Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 102 of 322
Found at i:33150933 original size:12 final size:12
Alignment explanation
Indices: 33150913--33150945 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
33150903 CGTGTCATTA
33150913 CACACGGCCTAC
1 CACACGGCCTAC
*
33150925 CACATGGCCTAC
1 CACACGGCCTAC
33150937 CACACGGCC
1 CACACGGCC
33150946 GTGTGGCGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:33154122 original size:135 final size:135
Alignment explanation
Indices: 33153951--33154199 Score: 383
Period size: 135 Copynumber: 1.8 Consensus size: 135
33153941 ACAAACAAAC
* * *
33153951 AATTAATAAATCAATAAGAATAATCCAACATAAATTACACTAATACAAGATTTAAAACTCAGTTA
1 AATTAATAAATCAATAAGAACAATCCAACATAAATTACACTAATACAAGATCTAAAACTAAGTTA
* *
33154016 ATATAGCAAACAAATTCAATGGAAATTAATAAAAACAA-AATATATGAACAAATTCAACATGAAT
66 ATATAGCAAACAAACTCAATGAAAATTAATAAAAA-AATAATATATGAACAAATTCAACATGAAT
33154080 AAAAAT
130 AAAAAT
* * * *
33154086 AATTAATAAATCAGTAAGAACAATCCAACATTAATTACACTAATACAAGATCTATAATTAAGTTA
1 AATTAATAAATCAATAAGAACAATCCAACATAAATTACACTAATACAAGATCTAAAACTAAGTTA
* *
33154151 ATATAGGAAACAAACTCAATGAAAATTAATAAAAAAATAGTATATGAAC
66 ATATAGCAAACAAACTCAATGAAAATTAATAAAAAAATAATATATGAAC
33154200 CATGCAAGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
134 2 0.02
135 100 0.98
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.26
Consensus pattern (135 bp):
AATTAATAAATCAATAAGAACAATCCAACATAAATTACACTAATACAAGATCTAAAACTAAGTTA
ATATAGCAAACAAACTCAATGAAAATTAATAAAAAAATAATATATGAACAAATTCAACATGAATA
AAAAT
Found at i:33154290 original size:15 final size:15
Alignment explanation
Indices: 33154270--33154298 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33154260 CATGAATAAA
33154270 AATAATTAATAAATC
1 AATAATTAATAAATC
33154285 AATAATTAATAAAT
1 AATAATTAATAAAT
33154299 AAGTAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATTAATAAATC
Found at i:33155144 original size:168 final size:171
Alignment explanation
Indices: 33154656--33155156 Score: 485
Period size: 175 Copynumber: 2.9 Consensus size: 171
33154646 CAATCTAACT
* * * * * * * * * * *
33154656 TGAATGAAACTAATACAAGATTTATAACTCAGTTAATACAACAA-ACAAATTCAATGAAAATTGA
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACA-AAAATCAATGGAAACTAA
* * * *
33154720 TAAGAACAAGATTGAGATTTAACTAAACTGGAACTTATAAACAAACAAATAAC-A-CTGTAAGAT
65 TAA-AAAAAGATTGAGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTGTAAGAT
* *
33154783 CCAACAAACCTTTTCAATGAGGTCCAAAACATCCAGACCAACA
129 CCAACAAACCTTTTCAATAACGTCCAAAACATCCAGACCAACA
** * * *** *
33154826 TGAATGACACTAATAAAAGATTTAGAATTCTGTTAATATAGCAACCAAATTTGTTGGAAATTAAT
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACAAAAATCAATGGAAACTAAT
* * * * *
33154891 AAAAAAAGATTCAGATTTAACTAAACTAGACCTAACAAACAAACAAACAAATAATAGTTTGTAAG
66 AAAAAAAGATTGAGATTTAACTAAACTAG----AACTAACAAACAAACAAATAACAATCTGTAAG
* * * * **
33154956 ATCCAACAAACATTTTCAATAACGTCTAGAGCATCCTTACCAACA
127 ATCCAACAAACCTTTTCAATAACGTCCAAAACATCCAGACCAACA
* * * *
33155001 CT-AATGACACTTATACAAGATTTAGAATTCAATTATTATAGTAA-AAAAATCAATGGAAACTAA
1 -TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACAAAAATCAATGGAAACTAA
* *
33155064 T-AAAAAA-ATTGGGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTATAAGATC
65 TAAAAAAAGATTGAGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTGTAAGATC
* * *
33155127 CAACAGACCTTTTCAATAAGGTCCAGAACA
130 CAACAAACCTTTTCAATAACGTCCAAAACA
33155157 ACCTGATTAT
Statistics
Matches: 269, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
168 55 0.20
169 24 0.09
170 53 0.20
172 19 0.07
173 24 0.09
174 14 0.05
175 79 0.29
176 1 0.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (171 bp):
TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACAAAAATCAATGGAAACTAAT
AAAAAAAGATTGAGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTGTAAGATCC
AACAAACCTTTTCAATAACGTCCAAAACATCCAGACCAACA
Found at i:33158449 original size:15 final size:15
Alignment explanation
Indices: 33158429--33158457 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33158419 CATGAATGAA
33158429 AATAATTAATAAATC
1 AATAATTAATAAATC
33158444 AATAATTAATAAAT
1 AATAATTAATAAAT
33158458 TAGTAAGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATTAATAAATC
Found at i:33158578 original size:16 final size:16
Alignment explanation
Indices: 33158557--33158588 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33158547 CCAAGATTAA
33158557 GATTTAACTAAATTGG
1 GATTTAACTAAATTGG
33158573 GATTTAACTAAATTGG
1 GATTTAACTAAATTGG
33158589 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
GATTTAACTAAATTGG
Found at i:33160132 original size:16 final size:16
Alignment explanation
Indices: 33160111--33160143 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33160101 TAACATCTTG
33160111 ATTATCAACAAATTTA
1 ATTATCAACAAATTTA
33160127 ATTATCAACAAATTTA
1 ATTATCAACAAATTTA
33160143 A
1 A
33160144 GATGAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTATCAACAAATTTA
Found at i:33162412 original size:68 final size:66
Alignment explanation
Indices: 33162340--33162511 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
33162330 CATCATGTGT
* * * *
33162340 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
33162403 TGTAG
62 TGTAG
** * *
33162408 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
33162473 AG
65 AG
* * * *
33162475 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
33162512 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:33162445 original size:64 final size:64
Alignment explanation
Indices: 33162364--33162547 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
33162354 AGACATTATG
* * *
33162364 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
33162428 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
33162493 AA
63 AA
* * *
33162495 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
33162548 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:33168693 original size:46 final size:46
Alignment explanation
Indices: 33168624--33169020 Score: 353
Period size: 46 Copynumber: 8.6 Consensus size: 46
33168614 TGTGAGGCAA
* *
33168624 TGTAAGACATGTCTGGGACATGCATCGGCCACAT-CATGAGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCA-ATACACGAGAGCCAG
* * * * *
33168670 TGTAAGACATGTCTGGGATATGCATCAG-CATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAAT-ACACGAGAGCCAG
* *
33168716 TGTAAGACATGTCTGGGACATGCATCGGCCACAT-CATGAGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCA-ATACACGAGAGCCAG
* * * * *
33168762 TGTAAGACATGTCTGGGATATGCATCAG-CATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAAT-ACACGAGAGCCAG
* *
33168808 TGTAAGACATGTCTGGGACATGCATCGGCCACAT-CATGAGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCA-ATACACGAGAGCCAG
* * * * *
33168854 TGTAAGACATGTCTGGGATATGCATCAG-CATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAAT-ACACGAGAGCCAG
* * * *
33168900 TGTAAGACATGTCTGGGACATGCATCGG-CATTGAGACAAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAAT-ACACGAGAGCCAG
* * * *
33168946 TATAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAC-A-AGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGG-C-C-A-ATACACGAGAGCCAG
*
33168994 TGTAAGACCTGTCTGGGACATGGCATC
1 TGTAAGACATGTCTGGGACAT-GCATC
33169021 AGCTTATTGT
Statistics
Matches: 290, Mismatches: 45, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
44 3 0.01
45 6 0.02
46 239 0.82
47 4 0.01
48 26 0.09
49 7 0.02
50 4 0.01
51 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCAATACACGAGAGCCAG
Found at i:33168781 original size:92 final size:92
Alignment explanation
Indices: 33168624--33168928 Score: 610
Period size: 92 Copynumber: 3.3 Consensus size: 92
33168614 TGTGAGGCAA
33168624 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
1 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
33168689 ATGCATCAGCATTGAGACGAGAGCTAG
66 ATGCATCAGCATTGAGACGAGAGCTAG
33168716 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
1 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
33168781 ATGCATCAGCATTGAGACGAGAGCTAG
66 ATGCATCAGCATTGAGACGAGAGCTAG
33168808 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
1 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
33168873 ATGCATCAGCATTGAGACGAGAGCTAG
66 ATGCATCAGCATTGAGACGAGAGCTAG
33168900 TGTAAGACATGTCTGGGACATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
33168929 ATTGAGACAA
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 213 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (92 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTCTGGGAT
ATGCATCAGCATTGAGACGAGAGCTAG
Found at i:33169040 original size:138 final size:134
Alignment explanation
Indices: 33168710--33169067 Score: 387
Period size: 138 Copynumber: 2.6 Consensus size: 134
33168700 TTGAGACGAG
* **
33168710 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGTGCCAGTGTAAGACATGTC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTTAT--TGAGTG-CAGTGTAAGACATGTC
* * * * *
33168775 TGGGATATGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC
62 TGGGACATGCATCGGCATTGAGACAAGAGCTAGTATAAGACATGTCTAGGACATGCATCGGCCAC
