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 35 of 145
Found at i:11221974 original size:18 final size:17
Alignment explanation
Indices: 11221953--11221998 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
11221943 CTAGTTAAAT
11221953 TAAATAAAAATTAAAAAA
1 TAAATAAAAATT-AAAAA
* *
11221971 TAAATATATATTAAAAA
1 TAAATAAAAATTAAAAA
11221988 TAAA-AAAAATT
1 TAAATAAAAATT
11221999 GGTTCAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATAAAAATTAAAAA
Found at i:11222130 original size:21 final size:21
Alignment explanation
Indices: 11222106--11222170 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
11222096 GGTCCAATTC
11222106 TTTATGAATTTTTTAATA-AAT
1 TTTATGAATTTTTT-ATAGAAT
11222127 TTTATG-A-TTTTTATAGAAT
1 TTTATGAATTTTTTATAGAAT
* *
11222146 TTTAAT-AAATTTTTATAAAAT
1 TTT-ATGAATTTTTTATAGAAT
11222167 TTTA
1 TTTA
11222171 CATATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 5 0.13
21 20 0.51
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTATGAATTTTTTATAGAAT
Found at i:11222159 original size:11 final size:10
Alignment explanation
Indices: 11222101--11222200 Score: 62
Period size: 10 Copynumber: 9.8 Consensus size: 10
11222091 GATTTGGTCC
11222101 AATTCTTTATGA
1 AATT-TTTAT-A
*
11222113 ATTTTTTAATA
1 AATTTTT-ATA
11222124 AA-TTTTAT-
1 AATTTTTATA
*
11222132 GATTTTTATA
1 AATTTTTATA
*
11222142 GAATTTTAATA
1 -AATTTTTATA
11222153 AATTTTTATA
1 AATTTTTATA
* *
11222163 AAATTTTACA
1 AATTTTTATA
*
11222173 TATATTTTAT-
1 AAT-TTTTATA
*
11222183 TATTTTTATA
1 AATTTTTATA
*
11222193 ATTTTTTA
1 AATTTTTA
11222201 AANNNNNNNN
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
8 1 0.01
9 14 0.20
10 31 0.45
11 18 0.26
12 5 0.07
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
AATTTTTATA
Found at i:11222182 original size:21 final size:21
Alignment explanation
Indices: 11222133--11222180 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
11222123 AAATTTTATG
*
11222133 ATTTTTATAGAATTTTAATAA
1 ATTTTTATAAAATTTTAATAA
*
11222154 ATTTTTATAAAATTTTACATAT
1 ATTTTTATAAAATTTTA-ATAA
11222176 ATTTT
1 ATTTT
11222181 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTATAAAATTTTAATAA
Found at i:11222926 original size:9 final size:9
Alignment explanation
Indices: 11222888--11222941 Score: 65
Period size: 9 Copynumber: 5.8 Consensus size: 9
11222878 NNNNNNNNNT
*
11222888 TTTATAATT
1 TTTATAATA
11222897 TTTA-AATAA
1 TTTATAAT-A
11222906 TTTATTATATA
1 TTTA-TA-ATA
11222917 TTTATAATA
1 TTTATAATA
11222926 TTTATAATA
1 TTTATAATA
11222935 TTTATAA
1 TTTATAA
11222942 GGTTATATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 3 0.08
9 27 0.68
10 2 0.05
11 6 0.15
12 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTATAATA
Found at i:11223040 original size:8 final size:9
Alignment explanation
Indices: 11223010--11223039 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11223000 ATTTTATATT
11223010 TTTTTAT-A
1 TTTTTATGA
11223018 TTTTTATGA
1 TTTTTATGA
11223027 TTTTTATGA
1 TTTTTATGA
11223036 TTTT
1 TTTT
11223040 AATCGTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (9 bp):
TTTTTATGA
Found at i:11234375 original size:10 final size:10
Alignment explanation
Indices: 11234343--11234375 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
11234333 AATTATTATC
11234343 GATTT-TCAA
1 GATTTATCAA
11234352 GATTTATCAA
1 GATTTATCAA
11234362 -ATTTATCAA
1 GATTTATCAA
11234371 GATTT
1 GATTT
11234376 TTGGGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (10 bp):
GATTTATCAA
Found at i:11236496 original size:11 final size:11
Alignment explanation
Indices: 11236480--11236508 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
11236470 TTCGAAATAG
11236480 GCCATTTTCAA
1 GCCATTTTCAA
11236491 GCCATTTTCAA
1 GCCATTTTCAA
11236502 GCCATTT
1 GCCATTT
11236509 CTTTCACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (11 bp):
GCCATTTTCAA
Found at i:11238192 original size:33 final size:33
Alignment explanation
Indices: 11238147--11238223 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
11238137 CCAAACCCTT
11238147 CAACACACCAATGCTCATAAGAGCTAATCCAAC
1 CAACACACCAATGCTCATAAGAGCTAATCCAAC
* *
11238180 CAACACATCAATGCTCATACGAGCTAATCCAAC
1 CAACACACCAATGCTCATAAGAGCTAATCCAAC
*
11238213 TAACACACCAA
1 CAACACACCAA
11238224 ACAAAGTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.43, C:0.34, G:0.08, T:0.16
Consensus pattern (33 bp):
CAACACACCAATGCTCATAAGAGCTAATCCAAC
Found at i:11258268 original size:19 final size:19
Alignment explanation
Indices: 11258246--11258286 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11258236 TCAATCCACA
*
11258246 ATTTCACATTTCATTTCCC
1 ATTTCAAATTTCATTTCCC
*
11258265 ATTTCAAATTTCATTTCTC
1 ATTTCAAATTTCATTTCCC
11258284 ATT
1 ATT
11258287 CTTTTTGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCAAATTTCATTTCCC
Found at i:11260110 original size:17 final size:17
Alignment explanation
Indices: 11260067--11260102 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11260057 TTAGAATACA
11260067 AATGACATGTCATTAGG
1 AATGACATGTCATTAGG
11260084 AATGACATGTCATTAGG
1 AATGACATGTCATTAGG
11260101 AA
1 AA
11260103 GTATATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (17 bp):
AATGACATGTCATTAGG
Found at i:11272056 original size:15 final size:15
Alignment explanation
Indices: 11272020--11272058 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11272010 GGGCCAGGGT
*
11272020 ATTGGGCTTAGGCTA
1 ATTGGGTTTAGGCTA
11272035 ATTGGGTTTAGGCTA
1 ATTGGGTTTAGGCTA
*
11272050 GTTGGGTTT
1 ATTGGGTTT
11272059 CTGTAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.08, G:0.36, T:0.41
Consensus pattern (15 bp):
ATTGGGTTTAGGCTA
Found at i:11272626 original size:44 final size:44
Alignment explanation
Indices: 11272547--11272837 Score: 200
Period size: 44 Copynumber: 6.7 Consensus size: 44
11272537 TTTTAATCCT
* *
11272547 CTCCACTGTAATCTCAGGG-GATAGGATTATTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* * *
11272590 CTTCACTATAATCTCAGGGAGATAAGATTACTGGCTTTAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* * * ** ** *
11272634 CTCCGCTGTAATCTCAGTGAGATAAGATTTGAATATCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGA-TT-ACTGGCTTCAATCTG
* * * * *
11272680 TTCCACTGTAATCTCAGGGAGATAAGA--ACT-GATGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* * ** *
11272721 CTCTACTGTAA-CTTCAGAGAGATAAGATCTA-TTACTTTAATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-TACTGGCTTCAATCTG
** * * * **
11272765 CTCCACTACAACCTTAGGGAGATAGGATTA-TCGATTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACT-GGCTTCAATCTG
* *
11272809 CTCCACTGCAACCTCAGGGAGATAAGATT
1 CTCCACTGTAATCTCAGGGAGATAAGATT
11272838 TGCTTCTTCA
Statistics
Matches: 193, Mismatches: 45, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
40 1 0.01
41 29 0.15
42 2 0.01
43 21 0.11
44 105 0.54
45 3 0.02
46 32 0.17
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
Found at i:11272853 original size:44 final size:44
Alignment explanation
Indices: 11272730--11273141 Score: 202
Period size: 44 Copynumber: 9.4 Consensus size: 44
11272720 ACTCTACTGT
* * * *
11272730 AACTTCAGAGAGATAAGATCT-ATTACTTTAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTAC
* * *
11272774 AACCTT-AGGGAGATAGGATTAT-CGAT-TTCAATCTGCTCCACTGC
1 AA-CTTCAGGGAGATAAGATT-TGC-TTCTTCAATCTGCTCCACTAC
* * * **
11272818 AACCTCAGGGAGATAAGATTTGCTTCTTCAGTCTGCCCCACTGT
1 AACTTCAGGGAGATAAGATTTGCTTCTTCAATCTGCTCCACTAC
* * * * * * **
11272862 GACTTCAGGGGGGATAAGACTCGTTTTCTT-AGTCTGCTCCACTGT
1 AACTTCA-GGGAGATAAGATTTG-CTTCTTCAATCTGCTCCACTAC
* * * * ** **
11272907 AACTTCAGGGAGATAAGA---CCCTATGCAATCCACTCTGCTAC
1 AACTTCAGGGAGATAAGATTTGCTTCTTCAATCTGCTCCACTAC
* * * * * *
11272948 AACCTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTAC
1 AACTTCAGGGAGATAAGATTTGCTT-CTTCAATCTGCTCCACTAC
* * **
11272992 AACTTCAGGGAGAGAGGATTAT-CGACTTCAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGATT-TGCTTCTTCAATCTGCTCCACTAC
* * * * *
11273036 AACCTCAGGGAGATAAGATTTGCTTCTTTAGTCTACCCCACT-C
1 AACTTCAGGGAGATAAGATTTGCTTCTTCAATCTGCTCCACTAC
* * * * *
11273079 TGACTTCAAGGG-GATAAGACTTG-TTTTCTCAGTCTGCTCCACTGC
1 -AACTTC-AGGGAGATAAGATTTGCTTCT-TCAATCTGCTCCACTAC
11273124 AACTTCAGGGAGATAAGA
1 AACTTCAGGGAGATAAGA
11273142 CCTGATGCGA
Statistics
Matches: 277, Mismatches: 71, Indels: 40
0.71 0.18 0.10
Matches are distributed among these distances:
40 2 0.01
41 24 0.09
43 14 0.05
44 189 0.68
45 42 0.15
46 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTGCTTCTTCAATCTGCTCCACTAC
Found at i:11273198 original size:217 final size:217
Alignment explanation
Indices: 11272467--11273245 Score: 927
Period size: 218 Copynumber: 3.6 Consensus size: 217
11272457 TTCGGTCTAT
* * * * *
11272467 TCCACTGTAA-TCTCAGGGAGGTAAGTCCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATA
1 TCCACTGTAACT-TCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATA
* ** * *
11272531 AGATC-A-T--TTTAATCCTCTCCACTGTAA-TCTCAGGG-GATAGGATTATTGGCTTCAATCTG
65 AGATCTATTACTTTAATCCGCTCCACTACAACT-TCAGGGAGATAGGATTATCGACTTCAATCTG
* * * * * * * * *
11272590 CTTCACTATAATCTCAGGGAGATAAGA-TTACTGGCTTTAATCTGCTCCGCTGT-AATCTC-AGT
129 CTCCACTACAACCTCAGGGAGATAAGATTTGCT-TCTTTAGTCTGCCCCACTGTGACT-TCAAG-
* * * * * **
11272652 GAGATAAGATTTGAATATCTTCGGTCTAT
191 GGGATAAGACTTG-TTTTC-TCAGTCTGC
* * *
11272681 TCCACTGTAA-TCTCAGGGAGATAAGAACTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 TCCACTGTAACT-TCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATA
* *
11272745 AGATCTATTACTTTAATCTGCTCCACTACAACCTT-AGGGAGATAGGATTATCGATTTCAATCTG
65 AGATCTATTACTTTAATCCGCTCCACTACAA-CTTCAGGGAGATAGGATTATCGACTTCAATCTG
* * *
11272809 CTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGG
129 CTCCACTACAACCTCAGGGAGATAAGATTTGCTTCTTTAGTCTGCCCCACTGTGACTTCA-AGGG
* *
11272874 GATAAGACTCGTTTTCTTAGTCTGC
193 GATAAGACTTGTTTTCTCAGTCTGC
* * * *
11272899 TCCACTGTAACTTCAGGGAGATAAGACCCT-ATGCAATCCACTCTGCTACAACCTCAGAGAGATA
1 TCCACTGTAACTTCAGGGAGATAAGA-CCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATA
*
11272963 AGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGAGAGGATTATCGACTTCAATCTGC
65 AGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGC
* *
11273028 TCCACTACAACCTCAGGGAGATAAGATTTGCTTCTTTAGTCTACCCCACTCTGACTTCAAGGGGA
130 TCCACTACAACCTCAGGGAGATAAGATTTGCTTCTTTAGTCTGCCCCACTGTGACTTCAAGGGGA
11273093 TAAGACTTGTTTTCTCAGTCTGC
195 TAAGACTTGTTTTCTCAGTCTGC
* * *
11273116 TCCACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTGCTGCAACTTCAAAGAGATAA
1 TCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAA
* * *
