Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 152 of 290
Found at i:51739388 original size:37 final size:37
Alignment explanation
Indices: 51739308--51739421 Score: 183
Period size: 37 Copynumber: 3.0 Consensus size: 37
51739298 ATAATCTTCA
51739308 ATGATATGCAATCTTAGATATGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATG---CAATCTTAGAT
*
51739349 ATGATTGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGAT
51739386 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
51739422 AGATTTGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
37 46 0.65
40 20 0.28
41 5 0.07
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (37 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:51743394 original size:17 final size:17
Alignment explanation
Indices: 51743374--51743407 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51743364 GTTGTTAAAA
51743374 AGAGAAAGAAAAAAGAG
1 AGAGAAAGAAAAAAGAG
* *
51743391 AGAGAGAGAGAAAAGAG
1 AGAGAAAGAAAAAAGAG
51743408 TCACGGCTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
AGAGAAAGAAAAAAGAG
Found at i:51745927 original size:8 final size:7
Alignment explanation
Indices: 51745905--51745962 Score: 68
Period size: 7 Copynumber: 8.4 Consensus size: 7
51745895 CTTCTATTTT
51745905 AAAA-AA
1 AAAAGAA
51745911 AAAAGAA
1 AAAAGAA
*
51745918 AAAGGAA
1 AAAAGAA
51745925 AAAAG--
1 AAAAGAA
51745930 AAAAGAA
1 AAAAGAA
51745937 AAAGAGAAA
1 AAA-AG-AA
51745946 AAAAGAA
1 AAAAGAA
51745953 AAAAGAA
1 AAAAGAA
51745960 AAA
1 AAA
51745963 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.11
6 4 0.09
7 27 0.60
8 4 0.09
9 5 0.11
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:51745933 original size:19 final size:21
Alignment explanation
Indices: 51745905--51745954 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
51745895 CTTCTATTTT
51745905 AAAAAA-AAAAGAAAAAG-G-
1 AAAAAAGAAAAGAAAAAGAGA
51745923 AAAAAAGAAAAGAAAAAGAGA
1 AAAAAAGAAAAGAAAAAGAGA
51745944 AAAAAAGAAAA
1 AAAAAAGAAAA
51745955 AAGAAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.21
19 11 0.38
20 1 0.03
21 11 0.38
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAGAAAAAGAGA
Found at i:51746945 original size:44 final size:44
Alignment explanation
Indices: 51746888--51747075 Score: 245
Period size: 44 Copynumber: 4.3 Consensus size: 44
51746878 GAGCCAAGAT
* *
51746888 GATTTGGCGTCTCTGTATTGTCA-AGGAGCAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGTCAGA-GAGCAGATCGAAGATAACA
* * *
51746932 GATTTGGCATCTCTGTATTGTCAGATAGCAGATCAAAGATAATA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
* *
51746976 GATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
* * * *
51747020 GATTTGGCATCTCTGTACTATCAGAGAACAAATCGAAGA-AACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
*
51747063 AATTTGGCATCTC
1 GATTTGGCATCTC
51747076 CATATTCGAC
Statistics
Matches: 126, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
43 16 0.13
44 109 0.87
45 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
Found at i:51747092 original size:88 final size:88
Alignment explanation
Indices: 51746913--51747102 Score: 222
Period size: 88 Copynumber: 2.2 Consensus size: 88
51746903 TATTGTCAAG
* * * * * * * *
51746913 GAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGATAGCAGATCAAAGATAATAGA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTACTATCAGAGAACAAATCAAAGATAACAAA
** *
51746978 TTTGACATCTCTGTATTGGCAGA
66 TTTGACATCTCCATATTGACAGA
*
51747001 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTACTATCAGAGAACAAATCGAAGA-AACAAA
1 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTACTATCAGAGAACAAATCAAAGATAACAAA
*
51747065 TTTGGCATCTCCATATTCGAC-GAA
66 TTTGACATCTCCATATT-GACAG-A
*
51747089 GAGCAGATCAAAGA
1 GAGCAGATCGAAGA
51747103 CACAGCAGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 19 0.22
88 67 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (88 bp):
GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTACTATCAGAGAACAAATCAAAGATAACAAA
TTTGACATCTCCATATTGACAGA
Found at i:51747159 original size:78 final size:78
Alignment explanation
Indices: 51747064--51747228 Score: 224
Period size: 78 Copynumber: 2.1 Consensus size: 78
51747054 GAAGAAACAA
* * * * *
51747064 ATTTGGCATCTCCATATTCGACGAAGAGCAGATCAAAGACACAGCAGATCT-GATCTTCATTGAA
1 ATTTGGCATCTCCATATTAGACGAAGAGCAGATCAAAGAAACAACAGAT-TGGACCTTCATTAAA
51747128 GCAGATCCAAGATG
65 GCAGATCCAAGATG
* ** * *
51747142 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGAAATAACAGATTGGACCTTCATTAAAG
1 ATTTGGCATCTCCATATTAGACGAAGAGCAGATCAAAGAAACAACAGATTGGACCTTCATTAAAG
51747207 CAGATCCAAGATG
66 CAGATCCAAGATG
51747220 ATTTGGCAT
1 ATTTGGCAT
51747229 GCATCTCTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 75 0.99
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (78 bp):
ATTTGGCATCTCCATATTAGACGAAGAGCAGATCAAAGAAACAACAGATTGGACCTTCATTAAAG
CAGATCCAAGATG
Found at i:51747357 original size:41 final size:40
Alignment explanation
Indices: 51747311--51747534 Score: 107
Period size: 40 Copynumber: 5.2 Consensus size: 40
51747301 AGGACATAAC
51747311 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
1 TGATTTGGCTTTCAC-TGTTTACGTTGAAGCAAATCTAAGA
* * ** * * *
51747352 TGATTTGGC-ATCTCTGTATTGAC-AAGGAGCAGATCGAAGACATA
1 TGATTTGGCTTTCACTGT-TT-ACGTTGAAGCAAATCTAAG----A
51747396 GCTGATTTGGCTTTCACTTGTTTACGTTGAAGCAAATCTAAGA
1 --TGATTTGGCTTTCAC-TGTTTACGTTGAAGCAAATCTAAGA
* * * * * *
51747439 TGATTTGGC-GTCTCTGTATTGGCAG--GGAGCAGATCGAAGACATA
1 TGATTTGGCTTTCACTGT-TT-AC-GTTGAAGCAAATCTAAG----A
*
51747483 GCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
1 --TGATTTGGCTTTCAC-TGTTTACGTTGAAGCAAATCTAAGA
51747526 TGATTTGGC
1 TGATTTGGC
51747535 ATCTCTGTAT
Statistics
Matches: 131, Mismatches: 28, Indels: 48
0.63 0.14 0.23
Matches are distributed among these distances:
39 6 0.05
40 32 0.24
41 29 0.22
42 1 0.01
43 2 0.02
44 2 0.02
45 1 0.01
46 20 0.15
47 32 0.24
48 6 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (40 bp):
TGATTTGGCTTTCACTGTTTACGTTGAAGCAAATCTAAGA
Found at i:51747394 original size:87 final size:87
Alignment explanation
Indices: 51747267--51747546 Score: 472
Period size: 87 Copynumber: 3.2 Consensus size: 87
51747257 GAAGACAACA
* * * *
51747267 GATTTGAC-TCTCTGTATTGGCAGGGAGCAAATCGAGGACATAACTGATTTGGCTTTCACGTGTT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
51747331 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * *
51747353 GATTTGGCATCTCTGTATTGACAAGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACTTGTT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
51747418 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
51747440 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
51747505 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
51747527 GATTTGGCATCTCTGTATTG
1 GATTTGGCATCTCTGTATTG
51747547 TCAGAGAACA
Statistics
Matches: 180, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
86 7 0.04
87 173 0.96
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (87 bp):
GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:51747819 original size:78 final size:78
Alignment explanation
Indices: 51747672--51747864 Score: 260
Period size: 78 Copynumber: 2.5 Consensus size: 78
51747662 CTTACAAGGN
** * *
51747672 CATTGAAGCAGATCCAAGATGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGAAATAA
1 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGAAACAA
51747737 CAGATTGGACCTT
66 CAGATTGGACCTT
* * * * * * *
51747750 CATTAAAGCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGTAGATCGAAGACACAG
1 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGAAACAA
* *
51747815 CAGATTTGATCTT
66 CAGATTGGACCTT
*
51747828 TATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
1 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
51747865 CTGTCAGGGA
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 99 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (78 bp):
CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGAAACAA
CAGATTGGACCTT
Found at i:51747972 original size:199 final size:199
Alignment explanation
Indices: 51747692--51748063 Score: 584
Period size: 199 Copynumber: 1.9 Consensus size: 199
51747682 GATCCAAGAT
*
51747692 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGAAATAACAGATTGGACCTTCATTAAA
1 GATTTGACATCTCCATATTCGACGGAGAGCAGATCAAAGAAATAACAGATTGGACCTTCATTAAA
* * * * * *
51747757 GCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGTAGATCGAAGACACAGCAGATTT
66 GCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAGATCGAAGACACAACAGATTG
* *
51747822 GATCTTTATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGGGAACAAATCGAAGA
131 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGGGAACAAATCGAAGA
51747887 AACA
196 AACA
* * * * *
51747891 GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCT-GACCTTTATTGA
1 GATTTGACATCTCCATATTCGACGGAGAGCAGATCAAAGAAATAACAGAT-TGGACCTTCATTAA
*
51747955 AGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAGATCGAAGACATAACAGATT
65 AGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAGATCGAAGACACAACAGATT
*
51748020 GGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
130 GGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
51748064 TTAGACGGGG
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
199 155 0.99
200 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (199 bp):
GATTTGACATCTCCATATTCGACGGAGAGCAGATCAAAGAAATAACAGATTGGACCTTCATTAAA
GCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAGATCGAAGACACAACAGATTG
GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGGGAACAAATCGAAGA
AACA
Found at i:51747999 original size:78 final size:78
Alignment explanation
Indices: 51747891--51748168 Score: 405
Period size: 78 Copynumber: 3.6 Consensus size: 78
51747881 CGAAGAAACA
* * * * *
51747891 GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
51747956 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
51747969 GATTTGGCATCTCTATATTAGACGAGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
51748033 AGCAGATCTAAGAT
65 AGCAGATCCAAGAT
* * *
51748047 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGATCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
51748112 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
51748125 GATTTGGCATCTCTGTATTAGACGGGGAGCTGATCAAAAACATA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATA
51748169 NNNNNNNNNN
Statistics
Matches: 180, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 178 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:51749679 original size:87 final size:87
Alignment explanation
Indices: 51749533--51749738 Score: 304
Period size: 87 Copynumber: 2.4 Consensus size: 87
51749523 NNNNNNNNNN
* * *
51749533 AAGCAAATCTAAGATGATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATT
1 AAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAAATCGAAGACATAGCAGATT
* * **
51749598 TGGTTTTCACGTGTTTACGTTG
66 TAGCTTTCACGTGTTTACGCGG
* *
51749620 AAGCAAATCTAAAATGATTTGGCGTCTCTGTATTGGTAGGGAGCAAATCGAAGACATAGCAGATT
1 AAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAAATCGAAGACATAGCAGATT
*
51749685 TAGCTTTCACGTGTTTATGCGG
66 TAGCTTTCACGTGTTTACGCGG
* *
51749707 AAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 AAGCAAATCTAAGATGATTTGGCGTCTCTGTA
51749739 CTATCAGAGA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 106 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (87 bp):
AAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAAATCGAAGACATAGCAGATT
TAGCTTTCACGTGTTTACGCGG
Found at i:51749873 original size:78 final size:78
Alignment explanation
Indices: 51749766--51750059 Score: 464
Period size: 78 Copynumber: 3.8 Consensus size: 78
51749756 GAAGAAACAA
* * ** * *
51749766 ATTTGGCATCTCCATATTCGACGAAGAGCAGATCAAAGACACAGCAGATCTGATCTTCATTGAAG
1 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAG
51749831 CAGATCCAAGATG
66 CAGATCCAAGATG
*
51749844 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGATCTTCATTGAAG
1 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAG
51749909 CAGATCCAAGATG
66 CAGATCCAAGATG
* * *
51749922 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAAAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGAA
51749986 GCAGATCCAAGATG
65 GCAGATCCAAGATG
* *
51750000 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCAT
51750060 GTGTTTACAT
Statistics
Matches: 202, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
77 1 0.00
78 200 0.99
79 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (78 bp):
ATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:51750154 original size:45 final size:43
Alignment explanation
Indices: 51750090--51750210 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 43
51750080 CCAAGATGAT
* *
51750090 AGATTTGGCATCTCTGTATTAGACGGAGAGCAAATCGGAGATAAC
1 AGATTTGGCATCTCTGTATTAGACGG-GAGCAAAT-GGAAAAAAC
* * *
51750135 AGATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAAAAAT
1 AGATTTGGCATCTCTGTATTAGACGGG-AGCAAATGGAAAAAAC
**
51750179 AGATTTGGTGTCTCTGTATTAGACGGGGAGCA
1 AGATTTGGCATCTCTGTATTAGAC-GGGAGCA
51750211 GATCAAAGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 32 0.48
45 35 0.52
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (43 bp):
AGATTTGGCATCTCTGTATTAGACGGGAGCAAATGGAAAAAAC
Found at i:51750198 original size:44 final size:45
Alignment explanation
Indices: 51750088--51750214 Score: 159
Period size: 44 Copynumber: 2.8 Consensus size: 45
51750078 ATCCAAGATG
* * *
51750088 ATAGATTTGGCATCTCTGTATTAGAC-GGAGAGCAAATCGGAGATA
1 ATAGATTTGGCATCTCTGTATTAGACGGGA-AGCAGATCGGAAAAA
* *
51750133 ACAGATTTGGCATCTCTGTATTAGACGGGAAGCAGAT-TGAAAAA
1 ATAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGGAAAAA
** *
51750177 ATAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATC
1 ATAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATC
51750215 AAAGATAGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
44 37 0.52
45 31 0.44
46 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (45 bp):
ATAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGGAAAAA
Found at i:51750612 original size:19 final size:19
Alignment explanation
Indices: 51750588--51750720 Score: 189
Period size: 19 Copynumber: 6.9 Consensus size: 19
51750578 ATAATCTTCA
51750588 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51750607 ATGATATGATCCAATCTTAGAT
1 ATGATATG---CAATCTTAGAT
51750629 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
51750647 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
51750666 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
51750685 ATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
*
51750703 AAGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
51750721 AGATATGATT
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
18 31 0.30
19 55 0.53
21 2 0.02
22 16 0.15
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:51750694 original size:37 final size:38
Alignment explanation
Indices: 51750588--51750727 Score: 189
Period size: 37 Copynumber: 3.7 Consensus size: 38
51750578 ATAATCTTCA
51750588 ATGATATGCAATCTTAGATATGATATGATCCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATG---CAATCTTAGAT
*
51750629 ATGAT-TGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
* *
51750666 GTGATATGCAATCTTAGATATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
*
51750703 AAGATATGCAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
51750728 ATTTTGTAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
35 3 0.03
36 3 0.03
37 43 0.47
38 17 0.19
40 20 0.22
41 5 0.05
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:51750701 original size:56 final size:57
Alignment explanation
Indices: 51750588--51750728 Score: 207
Period size: 56 Copynumber: 2.5 Consensus size: 57
51750578 ATAATCTTCA
*
51750588 ATGATATGCAATCTTAGATATGATATGATCCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGA--CAATCTTAGATATGATTGCAATATTAGAT
* *
51750647 GTGATATGCAATCTTAGATGTGATATG-CAATCTTAGATATGATTGCAATATTAGAT
1 ATGATATGCAATCTTAGATATGATATGACAATCTTAGATATGATTGCAATATTAGAT
*
51750703 AAGATATGCAATCTTAGA-A-GATATGA
1 ATGATATGCAATCTTAGATATGATATGA
51750729 TTTTGTAATC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
54 6 0.08
56 44 0.59
59 25 0.33
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (57 bp):
ATGATATGCAATCTTAGATATGATATGACAATCTTAGATATGATTGCAATATTAGAT
Found at i:51751266 original size:26 final size:25
Alignment explanation
Indices: 51751236--51751285 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
51751226 GTGCATAGTT
*
51751236 TTATTTTTTTTATATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
51751262 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
51751286 TGATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:51752555 original size:11 final size:12
Alignment explanation
Indices: 51752526--51752554 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
51752516 GGAAAAAAAA
51752526 TAAAAACCTAAT
1 TAAAAACCTAAT
51752538 TAAAAACCTAAT
1 TAAAAACCTAAT
51752550 TAAAA
1 TAAAA
51752555 CTAACTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAACCTAAT
Found at i:51755692 original size:17 final size:17
Alignment explanation
Indices: 51755672--51755707 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51755662 ACTCATCAAC
*
51755672 TCATTTTTTTCATTCTT
1 TCATTTTCTTCATTCTT
*
51755689 TCATTTTCTTCTTTCTT
1 TCATTTTCTTCATTCTT
51755706 TC
1 TC
51755708 CATGCTTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.69
Consensus pattern (17 bp):
TCATTTTCTTCATTCTT
Found at i:51759257 original size:47 final size:44
Alignment explanation
Indices: 51759186--51759352 Score: 133
Period size: 47 Copynumber: 3.6 Consensus size: 44
51759176 GGTAAGGTGC
* *
51759186 CGATGCCATGTCCCAGATACGGTCTTACACTGGCTCACATCTCAAGT
1 CGATG-CATGTCCCAGACA-TGTCTTACACTGGCT-ACATCTCAAGT
*
51759233 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCT--AGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTA-CATCTCAAGT
* * * * *
51759278 AGCTGATGCATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGC
1 --C-GATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTC-AAGT
51759327 CGATGCATGTCCC-GAACATGTCTTAC
1 CGATGCATGTCCCAG-ACATGTCTTAC
51759353 CCTAGCACTT
Statistics
Matches: 100, Mismatches: 10, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
45 4 0.04
46 38 0.38
47 53 0.53
48 4 0.04
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCAAGT
Found at i:51759367 original size:46 final size:45
Alignment explanation
Indices: 51759282--51759378 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
51759272 TCTAGTAGCT
* *
51759282 GATGCATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGCC
1 GATGCATGTCCGAGACATGTCTTACACTAGCTTA-GTCTCAAGGCC
* *
51759328 GATGCATGTCCCGA-ACATGTCTTACCCTAGCACTT-GTCTCAATGCC
1 GATGCATGT-CCGAGACATGTCTTACACTAG--CTTAGTCTCAAGGCC
51759374 GATGC
1 GATGC
51759379 TTACACTGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
46 38 0.86
47 3 0.07
48 3 0.07
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCGAGACATGTCTTACACTAGCTTAGTCTCAAGGCC
Found at i:51763393 original size:40 final size:40
Alignment explanation
Indices: 51763315--51763538 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
51763305 ACCCAAGTAT
* *
51763315 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
51763354 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51763394 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
51763434 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
51763477 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51763517 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51763539 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:51763511 original size:83 final size:80
Alignment explanation
Indices: 51763315--51763538 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
51763305 ACCCAAGTAT
* * * *
51763315 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
51763379 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
51763394 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
51763458 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
51763477 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
51763539 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:51770398 original size:46 final size:46
Alignment explanation
Indices: 51770253--51770518 Score: 211
Period size: 47 Copynumber: 5.7 Consensus size: 46
51770243 TGGGTAAGGT
* * * *
51770253 GCCGATGCTATGTCCCAGACACGGTCTTACACTAGCTCACATCTC-AA
1 GCCGATGC-ATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGAG
** * *
51770300 ATCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTAGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCG-AG
*
51770348 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
* * * * * * *
51770394 GCCGATGCATGTCCCGGACATGTCTTACCCTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCGAG
* * *
51770440 GCCGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAG
*
51770488 GCCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
51770519 AGCCCACACA
Statistics
Matches: 177, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 72 0.41
47 76 0.43
48 26 0.15
49 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
Found at i:51770501 original size:94 final size:92
Alignment explanation
Indices: 51770252--51770521 Score: 237
Period size: 94 Copynumber: 2.9 Consensus size: 92
51770242 ATGGGTAAGG
* * * * * ***
51770252 TGCCGATGCTATGTCCCAGACACGGTCTTACACTAGCTCACATCTC-AAATCGATGCCATGTCCC
1 TGCCGATGC-ATGTCCCAGACA-TGTCTTAAACTGGCTTACATATCGAGGCCGATG-CATGTCCC
* * *
51770316 AGACATGGTCTTACACT-G-ACT-ATCATCTAG
63 AAACAT-GTCTTACACTAGCACTCGTC-TC-AA
* * * **
51770346 TAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCGG
1 T-GCCGATGCATGTCCCAGACATGTCTTAAACTGGCTTACATATCGAGGCCGATGCATGTCCCAA
*
51770411 ACATGTCTTACCCTAGCACTCGTCTCAA
65 ACATGTCTTACACTAGCACTCGTCTCAA
*
51770439 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTAAACTGGCT-TACAT-ATCGAGGCCGATGCATGTCC
51770502 CAAACATGTCTTACACTAGC
62 CAAACATGTCTTACACTAGC
51770522 CCACACACAA
Statistics
Matches: 149, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
92 16 0.11
93 49 0.33
94 72 0.48
95 12 0.08
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGTCTTAAACTGGCTTACATATCGAGGCCGATGCATGTCCCAAA
CATGTCTTACACTAGCACTCGTCTCAA
Found at i:51770514 original size:140 final size:141
Alignment explanation
Indices: 51770253--51770518 Score: 369
Period size: 140 Copynumber: 1.9 Consensus size: 141
51770243 TGGGTAAGGT
*
51770253 GCCGATGCTATGTCCCAGACACGGTCTTACACTAGCTCACATCTCAAATCGATGCCATGTCCCAG
1 GCCGATGCTATGTCCCAGACACGGTCTTACACTAGCACACATCTCAAATCGATGCCATGTCCCAG
* * *
51770318 ACATGGTCTTACACTGACTATCATCTAGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
66 ACATGGTCTTAAACTGACTATCATATAGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
51770383 TACGTCTCGAG
131 TACGTCTCGAG
* * * * *
51770394 GCCGATGC-ATGTCCCGGACA-TGTCTTACCCTAGCACTCGTCTC-AATGCCGATGCCATGTCCC
1 GCCGATGCTATGTCCCAGACACGGTCTTACACTAGCACACATCTCAAAT--CGATGCCATGTCCC
* * *
51770456 AGACATGGTCTTAAACTGGCTCTCATA-ATGTGGCCGATGCATGTCCCAAACATGTCTTACACT
64 AGACATGGTCTTAAACTGACTATCATATA-GTAGCCGATGCATGTCCCAAACATGTCTTACACT
51770519 AGCCCACACA
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
138 3 0.03
139 19 0.17
140 80 0.73
141 8 0.07
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (141 bp):
GCCGATGCTATGTCCCAGACACGGTCTTACACTAGCACACATCTCAAATCGATGCCATGTCCCAG
ACATGGTCTTAAACTGACTATCATATAGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCT
TACGTCTCGAG
Found at i:51773274 original size:40 final size:40
Alignment explanation
Indices: 51773219--51773476 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
51773209 TGGATGATAA
* * *
51773219 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
51773259 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51773299 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51773339 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51773379 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
51773419 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
51773459 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51773477 TACTTGGCTT
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.08
40 190 0.92
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51781228 original size:40 final size:40
Alignment explanation
Indices: 51781173--51781430 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
51781163 TGGATGATAA
* * *
51781173 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
51781213 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51781253 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51781293 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51781333 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
51781373 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
51781413 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51781431 TACTTGGCTT
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.08
40 190 0.92
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51794655 original size:23 final size:23
Alignment explanation
Indices: 51794627--51794672 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
51794617 CACCCCTAAT
51794627 ATGCATAATTGAATG-ATTTATTA
1 ATGCATAA-TGAATGCATTTATTA
* *
51794650 ATGCATGATGATTGCATTTATTA
1 ATGCATAATGAATGCATTTATTA
51794673 TTAGCATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (23 bp):
ATGCATAATGAATGCATTTATTA
Found at i:51798935 original size:43 final size:42
Alignment explanation
Indices: 51798864--51798966 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
51798854 ATCTGAGCTC
* *
51798864 GTTGAGCGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTT
1 GTTGAGAGGTCCGAGTTCGAGATATATGTG-GAATCCAAACTT
* * * * * *
51798907 GTTGAGTGGTCCAAGTTTGAGATCTATGTGGCATCCAAGCTT
1 GTTGAGAGGTCCGAGTTCGAGATATATGTGGAATCCAAACTT
51798949 GTTGAGAGGTCCGAGTTC
1 GTTGAGAGGTCCGAGTTC
51798967 ATAATGGATG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (42 bp):
GTTGAGAGGTCCGAGTTCGAGATATATGTGGAATCCAAACTT
Found at i:51798960 original size:42 final size:43
Alignment explanation
Indices: 51798859--51798966 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
51798849 TAGAAATCTG
* * *
51798859 AGCTCGTTGAGCGGTCCGAGTTCGTGATATATGTGAGAATCCA
1 AGCTTGTTGAGAGGTCCGAGTTCGAGATATATGTGAGAATCCA
* * * * * *
51798902 AACTTGTTGAGTGGTCCAAGTTTGAGATCTATGTG-GCATCCA
1 AGCTTGTTGAGAGGTCCGAGTTCGAGATATATGTGAGAATCCA
51798944 AGCTTGTTGAGAGGTCCGAGTTC
1 AGCTTGTTGAGAGGTCCGAGTTC
51798967 ATAATGGATG
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 25 0.47
43 28 0.53
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
AGCTTGTTGAGAGGTCCGAGTTCGAGATATATGTGAGAATCCA
Found at i:51800468 original size:13 final size:13
Alignment explanation
Indices: 51800450--51800477 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51800440 GTTATTGAAC
51800450 ATGGTGTAAGAGT
1 ATGGTGTAAGAGT
51800463 ATGGTGTAAGAGT
1 ATGGTGTAAGAGT
51800476 AT
1 AT