*
33168840 ATCATGAG
127 ATCATGAA
* * * ** *
33168848 TGCCAGTGTAAGACATGTCTGGGATATGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGC-TT-A-TTGAGTGC-AGTGTAAGACATGTC
33168913 TGGGACATGCATCGGCATTGAGACAAGAGCTAGTATAAGACATGTCTAGGACATGCATCGGCCTC
62 TGGGACATGCATCGGCATTGAGACAAGAGCTAGTATAAGACATGTCTAGGACATGCATCGG-C-C
*
33168978 GAGAT-AT-ACA
125 -ACATCATGA-A
* * * *
33168988 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCTTATTGTGTGTCAGTGTAAGACCTGTTTG
1 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCTTATTGAGTG-CAGTGTAAGACATGTCTG
33169053 GGACATGGCATCGGC
64 GGACAT-GCATCGGC
33169068 CTCGATATAT
Statistics
Matches: 183, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
137 2 0.01
138 129 0.70
139 13 0.07
140 28 0.15
141 11 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (134 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTTATTGAGTGCAGTGTAAGACATGTCTGGG
ACATGCATCGGCATTGAGACAAGAGCTAGTATAAGACATGTCTAGGACATGCATCGGCCACATCA
TGAA
Found at i:33169049 original size:44 final size:47
Alignment explanation
Indices: 33168624--33169113 Score: 177
Period size: 46 Copynumber: 10.6 Consensus size: 47
33168614 TGTGAGGCAA
* * * ** *
33168624 TGTAAGACATGTCTGGGACAT-GCATCGGCC-ACATCATGAGTGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTATAT-ATGAAAGTCAG
* * * * * *
33168670 TGTAAGACATGTCTGGGATAT-GCATCAGCAT-TGAGACGAGAG-CTAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTAT-ATATGAAAGTC-AG
* * * ** *
33168716 TGTAAGACATGTCTGGGACAT-GCATCGGCC-ACATCATGAGTGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTATAT-ATGAAAGTCAG
* * * * * *
33168762 TGTAAGACATGTCTGGGATAT-GCATCAGCAT-TGAGACGAGAG-CTAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTAT-ATATGAAAGTC-AG
* * * ** *
33168808 TGTAAGACATGTCTGGGACAT-GCATCGGCC-ACATCATGAGTGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTATAT-ATGAAAGTCAG
* * * * * *
33168854 TGTAAGACATGTCTGGGATAT-GCATCAGCAT-TGAGACGAGAG-CTAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTAT-ATATGAAAGTC-AG
* * *
33168900 TGTAAGACATGTCTGGGACAT-GCATC-GGC-AT-TGA-GACAAGAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTATAT-ATGA-AAG-TC-AG
* * * * *
33168946 TATAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATAT-ACAAG-CTAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCT--ATATATGA-AAGTC-AG
***
33168994 TGTAAGACCTGTCTGGGACATGGCATCAG-CT-TAT-TGTGTGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCTATATATGAAAGTCAG
* * *
33169038 TGTAAGACCTGTTTGGGACATGGCATCGGCCTCGATATATGAAAGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCAGCCT--ATATATGAAAGTCAG
33169087 TGTAAGACCTGTCTGGGACATGGCATC
1 TGTAAGACCTGTCTGGGACATGGCATC
33169114 GACTTCAATG
Statistics
Matches: 351, Mismatches: 59, Indels: 65
0.74 0.12 0.14
Matches are distributed among these distances:
43 2 0.01
44 34 0.10
45 12 0.03
46 223 0.64
47 7 0.02
48 27 0.08
49 38 0.11
50 7 0.02
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
TGTAAGACCTGTCTGGGACATGGCATCAGCCTATATATGAAAGTCAG
Found at i:33169104 original size:49 final size:49
Alignment explanation
Indices: 33168714--33169114 Score: 179
Period size: 46 Copynumber: 8.6 Consensus size: 49
33168704 GACGAGAGCT
* * * ** *
33168714 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-CATGAGTGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * * * *
33168760 AGTGTAAGACATGTCTGGGATAT-GCATCAGCATTG--AGACGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * ** *
33168805 TAGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-CATGAGTGCC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * * * *
33168852 AGTGTAAGACATGTCTGGGATAT-GCATCAGCATTG--AGACGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * *
33168897 TAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGACA--AGAG-C
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * *
33168943 TAGTATAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATAT-ACAAG-C
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAGTC
* ***
33168991 TAGTGTAAGACCTGTCTGGGACATGGCATCAG-CT---TAT-TGTGTGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
*
33169036 AGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
*
33169085 AATGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
33169115 ACTTCAATGT
Statistics
Matches: 286, Mismatches: 48, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
44 31 0.11
45 7 0.02
46 176 0.62
47 2 0.01
48 31 0.11
49 39 0.14
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
Found at i:33171798 original size:24 final size:24
Alignment explanation
Indices: 33171766--33171816 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
33171756 AACTTTTGCA
33171766 AGTTTGTATCATAAGGTAATTAGT
1 AGTTTGTATCATAAGGTAATTAGT
33171790 AGTTTGTATCATAAGGTAATTAGT
1 AGTTTGTATCATAAGGTAATTAGT
33171814 AGT
1 AGT
33171817 CAAGTGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (24 bp):
AGTTTGTATCATAAGGTAATTAGT
Found at i:33176214 original size:91 final size:91
Alignment explanation
Indices: 33176021--33176259 Score: 277
Period size: 91 Copynumber: 2.6 Consensus size: 91
33176011 ATTTGCATGC
* * * * **
33176021 TGTGTATTCACAACC-ATCTGGTAGCGTATTAACCTACAAC-CTTAGTGGTTCGCCCACCCATTA
1 TGTGTATTCACAACCGA-CTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCACCCATTA
*
33176084 TCTAGCAGTTTTTATCTACAATTATGT
65 TCTAGCAGTTTTTATCTACAATTATAT
* * *
33176111 TGTGTATTCACAACCGACTAGTAGCATATTAACCTGCAACATTTGGTGGCTCATCCACTCATTAT
1 TGTGTATTCACAACCGACTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCACCCATTAT
* * *
33176176 CTGGTAGCTTTTT-TCTGCAATTATAT
66 CTAGCAG-TTTTTATCTACAATTATAT
* * * * *
33176202 TGTGTATTCACAATCGTCTAGCAACGTATTAACCTGCAACATTTGATGGTTCATCCAC
1 TGTGTATTCACAACCGACTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCAC
33176260 AACCCGATGT
Statistics
Matches: 126, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
90 35 0.28
91 86 0.68
92 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (91 bp):
TGTGTATTCACAACCGACTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCACCCATTAT
CTAGCAGTTTTTATCTACAATTATAT
Found at i:33182355 original size:13 final size:13
Alignment explanation
Indices: 33182337--33182361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33182327 AAGTTTGAGA
33182337 TTTTGTTTTATTT
1 TTTTGTTTTATTT
33182350 TTTTGTTTTATT
1 TTTTGTTTTATT
33182362 ATATTAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTGTTTTATTT
Found at i:33182890 original size:17 final size:18
Alignment explanation
Indices: 33182870--33182914 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
33182860 TTTATGTTTT
*
33182870 TTTTAGTTTT-CTATAAA
1 TTTTAGTTTTAATATAAA
33182887 TTTTAGTTTTTAATATAAA
1 TTTTAG-TTTTAATATAAA
33182906 TTTT-GTTTT
1 TTTTAGTTTT
33182915 TTTGTCGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTAGTTTTAATATAAA
Found at i:33183023 original size:10 final size:9
Alignment explanation
Indices: 33182946--33183027 Score: 53
Period size: 9 Copynumber: 9.1 Consensus size: 9
33182936 CATTTTTATA
33182946 TATATTTTT
1 TATATTTTT
*
33182955 TATATTTTC
1 TATATTTTT
*
33182964 TAGA-TTTT
1 TATATTTTT
33182972 TATATTTTTT
1 TATA-TTTTT
* **
33182982 TGTACGTTT
1 TATATTTTT
33182991 TATCA-TTTT
1 TAT-ATTTTT
*
33183000 TATCATTATT
1 TAT-ATTTTT
*
33183010 TAT-TATTT
1 TATATTTTT
33183018 TATATTTTT
1 TATATTTTT
33183027 T
1 T
33183028 TGTAATTTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
8 12 0.22
9 29 0.53
10 14 0.25
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.70
Consensus pattern (9 bp):
TATATTTTT
Found at i:33183080 original size:20 final size:20
Alignment explanation
Indices: 33183038--33183080 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33183028 TGTAATTTAA
**
33183038 TTTTACAATTTTCTATATTT
1 TTTTACAATTTTCTATAACT
*
33183058 TTTTACAATTTTTTATAACT
1 TTTTACAATTTTCTATAACT
33183078 TTT
1 TTT
33183081 ATGATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTACAATTTTCTATAACT
Found at i:33193177 original size:25 final size:25
Alignment explanation
Indices: 33193132--33193180 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
33193122 ATCATAACGA
*
33193132 ATCGTAACATATCACAACATATCAT
1 ATCGTAACATAGCACAACATATCAT
* *
33193157 ATCGTAACATAGCATAGCATATCA
1 ATCGTAACATAGCACAACATATCA
33193181 AATCATATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (25 bp):
ATCGTAACATAGCACAACATATCAT
Found at i:33196979 original size:46 final size:46
Alignment explanation
Indices: 33196837--33197047 Score: 189
Period size: 46 Copynumber: 4.5 Consensus size: 46
33196827 TGTGCTAGTA
* * * *
33196837 TAAGACATGTTTGTGACATGCATTGGCCGC-ATTATGAGAGCCAGTG
1 TAAGACATGTTTGGGACATGCATCGGCCTCGA-GATGAGAGCCAGTG
* * * * *
33196883 TAAGACCATGTTTGGGACATGGTATCGGCATTGAGACGAGAGCTAGTG
1 TAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAGTG
33196931 TAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCCAGTG
1 TAAGACATGTTTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGTG
* * * * * *
33196977 TAAGACATGTCTGGGACATGCATCAG-CTATGAGAT--GTGTCAATG
1 TAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGAGAGCCAGTG
33197021 TAAGACCATGTTTGGGACATGTCATCG
1 TAAGA-CATGTTTGGGACATG-CATCG
33197048 ACACGTATAG
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 58 0.43
47 28 0.21
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (46 bp):
TAAGACATGTTTGGGACATGCATCGGCCTCGAGATGAGAGCCAGTG
Found at i:33197073 original size:48 final size:47
Alignment explanation
Indices: 33196975--33197139 Score: 171
Period size: 48 Copynumber: 3.5 Consensus size: 47
33196965 TGTAAGCCAG
* *
33196975 TGTAAGA-CATGTCTGGGACATGCATC-A-GCTATGAGATGTGTCAA
1 TGTAAGACCATGTCTGGGACATGCATCGACACTATGAGAGGTGTCAA
*
33197019 TGTAAGACCATGTTTGGGACATGTCATCGACACGTAT-AGAGGTGTCAA
1 TGTAAGACCATGTCTGGGACATG-CATCGACAC-TATGAGAGGTGTCAA
* * *
33197067 TGTAAGACCATGTCTGGGACATGACATCGACACAGATATGTGA-GAG-CTAG
1 TGTAAGACCATGTCTGGGACATG-CATCGACAC---TATGAGAGGTGTC-AA
33197117 TGTAAGACCATGTCTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
33197140 GCGTCGACCA
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
44 7 0.07
45 14 0.14
46 4 0.04
47 1 0.01
48 42 0.41
49 4 0.04
50 29 0.28
51 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGACACTATGAGAGGTGTCAA
Found at i:33197147 original size:50 final size:49
Alignment explanation
Indices: 33197014--33197192 Score: 163
Period size: 48 Copynumber: 3.7 Consensus size: 49
33197004 TATGAGATGT
* * * * *
33197014 GTCAATGTAAGACCATGTTTGGGACATGTCATCGA-CACG-TAT-AGAGGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATTTCA-A-GA
* * *
33197062 GTCAATGTAAGACCATGTCTGGGACATGACATCGA-CACAGATATGT-GAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-GAT-T-TCAAGA
* *
33197112 G-CTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCACGATTTCAATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATTTCAAGA
*
33197161 GTCAGTGTCAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
33197193 TGATTTGATA
Statistics
Matches: 111, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
48 37 0.33
49 33 0.30
50 36 0.32
51 4 0.04
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATTTCAAGA
Found at i:33201120 original size:19 final size:19
Alignment explanation
Indices: 33201096--33201134 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33201086 TGAGTAGAAA
**
33201096 GTCATTGTTTGCCTTGAGG
1 GTCATTGTTCACCTTGAGG
33201115 GTCATTGTTCACCTTGAGG
1 GTCATTGTTCACCTTGAGG
33201134 G
1 G
33201135 CTATAAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (19 bp):
GTCATTGTTCACCTTGAGG
Found at i:33207200 original size:46 final size:48
Alignment explanation
Indices: 33207150--33207266 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 48
33207140 TATGAGAGCC
* * * *
33207150 AGTGTAAGATATGTCTAGGACATATATCGGCATTGAGACA-A-AAGCT
1 AGTGTAAGACATGTCTAGGACATACATCAGCATCGAGACATACAAGCT
* * * *
33207196 AGTGTAAGACATGTCTGGGACATACATCAGCCTCGGGATATACAAGCT
1 AGTGTAAGACATGTCTAGGACATACATCAGCATCGAGACATACAAGCT
*
33207244 AGTGTAAGACCTGTCTAGGACAT
1 AGTGTAAGACATGTCTAGGACAT
33207267 GGTATCAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 32 0.54
47 1 0.02
48 26 0.44
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGACATACATCAGCATCGAGACATACAAGCT
Found at i:33207347 original size:49 final size:49
Alignment explanation
Indices: 33207287--33207417 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
33207277 TGTTGTGTGT
*
33207287 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
33207336 CAGTGTAAGACCTGTCTGTGACATGGCATCGTCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* * * * *
33207385 TAGTGTAAGACCTATCTAGGAAATAGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
33207418 TTTAATTTGC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:33217600 original size:21 final size:21
Alignment explanation
Indices: 33217571--33217619 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
33217561 ATTACAACCC
*
33217571 AAATCATTTTAAATCATTAATG
1 AAAT-ATTTAAAATCATTAATG
* * *
33217593 AAATATTTAAAATGATTTATT
1 AAATATTTAAAATCATTAATG
33217614 AAATAT
1 AAATAT
33217620 AATTTTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATATTTAAAATCATTAATG
Found at i:33226611 original size:21 final size:20
Alignment explanation
Indices: 33226573--33226611 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33226563 GGGAGGGAGA
*
33226573 GGGATGGTGAGGGAGAGAAG
1 GGGACGGTGAGGGAGAGAAG
*
33226593 GGGACGGTGGAGGGGGAGA
1 GGGACGGT-GAGGGAGAGA
33226612 GGGACAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.64, T:0.08
Consensus pattern (20 bp):
GGGACGGTGAGGGAGAGAAG
Found at i:33226614 original size:20 final size:19
Alignment explanation
Indices: 33226567--33226614 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
33226557 TAATGTGGGA
*
33226567 GGGAGA-GGGATGGTGAGG
1 GGGAGAGGGGACGGTGAGG
*
33226585 GAGAGAAGGGGACGGTGGAGG
1 GGGAG-AGGGGACGGT-GAGG
33226606 GGGAGAGGG
1 GGGAGAGGG
33226615 ACAGGGACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 1 0.04
20 11 0.46
21 8 0.33
ACGTcount: A:0.25, C:0.02, G:0.67, T:0.06
Consensus pattern (19 bp):
GGGAGAGGGGACGGTGAGG
Found at i:33228030 original size:28 final size:28
Alignment explanation
Indices: 33227967--33228031 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
33227957 TAATTTGTAA
* *
33227967 TAATATTTTTGTAATTTTTATATTTTTG
1 TAATATTTTTGCAATTTCTATATTTTTG
*
33227995 T-ATGATTTTTGCACCTTTCTATATTTTT-
1 TAAT-ATTTTTGCA-ATTTCTATATTTTTG
33228023 TAATATTTT
1 TAATATTTT
33228032 GAATTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.06
28 15 0.48
29 14 0.45
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (28 bp):
TAATATTTTTGCAATTTCTATATTTTTG
Found at i:33228125 original size:10 final size:10
Alignment explanation
Indices: 33228110--33228173 Score: 58
Period size: 10 Copynumber: 6.0 Consensus size: 10
33228100 TTTTATTATG
33228110 TTAATAATTT
1 TTAATAATTT
33228120 TTAATAATTT
1 TTAATAATTT
*
33228130 CTGAA-AATTT
1 -TTAATAATTT
*
33228140 TTAAAAATTTAT
1 TTAATAA-TT-T
33228152 ATTAATAATTT
1 -TTAATAATTT
33228163 TTAATGAATTT
1 TTAAT-AATTT
33228174 ATATGTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 3 0.07
10 22 0.49
11 11 0.24
12 3 0.07
13 6 0.13
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (10 bp):
TTAATAATTT
Found at i:33229392 original size:5 final size:6
Alignment explanation
Indices: 33229372--33229401 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
33229362 AAATGCAAAC
33229372 TTTAGTT TTTATT TTTATT TTTATT TTTAT
1 TTTA-TT TTTATT TTTATT TTTATT TTTAT
33229402 GAATAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:33230077 original size:20 final size:21
Alignment explanation
Indices: 33230052--33230091 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
33230042 CTCTTGAAAC
33230052 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
33230072 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
33230092 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:33231475 original size:46 final size:47
Alignment explanation
Indices: 33231346--33231562 Score: 223
Period size: 46 Copynumber: 4.6 Consensus size: 47
33231336 AGGCCGCCTC
* * *
33231346 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTA-CCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CATAGCCGATG
* *
33231395 CCCTGTCCCAGACATGGTCTTACACTGAC--ACATCTCATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGCCGATG
*
33231441 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGA-GGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-ATAGCCGATG
* *** *
33231487 CATGTCCCAGACAT-GTCTTACACTAGCTTTTGTCTCA-ATGCCGATAC
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATA-GCCGAT-G
33231534 CATGTCCCAGACATGGTCTTACACTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
33231563 CTCATAATGT
Statistics
Matches: 145, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 63 0.43
47 15 0.10
48 13 0.09
50 25 0.17
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGCCGATG
Found at i:33231556 original size:94 final size:91
Alignment explanation
Indices: 33231344--33231610 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 91
33231334 AAAGGCCGCC
* *
33231344 TCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTA-CCGATGCCCTGTCCCAGAC
1 TCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAT-CG-AGCCGATG-CATGTCCCAGAC
33231408 ATGGTCTTACACTGACACATCTCATAGCCGA
62 AT-GTCTTACACTGACACATCTCATAGCCGA
* *
33231439 TGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCAGACATG
1 TCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGA-GCCGATGCATGTCCCAGACATG
***
33231502 TCTTACACT-AGCTTTTGTCTCA-ATGCCGA
65 TCTTACACTGA-C--ACATCTCATA-GCCGA
* * *
33231531 TACCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGACCAATGCATGTCCCAAACA
1 T-CCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCGAG-CCGATGCATGTCCCAGACA
*
33231594 TGTCTTACACTGGCACA
63 TGTCTTACACTGACACA
33231611 CAAATAACCC
Statistics
Matches: 144, Mismatches: 16, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
89 1 0.01
90 12 0.08
91 16 0.11
92 22 0.15
93 16 0.11
94 60 0.42
95 17 0.12
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (91 bp):
TCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAGCCGATGCATGTCCCAGACATGT
CTTACACTGACACATCTCATAGCCGA
Found at i:33237886 original size:21 final size:21
Alignment explanation
Indices: 33237862--33237917 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
33237852 GAAACAGGGC
* *
33237862 ACACACCCTTGTGGAAGGACA
1 ACACGCCCATGTGGAAGGACA
* *
33237883 ACACGCCCATGTAGAAGGGCA
1 ACACGCCCATGTGGAAGGACA
*
33237904 ACACGCCCGTGTGG
1 ACACGCCCATGTGG
33237918 TCATTATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.30, G:0.29, T:0.12
Consensus pattern (21 bp):
ACACGCCCATGTGGAAGGACA
Found at i:33239263 original size:47 final size:45
Alignment explanation
Indices: 33239200--33239324 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 45
33239190 ACATCTCGTA
*
33239200 GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-
1 GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTG
*
33239246 GCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTG
*
33239294 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATATCCCAGACATGTCTTACACT
33239325 GGCACACAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 2 0.03
46 18 0.25
47 28 0.39
48 23 0.32
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCATAAGTG
Found at i:33239303 original size:94 final size:95
Alignment explanation
Indices: 33239052--33239324 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 95
33239042 TTTGGGGTAT
* * ** ** *
33239052 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCTAACGCCATAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GTGGCCGATG-CATAT
*
33239117 CCCAGACATGGTCTTACAATAGCTCTCACATATC
64 CCCAGACAT-GTCTTACACTAGCTCT-ACATATC
** * * * * *
33239151 CGTGTCGATGCCATGTCCCAAACATGGTCTTACACTGACACATC-T--CGTAGCCGATGCATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCATAATGTGGCCGATGCATATC
* *
33239213 CCAGACATGTCTTACACTAGCTCT-CGTCTC
65 CCAGACATGTCTTACACTAGCTCTACATATC
* * * *
33239243 AATGCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCATATCC
33239308 CAGACATGTCTTACACT
66 CAGACATGTCTTACACT
33239325 GGCACACAAA
Statistics
Matches: 142, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
91 2 0.01
92 38 0.27
94 47 0.33
95 14 0.10
96 4 0.03
99 35 0.25
100 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCATATCC
CAGACATGTCTTACACTAGCTCTACATATC
Found at i:33240382 original size:26 final size:26
Alignment explanation
Indices: 33240352--33240405 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33240342 AAGCATGAAA
33240352 TCGCTAAAATCAATTCACCAAAATTT
1 TCGCTAAAATCAATTCACCAAAATTT
33240378 TCGCTAAAATCAATTCACCAAAATTT
1 TCGCTAAAATCAATTCACCAAAATTT
33240404 TC
1 TC
33240406 ATACTCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (26 bp):
TCGCTAAAATCAATTCACCAAAATTT
Found at i:33246287 original size:49 final size:47
Alignment explanation
Indices: 33246019--33246371 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
33246009 CCCTTCGGGA
* * * *
33246019 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33246066 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33246113 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33246160 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33246207 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33246254 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33246303 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33246352 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
33246372 GTACATCAAT
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33259651 original size:23 final size:23
Alignment explanation
Indices: 33259625--33259670 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
33259615 GAGAGGATGG
*
33259625 AGTAAGCTTAAAGCTTAGTAAGT
1 AGTAAGCTTAAAGCTTACTAAGT
33259648 AGTAAGCTTAAAGCTTACTAAGT
1 AGTAAGCTTAAAGCTTACTAAGT
33259671 CCATAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (23 bp):
AGTAAGCTTAAAGCTTACTAAGT
Found at i:33260627 original size:50 final size:50
Alignment explanation
Indices: 33260535--33260919 Score: 355
Period size: 50 Copynumber: 7.7 Consensus size: 50
33260525 CTGGTATGCA
* * * * *
33260535 TAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* *
33260585 TAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* * * * ****
33260635 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTTAA-CGGGTATGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACG
* * * *
33260686 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* *
33260736 TAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* * * * ** **
33260786 TAGTAGCCTACATTTAGTACTACACACGTGA-TCGAAGTTAATAAG-TACATA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACG
* * * * ** * *
33260837 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATTAATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
33260887 TAGTAGCCTGCACTTAGTACTACACACGTGACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT
33260920 CACAACGAAT
Statistics
Matches: 267, Mismatches: 58, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
49 9 0.03
50 188 0.70
51 66 0.25
52 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
Found at i:33260803 original size:151 final size:151
Alignment explanation
Indices: 33260527--33260919 Score: 651
Period size: 151 Copynumber: 2.6 Consensus size: 151
33260517 GAAGCTCTCT
* * *
33260527 GGTATGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGATACACGTAGTAGC
1 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
33260592 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
*
33260657 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACA
*
33260678 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
1 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
33260743 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACATTTAGTACTA
66 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
*
33260808 CACACGTGATCGAAGTTAATA
131 CACACGTGATCGAAGTTAACA
* ** * * *
33260829 AGTACATATAGTAGCTTGCACTTAGTACTACACATGCGACCTATTAATCTGGTACACATAGTAGC
1 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
33260894 CTGCACTTAGTACTACACACGTGACT
66 CTGCACTTAGTACTACACACATGACT
33260920 CACAACGAAT
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 226 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
CACACGTGATCGAAGTTAACA
Found at i:33260834 original size:101 final size:101
Alignment explanation
Indices: 33260533--33260917 Score: 287
Period size: 101 Copynumber: 3.8 Consensus size: 101
33260523 CTCTGGTATG
* ** * * *
33260533 CATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
* * ** **
33260598 TTAGTACTACACACATGA-CTTAA--CCATCTGATACA
66 TTAGTACTACACACGTGATC-GAAGTTAATAAG-TACA
* ** * * * * * *** *
33260633 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTATGTATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAA--CAATCTGATACACATAGTAGCCTAC
* ** * **
33260697 ACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACA
64 ACTTAGTACTACACACGTGATCGAAGTTAAT-AAGTACA
* * * * * *
33260734 CGTAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACAT
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
33260799 TTAGTACTACACACGTGATCGAAGTTAATAAGTACA
66 TTAGTACTACACACGTGATCGAAGTTAATAAGTACA
* * ** ** * *
33260835 TATAGTAGCTTGCACTTAGTACTACACATGCGACCTATTAATCTGGTACACATAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
33260900 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
33260918 CTCACAACGA
Statistics
Matches: 223, Mismatches: 55, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
99 1 0.00
100 64 0.29
101 151 0.68
102 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
TTAGTACTACACACGTGATCGAAGTTAATAAGTACA
Found at i:33261118 original size:30 final size:30
Alignment explanation
Indices: 33261082--33261144 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
33261072 AAAGATAATA
33261082 ACATAAAAAGAATCGAAATATTATTTACAT
1 ACATAAAAAGAATCGAAATATTATTTACAT
*
33261112 ACATAAAAAGAATTGAAATATTATTTACAT
1 ACATAAAAAGAATCGAAATATTATTTACAT
33261142 ACA
1 ACA
33261145 AACTTAATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (30 bp):
ACATAAAAAGAATCGAAATATTATTTACAT
Found at i:33265503 original size:25 final size:25
Alignment explanation
Indices: 33265447--33265496 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33265437 TACTCCCTTG
33265447 AGAGATTAGCTAACTTGTACGTTTA
1 AGAGATTAGCTAACTTGTACGTTTA
33265472 AGAGATTAGCTAACTTGTACGTTTA
1 AGAGATTAGCTAACTTGTACGTTTA
33265497 TAAGATTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (25 bp):
AGAGATTAGCTAACTTGTACGTTTA
Found at i:33267810 original size:46 final size:45
Alignment explanation
Indices: 33267636--33267810 Score: 131
Period size: 46 Copynumber: 3.8 Consensus size: 45
33267626 AGCTATTGTG
* **
33267636 AGCTAGTGTAACACATGTCTGGGACATGCATCGGCCAT-A-TTATAA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGACAT-A
* * * *
33267681 GAGCTGGTGTAAGACTATGTCTGGGACATGGTATCGGCATTGAGACGA-G
1 -AGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CTGAGAC-ATA
* * * * * *
33267730 CGCTAATGTATGACATGTCTAGAACATGCTTCGGCCTCGAGACATA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGACATA
*
33267776 AGCTAGTGTAAGACATGTCTGGGATATGCATCGGC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
33267811 TACGAGATGT
Statistics
Matches: 97, Mismatches: 24, Indels: 16
0.71 0.18 0.12
Matches are distributed among these distances:
45 2 0.02
46 51 0.53
47 24 0.25
48 18 0.19
49 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGACATA
Found at i:33281631 original size:16 final size:16
Alignment explanation
Indices: 33281610--33281647 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
33281600 TTTGGTTCAC
* *
33281610 TGTAATGGAATATAGT
1 TGTAATAGAATAGAGT
33281626 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGT
33281642 TGTAAT
1 TGTAAT
33281648 CAGTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:33285842 original size:26 final size:25
Alignment explanation
Indices: 33285792--33285843 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
33285782 GATGATTATT
*
33285792 ATTATTGTTATTAAATTTTAATAAA
1 ATTATTGTTAATAAATTTTAATAAA
* *
33285817 ATTATTGTTAAATATATTTTATTAAA
1 ATTATTGTT-AATAAATTTTAATAAA
33285843 A
1 A
33285844 AATAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTATTGTTAATAAATTTTAATAAA
Found at i:33285879 original size:59 final size:57
Alignment explanation
Indices: 33285806--33285947 Score: 167
Period size: 59 Copynumber: 2.4 Consensus size: 57
33285796 TTGTTATTAA
* * * * * * *
33285806 ATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAATTGAATAAAAAATAAT--ATAATTTAATAAC
* *
33285865 ATTTTAACATAATTATTATTAAATATAATTGAATAAAATATAATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTGAATAAAAAATAATATAATTTAATAAC
33285922 ATTCTTAATATAATTATTATATAAAT
1 ATT-TTAATATAATTATTAT-TAAAT
33285948 TAAAAAATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
57 14 0.20
58 15 0.21
59 42 0.59
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATATAATTGAATAAAAAATAATATAATTTAATAAC
Found at i:33294204 original size:20 final size:20
Alignment explanation
Indices: 33294179--33294218 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33294169 TCTGACATGC
*
33294179 TATTTTAGTTTTAAGATATA
1 TATTTTAGTTTTAAAATATA
*
33294199 TATTTTATTTTTAAAATATA
1 TATTTTAGTTTTAAAATATA
33294219 ATTATATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TATTTTAGTTTTAAAATATA
Found at i:33297022 original size:17 final size:17
Alignment explanation
Indices: 33296997--33297038 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
33296987 GTTATTTACC
*
33296997 ATTTTAAACCCTTAGCT
1 ATTTAAAACCCTTAGCT
33297014 ATTTAAAACCCTTAGCT
1 ATTTAAAACCCTTAGCT
33297031 ATTTAAAA
1 ATTTAAAA
33297039 ATATATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTTAAAACCCTTAGCT
Found at i:33297720 original size:170 final size:169
Alignment explanation
Indices: 33297404--33297739 Score: 487
Period size: 170 Copynumber: 2.0 Consensus size: 169
33297394 TCATTCTACC
*
33297404 AATAATAATAATATCATCAATTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACAC
1 AATAATAAGAATATCATCAATTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACAC
* * * * * * *
33297469 CCCGTACCTAGCTTGGACGTCAAGCAGAACATTGAGATGCCAAACCATCGTCTCACATTGATTTT
66 CCCATACCTAGCCTGGACGTCAACCAGAACATAGAGATGCCAAACCACCGTCTCACATTAATTTC
* *
33297534 ATTATCATTTTCACGTTTGACATACATGCGTTTTTTACT
131 ATTATCATTGTCACGTTTGACATACATGCATTTTTTACT
* *
33297573 AATAATGAGAATATCATCAAGTTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACG
1 AATAATAAGAATATCATCAA-TTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACA
* * *
33297638 TCCCATA-CTGAGCCTGGATGTCAAACCA-AATATAGAGATGCCAAACCACCGTCTCACATTAAT
65 CCCCATACCT-AGCCTGGACGTC-AACCAGAACATAGAGATGCCAAACCACCGTCTCACATTAAT
*
33297701 TTCATTATTATTGTCACGTTTGACATACATGCATTTTTT
128 TTCATTATCATTGTCACGTTTGACATACATGCATTTTTT
33297740 TCATTATTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
169 20 0.14
170 124 0.84
171 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (169 bp):
AATAATAAGAATATCATCAATTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACAC
CCCATACCTAGCCTGGACGTCAACCAGAACATAGAGATGCCAAACCACCGTCTCACATTAATTTC
ATTATCATTGTCACGTTTGACATACATGCATTTTTTACT
Found at i:33302288 original size:17 final size:19
Alignment explanation
Indices: 33302266--33302302 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
33302256 ATTTTTTGTG
33302266 TAATATATTA-AT-TTATA
1 TAATATATTACATATTATA
*
33302283 TAATATTTTACATATTATA
1 TAATATATTACATATTATA
33302302 T
1 T
33302303 CATACTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATTACATATTATA
Found at i:33303982 original size:174 final size:173
Alignment explanation
Indices: 33303670--33303982 Score: 409
Period size: 174 Copynumber: 1.8 Consensus size: 173
33303660 AATTGCTATT
*
33303670 GTTTGGGCTAAGGTTGTAATTTCAAAACTTGAAAAGTACAAGGACTAAATTTAATCAATTTAAAA
1 GTTTGGGCTAAGGTTGTAATTTCAAAACTTGAAAAGTACAAGGACTAAAATTAATCAATTTAAAA
* * * *
33303735 AGTATAAGGACTAAATTTGAATAAAATAAAGTATAGGGATTAAATCCATAGTTTACACATATTAC
66 AGTATAAGGACTAAATTTGAATAAAATAAAGTATAGAGATTAAATCCACAATTTACACATAGTAC
33303800 AAGATTAATAGCATTATTTAGCCAACTAGATTTCACTTCTACA
131 AAGATTAATAGCATTATTTAGCCAACTAGATTTCACTTCTACA
* * * *
33303843 GTTTGGGTTTAGGATTGTAATTTCAAAATTTGAAAAGTA-GAGAGACTAAAATTAATC-ATTTCA
1 GTTTGGGCTAAGG-TTGTAATTTCAAAACTTGAAAAGTACAAG-GACTAAAATTAATCAATTT-A
* * * * * **
33303906 AAAAGTATATGGGCTAAATTTG-ATCTAATTAAAGTATA-AGATTAAATTCACAATTTATGCATA
63 AAAAGTATAAGGACTAAATTTGAAT-AAAATAAAGTATAGAGATTAAATCCACAATTTACACATA
33303969 GTACAATGATTAAT
127 GTACAA-GATTAAT
33303983 GGACAAATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
173 43 0.36
174 76 0.64
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (173 bp):
GTTTGGGCTAAGGTTGTAATTTCAAAACTTGAAAAGTACAAGGACTAAAATTAATCAATTTAAAA
AGTATAAGGACTAAATTTGAATAAAATAAAGTATAGAGATTAAATCCACAATTTACACATAGTAC
AAGATTAATAGCATTATTTAGCCAACTAGATTTCACTTCTACA
Found at i:33307731 original size:15 final size:15
Alignment explanation
Indices: 33307711--33307739 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33307701 AAGATGTGTG
33307711 AAATCCTTCAAGAAA
1 AAATCCTTCAAGAAA
33307726 AAATCCTTCAAGAA
1 AAATCCTTCAAGAA
33307740 TTAATTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATCCTTCAAGAAA
Found at i:33318831 original size:21 final size:21
Alignment explanation
Indices: 33318805--33318848 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33318795 TCAAGCATGC
33318805 TAGACCTTCTTTAAAAATTCT
1 TAGACCTTCTTTAAAAATTCT
33318826 TAGACCTTCTTTAAAAATTCT
1 TAGACCTTCTTTAAAAATTCT
33318847 TA
1 TA
33318849 CTCATAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (21 bp):
TAGACCTTCTTTAAAAATTCT
Found at i:33319714 original size:72 final size:72
Alignment explanation
Indices: 33319597--33319739 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
33319587 GTACACATAA
* *
33319597 TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAATTGCCATTGGTT
1 TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAACTGCCACTGGTT
33319662 TTAGACT
66 TTAGACT
* *
33319669 TAGAGATGTTCTTAACAATGATGTTGAACCTAGGAGGAGTAAAAGACAAAGAACTGCCACTGGTT
1 TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAACTGCCACTGGTT
33319734 TTAGAC
66 TTAGAC
33319740 CTGATTTTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (72 bp):
TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAACTGCCACTGGTT
TTAGACT
Found at i:33320850 original size:40 final size:40
Alignment explanation
Indices: 33320806--33320885 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
33320796 TTAAGCACAC
*
33320806 ATCATTAAAAGGTACACTTATTACATATATTAGTTAATAT
1 ATCATTAAAAGGCACACTTATTACATATATTAGTTAATAT
*
33320846 ATCATTAACAGGCACACTTATTACATATATTAGTTAATAT
1 ATCATTAAAAGGCACACTTATTACATATATTAGTTAATAT
33320886 GTCTAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (40 bp):
ATCATTAAAAGGCACACTTATTACATATATTAGTTAATAT
Found at i:33329209 original size:21 final size:21
Alignment explanation
Indices: 33329183--33329237 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
33329173 GTTTGGTGGG
*
33329183 CACACGGGCGTGTAAGACCCT
1 CACACGGTCGTGTAAGACCCT
33329204 CACACGGTCGTGTAAGACCCT
1 CACACGGTCGTGTAAGACCCT
33329225 CACACGGTCGTGT
1 CACACGGTCGTGT
33329238 CTACCCTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
CACACGGTCGTGTAAGACCCT
Found at i:33329397 original size:19 final size:19
Alignment explanation
Indices: 33329373--33329409 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33329363 GTATTGACCC
* *
33329373 TCCACACGGCCTAGGCATT
1 TCCACAAGGCCAAGGCATT
33329392 TCCACAAGGCCAAGGCAT
1 TCCACAAGGCCAAGGCAT
33329410 ACAGTCGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.35, G:0.22, T:0.16
Consensus pattern (19 bp):
TCCACAAGGCCAAGGCATT
Found at i:33329536 original size:17 final size:17
Alignment explanation
Indices: 33329514--33329548 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33329504 TGAGGGTAGT
33329514 TAAGACTCTAATTTGGG
1 TAAGACTCTAATTTGGG
33329531 TAAGACTCTAATTTGGG
1 TAAGACTCTAATTTGGG
33329548 T
1 T
33329549 TGCAGCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (17 bp):
TAAGACTCTAATTTGGG
Found at i:33331782 original size:18 final size:19
Alignment explanation
