Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 57 of 210
Found at i:20002553 original size:224 final size:223
Alignment explanation
Indices: 20002100--20002600 Score: 596
Period size: 224 Copynumber: 2.2 Consensus size: 223
20002090 ATTTAAAAAA
* * * * *
20002100 AAAATAACTTGGCATGCGACCTGAGGCTTAACTCACCTCTCAAATTATGAGTTGACCTTTGAAAA
1 AAAATAACTCGGCGTGCGAACTGAGGCTCAACTCACCTCTCGAATTATGAGTTGACCTTTG-AAA
* * * * **
20002165 AAAAATTGAAAATAGCTCAATGTGCAACCCAAAGCTTAACTCACCTCTCGGATTATGAGTTGATC
65 AAAAATGGAAAATACCTCAACGTGCAACCCAAAGCTCAACTCACCTCTCAAATTATGAGTTGATC
* * *
20002230 TTTGAAAAACAGAAATTGGAAAGTACCTTGCCGTGCGACTCGAGGCTCAACTCACCTATCAGATT
130 TTTGAAAAACAGAAATTAGAAAGTAACTCGCCGTGCGACTCGAGGCTCAACTCACCTATCAGATT
* * * *
20002295 ATGAGTTGATCTTTGAAAAATAGAAATTG
195 ATGAGTTGATCTTTAAAAAACAAAAATGG
* *
20002324 AAAATAACTCGGCGTGCGAACTGAGGCTCAACTCACGTCTCGAATTATGAGTTGATCTTTG-AAA
1 AAAATAACTCGGCGTGCGAACTGAGGCTCAACTCACCTCTCGAATTATGAGTTGACCTTTGAAAA
* ** * * *
20002388 ATAATGGAAAATACCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCAAATTATGAGTTGATTT
66 AAAATGGAAAATACCTCAACGTGCAACCCAAAGCTCAACTCACCTCTCAAATTATGAGTTGA--T
* * * * * *
20002453 TTTTGAAAAATAGAAATTAGAAA-TAACTCGGCGTGTGAC-CTGAGGCTCAACTCACTTATCGGA
129 CTTTGAAAAACAGAAATTAGAAAGTAACTCGCCGTGCGACTC-GAGGCTCAACTCACCTATCAGA
20002516 TTATGAGTTGATCTTTAAAAAACAAAAACTGG
193 TTATGAGTTGATCTTTAAAAAACAAAAA-TGG
* * * *
20002548 AAAATACCTCGGCGTAC-AACCCGAGGCTCAACTCACTTCTCGAATTATGAGTT
1 AAAATAACTCGGCGTGCGAA-CTGAGGCTCAACTCACCTCTCGAATTATGAGTT
20002601 AATTTTTTTG
Statistics
Matches: 236, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
222 54 0.23
223 59 0.25
224 123 0.52
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (223 bp):
AAAATAACTCGGCGTGCGAACTGAGGCTCAACTCACCTCTCGAATTATGAGTTGACCTTTGAAAA
AAAATGGAAAATACCTCAACGTGCAACCCAAAGCTCAACTCACCTCTCAAATTATGAGTTGATCT
TTGAAAAACAGAAATTAGAAAGTAACTCGCCGTGCGACTCGAGGCTCAACTCACCTATCAGATTA
TGAGTTGATCTTTAAAAAACAAAAATGG
Found at i:20003163 original size:8 final size:8
Alignment explanation
Indices: 20003152--20003181 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
20003142 TAAGTTATTA
20003152 TATTATAT
1 TATTATAT
*
20003160 TATTATAA
1 TATTATAT
20003168 TATTATAT
1 TATTATAT
20003176 TATTAT
1 TATTAT
20003182 TATATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:20003170 original size:16 final size:16
Alignment explanation
Indices: 20003146--20003186 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
20003136 AATAAGTAAG
20003146 TTATTATATTATATTA
1 TTATTATATTATATTA
*
20003162 TTATAATATTATATTA
1 TTATTATATTATATTA
20003178 TTATTATAT
1 TTATTATAT
20003187 ACATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:20020153 original size:41 final size:41
Alignment explanation
Indices: 20020123--20020204 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
20020113 CCTACTTTAG
*
20020123 TACACCGGCATGAAGCCTGCTAGACATAAAGTCTGAAATAA
1 TACACCGGCATGAAGCCTGCTAGACATAAAGCCTGAAATAA
* * *
20020164 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAA
1 TACACCGGCATGAAGCCTGCTAGACATAAAGCCTGAAATAA
20020205 GTCTGAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (41 bp):
TACACCGGCATGAAGCCTGCTAGACATAAAGCCTGAAATAA
Found at i:20020231 original size:52 final size:52
Alignment explanation
Indices: 20020151--20020256 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
20020141 GCTAGACATA
*
20020151 AAGTCTGAAATAATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAAT
1 AAGTCTGAAATAATTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGAAAT
*
20020203 AAGTCTGAAATAATTCACCGGCAATAAGCCTGTTAGACATAAAGTCTGAAAT
1 AAGTCTGAAATAATTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGAAAT
20020255 AA
1 AA
20020257 TTCACCGGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.25
Consensus pattern (52 bp):
AAGTCTGAAATAATTCACCGGCAATAAGCCTGCTAGACATAAAGTCTGAAAT
Found at i:20020293 original size:41 final size:41
Alignment explanation
Indices: 20020207--20020293 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
20020197 TGAAATAAGT
* * *
20020207 CTGAAATAATTCACCGGCAATAAGCCTGTTAGACATAAAGT
1 CTGAAATAATTCACCGGCAATAAACCTGCTAGACATAAAGC
* * **
20020248 CTGAAATAATTCACCGGCATTAAACCTGCTAGGCATCGAGC
1 CTGAAATAATTCACCGGCAATAAACCTGCTAGACATAAAGC
20020289 CTGAA
1 CTGAA
20020294 TACCACGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
CTGAAATAATTCACCGGCAATAAACCTGCTAGACATAAAGC
Found at i:20020293 original size:93 final size:93
Alignment explanation
Indices: 20020125--20020293 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
20020115 TACTTTAGTA
*
20020125 CACCGGCATGAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTAAGCCTGCTAGACA
1 CACCGGCATGAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTAAACCTGCTAGACA
*
20020190 TAAAGTCTGAAATAAGTCTGAAATAATT
66 TAAAGCCTGAAATAAGTCTGAAATAATT
* *
20020218 CACCGGCAAT-AAGCCTGTTAGACATAAAGTCTGAAATAATTCACCGGCATTAAACCTGCTAGGC
1 CACCGGC-ATGAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTAAACCTGCTAGAC
**
20020282 ATCGAGCCTGAA
65 ATAAAGCCTGAA
20020294 TACCACGGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 67 0.97
94 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (93 bp):
CACCGGCATGAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATTAAACCTGCTAGACA
TAAAGCCTGAAATAAGTCTGAAATAATT
Found at i:20023304 original size:15 final size:14
Alignment explanation
Indices: 20023297--20023325 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20023287 TTTTATTTTT
20023297 TTCTTTTTTCTTTC
1 TTCTTTTTTCTTTC
20023311 TTC-TTTTTCTTTC
1 TTCTTTTTTCTTTC
20023324 TT
1 TT
20023326 TTTCTCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.80
14 3 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTTTTTCTTTC
Found at i:20024079 original size:29 final size:29
Alignment explanation
Indices: 20024045--20024153 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
20024035 TAATTTTAGG
*
20024045 AAAAGTTAGAGGCCAAAATGTAAATAGTA
1 AAAAGTTAGAGGCCAAAATGTAAATAATA
* *
20024074 AAAAGTTAAAGGTCAAAATGTAAATAATA
1 AAAAGTTAGAGGCCAAAATGTAAATAATA
* *
20024103 AAAAGTTAGGGGTCAAAATGTAAATAATA
1 AAAAGTTAGAGGCCAAAATGTAAATAATA
*
20024132 AAAAGTTAG-GGCCAAGATGTAA
1 AAAAGTTAGAGGCCAAAATGTAA
20024154 TTAGTAAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 11 0.15
29 62 0.85
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.22
Consensus pattern (29 bp):
AAAAGTTAGAGGCCAAAATGTAAATAATA
Found at i:20037120 original size:18 final size:17
Alignment explanation
Indices: 20037084--20037123 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
20037074 CTCAATTTAG
*
20037084 AAATATTATATAAATTT
1 AAATATTATATAAAATT
*
20037101 AAATTTTATATTAAAATT
1 AAATATTATA-TAAAATT
20037119 AAATA
1 AAATA
20037124 AATATAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATTATATAAAATT
Found at i:20041595 original size:24 final size:24
Alignment explanation
Indices: 20041520--20041600 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
20041510 TATGAGCATG
*
20041520 TAACGAGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTC-CAAAGAGCCTT
* * *
20041545 TAACGGGTAGCTCCGAAGAGAAC-T
1 TAACGGGAAGCTCCAAAGAG-CCTT
*
20041569 TAACGGGAAGCTCCAAAAAGCCTT
1 TAACGGGAAGCTCCAAAGAGCCTT
*
20041593 TAATGGGA
1 TAACGGGA
20041601 GGTTCACAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 1 0.02
24 32 0.71
25 12 0.27
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
TAACGGGAAGCTCCAAAGAGCCTT
Found at i:20044339 original size:18 final size:18
Alignment explanation
Indices: 20044312--20044347 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20044302 TATTTTGTAA
*
20044312 TTTTCTCTTTTCCTTGAT
1 TTTTCACTTTTCCTTGAT
*
20044330 TTTTCACTTTTTCTTGAT
1 TTTTCACTTTTCCTTGAT
20044348 CTAAAATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.19, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTCACTTTTCCTTGAT
Found at i:20047762 original size:49 final size:47
Alignment explanation
Indices: 20047686--20047823 Score: 161
Period size: 47 Copynumber: 2.9 Consensus size: 47
20047676 TTCAAATAAT
*
20047686 TTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTTTAAA
1 TTATTTCAATGCATAACAAATATATATAT-CATTCGGCCATAGATT-AA
** * * * *
20047735 TTATTTCTCTGCATAACAATTACATATA-CATTCAGCTATAGATTAA
1 TTATTTCAATGCATAACAAATATATATATCATTCGGCCATAGATTAA
*
20047781 TTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
1 TT-ATTTCAATGCATAACAAATATATATAT-CATTCGGCCATA
20047824 ACCTATGTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
46 4 0.06
47 34 0.47
49 34 0.47
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (47 bp):
TTATTTCAATGCATAACAAATATATATATCATTCGGCCATAGATTAA
Found at i:20047798 original size:47 final size:48
