Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 216 of 378
Found at i:64142306 original size:27 final size:26
Alignment explanation
Indices: 64142266--64142317 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
64142256 GCGAGGCTGC
*
64142266 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
64142292 CAGATATATGTGACGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
64142318 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:64144859 original size:31 final size:31
Alignment explanation
Indices: 64144821--64144882 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
64144811 CGGACAGGTA
64144821 TGAAATGAGCAGATTTGGTCAACCTATCCAC
1 TGAAATGAGCAGATTTGGTCAACCTATCCAC
64144852 TGAAATGAGCAGATTTGGTCAACCTATCCAC
1 TGAAATGAGCAGATTTGGTCAACCTATCCAC
64144883 AATTACCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (31 bp):
TGAAATGAGCAGATTTGGTCAACCTATCCAC
Found at i:64155153 original size:71 final size:71
Alignment explanation
Indices: 64155037--64155179 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
64155027 ATTGTATAAT
*
64155037 AACTAACCTAAGAATGCAAACTAAAGGATAACATAATGAGCAAAATGAAAAATAGTTCAAAAGCA
1 AACTAACCTAAGAATGCAAACTAAAGGATAAAATAATGAGCAAAATGAAAAATAGTTCAAAAGCA
64155102 ATGAAG
66 ATGAAG
64155108 AACTAACCTAAGAATGCAAACTAAAGGATAAAATAATGAGCAAAATGAAAAATAGTTCAAAAGCA
1 AACTAACCTAAGAATGCAAACTAAAGGATAAAATAATGAGCAAAATGAAAAATAGTTCAAAAGCA
64155173 ATGAAG
66 ATGAAG
64155179 A
1 A
64155180 TTATGCTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (71 bp):
AACTAACCTAAGAATGCAAACTAAAGGATAAAATAATGAGCAAAATGAAAAATAGTTCAAAAGCA
ATGAAG
Found at i:64157492 original size:46 final size:46
Alignment explanation
Indices: 64157439--64157614 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
64157429 TATTTGGGCA
64157439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64157485 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
64157530 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64157578 -CCTGAGCTGGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64157615 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 4 0.04
46 56 0.53
47 26 0.25
48 2 0.02
50 3 0.03
51 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64157594 original size:93 final size:93
Alignment explanation
Indices: 64157435--64157605 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
64157425 GGGATATTTG
* *
64157435 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
64157500 TTGAGTCCGAGTTTGTGAAATGTAACTA
66 TTGAGTCCGAGTTTGTGAAATGTAACTA
* *
64157528 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCTGAGCTGGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGA
64157592 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
64157606 CGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAAATGTAACTA
Found at i:64160560 original size:15 final size:15
Alignment explanation
Indices: 64160521--64160600 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
64160511 GTATCTTGGG
*
64160521 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
64160536 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
64160551 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
64160566 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
64160581 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
64160595 TTTCTT
1 TTTCTT
64160601 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:64160590 original size:30 final size:30
Alignment explanation
Indices: 64160512--64160599 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
64160502 CATAGTATCG
* * *
64160512 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
64160542 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
64160572 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
64160600 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:64163052 original size:45 final size:46
Alignment explanation
Indices: 64162980--64163151 Score: 164
Period size: 45 Copynumber: 3.8 Consensus size: 46
64162970 TATTTGGGCA
*
64162980 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64163026 TCCGAACTCG-TGAGTTGAGTCCGAG-T---TTGTGAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
64163069 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64163116 -CCTGAGCT-GTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64163152 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 10, Indels: 27
0.74 0.07 0.19
Matches are distributed among these distances:
40 2 0.02
41 8 0.08
43 1 0.01
44 24 0.23
45 32 0.31
46 25 0.24
47 2 0.02
49 7 0.07
50 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64163089 original size:91 final size:90
Alignment explanation
Indices: 64162976--64163142 Score: 266
Period size: 90 Copynumber: 1.8 Consensus size: 90
64162966 GGGATATTTG
*
64162976 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC-GAACTCG-TGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG-CCTGAACT-GTTGA
64163039 GTTGAGTCCGAGTTTGTGAATGTAACTA
63 GTTGAGTCCGAGTTTGTGAATGTAACTA
* *
64163067 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGCCTGAGCTGTTGAGTT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGCCTGAACTGTTGAGTT
64163132 GAGTCCGAGTT
66 GAGTCCGAGTT
64163143 CGCTTATGGG
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
89 3 0.04
90 35 0.49
91 33 0.46
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (90 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGCCTGAACTGTTGAGTT
GAGTCCGAGTTTGTGAATGTAACTA
Found at i:64166212 original size:40 final size:40
Alignment explanation
Indices: 64166165--64166348 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
64166155 CTCGCACAAG
* * *
64166165 GCCTTCGGGTCTTAGCCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
64166205 GCCTTCGGGACTTAGCTCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
64166245 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
64166285 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
64166325 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
64166349 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:64166260 original size:80 final size:80
Alignment explanation
Indices: 64166129--64166348 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
64166119 ACCCAAGTAT
* ** * * * *
64166129 CTTCGGGATTTAGCT-GGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCTGGATATGGT
1 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
64166192 C-ACTAGCATAAATGC
65 CAACTAGCACAAATGC
* *
64166207 CTTCGGGACTTAGCTCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
64166272 AACTCGCACAAATGC
66 AACTAGCACAAATGC
* *
64166287 CTTC-GGATCTTAG-TCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAGCT-CGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
64166349 CATTCGAATA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
78 14 0.11
79 19 0.15
80 90 0.73
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:64170894 original size:45 final size:46
Alignment explanation
Indices: 64170797--64170905 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
64170787 AGCTTAAGAT
*
64170797 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
64170844 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
64170889 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
64170906 AAAGTGTGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:64185039 original size:34 final size:34
Alignment explanation
Indices: 64184974--64185060 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
64184964 CATACTATAC
* *
64184974 TGAAATGAGCTAAGGCCCAGACTGCCTCTGTTAT
1 TGAAATGAGCTAAGGCCCAGACTGCATCTGTTAA
* * *
64185008 TGAAATGGGCTTAGGTCCAGACTG-ATACTGTTAA
1 TGAAATGAGCTAAGGCCCAGACTGCAT-CTGTTAA
* *
64185042 TGAAAAAGGGCTAAGGCCC
1 TG-AAATGAGCTAAGGCCC
64185061 TAACTGGAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
33 1 0.02
34 29 0.67
35 13 0.30
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (34 bp):
TGAAATGAGCTAAGGCCCAGACTGCATCTGTTAA
Found at i:64189719 original size:15 final size:13
Alignment explanation
Indices: 64189686--64189710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64189676 ACAAATGCTA
64189686 AAATTTTCACACG
1 AAATTTTCACACG
64189699 AAATTTTCACAC
1 AAATTTTCACAC
64189711 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:64191220 original size:26 final size:26
Alignment explanation
Indices: 64191181--64191235 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
64191171 TTATTTTTGA
*
64191181 GTTAGATTTTTGGTCCTGAAACCATT
1 GTTAGATTTGTGGTCCTGAAACCATT
64191207 GTTAGATTTGTGGTCCTGAAACCATT
1 GTTAGATTTGTGGTCCTGAAACCATT
64191233 GTT
1 GTT
64191236 CCGATTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (26 bp):
GTTAGATTTGTGGTCCTGAAACCATT
Found at i:64196785 original size:20 final size:20
Alignment explanation
Indices: 64196747--64196785 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64196737 TTGCTTATAC
*
64196747 TTTGCACTTCGGTGGCCCTA
1 TTTGCACTTCGGTGCCCCTA
* *
64196767 TTTGCACTTTGGTTCCCCT
1 TTTGCACTTCGGTGCCCCT
64196786 GCTCACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.31, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTA
Found at i:64197320 original size:19 final size:19
Alignment explanation
Indices: 64197284--64197322 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64197274 TTTTCATCAT
* *
64197284 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
64197303 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
64197322 A
1 A
64197323 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:64197825 original size:55 final size:56
Alignment explanation
Indices: 64197760--64197874 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
64197750 AGCATGGCTG
* * *
64197760 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
64197816 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
64197871 CCAG
1 CCAG
64197875 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:64197871 original size:28 final size:27
Alignment explanation
Indices: 64197785--64197874 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
64197775 GTGACAGAGT
*
64197785 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
64197814 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
64197841 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
64197869 CACCAG
1 CACCAG
64197875 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:64198027 original size:28 final size:28
Alignment explanation
Indices: 64197980--64198044 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
64197970 AAATTAACCC
*
64197980 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
64198008 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
64198036 TAGGGGTAT
1 TAGGGGTAT
64198045 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:64205167 original size:19 final size:19
Alignment explanation
Indices: 64205131--64205169 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64205121 TTTTCATCAT
* *
64205131 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
64205150 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
64205169 A
1 A
64205170 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:64205670 original size:55 final size:56
Alignment explanation
Indices: 64205605--64205719 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
64205595 AGCATGGCTG
* * *
64205605 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
64205661 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
64205716 CCAG
1 CCAG
64205720 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:64205716 original size:28 final size:27
Alignment explanation
Indices: 64205630--64205719 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
64205620 GTGACAGAGT
*
64205630 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
64205659 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
64205686 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
64205714 CACCAG
1 CACCAG
64205720 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:64205872 original size:28 final size:28
Alignment explanation
Indices: 64205825--64205889 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
64205815 AAATTAACCC
*
64205825 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
64205853 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
64205881 TAGGGGTAT
1 TAGGGGTAT
64205890 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:64206152 original size:8 final size:8
Alignment explanation
Indices: 64206136--64206167 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
64206126 CCCAAAATAC
64206136 CGGCTTTT
1 CGGCTTTT
*
64206144 CGGCATTT
1 CGGCTTTT
64206152 CGGCTTTT
1 CGGCTTTT
64206160 CGGCTTTT
1 CGGCTTTT
64206168 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:64222748 original size:28 final size:28
Alignment explanation
Indices: 64222679--64222779 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
64222669 GACAAGATTG
* * * *
64222679 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
64222709 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64222737 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
64222766 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
64222780 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64228284 original size:49 final size:49
Alignment explanation
Indices: 64228215--64228751 Score: 955
Period size: 49 Copynumber: 11.1 Consensus size: 49
64228205 GTACATAATA
*
64228215 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
64228264 ATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
*
64228313 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
*
64228362 ATATATGTGATAAGGCCTAATGG--GATGTGATGAATGTGAAA--GTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228407 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228456 ATATATGTGAT-AGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228504 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228553 ATATATGTGAT-AGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228601 ATATATGTGATAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTG-AT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
64228648 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228697 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64228746 ATATAT
1 ATATAT
64228752 ATGTGGTAAA
Statistics
Matches: 474, Mismatches: 6, Indels: 16
0.96 0.01 0.03
Matches are distributed among these distances:
45 27 0.06
47 64 0.14
48 131 0.28
49 252 0.53
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
Found at i:64228410 original size:145 final size:145
Alignment explanation
Indices: 64228215--64228751 Score: 951
Period size: 145 Copynumber: 3.7 Consensus size: 145
64228205 GTACATAATA
64228215 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
* *
64228280 CTAATGGCCGATGTGACGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
65 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA-GTGA
64228345 TGAATGTGAAAGTGTAT
129 TGAATGTGAAAGTGTAT
64228362 ATATATGTGATAAGGCCTAATGG-GATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCC
1 ATATATGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64228424 TAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGACGTGAT
66 TAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA-GTGAT
64228488 GAATGTGAAAGTGTAT
130 GAATGTGAAAGTGTAT
*
64228504 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGC
1 ATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
64228568 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAGTGAT
65 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAGTGAT
64228633 GAATGTGAAAGTG-AT
130 GAATGTGAAAGTGTAT
*
64228648 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
64228713 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
65 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
64228752 ATGTGGTAAA
Statistics
Matches: 378, Mismatches: 6, Indels: 14
0.95 0.02 0.04
Matches are distributed among these distances:
142 59 0.16
143 62 0.16
144 77 0.20
145 127 0.34
146 30 0.08
147 23 0.06
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (145 bp):
ATATATGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAGTGATG
AATGTGAAAGTGTAT
Found at i:64228532 original size:97 final size:98
Alignment explanation
Indices: 64228215--64228751 Score: 964
Period size: 97 Copynumber: 5.6 Consensus size: 98
64228205 GTACATAATA
*
64228215 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
*
64228280 CTAATGGCCGATGTGACGAATGTGAAAGTGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
64228313 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
64228378 CTAATGG--GATGTGATGAATGTGAAA--GTAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64228407 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
*
64228471 CTAATGGCCGACGTGATGAATGTGAAAGTGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64228504 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
*
64228568 CTAATGGCCGACGTGATGAATGTGAAAGTGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64228601 ATATATGTGATAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
*
64228664 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64228697 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
64228752 ATGTGGTAAA
Statistics
Matches: 427, Mismatches: 5, Indels: 14
0.96 0.01 0.03
Matches are distributed among these distances:
93 11 0.03
94 63 0.15
95 30 0.07
96 97 0.23
97 146 0.34
98 80 0.19
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (98 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:64228875 original size:37 final size:36
Alignment explanation
Indices: 64228820--64228906 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
64228810 AACTTGGAAA
64228820 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
64228858 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
64228895 TATGTCCGGGTA
1 TATGTCCGGGTA
64228907 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:64231895 original size:41 final size:41
Alignment explanation
Indices: 64231850--64231967 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64231840 TGAAAGATAA