11273181 GATCTATTACTTTAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCGGCTTCAATCTGCT
66 GATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT
11273246 TCCTTACACT
Statistics
Matches: 492, Mismatches: 58, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
214 65 0.13
215 1 0.00
216 4 0.01
217 146 0.30
218 190 0.39
219 68 0.14
220 17 0.03
221 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
TCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAA
GATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT
CCACTACAACCTCAGGGAGATAAGATTTGCTTCTTTAGTCTGCCCCACTGTGACTTCAAGGGGAT
AAGACTTGTTTTCTCAGTCTGC
Found at i:11273553 original size:131 final size:131
Alignment explanation
Indices: 11273319--11273603 Score: 534
Period size: 131 Copynumber: 2.2 Consensus size: 131
11273309 NNNNNNNNNN
**
11273319 CTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG
1 CTGGTCAGGGACATAGGACTTGTACCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG
*
11273384 CCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTGCAATTTCCAACCTATTCCACT
66 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAATTTCCAACCTATTCCACT
11273449 G
131 G
11273450 CTGGTCAGGGACATAGGACTTGTACCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG
1 CTGGTCAGGGACATAGGACTTGTACCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG
*
11273515 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAATTTCCAACCTATTCTACT
66 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAATTTCCAACCTATTCCACT
11273580 G
131 G
11273581 CTGGTCAGGGACATAGGACTTGT
1 CTGGTCAGGGACATAGGACTTGT
11273604 GATTTCACCG
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 150 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (131 bp):
CTGGTCAGGGACATAGGACTTGTACCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG
CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAATTTCCAACCTATTCCACT
G
Found at i:11274861 original size:7 final size:7
Alignment explanation
Indices: 11274842--11274884 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
11274832 TTAGCCTCTC
11274842 CATTTTT
1 CATTTTT
11274849 -ACTTTTT
1 CA-TTTTT
11274856 CATTTTTT
1 CA-TTTTT
11274864 CATTTTT
1 CATTTTT
11274871 CA-TTTT
1 CATTTTT
11274877 CATTTTT
1 CATTTTT
11274884 C
1 C
11274885 CCCCCTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 7 0.22
7 17 0.53
8 8 0.25
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:11274869 original size:15 final size:15
Alignment explanation
Indices: 11274842--11274884 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
11274832 TTAGCCTCTC
*
11274842 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
11274856 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
11274871 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
11274884 C
1 C
11274885 CCCCCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.44
14 8 0.30
15 7 0.26
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:11275729 original size:13 final size:13
Alignment explanation
Indices: 11275711--11275754 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
11275701 TCTCATTTTC
11275711 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
11275724 TTTTTCTTCTCTCTT
1 TTTTTCTT-T-TCTT
*
11275739 TTTTTATTTTCATT
1 TTTTTCTTTTC-TT
11275753 TT
1 TT
11275755 GACCTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 10 0.37
14 6 0.22
15 11 0.41
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:11275740 original size:15 final size:13
Alignment explanation
Indices: 11275711--11275754 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
11275701 TCTCATTTTC
11275711 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
11275724 TTTTTCTTCTCTCTT
1 TTTTTCTT-T-TCTT
* *
11275739 TTTTTATTTTCAT
1 TTTTTCTTTTCTT
11275752 TTT
1 TTT
11275755 GACCTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 14 0.52
14 2 0.07
15 11 0.41
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:11275806 original size:20 final size:20
Alignment explanation
Indices: 11275759--11275820 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
11275749 CATTTTGACC
*
11275759 TTGATTTTTTTATTTTTCTT
1 TTGATTTTCTTATTTTTCTT
** * *
11275779 TTCTTTTTCTTCTTTTTGTT
1 TTGATTTTCTTATTTTTCTT
**
11275799 TTGATTTTGAT-TTTTTCTT
1 TTGATTTTCTTATTTTTCTT
11275818 TTG
1 TTG
11275821 CTCCTTTTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.77
Consensus pattern (20 bp):
TTGATTTTCTTATTTTTCTT
Found at i:11275809 original size:46 final size:47
Alignment explanation
Indices: 11275724--11275814 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
11275714 TTCTTTTCTT
11275724 TTTTTCTTCTCTCTTTTTTTATTTTCATTTTGACCTTGATTTTTTTA
1 TTTTTCTTCTCTCTTTTTTTATTTTCATTTTGACCTTGATTTTTTTA
* ** **
11275771 TTTTTCTT-T-TCTTTTTCTTCTTTTTGTTTTGATTTTGATTTTTT
1 TTTTTCTTCTCTCTTTTT-TTATTTTCATTTTGACCTTGATTTTTT
11275815 CTTTTGCTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 7 0.18
46 23 0.61
47 8 0.21
ACGTcount: A:0.08, C:0.12, G:0.05, T:0.75
Consensus pattern (47 bp):
TTTTTCTTCTCTCTTTTTTTATTTTCATTTTGACCTTGATTTTTTTA
Found at i:11282243 original size:15 final size:15
Alignment explanation
Indices: 11282225--11282256 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11282215 GGTATTGAGC
11282225 TTAGGCTAATTGGGT
1 TTAGGCTAATTGGGT
*
11282240 TTAGGCTAGTTGGGT
1 TTAGGCTAATTGGGT
11282255 TT
1 TT
11282257 CTGTAACTTG
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:0.16, C:0.06, G:0.34, T:0.44
Consensus pattern (15 bp):
TTAGGCTAATTGGGT
Found at i:11285198 original size:19 final size:20
Alignment explanation
Indices: 11285152--11285199 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
11285142 CTCGTAGTAG
* **
11285152 TAAATCTTTGTTCAATGACG
1 TAAATCTTTGTTCAATCAAA
11285172 TAAATCTTTGTTCAATCAAA
1 TAAATCTTTGTTCAATCAAA
11285192 T-AATCTTT
1 TAAATCTTT
11285200 TGTGATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
TAAATCTTTGTTCAATCAAA
Found at i:11286187 original size:91 final size:91
Alignment explanation
Indices: 11286032--11286239 Score: 294
Period size: 91 Copynumber: 2.3 Consensus size: 91
11286022 AGTTTATCTA
* * * *
11286032 CAAACACTGGTGGTTTACCCACAAATTTATTGGCAGCTTTTATCTACAAACACGTTATGTATTCA
1 CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAAACACATTATGCATTCA
* *
11286097 CAACCTACTGGCAGCGTATTAACCTG
66 CAACCTACTGGCAACATATTAACCTG
* * *
11286123 CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATTTGCAAAC-CTATTGTGCATTC
1 CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAAACAC-ATTATGCATTC
*
11286187 ACAACCTACTGGCAACATATTAACTTG
65 ACAACCTACTGGCAACATATTAACCTG
*
11286214 C-AACACTGGTGGTTCATCCACAAATT
1 CAAACACTGGTGGTTTATCCACAAATT
11286240 GGAGTGTCCG
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 25 0.24
91 80 0.76
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (91 bp):
CAAACACTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAAACACATTATGCATTCA
CAACCTACTGGCAACATATTAACCTG
Found at i:11290835 original size:1 final size:1
Alignment explanation
Indices: 11290829--11290856 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
11290819 AGTGATCCCT
11290829 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
11290857 ATCCCACCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:11292958 original size:24 final size:24
Alignment explanation
Indices: 11292931--11292977 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11292921 AATAAACCGA
*
11292931 TAAATTT-ATTTAAATGAATTAAAC
1 TAAATTTGATGTAAA-GAATTAAAC
11292955 TAAATTTGATGTAAAGAATTAAA
1 TAAATTTGATGTAAAGAATTAAA
11292978 GATGTGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (24 bp):
TAAATTTGATGTAAAGAATTAAAC
Found at i:11298376 original size:19 final size:19
Alignment explanation
Indices: 11298348--11298408 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
11298338 CCATAAAGTA
11298348 TTTTCAAGAGAATTTTCAC
1 TTTTCAAGAGAATTTTCAC
*
11298367 TTTTC--GAG-A-GTT-A-
1 TTTTCAAGAGAATTTTCAC
11298380 TTTTCAAGAGAATTTTCAC
1 TTTTCAAGAGAATTTTCAC
*
11298399 TTTTCGAGAG
1 TTTTCAAGAG
11298409 TTAGGTTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 5 0.15
16 2 0.06
17 5 0.15
18 1 0.03
19 14 0.42
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (19 bp):
TTTTCAAGAGAATTTTCAC
Found at i:11298382 original size:32 final size:32
Alignment explanation
Indices: 11298346--11298411 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
11298336 TGCCATAAAG
11298346 TATTTTCAAGAGAATTTTCACTTTTCGAGAGT
1 TATTTTCAAGAGAATTTTCACTTTTCGAGAGT
11298378 TATTTTCAAGAGAATTTTCACTTTTCGAGAGT
1 TATTTTCAAGAGAATTTTCACTTTTCGAGAGT
11298410 TA
1 TA
11298412 GGTTAACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (32 bp):
TATTTTCAAGAGAATTTTCACTTTTCGAGAGT
Found at i:11299991 original size:28 final size:27
Alignment explanation
Indices: 11299939--11299994 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
11299929 AACTAGGGAT
11299939 TAAATTGTGAAATATGAAATTTGTATGG
1 TAAATTGTGAAATATGAAA-TTGTATGG
*
11299967 TAAATGTGTGAAATTCTGAAA-TGTATGG
1 TAAAT-TGTGAAA-TATGAAATTGTATGG
11299995 ACTGCCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 12 0.48
29 7 0.28
30 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (27 bp):
TAAATTGTGAAATATGAAATTGTATGG
Found at i:11308478 original size:70 final size:70
Alignment explanation
Indices: 11308388--11308560 Score: 242
Period size: 70 Copynumber: 2.5 Consensus size: 70
11308378 TCCTAATACC
* * * * * *
11308388 AAACTCAGTCAAGGCCTTAATATTAGTAGAGATTTATTAATTAAGTTGGTGTCTCTTGACTTGTG
1 AAACTCAATCAGGGCTTTAATATTAGTAGAGATTTATTAATTAAGTTGGTCTCACTTGACTAGTG
*
11308453 ATATC-
66 ACA-CG
* *
11308458 AAACTTAATCAGGGCTTTAATATTAGTAGAGATTTATTAATTGAGTTGGTCTCACTTGACTAGTG
1 AAACTCAATCAGGGCTTTAATATTAGTAGAGATTTATTAATTAAGTTGGTCTCACTTGACTAGTG
11308523 ACACG
66 ACACG
11308528 AAACTCAATCAGGGCTTTAA-ATTAGTAGAGATT
1 AAACTCAATCAGGGCTTTAATATTAGTAGAGATT
11308561 ATCGATATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
69 14 0.15
70 78 0.85
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
AAACTCAATCAGGGCTTTAATATTAGTAGAGATTTATTAATTAAGTTGGTCTCACTTGACTAGTG
ACACG
Found at i:11309305 original size:25 final size:25
Alignment explanation
Indices: 11309271--11309330 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
11309261 TTGTACTTTT
11309271 AACCCAATACTTTATAATTCAATCC
1 AACCCAATACTTTATAATTCAATCC
*
11309296 AACCCAATACTTTATGATTCAATCC
1 AACCCAATACTTTATAATTCAATCC
11309321 AACCCAATAC
1 AACCCAATAC
11309331 ATATTTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (25 bp):
AACCCAATACTTTATAATTCAATCC
Found at i:11312062 original size:138 final size:138
Alignment explanation
Indices: 11311813--11312072 Score: 475