Alignment explanation
Indices: 20047686--20047823 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 48
20047676 TTCAAATAAT
* * *
20047686 TTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTTTAAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATT-AA
** * *
20047735 TTATTTCTCTGCATAAC-AAT-TACATATACATTCAGCTATAGATTAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
* *
20047781 TTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
1 TT-ATTTCAATGCATAACAAATATATATATACATTCAGCCATA
20047824 ACCTATGTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 4 0.05
47 31 0.42
48 6 0.08
49 32 0.44
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (48 bp):
TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
Found at i:20047922 original size:159 final size:159
Alignment explanation
Indices: 20047633--20048604 Score: 1880
Period size: 159 Copynumber: 6.1 Consensus size: 159
20047623 AAGGCGAGTC
20047633 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
1 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
20047698 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
66 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
20047763 CATTCAGCTATAGATTAATTCATTTCAAT
131 CATTCAGCTATAGATTAATTCATTTCAAT
20047792 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
1 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
20047857 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
66 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
20047922 CATTCAGCTATAGATTAATTCATTTCAAT
131 CATTCAGCTATAGATTAATTCATTTCAAT
20047951 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
1 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
20048016 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
66 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
20048081 CATTCAGCTATAGATTAATTCATTTCAAT
131 CATTCAGCTATAGATTAATTCATTTCAAT
20048110 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
1 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
20048175 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
66 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
20048240 CATTCAGCTATAGATTAATTCATTTCAAT
131 CATTCAGCTATAGATTAATTCATTTCAAT
20048269 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
1 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
20048334 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
66 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
20048399 CATTCAGCTATAGATTAATTCATTTCAAT
131 CATTCAGCTATAGATTAATTCATTTCAAT
20048428 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
1 GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
20048493 ATAACAAATATATATA--CATTCGGCCATAGTTT-AATTCATTTCTCTGCATAACAATTACATAT
66 ATAACAAATATATATATGCATTCGGCCATAGTTTAAATT-ATTTCTCTGCATAACAATTACATAT
20048555 ACATTCAGCTATAGATTAATTCATTTTC-AT
130 ACATTCAGCTATAGATTAATTCA-TTTCAAT
* *
20048585 GCATAACAAATATATTTATA
1 GTATAACAAATATATATATA
20048605 TATATACATT
Statistics
Matches: 809, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
156 4 0.00
157 84 0.10
158 4 0.00
159 717 0.89
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (159 bp):
GTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGC
ATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGCATAACAATTACATATA
CATTCAGCTATAGATTAATTCATTTCAAT
Found at i:20047957 original size:47 final size:48
Alignment explanation
Indices: 20047845--20047982 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 48
20047835 TTCAAATAAT
* * *
20047845 TTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTTTAAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATT-AA
** * *
20047894 TTATTTCTCTGCATAAC-AAT-TACATATACATTCAGCTATAGATTAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
* *
20047940 TTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
1 TT-ATTTCAATGCATAACAAATATATATATACATTCAGCCATA
20047983 ACCTATGTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 4 0.05
47 31 0.42
48 6 0.08
49 32 0.44
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (48 bp):
TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
Found at i:20048116 original size:47 final size:48
Alignment explanation
Indices: 20048004--20048141 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 48
20047994 TTCAAATAAT
* * *
20048004 TTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTTTAAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATT-AA
** * *
20048053 TTATTTCTCTGCATAAC-AAT-TACATATACATTCAGCTATAGATTAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
* *
20048099 TTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
1 TT-ATTTCAATGCATAACAAATATATATATACATTCAGCCATA
20048142 ACCTATGTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 4 0.05
47 31 0.42
48 6 0.08
49 32 0.44
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (48 bp):
TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
Found at i:20048275 original size:47 final size:48
Alignment explanation
Indices: 20048163--20048300 Score: 163
Period size: 49 Copynumber: 2.9 Consensus size: 48
20048153 TTCAAATAAT
* * *
20048163 TTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTTTAAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATT-AA
** * *
20048212 TTATTTCTCTGCATAAC-AAT-TACATATACATTCAGCTATAGATTAA
1 TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
* *
20048258 TTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
1 TT-ATTTCAATGCATAACAAATATATATATACATTCAGCCATA
20048301 ACCTATGTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 4 0.05
47 31 0.42
48 6 0.08
49 32 0.44
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (48 bp):
TTATTTCAATGCATAACAAATATATATATACATTCAGCCATAGATTAA
Found at i:20048434 original size:47 final size:47
Alignment explanation
Indices: 20048318--20048459 Score: 151
Period size: 47 Copynumber: 2.9 Consensus size: 47
20048308 TAATTTCAAA
* * *
20048318 TAATTTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTT
1 TAATTCATTTCAATGCATAAC-AAT-TATATATACATTCGGCCATAGAT
** * * *
20048367 TAAATT-ATTTCTCTGCATAACAATTACATATACATTCAGCTATAGAT
1 T-AATTCATTTCAATGCATAACAATTATATATACATTCGGCCATAGAT
*
20048414 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
1 TAATTCATTTCAATGCATAAC-AAT-TATATATACATTCGGCCATA
20048460 ACCTATGTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
46 4 0.05
47 31 0.41
48 6 0.08
49 31 0.41
50 4 0.05
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (47 bp):
TAATTCATTTCAATGCATAACAATTATATATACATTCGGCCATAGAT
Found at i:20048546 original size:47 final size:47
Alignment explanation
Indices: 20048484--20048599 Score: 162
Period size: 47 Copynumber: 2.4 Consensus size: 47
20048474 AAATAATTTA
* *
20048484 TTTCAATGCATAACAAATATATATACATTCGGCCATAGTTTAATTCAT
1 TTTC-ATGCATAACAAATATATATACATTCAGCCATAGATTAATTCAT
* * *
20048532 TTCTC-TGCATAACAATTACATATACATTCAGCTATAGATTAATTCAT
1 TT-TCATGCATAACAAATATATATACATTCAGCCATAGATTAATTCAT
20048579 TTTCATGCATAACAAATATAT
1 TTTCATGCATAACAAATATAT
20048600 TTATATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
46 2 0.03
47 53 0.90
48 2 0.03
49 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (47 bp):
TTTCATGCATAACAAATATATATACATTCAGCCATAGATTAATTCAT
Found at i:20059706 original size:22 final size:19
Alignment explanation
Indices: 20059678--20059721 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
20059668 CATTTAATTA
20059678 ATTTTTAAAAATATATAAAAAC
1 ATTTTT-AAAAT-TA-AAAAAC
20059700 ATTTTTAAAATTAAAAAAC
1 ATTTTTAAAATTAAAAAAC
20059719 ATT
1 ATT
20059722 AAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 5 0.23
22 6 0.27
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTTTAAAATTAAAAAAC
Found at i:20059725 original size:27 final size:28
Alignment explanation
Indices: 20059696--20059762 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
20059686 AAATATATAA
*
20059696 AAACATTTTTAAAA-T-TAAAAAACATT
1 AAACATTTTTAAAATTATAAAAAAAATT
20059722 AAA-ATTATTTAAAAATTATAAAAAAAATT
1 AAACATT-TTT-AAAATTATAAAAAAAATT
20059751 -AACATTTTTAAA
1 AAACATTTTTAAA
20059763 TATTTTACTC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 3 0.09
26 6 0.17
27 7 0.20
28 6 0.17
29 13 0.37
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
AAACATTTTTAAAATTATAAAAAAAATT
Found at i:20081052 original size:67 final size:66
Alignment explanation
Indices: 20080928--20081057 Score: 197
Period size: 67 Copynumber: 2.0 Consensus size: 66
20080918 TTTCCATTTC
*
20080928 AGAGAGCACACTCCCACGAACCTCATCCTTATAGAGGGATTACCAATCCAGGCTAAATCCCCTAC
1 AGAGAGCACACTCCCACGAACCTCATCCTTACAGAGGGATTACCAATCCAGGCTAAATCCCCTAC
20080993 A
66 A
