ATTCCCTATGATTCTGATTTAATCCCAGTAGGCTCCTAATAAATGTTTTGGGCTTCGAGAG
Found at i:13060861 original size:20 final size:20
Alignment explanation
Indices: 13060804--13060861 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
13060794 GCATTTTCTA
*
13060804 GGCCTAATTTGATAATTTTT
1 GGCCTAATTCGATAATTTTT
13060824 GGCC-AATTC-AT--TTTTT
1 GGCCTAATTCGATAATTTTT
*
13060840 GGCCTAATTCGATAAATTTT
1 GGCCTAATTCGATAATTTTT
13060860 GG
1 GG
13060862 AAAATTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 9 0.28
17 5 0.16
18 4 0.12
19 4 0.12
20 10 0.31
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (20 bp):
GGCCTAATTCGATAATTTTT
Found at i:13062374 original size:26 final size:26
Alignment explanation
Indices: 13062341--13062439 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
13062331 AATATCACAT
* *
13062341 CAAAGCTGCCAGTAATAGTATTGCAG
1 CAAAGCTGCCAGTAACAGTATCGCAG
*
13062367 CAATGCTGCCAGTAACAGTATCGCAG
1 CAAAGCTGCCAGTAACAGTATCGCAG
* *
13062393 CAAAGCTACCTGTAACAGTATCGCAG
1 CAAAGCTGCCAGTAACAGTATCGCAG
13062419 CAAAGCTGCCAGTAACAGTAT
1 CAAAGCTGCCAGTAACAGTAT
13062440 ACTTCCTCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTATCGCAG
Found at i:13062622 original size:27 final size:28
Alignment explanation
Indices: 13062592--13062912 Score: 195
Period size: 27 Copynumber: 11.9 Consensus size: 28
13062582 TCATCTCTTA
* *
13062592 GGGGTATAAT-AGTCATTTTACCTTATG
1 GGGGTATATTCAGTCATTTTACCCTATG
* * *
13062619 GGGGTATTTTGA-TTATTTTACCCTATG
1 GGGGTATATTCAGTCATTTTACCCTATG
* **
13062646 GGAGTAT-TTTGGTCATTTTACCCTATG
1 GGGGTATATTCAGTCATTTTACCCTATG
*
13062673 GGGGTA-ATTCGGTCATTTTACCCTATG
1 GGGGTATATTCAGTCATTTTACCCTATG
* * *
13062700 AGGGTA-ATTCAGTTATTTTACCCTATA
1 GGGGTATATTCAGTCATTTTACCCTATG
* * *
13062727 GGGATAT-TTCAATCATTTTACCTTATG
1 GGGGTATATTCAGTCATTTTACCCTATG
* *
13062754 GGGGTAT-TTCGGTCATTTTACCCTTTG
1 GGGGTATATTCAGTCATTTTACCCTATG
* ** *
13062781 AGGGTAT-TTTGGTCATTTTATCCT-TCG
1 GGGGTATATTCAGTCATTTTACCCTAT-G
* * *
13062808 AGGGTAT-TTCGGTCATTTTACCCT-TCA
1 GGGGTATATTCAGTCATTTTACCCTAT-G
* ** * * *
13062835 AGGGTAT-TTTGGTCATTTTATCATTTG
1 GGGGTATATTCAGTCATTTTACCCTATG
* *
13062862 GGGGTAT-TTC-GATCATTTTACCTTTTG
1 GGGGTATATTCAG-TCATTTTACCCTATG
* * *
13062889 AGGGTAT-TTCGGTTATTTTACCCT
1 GGGGTATATTCAGTCATTTTACCCT
13062913 TCAAGTGTAT
Statistics
Matches: 244, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.02
27 237 0.97
28 3 0.01
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (28 bp):
GGGGTATATTCAGTCATTTTACCCTATG
Found at i:13062691 original size:54 final size:53
Alignment explanation
Indices: 13062603--13062912 Score: 293
Period size: 54 Copynumber: 5.8 Consensus size: 53
13062593 GGGTATAATA
* * * * * *
13062603 GTCATTTTACCTTATGGGGGTATTTTGATTATTTTACCCTATGGGAGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGG-GTATTTCG
* * * *
13062657 GTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGAGGGTAATTCA
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTCG
* ** *
13062711 GTTATTTTACCCTAT-AGGGATATTTCAATCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGG-TATTTCGGTCATTTTACCCTAT-GGGGTATTTCG
* * *
13062765 GTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTATCCT-TCGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-G-GGGTATTTCG
* * * * *
13062819 GTCATTTTACCCT-TCAAGGGTATTTTGGTCATTTTATCATTTGGGGGTATTTCG
1 GTCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCG
* * * *
13062873 ATCATTTTACCTTTTGAGGGTATTTCGGTTATTTTACCCT
1 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCT
13062913 TCAAGTGTAT
Statistics
Matches: 214, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
53 6 0.03
54 198 0.93
55 10 0.05
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (53 bp):
GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCG
Found at i:13062840 original size:81 final size:80
Alignment explanation
Indices: 13062603--13062935 Score: 300
Period size: 81 Copynumber: 4.1 Consensus size: 80
13062593 GGGTATAATA
* * * *
13062603 GTCATTTTA-CCTTATGGGGGTATTTTGATTATTTTACCCTATG-GGAGTATTTTGGTCATTTTA
1 GTCATTTTACCCTT-TGAGGGTATTTCGATCATTTTACCCTATGAGG-GTATTTCGGTCATTTTA
** *
13062666 CCCTATGGGGGTAATTCG
64 CCCT-TAAGGGTATTTCG
* * * **
13062684 GTCATTTTACCCTATGAGGGTAATTC-AGTTATTTTACCCTAT-AGGGATATTTCAATCATTTTA
1 GTCATTTTACCCTTTGAGGGTATTTCGA-TCATTTTACCCTATGAGGG-TATTTCGGTCATTTTA
*
13062747 -CCTTATGGGGGTATTTCG
64 CCCTTA--AGGGTATTTCG
* * *
13062765 GTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTATCCT-TCGAGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTAC
*
13062829 CCTTCAAGGGTATTTTG
65 CCTT-AAGGGTATTTCG
* * * * * *
13062846 GTCATTTTATCATTTGGGGGTATTTCGATCATTTTACCTTTTGAGGGTATTTCGGTTATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
* *
13062911 CTTCAAGTGTATTTCA
66 CTT-AAGGGTATTTCG
*
13062927 ATCATTTTA
1 GTCATTTTA
13062936 GGCCCATTAC
Statistics
Matches: 209, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
79 1 0.00
80 6 0.03
81 189 0.90
82 12 0.06
83 1 0.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (80 bp):
GTCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
CTTAAGGGTATTTCG
Found at i:13062922 original size:27 final size:27
Alignment explanation
Indices: 13062633--13062935 Score: 251
Period size: 27 Copynumber: 11.2 Consensus size: 27
13062623 TATTTTGATT
*
13062633 ATTTTACCCTAT-G-GGAGTATTTTGGTC
1 ATTTTACCCT-TCGAGG-GTATTTCGGTC
* *
13062660 ATTTTACCCTAT-GGGGGTAATTCGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTC
* * *
13062687 ATTTTACCCTAT-GAGGGTAATTCAGTT
1 ATTTTACCCT-TCGAGGGTATTTCGGTC
**
13062714 ATTTTACCCTAT--AGGGATATTTCAATC
1 ATTTTACCCT-TCGAGGG-TATTTCGGTC
* *
13062741 ATTTTA-CCTTATGGGGGTATTTCGGTC
1 ATTTTACCCTT-CGAGGGTATTTCGGTC
* *
13062768 ATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
13062795 ATTTTATCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
13062822 ATTTTACCCTTCAAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * * * *
13062849 ATTTTATCATTTGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
13062876 ATTTTACCTTTTGAGGGTATTTCGGTT
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * **
13062903 ATTTTACCCTTCAAGTGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
13062930 ATTTTA
1 ATTTTA
13062936 GGCCCATTAC
Statistics
Matches: 232, Mismatches: 38, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
25 1 0.00
26 7 0.03
27 215 0.93
28 9 0.04
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:13064577 original size:16 final size:16
Alignment explanation
Indices: 13064556--13064606 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
13064546 TCAAAATTAC
13064556 AAATCAATTATATCAT
1 AAATCAATTATATCAT
* *
13064572 AAATCAATTAT-TAAA
1 AAATCAATTATATCAT