Indices: 33331755--33331800 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
33331745 AAAAAGTTGT
*
33331755 TTTTACATATATTAATAAA
1 TTTTATATATATTAATAAA
*
33331774 TTTATATATATATTAGTAAA
1 TTT-TATATATATTAATAAA
33331794 -TTTATAT
1 TTTTATAT
33331801 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 5 0.21
20 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATATATTAATAAA
Found at i:33331786 original size:20 final size:20
Alignment explanation
Indices: 33331761--33331800 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33331751 TTGTTTTTAC
33331761 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
*
33331781 ATATATTAGTAAATTTATAT
1 ATATATTAATAAATTTATAT
33331801 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:33332232 original size:25 final size:24
Alignment explanation
Indices: 33332188--33332235 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33332178 TTTTTCTATG
*
33332188 CTTCTTATTTTTAACTAAAAAAAC
1 CTTCTTACTTTTAACTAAAAAAAC
33332212 CTTCTTACTTTTAACTAAAAAAAC
1 CTTCTTACTTTTAACTAAAAAAAC
33332236 TTTGGCCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (24 bp):
CTTCTTACTTTTAACTAAAAAAAC
Found at i:33333192 original size:21 final size:21
Alignment explanation
Indices: 33333127--33333192 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 21
33333117 TAACCAACCA
*
33333127 AATAAATTCAGTATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
33333148 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
33333173 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
33333193 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:33333193 original size:32 final size:32
Alignment explanation
Indices: 33333166--33333226 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
33333156 CAACAAGCTT
* *
33333166 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
33333198 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
33333227 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:33333412 original size:12 final size:12
Alignment explanation
Indices: 33333395--33333419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33333385 TAGCAGATCA
33333395 TTCTCTTTCTTC
1 TTCTCTTTCTTC
33333407 TTCTCTTTCTTC
1 TTCTCTTTCTTC
33333419 T
1 T
33333420 CGCTCCGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTTCTTC
Found at i:33336706 original size:17 final size:17
Alignment explanation
Indices: 33336686--33336721 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33336676 TAGTTGATAG
33336686 AATTACAGCAAACAACA
1 AATTACAGCAAACAACA
* *
33336703 AATTGCAGCAAACAGCA
1 AATTACAGCAAACAACA
33336720 AA
1 AA
33336722 CAGAGGAAGT
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:0.56, C:0.22, G:0.11, T:0.11
Consensus pattern (17 bp):
AATTACAGCAAACAACA
Found at i:33342187 original size:22 final size:22
Alignment explanation
Indices: 33342162--33342205 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
33342152 TAATTGTATG
33342162 TATTAATTA-AAATGTATTTAAT
1 TATT-ATTACAAATGTATTTAAT
* *
33342184 TATTTTTACAAATTTATTTAAT
1 TATTATTACAAATGTATTTAAT
33342206 GTTTCACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATTACAAATGTATTTAAT
Found at i:33342822 original size:28 final size:29
Alignment explanation
Indices: 33342768--33342823 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
33342758 TCTAATGTTT
**
33342768 TTTTAGATATATTTAAGTTAAATTAAATA
1 TTTTAGATATATTTAAAATAAATTAAATA
33342797 TTTTAGAGTAT-TTTAAAATAAA-TAAAT
1 TTTTAGA-TATATTTAAAATAAATTAAAT
33342824 TAAACAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 16 0.67
30 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (29 bp):
TTTTAGATATATTTAAAATAAATTAAATA
Found at i:33343638 original size:3 final size:3
Alignment explanation
Indices: 33343625--33343653 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
33343615 TATTCTTTAC
33343625 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33343654 AGTGAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:33344172 original size:17 final size:17
Alignment explanation
Indices: 33344150--33344186 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33344140 CTTGTAACAC
33344150 TTTAAAAGTTTCATTAT
1 TTTAAAAGTTTCATTAT
33344167 TTTAAAAGTTTCATTAT
1 TTTAAAAGTTTCATTAT
33344184 TTT
1 TTT
33344187 GTTTACTAAT
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:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTAAAAGTTTCATTAT
Found at i:33352494 original size:22 final size:22
Alignment explanation
Indices: 33352469--33352514 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
33352459 TTTCAGGGTT
33352469 TAATTTTTATCTCCATTTTTTG
1 TAATTTTTATCTCCATTTTTTG
33352491 TAATTTTTATCTCCATTTTTTG
1 TAATTTTTATCTCCATTTTTTG
33352513 TA
1 TA
33352515 CTCTTCGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.63
Consensus pattern (22 bp):
TAATTTTTATCTCCATTTTTTG
Found at i:33356685 original size:38 final size:37
Alignment explanation
Indices: 33356632--33356713 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 37
33356622 TGAGAGCAGA
33356632 AATGTAATGGCAATAAC-AAGAGTGATTATCCGAAAAG
1 AATGTAATGGCAATAACGAA-AGTGATTATCCGAAAAG
* *
33356669 AATTGTAATGGCAATAACGAAAGTGATTATCGGAAAAT
1 AA-TGTAATGGCAATAACGAAAGTGATTATCCGAAAAG
33356707 AATGTAA
1 AATGTAA
33356714 ATAAAGAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 7 0.17
38 32 0.78
39 2 0.05
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (37 bp):
AATGTAATGGCAATAACGAAAGTGATTATCCGAAAAG
Found at i:33363633 original size:15 final size:15
Alignment explanation
Indices: 33363609--33363642 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
33363599 TTTCTTACGC
33363609 ACAT-AGGGACTCAA
1 ACATAAGGGACTCAA
33363623 ACATAAGGGACTCAA
1 ACATAAGGGACTCAA
33363638 ACATA
1 ACATA
33363643 GAACCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.15
Consensus pattern (15 bp):
ACATAAGGGACTCAA
Found at i:33367201 original size:50 final size:50
Alignment explanation
Indices: 33367120--33367230 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 50
33367110 CGGACTAGGG
* **
33367120 ACACGAGCA-TGTGCCCAGGCCGTGTAACTCACTGGTCACGATTTTGAAAC
1 ACACGAG-AGTGTGCCCAGGCCATGTAACTCACTGGTCACGATTTAAAAAC
* *
33367170 ACACGAGAGTGTGCCCAGGCCATGTACCTCACTGGTCATGATTTAAAAAC
1 ACACGAGAGTGTGCCCAGGCCATGTAACTCACTGGTCACGATTTAAAAAC
33367220 ACAC-AG-GTGTG
1 ACACGAGAGTGTG
33367231 TTCCAGGCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 5 0.09
49 3 0.05
50 47 0.85
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (50 bp):
ACACGAGAGTGTGCCCAGGCCATGTAACTCACTGGTCACGATTTAAAAAC
Found at i:33377648 original size:40 final size:40
Alignment explanation
Indices: 33377593--33377675 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
33377583 AGAAGTTTGA
33377593 TATTCATCCAATCAATATACCTTGCATGTAAGTGAAATTT
1 TATTCATCCAATCAATATACCTTGCATGTAAGTGAAATTT
33377633 TATTCATCCAATCAATATACCTTGCATGTAAGTGAAATTT
1 TATTCATCCAATCAATATACCTTGCATGTAAGTGAAATTT
33377673 TAT
1 TAT
33377676 CTCGTTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (40 bp):
TATTCATCCAATCAATATACCTTGCATGTAAGTGAAATTT
Found at i:33378882 original size:13 final size:14
Alignment explanation
Indices: 33378864--33378892 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33378854 ATATTCAAAA
33378864 CATACC-AAATCAT
1 CATACCAAAATCAT
33378877 CATACCAAAATCAT
1 CATACCAAAATCAT
33378891 CA
1 CA
33378893 AACTCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
CATACCAAAATCAT
Found at i:33381434 original size:25 final size:25
Alignment explanation
Indices: 33381400--33381451 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
33381390 AGAAAGGTGA
33381400 ATGTATGTAATTCATTTCATGCTAT
1 ATGTATGTAATTCATTTCATGCTAT
33381425 ATGTATGTAATTCATTTCATGCTAT
1 ATGTATGTAATTCATTTCATGCTAT
33381450 AT
1 AT
33381452 ACCATGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (25 bp):
ATGTATGTAATTCATTTCATGCTAT
Found at i:33383044 original size:19 final size:18
Alignment explanation
Indices: 33382997--33383045 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
33382987 GTGACCCCTA
*
33382997 TTTTCAAAATTTTTTAATT
1 TTTTTAAAA-TTTTTAATT
*
33383016 TTTTTAAAATTTTTAGTT
1 TTTTTAAAATTTTTAATT
*
33383034 TTGTTTCAAATT
1 TT-TTTAAAATT
33383046 AGTCCTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTTAAAATTTTTAATT
Found at i:33383344 original size:34 final size:34
Alignment explanation
Indices: 33383299--33383452 Score: 200
Period size: 34 Copynumber: 4.5 Consensus size: 34
33383289 CATGCGAACT
* *
33383299 CCCATGTTATATAGTATGATGTAGTATGCAAACC
1 CCCATGTTATATAGTATGACGTAGTATGTAAACC
* * *
33383333 CTCATGTTATATAGTATGGCGTAGTATGTGAACC
1 CCCATGTTATATAGTATGACGTAGTATGTAAACC
* * *
33383367 CCCATGTTATATAGTATGACATAGTATGTGAATC
1 CCCATGTTATATAGTATGACGTAGTATGTAAACC
* *
33383401 CCCATGTTATATAGTATGAAGTAGTATGTGAACC
1 CCCATGTTATATAGTATGACGTAGTATGTAAACC
* *
33383435 CCCATGCTATATAATATG
1 CCCATGTTATATAGTATG
33383453 TGATTTATGT
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 106 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (34 bp):
CCCATGTTATATAGTATGACGTAGTATGTAAACC
Found at i:33383408 original size:68 final size:68