** * * *
20080994 AGAGAGCACACTCCTGCGAACCTCATTCCTTACAGTGGGTTTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCACGAACCTCA-TCCTTACAGAGGGATTACCAATCCAGGCTAAATCCCCT
20081058 GTAATATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
66 23 0.40
67 34 0.60
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (66 bp):
AGAGAGCACACTCCCACGAACCTCATCCTTACAGAGGGATTACCAATCCAGGCTAAATCCCCTAC
A
Found at i:20092305 original size:13 final size:13
Alignment explanation
Indices: 20092284--20092316 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20092274 TCGATGATTC
20092284 TTCTTTTTTCCTTT
1 TTCTTTTTT-CTTT
20092298 TT-TTTTTTCTTT
1 TTCTTTTTTCTTT
20092310 TTCTTTT
1 TTCTTTT
20092317 GAGAAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 10 0.56
14 2 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTTTCTTT
Found at i:20100975 original size:2 final size:2
Alignment explanation
Indices: 20100968--20101175 Score: 416
Period size: 2 Copynumber: 104.0 Consensus size: 2
20100958 AAAGAGACCA
20100968 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20101010 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20101052 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20101094 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20101136 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20101176 GTTTATGGGC
Statistics
Matches: 206, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 206 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20102045 original size:17 final size:16
Alignment explanation
Indices: 20102005--20102035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20101995 TGACCCATAT
*
20102005 AAAACTATAAAAAATA
1 AAAAATATAAAAAATA
20102021 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
20102036 TATTAAATAT
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATATAAAAAATA
Found at i:20102572 original size:21 final size:21
Alignment explanation
Indices: 20102547--20102586 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
20102537 ATTAATTTTC
20102547 TAGCTTTCTAAAATATAAATG
1 TAGCTTTCTAAAATATAAATG
20102568 TAGCTTTCTAAAATATAAA
1 TAGCTTTCTAAAATATAAA
20102587 ATAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (21 bp):
TAGCTTTCTAAAATATAAATG
Found at i:20102924 original size:19 final size:16
Alignment explanation
Indices: 20102887--20102921 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
20102877 AACATTCAAT
20102887 ATACAAAAATTTTAAA
1 ATACAAAAATTTTAAA
20102903 ATACAGAAAATTATTAAA
1 ATACA-AAAATT-TTAAA
20102921 A
1 A
20102922 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (16 bp):
ATACAAAAATTTTAAA
Found at i:20102948 original size:28 final size:29
Alignment explanation
Indices: 20102891--20102959 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 29
20102881 TTCAATATAC
* *
20102891 AAAAAT-TTT-AAAATACAGAAAATTATT
1 AAAAATATTTAAAAATACAGAAAAGTAGT
*
20102918 AAAAATATTTAAAAATATAGAAAAGT-GT
1 AAAAATATTTAAAAATACAGAAAAGTAGT
* *
20102946 AAAAAAATATAAAA
1 AAAAATATTTAAAA
20102960 TTATTAATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 6 0.17
28 16 0.46
29 13 0.37
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATATTTAAAAATACAGAAAAGTAGT
Found at i:20102950 original size:29 final size:29
Alignment explanation
Indices: 20102886--20102959 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
20102876 TAACATTCAA
*
20102886 TATACAAAAAT-TTT-AAAATACAGAAAAT
1 TATA-AAAAATATTTAAAAATACAGAAAAG
* *
20102914 TATTAAAAATATTTAAAAATATAGAAAAG
1 TATAAAAAATATTTAAAAATACAGAAAAG
* *
20102943 TGTAAAAAA-ATATAAAA
1 TATAAAAAATATTTAAAA
20102960 TTATTAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 6 0.16
28 13 0.34
29 19 0.50
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (29 bp):
TATAAAAAATATTTAAAAATACAGAAAAG
Found at i:20110330 original size:3 final size:3
Alignment explanation
Indices: 20110322--20110379 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
20110312 ATCCATCTGC
20110322 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20110369 TAT TAT TAT TA
1 TAT TAT TAT TA
20110380 AATGATCTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20114913 original size:23 final size:22
Alignment explanation
Indices: 20114879--20114923 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
20114869 TTCAAACTAA
*
20114879 TTTTTTTTTCTCATTTTAGTAC
1 TTTTTTTGTCTCATTTTAGTAC
*
20114901 TTTTTTTGGTCTCATTTTGGTAC
1 TTTTTTT-GTCTCATTTTAGTAC
20114924 CTAAACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (22 bp):
TTTTTTTGTCTCATTTTAGTAC
Found at i:20116344 original size:14 final size:15
Alignment explanation
Indices: 20116306--20116347 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
20116296 TTTCTCTCTT
*
20116306 TTATTTTATTCATTCA
1 TTATTTTATT-ATACA
*
20116322 TTCTTTTATTATAC-
1 TTATTTTATTATACA
20116336 TTATTTTATTAT
1 TTATTTTATTAT
20116348 TATATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 3 0.13
16 9 0.39
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTTATTATACA
Found at i:20117014 original size:16 final size:16
Alignment explanation
Indices: 20116975--20117019 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
20116965 TGAAAAAAAT
20116975 ATTATAAAAA-TATTAA
1 ATTATAAAAATTA-TAA
20116991 A-TATTAAAAATTATAA
1 ATTA-TAAAAATTATAA
20117007 ATTAT-AAAATTAT
1 ATTATAAAAATTAT
20117020 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAAAAATTATAA
Found at i:20117020 original size:25 final size:26
Alignment explanation
Indices: 20116970--20117028 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
20116960 GATTATGAAA
*
20116970 AAAATATTATAAAAATATTAAATA-TT
1 AAAA-ATTATAAAAATATAAAATATTT
*
20116996 AAAAATTAT-AAATTATAAAATTATTT
1 AAAAATTATAAAAATATAAAA-TATTT
20117022 AAAAATT
1 AAAAATT
20117029 TGACAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 7 0.24
26 13 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAAATTATAAAAATATAAAATATTT
Found at i:20118173 original size:2 final size:2
Alignment explanation
Indices: 20118166--20118190 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20118156 NNNNNNNNNN
20118166 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
20118191 AAAGCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20119634 original size:24 final size:24
Alignment explanation
Indices: 20119607--20119652 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20119597 AACCTAATTC
20119607 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
* *
20119631 TAATAAATGTTAACTATATTAT
1 TAATAAATGTCAAATATATTAT
20119653 ACTCATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:20123075 original size:28 final size:28
Alignment explanation
Indices: 20123019--20123078 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
20123009 TTCCAAAAAA
*
20123019 TTTTGTATCTCTCCCTTTTTCCCTCTGT
1 TTTTGTATCTCTCCCTTTTTCCCTATGT
*
20123047 TTTTCGTATC-CTCCCTATTTT-CGTATGT
1 TTTT-GTATCTCTCCCT-TTTTCCCTATGT
20123075 TTTT
1 TTTT
20123079 TTTTACACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.07, C:0.27, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTTGTATCTCTCCCTTTTTCCCTATGT
Found at i:20125211 original size:4 final size:4
Alignment explanation
Indices: 20125202--20125229 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
20125192 AATAAACTAA
20125202 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
20125230 AATCTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:20126404 original size:87 final size:87
Alignment explanation
Indices: 20126149--20128497 Score: 4319
Period size: 87 Copynumber: 26.9 Consensus size: 87
20126139 GTTCACGCCA
* * *
20126149 ATGAAGACAATG-TCTG-TTCTCTTCGATCTACTCCACCACCAGTATGGGGA-GACAAGATCTGT
1 ATGAAGACAA-GATCTGCTT-TCTTCGATCT-GT-CGCCACCAGTAT-GGGACGACAAGATATGT
* * * *
20126211 TGTCTTTGATATACTTCACGCAAATAC
61 TATCTTTGATCTACTTCACGCCAGTAC
* * * * *
20126238 ATGAGGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAT
1 ATGAAGACAAGATCTGC--TTT-CTTCGATCT--GTCGCCACCAGTATGGGACGACAAGATATGT
*
20126303 TATCTTTGACCTACTTCACGCCAGTAC
61 TATCTTTGATCTACTTCACGCCAGTAC