*
13064587 ATAATCAATCATATCAT
1 A-AATCAATTATATCAT
13064604 AAA
1 AAA
13064607 CATTCAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATCAATTATATCAT
Found at i:13068261 original size:51 final size:50
Alignment explanation
Indices: 13068196--13068447 Score: 314
Period size: 50 Copynumber: 5.0 Consensus size: 50
13068186 ATTAATGATA
* * *
13068196 CCGGTTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-T
* * *
13068247 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CT-T
* * *
13068298 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGATCA-TT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTT
* *
13068348 CCGGTACACGTAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-TT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTT
*
13068398 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTT
13068448 TCACTTTCAC
Statistics
Matches: 176, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
49 4 0.02
50 91 0.52
51 78 0.44
52 2 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTT
Found at i:13072795 original size:289 final size:290
Alignment explanation
Indices: 13072276--13072856 Score: 889
Period size: 289 Copynumber: 2.0 Consensus size: 290
13072266 AATTTAACTC
* *
13072276 ATTTTGGAAAACTGTGGTCACACTTGAGTTAGTTTGAAAAATATTCATTTATTGAACCATCTATT
1 ATTTTGGAAAACTATAGTCACACTTGAGTTAGTTTGAAAAATATTCATTTATTGAACCATCTATT
* * * *
13072341 CTGAAGTCTCATTTTTATTATTGATAGTGATGTTTATAGAAACCCGTTGTTTGTTGCTTTGTTTT
66 CTGAAGCCTCATTTTTATTATTGATAGTGAGGTTTATAGAAACCCGTTGTTTGTCGCTTAGTTTT
* * * *
13072406 GCAAAATTTTGTTTTCTTTCAAAATAGTGGAAAAATACTATTCATGTCAGATTTTAATTAGGTCG
131 ACAAAATTTTGTTATCTTTCAAAATAGTAGAAAAACACTATTCATGTCAGATTTTAATTAGGTCG
* * * *
13072471 TGTAACATGCATTTTTCGATTAACATATATAATCAACAAGTTTGAATAATGCATGCATAAAACCC
196 AGTAACATGCATTTTTCGATTAAAATATATAATCAACAAGTTTCAATAATACATGCATAAAACCC
*
13072536 AAATCCAAAAA-CCCATACCACAGTCCAAA
261 AAATCCAAAAACCCCAAACCACAGTCCAAA
** *
13072565 ATTTTGGAAAACTATAGTTGCACTTGAGTTAGTTTGAAAAATATTCATTTATTGAGCCATCTATT
1 ATTTTGGAAAACTATAGTCACACTTGAGTTAGTTTGAAAAATATTCATTTATTGAACCATCTATT
* *
13072630 CTTAAGCCTCATTTTTATTATTGATAGTGAGGTTTTTAGAAACCCGTTGTTTGTCGCTTAGTTTT
66 CTGAAGCCTCATTTTTATTATTGATAGTGAGGTTTATAGAAACCCGTTGTTTGTCGCTTAGTTTT
* *
13072695 ATAAAATTTTGTTATCTTTCAAAGTAAG-AGAAAAACACTATTCATGTCAGATTTTAATTAGGTC
131 ACAAAATTTTGTTATCTTTCAAAAT-AGTAGAAAAACACTATTCATGTCAGATTTTAATTAGGTC
* ***
13072759 GAGTAACATGCA-TTTTCTGGTTAAAATATATAATCAATGTGTTTCAATAATACATGCATAAAAC
195 GAGTAACATGCATTTTTC-GATTAAAATATATAATCAACAAGTTTCAATAATACATGCATAAAAC
13072823 CCAAATCCAAAAACCCCAAACCACAGTCCAAA
259 CCAAATCCAAAAACCCCAAACCACAGTCCAAA
13072855 AT
1 AT
13072857 GATATTTTAC
Statistics
Matches: 263, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
288 5 0.02
289 237 0.90
290 21 0.08
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (290 bp):
ATTTTGGAAAACTATAGTCACACTTGAGTTAGTTTGAAAAATATTCATTTATTGAACCATCTATT
CTGAAGCCTCATTTTTATTATTGATAGTGAGGTTTATAGAAACCCGTTGTTTGTCGCTTAGTTTT
ACAAAATTTTGTTATCTTTCAAAATAGTAGAAAAACACTATTCATGTCAGATTTTAATTAGGTCG
AGTAACATGCATTTTTCGATTAAAATATATAATCAACAAGTTTCAATAATACATGCATAAAACCC
AAATCCAAAAACCCCAAACCACAGTCCAAA
Found at i:13076906 original size:3 final size:3
Alignment explanation
Indices: 13076898--13076949 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
13076888 TCATTGTCCC
* * *
13076898 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT TAT CAT TAT CTT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
13076946 CAT C
1 CAT C
13076950 TCCGTCTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:13076971 original size:30 final size:30
Alignment explanation
Indices: 13076937--13077017 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
13076927 TCATCATTAT
* *
13076937 CATTATCTTCATCTCCGTCTTTACCTCCAA
1 CATTATCTTCATCTCCATCTTCACCTCCAA
* *
13076967 CATTATCTTCATCTCCATCTTCACCTCTAG
1 CATTATCTTCATCTCCATCTTCACCTCCAA
* *
13076997 CGTTATCTTCATCTTCATCTT
1 CATTATCTTCATCTCCATCTT
13077018 GTTCTTTCGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.19, C:0.35, G:0.04, T:0.43
Consensus pattern (30 bp):
CATTATCTTCATCTCCATCTTCACCTCCAA
Found at i:13078895 original size:20 final size:20
Alignment explanation
Indices: 13078863--13078905 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
13078853 AAAAAATTTT
13078863 AAAATATATAATAGT-ATTA
1 AAAATATATAATAGTAATTA
*
13078882 AAAATATAATAATATTAATTA
1 AAAATAT-ATAATAGTAATTA
13078903 AAA
1 AAA
13078906 TAAAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATATAATAGTAATTA
Found at i:13078907 original size:20 final size:18
Alignment explanation
Indices: 13078861--13078899 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
13078851 ATAAAAAATT
13078861 TTAAAATATATAATAGTA
1 TTAAAATATATAATAGTA
*
13078879 TTAAAA-ATATAATAATA
1 TTAAAATATATAATAGTA
13078896 TTAA
1 TTAA
13078900 TTAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAAAATATATAATAGTA
Found at i:13078920 original size:20 final size:21
Alignment explanation
Indices: 13078862--13078920 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 21
13078852 TAAAAAATTT
13078862 TAAAATATATAATAGTATTAAAAA
1 TAAAA-ATATAATA--ATTAAAAA
* *
13078886 T-ATAATAATATTAATT-AAAA
1 TAAAAAT-ATAATAATTAAAAA
13078906 TAAAAATATAATAAT
1 TAAAAATATAATAAT
13078921 ATTTTCTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
20 12 0.41
21 7 0.24
22 2 0.07
23 7 0.24
24 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATATAATAATTAAAAA
Found at i:13079571 original size:340 final size:341
Alignment explanation
Indices: 13078940--13079620 Score: 1355
Period size: 340 Copynumber: 2.0 Consensus size: 341
13078930 CCATTTATAA
13078940 TTGGACAACGAATATATGCTTGCGATCTAAACCAGTTAGAGGCATTGACATTTTAAAACATGTAA
1 TTGGACAACGAATATATGCTTGCGATCTAAACCAGTTAGAGGCATTGACATTTTAAAACATGTAA
13079005 CATTTATCAAATCAAATAAGATTAATTAATTTAGAAAAAGAAAAAAACTAAAAAAATATAATATT
66 CATTTATCAAATCAAATAAGATTAATTAATTTAGAAAAAGAAAAAAACTAAAAAAATATAATATT
13079070 ATTAAATTACCACTAAAGTAACAATTTATTTAACGTAAAAAATCGCTAAACCTATTAAAAGAATA
131 ATTAAATTACCACTAAAGTAACAATTTATTTAACGTAAAAAATCGCTAAACCTATTAAAAGAATA
13079135 AGTCACCTTATTTTACGAAATATTTGAGATGATGAAAATTGAATAAAATAAAGAAATTACTAACC
196 AGTCACCTTATTTTACGAAATATTTGAGATGATGAAAATTGAATAAAATAAAGAAATTACTAACC
13079200 GTTAAGAGAAGAAATTTGTTTACAGAAAATTAAGGTATTAAGATAAAAAAAATTAAGAGAAAAAG
261 GTTAAGAGAAGAAATTTGTTTACAGAAAATTAAGGTATTAAGATAAAAAAAATTAAGAGAAAAAG
13079265 AGTTTGAAATTGAGGC
326 AGTTTGAAATTGAGGC
13079281 TTGGACAACG-ATATATGCTTGCGATCTAAACCAGTTAGAGGCATTGACATTTTAAAACATGTAA
1 TTGGACAACGAATATATGCTTGCGATCTAAACCAGTTAGAGGCATTGACATTTTAAAACATGTAA
13079345 CATTTATCAAATCAAATAAGATTAATTAATTTAGAAAAAGAAAAAAACTAAAAAAATATAATATT