64231850 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64231891 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64231921 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64231962 ATGTAG
1 ATGTAG
64231968 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64231906 original size:71 final size:71
Alignment explanation
Indices: 64231818--64231981 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64231808 GAGATGTATC
64231818 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64231883 AGGACA
66 AGGACA
64231889 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64231954 AGGACA
66 AGGACA
64231960 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64231982 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64238981 original size:41 final size:41
Alignment explanation
Indices: 64238936--64239053 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64238926 TGAAAGATAA
64238936 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64238977 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64239007 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64239048 ATGTAG
1 ATGTAG
64239054 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64238992 original size:71 final size:71
Alignment explanation
Indices: 64238904--64239067 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64238894 GAGATGTATC
64238904 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64238969 AGGACA
66 AGGACA
64238975 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64239040 AGGACA
66 AGGACA
64239046 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64239068 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64241307 original size:39 final size:39
Alignment explanation
Indices: 64241256--64241362 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
64241246 GAAATTATAA
* *
64241256 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GGCTAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGGCT-AT
**
64241295 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGT-AGGCTAT
*
64241335 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCAATTGTGC
64241363 AAATCGTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 3 0.05
39 26 0.44
40 26 0.44
41 4 0.07
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGGCTAT
Found at i:64241376 original size:40 final size:39
Alignment explanation
Indices: 64241210--64241389 Score: 132
Period size: 40 Copynumber: 4.5 Consensus size: 39
64241200 AGAAATTGAA
* * *
64241210 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
64241251 T-ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
* * * * *
64241289 -GCTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TGAT-ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
**
64241329 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
64241369 TGATATCCGGGTTAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
64241390 TGCCTGGTGC
Statistics
Matches: 110, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 3 0.03
39 31 0.28
40 69 0.63
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:64249386 original size:40 final size:39
Alignment explanation
Indices: 64249221--64249404 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64249211 AAATTGAATG
* * *
64249221 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64249261 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64249301 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64249341 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64249380 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64249405 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64249429 original size:80 final size:81
Alignment explanation
Indices: 64249261--64249449 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64249251 GCTGGAAATT
* * * *
64249261 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64249326 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64249342 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64249405 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64249421 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64249450 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64257502 original size:40 final size:39
Alignment explanation
Indices: 64257337--64257520 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64257327 AAATTGAATG
* * *
64257337 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64257377 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64257417 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64257457 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64257496 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64257521 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64257545 original size:80 final size:81
Alignment explanation
Indices: 64257377--64257565 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64257367 GCTGGAAATT
* * * *
64257377 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64257442 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64257458 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64257521 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64257537 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64257566 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64259143 original size:42 final size:42
Alignment explanation
Indices: 64259081--64259249 Score: 148
Period size: 42 Copynumber: 4.1 Consensus size: 42
64259071 AATCACATAC
* * *
64259081 ACATGGAA--TCATACCAATGCCATATCCTAGATATGGTCTT
1 ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
* *
64259121 ACATGGAATCTCATATCGATGCCAATAGCCCAGCTATGGTCTT
1 ACATGGAATCTCATATCGATGCC-ATATCCCAGATATGGTCTT
* * *
64259164 ACA--CAATTCTCATATCGATGCCATGTCCCAGACATGGTCTT
1 ACATGGAA-TCTCATATCGATGCCATATCCCAGATATGGTCTT
* * * * * * * *
64259205 ACACGAAATCTCATAACGATTCTATATGCTAGTTATGGTCTT
1 ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
64259247 ACA
1 ACA
64259250 CGTAAACTCA
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 8 0.08
41 20 0.19
42 55 0.53
43 21 0.20
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
Found at i:64264345 original size:31 final size:31
Alignment explanation
Indices: 64264302--64264416 Score: 214
Period size: 31 Copynumber: 3.7 Consensus size: 31
64264292 TCAGTCTCAA
64264302 CATAT-ACTGGGCCGAAGCCTTTTCATAATT
1 CATATCACTGGGCCGAAGCCTTTTCATAATT
64264332 CATATCACTGGGCCGAAGCCTTTTCATAATT
1 CATATCACTGGGCCGAAGCCTTTTCATAATT
*
64264363 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATAATT
64264394 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
64264417 ACTGTAAACG
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
30 5 0.06
31 78 0.94
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAATT
Found at i:64272289 original size:30 final size:30
Alignment explanation
Indices: 64272255--64272331 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 30
64272245 TTAAACGACT
64272255 ATTGGCCCGAAGCCTTTTCATAATTCA-ATC
1 ATTGG-CCGAAGCCTTTTCATAATTCATATC
*
64272285 ATTGGGCCGAAGCCTTTTCATTATTCATATC
1 ATT-GGCCGAAGCCTTTTCATAATTCATATC
* *
64272316 ACTGGGCGAAGCCTTT
1 ATTGGCCGAAGCCTTT
64272332 ACTGTAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 35 0.83
31 7 0.17
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (30 bp):
ATTGGCCGAAGCCTTTTCATAATTCATATC
Found at i:64272673 original size:11 final size:11
Alignment explanation
Indices: 64272642--64272689 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
64272632 AAATGAATAC
64272642 ATCATGTGCAT
1 ATCATGTGCAT
*
64272653 ATCA--TACAT
1 ATCATGTGCAT
64272662 ATCATGTGCAT
1 ATCATGTGCAT
*
64272673 ATCATGT-CAA
1 ATCATGTGCAT
64272683 ATCATGT
1 ATCATGT
64272690 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:64275524 original size:56 final size:56
Alignment explanation
Indices: 64275464--64275639 Score: 262
Period size: 56 Copynumber: 3.1 Consensus size: 56
64275454 GTGATTATGT
* * * *
64275464 GTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATATGTGTGA
1 GTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* *
64275520 GTAAGACCACATTTAATACATTGGCGTCGATATGTGATTCTGATATATGTGTGCGA
1 GTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * * *
64275576 GTAAGACCACATTTAATACGTTGGCATGGATATATGACTCTGATATATGTATGCGA
1 GTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
64275632 GTAAGACC
1 GTAAGACC
64275640 CTGTCTGGGA
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 108 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (56 bp):
GTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
Found at i:64275664 original size:112 final size:112
Alignment explanation
Indices: 64275464--64275670 Score: 256
Period size: 112 Copynumber: 1.8 Consensus size: 112
64275454 GTGATTATGT
* * * * *
64275464 GTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATATGTGTGAGTAAGACCA
1 GTAAGACCACATTTAATACGTTGGCATCAATATATGACTCTGATATATATATGCGAGTAAGACCA
* * *
64275529 CATTTAATACATTGGCGTCGATATGTGATTCTGATATATGTGTGCGA
66 CATTTAAGACAGTGGCATCGATATGTGATTCTGATATATGTGTGCGA
** *
64275576 GTAAGACCACATTTAATACGTTGGCATGGATATATGACTCTGATATATGTATGCGAGTAAGACC-
1 GTAAGACCACATTTAATACGTTGGCATCAATATATGACTCTGATATATATATGCGAGTAAGACCA