20126330 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126395 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126417 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126482 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126504 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126569 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126591 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126656 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126678 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126743 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126765 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126830 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126852 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20126917 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20126939 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127004 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127026 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127091 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127113 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127178 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127200 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127265 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127287 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127352 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127374 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127439 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127461 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127526 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127548 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127613 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127635 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127700 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127722 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127787 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127809 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127874 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127896 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20127961 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20127983 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20128048 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20128070 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20128135 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
20128157 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20128222 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
* * * *
20128244 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGAGAAGACAAGATCTGTTAC
1 ATGAAGACAAGATCTGCTTTCTTCGATCTG--TCGCCACCAGTATGGGACGACAAGATATGTTAT
*
20128309 CTTTGATCTACTTCATGCCAGTAC
64 CTTTGATCTACTTCACGCCAGTAC
*
20128333 ATGAAGACAAGATCTGCTTTCTTCGATCTTTCGCCACCAGTATGGGACGACAAGATATGTTATCT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
20128398 TTGATCTACTTCACGCCAGTAC
66 TTGATCTACTTCACGCCAGTAC
* * * *
20128420 ATGAAGACAAGATCCGCTTTCTTCGATCTGTTTTGCCACCAGTATGGGAAGACAAGATAT-TCAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTG--TCGCCACCAGTATGGGACGACAAGATATGTTAT
* *
20128484 CTTCGATCCACTTC
64 CTTTGATCTACTTC
20128498 CTACCAATAT
Statistics
Matches: 2215, Mismatches: 34, Indels: 23
0.97 0.01 0.01
Matches are distributed among these distances:
87 1990 0.90
88 16 0.01
89 129 0.06
90 3 0.00
91 5 0.00
92 71 0.03
93 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (87 bp):
ATGAAGACAAGATCTGCTTTCTTCGATCTGTCGCCACCAGTATGGGACGACAAGATATGTTATCT
TTGATCTACTTCACGCCAGTAC
Found at i:20128530 original size:44 final size:43
Alignment explanation
Indices: 20128482--20128645 Score: 137
Period size: 44 Copynumber: 3.9 Consensus size: 43
20128472 CAAGATATTC
*
20128482 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTACT
1 ATCTTCGATCCACTTCACTACCAATATAGGAAGACAGGA-C-AAT
* * *
20128526 ATCTTCGATCTACTTCAC-ACCAATATATGAAGACAAGATCAATT
1 ATCTTCGATCCACTTCACTACCAATATAGGAAGACAGGA-CAA-T
* * * * * *
20128570 TTCTTTGATCTACTTCGCCACCAATAT-GG--GA-A-GACAAG
1 ATCTTCGATCCACTTCACTACCAATATAGGAAGACAGGACAAT
*
20128608 ATCTTCGATCCACTTC-CTACCAATATAAGAAGACAGGA
1 ATCTTCGATCCACTTCACTACCAATATAGGAAGACAGGA
20128646 TCTGCTATTT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
37 9 0.09
38 14 0.14
39 3 0.03
40 4 0.04
41 2 0.02
42 4 0.04
43 1 0.01
44 51 0.53
45 9 0.09
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
ATCTTCGATCCACTTCACTACCAATATAGGAAGACAGGACAAT
Found at i:20128563 original size:132 final size:126
Alignment explanation
Indices: 20128393--20128645 Score: 335
Period size: 132 Copynumber: 2.0 Consensus size: 126
20128383 CAAGATATGT
* * * ** ** *
20128393 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTTTCTTCGATCTGTTTTGCCA
1 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCAACTTTCTTCGATCTACTTCGCCA
* *
20128458 CCAGTATGGGAAGACAAGATATTCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCT
66 CCAATATGGGAAGACAAG------ATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGACCT
20128523 AC
125 AC
* * *
20128525 TATCTTCGATCTACTTCACACCAATATATGAAGACAAGATCAATTTTCTTTGATCTACTTCGCCA
1 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCAACTTTCTTCGATCTACTTCGCCA
20128590 CCAATATGGGAAGACAAGATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGA
66 CCAATATGGGAAGACAAGATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGA
20128646 TCTGCTATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
126 37 0.34
132 71 0.66
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (126 bp):
TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCAACTTTCTTCGATCTACTTCGCCA
CCAATATGGGAAGACAAGATCTTCGATCCACTTCCTACCAATATAAGAAGACAGGACCTAC
Found at i:20128632 original size:37 final size:38
Alignment explanation
Indices: 20128571--20128648 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
20128561 AGATCAATTT
* * **
20128571 TCTTTGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTTCGATCCACTTCGCCACCAATATAAGAAGACAAGA
* *
20128609 TCTTCGATCCACTTC-CTACCAATATAAGAAGACAGGA
1 TCTTCGATCCACTTCGCCACCAATATAAGAAGACAAGA
20128646 TCT
1 TCT
20128649 GCTATTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 21 0.62
38 13 0.38
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (38 bp):
TCTTCGATCCACTTCGCCACCAATATAAGAAGACAAGA
Found at i:20131891 original size:7 final size:7
Alignment explanation
Indices: 20131863--20131915 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
20131853 CCTTAGCCTC
20131863 TTCATTT
1 TTCATTT
*
20131870 TAC-TTT
1 TTCATTT
*
20131876 TCCATTT
1 TTCATTT
*
20131883 TTCAGTT
1 TTCATTT
20131890 TTCA-TT
1 TTCATTT
20131896 TTCACTTT
1 TTCA-TTT
20131904 TTCATTT
1 TTCATTT
20131911 TTCAT
1 TTCAT
20131916 CTCGTCATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 11 0.28
7 22 0.56
8 6 0.15
ACGTcount: A:0.15, C:0.19, G:0.02, T:0.64
Consensus pattern (7 bp):
TTCATTT
Found at i:20131912 original size:21 final size:21
Alignment explanation
Indices: 20131863--20131915 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
20131853 CCTTAGCCTC
*
20131863 TTCATTTTAC-TTTTCCATTT
1 TTCATTTTTCATTTTCCATTT
*
20131883 TTCAGTTTTCATTTT-CACTTT
1 TTCATTTTTCATTTTCCA-TTT
20131904 TTCATTTTTCAT
1 TTCATTTTTCAT
20131916 CTCGTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.15, C:0.19, G:0.02, T:0.64
Consensus pattern (21 bp):
TTCATTTTTCATTTTCCATTT
Found at i:20132834 original size:20 final size:20
Alignment explanation
Indices: 20132809--20132849 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
20132799 GGTTTGGCAG
20132809 AAAAAATC-TGAAAGAATGAA
1 AAAAAATCGT-AAAGAATGAA
20132829 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
20132849 A
1 A
20132850 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:20134742 original size:19 final size:20
Alignment explanation
Indices: 20134718--20134757 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
20134708 AACTGTGTTT
* *
20134718 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
20134737 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
20134757 A
1 A
20134758 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:20136231 original size:3 final size:3
Alignment explanation
Indices: 20136213--20136292 Score: 63
Period size: 3 Copynumber: 25.7 Consensus size: 3
20136203 TTATAAGTAT
* * * *
20136213 ATA AAA ATA ATAA ATA ATA TTA ATA ATA ATAA ATA AGA ATA AGA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* *
20136260 ATAA ACA AGTA ATA ATA AAA AT- ATA ATA ATA AT
1 AT-A ATA A-TA ATA ATA ATA ATA ATA ATA ATA AT
20136293 GTAAAAAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 48 0.80
4 10 0.17
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:20136242 original size:19 final size:19
Alignment explanation
Indices: 20136213--20136292 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
20136203 TTATAAGTAT
*
20136213 ATAAAAATAATAAATAATA
1 ATAATAATAATAAATAATA
* *
20136232 TTAATAATAATAAATAAGA
1 ATAATAATAATAAATAATA
* *
20136251 ATAAGAATAATAAACAAGTA
1 ATAATAATAATAAATAA-TA
*
20136271 ATAATAAAAATATAATAATA
1 ATAATAATAATA-AATAATA
20136291 AT
1 AT