66 CATTTATCAAATCAAATAAGATTAATTAATTTAGAAAAAGAAAAAAACTAAAAAAATATAATATT
13079410 ATTAAATTACCACTAAAGTAACAATTTATTTAACGTAAAAAATCGCTAAACCTATTAAAAGAATA
131 ATTAAATTACCACTAAAGTAACAATTTATTTAACGTAAAAAATCGCTAAACCTATTAAAAGAATA
13079475 AGTCACCTTATTTTACGAAATATTTGAGATGATGAAAATTGAATAAAATAAAGAAATTACTAACC
196 AGTCACCTTATTTTACGAAATATTTGAGATGATGAAAATTGAATAAAATAAAGAAATTACTAACC
13079540 GTTAAGAGAAGAAATTTGTTTACAGAAAATTAAGGTATTAAGATAAAAAAAATTAAGAGAAAAAG
261 GTTAAGAGAAGAAATTTGTTTACAGAAAATTAAGGTATTAAGATAAAAAAAATTAAGAGAAAAAG
13079605 AGTTTGAAATTGAGGC
326 AGTTTGAAATTGAGGC
13079621 AATTTACCAA
Statistics
Matches: 340, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
340 330 0.97
341 10 0.03
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (341 bp):
TTGGACAACGAATATATGCTTGCGATCTAAACCAGTTAGAGGCATTGACATTTTAAAACATGTAA
CATTTATCAAATCAAATAAGATTAATTAATTTAGAAAAAGAAAAAAACTAAAAAAATATAATATT
ATTAAATTACCACTAAAGTAACAATTTATTTAACGTAAAAAATCGCTAAACCTATTAAAAGAATA
AGTCACCTTATTTTACGAAATATTTGAGATGATGAAAATTGAATAAAATAAAGAAATTACTAACC
GTTAAGAGAAGAAATTTGTTTACAGAAAATTAAGGTATTAAGATAAAAAAAATTAAGAGAAAAAG
AGTTTGAAATTGAGGC
Found at i:13079971 original size:12 final size:11
Alignment explanation
Indices: 13079954--13080010 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
13079944 AACAAATCCT
13079954 CTCTCATATTTC
1 CTCTCA-ATTTC
13079966 CTCTCAA-TTC
1 CTCTCAATTTC
13079976 CTCTCAATTTC
1 CTCTCAATTTC
*
13079987 CT-TCCAAAATT-
1 CTCT-C-AATTTC
13079998 CTCTCAATTTC
1 CTCTCAATTTC
13080009 CT
1 CT
13080011 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:13080001 original size:22 final size:22
Alignment explanation
Indices: 13079971--13080026 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
13079961 ATTTCCTCTC
13079971 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
13079994 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
13080016 AATTCTCTCAA
1 AATTCTCTCAA
13080027 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:13081209 original size:7 final size:7
Alignment explanation
Indices: 13081197--13081228 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
13081187 AGTCGATTGA
13081197 TATTTAG
1 TATTTAG
13081204 TATTTAG
1 TATTTAG
13081211 TATTTAG
1 TATTTAG
13081218 TATTTAG
1 TATTTAG
13081225 TATT
1 TATT
13081229 ATAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:13082427 original size:25 final size:25
Alignment explanation
Indices: 13082392--13082464 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
13082382 TATTTTGATA
*
13082392 TTATTCGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
13082417 TTATTTTATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAAGT
*
13082442 TTATTTGATGTAGTAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
13082465 ATTTTTTCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:13082640 original size:28 final size:29
Alignment explanation
Indices: 13082499--13082985 Score: 572
Period size: 29 Copynumber: 16.1 Consensus size: 29
13082489 ATTTGATGTA
* *
13082499 ATTAAAAACCCTACCCCTAACCTTATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082528 ATTAAAAACCCTAACCCTAACGTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082557 ATTAAAAACCCTAACCCTAACCCAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082586 ATTAAAAATTAAAAACCCTAACCCTAACCTAATTTA
1 -------ATTAAAAACCCTAACCCTAACCTAATTTG
13082622 ATTAAAAACCCTAA-CCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082650 ATTAAAAACTCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
***
13082679 ATTAAACCTAATTTAATTAAAACCCTAACCTAACCTAATTTG
1 ATTAAA---AA---CCCT--AACCCT-A---A-CCTAATTTG
13082721 ATTAAAAACCCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082750 ATTAAAAATCCTAACCCTAACCTAACCTAATTTG
1 ATTAAAAACCCTAA--C---CCTAACCTAATTTG
* *
13082784 AATAAAAACCCTAA-CCTGACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082812 ACTAAAAACCCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
13082841 ATTAAAAACCCTAA-CCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082869 ATTAAAAACCCTAACCCTAACATAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
13082898 ATTAAAAACCCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
13082927 ATTAAAAACCCTAA-CCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082955 ATTAAAAACCCTAACCC--ACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTG
13082982 ATTA
1 ATTA
13082986 GATGGATATT
Statistics
Matches: 404, Mismatches: 25, Indels: 60
0.83 0.05 0.12
Matches are distributed among these distances:
27 13 0.03
28 108 0.27
29 192 0.48
30 1 0.00
31 1 0.00
32 2 0.00
33 1 0.00
34 32 0.08
35 1 0.00
36 28 0.07
37 6 0.01
38 1 0.00
39 2 0.00
41 1 0.00
42 15 0.04
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (29 bp):
ATTAAAAACCCTAACCCTAACCTAATTTG
Found at i:13082663 original size:23 final size:25
Alignment explanation
Indices: 13082609--13082684 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 25
13082599 AACCCTAACC
13082609 CTAACCTAATTTAATTAAAAACCCTAA
1 CTAACCTAATTTAATTAAAAA-CCT-A
*
13082636 CCTAACCTAATTTGATTAAAAACTCTAA
1 -CTAACCTAATTTAATTAAAAAC-CT-A
*
13082664 CCCTAACCTAATTTGATTAAA
1 --CTAACCTAATTTAATTAAA
13082685 CCTAATTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 1 0.02
28 24 0.53
29 20 0.44
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (25 bp):
CTAACCTAATTTAATTAAAAACCTA
Found at i:13082666 original size:57 final size:58
Alignment explanation
Indices: 13082499--13082985 Score: 572
Period size: 57 Copynumber: 8.1 Consensus size: 58
13082489 ATTTGATGTA
* * *
13082499 ATTAAAAACCCTACCCCTAACCTTATTTGATTAAAAACCCTAACCCTAACGTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
* *
13082557 ATTAAAAACCCTAACCCTAACCCAATTTGATTAAAAATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTG-------ATTAAAAACCCTAACCCTAACCTAATTTG
*
13082622 ATTAAAAACCCTAA-CCTAACCTAATTTGATTAAAAACTCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
***
13082679 ATTAAACCTAATTTAATTAAAACCCTAACCTAACCTAATTTGATTAAAAACCCTAACCCTAACCT
1 ATTAAA---AA---CCCT--AA-CC----CTAACCTAATTTGATTAAAAACCCTAACCCTAACCT
13082744 AATTTG
53 AATTTG
* * *
13082750 ATTAAAAATCCTAACCCTAACCTAACCTAATTTGAATAAAAACCCTAA-CCTGACCTAATTTG
1 ATTAAAAACCCTAA--C---CCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
*
13082812 ACTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAA-CCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
*
13082869 ATTAAAAACCCTAACCCTAACATAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
*
13082927 ATTAAAAACCCTAA-CCTAACCTAATTTGATTAAAAACCCTAACCC--ACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
13082982 ATTA
1 ATTA
13082986 GATGGATATT
Statistics
Matches: 378, Mismatches: 25, Indels: 55
0.83 0.05 0.12
