Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 200 of 333
Found at i:65406605 original size:131 final size:130
Alignment explanation
Indices: 65406269--65406756 Score: 334
Period size: 131 Copynumber: 3.7 Consensus size: 130
65406259 GTCGAGATTT
*
65406269 GATGTTTGGCAATTCGCGGAAT-AGTGCCCTAAT-GTGTTGGGTTGCAATTTCGCATTTG-CTC-
1 GATGTTTGGCAATTCGCGGAATCA-TGCCCT-ATCGTGTTGGGTTGCAATTTCCCATTTGTC-CA
* * * *
65406330 AAACTAATCGAATATCACTTCGAAATTTCACTCATGTCTTTTAAAATCCCTAAAACGAAGGCGAT
63 AAAC-AATCGAATATCCCTTCAAAATTTCACTCATGTCTTTAAAAATCCCTAAAACGAAGGCAAT
65406395 ATGC
127 ATGC
* * * * * **
65406399 GATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTTAAAA
1 GATGTTTGGCAATTCGCGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCCCATTTGTCCAAAA
* * * * *
65406464 TAATCAAATATCCCTTCAAAATTTCACTCA-GATCTTCTAAAAATCCTTTAAAATGAAGGTAATA
66 CAATCGAATATCCCTTCAAAATTTCACTCATG-TCTT-TAAAAATCC-CTAAAACGAAGGCAATA
65406528 CT-C
128 -TGC
* * * ** * *
65406531 GGTGTTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTCCAAAA
1 GATGTTTGGCAATTCGCGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCCCATTTGTCCAAAA
* * * *** * * *
65406595 CAATTGAATATTCCTTTAGGTTTTCATTCATGAT-TATTAAAAA-CCTTTCAAAACGAAGGCGAT
66 CAATCGAATATCCCTTCAAAATTTCACTCATG-TCT-TTAAAAATCC-CT-AAAACGAAGGCAAT
* *
65406658 GTCC
127 ATGC
* * * * * ** **
65406662 GATGTTTGGCGATTTG-AGAATCGA-GGCCTATCATGTTGGGTTGCGCTTTTTCATTTG-CTCAA
1 GATGTTTGGCAATTCGCGGAATC-ATGCCCTATCGTGTTGGGTTGCAATTTCCCATTTGTC-CAA
* * **
65406724 AACAATCAAAGATCCCTTCGGAATTTCACTCAT
64 AACAATCGAATATCCCTTCAAAATTTCACTCAT
65406757 ATTTTCTAAG
Statistics
Matches: 280, Mismatches: 64, Indels: 27
0.75 0.17 0.07
Matches are distributed among these distances:
129 2 0.01
130 86 0.31
131 159 0.57
132 32 0.11
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
GATGTTTGGCAATTCGCGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCCCATTTGTCCAAAA
CAATCGAATATCCCTTCAAAATTTCACTCATGTCTTTAAAAATCCCTAAAACGAAGGCAATATGC
Found at i:65412146 original size:18 final size:18
Alignment explanation
Indices: 65412123--65412159 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
65412113 AAATAAATCC
65412123 ATACACTGTTTCATTTGA
1 ATACACTGTTTCATTTGA
65412141 ATACACTGTTTCATTTGA
1 ATACACTGTTTCATTTGA
65412159 A
1 A
65412160 CATTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (18 bp):
ATACACTGTTTCATTTGA
Found at i:65413643 original size:11 final size:11
Alignment explanation
Indices: 65413627--65413654 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
65413617 TTGTAAAGTA
65413627 AATTAGGATTG
1 AATTAGGATTG
65413638 AATTAGGATTG
1 AATTAGGATTG
65413649 AATTAG
1 AATTAG
65413655 ATGCTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (11 bp):
AATTAGGATTG
Found at i:65414187 original size:76 final size:76
Alignment explanation
Indices: 65414061--65414223 Score: 256
Period size: 76 Copynumber: 2.1 Consensus size: 76
65414051 GCAGTTATAT
* * * * *
65414061 ATGTGTGCTAGTGTAATACCATAGCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGA-AA
1 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCAT-GACAA
*
65414125 AGCCATGGTAGA
65 AGCCATGGTAAA
65414137 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
1 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
65414202 GCCATGGTAAA
66 GCCATGGTAAA
65414213 ATGTGTGCAAG
1 ATGTGTGCAAG
65414224 ACCAAAGCGG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 2 0.03
76 78 0.98
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (76 bp):
ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
GCCATGGTAAA
Found at i:65414665 original size:40 final size:38
Alignment explanation
Indices: 65414580--65414719 Score: 133
Period size: 40 Copynumber: 3.6 Consensus size: 38
65414570 CCTTTGGTGG
65414580 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGA
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGA
* *
65414618 CTATTAGCGGCACTTTTTTAAAAACGCCGCTATATG-TAC-A
1 CT-TTAGCGGCGC-TTTTTAAAAACGCCGCTA-AAGAT-CGA
* * * *
65414658 CCTTTAGCGGTGCTTTTTAGAAAACGCCGCTAATGCTTGA
1 -CTTTAGCGGCGCTTTTTA-AAAACGCCGCTAAAGATCGA
*
65414698 TCTTTAGCGGCG-TTTTAAAAAA
1 -CTTTAGCGGCGCTTTTTAAAAA
65414720 AACGCTGCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
38 6 0.07
39 23 0.27
40 52 0.60
41 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (38 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGA
Found at i:65414788 original size:194 final size:193
Alignment explanation
Indices: 65414403--65414870 Score: 604
Period size: 194 Copynumber: 2.4 Consensus size: 193
65414393 CGTTTGAATA
* *
65414403 AAAAACGCCACTAAAGAAT-GAGC-ATTAGCGGCGC-TTTTTAGAAAACGACGCTATACGTACAC
1 AAAAACGCCGCTAAAG-ATCGA-CTATTAGCGGCACTTTTTTA-AAAACGACGCTATA-GTACAC
**
65414465 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTTCAAAAAACG
62 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTAAAAAAAACG
* * ** * * * *
65414530 CCGTAAAAAAATTAACACAACGCTGTCGTTTTGTATTGAGCCTTTGGTGGCTTTAGCGGCGCTTT
127 CCGCAAAAAAATTAACAAAACGCCATCATTTTGTATTGAGACTTTAGTGGCTTTAGCAGCGCTTT
65414595 TT
192 TT
*
65414597 AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAAAAACGCCGCTATATGTACACCTT
1 AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAAAAACGACGCTATA-GTACACCTT
* * *
65414662 TAGCGGTGCTTTTTAGAAAACGCCGCTAATGCTTGATCTTTAGCGGCGTTTTAAAAAAAACGCTG
65 TAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTAAAAAAAACGCCG
* * *** *
65414727 CAAATTAATTTTGTAAAACGCCATCATTTTGTATTGAGATTTTAGTGG-TTTAGCAGCGCTTTTT
130 CAAA-AAAATTAACAAAACGCCATCATTTTGTATTGAGACTTTAGTGGCTTTAGCAGCGCTTTTT
* * *
65414791 AAAAACACTGCTAAAGATCGAGTATTAGCGGCACTTTTTTAAGAAACGGA-GCTATAGTACACCT
1 AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAA-AAAC-GACGCTATAGTACACCT
65414855 TTAGCGGCGCTTTTTA
64 TTAGCGGCGCTTTTTA
65414871 ATACTCGATC
Statistics
Matches: 240, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
193 3 0.01
194 189 0.79
195 47 0.20
196 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (193 bp):
AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAAAAACGACGCTATAGTACACCTTT
AGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTAAAAAAAACGCCGC
AAAAAAATTAACAAAACGCCATCATTTTGTATTGAGACTTTAGTGGCTTTAGCAGCGCTTTTT
Found at i:65415080 original size:50 final size:50
Alignment explanation
Indices: 65415024--65415123 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
65415014 GTAAAAGAGA
65415024 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
1 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
65415074 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
1 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
65415124 ACGATATATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (50 bp):
TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
Found at i:65415191 original size:22 final size:21
Alignment explanation
Indices: 65415166--65415210 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
65415156 GTTACTATTG
* *
65415166 TAAGGTTTATGGATTATGAGTT
1 TAAGGATTATAGATTATG-GTT
*
65415188 TAAGGATTATAGTTTATGGTT
1 TAAGGATTATAGATTATGGTT
65415209 TA
1 TA
65415211 TGGGTTAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (21 bp):
TAAGGATTATAGATTATGGTT
Found at i:65415203 original size:14 final size:15
Alignment explanation
Indices: 65415170--65415203 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
65415160 CTATTGTAAG
*
65415170 GTTTATGGATTATGA
1 GTTTAAGGATTATGA
65415185 GTTTAAGGATTAT-A
1 GTTTAAGGATTATGA
65415199 GTTTA
1 GTTTA
65415204 TGGTTTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (15 bp):
GTTTAAGGATTATGA
Found at i:65415265 original size:7 final size:7
Alignment explanation
Indices: 65415249--65415325 Score: 55
Period size: 7 Copynumber: 10.9 Consensus size: 7
65415239 GGGGGTTGGT
*
65415249 GTTTAAG
1 GTTTAGG
65415256 GTTTAGG
1 GTTTAGG
* *
65415263 GTTAAAG
1 GTTTAGG
* *
65415270 GTTAATG
1 GTTTAGG
*
65415277 GTTTATG
1 GTTTAGG
* *
65415284 TTTTATG
1 GTTTAGG
*
65415291 GTTTAAG
1 GTTTAGG
65415298 GTTTAGG
1 GTTTAGG
*
65415305 GGTTAGG
1 GTTTAGG
65415312 GATTTAGG
1 G-TTTAGG
65415320 GTTTAG
1 GTTTAG
65415326 ATTAATTAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 52 0.90
8 6 0.10
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:65415272 original size:14 final size:14
Alignment explanation
Indices: 65415249--65415324 Score: 71
Period size: 14 Copynumber: 5.4 Consensus size: 14
65415239 GGGGGTTGGT
65415249 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
* * *
65415263 GTTAAAGGTTAATG
1 GTTTAAGGTTTAGG
* * *
65415277 GTTTATGTTTTATG
1 GTTTAAGGTTTAGG
65415291 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
* *
65415305 GGTTAGGGATTTAGG
1 GTTTAAGG-TTTAGG
65415320 GTTTA
1 GTTTA
65415325 GATTAATTAG
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 38 0.79
15 10 0.21
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:65431176 original size:19 final size:20
Alignment explanation
Indices: 65431152--65431189 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65431142 GGTACCACCA
65431152 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
65431171 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
65431190 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:65431481 original size:46 final size:46
Alignment explanation
Indices: 65431414--65431583 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