Period size: 138 Copynumber: 1.9 Consensus size: 138
11311803 AAAATACGAA
11311813 TATTCAACAAATCATAATCCACAAGTCAAATATAACATTACAAATTATTCTAATTTAAACCGTAC
1 TATTCAACAAATCATAATCCACAAGTCAAATATAACATTACAAATTATTCTAATTTAAACCGTAC
* *
11311878 GAACTTACAAGGGTTAGATTGCAGAGATAGTAAAAGTTCAAGGTCTAATCAGCAATTATTTGTAA
66 AAACTTACAAGGGTTAGATTGCAGAGATAGTAAAAGTTCAAAGTCTAATCAGCAATTATTTGTAA
11311943 TTGCTGAT
131 TTGCTGAT
*
11311951 TATTCAACAAATCATAATCCACAAGTCAAATATAACATTACAAATTATTCTAATTTAAACTGTAC
1 TATTCAACAAATCATAATCCACAAGTCAAATATAACATTACAAATTATTCTAATTTAAACCGTAC
* *
11312016 AAACTTACTAGGGTTAGATTGCATAGATAGTAAAAGTTCAAAGTCTAATCAGCAATT
66 AAACTTACAAGGGTTAGATTGCAGAGATAGTAAAAGTTCAAAGTCTAATCAGCAATT
11312073 TTCCTTTTTC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 117 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (138 bp):
TATTCAACAAATCATAATCCACAAGTCAAATATAACATTACAAATTATTCTAATTTAAACCGTAC
AAACTTACAAGGGTTAGATTGCAGAGATAGTAAAAGTTCAAAGTCTAATCAGCAATTATTTGTAA
TTGCTGAT
Found at i:11312344 original size:38 final size:39
Alignment explanation
Indices: 11312292--11312369 Score: 149
Period size: 38 Copynumber: 2.0 Consensus size: 39
11312282 TGGTCTATGA
11312292 GTTTTAGAAAAACGGATTCGAGAGTCAGTTACGTACGAG
1 GTTTTAGAAAAACGGATTCGAGAGTCAGTTACGTACGAG
11312331 GTTTTA-AAAAACGGATTCGAGAGTCAGTTACGTACGAG
1 GTTTTAGAAAAACGGATTCGAGAGTCAGTTACGTACGAG
11312369 G
1 G
11312370 AAGGATTAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 33 0.85
39 6 0.15
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (39 bp):
GTTTTAGAAAAACGGATTCGAGAGTCAGTTACGTACGAG
Found at i:11315192 original size:16 final size:17
Alignment explanation
Indices: 11315173--11315212 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11315163 TTTTTTTATG
11315173 TTTTAAGTTTT-A-TTTA
1 TTTTAA-TTTTAACTTTA
11315189 TTTT-ATTTTAACTTTA
1 TTTTAATTTTAACTTTA
11315205 TTTTAATT
1 TTTTAATT
11315213 GAAATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 2 0.10
16 12 0.57
17 3 0.14
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTAATTTTAACTTTA
Found at i:11317821 original size:15 final size:17
Alignment explanation
Indices: 11317801--11317832 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11317791 GGCAGTAGGG
11317801 GCGGCGG-TG-GTGTGC
1 GCGGCGGCTGTGTGTGC
11317816 GCGGCGGCTGTGTGTGC
1 GCGGCGGCTGTGTGTGC
11317833 AGCAGCGGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.00, C:0.22, G:0.56, T:0.22
Consensus pattern (17 bp):
GCGGCGGCTGTGTGTGC
Found at i:11317821 original size:18 final size:18
Alignment explanation
Indices: 11317800--11317853 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
11317790 TGGCAGTAGG
11317800 GGCGGCGGTGGTGTGCGC
1 GGCGGCGGTGGTGTGCGC
*
11317818 GGCGGCTGT-GTGTGCAGC
1 GGCGGCGGTGGTGTGC-GC
* *
11317836 AGCGGCGCTGGTGGTGCG
1 GGCGGCGGTGGT-GTGCG
11317854 TCACAGGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.21
18 16 0.55
19 3 0.10
20 4 0.14
ACGTcount: A:0.04, C:0.22, G:0.56, T:0.19
Consensus pattern (18 bp):
GGCGGCGGTGGTGTGCGC
Found at i:11320046 original size:31 final size:31
Alignment explanation
Indices: 11319993--11320063 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
11319983 AATATACTAT
* * *
11319993 TTGGTACTTGAGTTTAGGTTCAATGTTCAAA
1 TTGGTACCTGAATTTAGGTTCAATATTCAAA
*
11320024 TTGGTACCTGAATTT-GGTTTCAATATTCAAT
1 TTGGTACCTGAATTTAGG-TTCAATATTCAAA
11320055 TTGGTACCT
1 TTGGTACCT
11320064 AAACCAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.44
Consensus pattern (31 bp):
TTGGTACCTGAATTTAGGTTCAATATTCAAA
Found at i:11327730 original size:15 final size:16
Alignment explanation
Indices: 11327712--11327741 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11327702 AAAATATATA
11327712 TAATT-TAATTTTTTT
1 TAATTATAATTTTTTT
11327727 TAATTATAATTTTTT
1 TAATTATAATTTTTT
11327742 AAAGTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TAATTATAATTTTTTT
Found at i:11332797 original size:184 final size:183
Alignment explanation
Indices: 11332482--11332833 Score: 515
Period size: 184 Copynumber: 1.9 Consensus size: 183
11332472 ATGGATTTAA
* * * *
11332482 GATTTATTCACTTGTGATGTTCATAATGTGACATACCTTAATCCTGAGTGGATGACAGACTATGT
1 GATTTATTCACTTGTGATGTTCATAATATGACATACCTTAATCCTAAGTGGATGACAAACTATGC
* * * *
11332547 ATGTGTGACTCATATACTTTGATGTAAATGAAAGCCCAAGTTCAAATATATAAGGAACTGAAAGT
66 ATGCGTGACTCATATACTTTGATGTAAATGAAAGCCCAAGTTCAAATAGATAAGAAACTAAAAGT
* **
11332612 TGATACATCGGGTATACGAGTTCTGCATAATGTAGCATCCTATATTTGTTTATG
131 TGATAAATCACGTATACGA-TTCTGCATAATGTAGCATCCTATATTTGTTTATG
** *
11332666 GATTTATTCACTTGTGATGTTCATAATATGGTATACCTTAATCCTAAGTGGATGATAAACTATGC
1 GATTTATTCACTTGTGATGTTCATAATATGACATACCTTAATCCTAAGTGGATGACAAACTATGC
* ** *
11332731 ATGCGTGACTCATATACTTTGATGTAAATGAAAGTCTGAGTTTAAATAGATAAGAAACTAAAAGT
66 ATGCGTGACTCATATACTTTGATGTAAATGAAAGCCCAAGTTCAAATAGATAAGAAACTAAAAGT
* *
11332796 TGGTAAATCACGTATATGATTCTGCATAATGTAGCATC
131 TGATAAATCACGTATACGATTCTGCATAATGTAGCATC
11332834 ATTCCACAAC
Statistics
Matches: 148, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
183 19 0.13
184 129 0.87
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (183 bp):
GATTTATTCACTTGTGATGTTCATAATATGACATACCTTAATCCTAAGTGGATGACAAACTATGC
ATGCGTGACTCATATACTTTGATGTAAATGAAAGCCCAAGTTCAAATAGATAAGAAACTAAAAGT
TGATAAATCACGTATACGATTCTGCATAATGTAGCATCCTATATTTGTTTATG
Found at i:11335162 original size:21 final size:21
Alignment explanation
Indices: 11335138--11335183 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11335128 TACATAGCAT
* * *
11335138 TTAACCGACTCTTTGCTGTTA
1 TTAACCAACTCCTTGCTGTAA
*
11335159 TTAACCAACTCCTTGTTGTAA
1 TTAACCAACTCCTTGCTGTAA
11335180 TTAA
1 TTAA
11335184 TCGGCCAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (21 bp):
TTAACCAACTCCTTGCTGTAA
Found at i:11335264 original size:11 final size:11
Alignment explanation
Indices: 11335248--11335286 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
11335238 TGGGCGGTAA
11335248 AAAAAGAAGAG
1 AAAAAGAAGAG
*
11335259 AAAAAGAATAAG
1 AAAAAGAA-GAG
11335271 AAAAAGAAGAG
1 AAAAAGAAGAG
11335282 AAAAA
1 AAAAA
11335287 ATTGAGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAAGAAGAG
Found at i:11335287 original size:12 final size:12
Alignment explanation
Indices: 11335247--11335287 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
11335237 CTGGGCGGTA
11335247 AAAAAAGAAGAG
1 AAAAAAGAAGAG
*
11335259 -AAAAAGAATA-
1 AAAAAAGAAGAG
11335269 AGAAAAAGAAGAG
1 A-AAAAAGAAGAG
11335282 AAAAAA
1 AAAAAA
11335288 TTGAGATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.38
12 14 0.58
13 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAGAG
Found at i:11335626 original size:47 final size:47
Alignment explanation
Indices: 11335560--11335678 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 47
11335550 TGTAATAGTG
* * * *
11335560 TTGTTGTTTAAATGAAAAACCAGGTTATGTTATAGCTAGTACTGTTA
1 TTGTTATTGAAATGGAAAACCAGGTTATGTAATAGCTAGTACTGTTA
* ** * * * *
11335607 TTTTTATTGAAATGGAAAACCATTTTATGTAATAGTTGGTATTGTTG
1 TTGTTATTGAAATGGAAAACCAGGTTATGTAATAGCTAGTACTGTTA
*
11335654 TTGTTGTTGAAATGGAAAACCAGGT
1 TTGTTATTGAAATGGAAAACCAGGT
11335679 AATGACTACT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (47 bp):
TTGTTATTGAAATGGAAAACCAGGTTATGTAATAGCTAGTACTGTTA
Found at i:11335930 original size:42 final size:42
Alignment explanation
Indices: 11335867--11335986 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
11335857 GTTAGGTTTG
** * *
11335867 TTTGTTGTTTTAAATTAATTCTTTTCAT-CTTTGAATCGATTT
1 TTTGTTGTTTTAAATCGATTCTTTGCATACTTT-AATCGATTA
* *
11335909 TTTTTTGTTTTAAATCGATTCTTTGCTTACTTTAATCGATTA
1 TTTGTTGTTTTAAATCGATTCTTTGCATACTTTAATCGATTA
*
11335951 TTTGTTGTTTTAAATCGATTCTTTGC-TTCTTTAATC
1 TTTGTTGTTTTAAATCGATTCTTTGCATACTTTAATC
11335987 AATTCATTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 9 0.13
42 56 0.81
43 4 0.06
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.58
Consensus pattern (42 bp):
TTTGTTGTTTTAAATCGATTCTTTGCATACTTTAATCGATTA
Found at i:11335975 original size:21 final size:21
Alignment explanation
Indices: 11335867--11336031 Score: 108
Period size: 21 Copynumber: 8.0 Consensus size: 21
11335857 GTTAGGTTTG
**
11335867 TTTGTTGTTTTAAATTAATTC
1 TTTGTTGTTTTAAATCGATTC
** * *
11335888 TTT-TCATCTTTGAATCGATTT
1 TTTGTTGT-TTTAAATCGATTC
*
11335909 TTTTTTGTTTTAAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
** *
11335930 TTTGCTTACTTT-AATCGATTA
1 TTTG-TTGTTTTAAATCGATTC
11335951 TTTGTTGTTTTAAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
* *
11335972 TTTGCTT-CTTT-AATCAATTC
1 TTTG-TTGTTTTAAATCGATTC
* * * *
11335992 ATTATT-ATTTGAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
*
11336012 TTTGTTG-TTTAACTCGATTC
1 TTTGTTGTTTTAAATCGATTC
11336032 AAACTCTAAC
Statistics
Matches: 110, Mismatches: 27, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
19 5 0.05
20 40 0.36
21 56 0.51
22 9 0.08
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.56
Consensus pattern (21 bp):
TTTGTTGTTTTAAATCGATTC
Found at i:11335991 original size:20 final size:21
Alignment explanation
Indices: 11335921--11336031 Score: 90
Period size: 20 Copynumber: 5.4 Consensus size: 21
11335911 TTTTGTTTTA
11335921 AATCGATTCTTTGCTTACTTT
1 AATCGATTCTTTGCTTACTTT
* **
11335942 AATCGATTATTTG-TTGTTTT
1 AATCGATTCTTTGCTTACTTT
11335962 AAATCGATTCTTTGCTT-CTTT
1 -AATCGATTCTTTGCTTACTTT
* * *
11335983 AATCAATTCATT-ATTA-TTT
1 AATCGATTCTTTGCTTACTTT
*
11336002 GAATCGATTCTTTG-TT-GTTT
1 -AATCGATTCTTTGCTTACTTT
11336022 AACTCGATTC
1 AA-TCGATTC
11336032 AAACTCTAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
19 7 0.10
20 37 0.51
21 27 0.37
22 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (21 bp):
AATCGATTCTTTGCTTACTTT
Found at i:11336251 original size:21 final size:21
Alignment explanation
Indices: 11336194--11336260 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
11336184 TTTAGGTTTA
*
11336194 TTTGTTGTTTTAAATTGATTC
1 TTTGTTGTTTTAAATCGATTC
* * * *
11336215 TTTACTT-ATTTGAATCGATTG
1 TTT-GTTGTTTTAAATCGATTC
11336236 TTTGTTGTTTTAAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
11336257 TTTG
1 TTTG
11336261 CTTCTTTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.19, C:0.07, G:0.15, T:0.58
Consensus pattern (21 bp):
TTTGTTGTTTTAAATCGATTC
Found at i:11336316 original size:20 final size:20
Alignment explanation
Indices: 11336202--11336316 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
11336192 TATTTGTTGT
*
11336202 TTTAAATTGATTCTTTACTTA
1 TTTAAATCGATTCTTT-CTTA
* * * *
11336223 TTTGAATCGATTGTTTGTTGT
1 TTTAAATCGATTCTTTCTT-A
*
11336244 TTTAAATCGATTCTTTGCTTC