Alignment explanation
Indices: 33383294--33383452 Score: 221
Period size: 68 Copynumber: 2.3 Consensus size: 68
33383284 TTTAGCATGC
* ** **
33383294 GAACTCCCATGTTATATAGTATGATGTAGTATGCAAACCCTCATGTTATATAGTATGGCGTAGTA
1 GAACCCCCATGTTATATAGTATGACATAGTATGCAAACCCTCATGTTATATAGTATGAAGTAGTA
33383359 TGT
66 TGT
* *
33383362 GAACCCCCATGTTATATAGTATGACATAGTATGTGAATCCC-CATGTTATATAGTATGAAGTAGT
1 GAACCCCCATGTTATATAGTATGACATAGTATG-CAAACCCTCATGTTATATAGTATGAAGTAGT
33383426 ATGT
65 ATGT
* *
33383430 GAACCCCCATGCTATATAATATG
1 GAACCCCCATGTTATATAGTATG
33383453 TGATTTATGT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 76 0.94
69 5 0.06
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (68 bp):
GAACCCCCATGTTATATAGTATGACATAGTATGCAAACCCTCATGTTATATAGTATGAAGTAGTA
TGT
Found at i:33385348 original size:15 final size:15
Alignment explanation
Indices: 33385328--33385408 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
33385318 GATAGACGGT
33385328 TGTGTCGCCCAGCCG
1 TGTGTCGCCCAGCCG
* ** *
33385343 TGTGTCTCATA-CGG
1 TGTGTCGCCCAGCCG
33385357 TCGTGTCGCCCAGCCG
1 T-GTGTCGCCCAGCCG
* * *
33385373 TGTGTCTCACA-CGG
1 TGTGTCGCCCAGCCG
*
33385387 TCGTGTCACCCAGCCG
1 T-GTGTCGCCCAGCCG
33385403 TGTGTC
1 TGTGTC
33385409 TCACACGACC
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
14 6 0.12
15 36 0.75
16 6 0.12
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.26
Consensus pattern (15 bp):
TGTGTCGCCCAGCCG
Found at i:33385363 original size:30 final size:30
Alignment explanation
Indices: 33385323--33385415 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
33385313 CAAACGATAG
* *
33385323 ACGGTTGTGTCGCCCAGCCGTGTGTCTCAT
1 ACGGTCGTGTCGCCCAGCCGTGTGTCTCAC
33385353 ACGGTCGTGTCGCCCAGCCGTGTGTCTCAC
1 ACGGTCGTGTCGCCCAGCCGTGTGTCTCAC
*
33385383 ACGGTCGTGTCACCCAGCCGTGTGTCTCAC
1 ACGGTCGTGTCGCCCAGCCGTGTGTCTCAC
33385413 ACG
1 ACG
33385416 ACCAAGTCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.12, C:0.34, G:0.29, T:0.25
Consensus pattern (30 bp):
ACGGTCGTGTCGCCCAGCCGTGTGTCTCAC
Found at i:33387384 original size:18 final size:18
Alignment explanation
Indices: 33387361--33387399 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
33387351 GAGATTCCAA
33387361 AAATATAAAATTTATAAG
1 AAATATAAAATTTATAAG
33387379 AAATATAAAATTTATAAG
1 AAATATAAAATTTATAAG
33387397 AAA
1 AAA
33387400 ATGGACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATATAAAATTTATAAG
Found at i:33395901 original size:29 final size:29
Alignment explanation
Indices: 33395838--33395905 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
33395828 TAATCAACCG
*
33395838 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33395867 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33395896 CGCACACTTA
1 CGCACACTTA
33395906 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:33396018 original size:174 final size:174
Alignment explanation
Indices: 33395727--33396054 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
33395717 AACTCAAGGT
* * *
33395727 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
33395792 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
33395857 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
33395901 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
33395966 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
33396031 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
33396055 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:33396046 original size:29 final size:30
Alignment explanation
Indices: 33396007--33396085 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
33395997 CTTAATAATC
33396007 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
33396037 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
33396066 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33396086 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:33417251 original size:22 final size:22
Alignment explanation
Indices: 33417203--33417245 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
33417193 CCTTTTTAAG
33417203 AAAATATAATAAAACACTTGGA
1 AAAATATAATAAAACACTTGGA
*
33417225 AAAATAATAATAAAGCACTTG
1 AAAAT-ATAATAAAACACTTG
33417246 ATAAATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (22 bp):
AAAATATAATAAAACACTTGGA
Found at i:33427481 original size:26 final size:26
Alignment explanation
Indices: 33427452--33427559 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
33427442 TGGTACAAAT
33427452 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
33427478 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33427504 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33427530 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33427556 TGAT
1 TGAT
33427560 GCGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33429220 original size:27 final size:26
Alignment explanation
Indices: 33429180--33429320 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 26
33429170 AGGAAGCGTC
*
33429180 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
33429207 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
33429233 CCTGGTGGCTATGCCACGATTATCTGAT
1 -CTGGTGGCTCTGCCAC-ATTATCTGAT
*
33429261 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
33429288 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
33429315 CTGGTG
1 CTGGTG
33429321 ACTTCGTCAC
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.11
27 88 0.86
28 3 0.03
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:33429259 original size:54 final size:53
Alignment explanation
Indices: 33429177--33429320 Score: 234
Period size: 54 Copynumber: 2.7 Consensus size: 53
33429167 TGGAGGAAGC
33429177 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCT
33429231 GTCCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
33429285 GTTCTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACATTATCTG-ATCTGGTG
33429321 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 7 0.08
54 78 0.92
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:33429331 original size:27 final size:27
Alignment explanation
Indices: 33429180--33429338 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
33429170 AGGAAGCGTC
*
33429180 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
33429207 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
33429234 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
33429261 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
33429288 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
33429315 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
33429339 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:33435304 original size:26 final size:26
Alignment explanation
Indices: 33435275--33435330 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
33435265 TGGTACAAAT
*
33435275 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
33435301 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
33435327 TGAT
1 TGAT
33435331 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:33436944 original size:27 final size:27
Alignment explanation
Indices: 33436904--33437043 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 27
33436894 AGGAAGCGTC
33436904 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
33436931 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
33436957 CCTGGTGGCTATGCCATAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* * *
33436985 CTGGTGCCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
33437012 CTAGTGGCT-TACCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
33437038 CTGGTG
1 CTGGTG
33437044 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
25 6 0.06
26 16 0.17
27 69 0.73
28 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:33436983 original size:54 final size:54
Alignment explanation
Indices: 33436901--33437043 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
33436891 TGGAGGAAGC
*
33436901 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTGCCACATATATCT
*
33436955 GTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGCCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTGCCACATATATCT
* * *
33437009 GTTCTAGTGGCT-TACCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
33437044 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 6 0.07
53 14 0.17
54 62 0.76
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTGCCACATATATCT
Found at i:33439955 original size:21 final size:20
Alignment explanation
Indices: 33439931--33439971 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
33439921 ACTTGTATAA
33439931 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
33439952 CTATCATCAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
33439972 ACATGCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:33441434 original size:16 final size:17
Alignment explanation
Indices: 33441413--33441445 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33441403 TGGTACTTCT
*
33441413 TATAAT-TTTTTTAAAA
1 TATAATCTTTTATAAAA
33441429 TATAATCTTTTATAAAA
1 TATAATCTTTTATAAAA