20136293 GTAAAAAAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 30 0.61
20 15 0.31
21 4 0.08
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.28
Consensus pattern (19 bp):
ATAATAATAATAAATAATA
Found at i:20136275 original size:14 final size:14
Alignment explanation
Indices: 20136213--20136291 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 14
20136203 TTATAAGTAT
20136213 ATAAAAATAATAAATA
1 ATAAAAAT-AT-AATA
**
20136229 ATATTAATAATAATAA
1 ATAAAAAT-ATAAT-A
* *
20136245 ATAAGAATAAGAATA
1 ATAAAAAT-ATAATA
*
20136260 ATAAACAA-GTAATA
1 ATAAA-AATATAATA
20136274 ATAAAAATATAATA
1 ATAAAAATATAATA
20136288 ATAA
1 ATAA
20136292 TGTAAAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
13 2 0.04
14 18 0.35
15 8 0.16
16 23 0.45
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (14 bp):
ATAAAAATATAATA
Found at i:20136886 original size:10 final size:10
Alignment explanation
Indices: 20136852--20136886 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
20136842 ATTTTAAACA
20136852 AAAAATAAAT
1 AAAAATAAAT
20136862 -AAAATAAAAT
1 AAAAAT-AAAT
20136872 AAAAATAAAT
1 AAAAATAAAT
20136882 AAAAA
1 AAAAA
20136887 AACGAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:20136999 original size:28 final size:28
Alignment explanation
Indices: 20136943--20137002 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
20136933 TTCCAAAAAA
*
20136943 TTTTGTATCTCTCCCTTTTTCCCTCTGT
1 TTTTGTATCTCTCCCTTTTTCCCTATGT
*
20136971 TTTTCGTATC-CTCCCTATTTT-CGTATGT
1 TTTT-GTATCTCTCCCT-TTTTCCCTATGT
20136999 TTTT
1 TTTT
20137003 TTTACACTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.07, C:0.27, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTTGTATCTCTCCCTTTTTCCCTATGT
Found at i:20139770 original size:24 final size:24
Alignment explanation
Indices: 20139743--20139789 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20139733 TTAAAGTCAA
**
20139743 ATATATTATGTTAATAAATACTAG
1 ATATATTATACTAATAAATACTAG
*
20139767 ATATATTATACTCATAAATACTA
1 ATATATTATACTAATAAATACTA
20139790 AATCTTCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATATTATACTAATAAATACTAG
Found at i:20150546 original size:31 final size:31
Alignment explanation
Indices: 20150489--20150548 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
20150479 TTGAGCTTGG
*
20150489 CAATTGTTCCCATATTAGGTTCTGAACTTAC
1 CAATTGTTCCCATATTAGGCTCTGAACTTAC
20150520 CAATTGTTCCCATATTAAGGCT-TGAACTT
1 CAATTGTTCCCATATT-AGGCTCTGAACTT
20150549 TAGGGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (31 bp):
CAATTGTTCCCATATTAGGCTCTGAACTTAC
Found at i:20150643 original size:58 final size:59
Alignment explanation
Indices: 20150579--20150701 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
20150569 TTAGATTTTT
* * * * * * **
20150579 AAAAAAATTGAAG-TCCCAATGTGGGAAC-ATTTTCCAAGTTTAGGGTCTAACTTGGACA
1 AAAAAAAGTCAAGATCCCAATGTGAGAACAATTCT-CAAGTTCAGGGCCTAACTTAAACA
* *
20150637 AAAAAAAGTCCAGATCTCAATGTGAGAACAATTCTCAAGTTCAGGGCCTAACTTAAACA
1 AAAAAAAGTCAAGATCCCAATGTGAGAACAATTCTCAAGTTCAGGGCCTAACTTAAACA
20150696 AAAAAA
1 AAAAAA
20150702 GTTCGGTCAG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
58 10 0.19
59 39 0.74
60 4 0.08
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (59 bp):
AAAAAAAGTCAAGATCCCAATGTGAGAACAATTCTCAAGTTCAGGGCCTAACTTAAACA
Found at i:20150907 original size:18 final size:18
Alignment explanation
Indices: 20150886--20150929 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
20150876 TGTTGAATCT
*
20150886 ATTAAAATATATTA-AATA
1 ATTAAAA-ATATTATAACA
20150904 ATTAAAAATATTATAACA
1 ATTAAAAATATTATAACA
20150922 ATTAAAAA
1 ATTAAAAA
20150930 CTTCAAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAAAATATTATAACA
Found at i:20150929 original size:19 final size:18
Alignment explanation
Indices: 20150886--20150929 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
20150876 TGTTGAATCT
* *
20150886 ATTAAAATATATTAAATA
1 ATTAAAAAATATTAAACA
20150904 ATT-AAAAATATTATAACA
1 ATTAAAAAATATTA-AACA
20150922 ATTAAAAA
1 ATTAAAAA
20150930 CTTCAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 9 0.41
19 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAAAAATATTAAACA
Found at i:20162334 original size:3 final size:3
Alignment explanation
Indices: 20162326--20162350 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20162316 ATATAACTGT
20162326 TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG T
20162351 GGAATGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:20162742 original size:1 final size:1
Alignment explanation
Indices: 20162736--20162769 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
20162726 CCATTAGCAC
*
20162736 AAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20162770 GGTAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:20165497 original size:15 final size:15
Alignment explanation
Indices: 20165477--20165507 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20165467 TAACTTCTTC
20165477 CCTTAAGAACTCGTT
1 CCTTAAGAACTCGTT
*
20165492 CCTTAAGAACTTGTT
1 CCTTAAGAACTCGTT
20165507 C
1 C
20165508 AATTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (15 bp):
CCTTAAGAACTCGTT
Found at i:20171746 original size:20 final size:20
Alignment explanation
Indices: 20171723--20171767 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20171713 ATTTATTTAT
*
20171723 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
**
20171743 TAAAATAATGGTCTTATAAA
1 TAAAATAATAATCTTATAAA
20171763 TAAAA
1 TAAAA
20171768 CAATTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:20179243 original size:13 final size:13
Alignment explanation
Indices: 20179225--20179251 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20179215 CAAAACATAT
20179225 TGATATTAGCACG
1 TGATATTAGCACG
20179238 TGATATTAGCACG
1 TGATATTAGCACG
20179251 T
1 T
20179252 ACCAATTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TGATATTAGCACG
Found at i:20180690 original size:18 final size:18
Alignment explanation
Indices: 20180664--20180698 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20180654 AATGCAAAAT
*
20180664 CAACCTTAACATACAAAG
1 CAACATTAACATACAAAG
*
20180682 CAACATTAACATTCAAA
1 CAACATTAACATACAAA
20180699 ACATGGATGA
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:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (18 bp):
CAACATTAACATACAAAG
Found at i:20185069 original size:25 final size:25
Alignment explanation
Indices: 20185038--20185095 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
20185028 AGCTGTAAAT
* *
20185038 GGTAAGCTCTTTCGAGCTGAATAAC
1 GGTAAGCTCCTCCGAGCTGAATAAC
*
20185063 GGTAAGCTCCTCCGAGCTGAGTAAC
1 GGTAAGCTCCTCCGAGCTGAATAAC
20185088 GGTAAGCT
1 GGTAAGCT
20185096 TATGTGAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (25 bp):
GGTAAGCTCCTCCGAGCTGAATAAC
Found at i:20198256 original size:31 final size:31
Alignment explanation
Indices: 20198182--20198258 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
20198172 AATATAACAT
* * *
20198182 TTGGTACTTGAACTTGACACTTTTTTCTAAT
1 TTGGTACTTAAACTTGACACTTTTCTCTAAG
* *
20198213 TTGATACCTAAACTTGACACTTCTTCT-TAAG
1 TTGGTACTTAAACTTGACACTT-TTCTCTAAG
20198244 TTGGTACTTAAACTT
1 TTGGTACTTAAACTT
20198259 TTTGGGGTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 35 0.92
32 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (31 bp):
TTGGTACTTAAACTTGACACTTTTCTCTAAG
Found at i:20203734 original size:22 final size:23
Alignment explanation
Indices: 20203694--20203736 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20203684 GTTCCTCTTA
20203694 CTTTTATTTTTCGAAATTTAATC
1 CTTTTATTTTTCGAAATTTAATC
*
20203717 CTTTTATTTTTC-AGATTTAA
1 CTTTTATTTTTCGAAATTTAA
20203737 AAATTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (23 bp):
CTTTTATTTTTCGAAATTTAATC
Found at i:20204228 original size:31 final size:31
Alignment explanation
Indices: 20204169--20204229 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
20204159 AAAATATCAC
*
20204169 TGAACTATTCAAAAGCTTTCATTTAAGTCAT
1 TGAACTATTCAAAAGCTTTCATTGAAGTCAT
* * * *
20204200 TGAACTATTCGATAGGTTTTATTGAAGTCA
1 TGAACTATTCAAAAGCTTTCATTGAAGTCA
20204230 CTGGTTGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (31 bp):
TGAACTATTCAAAAGCTTTCATTGAAGTCAT
Found at i:20216820 original size:23 final size:23
Alignment explanation
Indices: 20216788--20216831 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
20216778 AATTTTAACA
20216788 ACAATAATAAT-AGAAAAAAAAC
1 ACAATAATAATAAGAAAAAAAAC
*
20216810 ACAATACATAATAAGTAAAAAA
1 ACAATA-ATAATAAGAAAAAAA
20216832 TAGATGAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (23 bp):
ACAATAATAATAAGAAAAAAAAC
Found at i:20217200 original size:136 final size:136