1 TTTAAATCGATTCTTT-CTTA
** * * * *
11336265 TTT-AATTAAATCATTATTG
1 TTTAAATCGATTCTTTCTTA
* *
11336284 TTTGAATCAATTCTTTCTTA
1 TTTAAATCGATTCTTTCTTA
11336304 TTTAAATCGATTC
1 TTTAAATCGATTC
11336317 AAACTCCAAC
Statistics
Matches: 69, Mismatches: 22, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
19 5 0.07
20 32 0.46
21 30 0.43
22 2 0.03
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTAAATCGATTCTTTCTTA
Found at i:11336421 original size:36 final size:36
Alignment explanation
Indices: 11336353--11336443 Score: 136
Period size: 36 Copynumber: 2.6 Consensus size: 36
11336343 TATTCAGTTG
*
11336353 GTCCCTTATCAATACTTG-C---ACAACACAGCATTT
1 GTCCCTTATCAATA-TTGACTTAACAACACAACATTT
11336386 GTCCCTTATCAATATTGACTTAACAACACAACATTT
1 GTCCCTTATCAATATTGACTTAACAACACAACATTT
11336422 GTCCCTTATCAATATTGACTTA
1 GTCCCTTATCAATATTGACTTA
11336444 CACCGATGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
32 3 0.06
33 15 0.28
36 35 0.66
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (36 bp):
GTCCCTTATCAATATTGACTTAACAACACAACATTT
Found at i:11339930 original size:16 final size:16
Alignment explanation
Indices: 11339909--11339961 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
11339899 TTGGTTCGCT
11339909 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
11339925 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
11339941 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
11339957 GTAAT
1 GTAAT
11339962 AGTATTCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11342708 original size:14 final size:14
Alignment explanation
Indices: 11342689--11342716 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11342679 AGCAGAAATC
11342689 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
11342703 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
11342717 GAAATATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:11342714 original size:19 final size:22
Alignment explanation
Indices: 11342692--11342736 Score: 69
Period size: 19 Copynumber: 2.2 Consensus size: 22
11342682 AGAAATCTGG
11342692 AGAAAAGAAA-ATG-G-AGAAA
1 AGAAAAGAAATATGAGAAGAAA
11342711 AGAAAAGAAATATGAGAAGAAA
1 AGAAAAGAAATATGAGAAGAAA
11342733 AGAA
1 AGAA
11342737 GCGTACCGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 1 0.04
22 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (22 bp):
AGAAAAGAAATATGAGAAGAAA
Found at i:11343763 original size:155 final size:154
Alignment explanation
Indices: 11343482--11343774 Score: 523
Period size: 155 Copynumber: 1.9 Consensus size: 154
11343472 ACAACATGAG
* * *
11343482 AGGCGGCACCAATATGTTCGTATTTCAGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTT
1 AGGCGGAACCAACATGTTCGTATTTCAACCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTT
11343547 TAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
66 TAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
11343612 ATTAATTTGCCCTTGGACAGGTCT
131 ATTAATTTGCCCTTGGACAGGTCT
**
11343636 AGGCGGAACCAACATGTTCGTATTTCAACCCTTTGTTCGTATTTTTTTCTTGGATTTTATTACTT
1 AGGCGGAACCAACATGTTCGTATTTCAACCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTACTT
11343701 TTAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
65 TTAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
*
11343766 TATTCATTT
130 TATTAATTT
11343775 AATGTGTTTT
Statistics
Matches: 132, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
154 38 0.29
155 94 0.71
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (154 bp):
AGGCGGAACCAACATGTTCGTATTTCAACCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTT
TAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
ATTAATTTGCCCTTGGACAGGTCT
Found at i:11344795 original size:33 final size:33
Alignment explanation
Indices: 11344731--11344876 Score: 117
Period size: 33 Copynumber: 4.5 Consensus size: 33
11344721 TGATTAATTT
* * *
11344731 ATATTTTATGTATCATTATATCAAACCATTTAA
1 ATATTTCATGTATCATTATATTAAATCATTTAA
** *
11344764 ATATTTCATGTATCATTATATTAGGTTATTTAA
1 ATATTTCATGTATCATTATATTAAATCATTTAA
*
11344797 ATA--TCAT-TTTCATTATATTAAATCATTTAA
1 ATATTTCATGTATCATTATATTAAATCATTTAA
* * *
11344827 ATATAATTCAT-TATTATT-T-TTAAGT-TTTTAAA
1 ATAT--TTCATGTATCATTATATTAAATCATTT-AA
*
11344859 ATATTTTATGTATCATTA
1 ATATTTCATGTATCATTA
11344877 ATTTTACAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
30 26 0.29
31 13 0.14
32 11 0.12
33 31 0.34
34 9 0.10
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (33 bp):
ATATTTCATGTATCATTATATTAAATCATTTAA
Found at i:11346059 original size:35 final size:36
Alignment explanation
Indices: 11345999--11346073 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
11345989 AAAAACTTTC
*
11345999 AATA-AATAAAAAATATTTTTTAAAATATT-AAAAT
1 AATATAATAAAAAATATTTTTAAAAATATTAAAAAT
* *
11346033 AATATAATATAAAAT-TTTTTAAAAAATTTTAAAAAT
1 AATATAATAAAAAATATTTTT-AAAAATATTAAAAAT
11346069 AATAT
1 AATAT
11346074 GGGCGAGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 9 0.26
35 16 0.46
36 10 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (36 bp):
AATATAATAAAAAATATTTTTAAAAATATTAAAAAT
Found at i:11346267 original size:12 final size:12
Alignment explanation
Indices: 11346250--11346275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11346240 ATGGGCGGGC
11346250 TTAGGCAAAATT
1 TTAGGCAAAATT
11346262 TTAGGCAAAATT
1 TTAGGCAAAATT
11346274 TT
1 TT
11346276 GGGTCAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTAGGCAAAATT
Found at i:11349108 original size:22 final size:23
Alignment explanation
Indices: 11349068--11349110 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11349058 TTTTCTATAC
*
11349068 AAATATTTTATAAAAATTAAACT
1 AAATATATTATAAAAATTAAACT
11349091 AAATATATTAT-AAAATTAAA
1 AAATATATTATAAAAATTAAA
11349111 AGATCATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATATATTATAAAAATTAAACT
Found at i:11349730 original size:24 final size:24
Alignment explanation
Indices: 11349715--11349766 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11349705 AATCAAACTC
11349715 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
11349739 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
11349763 AAAT
1 AAAT
11349767 CATGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:11357351 original size:24 final size:24
Alignment explanation
Indices: 11357309--11357360 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11357299 AATCAAAGTC
** *
11357309 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11357333 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11357357 AAAT
1 AAAT
11357361 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11357904 original size:20 final size:19
Alignment explanation
Indices: 11357875--11357913 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11357865 CAAGCAACTT
11357875 AAAAAATTGATAACATTTA
1 AAAAAATTGATAACATTTA
*
11357894 AAAAAATTTGATAATATTTA
1 AAAAAA-TTGATAACATTTA
11357914 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAAAATTGATAACATTTA
Found at i:11366846 original size:28 final size:28
Alignment explanation
Indices: 11366777--11366848 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
11366767 TTTAAGTTTC
11366777 TAAAATTTTAAATATATTAAAAGAAATGT
1 TAAAATTTT-AATATATTAAAAGAAATGT
*
11366806 TAAATATAATTAAT-T-TTAAAAGAATATGTT
1 TAAA-AT-TTTAATATATTAAAAGAA-ATG-T
11366836 TAAAATTTTAATA
1 TAAAATTTTAATA
11366849 CATTTGAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
28 14 0.39
29 10 0.28
30 10 0.28
31 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (28 bp):
TAAAATTTTAATATATTAAAAGAAATGT
Found at i:11366909 original size:70 final size:70
Alignment explanation
Indices: 11366828--11367398 Score: 1124
Period size: 70 Copynumber: 8.2 Consensus size: 70
11366818 ATTTTAAAAG
11366828 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11366893 TTTTT
66 TTTTT
11366898 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11366963 TTTTT
66 TTTTT
11366968 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11367033 TTTTT
66 TTTTT
11367038 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11367103 TTTTT
66 TTTTT
11367108 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11367173 TTTTT
66 TTTTT
11367178 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11367243 TTTTT
66 TTTTT
11367248 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
11367313 TTTTT
66 TTTTT
11367318 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
1 AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
*
11367383 TTTTA
66 TTTTT
*
11367388 AATATATTTAA
1 AATATGTTTAA
11367399 TTCTTTTAAG
Statistics
Matches: 499, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 499 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (70 bp):
AATATGTTTAAAATTTTAATACATTTGAATATATTAAAATTTTAAAATTGGTTATACTTAACATT
TTTTT
Found at i:11367517 original size:18 final size:17
Alignment explanation
Indices: 11367471--11367509 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11367461 AAAATATATA
* *
11367471 TTAAGTATATTAAAATT
1 TTAAATATATTAAACTT
11367488 TTAAATATATTAAACTT
1 TTAAATATATTAAACTT
11367505 TTAAA
1 TTAAA
11367510 ATTAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAAATATATTAAACTT
Found at i:11378067 original size:45 final size:45
Alignment explanation
Indices: 11378016--11378102 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
11378006 AACAAATTAA
11378016 ATCTTCTAATAAATAGGGACAAATAAAATTATCATTTTATGCCTT
1 ATCTTCTAATAAATAGGGACAAATAAAATTATCATTTTATGCCTT
* * * **
11378061 ATCTTCTAATCAATATGTACAAATAAAATTATTTTTTTATGC
1 ATCTTCTAATAAATAGGGACAAATAAAATTATCATTTTATGC
11378103 ATATCGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (45 bp):
ATCTTCTAATAAATAGGGACAAATAAAATTATCATTTTATGCCTT
Found at i:11383456 original size:106 final size:106
Alignment explanation
Indices: 11383271--11383591 Score: 552
Period size: 106 Copynumber: 3.0 Consensus size: 106
11383261 TTCTAATTCA
* * *
11383271 AAAATTTCAAAGTAATGCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAGCAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
11383336 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* *
11383377 AAAATTTCAAAGCAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGTCCTAACGTGCTGT
1 AAAATTTCAAAGCAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* *
11383442 GTTTCGATTTCTCGTTTGACCAAATAGCCAAATATCATTTT
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* * *
11383483 AAAATTTCAAAGCAAGACAATATTTTGCGTTTGTATATTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAGCAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
11383548 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