65431404 AACCCGCCCC
* *
65431414 TAAGTGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
65431460 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
65431508 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
65431553 TAGGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
65431584 AGATGCTCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 57 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:65431527 original size:93 final size:93
Alignment explanation
Indices: 65431419--65431589 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65431409 GCCCCTAAGT
* * *
65431419 GAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
65431484 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
65431512 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65431577 CGAGTTCAGATGC
66 CGAGTTCAGATGC
65431590 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:65433358 original size:67 final size:67
Alignment explanation
Indices: 65433245--65433377 Score: 185
Period size: 67 Copynumber: 2.0 Consensus size: 67
65433235 GTGGATTCTA
* ** * *
65433245 TATGCTGTCATAGTTGGGCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTC
1 TATGCTGTCATAGTCGAACTATAGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
65433310 TC
66 TC
* * * *
65433312 TATGTTGTCATAGTCGAACTATAGTCTTATACATCATACCTTATGTTTAATGGCCTAGCAGACTC
1 TATGCTGTCATAGTCGAACTATAGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
65433377 T
66 T
65433378 TTATATTGCC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (67 bp):
TATGCTGTCATAGTCGAACTATAGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
TC
Found at i:65433418 original size:67 final size:68
Alignment explanation
Indices: 65433262--65433410 Score: 194
Period size: 67 Copynumber: 2.2 Consensus size: 68
65433252 TCATAGTTGG
* * * *
65433262 GCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTCTCTATGTTGTCATAGTC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
*
65433327 GAA
66 CAA
* * * * *
65433330 -CTATAGTCTTATACATCATACCTTATGTTTAATGGCCTAGCAGACTCTTTATATTGCCAT-GGC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
65433393 CAA
66 CAA
65433396 GCTATGGTCTTACAC
1 GCTATGGTCTTACAC
65433411 GTTATACCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 4 0.06
67 64 0.94
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (68 bp):
GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
CAA
Found at i:65438788 original size:10 final size:10
Alignment explanation
Indices: 65438767--65438799 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
65438757 GAATTGTATT
65438767 ATGAAT-GAA
1 ATGAATAGAA
65438776 ATGAATAGAA
1 ATGAATAGAA
*
65438786 ATGGATAGAA
1 ATGAATAGAA
65438796 ATGA
1 ATGA
65438800 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (10 bp):
ATGAATAGAA
Found at i:65451970 original size:97 final size:98
Alignment explanation
Indices: 65451851--65452151 Score: 311
Period size: 97 Copynumber: 3.0 Consensus size: 98
65451841 TTTTGAGTAG
* *
65451851 ATTAAGATAATTAGGAGTTTAAAATAAATTAGGATCATTAGAGTTTTAATTTAGATAATATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAATATAATT
* *
65451916 AGAAATTTAATTAATAGGTTAGATAA-ATTTTA
66 AGAAATTTAATTAATAGATTAGATAATATTTAA
* * * ** *
65451948 ATTAAGATAATTGGGATTTTAAATTAAATTAGGATAATTAGAGTTATAATTTATTTAAGATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAATATAATT
* *
65452013 A-ATAATTTAAATTAATATATTTGAAAATATTTTATATTTAA
66 AGA-AATTT-AATTAATAGA-TT--AGATA----ATATTTAA
* * * * *
65452054 ATTAAGATAATTAGGAGTTTAAATTAAACTAGGATTACTAGATTTTTCATTTAGAT-ATGATAAT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAT-ATAAT
* *
65452118 TAGGAATTTAATTAATAGATTGGATAATAATTTA
65 TAGAAATTTAATTAATAGATTAGATAAT-ATTTA
65452152 GATCTGGGAA
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
96 1 0.01
97 63 0.38
98 10 0.06
99 7 0.04
101 4 0.02
102 3 0.02
104 2 0.01
105 11 0.07
106 63 0.38
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.42
Consensus pattern (98 bp):
ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAATATAATT
AGAAATTTAATTAATAGATTAGATAATATTTAA
Found at i:65452106 original size:106 final size:105
Alignment explanation
Indices: 65451942--65452134 Score: 251
Period size: 106 Copynumber: 1.8 Consensus size: 105
65451932 GGTTAGATAA
* * * * * **
65451942 ATTTTAATTAAGATAATTGGGATTTTAAATTAAATTAGGATAATTAGAGTTATAATTTATTTAAG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAACTAGAGTTATAATTTAGATAAG
*
65452007 ATAATTAATAATTTAAATTAATATATTTGAAAATATTTTAT
66 ATAATTAAGAATTT-AATTAATATATTTGAAAATATTTTAT
* * * * *
65452048 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATTACTAGATTTTTCATTTAGATATG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAACTAGAGTTATAATTTAGATAAG
*
65452113 ATAATTAGGAATTTAATTAATA
66 ATAATTAAGAATTTAATTAATA
65452135 GATTGGATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
105 8 0.11
106 65 0.89
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (105 bp):
ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAACTAGAGTTATAATTTAGATAAG
ATAATTAAGAATTTAATTAATATATTTGAAAATATTTTAT
Found at i:65456936 original size:26 final size:26
Alignment explanation
Indices: 65456907--65456984 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 26
65456897 ATTATTAAAA
65456907 TAAAATTAAAATATTAAATAATTTAT
1 TAAAATTAAAATATTAAATAATTTAT
65456933 TAAAATAATAAATTATATT-AATAATTTAT
1 TAAAAT--TAAA--ATATTAAATAATTTAT
*
65456962 TATATGATT-AAATA-TAAATAATT
1 TA-A-AATTAAAATATTAAATAATT
65456985 AAATATGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
28 6 0.14
29 13 0.30
30 6 0.14
31 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAAATTAAAATATTAAATAATTTAT
Found at i:65456963 original size:16 final size:16
Alignment explanation
Indices: 65456917--65456966 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
65456907 TAAAATTAAA
65456917 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
65456934 A-A--AATAATAAATT
1 ATATTAATAATTTATT
65456947 ATATTAATAATTTATT
1 ATATTAATAATTTATT
65456963 ATAT
1 ATAT
65456967 GATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:65460308 original size:11 final size:11
Alignment explanation
Indices: 65460294--65460319 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65460284 TGGAATTTTC
65460294 TATTGTATTAT
1 TATTGTATTAT
65460305 TATTGTATTAT
1 TATTGTATTAT
65460316 TATT
1 TATT
65460320 CATAGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TATTGTATTAT
Found at i:65460710 original size:42 final size:42
Alignment explanation
Indices: 65460661--65460760 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
65460651 TTCGGTTTAG
* * * *
65460661 CCGATGATGTACTTACTTGCTAGTATAATTGCTTCGGTATAT
1 CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
** *
65460703 CTTATGATGCACTTGCGTGCTAGTATAATTACTTCGATATAT
1 CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
65460745 CCGATGATGCACTTAC
1 CCGATGATGCACTTAC
65460761 ATGCCAGAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
Found at i:65461756 original size:23 final size:23
Alignment explanation
Indices: 65461726--65461771 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65461716 GTCTAAAAAA
65461726 CTATTCGTTATATGCTATAGCAT
1 CTATTCGTTATATGCTATAGCAT
65461749 CTATTCGTTATATGCTATAGCAT
1 CTATTCGTTATATGCTATAGCAT
65461772 GACAAGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (23 bp):
CTATTCGTTATATGCTATAGCAT
Found at i:65505345 original size:13 final size:11
Alignment explanation
Indices: 65505317--65505359 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
65505307 AGTTAAATAT
65505317 TATTTTATTAA
1 TATTTTATTAA
65505328 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
65505341 TA-TTTATTAT
1 TATTTTATTAA
65505351 TATTTTATT
1 TATTTTATT
65505360 TTGAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:65510915 original size:247 final size:247
Alignment explanation
Indices: 65510481--65511221 Score: 1200
Period size: 247 Copynumber: 3.0 Consensus size: 247
65510471 ACCAAGAACC
* * * * * *
65510481 TTCTAATAGATCAATTTTGAGTTGGAATATCTATTGAATTGTGGATTTCCTCTT-AGAATTCAAG
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCT-TTCAAAATTCAAG
* *
65510545 A--TACCATTAAAGCACCTTAAGCTTTTGAAGACGATAACATTAATAAAAAATCATGCAATTATC
65 ATCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATC
* *
65510608 TCTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAATTTTAGAAATAATAATTACCTTT
130 ACTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTT
*
65510673 GATTCGTTCTAAATCCTTTGATTGGAAATCTTGATTCAAGAATCTTGAGAAAT
195 GATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
65510726 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* *
65510791 TCTACCACTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATAATGCAATTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
* * *
65510856 CTCAAATAATGTAAATATGCTTCTAATCATTATGAAAATAAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
* *
65510921 ATTCTTTCTAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
* * *
65510973 TTCTAATAGATCCATATTGAGTTGGAACATCCATTGATTTGTCGATTTCCTCTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* * * **
65511038 TCCACCATTAAAGCACCTTAAACTTTTGAAGAAGATGACATTAATAAAGAATCATGCAGCTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
*
65511103 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATCAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
*