** *
64275640 C-TGTCTGGGACAGTGGCATTGATATGTGATT
66 CAT-T-TAAGACAGTGGCATCGATATGTGATT
64275671 ACATGTAAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
110 1 0.01
111 2 0.03
112 76 0.96
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (112 bp):
GTAAGACCACATTTAATACGTTGGCATCAATATATGACTCTGATATATATATGCGAGTAAGACCA
CATTTAAGACAGTGGCATCGATATGTGATTCTGATATATGTGTGCGA
Found at i:64279960 original size:2 final size:2
Alignment explanation
Indices: 64279953--64279984 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64279943 TGGCTTCGCC
64279953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64279985 CTGTTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64286206 original size:27 final size:27
Alignment explanation
Indices: 64286176--64286227 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
64286166 ATATTTCTGT
*
64286176 TCTGGTGGCCTAGCCACAATATCTGAA
1 TCTGGTGACCTAGCCACAATATCTGAA
* * *
64286203 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTAGCCACAATATCTG
64286228 GTAGCCTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
TCTGGTGACCTAGCCACAATATCTGAA
Found at i:64290966 original size:45 final size:44
Alignment explanation
Indices: 64290904--64291036 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 44
64290894 GTAAGCAAAC
* *
64290904 ATCGATGCC-ACTATCCCAGATAGGGTCTTACAC-AAAATTAGATAA
1 ATCGATGCCAAC-GTCCCAGATAGGGTCTTACACGAAAA--ACATAA
* * *
64290949 ATCGATGCCAACGTCCCAGACATGGTCTTACACGTAAAACATAA
1 ATCGATGCCAACGTCCCAGATAGGGTCTTACACGAAAAACATAA
* ** *
64290993 ATCGATGCCAATGTCATAGAT-GTGGTCTTACACGGAAACACATA
1 ATCGATGCCAACGTCCCAGATAG-GGTCTTACAC-GAAAAACATA
64291037 TCGGATCCTA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
44 32 0.44
45 35 0.49
46 5 0.07
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (44 bp):
ATCGATGCCAACGTCCCAGATAGGGTCTTACACGAAAAACATAA
Found at i:64291019 original size:44 final size:45
Alignment explanation
Indices: 64290945--64291036 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 45
64290935 ACAAAATTAG
* *
64290945 ATAAATCGATGCCAACGTCCCAGACATGGTCTTACACGTAAA-AC
1 ATAAATCGATGCCAACGTCACAGACATGGTCTTACACGGAAACAC
* * **
64290989 ATAAATCGATGCCAATGTCATAGATGTGGTCTTACACGGAAACAC
1 ATAAATCGATGCCAACGTCACAGACATGGTCTTACACGGAAACAC
64291034 ATA
1 ATA
64291037 TCGGATCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 36 0.88
45 5 0.12
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (45 bp):
ATAAATCGATGCCAACGTCACAGACATGGTCTTACACGGAAACAC
Found at i:64293794 original size:42 final size:41
Alignment explanation
Indices: 64293630--64293796 Score: 138
Period size: 42 Copynumber: 4.0 Consensus size: 41
64293620 AATCATACCA
* * *
64293630 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATA-G
1 ATGCCATATCCCAGATATGGTCTTACA-CGAAACTCATA-ACG
* ** ** * *
64293672 ATGCCAATAACCCACCTATGGTCTTACACGATTCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAACTCATAACG
* * * *
64293714 ATGCCATGTCCCAGACATGGTCTTACACAAAATATCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAA-CTCATAACG
* *
64293756 AGGTCATATCCCAGATATGGTCTTACACGTAAACTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACG-AAACTCATAAC
64293797 CCTAATGTCA
Statistics
Matches: 96, Mismatches: 25, Indels: 8
0.74 0.19 0.06
Matches are distributed among these distances:
41 19 0.20
42 55 0.57
43 22 0.23
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAACTCATAACG
Found at i:64298412 original size:61 final size:61
Alignment explanation
Indices: 64298294--64298412 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 61
64298284 TATTCAGAAA
* * * *
64298294 TCAGAGTTAACTGGGCCTTAGCCCATATCAATATTATTCTGGGCCATAGCCCCTTACAGTG
1 TCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGTG
* * **
64298355 TCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAATCTGGGCTGTAACCCTATTACA
1 TCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCC-ATTACA
64298413 AGTCGAGATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
60 29 0.60
61 19 0.40
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (61 bp):
TCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGTG
Found at i:64304121 original size:25 final size:26
Alignment explanation
Indices: 64304055--64304122 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
64304045 TCATAATTCA
64304055 TCATCAAACATCATAAAACACAAATAT
1 TCATCAAA-ATCATAAAACACAAATAT
**** **
64304082 TCATCAATGGAATAATTCA-AAATAT
1 TCATCAAAATCATAAAACACAAATAT
64304107 TCATCAAAATCATAAA
1 TCATCAAAATCATAAA
64304123 TTCTAGCATG
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
25 17 0.57
26 6 0.20
27 7 0.23
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (26 bp):
TCATCAAAATCATAAAACACAAATAT
Found at i:64307206 original size:17 final size:18
Alignment explanation
Indices: 64307176--64307209 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
64307166 AGCAACTCAT
64307176 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
64307194 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
64307210 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:64307220 original size:19 final size:18
Alignment explanation
Indices: 64307196--64307247 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 18
64307186 AAGATGAGTT
64307196 ATTAACTAAGATGAACTCA
1 ATTAACTAA-ATGAACTCA
64307215 ATTAACTGAAATGAACTCA
1 ATTAACT-AAATGAACTCA
64307234 ATTAACTAACATGA
1 ATTAACTAA-ATGA
64307248 GTAATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.06
19 27 0.87
20 2 0.06
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (18 bp):
ATTAACTAAATGAACTCA
Found at i:64317026 original size:27 final size:27
Alignment explanation
Indices: 64316977--64317483 Score: 627
Period size: 27 Copynumber: 18.7 Consensus size: 27
64316967 CCCTAATTGA
* * *
64316977 TAAAATAAATGTTTTGCCGTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
** *
64317004 TACGATGACTGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
64317031 TAAGATGGCTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317058 TAAAATGACTATTTTGCCCTTATGTAG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
64317085 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317112 TAAAATGATTGTTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317139 TAAAATGATTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
**
64317166 TAAAATGACTGTTTCACCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* **
64317193 TAAGATGACTGTTTTGCCCTTACATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317220 TAAAATGACTGTTTTACCCTTTATGTGA
1 TAAAATGACTGTTTTGCCC-TTATGTGG
*
64317248 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317275 TAAAATGATTGTTTTGCACTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
64317302 TAAAATGACTATATTGGCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
64317329 TAAAATGACTGTTTTGCCTTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317356 TAAAATGATTGTTTTGCCCTTATGTGC
1 TAAAATGACTGTTTTGCCCTTATGTGG
** **
64317383 TAAAATGACTGTTTCACTGTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
64317410 TAAGATGACTGTTTTGCCATTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
64317437 TAAAATGACTATTTTACCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
64317464 TAAGATGACTGTTTTGCCCT
1 TAAAATGACTGTTTTGCCCT
64317484 ATTTGATGTA
Statistics
Matches: 407, Mismatches: 72, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
27 385 0.95
28 22 0.05
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:64317833 original size:18 final size:18
Alignment explanation
Indices: 64317791--64317839 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
64317781 AGGACTTGTA
* *
64317791 TATTGTTACTACATTGAT
1 TATTGTTACTGCACTGAT
* *
64317809 TACTGTTACTGCACTGTT
1 TATTGTTACTGCACTGAT
*
64317827 TATTGTTATTGCA
1 TATTGTTACTGCA
64317840 GTGGGCCAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTGTTACTGCACTGAT
Found at i:64323898 original size:93 final size:93
Alignment explanation
Indices: 64323786--64323957 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64323776 GCCCATAAGT
* *
64323786 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64323851 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64323879 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64323944 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
64323958 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64323953 original size:46 final size:46
Alignment explanation
Indices: 64323778--64323953 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
64323768 TGTAACCCGC
* * *
64323778 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64323824 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64323874 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
64323917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64323954 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64326363 original size:15 final size:15
Alignment explanation
Indices: 64326328--64326392 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
64326318 CAAAGATAAC
*
64326328 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