51800478 AGAGAGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (13 bp):
ATGGTGTAAGAGT
Found at i:51802000 original size:25 final size:26
Alignment explanation
Indices: 51801965--51802019 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
51801955 CCCCATACGA
* *
51801965 GCTTTCTAGATGAC-TTGCCACAAAG
1 GCTTTCAAGATAACTTTGCCACAAAG
* *
51801990 GCTTTCAAGATAACTTTGCTACTAAG
1 GCTTTCAAGATAACTTTGCCACAAAG
51802016 GCTT
1 GCTT
51802020 CCCAAATAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (26 bp):
GCTTTCAAGATAACTTTGCCACAAAG
Found at i:51802537 original size:16 final size:16
Alignment explanation
Indices: 51802516--51802546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51802506 AAAACTCTGA
*
51802516 GGTGTACTCTTTCTTT
1 GGTGTACACTTTCTTT
51802532 GGTGTACACTTTCTT
1 GGTGTACACTTTCTT
51802547 GTGATTATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (16 bp):
GGTGTACACTTTCTTT
Found at i:51805002 original size:46 final size:45
Alignment explanation
Indices: 51804952--51805127 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
51804942 TGTTTGGGCA
51804952 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
51804998 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
51805045 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
51805091 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51805128 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:51805107 original size:93 final size:93
Alignment explanation
Indices: 51804948--51805119 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
51804938 AGGATGTTTG
* *
51804948 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51805013 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
51805041 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51805106 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51805120 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:51815341 original size:60 final size:59
Alignment explanation
Indices: 51815221--51815357 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
51815211 CAGTGTTAAC
* *
51815221 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAACCCCTTACAGTATCAGAGTATAT
1 TGGG-CTTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAG-ATCAGAGTATAT
* * *
51815282 TGGGCTTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCTTAGCCCATATCAATATCAATCTGGGCCATAACCC-ATTACAGA-TCAGAG-TATAT
*
51815342 TAGGCCTT-GCCCATAT
1 T-GGGCTTAGCCCATAT
51815358 TAACATAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 4 0.06
60 48 0.73
61 14 0.21
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (59 bp):
TGGGCTTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGATCAGAGTATAT
Found at i:51815907 original size:276 final size:276
Alignment explanation
Indices: 51815414--51815966 Score: 1097
Period size: 276 Copynumber: 2.0 Consensus size: 276
51815404 GTCTCATATG
51815414 ACTAATGCATGATAACCCCATCCAACCCTGCACTTGCCTCAGTCCATCCCTACACTTCCTGTAGG
1 ACTAATGCATGATAACCCCATCCAACCCTGCACTTGCCTCAGTCCATCCCTACACTTCCTGTAGG
*
51815479 GAATAAATCACCCACGCCATCCCTACACTTACAGTGTTAGCACCAGCTGCGGCACTAACTATAAT
66 GAATAAATCACCCACGCCATCCCTACACTTACAGTGTTAGCACCAGCTGCGACACTAACTATAAT
51815544 CCGCAGCAAAGCTGCTTATATCAGAATATATGGCACAGCCACCAGATGGGTTCTTCCTCCATAAC
131 CCGCAGCAAAGCTGCTTATATCAGAATATATGGCACAGCCACCAGATGGGTTCTTCCTCCATAAC
51815609 ATAACCCAGATCCCATGCAACAGATATATACATGTCATGGCATATAACAAACAGAATCCGTATAT
196 ATAACCCAGATCCCATGCAACAGATATATACATGTCATGGCATATAACAAACAGAATCCGTATAT
51815674 CATGCATTTCAGTCAA
261 CATGCATTTCAGTCAA
51815690 ACTAATGCATGATAACCCCATCCAACCCTGCACTTGCCTCAGTCCATCCCTACACTTCCTGTAGG
1 ACTAATGCATGATAACCCCATCCAACCCTGCACTTGCCTCAGTCCATCCCTACACTTCCTGTAGG
51815755 GAATAAATCACCCACGCCATCCCTACACTTACAGTGTTAGCACCAGCTGCGACACTAACTATAAT
66 GAATAAATCACCCACGCCATCCCTACACTTACAGTGTTAGCACCAGCTGCGACACTAACTATAAT
51815820 CCGCAGCAAAGCTGCTTATATCAGAATATATGGCACAGCCACCAGATGGGTTCTTCCTCCATAAC
131 CCGCAGCAAAGCTGCTTATATCAGAATATATGGCACAGCCACCAGATGGGTTCTTCCTCCATAAC
51815885 ATAACCCAGATCCCATGCAACAGATATATACATGTCATGGCATATAACAAACAGAATCCGTATAT
196 ATAACCCAGATCCCATGCAACAGATATATACATGTCATGGCATATAACAAACAGAATCCGTATAT
51815950 CATGCATTTCAGTCAA
261 CATGCATTTCAGTCAA
51815966 A
1 A
51815967 ATTAACCCTA
Statistics
Matches: 276, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
276 276 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (276 bp):
ACTAATGCATGATAACCCCATCCAACCCTGCACTTGCCTCAGTCCATCCCTACACTTCCTGTAGG
GAATAAATCACCCACGCCATCCCTACACTTACAGTGTTAGCACCAGCTGCGACACTAACTATAAT
CCGCAGCAAAGCTGCTTATATCAGAATATATGGCACAGCCACCAGATGGGTTCTTCCTCCATAAC
ATAACCCAGATCCCATGCAACAGATATATACATGTCATGGCATATAACAAACAGAATCCGTATAT
CATGCATTTCAGTCAA
Found at i:51818103 original size:19 final size:18
Alignment explanation
Indices: 51818066--51818109 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
51818056 ATACATGCAG
51818066 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
51818083 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
51818102 TACTAATT
1 TAATAATT
51818110 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:51822652 original size:25 final size:26
Alignment explanation
Indices: 51822624--51822674 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
51822614 GGTGCCATTG
*
51822624 TCGGGGAGTTTGTGTTTGATT-ATTT
1 TCGGGGAGTTTGTGTATGATTGATTT
*
51822649 TCGGGGATTTTGTGTATGATTGATTT
1 TCGGGGAGTTTGTGTATGATTGATTT
51822675 GATTTACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.14, C:0.04, G:0.31, T:0.51
Consensus pattern (26 bp):
TCGGGGAGTTTGTGTATGATTGATTT
Found at i:51829815 original size:23 final size:22
Alignment explanation
Indices: 51829784--51829827 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
51829774 TTGGTCTTAT
*
51829784 GTTTAGGTATGATTTTAATTTAA
1 GTTTAGGTATGAATTT-ATTTAA
*
51829807 GTTTTGGTATGAATTTATTTA
1 GTTTAGGTATGAATTTATTTA
51829828 TGAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (22 bp):
GTTTAGGTATGAATTTATTTAA
Found at i:51839925 original size:17 final size:16
Alignment explanation
Indices: 51839903--51839949 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
51839893 TTGTAATTTG
51839903 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
51839920 AATTAAGTA-AATAGGT
1 AATTAATTATAA-AGGT
51839936 AATTAATTGATAAA
1 AATTAATT-ATAAA
51839950 TTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.40
17 13 0.52
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:51842821 original size:18 final size:18
Alignment explanation
Indices: 51842798--51842859 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
51842788 TAACATTTAT
*
51842798 TATATTTTATTTTTATTC
1 TATATTTTATTTTTATTA
*
51842816 TATATTACTTATTTTTTTTA
1 TATATT--TTATTTTTATTA
* * * *
51842836 TATATGTTATGTGTATCA
1 TATATTTTATTTTTATTA
51842854 TATATT
1 TATATT
51842860 ATCTATTATA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 19 0.56
20 15 0.44
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (18 bp):
TATATTTTATTTTTATTA
Found at i:51849457 original size:68 final size:67
Alignment explanation
Indices: 51849385--51849534 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
51849375 CATCATGTGT
* * * *
51849385 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
51849447 ATGTAG
62 ATGTAG
** * *
51849453 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
51849518 AG
66 AG
51849520 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
51849535 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:51849490 original size:64 final size:64
Alignment explanation
Indices: 51849409--51849592 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
51849399 AGACATTATG
* *
51849409 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
51849473 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
51849538 AA
63 AA
* * * *
51849540 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
51849593 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:51858313 original size:40 final size:40
Alignment explanation
Indices: 51858215--51858477 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
51858205 TCCTCGTTCA
* * * ** *
51858215 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
51858254 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
51858294 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
51858334 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
51858374 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
51858414 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
51858454 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51858478 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:51866163 original size:27 final size:27
Alignment explanation
Indices: 51866133--51866310 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
51866123 ATATTGAGTC
* * * *
51866133 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51866160 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51866187 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