65511168 ATTCGTTCTAAATCCTTTCATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
65511220 TT
1 TT
65511222 TAGAATATTT
Statistics
Matches: 458, Mismatches: 35, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
244 2 0.00
245 56 0.12
247 400 0.87
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (247 bp):
TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
Found at i:65512767 original size:17 final size:18
Alignment explanation
Indices: 65512737--65512770 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65512727 GTCTATTAGG
65512737 TTAATTTAGGTTAATAAT
1 TTAATTTAGGTTAATAAT
*
65512755 TTAA-TTAGTTTAATAA
1 TTAATTTAGGTTAATAA
65512771 ATACTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTAATTTAGGTTAATAAT
Found at i:65522696 original size:9 final size:9
Alignment explanation
Indices: 65522673--65522715 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
65522663 GTGATAGAGA
*
65522673 AATAAGAGT
1 AATAATAGT
65522682 AATAATAGT
1 AATAATAGT
**
65522691 AATAATAAA
1 AATAATAGT
65522700 AATAATAGT
1 AATAATAGT
65522709 AATAATA
1 AATAATA
65522716 AAATGATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (9 bp):
AATAATAGT
Found at i:65522703 original size:18 final size:18
Alignment explanation
Indices: 65522682--65522718 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
65522672 AAATAAGAGT
65522682 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
65522700 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
65522718 A
1 A
65522719 TGATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAGTAATAATAAA
Found at i:65536486 original size:17 final size:17
Alignment explanation
Indices: 65536460--65536497 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
65536450 TATATATTGT
*
65536460 ATATTTAACACAAATAA
1 ATATTCAACACAAATAA
65536477 ATATTCAACACAAATAA
1 ATATTCAACACAAATAA
65536494 ATAT
1 ATAT
65536498 CAAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTCAACACAAATAA
Found at i:65536860 original size:24 final size:24
Alignment explanation
Indices: 65536833--65536878 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
65536823 TACTCATACA
*
65536833 TTGCTTTGTTCCATCATCTCAACT
1 TTGCCTTGTTCCATCATCTCAACT
**
65536857 TTGCCTTGTTTTATCATCTCAA
1 TTGCCTTGTTCCATCATCTCAA
65536879 AATATCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.09, T:0.48
Consensus pattern (24 bp):
TTGCCTTGTTCCATCATCTCAACT
Found at i:65542982 original size:84 final size:84
Alignment explanation
Indices: 65542877--65543042 Score: 305
Period size: 84 Copynumber: 2.0 Consensus size: 84
65542867 TAATTGTTAG
*
65542877 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTTGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
65542942 GGCCATAAGGTAATTAGAC
66 GGCCATAAGGTAATTAGAC
* *
65542961 AAGTGTATTATGAAAATGTTGATATATCAAGACTTGCTGTCCTTGATTTTCGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
65543026 GGCCATAAGGTAATTAG
66 GGCCATAAGGTAATTAG
65543043 CCCTTGTCTA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (84 bp):
AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
GGCCATAAGGTAATTAGAC
Found at i:65546746 original size:17 final size:18
Alignment explanation
Indices: 65546724--65546769 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
65546714 GGCTGTTCTA
65546724 GTGAGCTTGCA-GTCTTG
1 GTGAGCTTGCATGTCTTG
* * *
65546741 GTGAGCTCGCATTTTTTG
1 GTGAGCTTGCATGTCTTG
65546759 GTGAGCTTGCA
1 GTGAGCTTGCA
65546770 CATTGGGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (18 bp):
GTGAGCTTGCATGTCTTG
Found at i:65551733 original size:15 final size:15
Alignment explanation
Indices: 65551701--65551729 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65551691 ATTTTCTGTG
65551701 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
65551716 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
65551730 ATTTTCGTGA
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:65553692 original size:22 final size:23
Alignment explanation
Indices: 65553667--65553726 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
65553657 TGGACTGAAT
65553667 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
65553689 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
65553711 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
65553727 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:65553694 original size:4 final size:4
Alignment explanation
Indices: 65553676--65553709 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
65553666 TATAAAAATT
65553676 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
65553710 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:65559309 original size:23 final size:24
Alignment explanation
Indices: 65559283--65559333 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
65559273 AAATGGAAAG
65559283 AAGGAAAT-AAGGGA-AGAAAAGAA
1 AAGGAAATCAAGGGAGA-AAAAGAA
*
65559306 AAGG-AATCAATGGAGAAAAAGAA
1 AAGGAAATCAAGGGAGAAAAAGAA
65559329 AAGGA
1 AAGGA
65559334 TGGGGGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.12
23 20 0.83
24 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.29, T:0.06
Consensus pattern (24 bp):
AAGGAAATCAAGGGAGAAAAAGAA
Found at i:65567021 original size:30 final size:30
Alignment explanation
Indices: 65566965--65567022 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
65566955 CACGGCTAGG
* *
65566965 ACACACGAGCGTGTGCTTTACCCGTGTGTC
1 ACACACGAGCGTGTGCATCACCCGTGTGTC
* *
65566995 ACACACGAGCGTGTGGATCACTCGTGTG
1 ACACACGAGCGTGTGCATCACCCGTGTG
65567023 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACACGAGCGTGTGCATCACCCGTGTGTC
Found at i:65571898 original size:17 final size:17
Alignment explanation
Indices: 65571876--65571917 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65571866 AGAGCTCGCA
*
65571876 GGTGAGCTC-TCATGCTT
1 GGTGAGCTCGTAATG-TT
*
65571893 GGTGAGTTCGTAATGTT
1 GGTGAGCTCGTAATGTT
65571910 GGTGAGCT
1 GGTGAGCT
65571918 GTCCTGGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (17 bp):
GGTGAGCTCGTAATGTT
Found at i:65571971 original size:17 final size:15
Alignment explanation
Indices: 65571949--65571991 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
65571939 GTAGTTTGTA
65571949 GGTGAGCTCACAGTCTT
1 GGTGAGCTCACA-T-TT
65571966 GGTGAGCTTGCACATTT
1 GGTGAGC-T-CACATTT
65571983 GGTGAGCTC
1 GGTGAGCTC
65571992 GTAGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 16 0.67
18 2 0.08
19 4 0.17
ACGTcount: A:0.16, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
GGTGAGCTCACATTT
Found at i:65572014 original size:60 final size:60
Alignment explanation
Indices: 65571922--65572069 Score: 190
Period size: 61 Copynumber: 2.5 Consensus size: 60
65571912 TGAGCTGTCC
* * * * *
65571922 TGGTGAGCTTGCAGTTCGTAGTTTGTAGGTGAGCTCACAGTC-TTGGTGAGCTTGCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACA-TCTTTGGTGAGCTTGCACATT
* * *
65571982 TGGTGAGCTCGTAGTTCGCAGTTAGCAAGTGAGCTCGCATCTTTTGGTGAGCTTTCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATC-TTTGGTGAGCTTGCACATT
*
65572043 TGGTGAGCTCACAGTTCGCAGTTAGCA
1 TGGTGAGCTCGCAGTTCGCAGTTAGCA
65572070 GGGATGGTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.03
60 32 0.42
61 42 0.55
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (60 bp):
TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATCTTTGGTGAGCTTGCACATT
Found at i:65572033 original size:18 final size:17
Alignment explanation
Indices: 65572010--65572052 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65572000 CAGTTAGCAA
*
65572010 GTGAGCTCGCATCTTTTG
1 GTGAGCTCGCA-CATTTG
**
65572028 GTGAGCTTTCACATTTG
1 GTGAGCTCGCACATTTG
65572045 GTGAGCTC
1 GTGAGCTC
65572053 ACAGTTCGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.37
Consensus pattern (17 bp):
GTGAGCTCGCACATTTG
Found at i:65572750 original size:27 final size:23
Alignment explanation
Indices: 65572720--65572776 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 23
65572710 GACAAACAAT
65572720 ATAAATTTAAGAGTTAAAAAAGATAAA
1 ATAAATTTAA-A--TAAAAAA-ATAAA
*
65572747 ATAAA-TTAAATAAAAAATTAAA
1 ATAAATTTAAATAAAAAAATAAA
65572769 ATAAATTT
1 ATAAATTT
65572777 TTTATAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.32
23 9 0.32
25 1 0.04
26 4 0.14
27 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAATTTAAATAAAAAAATAAA
Found at i:65586502 original size:29 final size:27
Alignment explanation
Indices: 65586443--65586531 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 27
65586433 ATAGCCATAG
* *
65586443 AGGC-TTCCTTTACAGAGATTGCTACAG
1 AGGCTTTCCTTTA-AGAGATTGCCACAA
*
65586470 AGGCTTTCCTTTGATAGAGATTACCACAA
1 AGGCTTTCCTTT-A-AGAGATTGCCACAA
65586499 AGGCGTTTCCTTTAAGAGATTTGCCACAA
1 AGGC-TTTCCTTTAAGAGA-TTGCCACAA
65586528 AGGC
1 AGGC
65586532 ATTCTTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.08
28 12 0.23
29 29 0.55
30 8 0.15
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGCTTTCCTTTAAGAGATTGCCACAA
Found at i:65586671 original size:22 final size:22
Alignment explanation
Indices: 65586628--65586671 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
65586618 GCTTTCCTTT
* *
65586628 ACATCCAGTATTCGACATAAAG
1 ACATCCAGTACTCGACACAAAG
65586650 ACATCCAGTACTC-ACCACAAAG
1 ACATCCAGTACTCGA-CACAAAG
65586672 GCTTTCCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.18
Consensus pattern (22 bp):
ACATCCAGTACTCGACACAAAG
Found at i:65591144 original size:14 final size:15