Alignment explanation
Indices: 20216956--20217227 Score: 535
Period size: 136 Copynumber: 2.0 Consensus size: 136
20216946 TATGTAAAAA
20216956 TATAATAAAAGTTGTATTTAAAATTTAGAAGCAATGGTTTTGTTTTGAGTTTTAAATGAGTTTAT
1 TATAATAAAAGTTGTATTTAAAATTTAGAAGCAATGGTTTTGTTTTGAGTTTTAAATGAGTTTAT
20217021 GTATTCGGCTATATATACAAAAAATATTGGTTTTTTAAACGATATTTTTGTGGGCTTTTTGGTGT
66 GTATTCGGCTATATATACAAAAAATATTGGTTTTTTAAACGATATTTTTGTGGGCTTTTTGGTGT
20217086 CCAATG
131 CCAATG
*
20217092 TATAATAGAAGTTGTATTTAAAATTTAGAAGCAATGGTTTTGTTTTGAGTTTTAAATGAGTTTAT
1 TATAATAAAAGTTGTATTTAAAATTTAGAAGCAATGGTTTTGTTTTGAGTTTTAAATGAGTTTAT
20217157 GTATTCGGCTATATATACAAAAAATATTGGTTTTTTAAACGATATTTTTGTGGGCTTTTTGGTGT
66 GTATTCGGCTATATATACAAAAAATATTGGTTTTTTAAACGATATTTTTGTGGGCTTTTTGGTGT
20217222 CCAATG
131 CCAATG
20217228 GAATAAAACG
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.45
Consensus pattern (136 bp):
TATAATAAAAGTTGTATTTAAAATTTAGAAGCAATGGTTTTGTTTTGAGTTTTAAATGAGTTTAT
GTATTCGGCTATATATACAAAAAATATTGGTTTTTTAAACGATATTTTTGTGGGCTTTTTGGTGT
CCAATG
Found at i:20218436 original size:13 final size:13
Alignment explanation
Indices: 20218399--20218438 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
20218389 TTTAAACCAA
*
20218399 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
20218412 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
20218425 ACTTTTCCAAAGC
1 ACTTTTCAAAAGC
20218438 A
1 A
20218439 TTATCAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:20220440 original size:10 final size:11
Alignment explanation
Indices: 20220407--20220446 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
20220397 TTAGATCATA
20220407 AAAAT-TAATAT
1 AAAATATAA-AT
20220418 AAAATATAAAT
1 AAAATATAAAT
20220429 AAAATA-AAAT
1 AAAATATAAAT
20220439 AAAATATA
1 AAAATATA
20220447 GAATTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.37
11 14 0.52
12 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:20232525 original size:14 final size:15
Alignment explanation
Indices: 20232492--20232544 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
20232482 AAAAAAATTC
*
20232492 ATAAAAATTAGAAAT
1 ATAAAAATTAGAAAG
20232507 ATAAAAATT-GAAAG
1 ATAAAAATTAGAAAG
* *
20232521 GTAAAAAAATAGAAAG
1 AT-AAAAATTAGAAAG
20232537 ATGAAAAA
1 AT-AAAAA
20232545 AATATAATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 5 0.16
15 15 0.48
16 11 0.35
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
ATAAAAATTAGAAAG
Found at i:20232528 original size:16 final size:17
Alignment explanation
Indices: 20232509--20232548 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
20232499 TTAGAAATAT
* *
20232509 AAAAATTGAAAGGT-AA
1 AAAAATAGAAAGATGAA
20232525 AAAAATAGAAAGATGAA
1 AAAAATAGAAAGATGAA
20232542 AAAAATA
1 AAAAATA
20232549 TAATTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAAATAGAAAGATGAA
Found at i:20245387 original size:29 final size:30
Alignment explanation
Indices: 20245309--20245414 Score: 153
Period size: 30 Copynumber: 3.6 Consensus size: 30
20245299 CTTTTTAAAG
* * *
20245309 AAATTATATTTTAGCCCCTAAACTTTTTAT
1 AAATTACATTTTAGACCCTAAACTTTTCAT
20245339 AAATTACATTTTAGACCCTAAACTTTTCAT
1 AAATTACATTTTAGACCCTAAACTTTTCAT
*
20245369 AAATTACATTTGAG-CCCTAAACTTTTCAT
1 AAATTACATTTTAGACCCTAAACTTTTCAT
*
20245398 AAA-TGCATTTTAGACCC
1 AAATTACATTTTAGACCC
20245415 ATATTTTTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 8 0.12
29 21 0.30
30 40 0.58
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.40
Consensus pattern (30 bp):
AAATTACATTTTAGACCCTAAACTTTTCAT
Found at i:20245994 original size:11 final size:11
Alignment explanation
Indices: 20245960--20246022 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
20245950 GGTTTGGCCC
20245960 AAAGAAGAAGAA
1 AAAGAA-AAGAA
*
20245972 AAA-AAGA-AA
1 AAAGAAAAGAA
20245981 AAAGAAAAAGAA
1 AAAG-AAAAGAA
*
20245993 AAAGAAAAGGA
1 AAAGAAAAGAA
*
20246004 AAAGGAAAGAA
1 AAAGAAAAGAA
20246015 AAA-AAAAG
1 AAAGAAAAG
20246023 CAGCAGACCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 5 0.12
10 5 0.12
11 23 0.55
12 9 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:20245994 original size:12 final size:12
Alignment explanation
Indices: 20245972--20246011 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20245962 AGAAGAAGAA
20245972 AAAAAGAAAAAAG
1 AAAAAG-AAAAAG
20245985 AAAAAGAAAAAG
1 AAAAAGAAAAAG
* *
20245997 AAAAGGAAAAGG
1 AAAAAGAAAAAG
20246009 AAA
1 AAA
20246012 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:20246000 original size:24 final size:21
Alignment explanation
Indices: 20245960--20246022 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
20245950 GGTTTGGCCC
*
20245960 AAAGAAGAAGAAAAAAAGA-AA
1 AAAGAA-AAGAAAAAAAAAGAA
*
20245981 AAAGAAAAAGAAAAAGAAAAGGA
1 AAAG-AAAAGAAAAA-AAAAGAA
*
20246004 AAAGGAAAGAAAAAAAAAG
1 AAAGAAAAGAAAAAAAAAG
20246023 CAGCAGACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 17 0.47
22 14 0.39
23 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAGAAAAGAAAAAAAAAGAA
Found at i:20246222 original size:9 final size:9
Alignment explanation
Indices: 20246208--20246270 Score: 81
Period size: 9 Copynumber: 6.6 Consensus size: 9
20246198 CAGCCCAGCA
20246208 AAAAAAAAG
1 AAAAAAAAG
20246217 AAAAAAAAG
1 AAAAAAAAG
20246226 AGAAAAAGAAG
1 A-AAAAA-AAG
20246237 AAAAAAAGAG
1 AAAAAAA-AG
20246247 AAAAAAAAAG
1 -AAAAAAAAG
*
20246257 AAAAAAGAG
1 AAAAAAAAG
20246266 AAAAA
1 AAAAA
20246271 GGCCCATTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
9 24 0.49
10 14 0.29
11 11 0.22
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:20246223 original size:11 final size:10
Alignment explanation
Indices: 20246207--20246262 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
20246197 CCAGCCCAGC
20246207 AAAAAAAAAG
1 AAAAAAAAAG
20246217 -AAAAAAAAG
1 AAAAAAAAAG
*
20246226 AGAAAAAGAAG
1 A-AAAAAAAAG
*
20246237 AAAAAAAGAG
1 AAAAAAAAAG
20246247 AAAAAAAAAG
1 AAAAAAAAAG
20246257 AAAAAA
1 AAAAAA
20246263 GAGAAAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
9 9 0.22
10 22 0.55
11 9 0.22
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:20246240 original size:19 final size:19
Alignment explanation
Indices: 20246208--20246271 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
20246198 CAGCCCAGCA
*
20246208 AAAAAAAAGAAAAAAAAGAG
1 AAAAAGAAG-AAAAAAAGAG
20246228 AAAAAGAAGAAAAAAAGAG
1 AAAAAGAAGAAAAAAAGAG
*
20246247 AAAAA-AAAAGAAAAAAGAG
1 AAAAAGAAGA-AAAAAAGAG
20246266 AAAAAG
1 AAAAAG
20246272 GCCCATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.08
19 29 0.73
20 8 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAGAAGAAAAAAAGAG
Found at i:20246271 original size:8 final size:8
Alignment explanation
Indices: 20246220--20246271 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
20246210 AAAAAAGAAA
20246220 AAAAAGAG
1 AAAAAGAG
20246228 AAAAAGAAG
1 AAAAAG-AG
*
20246237 AAAAAAAG
1 AAAAAGAG
*
20246245 AGAAA-A-
1 AAAAAGAG
20246251 AAAAAGA-
1 AAAAAGAG
20246258 AAAAAGAG
1 AAAAAGAG
20246266 AAAAAG
1 AAAAAG
20246272 GCCCATTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
6 4 0.11
7 9 0.24
8 18 0.47
9 7 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:20247764 original size:21 final size:21
Alignment explanation
Indices: 20247739--20247782 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
20247729 AATTGATGCA
20247739 TTTTTATTGTTTTG-TCATTGT
1 TTTTTATTGTTTTGCT-ATTGT
20247760 TTTTTATTGTTTTGCTATTGT
1 TTTTTATTGTTTTGCTATTGT
20247781 TT
1 TT
20247783 CGCTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.09, C:0.05, G:0.14, T:0.73
Consensus pattern (21 bp):
TTTTTATTGTTTTGCTATTGT
Found at i:20247770 original size:10 final size:11
Alignment explanation
Indices: 20247742--20247782 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
20247732 TGATGCATTT
20247742 TTATTGTTTTG
1 TTATTGTTTTG
*
20247753 TCATTGTTTT-
1 TTATTGTTTTG
20247763 TTATTGTTTTG
1 TTATTGTTTTG
*
20247774 CTATTGTTT
1 TTATTGTTT
20247783 CGCTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.71
Consensus pattern (11 bp):
TTATTGTTTTG
Found at i:20251614 original size:15 final size:15
Alignment explanation
Indices: 20251561--20251629 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
20251551 ACGTGTATGT
* *
20251561 ATATTATTTTTAT-A
1 ATATTAATTATATAA
20251575 ATA-TAATATATACTAA
1 ATATTAAT-TATA-TAA
*
20251591 ATA-TAATTAT-TTA
1 ATATTAATTATATAA
20251604 ATAGTTAATTATATAA
1 ATA-TTAATTATATAA
20251620 ATATTAATTA
1 ATATTAATTA
20251630 ATTTTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
13 8 0.18
14 6 0.13
15 18 0.40
16 13 0.29
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (15 bp):
ATATTAATTATATAA