Matches are distributed among these distances:
55 13 0.03
57 144 0.38
58 54 0.14
60 3 0.01
62 25 0.07
63 29 0.08
64 15 0.04
65 44 0.12
67 2 0.01
68 2 0.01
71 47 0.12
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (58 bp):
ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTG
Found at i:13082688 original size:15 final size:15
Alignment explanation
Indices: 13082668--13082699 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13082658 CTCTAACCCT
*
13082668 AACCTAATTTGATTA
1 AACCTAATTTAATTA
13082683 AACCTAATTTAATTA
1 AACCTAATTTAATTA
13082698 AA
1 AA
13082700 ACCCTAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (15 bp):
AACCTAATTTAATTA
Found at i:13082723 original size:42 final size:44
Alignment explanation
Indices: 13082639--13082726 Score: 144
Period size: 42 Copynumber: 2.0 Consensus size: 44
13082629 ACCCTAACCT
* *
13082639 AACCTAATTTGATTAAAAACTCTAACCCTAACCTAATTTGATTA
1 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTGATTA
13082683 AACCTAATTTAATT-AAAACCCTAA-CCTAACCTAATTTGATTA
1 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTGATTA
13082725 AA
1 AA
13082727 AACCCTAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 20 0.48
43 9 0.21
44 13 0.31
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (44 bp):
AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTGATTA
Found at i:13085075 original size:123 final size:125
Alignment explanation
Indices: 13084851--13085185 Score: 532
Period size: 123 Copynumber: 2.7 Consensus size: 125
13084841 CCCAAACATG
*
13084851 CTACTGTAGCAAAAGCGCGTCCAGGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
*
13084916 TAGAAGCGGTTTTATACTATTTGCCCAGAAAAGTCAAAAAA-AA-TATTTCTTACA-TGAC
66 TAGAAGCGATTTTATACTATTTGCCCAGAAAAGTCAAAAAATAATTATTTCTT-CAGTGAC
* * *
13084974 CTCCTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
* * * *
13085039 TAGAAGCGATATTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCTTCAGTGCC
66 TAGAAGCGATTTTATACTATTTGCCCAGAAAAGTCAAAAAATAATTATTTCTTCAGTGAC
* * *
13085099 CTACTGTAGCAAAAGCGCATCCACGAGGCTGCGATTTTACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
13085164 TAGAAGCGATTTTATACTATTT
66 TAGAAGCGATTTTATACTATTT
13085186 TATTAGAAAC
Statistics
Matches: 193, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
123 98 0.51
124 4 0.02
125 91 0.47
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCCCAGAAAAGTCAAAAAATAATTATTTCTTCAGTGAC
Found at i:13085217 original size:125 final size:122
Alignment explanation
Indices: 13084851--13085200 Score: 504
Period size: 125 Copynumber: 2.8 Consensus size: 122
13084841 CCCAAACATG
*
13084851 CTACTGTAGCAAAAGCGCGTCCAGGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
* * *
13084916 TAGAAGCGGTTTTATACTATTTGCCCAGAAA-AGTCAAAAAAAATATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACA-TCAAAAAAATTATTTCTT-CATGAC
* * *
13084974 CTCCTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
* * *
13085039 TAGAAGCGATATTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCTTCAGTGCC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATC-AAAAA-AATTATTTCTTCA-TGAC
* * *
13085099 CTACTGTAGCAAAAGCGCATCCACGAGGCTGCGATTTTACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
** *
13085164 TAGAAGCGATTTTATACTATTTTATTAGAAACATCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAA
13085201 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
123 91 0.45
124 9 0.04
125 102 0.50
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (122 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAATTATTTCTTCATGAC
Found at i:13087098 original size:397 final size:398
Alignment explanation
Indices: 13086354--13087150 Score: 1587
Period size: 397 Copynumber: 2.0 Consensus size: 398
13086344 TAGTTTAGTT
13086354 AAAATTAAATAATTATATTTAATAAATAATTTATTCTGATTATATGTATTAATTAAAATATACAT
1 AAAATTAAATAATTATATTTAATAAATAATTTATTCTGATTATATGTATTAATTAAAATATACAT
13086419 TATTTTTAATTTAATATTTAAAAAATTAAAAGAATTGATAACACATAGAAATAAAATTTAAAATA
66 TATTTTTAATTTAATATTTAAAAAATTAAAAGAATTGATAACACATAGAAATAAAATTTAAAATA
13086484 AGAACATAGAAAAAGATCATTCAAAAGGGAAAAAAATAGTTTTTAACCCCTGAATTGATAATTAG
131 AGAACATAGAAAAAGATCATTCAAAAGGGAAAAAAATAGTTTTTAACCCCTGAATTGATAATTAG
13086549 GATCACTTGGGTATCTCAACTTGGTAACTAGGTTTATTTTGATTCTCAAACTTGAAAAATATAAA
196 GATCACTTGGGTATCTCAACTTGGTAACTAGGTTTATTTTGATTCTCAAACTTGAAAAATATAAA
13086614 AATTTGGTAACATTATACTCTGAGATTGTATCACATCATCACTTAAAAATTTAAAAAAATTATAT
261 AATTTGGTAACATTATACTCTGAGATTGTATCACATCATCACTTAAAAATTTAAAAAAATTATAT
13086679 AAATTTTCAAATGATGACATGATACAATGTTAGAGTGTCTCATGTAATGTTCTAATAACCAAATC
326 AAATTTTCAAATGATGACATGATACAATGTTAGAGTGTCTCATGTAATGTTCTAATAACCAAATC
13086744 AGTTGATG
391 AGTTGATG
13086752 AAAATTAAAT-ATTATATTTAATAAATAATTTATTCTGATTATATGTATTAATTAAAATATACAT
1 AAAATTAAATAATTATATTTAATAAATAATTTATTCTGATTATATGTATTAATTAAAATATACAT
13086816 TATTTTTAATTTAATATTTAAAAAATTAAAAGAATTGATAACACATAGAAATAAAATTTAAAATA
66 TATTTTTAATTTAATATTTAAAAAATTAAAAGAATTGATAACACATAGAAATAAAATTTAAAATA
13086881 AGAACATAGAAAAAGATCATTCAAAAGGGAAAAAAATAGTTTTTAACCCCTGAATTGATAATTAG
131 AGAACATAGAAAAAGATCATTCAAAAGGGAAAAAAATAGTTTTTAACCCCTGAATTGATAATTAG
13086946 GATCACTTGGGTATCTCAACTTGGTAACTAGGTTTATTTTGATTCTCAAACTTGAAAAATATAAA
196 GATCACTTGGGTATCTCAACTTGGTAACTAGGTTTATTTTGATTCTCAAACTTGAAAAATATAAA
13087011 AATTTGGTAACATTATACTCTGAGATTGTATCACATCATCACTTAAAAATTTAAAAAAATTATAT
261 AATTTGGTAACATTATACTCTGAGATTGTATCACATCATCACTTAAAAATTTAAAAAAATTATAT
13087076 AAATTTTCAAATGATGACATGATACAATGTTAGAGTGTCTCATGTAATGTTCTAATAACCAAATC
326 AAATTTTCAAATGATGACATGATACAATGTTAGAGTGTCTCATGTAATGTTCTAATAACCAAATC
13087141 AGTTGATG
391 AGTTGATG
13087149 AA
1 AA
13087151 TCTATTAGAC
Statistics
Matches: 399, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
397 389 0.97
398 10 0.03
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.36
Consensus pattern (398 bp):
AAAATTAAATAATTATATTTAATAAATAATTTATTCTGATTATATGTATTAATTAAAATATACAT
TATTTTTAATTTAATATTTAAAAAATTAAAAGAATTGATAACACATAGAAATAAAATTTAAAATA
AGAACATAGAAAAAGATCATTCAAAAGGGAAAAAAATAGTTTTTAACCCCTGAATTGATAATTAG
GATCACTTGGGTATCTCAACTTGGTAACTAGGTTTATTTTGATTCTCAAACTTGAAAAATATAAA
AATTTGGTAACATTATACTCTGAGATTGTATCACATCATCACTTAAAAATTTAAAAAAATTATAT
AAATTTTCAAATGATGACATGATACAATGTTAGAGTGTCTCATGTAATGTTCTAATAACCAAATC
AGTTGATG
Found at i:13089384 original size:33 final size:33
Alignment explanation
Indices: 13089337--13089401 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
13089327 CGTAGTTCGT
* *
13089337 TTACATGAGTTCGCATATGGTGGGTTT-GCATCC
1 TTACATGAGCTCGCACATGGT-GGTTTCGCATCC
13089370 TTACATGAGCTCGCACATGGTGGTTTCGCATC
1 TTACATGAGCTCGCACATGGTGGTTTCGCATC
13089402 ATCATGCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (33 bp):