Alignment explanation
Indices: 65591115--65591254 Score: 67
Period size: 16 Copynumber: 9.1 Consensus size: 15
65591105 TTAGTAAAAA
65591115 AAGAATATATACATAAT
1 AAGAATATAT--ATAAT
65591132 AA-AATATATATAA-
1 AAGAATATATATAAT
65591145 AAGAATATATA-AGA-
1 AAGAATATATATA-AT
* *
65591159 AA-AATAAATATTAT
1 AAGAATATATATAAT
*
65591173 AAGGAATGTTATATAAT
1 AA-GAAT-ATATATAAT
*
65591190 AAGATATAGTATGTAAT
1 AAGA-ATA-TATATAAT
*
65591207 AA-AATATAAATAAT
1 AAGAATATATATAAT
* * *
65591221 TATAATGAAATATAAT
1 AAGAAT-ATATATAAT
* *
65591237 ATGGTATATATATAAT
1 A-AGAATATATATAAT
65591253 AA
1 AA
65591255 TAGTAATAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
13 11 0.12
14 24 0.26
15 6 0.06
16 29 0.31
17 23 0.25
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.33
Consensus pattern (15 bp):
AAGAATATATATAAT
Found at i:65591154 original size:16 final size:16
Alignment explanation
Indices: 65591113--65591155 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
65591103 AATTAGTAAA
65591113 AAAAGAATATATACAT
1 AAAAGAATATATACAT
65591129 AATAA-AATATAT--AT
1 AA-AAGAATATATACAT
65591143 AAAAGAATATATA
1 AAAAGAATATATA
65591156 AGAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.08
14 11 0.46
16 9 0.38
17 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAAGAATATATACAT
Found at i:65592244 original size:51 final size:51
Alignment explanation
Indices: 65592175--65592272 Score: 196
Period size: 51 Copynumber: 1.9 Consensus size: 51
65592165 TAGATCAAAG
65592175 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATCAAGC
1 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATCAAGC
65592226 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATC
1 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATC
65592273 CTTGATTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (51 bp):
AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATCAAGC
Found at i:65594358 original size:18 final size:19
Alignment explanation
Indices: 65594335--65594375 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
65594325 GCCTCTCCAT
*
65594335 TTTTCTCTTTTTT-TTTTA
1 TTTTCTATTTTTTGTTTTA
*
65594353 TTTTCTATTTTTTGTTTTC
1 TTTTCTATTTTTTGTTTTA
65594372 TTTT
1 TTTT
65594376 GATTTTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTCTATTTTTTGTTTTA
Found at i:65594363 original size:25 final size:25
Alignment explanation
Indices: 65594335--65594382 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
65594325 GCCTCTCCAT
* *
65594335 TTTTCTCTTTTTTTTTTATTTTCTA
1 TTTTCTCTTTTCTTTTGATTTTCTA
* *
65594360 TTTTTTGTTTTCTTTTGATTTTC
1 TTTTCTCTTTTCTTTTGATTTTC
65594383 GAAACCTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTCTCTTTTCTTTTGATTTTCTA
Found at i:65599859 original size:39 final size:40
Alignment explanation
Indices: 65599749--65599971 Score: 271
Period size: 39 Copynumber: 5.7 Consensus size: 40
65599739 GCTCCTCGTT
* * * *
65599749 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
65599789 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
65599829 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
65599868 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
65599907 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
65599948 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65599972 CAACATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 89 0.53
40 66 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:65599860 original size:79 final size:79
Alignment explanation
Indices: 65599749--65599971 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 79
65599739 GCTCCTCGTT
* *
65599749 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCACACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCACACAAATGCCTTCGGGACTTAGCCCG
*
65599813 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
65599829 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCACACAAATGCCTTCGGGACTTAGCCCGG
*
65599892 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * *
65599907 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTT-AGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCA-CACAAATGCCTTCGGGACTTAGCC
65599968 CGGA
62 CGGA
65599972 CAACATTCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
78 47 0.37
79 56 0.44
80 22 0.17
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCACACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:65607815 original size:79 final size:78
Alignment explanation
Indices: 65607713--65607935 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
65607703 GCTCCTCGTT
* *
65607713 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
65607778 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
65607793 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
65607856 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
65607871 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
65607934 GA
63 GA
65607936 CAACATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:65607830 original size:39 final size:40
Alignment explanation
Indices: 65607713--65607935 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
65607703 GCTCCTCGTT
* *
65607713 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
65607753 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
65607793 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
65607832 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
65607871 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
65607912 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65607936 CAACATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:65618886 original size:44 final size:44
Alignment explanation
Indices: 65618823--65618907 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
65618813 AAAGTGACTT
65618823 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATTTTG
1 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATTTTG
*
65618867 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCATCCGATT
1 CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATT
65618908 AAGCTTCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (44 bp):
CTGGATAGAGTGATAAGACTCTAATAAGGTTCCAACCGATTTTG
Found at i:65623669 original size:28 final size:28
Alignment explanation
Indices: 65623636--65623697 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 28
65623626 TTGAAGAAAG
65623636 AAAAAAAAA-TTATTTTAAGAAACTCAT
1 AAAAAAAAATTTATTTTAAGAAACTCAT
65623663 AAGAAAAAAATTTATTTTAAGAAACTCAT
1 AA-AAAAAAATTTATTTTAAGAAACTCAT
65623692 AAAAAA
1 AAAAAA
65623698 TGACAAAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 2 0.06
28 11 0.33
29 20 0.61
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAAAAAATTTATTTTAAGAAACTCAT
Found at i:65633074 original size:17 final size:17
Alignment explanation
Indices: 65633054--65633090 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
65633044 CATTTCGATT
65633054 TACACATTATTGAAGGC
1 TACACATTATTGAAGGC
65633071 TACACATTATTGAAGGC
1 TACACATTATTGAAGGC
65633088 TAC
1 TAC
65633091 GTCATGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (17 bp):
TACACATTATTGAAGGC
Found at i:65633185 original size:46 final size:46
Alignment explanation
Indices: 65633135--65633222 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
65633125 CCAGGGGTCT
*
65633135 TAACCACATGGTTTTACATACATTCTTTCAGTCATTTCATATATTG
1 TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATATTG
* *
65633181 TAACCACATGTTTTTACATTCATTCATTCAGTCATTTCATAT
1 TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATAT
65633223 CTTGCCATGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (46 bp):
TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATATTG
Found at i:65633283 original size:54 final size:56
Alignment explanation
Indices: 65633181--65633317 Score: 181
Period size: 54 Copynumber: 2.5 Consensus size: 56
65633171 TCATATATTG
* * *
65633181 TAACCACATGTTTTTACATTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
1 TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
* * *
65633237 TAACCACATGGTCTTAC-GTCATTCATTTAGTCGTTTC-TATCTTGCCATGGGTCT
1 TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
*
65633291 TAACCACATGGTCTGACA-TACATTCAT
1 TAACCACATGGTCTTACAGT-CATTCAT
65633318 GTATTGTGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
54 33 0.46
55 24 0.33
56 15 0.21
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (56 bp):
TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
Found at i:65634596 original size:20 final size:20
Alignment explanation
Indices: 65634571--65634608 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65634561 TTTGAACCCT
65634571 TAGACTTCTACCAATACAGG
1 TAGACTTCTACCAATACAGG
*
65634591 TAGACTTCTACCACTACA
1 TAGACTTCTACCAATACA
65634609 TCGAGCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (20 bp):
TAGACTTCTACCAATACAGG
Found at i:65635996 original size:27 final size:27
Alignment explanation
Indices: 65635963--65636015 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
65635953 ATCATGTTCA
65635963 AAGAATACAGGTAATTAGAATCCCAAT
1 AAGAATACAGGTAATTAGAATCCCAAT
65635990 AAGAATACAGGTAATTAGAATCCCAA
1 AAGAATACAGGTAATTAGAATCCCAA
65636016 GTACTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (27 bp):
AAGAATACAGGTAATTAGAATCCCAAT
Found at i:65636825 original size:105 final size:105
Alignment explanation