51866215 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51866242 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51866269 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51866296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51866311 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51866272 original size:82 final size:81
Alignment explanation
Indices: 51866154--51866309 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
51866144 TGCTATATAA
* *
51866154 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
51866219 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
51866236 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
51866300 CACTTAGTGC
65 CACTTAGTGC
51866310 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:51870264 original size:120 final size:119
Alignment explanation
Indices: 51869796--51870392 Score: 1014
Period size: 119 Copynumber: 5.0 Consensus size: 119
51869786 TTGGCTGCAG
*
51869796 TATAGCAGATCTAGCTTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
51869861 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* *
51869915 TATAGCAGATCTAGCTTTCAGATATTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
51869980 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
51870034 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
51870099 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTTAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * * * *
51870153 TATAGCAGATCTAACCTGCAGATGTTTATACTGAAGCAAGATCCAAGATGATCTGATATTCTTGT
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGTATTCTTGT
* * * *
51870218 GTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTGTCAGATGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * * *
51870273 CATGGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGT
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGTATTCTTGT
51870338 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
51870393 CAGACTCAAG
Statistics
Matches: 452, Mismatches: 25, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
119 265 0.59
120 187 0.41
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
Found at i:51877910 original size:5 final size:5
Alignment explanation
Indices: 51877900--51877925 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51877890 ATCACATGTT
51877900 ATCTC ATCTC ATCTC ATCTC ATCTC A
1 ATCTC ATCTC ATCTC ATCTC ATCTC A
51877926 ATTCATATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (5 bp):
ATCTC
Found at i:51880892 original size:20 final size:20
Alignment explanation
Indices: 51880859--51880899 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
51880849 ATATGCTGAA
*
51880859 AAAATGAAATTTGTAG-TAG
1 AAAATGAAAGTTGTAGATAG
51880878 AAAATGAAAGGTTGTAGATAG
1 AAAATGAAA-GTTGTAGATAG
51880899 A
1 A
51880900 TAAACAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAATGAAAGTTGTAGATAG
Found at i:51885937 original size:23 final size:23
Alignment explanation
Indices: 51885911--51885957 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
51885901 AGTTACTCCA
51885911 AGGTCCACAACTTAATACTTATT
1 AGGTCCACAACTTAATACTTATT
* *
51885934 AGGTCCTCATCTTAATACTTATT
1 AGGTCCACAACTTAATACTTATT
51885957 A
1 A
51885958 ATTGAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (23 bp):
AGGTCCACAACTTAATACTTATT
Found at i:51891671 original size:47 final size:46
Alignment explanation
Indices: 51891601--51891862 Score: 135
Period size: 47 Copynumber: 5.6 Consensus size: 46
51891591 TAAGGTGCCA
*
51891601 ATGCCATGTCCTAGACACTGTCTTACACTGGCTCAT-ATCT-TAAG-TCG
1 ATGCCATGTCCCAGACA-TGTCTTACACTGGCT-ATCATCTCT-AGCT-G
**
51891648 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTC-TAGCTG
* * *
51891696 ATG-CATGTCCCAGACATGTCTTACATTGGCT-TACGTCTCGTGGAC-G
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTC-TAG-CTG
* * ** * * ** * * **
51891742 AT-ACACGTATCAGACATTTCTTACACTAGCCCTCGTCTCAACGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCTA-GCTG
* * * * * *
51891788 ATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTCTAGCTG
*
51891836 ATG-CATGTCCCAGACATGTCTTGCACT
1 ATGCCATGTCCCAGACATGTCTTACACT
51891863 AGCTCACACA
Statistics
Matches: 167, Mismatches: 34, Indels: 29
0.73 0.15 0.13
Matches are distributed among these distances:
45 2 0.01
46 64 0.38
47 71 0.43
48 27 0.16
49 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCTAGCTG
Found at i:51901153 original size:14 final size:13
Alignment explanation
Indices: 51901126--51901156 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
51901116 TATTAATGTT
51901126 TTAATTAAATTAA
1 TTAATTAAATTAA
51901139 TTAATTAAGATTAA
1 TTAATTAA-ATTAA
51901153 TTAA
1 TTAA
51901157 ATTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:51902218 original size:16 final size:18
Alignment explanation
Indices: 51902187--51902219 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
51902177 TGAATTATGC
51902187 TATATGATATTGAATATT
1 TATATGATATTGAATATT
51902205 TATAT-ATA-TGAATAT
1 TATATGATATTGAATAT
51902220 AAATTGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (18 bp):
TATATGATATTGAATATT
Found at i:51905176 original size:29 final size:29
Alignment explanation
Indices: 51905053--51905178 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
51905043 GGTAAAGGAA
* * *
51905053 GCCTTTGCGGCAATATTTATTAAAAAGAT
1 GCCTTTGTGGCGATCTTTATTAAAAAGAT
* * * *
51905082 GCCTTTTGTGGCTATCTCTGTTAAAAGGAT
1 GCC-TTTGTGGCGATCTTTATTAAAAAGAT
* * * *
51905112 GGCTTTTTGGTGATCTTTATTACAAAGAT
1 GCCTTTGTGGCGATCTTTATTAAAAAGAT
**
51905141 GTTTTTGTGGCGATCTTTATTAAAAAGAT
1 GCCTTTGTGGCGATCTTTATTAAAAAGAT
*
51905170 ACCTTTGTG
1 GCCTTTGTG
51905179 TCTAAAGGAT
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
29 52 0.70
30 22 0.30
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (29 bp):
GCCTTTGTGGCGATCTTTATTAAAAAGAT
Found at i:51905226 original size:29 final size:29
Alignment explanation
Indices: 51905182--51905245 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
51905172 CTTTGTGTCT
* *
51905182 AAAGGATGCTTTTGTGGCTATCTC-ATTCA
1 AAAGGATGCATGTGTGGCTATCTCTATT-A
*
51905211 AAAGGATGCATGTGTGGTTATCTCTATTA
1 AAAGGATGCATGTGTGGCTATCTCTATTA
51905240 AAAGGA
1 AAAGGA
51905246 CACCTTCGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (29 bp):
AAAGGATGCATGTGTGGCTATCTCTATTA
Found at i:51913058 original size:23 final size:22
Alignment explanation
Indices: 51913007--51913104 Score: 81
Period size: 23 Copynumber: 4.3 Consensus size: 22
51912997 TGATAAACAA
*
51913007 TAAGCTCTATTGAGCTGAA-CAG
1 TAAGCTCT-TTGAGCTAAATCAG
*
51913029 TAAGCTCTTTCGAGCTAAATCGG
1 TAAGCTCTTT-GAGCTAAATCAG
** *
51913052 TAAGCTCCAATGAGCTAAAACAG
1 TAAGCT-CTTTGAGCTAAATCAG
* * *
51913075 TAAGCTCTTACGAGCTGAATCAA
1 TAAGCTCTT-TGAGCTAAATCAG
51913098 TAAGCTC
1 TAAGCTC
51913105 ATACGAGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.03
22 16 0.27
23 40 0.67
24 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (22 bp):
TAAGCTCTTTGAGCTAAATCAG
Found at i:51913082 original size:46 final size:45
Alignment explanation
Indices: 51913000--51913104 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 45
51912990 CCTGAGCTGA
* * * *
51913000 TAAA-CAATAAGCTCTATTGAGCTGAACAGTAAGCTCTTTCGAGC
1 TAAATCAATAAGCTCCAATGAGCTAAACAGTAAGCTCTTACGAGC
**
51913044 TAAATCGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTTACGAGC
1 TAAATCAATAAGCTCCAATGAGCT-AAACAGTAAGCTCTTACGAGC
*
51913090 TGAATCAATAAGCTC
1 TAAATCAATAAGCTC
51913105 ATACGAGATG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 4 0.08
45 15 0.30
46 31 0.62
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (45 bp):
TAAATCAATAAGCTCCAATGAGCTAAACAGTAAGCTCTTACGAGC
Found at i:51913109 original size:23 final size:23
Alignment explanation
Indices: 51913018--51913111 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
51913008 AAGCTCTATT
* * *
51913018 GAGCTGAA-CAGTAAGCTCTTTC
1 GAGCTAAATCAGTAAGCTCATAC
* *
51913040 GAGCTAAATCGGTAAGCTCCA-AT
1 GAGCTAAATCAGTAAGCT-CATAC
* *
51913063 GAGCTAAAACAGTAAGCTCTTAC
1 GAGCTAAATCAGTAAGCTCATAC
* *
51913086 GAGCTGAATCAATAAGCTCATAC
1 GAGCTAAATCAGTAAGCTCATAC
51913109 GAG
1 GAG
51913112 ATGTGGTGAG
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
22 8 0.14
23 47 0.84
24 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (23 bp):
GAGCTAAATCAGTAAGCTCATAC
Found at i:51930835 original size:18 final size:18
Alignment explanation
Indices: 51930814--51930848 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51930804 CATACAATCA
*
51930814 TAGGTTCGCATAATAACG
1 TAGGTTCACATAATAACG
*
51930832 TAGGTTCACATGATAAC
1 TAGGTTCACATAATAAC
51930849 ATACAACATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (18 bp):
TAGGTTCACATAATAACG
Found at i:51932202 original size:21 final size:22
Alignment explanation
Indices: 51932176--51932217 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51932166 CACTTAACAC
*
51932176 AGGGGC-ACATGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
*
51932197 AGGGGCAACACGCCTGTGTGA
1 AGGGGCAACACGCCCGTGTGA
51932218 CCATTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:51932739 original size:57 final size:57