TTACATGAGCTCGCACATGGTGGTTTCGCATCC
Found at i:13089713 original size:36 final size:36
Alignment explanation
Indices: 13089658--13089729 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
13089648 AATTGTAAGA
* * *
13089658 AGGTAACCATCGATGAGGACATGAATATACTAGAAT
1 AGGTAACCACCGATAAGGACATGAACATACTAGAAT
*
13089694 AGGTAACCACCTATAAGGACATGAACATACTAGAAT
1 AGGTAACCACCGATAAGGACATGAACATACTAGAAT
13089730 CAAAGCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (36 bp):
AGGTAACCACCGATAAGGACATGAACATACTAGAAT
Found at i:13091143 original size:21 final size:22
Alignment explanation
Indices: 13091092--13091143 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
13091082 TAACTTTGGG
*
13091092 TTGTGGATAAACCACTACTAAT
1 TTGTGGATAAACCACCACTAAT
* * *
13091114 TTGTAGATAAACTACCACTTA-
1 TTGTGGATAAACCACCACTAAT
13091135 TTGTGGATA
1 TTGTGGATA
13091144 CACAACATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TTGTGGATAAACCACCACTAAT
Found at i:13091328 original size:38 final size:39
Alignment explanation
Indices: 13091286--13091396 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 39
13091276 ATAGAACGAA
*
13091286 TCATCACTAGCAGTAAACATGATTAACATGTATTTGA-T
1 TCATCACTAGCAGTAAACATGATTAACATGTATTTCAGT
* * * *
13091324 TCATCACTAGCAATTAACATGCTTAACGTGTA-TTCAGT
1 TCATCACTAGCAGTAAACATGATTAACATGTATTTCAGT
* *
13091362 TCAACACTAGCAGTAAACATGCTTTAACATGTATT
1 TCATCACTAGCAGTAAACATG-ATTAACATGTATT
13091397 CAAAAGGATG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
37 3 0.05
38 47 0.78
39 9 0.15
40 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (39 bp):
TCATCACTAGCAGTAAACATGATTAACATGTATTTCAGT
Found at i:13091623 original size:19 final size:19
Alignment explanation
Indices: 13091601--13091655 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
13091591 AAGTTTAAAA
*
13091601 AATTGAAAAAATTAAAATG
1 AATTAAAAAAATTAAAATG
** *
13091620 AATTTTAAAAATTAAATTG
1 AATTAAAAAAATTAAAATG
13091639 AGATTAAAAATAATTAA
1 A-ATTAAAAA-AATTAA
13091656 GGAAATGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 17 0.59
20 6 0.21
21 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AATTAAAAAAATTAAAATG
Found at i:13106257 original size:7 final size:7
Alignment explanation
Indices: 13106245--13106273 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
13106235 TAAAAAAGGT
13106245 AAATAAA
1 AAATAAA
13106252 AAATAAA
1 AAATAAA
13106259 AAATAAA
1 AAATAAA
13106266 AAATAAA
1 AAATAAA
13106273 A
1 A
13106274 TATTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:13123388 original size:60 final size:60
Alignment explanation
Indices: 13123313--13123432 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
13123303 CTCGATCATC
* * *
13123313 TACCACCCTACGAAC-ATGAGGATTAGCGTCCTGACCATTTAGATTATCATTCAGACTAGG
1 TACCACCCTACGAACAAT-AGGATTAACATCCTAACCATTTAGATTATCATTCAGACTAGG
* * * * *
13123373 TACCACCCTATGAACAATAGGATTAATATCTTAACCATTTAGATTATCATTTAGGCTAGG
1 TACCACCCTACGAACAATAGGATTAACATCCTAACCATTTAGATTATCATTCAGACTAGG
13123433 ATCATTCCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (60 bp):
TACCACCCTACGAACAATAGGATTAACATCCTAACCATTTAGATTATCATTCAGACTAGG
Found at i:13129307 original size:6 final size:6
Alignment explanation
Indices: 13129296--13129342 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
13129286 TTCAGTTTGG
*
13129296 TTTATT TTTATT TTTATT TTTATT TTTATT TTAGATT ATTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT -TTTATT TTT
13129343 TATGATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 29 0.78
7 6 0.16
8 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:13134004 original size:6 final size:6
Alignment explanation
Indices: 13133993--13134027 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
13133983 AATAAATAAA
13133993 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
13134028 GTTGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:13136608 original size:23 final size:23
Alignment explanation
Indices: 13136486--13136630 Score: 71
Period size: 23 Copynumber: 6.3 Consensus size: 23
13136476 GGACGAACCA
* *
13136486 CCAGTAGATTTGCATATGAATTG
1 CCAGTAGATTTGCAAATGAACTG
* ** *
13136509 CTAGTAGATTTGCGGAT-AAATCG
1 CCAGTAGATTTGCAAATGAACT-G
* * *
13136532 ACAATAGATTTGCAGATGAACTG
1 CCAGTAGATTTGCAAATGAACTG
* * * * *
13136555 CCAGTTGATTTACGAGTAAAC--
1 CCAGTAGATTTGCAAATGAACTG
*
13136576 CAACGATAGATTTGCAAATGAACTG
1 CCA-G-TAGATTTGCAAATGAACTG
* * * *
13136601 CCAGTAGATATGCGACTAAACTG
1 CCAGTAGATTTGCAAATGAACTG
13136624 CCAGTAG
1 CCAGTAG
13136631 CACTTTCTCC
Statistics
Matches: 88, Mismatches: 28, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
21 2 0.02
22 4 0.05
23 76 0.86
24 4 0.05
25 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (23 bp):
CCAGTAGATTTGCAAATGAACTG
Found at i:13136621 original size:46 final size:45
Alignment explanation
Indices: 13136481--13136621 Score: 147
Period size: 46 Copynumber: 3.1 Consensus size: 45
13136471 TATGCGGACG
* * * * *
13136481 AACCACCAGTAGATTTGCATATGAATTGCTAGTAGATTTGCGGATA
1 AACCAACAATAGATTTGCAAATGAACTGCCAGTAGATTTGC-GATA
* * * * *
13136527 AATCGACAATAGATTTGCAGATGAACTGCCAGTTGATTTACGAGTA
1 AACCAACAATAGATTTGCAAATGAACTGCCAGTAGATTTGCGA-TA
* *
13136573 AACCAACGATAGATTTGCAAATGAACTGCCAGTAGATATGCGACTA
1 AACCAACAATAGATTTGCAAATGAACTGCCAGTAGATTTGCGA-TA
13136619 AAC
1 AAC
13136622 TGCCAGTAGC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
AACCAACAATAGATTTGCAAATGAACTGCCAGTAGATTTGCGATA
Found at i:13148101 original size:51 final size:51
Alignment explanation
Indices: 13148025--13148211 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 51
13148015 NNNNNNNNNN
13148025 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCATTAATATCTGATA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCATTAATATCTGATA
* *
13148076 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCTGGTA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGATC-ATTA-ATATCTGATA
* * * * * * * *
13148127 CGCATAGTAGCCTGAACATAGTACTACACATGCGACCTTTCAT-TCTGATA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCATTAATATCTGATA
*
13148177 CACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGA
13148212 CCATCACTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 36 0.32
51 77 0.68
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
CACGTAGTAGCCTGCACATAGTACTACACACGTGATCATTAATATCTGATA
Found at i:13148205 original size:101 final size:102
Alignment explanation
Indices: 13148029--13148211 Score: 296
Period size: 101 Copynumber: 1.8 Consensus size: 102
13148019 NNNNNNCACG
* * * *
13148029 TAGTAGCCTGCACATAGTACTACACACGTGATCATTAATATCTGATACACGTAGTAGCCTGCACA
1 TAGTAGCCTGAACATAGTACTACACACGCGACCATTAATATCTGATACACGTAGTAGCCTACACA
13148094 TAGTACTACACACGTGATCGAAGCTATCTGGTACGCA