64326342 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
64326357 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
64326372 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
64326387 AAGAAA
1 AAGAAA
64326393 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.20
15 35 0.78
16 1 0.02
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:64329446 original size:93 final size:93
Alignment explanation
Indices: 64329334--64329505 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64329324 CGCCATAAGT
* *
64329334 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64329399 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64329427 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64329492 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
64329506 CAAATCCAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64329501 original size:46 final size:46
Alignment explanation
Indices: 64329326--64329501 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
64329316 ATGTAACCCG
* * *
64329326 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64329372 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64329422 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
64329465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64329502 TGCCCAAATC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64332343 original size:40 final size:40
Alignment explanation
Indices: 64332277--64332443 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
64332267 AAATTGAATG
* * *
64332277 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
64332316 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
64332356 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
64332396 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
64332436 ATATCCGG
1 ATATCCGG
64332444 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:64340339 original size:40 final size:40
Alignment explanation
Indices: 64340273--64340439 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
64340263 AAATTGAATG
* * *
64340273 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
64340312 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
64340352 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
64340392 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
64340432 ATATCCGG
1 ATATCCGG
64340440 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:64344134 original size:15 final size:15
Alignment explanation
Indices: 64344116--64344153 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
64344106 TGGATTCTCG
64344116 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
64344131 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
*
64344146 TATTATGG
1 TATCATGG
64344154 GCTTCTCTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:64346999 original size:50 final size:50
Alignment explanation
Indices: 64346920--64347059 Score: 210
Period size: 50 Copynumber: 2.8 Consensus size: 50
64346910 ATCTATTGTG
* * *
64346920 AGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT
* *
64346970 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT
* *
64347020 -GGTCACATGTGTAGTACTAAGTACAGGCTACTATGTGTAC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
64347060 TATATAGCCT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 37 0.45
50 45 0.55
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT
Found at i:64356464 original size:54 final size:54
Alignment explanation
Indices: 64356392--64356504 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
64356382 TACTGAAATG
** * * * *
64356392 CCCTCGATTTGTAGAATTACCATTTTACCCTC-GATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAG-TTTACAAAATTACCGTTTTA
64356446 CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
64356500 CCCTC
1 CCCTC
64356505 AATTGTGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
Found at i:64356505 original size:27 final size:27
Alignment explanation
Indices: 64356392--64356504 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
64356382 TACTGAAATG
** *
64356392 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * **
64356419 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
64356446 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
64356473 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
64356500 CCCTC
1 CCCTC
64356505 AATTGTGAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 76 0.99
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:64356551 original size:27 final size:26
Alignment explanation
Indices: 64356541--64356690 Score: 183
Period size: 27 Copynumber: 5.6 Consensus size: 26
64356531 TGTAGGATAG
64356541 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAG-TTGTAA
64356568 AATTACCAAAATACCCCTAGTTGTAA
1 AATTACCAAAATACCCCTAGTTGTAA
* * *
64356594 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAG-TTGTAA
* *
64356621 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTGTAA
* **
64356648 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-AGTTGTAA
*
64356675 AATTACAAAAATACCC
1 AATTACCAAAATACCC
64356691 TTGACTTTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 24 0.22
27 84 0.78
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCCTAGTTGTAA
Found at i:64356617 original size:53 final size:54
Alignment explanation
Indices: 64356541--64356690 Score: 212
Period size: 54 Copynumber: 2.8 Consensus size: 54
64356531 TGTAGGATAG
*
64356541 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAAGTTGTAA
* * * *
64356594 AATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAAGTTGTAA
* ** *
64356648 AATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCC
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
64356691 TTGACTTTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 41 0.48
54 44 0.52
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAAGTTGTAA
Found at i:64356645 original size:80 final size:81
Alignment explanation
Indices: 64356541--64356689 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 81
64356531 TGTAGGATAG
* ** *
64356541 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGAGTTACAAAATTACAAAAA
64356605 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
64356621 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGAGTTACAAAATTACAAAAA
64356686 TACC
66 TACC
64356690 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 43 0.69
81 19 0.31
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGAGTTACAAAATTACAAAAA
TACCACTGGTTTGTGA
Found at i:64356678 original size:54 final size:54
Alignment explanation
Indices: 64356541--64356748 Score: 197
Period size: 54 Copynumber: 3.8 Consensus size: 54
64356531 TGTAGGATAG
* ** * *
64356541 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCT-AGTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTACCAAAATACCCTTAATTTGTAA
* ***
64356594 AATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTTAATTTGTAA
* * * *
64356648 AATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTT-AATTTGT-AA
* * * **
64356704 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTT
1 AATTACCA-AAATACCACTGATTTACAAAATTACCAAAATACCCTT
64356749 GGTTTGTATA
Statistics
Matches: 131, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
53 40 0.31
54 46 0.35
55 6 0.05
56 39 0.30
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTTAATTTGTAA
Found at i:64356741 original size:27 final size:27
Alignment explanation
Indices: 64356702--64356753 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
64356692 TGACTTTCTA
64356702 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
64356729 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
64356754 GTATATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:64357533 original size:20 final size:20
Alignment explanation
Indices: 64357500--64357594 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
64357490 ATATGTGGGA
64357500 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
64357517 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
* *
64357538 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
*
64357558 TAAGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
64357578 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
64357595 GTATTCATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.12
20 57 0.85
21 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:64357535 original size:11 final size:11
Alignment explanation
Indices: 64357519--64357594 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
64357509 CATGATTGAT
64357519 ATGATATGCAC
1 ATGATATGCAC
*
64357530 ATGATATG--T
1 ATGATATGCAC
* *
64357539 ATAAAATGCAC
1 ATGATATGCAC
*
64357550 ATGATATGTA-
1 ATGATATGCAC
64357560 A-GATATGCAC
1 ATGATATGCAC
*
64357570 ATGATATG--T
1 ATGATATGCAC
*
64357579 ATGAAATGCAC
1 ATGATATGCAC
64357590 ATGAT
1 ATGAT
64357595 GTATTCATAA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 20 0.43
10 2 0.04
11 25 0.53
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:64357565 original size:40 final size:40
Alignment explanation
Indices: 64357508--64357594 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