Indices: 65636643--65636855 Score: 383
Period size: 105 Copynumber: 2.0 Consensus size: 105
65636633 AAGTTTGTAT
*
65636643 GTTACCCCCACACTTTATTTGTCACATTGTCCCTATGGTGCACCCAACAATAAATAAGAGAAAAG
1 GTTACCCCCACACTTTATTTGTCACATTGTCCCTATGGTGCACCCAAAAATAAATAAGAGAAAAG
*
65636708 ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTTG
66 ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
*
65636748 GTTACCCCTACACTTTATTTGTCACATTGTCCCTAAT-GTGCACCCAAAAATAAATAAGAGAAAA
1 GTTACCCCCACACTTTATTTGTCACATTGTCCCT-ATGGTGCACCCAAAAATAAATAAGAGAAAA
65636812 GACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
65 GACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
65636853 GTT
1 GTT
65636856 GTTGTCCTTT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 102 0.98
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (105 bp):
GTTACCCCCACACTTTATTTGTCACATTGTCCCTATGGTGCACCCAAAAATAAATAAGAGAAAAG
ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
Found at i:65655365 original size:46 final size:45
Alignment explanation
Indices: 65655277--65655405 Score: 134
Period size: 46 Copynumber: 2.8 Consensus size: 45
65655267 ACCTCTCACA
* * *
65655277 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCTTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TATGTCTCAAG
* * * *
65655323 GGCGATGCATGTCCTAAACATGTCTTACACTAGC-ACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTA-T-GTCTCAAG
*
65655369 GCCGATGCCATGTCCCAGACATTATCTTACACTAGCT
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCT
65655406 CTCATAATGT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 41 0.61
47 11 0.16
48 13 0.19
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATGTCTCAAG
Found at i:65664215 original size:290 final size:290
Alignment explanation
Indices: 65663695--65664274 Score: 1115
Period size: 290 Copynumber: 2.0 Consensus size: 290
65663685 TGCAGTTCTG
65663695 CCAACAAACTTCCATCGTCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
1 CCAACAAACTTCCATCGTCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
65663760 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTGGGTGGTACTCTATCGAACAGTCGTA
66 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTGGGTGGTACTCTATCGAACAGTCGTA
* * *
65663825 GTCTTTAAGCAACTCCACCCATCTACGTTGCTTGAGGTTCAACTCCTTCTGAGTCAATAGATACT
131 GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAACAGATACT
65663890 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGTCTCCAAATTTTT
196 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGTCTCCAAATTTTT
65663955 AACGCAAAAATCACCGCTGCTAGCTCCAAA
261 AACGCAAAAATCACCGCTGCTAGCTCCAAA
* *
65663985 CCAACAAGCTTCCATCGTCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATTAGTAACAACC
1 CCAACAAACTTCCATCGTCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
65664050 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTGGGTGGTACTCTATCGAACAGTCGTA
66 CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTGGGTGGTACTCTATCGAACAGTCGTA
65664115 GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAACAGATACT
131 GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAACAGATACT
65664180 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGTCTCCAAATTTTT
196 TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGTCTCCAAATTTTT
65664245 AACGCAAAAATCACCGCTGCTAGCTCCAAA
261 AACGCAAAAATCACCGCTGCTAGCTCCAAA
65664275 TCATGCGTAG
Statistics
Matches: 285, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 285 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (290 bp):
CCAACAAACTTCCATCGTCGTACAGACTTAATCGTGCGAACAAGGCTCTCAAATCAGTAACAACC
CTTCGACTCAACGCATCCGCCACCACATTAGCCTTTCCTGGGTGGTACTCTATCGAACAGTCGTA
GTCTTTAAACAACTCCACCCATCTACGTTGCCTGAGGTTCAACTCCTTCTGAGTCAACAGATACT
TTAAGCTTTTATGATCTGTGTATATGATGCACTTTTCCCCATATAAGTAGTGTCTCCAAATTTTT
AACGCAAAAATCACCGCTGCTAGCTCCAAA
Found at i:65687692 original size:25 final size:25
Alignment explanation
Indices: 65687663--65687726 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
65687653 ACAAACGCAG
65687663 TCCTGATATAGGCTCTTTATGAGCA
1 TCCTGATATAGGCTCTTTATGAGCA
*
65687688 TCCTGATATAGGCTCTTTATGAGCT
1 TCCTGATATAGGCTCTTTATGAGCA
*
65687713 TCCTGACAT-GGCTC
1 TCCTGATATAGGCTC
65687727 ACTTGAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
24 5 0.14
25 32 0.86
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (25 bp):
TCCTGATATAGGCTCTTTATGAGCA
Found at i:65706831 original size:46 final size:46
Alignment explanation
Indices: 65706666--65706834 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
65706656 AACCCGCCCT
* * * * **
65706666 TAAGTGAACTTGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTTCATCCA
* *
65706712 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTTCAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CAT--TTTCATCCA
* *
65706760 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCA
65706805 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
65706835 TAGATGCTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 6 0.06
46 52 0.50
47 29 0.28
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCA
Found at i:65706841 original size:93 final size:93
Alignment explanation
Indices: 65706671--65706841 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
65706661 GCCCTTAAGT
* * *
65706671 GAACTTGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
65706736 CGAGTTCGGATGCCTGGTTTCATCTCAC
66 CGAGTTCAGATGCCTGGTTTCATCTCAC
* ** *
65706764 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTTCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
65706828 ACGAGTTTAGATGC
65 ACGAGTTCAGATGC
65706842 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTGGTTTCATCTCAC
Found at i:65706857 original size:46 final size:45
Alignment explanation
Indices: 65706764--65706849 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
65706754 TTCATCTCAC
** *
65706764 GAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GACATGCTCAACCATAAGT
* *
65706810 GAACTCGGACTCAACTCAACGAGTT-TAGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGACATGCTCAACCAT
65706850 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
46 25 0.71
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGACATGCTCAACCATAAGT
Found at i:65709529 original size:26 final size:24
Alignment explanation
Indices: 65709491--65709568 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
65709481 GACTCACCAT
*
65709491 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTACCG-T-TATC
* *
65709517 AGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGTAAGAGCTTACCGTTATC
* * *
65709541 AGCTTGTTAGAGCTTACCATT-TC
1 AGCTCGTAAGAGCTTACCGTTATC
65709564 AGCTC
1 AGCTC
65709569 AATAGAGCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 6 0.14
24 20 0.45
25 1 0.02
26 17 0.39
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCGTTATC
Found at i:65709777 original size:20 final size:20
Alignment explanation
Indices: 65709752--65709837 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
65709742 AAAAGCTATG
*
65709752 TGTTTATACGGATGAATTAC
1 TGTTTATACGGATGAATTAT
* * *
65709772 TGTTTATATGGATGAAGTAA
1 TGTTTATACGGATGAATTAT
* *
65709792 TGTTTATACAGATGAGTTAT
1 TGTTTATACGGATGAATTAT
*
65709812 TG-TTAT-CGAATGAATTAT
1 TGTTTATACGGATGAATTAT
65709830 TGTTTATA
1 TGTTTATA
65709838 TGATTGATAG
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.21
19 8 0.15
20 34 0.64
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (20 bp):
TGTTTATACGGATGAATTAT
Found at i:65711778 original size:25 final size:25
Alignment explanation
Indices: 65711741--65711804 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
65711731 ACAGATGTGG
* *
65711741 TAATCAGAGAGCACTAACATGCTAA
1 TAATCAAAAAGCACTAACATGCTAA
* **
65711766 TAATCAAAAAGCACTGATGTGCTAA
1 TAATCAAAAAGCACTAACATGCTAA
*
65711791 TAATCAAATAGCAC
1 TAATCAAAAAGCAC
65711805 GCTAAGGTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (25 bp):
TAATCAAAAAGCACTAACATGCTAA
Found at i:65713325 original size:12 final size:13
Alignment explanation
Indices: 65713269--65713322 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 13
65713259 TCTTTAATTT
65713269 ATAATAATAATAATA
1 ATAAT-ATAAT-ATA
* *
65713284 ATAATATCAATGTC
1 ATAATAT-AATATA
65713298 ATAATATAA-ATA
1 ATAATATAATATA
65713310 ATAATATAATATA
1 ATAATATAATATA
65713323 TAAATATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 10 0.30
13 5 0.15
14 10 0.30
15 8 0.24
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:65713456 original size:20 final size:18
Alignment explanation
Indices: 65713431--65713467 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
65713421 ATAAATTTAT
65713431 TTATTTCATAATATAATATC
1 TTATTT-ATAAT-TAATATC
65713451 TTATTTATAATTAATAT
1 TTATTTATAATTAATAT
65713468 AAATTACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTATAATTAATATC
Found at i:65714622 original size:42 final size:42
Alignment explanation
Indices: 65714573--65714687 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
65714563 ACTGAGATTA
* *
65714573 CATGTAAGACCATATTTGGGATATGGCATTAATACAAGACTT
1 CATGTAAGACCATATCTGGGATATGCCATTAATACAAGACTT
* * * ** * *
65714615 CGTGTAAGACCATAGCTGGGCTATTGCCATCGATACGAGATTT
1 CATGTAAGACCATATCTGGGATA-TGCCATTAATACAAGACTT
*
65714658 CATGTAAGACCATATCTAGGATATGCCATT
1 CATGTAAGACCATATCTGGGATATGCCATT
65714688 GTTATTGTAC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGCCATTAATACAAGACTT
Found at i:65716224 original size:41 final size:41
Alignment explanation
Indices: 65716144--65716225 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
65716134 AAGGGCCAAC
**
65716144 ACATTTAGCTAATCAATATGACACATAATAAAAGGACTAAG
1 ACATTTAGCTAATCAATATGACACATAATAAAAAAACTAAG
*
65716185 ACATTTAGCTAATCAATATGATACATAATAAAAAAACTAAG
1 ACATTTAGCTAATCAATATGACACATAATAAAAAAACTAAG
65716226 TCCTTATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (41 bp):
ACATTTAGCTAATCAATATGACACATAATAAAAAAACTAAG
Found at i:65724862 original size:27 final size:27
Alignment explanation
Indices: 65724794--65724864 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
65724784 TAATCAGCAT
* *
65724794 ATAGCCATGGGTAAATATGATCGACAC
1 ATAGCCATAGGTAAATATGATAGACAC
* *
65724821 AAAGTCC-TCA-ATAAATATGATAGACAC
1 ATAG-CCAT-AGGTAAATATGATAGACAC
65724848 ATAGCCATAGGTAAATA
1 ATAGCCATAGGTAAATA
65724865 CAATTGGCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
26 3 0.09
27 29 0.85
28 2 0.06
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
ATAGCCATAGGTAAATATGATAGACAC
Found at i:65724918 original size:22 final size:22
Alignment explanation
Indices: 65724869--65724927 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
65724859 TAAATACAAT
65724869 TGGCACAAAGCCATAGTCAGGA
1 TGGCACAAAGCCATAGTCAGGA
* * * *
65724891 TAGCACAAAGCCATATTTAGGC
1 TGGCACAAAGCCATAGTCAGGA
*
65724913 TGGCACAGAGCCATA
1 TGGCACAAAGCCATA
65724928 AATAGATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAGGA
Found at i:65728937 original size:43 final size:42
Alignment explanation
Indices: 65728880--65729028 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 42
65728870 CATTGCCATA
* ** *
65728880 TCCCAGATATGGTCTTACATGTTATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCAAATA-CGATGCCAATG
* * * *
65728923 TCCCAGACAGGGTCTTATATGAAATTATATACGATGCCAATG
1 TCCCAGACATGGTCTTACATGAAATCAAATACGATGCCAATG
* * * **
65728965 TCCTAGACATGGTCTTACACGTAAATCTCAAAT-CAATGCTGATG
1 TCCCAGACATGGTCTTACATG-AAA--TCAAATACGATGCCAATG
65729009 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
65729029 AATATCACAT
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
42 27 0.32
43 27 0.32
44 26 0.31
45 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCAAATACGATGCCAATG
Found at i:65732615 original size:39 final size:40
Alignment explanation
Indices: 65732519--65732742 Score: 268
Period size: 39 Copynumber: 5.7 Consensus size: 40
65732509 TTTGAATGAT
*
65732519 TTCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA
*
65732557 TATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 T-TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
65732598 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
*
65732637 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
* *
65732676 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-A
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAA
* *
65732715 TAACCGGGCTATGTCCCGAAGGCATTTG
1 T-TCCGGGCTAAGTCCCGAAGGCATTTG
65732743 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 93 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:65732706 original size:79 final size:81
Alignment explanation
Indices: 65732520--65732742 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
65732510 TTGAATGATT
* * *
65732520 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
65732582 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
65732599 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
65732660 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
65732677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
65732741 TG
66 TG
65732743 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:65732773 original size:79 final size:79
Alignment explanation
Indices: 65732572--65732775 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
65732562 GGACTAAGAT
** * * *
65732572 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACT
*
65732635 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
65732650 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
65732714 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
65732730 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GTTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
65732776 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 34 0.32
79 47 0.44
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:65741444 original size:27 final size:27
Alignment explanation
Indices: 65741414--65741591 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65741404 ATATTGAGTC
* * *
65741414 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
65741441 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
65741468 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
65741496 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
65741523 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
65741550 CGCACACTTAGTGCAACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
65741577 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65741592 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:65741553 original size:82 final size:81
Alignment explanation
Indices: 65741435--65741590 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65741425 TGCTATATAA
* *
65741435 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AACTCGCA
65741500 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65741517 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCA
65741581 CACTTAGTGC
65 CACTTAGTGC
65741591 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 19 0.28
82 48 0.72
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:65750488 original size:39 final size:40
Alignment explanation
Indices: 65750392--65750615 Score: 259
Period size: 39 Copynumber: 5.7 Consensus size: 40
65750382 TTTGAATGAT
*
65750392 TTCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA
*
65750430 TATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 T-TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
*
65750471 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGATACTAA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
*
65750510 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
* *
65750549 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-A
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAA
* *
65750588 TAACCGGGCTATGTCCCGAAGGCATTTG
1 T-TCCGGGCTAAGTCCCGAAGGCATTTG
65750616 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:65750637 original size:79 final size:79
Alignment explanation
Indices: 65750393--65750648 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
65750383 TTGAATGATT
* * * *
65750393 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
65750454 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * *
65750472 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
65750536 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
65750550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
65750613 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
65750630 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
65750649 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 68 0.44
80 37 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:65752144 original size:30 final size:30
Alignment explanation
Indices: 65752108--65752168 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
65752098 CAATTTACCC
*
65752108 ATACAAATTATGTAATTAATGAATCTAGTG
1 ATACAAATTATGTAATTAATAAATCTAGTG
65752138 ATACAAATTATGTAATTAATAAATCTAGTG
1 ATACAAATTATGTAATTAATAAATCTAGTG
65752168 A
1 A
65752169 CATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (30 bp):
ATACAAATTATGTAATTAATAAATCTAGTG
Found at i:65783956 original size:93 final size:93
Alignment explanation
Indices: 65783843--65784012 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
65783833 CCCATAAGCA
* *
65783843 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
65783908 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* *
65783936 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
65784001 GAGTTCGGATGC
66 GAGTTCGGATGC
65784013 TCAACTATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:65784009 original size:46 final size:46
Alignment explanation
Indices: 65783834--65784009 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
65783824 TGTAACCCGC
* * * *
65783834 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65783880 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65783930 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65783973 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65784010 TGCTCAACTA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65784028 original size:46 final size:46
Alignment explanation
Indices: 65783843--65784028 Score: 159
Period size: 46 Copynumber: 4.0 Consensus size: 46
65783833 CCCATAAGCA
* ** * *
65783843 AACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-TAAGTG
* *
65783889 AACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT-CTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCCTAAGTG
*** *
65783936 AACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-TAAGTG
*
65783982 AACTCGGACTCAACTCAATGAGTTCGGATGCTCAACTATCCT-AGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC-ATCCTAAGTG
65784028 A
1 A