66 TAGTACTACACACGTGATCGAAGCTATCTGGTACGCA
* * *
13148131 TAGTAGCCTGAACATAGTACTACACATGCGACCTTTCAT-TCTGATACACGTAGTAGCCTACACA
1 TAGTAGCCTGAACATAGTACTACACACGCGACCATTAATATCTGATACACGTAGTAGCCTACACA
13148195 TAGTACTACACACGTGA
66 TAGTACTACACACGTGA
13148212 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 41 0.55
102 33 0.45
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (102 bp):
TAGTAGCCTGAACATAGTACTACACACGCGACCATTAATATCTGATACACGTAGTAGCCTACACA
TAGTACTACACACGTGATCGAAGCTATCTGGTACGCA
Found at i:13148469 original size:17 final size:16
Alignment explanation
Indices: 13148437--13148467 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13148427 CAATCCAATC
13148437 GAAAAATCACATTTTG
1 GAAAAATCACATTTTG
*
13148453 GAAAAATTACATTTT
1 GAAAAATCACATTTT
13148468 TGTTCCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
GAAAAATCACATTTTG
Found at i:13151091 original size:24 final size:24
Alignment explanation
Indices: 13151059--13151107 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
13151049 ATCAATTCTG
*
13151059 GCCTTGGTGTTGCAACATAGGGTT
1 GCCTTGGTGTTGCAACACAGGGTT
*
13151083 GCCTTGGTGTTGCGACACAGGGTT
1 GCCTTGGTGTTGCAACACAGGGTT
13151107 G
1 G
13151108 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.18, G:0.37, T:0.31
Consensus pattern (24 bp):
GCCTTGGTGTTGCAACACAGGGTT
Found at i:13153774 original size:25 final size:25
Alignment explanation
Indices: 13153746--13153816 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
13153736 TTACCAATTC
13153746 TCAGCTCGAGAGAGCTTACCGATAT
1 TCAGCTCGAGAGAGCTTACCGATAT
* * * *
13153771 TCAGCTCGCA-TGAGTTTACTGTTAT
1 TCAGCTCG-AGAGAGCTTACCGATAT
13153796 TCAGCTC-AGAGTAGCTTACCG
1 TCAGCTCGAGAG-AGCTTACCG
13153817 TTTACAACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 33 0.92
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (25 bp):
TCAGCTCGAGAGAGCTTACCGATAT
Found at i:13155803 original size:231 final size:232
Alignment explanation
Indices: 13155388--13155851 Score: 921
Period size: 231 Copynumber: 2.0 Consensus size: 232
13155378 GTCCCGATTT
13155388 GTTTCTAATGTGTATTTTGGGCCTCGAGGGCTCGTATAAGAGATAATATGCATGCTTTTGATTGA
1 GTTTCTAATGTGTATTTTGGGCCTCGAGGGCTCGTATAAGAGATAATATGCATGCTTTTGATTGA
13155453 TTTCTGACATGAATGCTATATGATATGAAATGTTTAAATTTTCTGTCCGTTTAAATTATAAACTC
66 TTTCTGACATGAATGCTATATGATATGAAATGTTTAAATTTTCTGTCCGTTTAAATTATAAACTC
13155518 TGGTAATGCTCCGTAACCCTATTCCGACGACGAATTCGGGTTAGGGGTGTTACAATCAACATGAA
131 TGGTAATGCTCCGTAACCCTATTCCGACGACGAATTCGGGTTAGGGGTGTTACAATCAACATGAA
13155583 GAATCTAAACATATGAAGATTGTTAAAGCAAGGGGAA
196 GAATCTAAACATATGAAGATTGTTAAAGCAAGGGGAA
13155620 GTTTCTAATGT-TATTTTGGGCCTCGAGGGCTCGTATAAGAGATAATATGCATGCTTTTGATTGA
1 GTTTCTAATGTGTATTTTGGGCCTCGAGGGCTCGTATAAGAGATAATATGCATGCTTTTGATTGA
13155684 TTTCTGACATGAATGCTATATGATATGAAATGTTTAAATTTTCTGTCCGTTTAAATTATAAACTC
66 TTTCTGACATGAATGCTATATGATATGAAATGTTTAAATTTTCTGTCCGTTTAAATTATAAACTC
13155749 TGGTAATGCTCCGTAACCCTATTCCGACGACGAATTCGGGTTAGGGGTGTTACAATCAACATGAA
131 TGGTAATGCTCCGTAACCCTATTCCGACGACGAATTCGGGTTAGGGGTGTTACAATCAACATGAA
13155814 GAATCTAAACATATGAAGATTGTTAAAGCAAGGGGAA
196 GAATCTAAACATATGAAGATTGTTAAAGCAAGGGGAA
13155851 G
1 G
13155852 ACTCAACCAC
Statistics
Matches: 232, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
231 221 0.95
232 11 0.05
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (232 bp):
GTTTCTAATGTGTATTTTGGGCCTCGAGGGCTCGTATAAGAGATAATATGCATGCTTTTGATTGA
TTTCTGACATGAATGCTATATGATATGAAATGTTTAAATTTTCTGTCCGTTTAAATTATAAACTC
TGGTAATGCTCCGTAACCCTATTCCGACGACGAATTCGGGTTAGGGGTGTTACAATCAACATGAA
GAATCTAAACATATGAAGATTGTTAAAGCAAGGGGAA
Found at i:13161721 original size:25 final size:25
Alignment explanation
Indices: 13161693--13161763 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
13161683 TTACCAATTC
13161693 TCAGCTCGAGAGAGCTTACCGATAT
1 TCAGCTCGAGAGAGCTTACCGATAT
* * * *
13161718 TCAGCTCGCA-TGAGTTTACTGTTAT
1 TCAGCTCG-AGAGAGCTTACCGATAT
13161743 TCAGCTC-AGAGTAGCTTACCG
1 TCAGCTCGAGAG-AGCTTACCG
13161764 TTTACAACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 33 0.92
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (25 bp):
TCAGCTCGAGAGAGCTTACCGATAT
Found at i:13165987 original size:21 final size:23
Alignment explanation
Indices: 13165961--13166004 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
13165951 TGACTAGTGC
13165961 TAAAAATAAAAAA-T-ATATTTT
1 TAAAAATAAAAAATTAATATTTT
13165982 TAAAAATAAAAAATTAATATTTT
1 TAAAAATAAAAAATTAATATTTT
13166005 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.62
22 1 0.05
23 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAATAAAAAATTAATATTTT
Found at i:13166011 original size:7 final size:7
Alignment explanation
Indices: 13166001--13166030 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13165991 AAAATTAATA
13166001 TTTTATT
1 TTTTATT
13166008 TTTTATT
1 TTTTATT
13166015 TTTTATT
1 TTTTATT
13166022 TTTTATT
1 TTTTATT
13166029 TT
1 TT
13166031 GCATGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:13168433 original size:16 final size:17
Alignment explanation
Indices: 13168412--13168448 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13168402 NNNAAAGATA
13168412 TATAAAAT-TGATATTT
1 TATAAAATCTGATATTT
*
13168428 TATAAAATCTGATGTTT
1 TATAAAATCTGATATTT
13168445 TATA
1 TATA
13168449 CATTTCTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (17 bp):
TATAAAATCTGATATTT
Found at i:13169491 original size:15 final size:15
Alignment explanation
Indices: 13169473--13169507 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13169463 TACAAATGCC
13169473 ACAATAATAAATACA
1 ACAATAATAAATACA
*
13169488 ACAATAATATATACA
1 ACAATAATAAATACA
*
13169503 TCAAT
1 ACAAT
13169508 GGCATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:13169919 original size:23 final size:24
Alignment explanation
Indices: 13169881--13169926 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
13169871 GTATAAATAC
*
13169881 AAAAATATTTATTAAAAAATATAG
1 AAAAATATTCATTAAAAAATATAG
13169905 AAAAATATTCA-TAAAAAATATA
1 AAAAATATTCATTAAAAAATATA
13169927 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAATATTCATTAAAAAATATAG
Found at i:13169935 original size:23 final size:23
Alignment explanation
Indices: 13169893--13169940 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13169883 AAATATTTAT
*
13169893 TAAAAAATATAGAAAAATATTCA
1 TAAAAAATATAGAAAAATATACA
*
13169916 TAAAAAATATA-AATATATATACA
1 TAAAAAATATAGAA-AAATATACA
13169939 TA
1 TA
13169941 TGTAGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAAAAATATAGAAAAATATACA
Found at i:13171055 original size:44 final size:44
Alignment explanation
Indices: 13170997--13171183 Score: 243