11383589 AAA
1 AAA
11383592 TTTTAATCCA
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 201 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (106 bp):
AAAATTTCAAAGCAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
Found at i:11395135 original size:44 final size:42
Alignment explanation
Indices: 11394858--11395670 Score: 281
Period size: 44 Copynumber: 19.0 Consensus size: 42
11394848 GGTAAAACTA
** * * *** *
11394858 CAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * * **
11394900 CAG-TTTTATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AA-C
* * * * *
11394944 CA-ATCCTATCTCCCTAAAATTACAGTGGAGTGGATTAAAACC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C
* * * *** *
11394986 GCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
1 -CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * ** *
11395029 CAG-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAAT
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAAC
*
11395073 CA-ATC--CTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * * * * *** *
11395112 CAAAGATCTTATTTCTCTGAAGTTACAGTAGAGCAGATCGCATC
1 C--AGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * **
11395156 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAAC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAG-CG-GATTA-AAAC
* *
11395200 CA-ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C
* * ** * * *** *
11395242 ACATATCTTCTCTCTTTGAAGTTGCAGTAGAGCAGATCGCATC
1 -CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * **
11395285 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAAC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAG-CG-GATTA-AAAC
* * *
11395329 CA-ATCCTATCTCCCTGAAGTTGTAGTGGAGCGTATTAAAACC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C
* * * ** ** *
11395371 ACAGATCTTATCTCTCTGGAGTTGCAGTAGAGTAGATTGCATC
1 -CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * * * * **
11395414 CAG-TATTATCTCCCTAAAGTTACAGTGGAACAGACAGAAGAAGC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AA-C
* *
11395458 CA-ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C
* * * * * * * * *** *
11395500 ACAAATCTTTTATCTCTGAAGTTGTAGTAGACCAGA-TCCCAT
1 -CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * *
11395542 CA-AGCATTATCTCCCTAAAGTTACAGTGGAGCAGG-TTGAAGATAC
1 CAGATC-TTATCTCCCTGAAGTTGCAGTGGAGC-GGATT-AA-A-AC
* * * * *
11395587 CA-ATCCTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * * * *
11395628 TATTAATCCTATCTCCCTGAAGCTGCAATGGAGCGGATTAAAA
1 CA--GATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
11395671 TGATGAATCC
Statistics
Matches: 546, Mismatches: 180, Indels: 88
0.67 0.22 0.11
Matches are distributed among these distances:
39 4 0.01
40 4 0.01
41 150 0.27
42 53 0.10
43 26 0.05
44 304 0.56
45 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (42 bp):
CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
Found at i:11395649 original size:129 final size:129
Alignment explanation
Indices: 11394850--11395622 Score: 1093
Period size: 129 Copynumber: 6.0 Consensus size: 129
11394840 AACAGATCGG
* * *
11394850 TAAAACTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCCAGTTTTATCTCCCT
1 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
* * * * *
11394915 GAAGTTACAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTAAAATTACAGTGGAGTGGAT
66 GAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
*
11394979 TAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
1 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
** *
11395044 GAAGTTGTAGTGGAGCAGACAGAAGAAATCAATCC--TCTCCCTGAAGTTGCAGTGGAGCGGAT
66 GAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
* * *
11395106 TAAAACCAAAGATCTTATTTCTCTGAAGTTACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
1 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
* * *
11395171 GAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAT
66 GAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
* * *
11395235 TAAAACCACATATCTTCTCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
1 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
* * * *
11395300 GAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGTAT
66 GAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
* * * *
11395364 TAAAACCACAGATCTTATCTCTCTGGAGTTGCAGTAGAGTAGATTGCATCCAGTATTATCTCCCT
1 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
* * * *
11395429 AAAGTTACAGTGGAACAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAT
66 GAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
* * * * * * *
11395493 TAAAACCACAAATCTTTTATCTCTGAAGTTGTAGTAGACCAGATCCCATCAAG-CATTATCTCCC
1 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTC-TTATCTCCC
* *** * * *
11395557 TAAAGTTACAGTGGAGCAGGTTGAAGATACCAATCCTATCTCCCTGAAGTTGCAGCGGAGCAGAT
65 TGAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
11395622 T
1 T
11395623 GAAGCTATTA
Statistics
Matches: 581, Mismatches: 60, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
127 116 0.20
129 465 0.80
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (129 bp):
TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
GAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
Found at i:11395680 original size:44 final size:44
Alignment explanation
Indices: 11395569--11395683 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
11395559 AAGTTACAGT
* * ** * *
11395569 GGAGCAGGTTGAAGATACCAATCCTATCTCCCTGAAGTTGCAGC
1 GGAGCAGATTGAAAATATGAATCCTATCTCCCTGAAGCTGCAAC
** * *
11395613 GGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGCTGCAAT
1 GGAGCAGATTGAAAATATGAATCCTATCTCCCTGAAGCTGCAAC
*
11395657 GGAGCGGATT-AAAATGATGAATCCTAT
1 GGAGCAGATTGAAAAT-ATGAATCCTAT
11395684 ACCTCTGAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.05
44 56 0.95
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
GGAGCAGATTGAAAATATGAATCCTATCTCCCTGAAGCTGCAAC
Found at i:11398067 original size:106 final size:106
Alignment explanation
Indices: 11397757--11398295 Score: 834
Period size: 106 Copynumber: 5.1 Consensus size: 106
11397747 TTCTAATTCA
* * *
11397757 AAAATTTCAAAGTAAGGCAATATTTTACGTTTGGAAAA-TCGAGAAAATGTGCCCTAACATGCTG
1 AAAATTTCAAAGCAAGGCAATATTTTACGTTT-GAAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
11397821 GGTTTCTATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
65 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* *
11397863 AAAATTTCAAAGCAAGGCAATATTTTACGTTTG-AAATTCGAGAAAACGTTCCCTAACATGCTGG
1 AAAATTTCAAAGCAAGGCAATATTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
*
11397927 GTTTCGATTTCTCGTTTGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
*
11397968 AAAATTTCAAAGCAAGACAATATTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAGCAAGGCAATATTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* *
11398033 GTTTTGATTTCTCATTCGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* * * * *
11398074 AAAATTTCAAAACAAGGTAATATTTTGCGTTTGGAAAA-TCGAGAAGACGTGCCCTAACGTGTTG
1 AAAATTTCAAAGCAAGGCAATATTTTACGTTT-GAAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
11398138 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT
65 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* * * * *
11398180 AAAATTTCAAAACAAGGTAATATTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGCTGG
1 AAAATTTCAAAGCAAGGCAATATTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
*
11398245 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
11398286 -AAATTTCAAA
1 AAAATTTCAAA
11398296 TCATGTTATT
Statistics
Matches: 403, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
104 3 0.01
105 111 0.28
106 284 0.70
107 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (106 bp):
AAAATTTCAAAGCAAGGCAATATTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
Found at i:11399695 original size:77 final size:77
Alignment explanation
Indices: 11399476--11400088 Score: 940
Period size: 77 Copynumber: 7.9 Consensus size: 77
11399466 AAAGTTTATT
*
11399476 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAA
1 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
*
11399541 TACAAAGTTGAC
66 TACAAAGGTGAC
* * * *
11399553 TATTTAAATTGTAAAAAAAAACCCCCATCAAATTGATAAATAAAATGACAAAAAAGTCATTACAT
1 TATTTAAATTGCAAAAAAAAA---CCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACAT
11399618 AAATACAAAGGTGAC
63 AAATACAAAGGTGAC
* *
11399633 TATTTAAATTGCAAAAAAAAACCGTAAAATTGATAAATAATATGGCAAAAAAATCATTACATAAA
1 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
11399698 TACAAAGGTGAC
66 TACAAAGGTGAC
* *
11399710 TATTTAAATTGCAAAAAAAAACCGTAAAATTGATAAATAATATGGCAAAAAAATCATTACATAAA
1 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
11399775 TACAAAGGTGAC
66 TACAAAGGTGAC
* *
11399787 TATTTAAATTGCAAAAAAAAACCGTAAAATTGATAAATAATATGGCAAAAAAATCATTACATAAA
1 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
11399852 TACAAAGGTGAC
66 TACAAAGGTGAC
* *
11399864 TATTTAAATTGCAAAAAAAAACCGTAAAATTGATAAATAATATGGCAAAAAAATCATTACATAAA
1 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
*
11399929 TACAAAGTTGAC
66 TACAAAGGTGAC
* *
11399941 TATTTAAATTG-AAAAAAAAACCATAAAATTGATAAATAAAATGGCAATAAATTCATTACATAAA
1 TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
** *
11400005 TATGAAGTTGAC
66 TACAAAGGTGAC
* * *
11400017 TATTTAAATTGCAAAAAAAAAAACCCCCATAAAATTGATAAATAAAATGACAAGAAATTCATTAC
1 TATTTAAATTGC--AAAAAAAAA---CCATAAAATTGATAAATAAAATGGCAAAAAAATCATTAC
11400082 ATAAATA
61 ATAAATA
11400089 TGAAGTTATT
Statistics
Matches: 508, Mismatches: 19, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
76 70 0.14
77 312 0.61
79 9 0.02
80 73 0.14
82 44 0.09
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (77 bp):
TATTTAAATTGCAAAAAAAAACCATAAAATTGATAAATAAAATGGCAAAAAAATCATTACATAAA
TACAAAGGTGAC
Found at i:11402488 original size:46 final size:43
Alignment explanation
Indices: 11402394--11402581 Score: 252
Period size: 43 Copynumber: 4.3 Consensus size: 43
11402384 TTATGTAAAA
* *
11402394 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAAC
11402437 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGGCGCTTTACCAAC
1 AAACGCCGCTAAAGAACATGACCTTTA---GCGGCGCTTTACCAAC
*
11402483 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTACCAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAAC
** ** *
11402526 AAACGTTGCTAAAGAACATGATTTTTAGCGGCGCTTTTATC-AC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTACCAAC
*
11402569 AAACGTCGCTAAA
1 AAACGCCGCTAAA
11402582 AGTACGGTTC
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
43 84 0.64
44 5 0.04