65784029 CATGTCACTT
Statistics
Matches: 111, Mismatches: 18, Indels: 22
0.74 0.12 0.15
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 62 0.56
47 31 0.28
48 7 0.06
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCTAAGTG
Found at i:65788504 original size:47 final size:47
Alignment explanation
Indices: 65788433--65789166 Score: 1279
Period size: 47 Copynumber: 15.6 Consensus size: 47
65788423 CCCTTCGGGA
* * * * * *
65788433 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65788480 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65788527 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65788574 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65788621 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65788668 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65788715 CTTATCATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65788762 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65788811 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65788858 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65788905 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65788952 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65788999 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65789046 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65789093 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65789140 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65789167 TATTCAAATA
Statistics
Matches: 657, Mismatches: 28, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 613 0.93
49 44 0.07
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65788511 original size:25 final size:25
Alignment explanation
Indices: 65788483--65788561 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
65788473 ACTCGGCCCT
65788483 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
65788508 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
65788530 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
65788555 ATCACAT
1 ATCACAT
65788562 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:65793022 original size:14 final size:14
Alignment explanation
Indices: 65793003--65793031 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65792993 TTATATTTTA
65793003 TAGTGATATATTTG
1 TAGTGATATATTTG
65793017 TAGTGATATATTTG
1 TAGTGATATATTTG
65793031 T
1 T
65793032 GTGTGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (14 bp):
TAGTGATATATTTG
Found at i:65800365 original size:25 final size:26
Alignment explanation
Indices: 65800337--65800385 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
65800327 TTGTTAGAAT
65800337 ACATTTTAGAGGTTTTAGG-TTGAAC
1 ACATTTTAGAGGTTTTAGGATTGAAC
65800362 ACATTTTAGAGGTTTTAGGATTGA
1 ACATTTTAGAGGTTTTAGGATTGA
65800386 TTTATAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (26 bp):
ACATTTTAGAGGTTTTAGGATTGAAC
Found at i:65801290 original size:24 final size:24
Alignment explanation
Indices: 65801258--65801306 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
65801248 ATGCATGGTT
*
65801258 ATGTCAATGTAGCA-TTTTCAGAAAA
1 ATGTCAATGCAG-ATTTTTCA-AAAA
65801283 ATGT-AATGCAGATTTTTCAAAAA
1 ATGTCAATGCAGATTTTTCAAAAA
65801306 A
1 A
65801307 CTTCCTTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.27
24 12 0.55
25 4 0.18
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (24 bp):
ATGTCAATGCAGATTTTTCAAAAA
Found at i:65813657 original size:84 final size:85
Alignment explanation
Indices: 65813546--65813721 Score: 336
Period size: 84 Copynumber: 2.1 Consensus size: 85
65813536 TAGTTAAGGT
*
65813546 TTATATTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
1 TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
65813611 GTTTGGGAATGGCTTGCTGA
66 GTTTGGGAATGGCTTGCTGA
65813631 TTATGTTAA-TTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
1 TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
65813695 GTTTGGGAATGGCTTGCTGA
66 GTTTGGGAATGGCTTGCTGA
65813715 TTATGTT
1 TTATGTT
65813722 TGAACTTGGT
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 82 0.91
85 8 0.09
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (85 bp):
TTATGTTAATTTTGGTTACTAAGTTGCGTGCCATGAAGGTATAATATATGTGGTAAGCACTATAT
GTTTGGGAATGGCTTGCTGA
Found at i:65814722 original size:25 final size:25
Alignment explanation
Indices: 65814694--65814744 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65814684 TATAAATGAG
65814694 TTTGACTTGAATGATTATATATATA
1 TTTGACTTGAATGATTATATATATA
65814719 TTTGACTTGAATGATTATATATATA
1 TTTGACTTGAATGATTATATATATA
65814744 T
1 T
65814745 GAATGCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (25 bp):
TTTGACTTGAATGATTATATATATA
Found at i:65816616 original size:25 final size:25
Alignment explanation
Indices: 65816588--65816638 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65816578 TATAAATGAG
65816588 TTTGACTTGAATGATTATATATATA
1 TTTGACTTGAATGATTATATATATA
65816613 TTTGACTTGAATGATTATATATATA
1 TTTGACTTGAATGATTATATATATA
65816638 T
1 T
65816639 GAATGCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (25 bp):
TTTGACTTGAATGATTATATATATA
Found at i:65821692 original size:44 final size:44
Alignment explanation
Indices: 65821616--65821876 Score: 218
Period size: 44 Copynumber: 5.9 Consensus size: 44
65821606 GTCTAAGTGT
* * * *
65821616 AAGCCAAAGTAGCAAACAATCTAAATGCAAGCCAAAAGTGGGTGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCC-AAAGTGGGTGC
* * * * *
65821661 AAGCCAAA-TTGTTGACAGTTTAAGTGCAAGCCAAAGTTGGTGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
* * * * * * **
65821704 AAGCCAAAATAGCAGGCAATCTAAATGCAAGCTAAAGTGGGCAC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
* * * * * * *
65821748 ATGTCAAAGTGGCAGACAATATAAATGCAAGCCAAATTTGGTGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
* * *
65821792 AATCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATGGATGC
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCC-AAAGTGGGTGC
* * * *
65821837 AAGCCAAAGTGGTGGATAGTTTAAGTGCAAGCCAAAGTGG
1 AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGG
65821877 TAGATAGTTT
Statistics
Matches: 169, Mismatches: 45, Indels: 5
0.77 0.21 0.02
Matches are distributed among these distances:
43 18 0.11
44 107 0.63
45 44 0.26
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (44 bp):
AAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAGTGGGTGC
Found at i:65821874 original size:28 final size:27
Alignment explanation
Indices: 65821834--65821928 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 27
65821824 CAAAAATGGA
65821834 TGCAAGCCAAAGTGGTGGATAGTTTAAG
1 TGCAAGCCAAAGTGGT-GATAGTTTAAG
65821862 TGCAAGCCAAAGTGGTAGATAGTTTAAG
1 TGCAAGCCAAAGTGGT-GATAGTTTAAG
* *
65821890 TGCAAGCCAAAGTGGTGATCAGTCTAAA
1 TGCAAGCCAAAGTGGTGAT-AGTTTAAG
*
65821918 TGCAAGTCAAA
1 TGCAAGCCAAA
65821929 AGTAGTGGCA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 3 0.05
28 59 0.95
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (27 bp):
TGCAAGCCAAAGTGGTGATAGTTTAAG
Found at i:65821964 original size:101 final size:101
Alignment explanation
Indices: 65821788--65821973 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 101
65821778 GCCAAATTTG
* * **
65821788 GTGCAATCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATGGATGCAAGCCAAAGTGGTGGA
1 GTGCAAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATAGATGCAAGCCAAAGTGGCAGA
* **
65821853 TAGTTTAAGTGCAAGCCAAAGTGGTAGATAGTTTAA
66 CAGTCCAAGTGCAAGCCAAAGTGGTAGATAGTTTAA
* *
65821889 GTGCAAGCCAAAGTGGT-GATCAGTCTAAATGCAAGTCAAAAGTAG-TGGCAAGCCAAAGTGGCA
1 GTGCAAGCCAAAGTGGTAGA-CAGTCTAAATGCAAGCCAAAAATAGAT-GCAAGCCAAAGTGGCA
*
65821952 GACAGTCCAAGTGGAAGCCAAA
64 GACAGTCCAAGTGCAAGCCAAA
65821974 ATGACGAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
100 3 0.04
101 70 0.96
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (101 bp):
GTGCAAGCCAAAGTGGTAGACAGTCTAAATGCAAGCCAAAAATAGATGCAAGCCAAAGTGGCAGA
CAGTCCAAGTGCAAGCCAAAGTGGTAGATAGTTTAA
Found at i:65825910 original size:49 final size:50
Alignment explanation
Indices: 65825838--65826022 Score: 209
Period size: 49 Copynumber: 3.8 Consensus size: 50
65825828 AGATATGTCA
* * * * * **
65825838 GGCCACT-GGTAGGACATGATAGTTTCTAACCATATTAGTGTATG-TGTTG
1 GGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTG-AAGATGACG
* *
65825887 GGCCA-TAGGTAGGGCATGTTAGTTGCTAACCAGGTTGGTGAAGATGACG
1 GGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGAAGATGACG
* *
65825936 GGCCACTA-GTAGGGCATGTTAGTTGCTAACCAGGTTAGTGAAGATGACA
1 GGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGAAGATGACG
* *
65825985 GGCCACT-GGTAGGGCATGTTAGTTGGTAACCAGCTTAG
1 GGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGATTAG
65826023 CATTATGGTT
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
48 3 0.03
49 114 0.96
50 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (50 bp):
GGCCACTAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGAAGATGACG
Found at i:65829794 original size:18 final size:17
Alignment explanation
Indices: 65829756--65829794 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
65829746 AAGCTAATCT
* *
65829756 GGGCGTGTGGGTCATAC
1 GGGCGTGTGGGCCACAC
65829773 GGGCGTGTGGGCCCACAC
1 GGGCGTGTGGG-CCACAC
65829791 GGGC
1 GGGC
65829795 AAACCATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.10, C:0.26, G:0.49, T:0.15
Consensus pattern (17 bp):