Alignment explanation
Indices: 51932651--51932761 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
51932641 CACACGCCCT
51932651 TATGTCTACTCGTGTAGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCCCCG
1 TATGTCTACTCGTGTAGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCCCCG
*
51932708 TATGTCTACTCGTGTGGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCC
1 TATGTCTACTCGTGTAGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCC
51932762 TTACATACCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (57 bp):
TATGTCTACTCGTGTAGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCCCCG
Found at i:51936125 original size:30 final size:33
Alignment explanation
Indices: 51936082--51936165 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 33
51936072 AAAAATCAAT
*
51936082 TCAATTAAATTCAATATCA-ATATC-A-CA-ACA
1 TCAATTCAATTCAATATCACATA-CAATCATACA
* *
51936112 TCAATTCATTTCAACAATCACATACAATCATACA
1 TCAATTCAATTCAA-TATCACATACAATCATACA
51936146 TACAATTCAATTCAATATCA
1 T-CAATTCAATTCAATATCA
51936166 TAGTGTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
30 12 0.28
31 5 0.12
32 4 0.09
33 2 0.05
34 8 0.19
35 12 0.28
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (33 bp):
TCAATTCAATTCAATATCACATACAATCATACA
Found at i:51936924 original size:5 final size:5
Alignment explanation
Indices: 51936916--51936958 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
51936906 ATTAAACTAT
51936916 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
51936959 TATTATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:51937085 original size:26 final size:26
Alignment explanation
Indices: 51937051--51937107 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
51937041 TTTACCATAC
*
51937051 ATTTGTCACTTATGGTTTATTTACTA
1 ATTTATCACTTATGGTTTATTTACTA
51937077 ATTTATCACTTATGGTTTATTTACTA
1 ATTTATCACTTATGGTTTATTTACTA
51937103 ATTTA
1 ATTTA
51937108 GTCCTTCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (26 bp):
ATTTATCACTTATGGTTTATTTACTA
Found at i:51938725 original size:17 final size:18
Alignment explanation
Indices: 51938689--51938727 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
51938679 CATGTGGCGT
**
51938689 GCCCGTGTGGGCTTACAC
1 GCCCGTGTGGGCCCACAC
51938707 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
51938724 GCCC
1 GCCC
51938728 AACTTGGCCT
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:0.44, G:0.31, T:0.15
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:51938835 original size:12 final size:12
Alignment explanation
Indices: 51938813--51938857 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
51938803 CTTCATCGAT
*
51938813 CACACGACCTAC
1 CACACGGCCTAC
*
51938825 CACATGGCCTAC
1 CACACGGCCTAC
*
51938837 CACACGACCTAC
1 CACACGGCCTAC
51938849 CACACGGCC
1 CACACGGCC
51938858 GTGTAACGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.29, C:0.49, G:0.13, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:51939562 original size:37 final size:37
Alignment explanation
Indices: 51939507--51939580 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
51939497 GCTCGCGCAG
*
51939507 GGATTCGAACCCAGAACCTCCACACAACACACAGACT
1 GGATTCGAACCCAAAACCTCCACACAACACACAGACT
51939544 GGATTCGAACCCAAAACCTCCACACAACACACAGACT
1 GGATTCGAACCCAAAACCTCCACACAACACACAGACT
51939581 CTCTTACCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.38, G:0.12, T:0.11
Consensus pattern (37 bp):
GGATTCGAACCCAAAACCTCCACACAACACACAGACT
Found at i:51950005 original size:29 final size:29
Alignment explanation
Indices: 51949973--51950032 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
51949963 GAGAAAAACA
*
51949973 TTTTATATTAAAATTTTATTTTTTTAAGT
1 TTTTATATTAAAAGTTTATTTTTTTAAGT
51950002 TTTTATATTAAAAGTTTATTTTTTTAAGT
1 TTTTATATTAAAAGTTTATTTTTTTAAGT
51950031 TT
1 TT
51950033 ATTTAAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTATATTAAAAGTTTATTTTTTTAAGT
Found at i:51950032 original size:14 final size:14
Alignment explanation
Indices: 51949987--51950036 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
51949977 ATATTAAAAT
51949987 TTTATTTTTTTAAG
1 TTTATTTTTTTAAG
**
51950001 TTT-TTATATTAAAAG
1 TTTATT-T-TTTTAAG
51950016 TTTATTTTTTTAAG
1 TTTATTTTTTTAAG
51950030 TTTATTT
1 TTTATTT
51950037 AAGAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 16 0.55
15 9 0.31
16 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTATTTTTTTAAG
Found at i:51950258 original size:13 final size:13
Alignment explanation
Indices: 51950240--51950269 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
51950230 GTACATGGTT
51950240 AACTCATGATGCC
1 AACTCATGATGCC
51950253 AACTCATGATGCC
1 AACTCATGATGCC
51950266 AACT
1 AACT
51950270 TTGACAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.23
Consensus pattern (13 bp):
AACTCATGATGCC
Found at i:51950314 original size:6 final size:7
Alignment explanation
Indices: 51950298--51950334 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
51950288 ATAGTATAGA
51950298 TTTTAAT
1 TTTTAAT
51950305 TTTTAAT
1 TTTTAAT
51950312 TTTTAAT
1 TTTTAAT
51950319 TTTT--T
1 TTTTAAT
51950324 TTTGTAAT
1 TTT-TAAT
51950332 TTT
1 TTT
51950335 CTTCGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.15
6 1 0.04
7 18 0.67
8 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:51951541 original size:14 final size:16
Alignment explanation
Indices: 51951523--51951559 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
51951513 GATTATAATT
*
51951523 TATAAAT-TTTTAAAA
1 TATAAATGTTTCAAAA
51951538 -ATAAATGTTTCAAAA
1 TATAAATGTTTCAAAA
51951553 TATAAAT
1 TATAAAT
51951560 AAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
TATAAATGTTTCAAAA
Found at i:51951762 original size:48 final size:48
Alignment explanation
Indices: 51951702--51951856 Score: 301
Period size: 48 Copynumber: 3.2 Consensus size: 48
51951692 CAGATTAAAG
*
51951702 GAATCTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
1 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
51951750 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
1 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
51951798 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
1 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
51951846 GAATTTTATAA
1 GAATTTTATAA
51951857 GTGAAAACGT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 106 1.00
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.32
Consensus pattern (48 bp):
GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
Found at i:51953178 original size:16 final size:17
Alignment explanation
Indices: 51953147--51953179 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51953137 CCCCACAGAT
51953147 ATCAAACATACAGAATA
1 ATCAAACATACAGAATA
*
51953164 ATCAAGCAT-CAGAATA
1 ATCAAACATACAGAATA
51953180 CTGTCTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (17 bp):
ATCAAACATACAGAATA
Found at i:51955538 original size:42 final size:41
Alignment explanation
Indices: 51955448--51955591 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 41
51955438 AGACTACGTA
* * * * *
51955448 TAAGACCATATCTGGGATATGACATCGATATGATATTTCTTA
1 TAAGACCATATCTGGGATATGGCATCGATACGAGATTT-ATG
* *
51955490 TAAGACCATATCTGGGATATGGCATCGATACAAGACTTTGTG
1 TAAGACCATATCTGGGATATGGCATCGATACGAGA-TTTATG
* * *
51955532 TCAGACCATAGCTGGGCTATTGGCAGT-GATACGAGATTCTATG
1 TAAGACCATATCTGGGATA-TGGCA-TCGATACGAGATT-TATG
*
51955575 TAAGACTATATCTGGGA
1 TAAGACCATATCTGGGA
51955592 CATAACATTG
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 50 0.60
43 32 0.39
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATGGCATCGATACGAGATTTATG
Found at i:51956916 original size:35 final size:35
Alignment explanation
Indices: 51956877--51956945 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
51956867 GAAATATGGC
51956877 TTTAGATAATTAATTGGATTAATGCTCAATTTGGT
1 TTTAGATAATTAATTGGATTAATGCTCAATTTGGT
51956912 TTTAGATAATTAATTGGATTAATGCTCAATTTGG
1 TTTAGATAATTAATTGGATTAATGCTCAATTTGG
51956946 CCCTCAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (35 bp):
TTTAGATAATTAATTGGATTAATGCTCAATTTGGT
Found at i:51958209 original size:25 final size:25
Alignment explanation
Indices: 51958181--51958231 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
51958171 AGACTCGAAA
*
51958181 GACATCATTTACATTTCTGTATTGT
1 GACATCATTTACATTTCTATATTGT
*
51958206 GACATCATTTACGTTTCTATATTGT
1 GACATCATTTACATTTCTATATTGT
51958231 G
1 G
51958232 CTAACTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.47
Consensus pattern (25 bp):
GACATCATTTACATTTCTATATTGT
Found at i:51960617 original size:20 final size:21
Alignment explanation
Indices: 51960565--51960619 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
51960555 ATGAAATACA
51960565 CTGTTTGAAATGGTATGTTTAAGT
1 CTGTTTG-AAT-G-ATGTTTAAGT
*
51960589 GTGTTTGAATGATGTTTAAGT
1 CTGTTTGAATGATGTTTAAGT
51960610 CT-TTTGAATG
1 CTGTTTGAATG
51960620 TGTGCACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 8 0.28
21 11 0.38
22 1 0.03
23 3 0.10
24 6 0.21
ACGTcount: A:0.24, C:0.04, G:0.25, T:0.47