46 42 0.32
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAAC
Found at i:11402490 original size:89 final size:89
Alignment explanation
Indices: 11402394--11402558 Score: 267
Period size: 89 Copynumber: 1.9 Consensus size: 89
11402384 TTATGTAAAA
* *
11402394 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGAC
11402459 CTTTAGCGGCGGCGCTTTACCAAC
66 CTTTAGCGGCGGCGCTTTACCAAC
* ** *
11402483 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTACCAACAAACGTTGCTAAAGAACATGAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGAC
*
11402548 TTTTAGCGGCG
66 CTTTAGCGGCG
11402559 CTTTTATCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (89 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGAC
CTTTAGCGGCGGCGCTTTACCAAC
Found at i:11406846 original size:36 final size:36
Alignment explanation
Indices: 11406799--11406871 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
11406789 GCTAGGCTAC
11406799 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
11406835 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
11406871 C
1 C
11406872 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:11410030 original size:41 final size:42
Alignment explanation
Indices: 11409944--11410256 Score: 329
Period size: 41 Copynumber: 7.4 Consensus size: 42
11409934 GTGCTTTTTT
*
11409944 CAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTCTT-
1 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
* * **
11409985 AAAAAAAGCCGCTAAA-AATAGAGCATTAGCGGCGCTTCTT-
1 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
* * ** *
11410025 CAAAAAAGCCGCTAAAG-CCTCGATTATTAGCGGCG-TTTTTC
1 CAAAAACGCCGCTAAAGACC-AGAGCATTAGCGGCGCTTCTTC
11410066 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT-TTC
1 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
11410107 CAAAAACGCCGCTAAAGCCCAGAGCAAGCCTAGAGCATTAGCGGCGCTTCTT-
1 CAAAAACGCCGCT--A----A-AG--A-CC-AGAGCATTAGCGGCGCTTCTTC
* *
11410159 AAAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTT-
1 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
* *
11410200 CAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTT-TTC
1 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
11410241 CAAAAACGCCGCTAAA
1 CAAAAACGCCGCTAAA
11410257 TCCCAGAGAA
Statistics
Matches: 232, Mismatches: 22, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
40 42 0.18
41 141 0.61
42 6 0.03
43 2 0.01
45 2 0.01
46 1 0.00
47 1 0.00
48 2 0.01
50 2 0.01
51 2 0.01
52 29 0.12
53 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (42 bp):
CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
Found at i:11410164 original size:52 final size:52
Alignment explanation
Indices: 11410086--11410184 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
11410076 GCTAAAGACC
* *
11410086 AGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCAAGCCT
1 AGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGACCAGAGCAAGCCT
*
11410138 AGAGCATTAGCGGCGCTTCTT-AAAAAATGCCGCTAAAGACCAGAGCA
1 AGAGCATTAGCGGCGCTT-TTCAAAAAACGCCGCTAAAGACCAGAGCA
11410185 TTAGCGGCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 41 0.95
53 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.16
Consensus pattern (52 bp):
AGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGACCAGAGCAAGCCT
Found at i:11410170 original size:134 final size:134
Alignment explanation
Indices: 11410003--11410272 Score: 420
Period size: 134 Copynumber: 2.0 Consensus size: 134
11409993 CCGCTAAAAA
* ** *
11410003 TAGAGCATTAGCGGCGCTTCTTCAAAAAAGCCGCTAAAG-CCTCGATTATTAGCGGCG-TTTTTC
1 TAGAGCATTAGCGGCGCTTCTTCAAAAAAGCCGCTAAAGACC-AGAGCATTAGCGGCGCTTCTT-
*
11410066 CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAG
64 CAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAG
*
11410131 CAAGCC
129 AAAGCC
11410137 TAGAGCATTAGCGGCGCTTCTT-AAAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
1 TAGAGCATTAGCGGCGCTTCTTCAAAAAA-GCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTC
* *
11410201 AAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCAGAGA
65 AAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGA
11410266 AAGCC
130 AAGCC
11410271 TA
1 TA
11410273 TTTTAAATAA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
133 6 0.05
134 113 0.90
135 6 0.05
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (134 bp):
TAGAGCATTAGCGGCGCTTCTTCAAAAAAGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTTCA
AAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGAA
AGCC
Found at i:11410204 original size:93 final size:93
Alignment explanation
Indices: 11410050--11410225 Score: 284
Period size: 93 Copynumber: 1.9 Consensus size: 93
11410040 AGCCTCGATT
* *
11410050 ATTAGCGGCGTTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTCCAAAAACG
1 ATTAGCGGCGTTCTTCAAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTCCAAAAACG
*
11410115 CCGCTAAAGCCCAGAGCAAGCCTAGAGC
66 CCGCTAAAGCCCAAAGCAAGCCTAGAGC
*
11410143 ATTAGCGGCGCTTCTT-AAAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTT-CAAAAA
1 ATTAGCGGCG-TTCTTCAAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT-TTCCAAAAA
11410206 CGCCGCTAAAGCCCAAAGCA
64 CGCCGCTAAAGCCCAAAGCA
11410226 TTAGCGGCGC
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
93 71 0.92
94 6 0.08
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (93 bp):
ATTAGCGGCGTTCTTCAAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTCCAAAAACG
CCGCTAAAGCCCAAAGCAAGCCTAGAGC
Found at i:11410520 original size:41 final size:41
Alignment explanation
Indices: 11410463--11410575 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 41
11410453 AAATGTTTTT
* **
11410463 GCGGCGCTTTTCCAAAAACGTTGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* *
11410504 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
*
11410545 GCGGAGCTTTTTCAAAAACGCCGCTAAAGCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
11410576 AAGAAAGGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
Found at i:11411124 original size:49 final size:49
Alignment explanation
Indices: 11411040--11411133 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
11411030 AAAATACACA
*
11411040 ACTAAACACTAACAATTTATATAACCTAATAATAAATTACTAACACTAT
1 ACTAAACACTAACAATTTATATAACCTAATAATAAATTACAAACACTAT
* * *
11411089 ACTAAACACTAGCAA-TT-TGTAACCTAATCCCATAAATTACAAACA
1 ACTAAACACTAACAATTTATATAACCTAAT--AATAAATTACAAACA
11411134 AAATAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 10 0.26
48 2 0.05
49 27 0.69
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (49 bp):
ACTAAACACTAACAATTTATATAACCTAATAATAAATTACAAACACTAT
Found at i:11411392 original size:33 final size:34
Alignment explanation
Indices: 11411345--11411458 Score: 101
Period size: 33 Copynumber: 3.4 Consensus size: 34
11411335 TAAACACAAC
*
11411345 AATTTATAACATAATCCTAAATTACTAACAAAAT
1 AATTTATAAAATAATCCTAAATTACTAACAAAAT
* * * *
11411379 AATTT-TAAAATAAT--TACTATTACAAACACAAC
1 AATTTATAAAATAATCCTA-AATTACTAACAAAAT
* * **
11411411 AATTTGTAACATAATCCTAAATTACTAACAAGTT
1 AATTTATAAAATAATCCTAAATTACTAACAAAAT
*
11411445 AAATT-TAAAATAAT
1 AATTTATAAAATAAT
11411459 TATAAAAAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
31 2 0.03
32 16 0.26
33 24 0.39
34 18 0.29
35 2 0.03
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (34 bp):
AATTTATAAAATAATCCTAAATTACTAACAAAAT
Found at i:11411401 original size:32 final size:31
Alignment explanation
Indices: 11411362--11411460 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 31
11411352 AACATAATCC
11411362 TAAATTACTAACAAAATAATTTTAAAATAAT
1 TAAATTACTAACAAAATAATTTTAAAATAAT
* * * * *
11411393 TACTATTACAAACACAACAATTTGTAACATAAT
1 TA-AATTACTAACAAAATAATTT-TAAAATAAT
** *
11411426 CCTAAATTACTAACAAGTTAAATTTAAAATAAT
1 --TAAATTACTAACAAAATAATTTTAAAATAAT
11411459 TA
1 TA
11411461 TAAAAAAATT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
31 4 0.08
32 16 0.31
33 16 0.31
34 13 0.25
35 2 0.04
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (31 bp):
TAAATTACTAACAAAATAATTTTAAAATAAT
Found at i:11411406 original size:66 final size:66
Alignment explanation
Indices: 11411336--11411460 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 66
11411326 ATACTAAACT
*
11411336 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAAATAATTTTAAAATAATTACTATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAAATAAATTTAAAATAATTACTATTA
11411401 C
66 C
* **
11411402 AAACACAACAATTTGTAACATAATCCTAAATTACTAACAAGTTAAATTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAAATAAATTTAAAATAATTA
11411461 TAAAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (66 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAAATAAATTTAAAATAATTACTATTA
C
Found at i:11413161 original size:5 final size:5
Alignment explanation
Indices: 11413151--11413177 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11413141 ACCATCAGAG
11413151 GAGAA GAGAA GAGAA GAGAA GAGAA GA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GA
11413178 ACGATAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:11413691 original size:18 final size:16
Alignment explanation
Indices: 11413668--11413724 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 16
11413658 CATTTACCTC
11413668 TAATTAATTTAGAAAATT
1 TAATTAA-TTA-AAAATT
11413686 TAATTAATT--AAATT
1 TAATTAATTAAAAATT
* *
11413700 TATTTAATTAAAAAAT
1 TAATTAATTAAAAATT
11413716 TAATTAATT
1 TAATTAATT
11413725 TGTTTGGCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 13 0.38
16 12 0.35
17 2 0.06
18 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTAATTAAAAATT
Found at i:11424841 original size:91 final size:91
Alignment explanation
Indices: 11424686--11424958 Score: 537
Period size: 91 Copynumber: 3.0 Consensus size: 91
11424676 ACAAATTTAG
*
11424686 GTGCATCCAAACATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
1 GTGCATCCAACCATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
11424751 CACAGTCAAATATTTTGCTTCCAACC
66 CACAGTCAAATATTTTGCTTCCAACC
11424777 GTGCATCCAACCATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
1 GTGCATCCAACCATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
11424842 CACAGTCAAATATTTTGCTTCCAACC
66 CACAGTCAAATATTTTGCTTCCAACC
11424868 GTGCATCCAACCATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
1 GTGCATCCAACCATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
11424933 CACAGTCAAATATTTTGCTTCCAACC
66 CACAGTCAAATATTTTGCTTCCAACC
11424959 CCTTAATGAG
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 181 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (91 bp):