64357498 GATATGATAT
*
64357508 ACATGATTGATATGATATGCACATGATATGTATAAAATGC
1 ACATGATTGATAAGATATGCACATGATATGTATAAAATGC
*
64357548 ACATGATATG-TAAGATATGCACATGATATGTATGAAATGC
1 ACATGAT-TGATAAGATATGCACATGATATGTATAAAATGC
64357588 ACATGAT
1 ACATGAT
64357595 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (40 bp):
ACATGATTGATAAGATATGCACATGATATGTATAAAATGC
Found at i:64357689 original size:25 final size:24
Alignment explanation
Indices: 64357646--64357726 Score: 110
Period size: 24 Copynumber: 3.3 Consensus size: 24
64357636 GGAAGTGCAG
64357646 AAGGGCTTATGCCCCAGTTTATTGAA
1 AAGGGCTT-TGCCCCAGTTTATT-AA
* *
64357672 AAGGGCTTTGCCCGAGTTTATCAA
1 AAGGGCTTTGCCCCAGTTTATTAA
64357696 AAGGGCTTTGCCCCAG-TTATTAA
1 AAGGGCTTTGCCCCAGTTTATTAA
64357719 AAGAGGCT
1 AAG-GGCT
64357727 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.18
24 21 0.42
25 12 0.24
26 8 0.16
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (24 bp):
AAGGGCTTTGCCCCAGTTTATTAA
Found at i:64357973 original size:31 final size:33
Alignment explanation
Indices: 64357936--64357997 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
64357926 ACCGTTAAAC
64357936 GAAAAGGCTTCAGCCCAGTA-ATA-TGAAATAT
1 GAAAAGGCTTCAGCCCAGTATATATTGAAATAT
**
64357967 GAAAAGGCTTTGGCCCAGTATATATTGAAAT
1 GAAAAGGCTTCAGCCCAGTATATATTGAAAT
64357998 TGGTTTTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 18 0.67
32 3 0.11
33 6 0.22
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (33 bp):
GAAAAGGCTTCAGCCCAGTATATATTGAAATAT
Found at i:64375162 original size:55 final size:55
Alignment explanation
Indices: 64375075--64375329 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 55
64375065 ATTAGGGTTT
*
64375075 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAA-GTTTCATAAGGA
* * * * *
64375130 AAGGATATCATGTAAGACTATGTCAAGACATGG-CATTGATAAGTTTCTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTC-ATAAGG-A
* * * ** * *
64375186 AAGG-TCCCATGTAAGACCATGCCAAGGCAT-GACATTACTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCATAAGGA
* * *
64375238 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTT--T-A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCATAAGGA
* * * *
64375287 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAG
64375330 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 39 0.24
51 1 0.01
52 5 0.03
53 37 0.23
54 15 0.09
55 62 0.38
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCATAAGGA
Found at i:64375281 original size:108 final size:110
Alignment explanation
Indices: 64375082--64375283 Score: 284
Period size: 108 Copynumber: 1.9 Consensus size: 110
64375072 TTTAAGGATA
** *
64375082 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTACTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
* *
64375147 CTATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* * *
64375192 CCATGTAAGACCATGCCAAGGCAT-GACATTACTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTACTAAGGTTTC-TAAGGAAAGGATACCATGTAAG
* *
64375254 ACCATGTCGAGACATGGCAATGGTAAGTTT
65 ACCATGTCAAGACATGGCAATGATAAGTTT
64375284 TAAAAGGATA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTACTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:64377644 original size:42 final size:42
Alignment explanation
Indices: 64377534--64377702 Score: 146
Period size: 42 Copynumber: 4.0 Consensus size: 42
64377524 TTTGGATACG
* * *
64377534 TGATTTTGTGTAATACCATGTCTGGGACATTGGCATTG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* *
64377575 TGAGATTTACGTGTAAGACTATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * * * *
64377620 TGATTTTGTGTAAGACCCTGTCT-GGATAGTGGCATCAATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC-GTATT
* * * *
64377662 TGATTACATGTAAGACC-TCGTCTGGGACGTTGGCATTGTAT
1 TGATTTCGTGTAAGACCAT-GTCTGGGACATTGGCATCGTAT
64377703 GAGCTTTTCG
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 13 0.13
42 38 0.38
43 19 0.19
44 28 0.28
45 3 0.03
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:64384495 original size:40 final size:40
Alignment explanation
Indices: 64384436--64384658 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
64384426 TATTCGGATG
* *
64384436 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
* * *
64384476 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
* *
64384516 ATATCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC--G-AGTTACT
* * * *
64384558 ATA-CCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
*
64384597 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
64384637 ATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
64384659 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 42 0.27
40 81 0.51
41 5 0.03
42 29 0.18
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
Found at i:64392616 original size:40 final size:40
Alignment explanation
Indices: 64392561--64392784 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
64392551 TATTCGGATG
*
64392561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64392601 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64392641 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* *
64392684 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64392723 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64392763 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
64392785 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 22 0.13
40 106 0.65
42 27 0.17
43 8 0.05
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64392721 original size:82 final size:80
Alignment explanation
Indices: 64392561--64392784 Score: 371
Period size: 82 Copynumber: 2.8 Consensus size: 80
64392551 TATTCGGATG
*
64392561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
64392626 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
*
64392641 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATA-CCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
64392705 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* *
64392723 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
64392785 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
79 25 0.19
80 34 0.25
82 67 0.50
83 9 0.07
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:64410559 original size:17 final size:17
Alignment explanation
Indices: 64410537--64410570 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64410527 AGGAGAGAAA
64410537 AGAAAGTAAGCTTATAG
1 AGAAAGTAAGCTTATAG
64410554 AGAAAGTAAGCTTATAG
1 AGAAAGTAAGCTTATAG
64410571 CTTAGTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (17 bp):
AGAAAGTAAGCTTATAG
Found at i:64415974 original size:60 final size:62
Alignment explanation
Indices: 64415874--64416036 Score: 162
Period size: 60 Copynumber: 2.7 Consensus size: 62
64415864 AACTATGTTA
* * *
64415874 ATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCAAAATTG-ATACTG
1 ATATGGGCAAGGCCCAGTATACTCTGATTCTTGTAATAGGGCTACGGCCAAAA-TGAATACTG
* * * * *
64415934 ATATGGGCAAGGCCCAGTATACTCTGATTC-TGTAA-GGGGCTATGGCCTAGATGAATATTG
1 ATATGGGCAAGGCCCAGTATACTCTGATTCTTGTAATAGGGCTACGGCCAAAATGAATACTG
64415994 ATATGGGCTAAGGCCCAGT-TAACTCTGATT-TCTG-AATAGGGCT
1 ATATGGGC-AAGGCCCAGTAT-ACTCTGATTCT-TGTAATAGGGCT
64416037 TAGGCCCAGT
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
59 2 0.02
60 46 0.53
61 30 0.35
62 8 0.09
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (62 bp):
ATATGGGCAAGGCCCAGTATACTCTGATTCTTGTAATAGGGCTACGGCCAAAATGAATACTG
Found at i:64421189 original size:30 final size:30
Alignment explanation
Indices: 64421155--64421215 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
64421145 TTCCCGAGCC
* *
64421155 TAGGGGTAAAATTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
*
64421185 TAGGGGAAAAAATGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
64421215 T
1 T
64421216 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAATTATGCAAAAGTT
Found at i:64421294 original size:24 final size:24
Alignment explanation
Indices: 64421267--64421314 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
64421257 TTAATTTGGC
64421267 ATTATAGATCAAGAGAAACGAGAT
1 ATTATAGATCAAGAGAAACGAGAT
64421291 ATTATAGATCAAGAGAAACGAGAT
1 ATTATAGATCAAGAGAAACGAGAT
64421315 TCAAGTCGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (24 bp):
ATTATAGATCAAGAGAAACGAGAT
Found at i:64424218 original size:48 final size:48
Alignment explanation
Indices: 64424164--64424259 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
64424154 TAATAAGTTT
*
64424164 GCATATTTTAATTTGACTTGCACTTTGTGTGTTCTGC-TTTTAATAAAG
1 GCATATTTTAATTTGACTTGCACTTTGTGTGTTCTACATTTT-ATAAAG
*
64424212 GCATATTTTAATTTGATTTGCACTTTGTGTGTTCTACATTTTATAAAG
1 GCATATTTTAATTTGACTTGCACTTTGTGTGTTCTACATTTTATAAAG
64424260 TAATGCATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (48 bp):
GCATATTTTAATTTGACTTGCACTTTGTGTGTTCTACATTTTATAAAG
Found at i:64424540 original size:9 final size:9
Alignment explanation
Indices: 64424528--64424586 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
64424518 AGTTATTTAA
64424528 GTTTAATGT
1 GTTTAATGT
64424537 GTTTAATGT
1 GTTTAATGT
*
64424546 GCTTAATGT