Consensus pattern (21 bp):
CTGTTTGAATGATGTTTAAGT
Found at i:51962654 original size:26 final size:26
Alignment explanation
Indices: 51962600--51962654 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
51962590 TATTTTCTCG
*
51962600 AAATTTTATCAAGGGTAAAATCATCA
1 AAATTTTATCAAGGGTAAAATCATAA
*
51962626 AAATTTTA-CTAAGGGTAAAATTATAA
1 AAATTTTATC-AAGGGTAAAATCATAA
51962652 AAA
1 AAA
51962655 AAAATTAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTTTATCAAGGGTAAAATCATAA
Found at i:51965826 original size:28 final size:28
Alignment explanation
Indices: 51965782--51965849 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
51965772 CTACTTGCAC
51965782 TTCATTATTTATGGTTTCATTGTATCCT
1 TTCATTATTTATGGTTTCATTGTATCCT
*
51965810 TTCCTTATTTATGGTTTCATTGTATCCT
1 TTCATTATTTATGGTTTCATTGTATCCT
*
51965838 TTCAATATTTAT
1 TTCATTATTTAT
51965850 TTACTAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (28 bp):
TTCATTATTTATGGTTTCATTGTATCCT
Found at i:51967713 original size:28 final size:28
Alignment explanation
Indices: 51967636--51967728 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
51967626 AACTTACCCA
* *
51967636 GTGTTTACTGTCCCAATGGGCTTACCTT-
1 GTGTTTACTGTCCCAATGGACTT-TCTTC
****
51967664 GTGTTTACTGTTTTGATGGACTTTCTTC
1 GTGTTTACTGTCCCAATGGACTTTCTTC
*
51967692 GTGTTTACTGTCCCAATAGACTTT-TCTC
1 GTGTTTACTGTCCCAATGGACTTTCT-TC
51967720 GTGTTTACT
1 GTGTTTACT
51967729 ATATCGACAG
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 4 0.08
28 48 0.92
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.46
Consensus pattern (28 bp):
GTGTTTACTGTCCCAATGGACTTTCTTC
Found at i:51968359 original size:26 final size:26
Alignment explanation
Indices: 51968330--51968384 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
51968320 TCCTAACTTC
51968330 ATCTATCCCATTGAGGTTTTCCCACA
1 ATCTATCCCATTGAGGTTTTCCCACA
51968356 ATCTATCCCATTGAGGTTTTCCCACA
1 ATCTATCCCATTGAGGTTTTCCCACA
51968382 ATC
1 ATC
51968385 ATACAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.35
Consensus pattern (26 bp):
ATCTATCCCATTGAGGTTTTCCCACA
Found at i:51975511 original size:49 final size:48
Alignment explanation
Indices: 51975311--51975576 Score: 224
Period size: 46 Copynumber: 5.6 Consensus size: 48
51975301 TGATATGTGT
* *
51975311 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AT-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATATATGAGA
* * * * * *
51975357 G-TCAATGTAAGACATGTCAGGGACATGCATCGGCAT-TA-AGATGAGA
1 GCT-AGTGTAAGACATGTCTGGGACATGCATCGACCTCGATATATGAGA
* * *
51975403 GCTAGTGTAAGACATGTCTAGGACATGCATC-AGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CCTCGATATATGA-GA
* *
51975451 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTCGATATATGAGA
* * * * *
51975500 GCCAGTGTAAGACCTGTCTGGGACACGTCATCGACCTTGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATG-CATCGACCTCGATATATGAGA
* * *
51975549 GTTAGTCTAAAACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
51975577 GCTTCGGTGT
Statistics
Matches: 176, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 65 0.37
47 3 0.02
48 30 0.17
49 61 0.35
50 16 0.09
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATATATGAGA
Found at i:51975518 original size:97 final size:96
Alignment explanation
Indices: 51975362--51975578 Score: 235
Period size: 97 Copynumber: 2.2 Consensus size: 96
51975352 TGAGAGTCAA
* * * ** *
51975362 TGTAAGACATGTCAGGGACAT-GCATCGGCATTAAGATGAGAGCTAGTGTAAGACATGTCTAGGA
1 TGTAAGACCTGTCTGGGACATGGCATCGACACGAAGATGAGAGCCAGTGTAAGACATGTCTAGGA
*
51975426 CATG-CATC-AGCCTCGAGATAT-ACAAGCTAG
66 CACGTCATCGA-CCTCGAGATATGA-AAGCTAG
* *
51975456 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTGTCTGG
1 TGTAAGACCTGTCTGGGACATGGCATCGACA-CGA-AGATGAGAGCCAGTGTAAGACATGTCTAG
* * *
51975521 GACACGTCATCGACCTTGATATATGAAAGTTAG
64 GACACGTCATCGACCTCGAGATATGAAAGCTAG
* *
51975554 TCTAAAACCATGTCTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
51975579 TTCGGTGTCT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
94 19 0.19
95 8 0.08
96 1 0.01
97 31 0.30
98 26 0.25
99 17 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (96 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACGAAGATGAGAGCCAGTGTAAGACATGTCTAGGA
CACGTCATCGACCTCGAGATATGAAAGCTAG
Found at i:51998747 original size:27 final size:27
Alignment explanation
Indices: 51998717--51998771 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
51998707 ATGTTTTTTA
51998717 ATTTTCAAAAAATA-GAAAATAAAAAAT
1 ATTTT-AAAAAATACGAAAATAAAAAAT
** *
51998744 ATTTTTTAAAATACGAAATTAAAAAAT
1 ATTTTAAAAAATACGAAAATAAAAAAT
51998771 A
1 A
51998772 GAAAAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
ATTTTAAAAAATACGAAAATAAAAAAT
Found at i:52000398 original size:13 final size:14
Alignment explanation
Indices: 52000380--52000418 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52000370 TAATAAATAA
52000380 ATTTTTATAAT-TT
1 ATTTTTATAATATT
52000393 ATTTTTATAATATT
1 ATTTTTATAATATT
* *
52000407 CTATTTATAATA
1 ATTTTTATAATA
52000419 ATAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTATAATATT
Found at i:52001356 original size:16 final size:16
Alignment explanation
Indices: 52001335--52001403 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
52001325 TTTGGTTCGC
52001335 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
52001351 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
52001367 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
52001384 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
52001400 TGTA
1 TGTA
52001404 ATAACTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:52001381 original size:33 final size:32
Alignment explanation
Indices: 52001335--52001403 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
52001325 TTTGGTTCGC
52001335 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
52001367 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
52001400 TGTA
1 TGTA
52001404 ATAACTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:52001657 original size:18 final size:17
Alignment explanation
Indices: 52001636--52001670 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52001626 TTATTATTAA
*
52001636 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
52001654 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
52001671 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:52001717 original size:61 final size:61
Alignment explanation
Indices: 52001651--52001838 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
52001641 TTTTAATTAA
52001651 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
52001712 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
52001771 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
52001832 AATATAT
1 AATATAT
52001839 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:52001768 original size:120 final size:121
Alignment explanation
Indices: 52001619--52001911 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
52001609 ATCATATTTA
52001619 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
52001684 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
52001739 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
52001804 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
52001860 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
52001912 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:52001784 original size:14 final size:15
Alignment explanation
Indices: 52001735--52001786 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
52001725 ATAAAATATA
52001735 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
52001750 TATTAAATATATTAT
1 AATTAAATATATTAT
52001765 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
52001778 AATTTAATA
1 AATTAAATA
52001787 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:52001958 original size:101 final size:93
Alignment explanation
Indices: 52001852--52002134 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
52001842 ACTATAAAAG
* * * *
52001852 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
52001916 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
52001953 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
52002016 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
52002044 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
52002107 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
52002135 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:52001981 original size:26 final size:28
Alignment explanation
Indices: 52001952--52002012 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
52001942 TATGAATTTG
*
52001952 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
52001978 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
52002006 TAAAATT
1 TATAATT
52002013 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:52002010 original size:47 final size:46
Alignment explanation
Indices: 52001959--52002102 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
52001949 TTGTATAATT
52001959 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