Period size: 44 Copynumber: 4.2 Consensus size: 44
13170987 ATCTGCTATT
* * *
13170997 TTCAACTTACTCCACTGCTG-CTCAGGGAGATGGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
13171041 TTCAACCTATTCCACTACTGACCAGGGAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
13171085 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
13171129 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
13171173 TTTAACCTATT
1 TTCAACCTATT
13171184 NNNNNNNNNN
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.01
44 120 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:13171314 original size:43 final size:43
Alignment explanation
Indices: 13171261--13171402 Score: 110
Period size: 43 Copynumber: 3.3 Consensus size: 43
13171251 TATTTTTAGC
13171261 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGAT
* ***** * * * * *
13171304 CTGCTTCGCTGTTGGTGCAAGAAGGCAAGATCTGCTA-T-TTTTAG-C
1 CTGCTCCGCTG-CAACCCAGGGAGGCAAG----GCTAGTGTCTTCGAT
13171349 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGAT
*
13171392 CTGCTTCGCTG
1 CTGCTCCGCTG
13171403 TCAGTGCTGG
Statistics
Matches: 68, Mismatches: 23, Indels: 16
0.64 0.21 0.15
Matches are distributed among these distances:
40 4 0.06
41 1 0.01
42 4 0.06
43 20 0.29
44 20 0.29
45 10 0.15
46 4 0.06
47 1 0.01
48 4 0.06
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.26
Consensus pattern (43 bp):
CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGAT
Found at i:13171374 original size:44 final size:44
Alignment explanation
Indices: 13171233--13171376 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
13171223 NNNNNNAGTG
13171233 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
* * * * * *****
13171277 CAGGGAGGCAAG----GCTAGTGTCTTCGATCTGCTTCGCTGTTGGTG
1 CAGGAAGGCAAGATCTGCTA-T-TTTTAG-CCTGCTCCGCTG-CAACC
*
13171321 CAAGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
*
13171365 CAGGGAGGCAAG
1 CAGGAAGGCAAG
13171377 GCTAGTGTCT
Statistics
Matches: 69, Mismatches: 23, Indels: 16
0.64 0.21 0.15
Matches are distributed among these distances:
40 4 0.06
41 1 0.01
42 4 0.06
43 10 0.14
44 31 0.45
45 10 0.14
46 4 0.06
47 1 0.01
48 4 0.06
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
Found at i:13171379 original size:88 final size:88
Alignment explanation
Indices: 13171229--13171429 Score: 366
Period size: 88 Copynumber: 2.3 Consensus size: 88
13171219 NNNNNNNNNN
13171229 AGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAG
1 AGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAG
*
13171294 TGTCTTCGATCTGCTTCGCTGTT
66 TGTCTTCGATCTGCTTCGCTGTC
* *
13171317 GGTGCAAGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAG
1 AGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAG
13171382 TGTCTTCGATCTGCTTCGCTGTC
66 TGTCTTCGATCTGCTTCGCTGTC
*
13171405 AGTGCTGGAAGGCAAGATCTGCTAT
1 AGTGCAGGAAGGCAAGATCTGCTAT
13171430 CTTCGATCTA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.26
Consensus pattern (88 bp):
AGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAG
TGTCTTCGATCTGCTTCGCTGTC
Found at i:13171471 original size:44 final size:44
Alignment explanation
Indices: 13171411--13171962 Score: 519
Period size: 44 Copynumber: 12.5 Consensus size: 44
13171401 TGTCAGTGCT
* * * *
13171411 GGAAGGCAAGATCTGCTATCTTCGATCTACTTCATGCCAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATA
* * * * *
13171455 TGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATA
* *
13171500 GGAAGACAATATCTG-TATCTTCGATCCACTTCCTACCAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATA
* * *
13171543 GGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAAT-TCA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATAT-A
* * * *
13171587 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATA
* * *
13171632 GGAACACAAGATTTGC-ATCTTCGATCCACTTCGCTACCAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATA
* * * *
13171676 GGAAGATAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATA
** ** * * *
13171720 TAAAGACAAGATCTAATTTCTTCAATCTACTTCGCTACCAATATG
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATA
* * *
13171765 GGAAGACAAGATCTAC-ATCTTCGATCCACTTCCTACCAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATA
* * * *
13171808 GGAAGACAGGACCTACTATCTTCGATCTACTT-C-ACGCTAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCCTAC-C-AATATA
* * * * *
13171852 TGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATG
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATA
* *
13171897 GGAAGATAAGATCTG-TATCTTCGATCCACTTCCTACCAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATA
* *
13171940 GGAAGACAAGACCTACTATCTTC
1 GGAAGACAAGATCTGCTATCTTC
13171963 ACTGATTTGC
Statistics
Matches: 409, Mismatches: 84, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.00
43 68 0.17
44 245 0.60
45 89 0.22
46 3 0.01
47 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
GGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATA
Found at i:13171570 original size:132 final size:132
Alignment explanation
Indices: 13171423--13171962 Score: 846
Period size: 132 Copynumber: 4.1 Consensus size: 132
13171413 AAGGCAAGAT
* *
13171423 CTGCTATCTTCGATCTACTTCATGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * * *
13171488 GCCACCAGTATAGGAAGACAATATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
13171553 AC
131 AC
*
13171555 CTGCTATCTTCGATCTACTTCACGCCAATTCATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * *
13171620 GCCACCAATATGGGAACACAAGATTTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
*
13171685 GAT
130 GAC
* ** *
13171688 CTGCTATCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTAATTTCTTCAATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * *
13171753 GCTACCAATATGGGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATACAGGAAGACAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
13171818 AC
131 AC
* * *
13171820 CTACTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * *
13171885 GCCACCAATATGGGAAGATAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAAG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
13171950 AC
131 AC
*
13171952 CTACTATCTTC
1 CTGCTATCTTC
13171963 ACTGATTTGC
Statistics
Matches: 371, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
132 250 0.67
133 121 0.33
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
AC
Found at i:13171771 original size:265 final size:264
Alignment explanation
Indices: 13171420--13171945 Score: 854
Period size: 265 Copynumber: 2.0 Consensus size: 264
13171410 TGGAAGGCAA
* * * ** *
13171420 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTAATTTCTTCAATCTAC
* * ** *
13171485 TTCGCCACCAGTATAGGAAGACAATATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGAC
66 TTCGCCACCAATATAGGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATACAGGAAGAC
* *
13171550 AGGACCTGCTATCTTCGATCTACTTCACGCCAATTCATGAAGACAAGATCTGCTTTCTTCGATCT
131 AGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
* *
13171615 ACTTCGCCACCAATATGGGAACACAAGATTTGCATCTTCGATCCACTTCGCTACCAATATAGGAA
196 ACTCCGCCACCAATATGGGAACACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAA
13171680 GATAG
260 GATAG
13171685 GATCTGCTATCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTAATTTCTTCAATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTAATTTCTTCAATCTAC
* *
13171750 TTCGCTACCAATATGGGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATACAGGAAGAC
66 TTCGCCACCAATATAGGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATACAGGAAGAC
*
13171815 AGGACCTACTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCT
131 AGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
* * *
13171880 ACTCCGCCACCAATATGGGAAGATAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAG
196 ACTCCGCCACCAATATGGGAACACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAG
13171945 A
261 A
13171946 CAAGACCTAC
Statistics
Matches: 240, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
264 17 0.07
265 223 0.93
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (264 bp):
GATCTGCTATCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTAATTTCTTCAATCTAC
TTCGCCACCAATATAGGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATACAGGAAGAC
AGGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
ACTCCGCCACCAATATGGGAACACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAG
ATAG
Found at i:13177266 original size:23 final size:22
Alignment explanation
Indices: 13177223--13177280 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13177213 AAAGGGTATC
* *
13177223 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13177244 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
13177267 TGCATATCATATCT
1 TACAAATCATATCT
13177281 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13177693 original size:20 final size:20
Alignment explanation
Indices: 13177668--13177710 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
13177658 TCACTGTTTC
13177668 ATACAATCATTTCTCATTAG
1 ATACAATCATTTCTCATTAG
13177688 ATACAATCATTTCTCATTAG
1 ATACAATCATTTCTCATTAG
13177708 ATA
1 ATA
13177711 GGTACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (20 bp):
ATACAATCATTTCTCATTAG
Found at i:13181355 original size:9 final size:9
Alignment explanation
Indices: 13181341--13181371 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13181331 GTTAAACGAA
13181341 TCGAGTTAT
1 TCGAGTTAT
*
13181350 TCGAGTTAA
1 TCGAGTTAT
13181359 TCGAGTTAT
1 TCGAGTTAT
13181368 TCGA
1 TCGA
13181372 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:13181448 original size:9 final size:9
Alignment explanation
Indices: 13181424--13181460 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13181414 TGAGTTTTCA
*
13181424 AATTCAAAT
1 AATTCGAAT
*
13181433 AACTCGAAT
1 AATTCGAAT
13181442 AATTCGAAT
1 AATTCGAAT
13181451 AATTCGAAT
1 AATTCGAAT
13181460 A
1 A
13181461 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13183483 original size:53 final size:53
Alignment explanation
Indices: 13183405--13183506 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
13183395 GAAATAATGG
* * *
13183405 CATATCAATCATGTAGCATATCATGCTAAACAATACAATAACAGTAACAATAT
1 CATATCAATCATATAGCACAACATGCTAAACAATACAATAACAGTAACAATAT
** *
13183458 CATATCAATCATATAGCACAACATGCTAGCCAATACAGTAACAGTAACA
1 CATATCAATCATATAGCACAACATGCTAAACAATACAATAACAGTAACA
13183507 GTAACAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (53 bp):
CATATCAATCATATAGCACAACATGCTAAACAATACAATAACAGTAACAATAT
Found at i:13183503 original size:6 final size:6
Alignment explanation
Indices: 13183492--13183524 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
13183482 GCTAGCCAAT
13183492 ACAGTA ACAGTA ACAGTA ACAGTA ACAGTA ACA
1 ACAGTA ACAGTA ACAGTA ACAGTA ACAGTA ACA
13183525 ATATCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (6 bp):
ACAGTA
Found at i:13185395 original size:17 final size:18
Alignment explanation
Indices: 13185344--13185384 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13185334 TTTGTAGAGT
* **
13185344 AAAAATAAATTACATAAC
1 AAAAATAAATTATATTTC
13185362 AAAAATAAATTATATTTC
1 AAAAATAAATTATATTTC
13185380 AAAAA
1 AAAAA
13185385 AAAGTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATAAATTATATTTC
Found at i:13186852 original size:29 final size:29
Alignment explanation
Indices: 13186820--13186880 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
13186810 TGGGACCATG
13186820 AATCAACTCCCTCACTTACCAAAATAAGA
1 AATCAACTCCCTCACTTACCAAAATAAGA
13186849 AATCAACTCCCTCACTTACCAAAATAAGA
1 AATCAACTCCCTCACTTACCAAAATAAGA
13186878 AAT
1 AAT
13186881 GACTAAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (29 bp):
AATCAACTCCCTCACTTACCAAAATAAGA
Found at i:13187573 original size:7 final size:7
Alignment explanation
Indices: 13187561--13187599 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
13187551 GCCGACTTAG
13187561 AAATAAT
1 AAATAAT
13187568 AAATAAT
1 AAATAAT
13187575 AAATAAT
1 AAATAAT
13187582 AAATAAT
1 AAATAAT
13187589 AAATAAT
1 AAATAAT
13187596 AAAT
1 AAAT
13187600 GTAGTAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:13191405 original size:21 final size:20
Alignment explanation
Indices: 13191365--13191476 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 20
13191355 AATACTTTTC
13191365 AAAAGTTAAAAATATTTATA
1 AAAAGTTAAAAATATTTATA
*
13191385 AAAAGTTTCAAAATTTATATATTTTTTA
1 AAAAG-TT--AAA---A-ATA-TTTATA
* *
13191413 AAAATTATAAAAAAATTTA-A
1 AAAAGT-TAAAAATATTTATA
* * *
13191433 AAAATTCTAAAGAATATATAAA
1 AAAAGT-TAAA-AATATTTATA
13191455 AAAAGTT-AAAATATTTATA
1 AAAAGTTAAAAATATTTATA
13191474 AAA
1 AAA
13191477 TTCCAAAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 23
0.68 0.10 0.22
Matches are distributed among these distances:
19 11 0.15
20 18 0.25
21 12 0.17
22 8 0.11
23 4 0.06
26 4 0.06
27 4 0.06
28 10 0.14
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAGTTAAAAATATTTATA
Found at i:13191508 original size:18 final size:19
Alignment explanation
Indices: 13191481--13191530 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
13191471 ATAAAATTCC
*
13191481 AAAATATATATATTTTTTA
1 AAAATATATAAATTTTTTA
13191500 AAAAT-TATAAATTTTTTA
1 AAAATATATAAATTTTTTA
*
13191518 AAGAATATGTAAA
1 AA-AATATATAAA
13191531 GAAAGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 14 0.52
19 8 0.30
20 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
AAAATATATAAATTTTTTA
Done.