Found at i:20262878 original size:21 final size:21
Alignment explanation
Indices: 20262854--20262906 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
20262844 CATTGTTTCT
*
20262854 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
20262875 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
20262896 AATCTCACCGC
1 AATCTCACCGC
20262907 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:20265168 original size:25 final size:24
Alignment explanation
Indices: 20265093--20265194 Score: 117
Period size: 22 Copynumber: 4.3 Consensus size: 24
20265083 CACTAATGAA
20265093 CAGAGAGCACTGAA-GTGCTAT-A-
1 CAGAGAGCACT-AACGTGCTATAAT
*
20265115 CAGAGAGCAC-AGATGTGCTA-AAT
1 CAGAGAGCACTA-ACGTGCTATAAT
20265138 -AGAGAGCACTAACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTA-TAAT
20265162 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
20265187 CAGAGAGC
1 CAGAGAGC
20265195 GCGCTAAAGT
Statistics
Matches: 70, Mismatches: 1, Indels: 15
0.81 0.01 0.17
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 33 0.47
23 1 0.01
24 3 0.04
25 30 0.43
26 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:20265181 original size:47 final size:44
Alignment explanation
Indices: 20265094--20265182 Score: 110
Period size: 47 Copynumber: 2.0 Consensus size: 44
20265084 ACTAATGAAC
*
20265094 AGAGAGCACTGAAGTGCTATACAGAGAGCACAGATGTGCTAAAT
1 AGAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAAAT
20265138 AGAGAGCACT-AACGTGCTAGTAATCAGAGAGCACTA-ACGTGCTAA
1 AGAGAGCACTGAA-GTGCTA-T-A-CAGAGAGCAC-AGACGTGCTAA
20265183 TAATCAGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
43 2 0.05
44 16 0.41
45 1 0.03
46 1 0.03
47 18 0.46
48 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (44 bp):
AGAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAAAT
Found at i:20266384 original size:12 final size:12
Alignment explanation
Indices: 20266363--20266487 Score: 63
Period size: 12 Copynumber: 9.8 Consensus size: 12
20266353 AAAAACGAAA
*
20266363 TGATTAAAAACT
1 TGATGAAAAACT
* *
20266375 TGATGGAAAATT
1 TGATGAAAAACT
*
20266387 TTATGAAAAGACT
1 TGATGAAAA-ACT
20266400 TGATGAAAAACT
1 TGATGAAAAACT
* *
20266412 TTA-AAAAGAACT
1 TGATGAAA-AACT
* *
20266424 TGTTGCAAAACT
1 TGATGAAAAACT
*
20266436 TGATAAAAAAAACT
1 TGAT--GAAAAACT
*
20266450 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
20266465 TGATAAAAGAACT
1 TGATGAAA-AACT
*
20266478 AGATGAAAAA
1 TGATGAAAAA
20266488 TACTTGAAGA
Statistics
Matches: 84, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
11 3 0.04
12 40 0.48
13 22 0.26
14 8 0.10
15 9 0.11
17 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.27
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:20266424 original size:24 final size:25
Alignment explanation
Indices: 20266371--20266487 Score: 94
Period size: 25 Copynumber: 4.6 Consensus size: 25
20266361 AATGATTAAA
* *
20266371 AACTTGATGGAAAATTTTATGAAAAG
1 AACTTGATGAAAAACTTTAT-AAAAG
20266397 -ACTTGATGAAAAACTTTA-AAAAG
1 AACTTGATGAAAAACTTTATAAAAG
* * * *
20266420 AACTTGTTGCAAAACTTGATAAAAAA
1 AACTTGATGAAAAACTTTAT-AAAAG
* *
20266446 AACTTGGTAATTAAAAACTTGATAAAAG
1 AACTT-G--ATGAAAAACTTTATAAAAG
*
20266474 AACTAGATGAAAAA
1 AACTTGATGAAAAA
20266488 TACTTGAAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
23 5 0.07
24 15 0.21
25 23 0.32
26 9 0.12
27 2 0.03
28 8 0.11
29 11 0.15
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (25 bp):
AACTTGATGAAAAACTTTATAAAAG
Found at i:20266463 original size:15 final size:14
Alignment explanation
Indices: 20266430--20266494 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
20266420 AACTTGTTGC
20266430 AAAACTTGATAAAA
1 AAAACTTGATAAAA
* *
20266444 AAAACTTGGTAATTA
1 AAAACTTGATAA-AA
20266459 AAAACTTGAT-AAA
1 AAAACTTGATAAAA
* * *
20266472 AGAACTAGATGAAA
1 AAAACTTGATAAAA
*
20266486 AATACTTGA
1 AAAACTTGA
20266495 AGAAAGAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 9 0.22
14 21 0.52
15 10 0.25
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (14 bp):
AAAACTTGATAAAA
Found at i:20266512 original size:20 final size:20
Alignment explanation
Indices: 20266483--20266521 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20266473 GAACTAGATG
*
20266483 AAAAATACTTGAA-GAAAGAA
1 AAAAACACTT-AATGAAAGAA
20266503 AAAAACACTTAATGAAAGA
1 AAAAACACTTAATGAAAGA
20266522 CTTAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.64, C:0.08, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAACACTTAATGAAAGAA
Found at i:20267664 original size:23 final size:23
Alignment explanation
Indices: 20267635--20267680 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20267625 ATAAGTATGG
20267635 ACATATATTAATTACAAATGTAT
1 ACATATATTAATTACAAATGTAT
* *
20267658 ACATATATTTATTACACATGTAT
1 ACATATATTAATTACAAATGTAT
20267681 TTATAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (23 bp):
ACATATATTAATTACAAATGTAT
Found at i:20274308 original size:19 final size:19
Alignment explanation
Indices: 20274284--20274333 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
20274274 TTTTTCTTTT
*
20274284 CTTCATCAGAAAGCAAAAA
1 CTTCATCAAAAAGCAAAAA
* *
20274303 CTTCATCAAAAATCTAAAA
1 CTTCATCAAAAAGCAAAAA
*
20274322 CTTCAACAAAAA
1 CTTCATCAAAAA
20274334 CAGATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.54, C:0.22, G:0.04, T:0.20
Consensus pattern (19 bp):
CTTCATCAAAAAGCAAAAA
Found at i:20275245 original size:3 final size:3
Alignment explanation
Indices: 20275237--20275276 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
20275227 TCTTAATTCT
20275237 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20275277 AAAATCGCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20281678 original size:2 final size:2
Alignment explanation
Indices: 20281673--20281718 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
20281663 CTCTCTGAAA
*
20281673 AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20281715 AG AG
1 AG AG
20281719 CGTGTGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20286016 original size:2 final size:2
Alignment explanation
Indices: 20286009--20286043 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20285999 TTCTCACCTC
20286009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20286044 AAGAAGACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20288165 original size:22 final size:22
Alignment explanation
Indices: 20288118--20288182 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
20288108 ATTCAATTAT
* ** *
20288118 TAGCACATTAGTTCTCTCCGTT
1 TAGCACATTAGTGCTCTCTATA
*
20288140 TAGCACATTCGTGCTCTCTATA
1 TAGCACATTAGTGCTCTCTATA
*
20288162 TAGCACTTTAGTGCTCTCTAT
1 TAGCACATTAGTGCTCTCTAT
20288183 TCAATAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTATA
Found at i:20290206 original size:16 final size:16
Alignment explanation
Indices: 20290166--20290211 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
20290156 TACCAAAGGT
*
20290166 ATTAATTAAGGTTAATG
1 ATTAATTAA-ATTAATG
20290183 -TTAA-TAAATTAATG
1 ATTAATTAAATTAATG
*
20290197 ATTAATTAAACTAAT
1 ATTAATTAAATTAAT
20290212 TATAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
16 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (16 bp):
ATTAATTAAATTAATG
Found at i:20291708 original size:23 final size:23
Alignment explanation
Indices: 20291674--20291753 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
20291664 CTACCTTGTT
*
20291674 TTGGACAACATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
*
20291697 TTGGACAGCATTAATATGC-TCAAA
1 TTGGACAGCATT--TATACATCAAA
*
20291721 ATGGACAGCA-TTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
*
20291743 TTGGATAGCAT
1 TTGGACAGCAT
20291754 CAATATGCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.09
22 13 0.28
23 12 0.26
24 14 0.30
25 4 0.09
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (23 bp):
TTGGACAGCATTTATACATCAAA
Found at i:20291725 original size:24 final size:24
Alignment explanation
Indices: 20291692--20291779 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
20291682 CATTTATACA
*
20291692 TCAAATTGGACAGCATTAATATGC
1 TCAAAATGGACAGCATTAATATGC
20291716 TCAAAATGGACAGCATT-ATA--C
1 TCAAAATGGACAGCATTAATATGC
* * *
20291737 ATCAAATTGGATAGCATCAATATGC
1 -TCAAAATGGACAGCATTAATATGC
*
20291762 TCAAAATGGACATCATTA
1 TCAAAATGGACAGCATTA
20291780 TAACATATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.02
22 14 0.27
23 6 0.12
24 30 0.58
25 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (24 bp):
TCAAAATGGACAGCATTAATATGC
Found at i:20291743 original size:46 final size:46
Alignment explanation
Indices: 20291675--20291781 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 46