1 GTTTAATGT
** *
64424555 ACTTAAAGT
1 GTTTAATGT
*
64424564 GTTTAATTT
1 GTTTAATGT
64424573 GTTTTAATGT
1 G-TTTAATGT
64424583 GTTT
1 GTTT
64424587 GTTAATGAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (9 bp):
GTTTAATGT
Found at i:64427220 original size:39 final size:39
Alignment explanation
Indices: 64427177--64427281 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 39
64427167 AAGTGACTAT
* * *
64427177 ATCCGGACTAGGATCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGACTAAGACCGAAGGCATTCGTGCAAGTTAATAA
* * * *
64427216 ATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGACTAAGACCGAAGGCATTCGTGCAAGTTAATAA
* ** *
64427255 ACCCGGGTTAAGTCCCGAAGGCATTCG
1 ATCCGGACTAAG-ACCGAAGGCATTCG
64427282 GGCGAGTCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 42 0.76
40 13 0.24
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGACTAAGACCGAAGGCATTCGTGCAAGTTAATAA
Found at i:64427278 original size:40 final size:39
Alignment explanation
Indices: 64427191--64427328 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 39
64427181 GGACTAGGAT
* *
64427191 CGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CC
1 CGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTCC
* *
64427230 CGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCC
1 CGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTCC
* * *
64427270 CGAAGGCATTCGGGCGAGTCACTATAACCGGGCTT-CGTCC
1 CGAAGGCATTCGTGCGAGTTACTA-AACCGGG-TTAAGTCC
* *
64427310 CGAAGGCATTTGAGCGAGT
1 CGAAGGCATTCGTGCGAGT
64427329 CGTTATATCC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.38
40 48 0.57
41 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
CGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTCC
Found at i:64428743 original size:28 final size:28
Alignment explanation
Indices: 64428703--64428768 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
64428693 TTACATAAAC
*
64428703 CATATCCCTTAATTATCTCAAACTATCA
1 CATACCCCTTAATTATCTCAAACTATCA
64428731 CATACCCCTTAATTATCTCAAACTATCA
1 CATACCCCTTAATTATCTCAAACTATCA
64428759 CATACCCCTT
1 CATACCCCTT
64428769 TGTTTAAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (28 bp):
CATACCCCTTAATTATCTCAAACTATCA
Found at i:64429969 original size:21 final size:22
Alignment explanation
Indices: 64429922--64429975 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
64429912 AAAGGAAGCG
*
64429922 AGAAAAAGAAATCGAGAGAAGA
1 AGAAAAAGAAATCGAGAGAAAA
* *
64429944 A-AAAAAGACATGGA-AGAAAA
1 AGAAAAAGAAATCGAGAGAAAA
*
64429964 AGAAAAGGAAAT
1 AGAAAAAGAAAT
64429976 AAAAAGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.06
Consensus pattern (22 bp):
AGAAAAAGAAATCGAGAGAAAA
Found at i:64430090 original size:18 final size:17
Alignment explanation
Indices: 64430040--64430090 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
64430030 TCATGTAAGC
64430040 AAGAAAAGAAAGTTGAAA
1 AAGAAAAGAAA-TTGAAA
*
64430058 AAGAAAGAGAGATTGAAGA
1 AAGAAA-AGAAATTGAA-A
64430077 AAGAAAAGAAATTG
1 AAGAAAAGAAATTG
64430091 TCCAAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.12
Consensus pattern (17 bp):
AAGAAAAGAAATTGAAA
Found at i:64430204 original size:17 final size:18
Alignment explanation
Indices: 64430171--64430204 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64430161 AGAGATTGTG
*
64430171 GAAAAAGAAAGAGAGTCT
1 GAAAAAGAAACAGAGTCT
64430189 GAAAAAGAAACA-AGTC
1 GAAAAAGAAACAGAGTC
64430205 AAAAAGGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.09, G:0.24, T:0.09
Consensus pattern (18 bp):
GAAAAAGAAACAGAGTCT
Found at i:64434006 original size:49 final size:49
Alignment explanation
Indices: 64433934--64434245 Score: 489
Period size: 49 Copynumber: 6.4 Consensus size: 49
64433924 ATCAAGATTC
* * *
64433934 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
64433983 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
64434032 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
64434081 GGGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
64434130 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64434179 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
64434228 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
64434246 ATGTGGTAAA
Statistics
Matches: 248, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 248 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:64434369 original size:37 final size:36
Alignment explanation
Indices: 64434314--64434400 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
64434304 AACTTGGAAA
64434314 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
64434352 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
64434389 TATGTCCGGGTA
1 TATGTCCGGGTA
64434401 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:64436614 original size:27 final size:27
Alignment explanation
Indices: 64436594--64436681 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
64436584 ACCCCAAATA
*
64436594 GGTAAAATGATCGTAATA-CCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
64436620 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
64436647 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
64436674 GGTAAAAT
1 GGTAAAAT
64436682 AATGATTATG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 16 0.28
27 41 0.72
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:64437097 original size:27 final size:26
Alignment explanation
Indices: 64437035--64437098 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
64437025 ATTACACTGT
* *
64437035 ACTGATACTGTATTGGGCTTAGGCCAC
1 ACTG-TACTGTATAGGGCTAAGGCCAC
* *
64437062 ACTATTACTGTATAGGGCTAAGGCCCAG
1 ACT-GTACTGTATAGGGCTAAGG-CCAC
64437090 ACTGTACTG
1 ACTGTACTG
64437099 ATACTAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (26 bp):
ACTGTACTGTATAGGGCTAAGGCCAC
Found at i:64440283 original size:46 final size:47
Alignment explanation
Indices: 64440175--64440296 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
64440165 TGTCTTCGAC
** * *
64440175 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
64440225 ATGGGCTCACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTTAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
64440271 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
64440297 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:64442528 original size:24 final size:24
Alignment explanation
Indices: 64442496--64442702 Score: 360
Period size: 24 Copynumber: 8.6 Consensus size: 24
64442486 TATCTCAAAT
64442496 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
64442520 GCACTATGTGTACGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
64442544 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
64442568 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
64442592 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
64442616 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
64442640 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
64442664 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
64442688 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
64442703 ACATAATAAG
Statistics
Matches: 176, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 176 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:64450163 original size:46 final size:47
Alignment explanation
Indices: 64450055--64450176 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
64450045 TGTCTTCGAC
** * *
64450055 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
64450105 ATGGGCTCACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTTAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
64450151 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
64450177 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:64452241 original size:28 final size:28
Alignment explanation
Indices: 64452203--64452264 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
64452193 TGAATAACAT
*
64452203 AGTCTGGGCCTAAGCCTAGATCAGTAAC
1 AGTCTGAGCCTAAGCCTAGATCAGTAAC
*
64452231 AGTCTGAGCCTGAGCCTAGATCAGTAAC
1 AGTCTGAGCCTAAGCCTAGATCAGTAAC
64452259 AGTCTG
1 AGTCTG
64452265 GTTCTAAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (28 bp):
AGTCTGAGCCTAAGCCTAGATCAGTAAC
Found at i:64452274 original size:28 final size:27
Alignment explanation
Indices: 64452203--64452274 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
64452193 TGAATAACAT
64452203 AGTCTGGGCCTAAGCCTAGATCAGTAAC
1 AGTCT-GGCCTAAGCCTAGATCAGTAAC
*
64452231 AGTCTGAGCCTGAGCCTAGATCAGTAAC
1 AGTCTG-GCCTAAGCCTAGATCAGTAAC
*
64452259 AGTCTGGTTCTAAGCC
1 AGTCTGG-CCTAAGCC
64452275 CTATTCAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (27 bp):
AGTCTGGCCTAAGCCTAGATCAGTAAC
Found at i:64452296 original size:33 final size:34
Alignment explanation
Indices: 64452250--64452354 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 34
64452240 CTGAGCCTAG
** *
64452250 ATCAGTAACAGTCTGGTTCTAAGCCCTATTCAGT
1 ATCAGTAACAGTCTGGGCCTAAGCCCTATACAGT
*
64452284 ATCAGT-ACAGTCTGGGCCTTAGCCCTATACAGT
1 ATCAGTAACAGTCTGGGCCTAAGCCCTATACAGT
* *
64452317 A--A-T---AGTGT-GGCCTAAGCCCAATACAGT
1 ATCAGTAACAGTCTGGGCCTAAGCCCTATACAGT
64452344 ATCAGT-ACAGT