GTGCATCCAACCATAACGAGCTTTAGATAGAATTATCAAATTTTATTGTTCATAAATAGATATTT
CACAGTCAAATATTTTGCTTCCAACC
Found at i:11439517 original size:26 final size:26
Alignment explanation
Indices: 11439488--11439564 Score: 93
Period size: 25 Copynumber: 2.9 Consensus size: 26
11439478 TTATTTTTTT
* * *
11439488 AATAAATACTAAAAATTTATTTTAAA
1 AATAAAAAATAAAAATATATTTTAAA
*
11439514 AATAAAAAAATAAAAAAATATTTT-AA
1 AAT-AAAAAATAAAAATATATTTTAAA
11439540 AATAAAAAATAAAAATATATATTTA
1 AATAAAAAATAAAAATATAT-TTTA
11439565 TTATATATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 16 0.37
26 11 0.26
27 16 0.37
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
AATAAAAAATAAAAATATATTTTAAA
Found at i:11439523 original size:22 final size:22
Alignment explanation
Indices: 11439480--11439523 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11439470 GGCCCGGCTT
**
11439480 ATTTTTTTAATAAATACTAAAA
1 ATTTTTTTAATAAATAAAAAAA
11439502 ATTTATTTTAA-AAATAAAAAAA
1 ATTT-TTTTAATAAATAAAAAAA
11439524 TAAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTTTTTAATAAATAAAAAAA
Found at i:11452431 original size:23 final size:22
Alignment explanation
Indices: 11452402--11452453 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
11452392 TAGTTTTTTA
11452402 TAATTTT-ATTAATAAAATAAATT
1 TAATTTTAATT-AT-AAATAAATT
* *
11452425 TAATTTTAATTATGAATTAATT
1 TAATTTTAATTATAAATAAATT
11452447 TAATTTT
1 TAATTTT
11452454 GTGTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 9 0.35
24 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATTTTAATTATAAATAAATT
Found at i:11452666 original size:19 final size:20
Alignment explanation
Indices: 11452631--11452668 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11452621 GCTTCCAAAT
*
11452631 TTTAATAAGTATTTATAATC
1 TTTAATAAATATTTATAATC
11452651 TTTAATAAAT-TTTATAAT
1 TTTAATAAATATTTATAAT
11452669 ATTTTTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTAATAAATATTTATAATC
Found at i:11454358 original size:22 final size:21
Alignment explanation
Indices: 11454314--11454379 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
11454304 GTAAGGATTA
11454314 ATTTCAATTTTT-TAATATTATT
1 ATTTC-ATTTTTATAAT-TTATT
11454336 ATTTCATTTTTATAATTTAATT
1 ATTTCATTTTTATAATTT-ATT
* *
11454358 A-AT-ATTTTTTATAATTTTTT
1 ATTTCA-TTTTTATAATTTATT
11454378 AT
1 AT
11454380 AACAGTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.11
21 21 0.55
22 13 0.34
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTCATTTTTATAATTTATT
Found at i:11459188 original size:44 final size:44
Alignment explanation
Indices: 11459067--11459194 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 44
11459057 AGGATTCGAA
* *
11459067 TTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTC
1 TTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTC
* * ** * *
11459111 TTCAGTCGGCCCCACTGTGACTTCAAGGG-GATAAGACTTG-TTT
1 TTCAGTCTGCTCCACTGCAACCTC-AGGGAGATAAGACTTGCTTC
*
11459154 TCTCAGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTG
1 T-TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG
11459195 ATGTGATCTA
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
43 7 0.10
44 56 0.84
45 4 0.06
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (44 bp):
TTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTC
Found at i:11459389 original size:87 final size:87
Alignment explanation
Indices: 11459284--11459679 Score: 738
Period size: 87 Copynumber: 4.6 Consensus size: 87
11459274 ACTTGTAATC
*
11459284 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
11459349 CCGATGGAGGCAAGGCTTCGTT
66 CCGATGGAGGCAAGGCTTCGTT
11459371 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
11459436 CCGATGGAGGCAAGGCTTCGTT
66 CCGATGGAGGCAAGGCTTCGTT
11459458 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
11459523 CCGATGGAGGCAAGGCTTCGTT
66 CCGATGGAGGCAAGGCTTCGTT
11459545 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
11459610 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTCGTT
* * * *
11459632 TTAGGTCTGCTTCGCTGCTAACGCAGGAAGGCAAGATCTGTTATCTTT
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
11459680 TTTTTTTGGT
Statistics
Matches: 303, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 303 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTCGTT
Found at i:11459405 original size:43 final size:43
Alignment explanation
Indices: 11459356--11459579 Score: 122
Period size: 43 Copynumber: 5.2 Consensus size: 43
11459346 CAACCGATGG
11459356 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
* * ** * * * * **
11459399 AGGCAAGATCTGC-TATCTTTAACCAGCTCCACT-ACAAC-CGATGG-
1 AGGCAAG-GCTTCGT-T-TTCGATCTGCTTCGCTGTTAACGC-A-GGA
11459443 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
* * ** * * * * **
11459486 AGGCAAGATCTGC-TATCTTTAACCAGCTCCACT-ACAAC-CGATGG-
1 AGGCAAG-GCTTCGT-T-TTCGATCTGCTTCGCTGTTAACGC-A-GGA
11459530 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
11459573 AGGCAAG
1 AGGCAAG
11459580 ATCTGCTATC
Statistics
Matches: 123, Mismatches: 40, Indels: 36
0.62 0.20 0.18
Matches are distributed among these distances:
42 24 0.20
43 41 0.33
44 34 0.28
45 24 0.20
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (43 bp):
AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
Found at i:11464730 original size:21 final size:21
Alignment explanation
Indices: 11464701--11464744 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11464691 TCTTTTTGCA
*
11464701 TTTGCTCCAGTTTCTCTA-ATT
1 TTTGATCCA-TTTCTCTAGATT
*
11464722 TTTGATCCATTTCTTTAGATT
1 TTTGATCCATTTCTCTAGATT
11464743 TT
1 TT
11464745 ACAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTGATCCATTTCTCTAGATT
Found at i:11465577 original size:20 final size:18
Alignment explanation
Indices: 11465537--11465573 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11465527 TTATGCCAGG
11465537 TGTGTATCCTAACCCTTA
1 TGTGTATCCTAACCCTTA
11465555 TGTGTATCCTAACCCTTA
1 TGTGTATCCTAACCCTTA
11465573 T
1 T
11465574 ATGTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (18 bp):
TGTGTATCCTAACCCTTA
Found at i:11466041 original size:60 final size:60
Alignment explanation
Indices: 11465973--11466124 Score: 234
Period size: 60 Copynumber: 2.5 Consensus size: 60
11465963 TAGATATTGC
**
11465973 TTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATATTTTTGTACAAATTATT
1 TTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATATTTTCATACAAATTATT
* *
11466033 TTTTATATTATTTCATTTACTAAAATAGAAGTTCTTTTGAATATTTTCATACAAATTATT
1 TTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATATTTTCATACAAATTATT
* * *
11466093 TTTT-CATTGTTTCATTTAATAAATTAGGAGTT
1 TTTTATATTGTTTCATTTAATAAAATAGAAGTT
11466125 ATTTCGATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 23 0.28
60 60 0.72
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.53
Consensus pattern (60 bp):
TTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATATTTTCATACAAATTATT
Found at i:11468019 original size:156 final size:156
Alignment explanation
Indices: 11467730--11468046 Score: 455
Period size: 156 Copynumber: 2.0 Consensus size: 156
11467720 AACACTACTG
* *
11467730 AAAAGAGCGTCCAGCTGGGAGCTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGCATT
1 AAAAAAGCGTCCAACTGGGAGCTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGCATT
* * * *
11467795 TTTCAACCCTAATTATCAGATTTCTTATGAATCCTGGGATATTCTTTCAGAACCATCTTCTCAAA
66 TTTCAACCCCAACTATCAGATTTCTTAGGAATCCTGGGATAATCTTTCAGAACCATCTTCTCAAA
*
11467860 ATTATTTTTTCAGAATCAACTGTACA
131 ATTAATTTTTCAGAATCAACTGTACA
* *
11467886 AAAAAAGCGTCCAATTGGGAGCTTTTTCAGTA-TTTCT-CTTGATTGTGCATCCTGCTTGAAGCA
1 AAAAAAGCGTCCAACTGGGAGCTTTTTCAGTACTTT-TGC-TGATAGTGCATCCTGCTTGAAGCA
* *
11467949 TTTTTCAACCCCAACTATTAGATTTC-TCGGAAAT-CTCGGGATACAT-TTTCAGAACCATCTTC
64 TTTTTCAACCCCAACTATCAGATTTCTTAGG-AATCCT-GGGATA-ATCTTTCAGAACCATCTTC
11468011 TCAAAATTAATTTTTCAGAATCAACTGTACA
126 TCAAAATTAATTTTTCAGAATCAACTGTACA
11468042 AAAAA
1 AAAAA
11468047 GTGTCTAGTT
Statistics
Matches: 145, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
155 8 0.06
156 136 0.94
157 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (156 bp):
AAAAAAGCGTCCAACTGGGAGCTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGCATT
TTTCAACCCCAACTATCAGATTTCTTAGGAATCCTGGGATAATCTTTCAGAACCATCTTCTCAAA
ATTAATTTTTCAGAATCAACTGTACA
Found at i:11469148 original size:6 final size:6
Alignment explanation
Indices: 11469137--11469171 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
11469127 AGGTAAATGA
11469137 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
11469172 AAAAANNNNN
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:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:11476815 original size:16 final size:16
Alignment explanation
Indices: 11476794--11476828 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11476784 TTAAAATGAA
11476794 TGAATAAA-GTCTTATG
1 TGAATAAATGTCTTA-G
11476810 TGAATAAATGTCTTAG
1 TGAATAAATGTCTTAG
11476826 TGA
1 TGA
11476829 GCTCAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (16 bp):
TGAATAAATGTCTTAG
Found at i:11477942 original size:20 final size:23
Alignment explanation
Indices: 11477917--11477961 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
11477907 AATTTTGTTC
11477917 AACA-TTAATTT-TTAT-TCAAA
1 AACATTTAATTTGTTATATCAAA
11477937 AACATTTTAATTTGTTATATCAAA
1 AACA-TTTAATTTGTTATATCAAA
11477961 A
1 A
11477962 CCTATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
22 7 0.33
23 4 0.19
24 6 0.29
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (23 bp):
AACATTTAATTTGTTATATCAAA
Found at i:11480326 original size:35 final size:36
Alignment explanation
Indices: 11480222--11480355 Score: 148
Period size: 35 Copynumber: 3.8 Consensus size: 36
11480212 ATCAGTCCAA
* *
11480222 CCAAAACACACTAGATGCTCACAAGAGCCAATCCCC
1 CCAAAACACACCAGATGCTCACAAGAGCCAATCCCT
**
11480258 CCAGGACACACCAGATGCTCACACA-AGCCAATCCCT
1 CCAAAACACACCAGATGCTCACA-AGAGCCAATCCCT
* * *
11480294 CCAAAACAAACCA-ATGCTCATAAGAGCAAATCCCT
1 CCAAAACACACCAGATGCTCACAAGAGCCAATCCCT
* * *
11480329 TCAAAACACACCA-ATGCTGATAAGAGC
1 CCAAAACACACCAGATGCTCACAAGAGC
11480356 TAGTCTAACT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.01
35 42 0.50
36 40 0.48
37 1 0.01
ACGTcount: A:0.40, C:0.35, G:0.12, T:0.13
Consensus pattern (36 bp):
CCAAAACACACCAGATGCTCACAAGAGCCAATCCCT
Found at i:11486051 original size:45 final size:45
Alignment explanation
Indices: 11485920--11486057 Score: 240
Period size: 46 Copynumber: 3.0 Consensus size: 45
11485910 CATGGGAAAG
* *
11485920 TGTGGAATGTAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGT
1 TGTGGAACGTAGGTATGGT-ATTCAGTAACGAAAACCATACTGAGT
11485966 TGTGGAACGTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGT
1 TGTGGAACGTAGGTATGGTA-TTCAGTAACGAAAACCATACTGAGT
11486012 TGTGGAACGTAGGTATGGTATTCAGTAACGAAAACCATACTGAGT
1 TGTGGAACGTAGGTATGGTATTCAGTAACGAAAACCATACTGAGT
11486057 T
1 T
11486058 ATAGCATTGT
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
45 27 0.30
46 62 0.70
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (45 bp):
TGTGGAACGTAGGTATGGTATTCAGTAACGAAAACCATACTGAGT
Found at i:11491635 original size:46 final size:46
Alignment explanation
Indices: 11491565--11491702 Score: 213
Period size: 46 Copynumber: 3.0 Consensus size: 46
11491555 ATGGTAAAGG
* *
11491565 GTGGAATGTAGGTATGGTAATTCAGTAAAGAAAACCATACTGAGTT
1 GTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
* *
11491611 GTGGAACGTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGTT
1 GTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
* * *
11491657 GTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACTATACTGAGTT
1 GTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
11491703 ATTGCATTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
GTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
Found at i:11496829 original size:22 final size:24
Alignment explanation
Indices: 11496803--11496846 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
11496793 ATTTTGTTCA
11496803 ACTTTAA-TTTTTAT-TCAAAAAC
1 ACTTTAATTTTTTATATCAAAAAC
11496825 ACTTTAATTTTTTATATCAAAA
1 ACTTTAATTTTTTATATCAAAA
11496847 TATATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (24 bp):
ACTTTAATTTTTTATATCAAAAAC
Found at i:11505878 original size:56 final size:58
Alignment explanation
Indices: 11505782--11505903 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 58
11505772 ATAAAAATGG
11505782 TGAAAATAGAGAAATGAGAAATATTTGGAAATAAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATGAGAAATATTTGGAAATAAATGTGGTTTTCTCCAAAATGAAAA
* *
11505840 TGAAAATAGAGAAATGA-AAAT-TTTGGAAATGAATGTGGTTTTCTCCAAATTGAAAA
1 TGAAAATAGAGAAATGAGAAATATTTGGAAATAAATGTGGTTTTCTCCAAAATGAAAA
11505896 TGAAAATA
1 TGAAAATA
11505904 ACCTGAAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 41 0.66
57 4 0.06
58 17 0.27
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (58 bp):
TGAAAATAGAGAAATGAGAAATATTTGGAAATAAATGTGGTTTTCTCCAAAATGAAAA
Found at i:11507660 original size:35 final size:35
Alignment explanation
Indices: 11507571--11507661 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
11507561 CTACTGGTCT
* *
11507571 TTCAAGGCAACACCGTGTAAATGATATATAAGTCC
1 TTCAGGGCAACACCGTGTAAATGATATATAAGTCA
** * *
11507606 TTCAGGGTGACATCGTGTAAATGGTATATAAGTCA
1 TTCAGGGCAACACCGTGTAAATGATATATAAGTCA
* *
11507641 TTTAGGGCAACACCATGTAAA
1 TTCAGGGCAACACCGTGTAAA
11507662 CAATATACAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (35 bp):
TTCAGGGCAACACCGTGTAAATGATATATAAGTCA
Found at i:11514404 original size:31 final size:31
Alignment explanation
Indices: 11514366--11514429 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
11514356 CCTTTTTTTA
11514366 ATAATTTATAGAGTTTTATTCTTAATGTAGC
1 ATAATTTATAGAGTTTTATTCTTAATGTAGC
11514397 ATAATTTATAGAGTTTTATTCTTAATGTAGC
1 ATAATTTATAGAGTTTTATTCTTAATGTAGC
11514428 AT
1 AT
11514430 TCCAACTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (31 bp):
ATAATTTATAGAGTTTTATTCTTAATGTAGC
Found at i:11520768 original size:118 final size:116
Alignment explanation
Indices: 11520557--11520802 Score: 268
Period size: 118 Copynumber: 2.1 Consensus size: 116
11520547 CACCAATTAA
* ** *
11520557 ATTTTAAAAAAAATCAACAGTGCCGCTTGACAGACCAGTGACTCCATTTAAATTTTTTTTTCCTT
1 ATTTTAAAAAAAATCAACAGTGCCACTTGACAGACCAGACACTCCATTTAAATTTTTTTTTCCCT
* * * * * *
11520622 GACAACCACTAGTGTCACTTGACTGCGTGGCGGTACCAATTAAAAGAATATAT
66 GACAACCACGAGTGCCACCTAACAGCGTGGCGGCACCAATTAAAA-AA-ATAT
*
11520675 ATTTTAAAAAAAATCAA-AGGTGCCACTTGACAGACCGACGACACT-CA-TTAATTTTTTTTATT
1 ATTTTAAAAAAAATCAACA-GTGCCACTTGACAGACC-A-GACACTCCATTTAAATTTTTTT-TT
* * *
11520737 CCCTGACAATCACGA-TGCCACCTAACAGCGTGGTGGCAGCAATTAAAAAAATAT
62 CCCTGACAACCACGAGTGCCACCTAACAGCGTGGCGGCACCAATTAAAAAAATAT
11520791 -TTCTTAAAAAAA
1 ATT-TTAAAAAAA
11520803 TTAGAGGTAT
Statistics
Matches: 109, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
115 2 0.02
116 13 0.12
117 3 0.03
118 70 0.64
119 17 0.16
120 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (116 bp):
ATTTTAAAAAAAATCAACAGTGCCACTTGACAGACCAGACACTCCATTTAAATTTTTTTTTCCCT
GACAACCACGAGTGCCACCTAACAGCGTGGCGGCACCAATTAAAAAAATAT
Found at i:11523182 original size:25 final size:24
Alignment explanation
Indices: 11523152--11523200 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11523142 TTTCTTTTGA
*
11523152 AAATTTTATAATCTTTTAAAAATAT
1 AAATTTTAGAAT-TTTTAAAAATAT
* *
11523177 AAATTTTGGAATTTTTATAAATAT
1 AAATTTTAGAATTTTTAAAAATAT
11523201 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATTTTAGAATTTTTAAAAATAT
Found at i:11523250 original size:20 final size:20
Alignment explanation
Indices: 11523160--11523249 Score: 87
Period size: 20 Copynumber: 4.4 Consensus size: 20
11523150 GAAAATTTTA
11523160 TAATCTTTTAAAAATATAAATTT
1 TAAT-TTTTAAAAAT-T-AATTT
*
11523183 TGGAATTTTTATAAA-T-ATTT
1 T--AATTTTTAAAAATTAATTT
*
11523203 TAAATTTTAAAAATTAATTT
1 TAATTTTTAAAAATTAATTT
*
11523223 TAATTTTTGAAAATTAA-TT
1 TAATTTTTAAAAATTAATTT
11523242 TAATTTTT
1 TAATTTTT
11523250 TTGTAATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 10 0.17
19 11 0.19
20 24 0.41
22 1 0.02
23 1 0.02
24 8 0.14
25 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (20 bp):
TAATTTTTAAAAATTAATTT
Found at i:11523419 original size:9 final size:9
Alignment explanation
Indices: 11523405--11523430 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11523395 AAGCTGATTC
11523405 GAATAATTT
1 GAATAATTT
11523414 GAATAATTT
1 GAATAATTT
11523423 GAATAATT
1 GAATAATT
11523431 CGATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (9 bp):
GAATAATTT
Found at i:11525354 original size:22 final size:21
Alignment explanation
Indices: 11525324--11525368 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11525314 ACACCAAAAC
*
11525324 AGGCTTTTAGCGGCGCTTATTT
1 AGGCCTTTAGCGGCGCTT-TTT
*
11525346 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
11525367 AG
1 AG
11525369 CGTTGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.13, C:0.18, G:0.29, T:0.40
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGCTTTTT
Found at i:11525472 original size:43 final size:43
Alignment explanation
Indices: 11525406--11525678 Score: 266
Period size: 43 Copynumber: 6.3 Consensus size: 43
11525396 AAAGACCATG
* *
11525406 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTTCCC
1 ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCGCTTTTCCC
* * * *
11525449 ACAAACGCCGCTATAGATAAAGACCTTTAGCGGCGCTTTTTCT
1 ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCGCTTTTCCC
* **
11525492 ACAAACGCCACTAAAGACAAAGACCTTTAGCAACGCTATCTT-CC
1 ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCGCT-T-TTCCC
* * * *
11525536 ACAAACGCCACTAAAGACCATA-ACCTTTAGCAGCGCTTTTTCC
1 ACAAACGCCGCTAAAGA-CAAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
11525579 GC-AATGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCGCTTTTCCC
* ** * *
11525621 ACAAATGCCGCTAAAGACCTTA-ACCTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGA-CAAAGACCTTTAGCGGCGCTTTTCCC
*
11525664 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
11525679 AGCATAACCT
Statistics
Matches: 191, Mismatches: 32, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 33 0.17
43 118 0.62
44 34 0.18
45 5 0.03
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCGCTTTTCCC
Found at i:11531409 original size:15 final size:15
Alignment explanation
Indices: 11531389--11531417 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11531379 AACCTTTAAC
11531389 CCCTAAATCCATAAA
1 CCCTAAATCCATAAA
11531404 CCCTAAATCCATAA
1 CCCTAAATCCATAA
11531418 CTGATCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCCATAAA
Found at i:11531598 original size:18 final size:18
Alignment explanation
Indices: 11531577--11531612 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11531567 ATTAACCATA
11531577 TATATTAAACCCTAAACT
1 TATATTAAACCCTAAACT
11531595 TATATTAAACCCTAAACT
1 TATATTAAACCCTAAACT
11531613 ATAATGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (18 bp):
TATATTAAACCCTAAACT
Found at i:11537190 original size:21 final size:21
Alignment explanation
Indices: 11537166--11537205 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11537156 ATAATTGCCA
* *
11537166 AAATAGTTTGAGGAGAAATGG
1 AAATAGATTGAAGAGAAATGG
*
11537187 AAATGGATTGAAGAGAAAT
1 AAATAGATTGAAGAGAAAT
11537206 TTAGGGCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
AAATAGATTGAAGAGAAATGG
Found at i:11539453 original size:15 final size:14
Alignment explanation
Indices: 11539418--11539487 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 14
11539408 GTTCAGATTC
11539418 AATAAAAAAATCAA
1 AATAAAAAAATCAA
**
11539432 AATAAAAAAATTGA
1 AATAAAAAAATCAA
*
11539446 AATCAAAAAAT-AA
1 AATAAAAAAATCAA
11539459 AA-AAATGATTGAAATCAA
1 AATAAA--A---AAATCAA
11539477 AATAAAAAAAT
1 AATAAAAAAAT
11539488 GATGAAATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
12 2 0.05
13 3 0.07
14 27 0.61
17 5 0.11
18 4 0.09
19 3 0.07
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:11539458 original size:22 final size:22
Alignment explanation
Indices: 11539430--11539501 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 22
11539420 TAAAAAAATC
11539430 AAAATAAAAAAATTGAAATCAA
1 AAAATAAAAAAATTGAAATCAA
11539452 AAAATAAAAAAATGATTGAAATC--
1 AAAAT-AAAAAA--ATTGAAATCAA
*
11539475 AAAATAAAAAAATGATGAAATGAA
1 AAAATAAAAAAAT--TGAAATCAA
11539499 AAA
1 AAA
11539502 GAAAAAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
20 2 0.05
22 17 0.40
23 11 0.26
24 3 0.07
25 9 0.21
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (22 bp):
AAAATAAAAAAATTGAAATCAA
Found at i:11539478 original size:23 final size:23
Alignment explanation
Indices: 11539425--11539500 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
11539415 TTCAATAAAA
11539425 AAATCAAAAT-AAAAAA--ATTG
1 AAATCAAAATAAAAAAATGATTG
11539445 AAATCAAAAAATAAAAAAATGATTG
1 AAATC--AAAATAAAAAAATGATTG
11539470 AAATCAAAATAAAAAAATGA-TG
1 AAATCAAAATAAAAAAATGATTG
*
11539492 AAATGAAAA
1 AAATCAAAA
11539501 AGAAAAAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
20 5 0.10
22 15 0.30
23 21 0.42
25 9 0.18
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (23 bp):
AAATCAAAATAAAAAAATGATTG
Done.