GGGCGTGTGGGCCACAC
Found at i:65837904 original size:18 final size:18
Alignment explanation
Indices: 65837883--65837921 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
65837873 TTTCATTAAG
65837883 TTTTTAAGATTCAATTGT
1 TTTTTAAGATTCAATTGT
* *
65837901 TTTTTGAGATTCATTTGT
1 TTTTTAAGATTCAATTGT
65837919 TTT
1 TTT
65837922 CCTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTTTAAGATTCAATTGT
Found at i:65839337 original size:24 final size:26
Alignment explanation
Indices: 65839286--65839337 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
65839276 ATCAATAGAA
**
65839286 ATTATAAGTTGAGAATAATTTATTTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
65839313 ATTATAAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
65839337 A
1 A
65839338 AGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:65852390 original size:53 final size:52
Alignment explanation
Indices: 65852320--65852435 Score: 187
Period size: 53 Copynumber: 2.2 Consensus size: 52
65852310 TTAACTTATA
* * *
65852320 TAAATCAATAGTGGTTAATTTTTATGACTTTTACGATTTAGTCCTTTTTTTCT
1 TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACC-TTTTTCCT
65852373 TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACCTTTTTCCT
1 TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACCTTTTTCCT
*
65852425 TAAATAAATAG
1 TAAATCAATAG
65852436 ACAAACGACG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 17 0.29
53 42 0.71
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (52 bp):
TAAATCAATAGTGGTTAAGTTTTATGACTTTTACGATTTAGACCTTTTTCCT
Found at i:65853246 original size:16 final size:16
Alignment explanation
Indices: 65853221--65853255 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65853211 AAAATGCGAA
65853221 CCTATCGAAGAGCAAG
1 CCTATCGAAGAGCAAG
*
65853237 CCTATTGAAGAGCAAG
1 CCTATCGAAGAGCAAG
65853253 CCT
1 CCT
65853256 GTCAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (16 bp):
CCTATCGAAGAGCAAG
Found at i:65853263 original size:16 final size:16
Alignment explanation
Indices: 65853221--65853263 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
65853211 AAAATGCGAA
*
65853221 CCTATCGAAGAGCAAG
1 CCTATCAAAGAGCAAG
**
65853237 CCTATTGAAGAGCAAG
1 CCTATCAAAGAGCAAG
*
65853253 CCTGTCAAAGA
1 CCTATCAAAGA
65853264 AAAAGTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (16 bp):
CCTATCAAAGAGCAAG
Found at i:65853358 original size:28 final size:28
Alignment explanation
Indices: 65853326--65853448 Score: 138
Period size: 28 Copynumber: 4.4 Consensus size: 28
65853316 AAGTTGGTGT
* * *
65853326 AAGCCAAAGCGGCAGACAGTTTAAATGC
1 AAGCCAAAGTGGCAGACAATCTAAATGC
* *
65853354 AAGCCAAAAGTGACAGACAATCTAAGTGC
1 AAGCC-AAAGTGGCAGACAATCTAAATGC
* *
65853383 AAGACAAAGTGGCAGACAATCTAAATGT
1 AAGCCAAAGTGGCAGACAATCTAAATGC
** * *
65853411 AAGCCAAAGTGGTGGACATTCTAAATGT
1 AAGCCAAAGTGGCAGACAATCTAAATGC
65853439 AAGCCAAAGT
1 AAGCCAAAGT
65853449 TGGTGCAAGC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 59 0.73
29 22 0.27
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCTAAATGC
Found at i:65853543 original size:16 final size:16
Alignment explanation
Indices: 65853524--65853567 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
65853514 GATAGTTTAA
*
65853524 GTGCAAGTTAAACTTG
1 GTGCAAGTCAAACTTG
65853540 GTGCAAGTCAAACTTG
1 GTGCAAGTCAAACTTG
* *
65853556 GTTCAAGCCAAA
1 GTGCAAGTCAAA
65853568 GTGGCGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (16 bp):
GTGCAAGTCAAACTTG
Found at i:65855771 original size:37 final size:41
Alignment explanation
Indices: 65855730--65855812 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 41
65855720 AATAGTTTAA
*
65855730 TATTAAATTAA-ATTTAA-TAATTATCTT-AATATT-ATTT
1 TATTAAATTAATATTAAAGTAATTATCTTAAATATTAATTT
* *
65855767 TATTAATTTAATATTAAAGTGATTATCTTAAATATTAAATTT
1 TATTAAATTAATATTAAAGTAATTATCTTAAATATT-AATTT
65855809 TATT
1 TATT
65855813 TTGTAGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 10 0.26
38 5 0.13
39 9 0.24
40 6 0.16
42 8 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (41 bp):
TATTAAATTAATATTAAAGTAATTATCTTAAATATTAATTT
Found at i:65855781 original size:11 final size:11
Alignment explanation
Indices: 65855708--65855783 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
65855698 ATTCCAAAAA
*
65855708 TAATATTATTT
1 TAATATTAATT
65855719 TAATAGTTTAATAT
1 TAATA--TTAAT-T
65855733 TAA-ATTAAATT
1 TAATATT-AATT
65855744 TAATAATT-ATCT
1 TAAT-ATTAAT-T
65855756 TAATATT-ATT
1 TAATATTAATT
65855766 T--TATTAATT
1 TAATATTAATT
65855775 TAATATTAA
1 TAATATTAA
65855784 AGTGATTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 2 0.04
11 24 0.44
12 8 0.15
13 8 0.15
14 4 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:65855901 original size:19 final size:20
Alignment explanation
Indices: 65855877--65855914 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
65855867 ATTTATCAAA
65855877 ATAAATA-TTATATTAATTG
1 ATAAATATTTATATTAATTG
65855896 ATAAATATTTATATTAATT
1 ATAAATATTTATATTAATT
65855915 TAATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATAAATATTTATATTAATTG
Found at i:65856233 original size:15 final size:15
Alignment explanation
Indices: 65856213--65856242 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65856203 AGACTACTCG
65856213 GTTTTGGAAAATTTT
1 GTTTTGGAAAATTTT
65856228 GTTTTGGAAAATTTT
1 GTTTTGGAAAATTTT
65856243 TAAAGCTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
GTTTTGGAAAATTTT
Found at i:65869140 original size:25 final size:25
Alignment explanation
Indices: 65869108--65869159 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
65869098 GTTTATCTTG
* *
65869108 TAAGTAAATATTATATT-ATTTTAA
1 TAAGTAAATATTAGATTAAATTTAA
*
65869132 TAAGATAAATGTTAGATTAAATTTAA
1 TAAG-TAAATATTAGATTAAATTTAA
65869158 TA
1 TA
65869160 TTAAAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (25 bp):
TAAGTAAATATTAGATTAAATTTAA
Found at i:65870933 original size:28 final size:28
Alignment explanation
Indices: 65870901--65870996 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
65870891 AAAGTCCAAG
* *
65870901 TGCAAGCCAAAGGGACGGATAGTCTAAA
1 TGCAAGCCAAAGGGACGGACAATCTAAA
* * *
65870929 TGCAAGCCAATGTGG-TGGACAATCTAAG
1 TGCAAGCCAAAG-GGACGGACAATCTAAA
* *
65870957 TGCAAGCCAAA-GTAGCAGACAATCTAAA
1 TGCAAGCCAAAGGGA-CGGACAATCTAAA
65870985 TGCAAGCCAAAG
1 TGCAAGCCAAAG
65870997 TGGGTATAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.02
28 51 0.94
29 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.16
Consensus pattern (28 bp):
TGCAAGCCAAAGGGACGGACAATCTAAA
Found at i:65870997 original size:28 final size:28
Alignment explanation
Indices: 65870923--65870997 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
65870913 GGACGGATAG
* * **
65870923 TCTAAATGCAAGCCAATGTGGTGGACAA
1 TCTAAATGCAAGCCAAAGTAGCAGACAA
*
65870951 TCTAAGTGCAAGCCAAAGTAGCAGACAA
1 TCTAAATGCAAGCCAAAGTAGCAGACAA
65870979 TCTAAATGCAAGCCAAAGT
1 TCTAAATGCAAGCCAAAGT
65870998 GGGTATAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (28 bp):
TCTAAATGCAAGCCAAAGTAGCAGACAA
Found at i:65871023 original size:44 final size:46
Alignment explanation
Indices: 65870975--65871090 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 46
65870965 AAAGTAGCAG
*
65870975 ACAATCTAAATGCAAGCC-AAAGTGGGTATAAGCCAAAA-CGACAA
1 ACAATCTAAATGCAAGCCAAAAGTGGGTACAAGCCAAAAGCGACAA
* * * * *
65871019 ACAATCTAAATGCAAGCCAAAAGTGGGTGCATGCCAAAAGTGGCGA
1 ACAATCTAAATGCAAGCCAAAAGTGGGTACAAGCCAAAAGCGACAA
*
65871065 ACAGTCTAAATGCAAGCCAAAAGTGG
1 ACAATCTAAATGCAAGCCAAAAGTGG
65871091 TGACAGACTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
44 18 0.29
45 17 0.27
46 28 0.44
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (46 bp):
ACAATCTAAATGCAAGCCAAAAGTGGGTACAAGCCAAAAGCGACAA
Found at i:65871054 original size:17 final size:17
Alignment explanation
Indices: 65871029--65871061 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65871019 ACAATCTAAA
65871029 TGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAAGTGGG
*
65871046 TGCATGCCAAAAGTGG
1 TGCAAGCCAAAAGTGG
65871062 CGAACAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.15
Consensus pattern (17 bp):
TGCAAGCCAAAAGTGGG
Found at i:65871106 original size:28 final size:29
Alignment explanation
Indices: 65871045--65871113 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
65871035 CCAAAAGTGG
* *
65871045 GTGCATGCCAAAAGTGGCGAACAGTCTAA
1 GTGCAAGCCAAAAGTGGCGAACAGACTAA
* *
65871074 ATGCAAGCCAAAAGTGGTG-ACAGACTAA
1 GTGCAAGCCAAAAGTGGCGAACAGACTAA
65871102 GTGCAAGCCAAA
1 GTGCAAGCCAAA
65871114 CTGGCAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.14
Consensus pattern (29 bp):
GTGCAAGCCAAAAGTGGCGAACAGACTAA
Found at i:65872873 original size:39 final size:40
Alignment explanation
Indices: 65872619--65872881 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
65872609 TTGAATGCTG
* * * * * *
65872619 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
65872659 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
65872699 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65872739 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
65872779 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
65872819 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
65872858 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
65872882 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Done.