1 ATCAGTAACAGT
64452355 GTAATGCAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
27 18 0.31
28 4 0.07
29 1 0.02
30 2 0.03
31 1 0.02
32 3 0.05
33 24 0.41
34 6 0.10
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (34 bp):
ATCAGTAACAGTCTGGGCCTAAGCCCTATACAGT
Found at i:64452316 original size:27 final size:26
Alignment explanation
Indices: 64452286--64452349 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
64452276 TATTCAGTAT
* *
64452286 CAGTACAGTCTGGGCCTTAGCCCTATA
1 CAGTACAGTCT-GGCCTAAGCCCAATA
* *
64452313 CAGTAATAGTGTGGCCTAAGCCCAATA
1 CAGT-ACAGTCTGGCCTAAGCCCAATA
64452340 CAGTATCAGT
1 CAGTA-CAGT
64452350 ACAGTGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.03
27 24 0.80
28 5 0.17
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (26 bp):
CAGTACAGTCTGGCCTAAGCCCAATA
Found at i:64452571 original size:27 final size:26
Alignment explanation
Indices: 64452505--64452591 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
64452495 AGTTGCCAAA
*
64452505 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
**
64452532 ATTAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAA-TGTGGCATAGCCACCAGT
* * *
64452559 AACAGTGAATGTGACATAGTCAACAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
64452586 -ACAGTA
1 AACAGTA
64452592 CTTCATCCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 40 0.80
28 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (26 bp):
AACAGTAATGTGGCATAGCCACCAGT
Found at i:64452758 original size:27 final size:27
Alignment explanation
Indices: 64452727--64453058 Score: 436
Period size: 27 Copynumber: 12.4 Consensus size: 27
64452717 GGGCATAATC
* * *
64452727 GTCATTTTACCATACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
64452754 GTCA-TTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
64452780 GTCATTTTACCCT-CTAGGGGCATTACA
1 GTCATTTTACCCTAC-AGGGGCATTACG
* * *
64452807 GTCATTTTACGCTATAGGGGTATT-CG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
64452833 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
64452860 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
64452887 GTCATTTTACCCTAGAGGAGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
64452914 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
64452941 GTCATTTTACCCTACAGGGGCCTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
64452968 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
64452995 GTCATTTTACCCTATAGGGGCATTATT
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
64453022 GTCATTTTACCCTATAGGGGTGTTATG
1 GTCATTTTACCCTACAGGGGCATTACG
64453049 GTCATTTTAC
1 GTCATTTTAC
64453059 TACTTTTGGG
Statistics
Matches: 272, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 46 0.17
27 226 0.83
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:64455600 original size:21 final size:21
Alignment explanation
Indices: 64455571--64455618 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
64455561 AACATAAGAG
64455571 TAGATGGAGAGCTGGCTTTAAA
1 TAGA-GGAGAGCTGGCTTTAAA
64455593 TAGAGGAGAGCTGGCTTTAAA
1 TAGAGGAGAGCTGGCTTTAAA
64455614 TAGAG
1 TAGAG
64455619 CAAACCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.25
Consensus pattern (21 bp):
TAGAGGAGAGCTGGCTTTAAA
Found at i:64455960 original size:27 final size:27
Alignment explanation
Indices: 64455851--64456001 Score: 110
Period size: 27 Copynumber: 5.6 Consensus size: 27
64455841 TAAGTTGTAG
* **
64455851 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTAAAA
***
64455878 AATTACCAAAATACCC-CTGATTTGTGA
1 AATTACCAAAATACCCTC-GATTTAAAA
* * * * **
64455905 AATTACTAAAATACCTTCAACTTGCAA
1 AATTACCAAAATACCCTCGATTTAAAA
*
64455932 AATTACCAAAGTACCCTCGATTTAAAA
1 AATTACCAAAATACCCTCGATTTAAAA
*** *
64455959 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTAAAA
64455986 AATTA-CAAAATACCCT
1 AATTACCAAAATACCCT
64456002 TGTAAGTAGA
Statistics
Matches: 100, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
26 8 0.08
27 90 0.90
28 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTAAAA
Found at i:64456848 original size:27 final size:26
Alignment explanation
Indices: 64456796--64456855 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
64456786 ATATATATAT
*
64456796 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
64456822 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
64456849 ATATCTG
1 ATATCTG
64456856 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:64461331 original size:27 final size:25
Alignment explanation
Indices: 64461285--64461338 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
64461275 ATTCAACACC
* *
64461285 TAGGGGTATTTTGGTCATTTCTGCCCT
1 TAGGGGTATTTCGGTAATTT-T-CCCT
*
64461312 TAGGGGTGTTTCGGTAATTTTCCCT
1 TAGGGGTATTTCGGTAATTTTCCCT
64461337 TA
1 TA
64461339 ATTATGGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 1 0.04
27 17 0.71
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.44
Consensus pattern (25 bp):
TAGGGGTATTTCGGTAATTTTCCCT
Found at i:64461934 original size:16 final size:16
Alignment explanation
Indices: 64461913--64461953 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
64461903 CCAAACTTTT
64461913 AGCTTTTCGGCATTTC
1 AGCTTTTCGGCATTTC
* *
64461929 AGCTTTTCAGCATTTT
1 AGCTTTTCGGCATTTC
*
64461945 GGCTTTTCG
1 AGCTTTTCG
64461954 ACTTTTGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (16 bp):
AGCTTTTCGGCATTTC
Found at i:64466465 original size:42 final size:43
Alignment explanation
Indices: 64466351--64466507 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
64466341 TATGATTTTG
* * *
64466351 TGTAAGACCACGTCTGGGAC-GTTGGCATTGACT-TCTGATTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGA-TATCT-AATTACA
* * * *
64466395 TGTAAGACCATGTCTAGGACA-TCAGCATC-ATATCTAATTTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGATATCTAATTACA
* * * *
64466437 TGTAAGACC-CTGTCTGGGGCAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATCTAATTACA
*
64466480 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACAGTGGCAT
64466508 TGTATATGTT
Statistics
Matches: 89, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 27 0.30
43 39 0.44
44 23 0.26
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATCTAATTACA
Found at i:64470219 original size:15 final size:15
Alignment explanation
Indices: 64470187--64470215 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64470177 ATTTTCAGTG
64470187 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
64470202 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
64470216 ATTTTTGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:64471422 original size:43 final size:42
Alignment explanation
Indices: 64471358--64471511 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 42
64471348 GTGTTCTCGT
* * *
64471358 GTAAGACCACGACTAGAACATTGGCTTCGACATGTGATTTCGA
1 GTAAGACCACGTCTAGGACATTGGCATCGACATGTGATTTC-A
* * *
64471401 GTAAGACCATGTCTGGGACATTGGCATCGTA-ATTGTGA-TTCT
1 GTAAGACCACGTCTAGGACATTGGCATCG-ACA-TGTGATTTCA
* *
64471443 GTAAGACC-CTGTCTGGGACA-TGGCATCGACATGTGATTACA
1 GTAAGACCAC-GTCTAGGACATTGGCATCGACATGTGATTTCA
*
64471484 TGTAAGACCACGTCTAGGACGTTGGCAT
1 -GTAAGACCACGTCTAGGACATTGGCAT
64471512 TGTACGATAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
40 6 0.07
41 11 0.12
42 34 0.37
43 35 0.38
44 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
GTAAGACCACGTCTAGGACATTGGCATCGACATGTGATTTCA
Found at i:64471456 original size:42 final size:43
Alignment explanation
Indices: 64471375--64471511 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 43
64471365 CACGACTAGA
* * *
64471375 ACATTGGCTTCGACATGTGATTTCGA-GTAAGACCATGTCTGGG
1 ACATTGGCATCGACATGTGATTAC-ATGTAAGACCCTGTCTGGG
64471418 ACATTGGCATCGTA-ATTGTGATT-C-TGTAAGACCCTGTCTGGG
1 ACATTGGCATCG-ACA-TGTGATTACATGTAAGACCCTGTCTGGG
*
64471460 ACA-TGGCATCGACATGTGATTACATGTAAGACCAC-GTCTAGG
1 ACATTGGCATCGACATGTGATTACATGTAAGACC-CTGTCTGGG
*
64471502 ACGTTGGCAT
1 ACATTGGCAT
64471512 TGTACGATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
40 8 0.10
41 10 0.12
42 36 0.44
43 20 0.24
44 8 0.10
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
ACATTGGCATCGACATGTGATTACATGTAAGACCCTGTCTGGG
Found at i:64472179 original size:6 final size:6
Alignment explanation
Indices: 64472161--64472257 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
64472151 AAGAAACATT
* * * *
64472161 ATCAGA A-CTAGA ATCAGA ATGAGA ATCAGA ATTAG- GTGACAGG ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
64472210 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
64472258 GTAACAGAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.06
6 59 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:64472209 original size:31 final size:31
Alignment explanation
Indices: 64472170--64472267 Score: 133
Period size: 31 Copynumber: 3.2 Consensus size: 31
64472160 TATCAGAACT
* * *
64472170 AGAATCAGAATGAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
64472201 AGGATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
64472232 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
64472263 AGAAT
1 AGAAT
64472268 AAAAAATCAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Done.