52002006 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
52002050 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
52002097 TAAAAT
1 TAAAAT
52002103 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:52002022 original size:91 final size:90
Alignment explanation
Indices: 52001927--52002134 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
52001917 TAATTATAAC
* * * *
52001927 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
52001992 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
52002018 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
52002083 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
52002109 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
52002135 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:52002094 original size:44 final size:43
Alignment explanation
Indices: 52001952--52002094 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
52001942 TATGAATTTG
* *
52001952 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
52001996 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
52002043 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
52002087 TATAATTT
1 TATAATTT
52002095 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:52002109 original size:47 final size:47
Alignment explanation
Indices: 52001977--52002115 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
52001967 TTATTATTAC
* *
52001977 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
52002024 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
52002068 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
52002115 A
1 A
52002116 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:52004960 original size:15 final size:15
Alignment explanation
Indices: 52004936--52004965 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52004926 GGAGGGTAAA
*
52004936 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
52004951 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
52004966 GCCAAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:52017178 original size:22 final size:23
Alignment explanation
Indices: 52017151--52017195 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
52017141 AGGTATCTAC
*
52017151 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
52017173 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
52017196 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:52017199 original size:17 final size:17
Alignment explanation
Indices: 52017177--52017229 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
52017167 ATTACAAAAT
52017177 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
52017194 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
52017213 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
52017230 TGTTTCTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:52017200 original size:22 final size:22
Alignment explanation
Indices: 52017148--52017205 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
52017138 AAAAGGTATC
* *
52017148 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
52017169 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
52017192 TACATATCATATCT
1 TACAAATCATATCT
52017206 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52021019 original size:39 final size:39
Alignment explanation
Indices: 52020976--52021054 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
52020966 CCTTTGGGTT
*
52020976 TCGACTTGGGCTTAGAACACTTACTATTATCAAACTTTC
1 TCGACTTAGGCTTAGAACACTTACTATTATCAAACTTTC
*
52021015 TCGACTTAGGCTTAGAAGACTTACTATTATCAAACTTTC
1 TCGACTTAGGCTTAGAACACTTACTATTATCAAACTTTC
52021054 T
1 T
52021055 TCCCCCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (39 bp):
TCGACTTAGGCTTAGAACACTTACTATTATCAAACTTTC
Found at i:52022356 original size:22 final size:23
Alignment explanation
Indices: 52022329--52022373 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
52022319 AGGTATCTAC
52022329 AAATCAAAT-ATCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
* *
52022351 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
52022374 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCATCTAAGATTACA
Found at i:52022367 original size:23 final size:22
Alignment explanation
Indices: 52022326--52022383 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
52022316 AAAAGGTATC
* *
52022326 TACAAATCAAAT-ATCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52022347 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
52022370 TACATATCATATCT
1 TACAAATCATATCT
52022384 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52022377 original size:17 final size:17
Alignment explanation
Indices: 52022355--52022407 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
52022345 ATTACAAAAT
52022355 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
52022372 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
52022391 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
52022408 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:52022381 original size:22 final size:23
Alignment explanation
Indices: 52022339--52022383 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
52022329 AAATCAAATA
52022339 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
52022362 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
52022384 ACGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:52023398 original size:27 final size:27
Alignment explanation
Indices: 52023333--52023430 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
52023323 TTGGTTATGG
*
52023333 AAAGTGGGATAGTTTGA-TGGGACATTA
1 AAAGTGGGATAGTCT-ATTGGGACATTA
* **
52023360 AAAGCGATATAGTCTATTGGGACATTA
1 AAAGTGGGATAGTCTATTGGGACATTA
* ** *
52023387 AAAGTGGGATAGTCCATTAAGAAATTA
1 AAAGTGGGATAGTCTATTGGGACATTA
* *
52023414 AAAATGGGATTGTCTAT
1 AAAGTGGGATAGTCTAT
52023431 CTAGAAATTT
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (27 bp):
AAAGTGGGATAGTCTATTGGGACATTA
Found at i:52028487 original size:25 final size:25
Alignment explanation
Indices: 52028449--52028498 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
52028439 ATTTTTAAAT
52028449 TTTTATGAACTTTTTTATAATTTTTA
1 TTTTATGAACTTTTTT-TAATTTTTA
* *
52028475 TTTT-TGAATTTTTTTTATTTTTTA
1 TTTTATGAACTTTTTTTAATTTTTA
52028499 AATTAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTATGAACTTTTTTTAATTTTTA
Found at i:52028496 original size:18 final size:17
Alignment explanation
Indices: 52028469--52028502 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52028459 TTTTTTATAA
*
52028469 TTTTTATTTTTGAATTT
1 TTTTTATTTTTAAATTT
52028486 TTTTTATTTTTTAAATT
1 TTTTTA-TTTTTAAATT
52028503 AATTGTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTTAAATTT
Found at i:52029413 original size:31 final size:31
Alignment explanation
Indices: 52029378--52029449 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
52029368 AAAAAATAAC
* * *
52029378 AATTCAACTCTTTTTAAAAGGTTGATGGCCA
1 AATTCAACTCTTTTTAAAAAGTTAAAGGCCA
**
52029409 AATTCCTCTCTTTTTAAAAAGTTAAAGGCCA
1 AATTCAACTCTTTTTAAAAAGTTAAAGGCCA
*
52029440 AATTTAACTC
1 AATTCAACTC
52029450 AAAAAATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAAGTTAAAGGCCA
Found at i:52031283 original size:12 final size:12
Alignment explanation
Indices: 52031266--52031296 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52031256 AGAAAGACGT
52031266 TGGCTATGGCTG
1 TGGCTATGGCTG
52031278 TGGCTATGGCTG
1 TGGCTATGGCTG
52031290 TGGCTAT
1 TGGCTAT
52031297 TAAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.16, G:0.39, T:0.35
Consensus pattern (12 bp):
TGGCTATGGCTG
Found at i:52034655 original size:36 final size:36
Alignment explanation
Indices: 52034608--52034696 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
52034598 TTGAAAGAGG
*
52034608 TTGAAGCGGGAAGTGAAGTTAACAGGGACGAGACAA
1 TTGAAGCGGGAAGTGAAGTTAACAGGGACAAGACAA
* * * **
52034644 TTGAAGTGGGAAGTGGAGTTAATAGGGACAAGATGA
1 TTGAAGCGGGAAGTGAAGTTAACAGGGACAAGACAA
52034680 TTGAAGCGGGAAGTGAA
1 TTGAAGCGGGAAGTGAA
52034697 CATGGCCGAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.37, C:0.07, G:0.38, T:0.18
Consensus pattern (36 bp):
TTGAAGCGGGAAGTGAAGTTAACAGGGACAAGACAA
Found at i:52035349 original size:3 final size:3
Alignment explanation
Indices: 52035338--52035367 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
52035328 TGATGATTAA
52035338 ATT ATTT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
52035368 ATAATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:52036201 original size:24 final size:23
Alignment explanation
Indices: 52036148--52036201 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 23
52036138 TTTCATAATC
*
52036148 ATTATTAAGTTAATTTATGAGAA
1 ATTATTAAGTTAATTTATAAGAA
* * *
52036171 TTATATTAATTTTAATTTTTAAGAA
1 AT-TATTAA-GTTAATTTATAAGAA
52036196 ATTATT
1 ATTATT
52036202 TCCTAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 10 0.42
25 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTATTAAGTTAATTTATAAGAA
Done.