33441446 AAAATTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAATCTTTTATAAAA
Found at i:33441478 original size:20 final size:20
Alignment explanation
Indices: 33441454--33441508 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
33441444 AAAAAATTCA
33441454 ATTTTTATATTTTCTTAA-T
1 ATTTTTATATTTTCTTAATT
* *
33441473 AGTTTTATAATTT-TTAATT
1 ATTTTTATATTTTCTTAATT
33441492 ATATTTTA-ATTTTCTTA
1 AT-TTTTATATTTTCTTA
33441509 CAATTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTATATTTTCTTAATT
Found at i:33449666 original size:28 final size:28
Alignment explanation
Indices: 33449603--33449725 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
33449593 ATATTAAGTC
*
33449603 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33449630 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33449658 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33449686 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33449715 CGCACACTTAG
1 CGCACACTTAG
33449726 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33452663 original size:6 final size:6
Alignment explanation
Indices: 33452652--33452685 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
33452642 GTGTTAAATC
*
33452652 TTTATT TTTATT ATTATCT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTT
33452686 TCTTTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:33452676 original size:19 final size:18
Alignment explanation
Indices: 33452652--33452691 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
33452642 GTGTTAAATC
33452652 TTTATTTTTATTATTATCT
1 TTTATTTTTATT-TTATCT
*
33452671 TTTATTTTTATTTTTTCT
1 TTTATTTTTATTTTATCT
33452689 TTT
1 TTT
33452692 CTCTCTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTTTATTTTATCT
Found at i:33453670 original size:47 final size:47
Alignment explanation
Indices: 33453617--33453766 Score: 239
Period size: 47 Copynumber: 3.2 Consensus size: 47
33453607 TGACTCCTAA
* *
33453617 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
33453664 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
* *
33453711 TCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACAT
*
33453758 CCATCACAT
1 TCATCACAT
33453767 AGAATCCTAA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.01
47 96 0.99
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
Found at i:33456809 original size:5 final size:5
Alignment explanation
Indices: 33456799--33456824 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33456789 TGTGAATGTG
33456799 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
33456825 CACAGATTTT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:33457193 original size:29 final size:29
Alignment explanation
Indices: 33457160--33457215 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
33457150 ACCTTGACAC
* * *
33457160 GAACTCTTAATGAACAAGTTCTTCATCGT
1 GAACTCTCAACGAACAAGTTCTCCATCGT
33457189 GAACTCTCAACGAACAAGTTCTCCATC
1 GAACTCTCAACGAACAAGTTCTCCATC
33457216 TCTTCCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (29 bp):
GAACTCTCAACGAACAAGTTCTCCATCGT
Found at i:33463793 original size:17 final size:18
Alignment explanation
Indices: 33463764--33463800 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
33463754 AATTGGACTT
33463764 TTTTTAATAATTTTTTAA
1 TTTTTAATAATTTTTTAA
33463782 TTTTTAAT-ATTTTTTAA
1 TTTTTAATAATTTTTTAA
33463799 TT
1 TT
33463801 GAATCTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTAATAATTTTTTAA
Found at i:33469426 original size:32 final size:32
Alignment explanation
Indices: 33469387--33469453 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
33469377 TTTCATTCTT
*
33469387 CTTTCATTATATGTTATTATTGTTTTGATTAA
1 CTTTCATTATATGTTATTATTGTTCTGATTAA
33469419 CTTTCATTATATGTTATTATTGTTCTGATTAA
1 CTTTCATTATATGTTATTATTGTTCTGATTAA
33469451 CTT
1 CTT
33469454 ATTTTACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (32 bp):
CTTTCATTATATGTTATTATTGTTCTGATTAA
Found at i:33472429 original size:18 final size:19
Alignment explanation
Indices: 33472403--33472454 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
33472393 AGTAAAGTTT
*
33472403 ATATTAAAATCCTTGAAGG
1 ATATTAAAATCCTTGAAGC
* *
33472422 AT-TTAAAATGCTAGAAGC
1 ATATTAAAATCCTTGAAGC
*
33472440 ATATTAAAATTCTTG
1 ATATTAAAATCCTTG
33472455 GGAAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (19 bp):
ATATTAAAATCCTTGAAGC
Found at i:33473238 original size:10 final size:12
Alignment explanation
Indices: 33473208--33473233 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33473198 ACTTTTTATA
33473208 AATAAAATAGTT
1 AATAAAATAGTT
33473220 AATAAAATAGTT
1 AATAAAATAGTT
33473232 AA
1 AA
33473234 AAATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAAAATAGTT
Found at i:33478686 original size:16 final size:16
Alignment explanation
Indices: 33478642--33478688 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
33478632 TGATATAAAA
* *
33478642 TATAATTTATAATAAT
1 TATAATTAAAAATAAT
33478658 TATACATTTAAAAATAAT
1 TATA-A-TTAAAAATAAT
33478676 TATAATTAAAAAT
1 TATAATTAAAAAT
33478689 TAAAATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 13 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAAAAATAAT
Found at i:33484164 original size:16 final size:16
Alignment explanation
Indices: 33484128--33484158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33484118 TACTATAACA
33484128 AAATAGAATTATAATT
1 AAATAGAATTATAATT
*
33484144 AAATAGAGTTATAAT
1 AAATAGAATTATAAT
33484159 AGAATAAAAT
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:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAATAGAATTATAATT
Found at i:33484354 original size:25 final size:26
Alignment explanation
Indices: 33484326--33484377 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
33484316 GATAATTATT
*
33484326 ATTATTATT-ATTAAATTTTAATAAA
1 ATTATTATTAAATAAATTTTAATAAA
*
33484351 ATTATTATTAAATATATTTTAATAAA
1 ATTATTATTAAATAAATTTTAATAAA
33484377 A
1 A
33484378 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTATTATTAAATAAATTTTAATAAA
Found at i:33484388 original size:26 final size:25
Alignment explanation
Indices: 33484339--33484394 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
33484329 ATTATTATTA
* ** *
33484339 AATTTTAATAAAATTATTATTAAAT
1 AATTTTAATAAAAATAAAAATAAAT
33484364 ATATTTTAATAAAAATAAAAATAAAT
1 A-ATTTTAATAAAAATAAAAATAAAT
33484390 AATTT
1 AATTT
33484395 AATCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTTTAATAAAAATAAAAATAAAT
Found at i:33484416 original size:61 final size:57
Alignment explanation
Indices: 33484340--33484479 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 57
33484330 TTATTATTAA
* * * *
33484340 ATTTTAATAAAATTATTATTAAATA-TATTTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATACAATTTT-AT-AAAAT---AATAAATAATTTAATAAC
* *
33484401 ATTTTAACATAATTATTATTAAATACAATTTTATAAAATAATACATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATACAATTTTATAAAATAATAAATAATTTAATAAC
*
33484458 ATTCTCAATATAATTATTATTA
1 ATT-TTAATATAATTATTATTA
33484480 TATTAATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
57 18 0.26
58 16 0.23
60 5 0.07
61 25 0.36
62 5 0.07
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATACAATTTTATAAAATAATAAATAATTTAATAAC
Found at i:33484516 original size:23 final size:21
Alignment explanation
Indices: 33484485--33484527 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33484475 TATTATATTA
33484485 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
33484508 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
33484528 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:33487923 original size:27 final size:27
Alignment explanation
Indices: 33487893--33487951 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
33487883 AAAGAAAATT
*
33487893 TTAGATACAGCTTGTGATTAAAAAAAA
1 TTAGATACAACTTGTGATTAAAAAAAA
*
33487920 TTAGATACAACTTGTGATTAAAAAAAT
1 TTAGATACAACTTGTGATTAAAAAAAA
33487947 TTAGA
1 TTAGA
33487952 CACTGAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (27 bp):
TTAGATACAACTTGTGATTAAAAAAAA
Found at i:33497477 original size:40 final size:40
Alignment explanation
Indices: 33497379--33497641 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33497369 TCCTCGTTCA
* * * * *
33497379 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
33497418 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33497458 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33497498 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33497538 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33497578 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33497618 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33497642 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33501318 original size:41 final size:41
Alignment explanation
Indices: 33501241--33501318 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33501231 TTTGTATCTC
* * *
33501241 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33501282 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33501319 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Done.