20291665 TACCTTGTTT
*
20291675 TGGACAACATTTATACATCAAATTGGACAGCATTAATATGCTCAAAA
1 TGGACAACA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
20291722 TGGACAGCATTATACATCAAATTGGATAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
20291768 TGGACATCATTATA
1 TGGACAACATTATA
20291782 ACATATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
46 48 0.86
47 8 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (46 bp):
TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:20294548 original size:50 final size:50
Alignment explanation
Indices: 20294438--20294732 Score: 297
Period size: 50 Copynumber: 5.8 Consensus size: 50
20294428 ATTTGGGTAA
*
20294438 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTCTTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATG
* * * *
20294494 AGAGGTCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACTGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
20294544 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGGGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
*** * * * *
20294594 AGAGATCCCCCATAAGGCCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
20294644 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
20294693 AAACATTCCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
20294733 TATGTTATTA
Statistics
Matches: 204, Mismatches: 33, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
49 38 0.19
50 123 0.60
53 4 0.02
54 1 0.00
56 38 0.19
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:20296517 original size:41 final size:41
Alignment explanation
Indices: 20296453--20296551 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
20296443 TTGTCATCGT
* * **
20296453 ATAGCCGAAGCTAT-TATAATCTCGCACACCAAGTGCCTTGC
1 ATAGCCGAAGCTATCT-CAATCTCGCACACCAAGTGCCATAA
* *
20296494 ATAGCCGAAGCTATCTCAGTCTCGCACACTAAGTGCCATAA
1 ATAGCCGAAGCTATCTCAATCTCGCACACCAAGTGCCATAA
20296535 ATAGCCGAAGCTATCTC
1 ATAGCCGAAGCTATCTC
20296552 GAATTTTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 50 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (41 bp):
ATAGCCGAAGCTATCTCAATCTCGCACACCAAGTGCCATAA
Found at i:20306541 original size:46 final size:46
Alignment explanation
Indices: 20306470--20306760 Score: 402
Period size: 46 Copynumber: 6.3 Consensus size: 46
20306460 TACCCTGTTT
* *
20306470 TGGACAGCATTTATACATCAAATTGGATAGCATTAATATGCTCAAAA
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
** *
20306517 TAAACAGCATTATACATCAAATTGGACAGCATCAATTTGCTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * * * *
20306563 TTGATAGCATTATACATCAAATTGGATAGCTTTAATATGCTCAAAT
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
** *
20306609 TGGACAGCATTATACATCAAATTATACAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * * *
20306655 TGGACAACATTATACATCAAATTGGATAGCTTTAATATGCTCAAAT
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
20306701 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
20306747 TGGACAGCATTATA
1 TGGACAGCATTATA
20306761 ACATATGAAA
Statistics
Matches: 209, Mismatches: 35, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
46 202 0.97
47 7 0.03
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (46 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:20306638 original size:92 final size:92
Alignment explanation
Indices: 20306470--20306760 Score: 474
Period size: 92 Copynumber: 3.2 Consensus size: 92
20306460 TACCCTGTTT
* * **
20306470 TGGACAGCATTTATACATCAAATTGGATAGCATTAATATGCTCAAAATAAACAGCATTATACATC
1 TGGACAGCA-TTATACATCAAATTGGATAGCTTTAATATGCTCAAATTGGACAGCATTATACATC
*
20306535 AAATTGGACAGCATCAATTTGCTCAAAA
65 AAATTGGACAGCATCAATATGCTCAAAA
* *
20306563 TTGATAGCATTATACATCAAATTGGATAGCTTTAATATGCTCAAATTGGACAGCATTATACATCA
1 TGGACAGCATTATACATCAAATTGGATAGCTTTAATATGCTCAAATTGGACAGCATTATACATCA
** *
20306628 AATTATACAGCATCAATATACTCAAAA
66 AATTGGACAGCATCAATATGCTCAAAA
*
20306655 TGGACAACATTATACATCAAATTGGATAGCTTTAATATGCTCAAATTGGACAGCATTATACATCA
1 TGGACAGCATTATACATCAAATTGGATAGCTTTAATATGCTCAAATTGGACAGCATTATACATCA
20306720 AATTGGACAGCATCAATATGCTCAAAA
66 AATTGGACAGCATCAATATGCTCAAAA
20306747 TGGACAGCATTATA
1 TGGACAGCATTATA
20306761 ACATATGAAA
Statistics
Matches: 181, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
92 174 0.96
93 7 0.04
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (92 bp):
TGGACAGCATTATACATCAAATTGGATAGCTTTAATATGCTCAAATTGGACAGCATTATACATCA
AATTGGACAGCATCAATATGCTCAAAA
Found at i:20308245 original size:48 final size:48
Alignment explanation
Indices: 20308182--20308332 Score: 221
Period size: 48 Copynumber: 3.1 Consensus size: 48
20308172 GGTAACTAAA
* *
20308182 CACTATTATTCATTATTTGTGTAAGTTTAACCCTAACGGGTAACCAGG
1 CACTATTATTTATTATTTGTGTAGGTTTAACCCTAACGGGTAACCAGG
*
20308230 CACTATTATTTATTATTTGTGTAGGTTTAACCCTAACGGGTAACTAGG
1 CACTATTATTTATTATTTGTGTAGGTTTAACCCTAACGGGTAACCAGG
* ** * **
20308278 CACTATTATTTATTGTTCATGTAGGTTTAACCCAAACGGGTAGTCAGG
1 CACTATTATTTATTATTTGTGTAGGTTTAACCCTAACGGGTAACCAGG
20308326 CACTATT
1 CACTATT
20308333 TCTTTCACCT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 93 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (48 bp):
CACTATTATTTATTATTTGTGTAGGTTTAACCCTAACGGGTAACCAGG
Found at i:20326505 original size:11 final size:11
Alignment explanation
Indices: 20326491--20326532 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
20326481 AAATAAATAT
20326491 TATTTTATTAA
1 TATTTTATTAA
* *
20326502 TATTTTAGTGA
1 TATTTTATTAA
*
20326513 TATTTTATTAT
1 TATTTTATTAA
20326524 TATTTTATT
1 TATTTTATT
20326533 TAGTATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:20330992 original size:26 final size:26
Alignment explanation
Indices: 20330812--20330993 Score: 97
Period size: 24 Copynumber: 7.4 Consensus size: 26
20330802 ATTCGGGCTG
*
20330812 TATAACGGGAAGCTCA-TAAGAG-C-
1 TATAACGGGAAGCTCACGAAGAGCCA
* *
20330835 TATAATCAGGAAGCTCATGCAAGA--CA
1 TATAA-CGGGAAGCTCACG-AAGAGCCA
20330861 -ATAACGGGTAA-CTC-CGAAGAGCCA
1 TATAACGGG-AAGCTCACGAAGAGCCA
* * * * *
20330885 T-TAACTGGAAGCTC-TGGATACCCA
1 TATAACGGGAAGCTCACGAAGAGCCA
* *
20330909 TATATCGGGAAGTTCA--AACGAGCCA
1 TATAACGGGAAGCTCACGAA-GAGCCA
* *
20330934 TAT--CGAGAAGCTCACAAAGAGCC-
1 TATAACGGGAAGCTCACGAAGAGCCA
*
20330957 TTTAATCGGGAAGCTCACGAAGAGCCA
1 TATAA-CGGGAAGCTCACGAAGAGCCA
20330984 TATAACGGGA
1 TATAACGGGA
20330994 CACTCATAAG
Statistics
Matches: 120, Mismatches: 21, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
22 4 0.03
23 19 0.16
24 40 0.33
25 26 0.22
26 27 0.22
27 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
TATAACGGGAAGCTCACGAAGAGCCA
Found at i:20330999 original size:26 final size:26
Alignment explanation
Indices: 20330912--20330993 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
20330902 ATACCCATAT
* *
20330912 ATCGGGAAGTTCA-AACGAGCC-AT-
1 ATCGGGAAGCTCACAAAGAGCCTATA
* *
20330935 ATCGAGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCACAAAGAGCCTATA
*
20330961 ATCGGGAAGCTCACGAAGAGCCATATA
1 ATCGGGAAGCTCACAAAGAGCC-TATA
20330988 A-CGGGA
1 ATCGGGA
20330994 CACTCATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 11 0.23
24 7 0.15
25 1 0.02
26 25 0.52
27 4 0.08
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.16
Consensus pattern (26 bp):
ATCGGGAAGCTCACAAAGAGCCTATA
Found at i:20332018 original size:13 final size:13
Alignment explanation
Indices: 20332000--20332028 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20331990 TTTTTTATTT
20332000 TTTATTTATCATC
1 TTTATTTATCATC
20332013 TTTATTTATCATC
1 TTTATTTATCATC
20332026 TTT
1 TTT
20332029 CCAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTATTTATCATC
Found at i:20343217 original size:16 final size:16
Alignment explanation
Indices: 20343179--20343217 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
20343169 AAAAATTTAT
*
20343179 AAATAAAATATTCAAA
1 AAATAAAACATTCAAA
20343195 AATATAAAACATTCAAA
1 AA-ATAAAACATTCAAA
20343212 AAATAA
1 AAATAA
20343218 TCAATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAACATTCAAA
Found at i:20344671 original size:3 final size:3
Alignment explanation
Indices: 20344665--20344724 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
20344655 TATATATTAC
* *
20344665 ATT ATT ATT ACTGA ATT ATT ATT AGT -TT ATT ATT ATT A-T ATT ATAT
1 ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
20344711 ATT TTT ATT ATT AT
1 ATT ATT ATT ATT AT
20344725 ACTTACCGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:20344708 original size:14 final size:14
Alignment explanation
Indices: 20344679--20344724 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
20344669 TTATTACTGA
20344679 ATTATTATTAGT-TT
1 ATTATTATTA-TATT
20344693 ATTATTATTATATT
1 ATTATTATTATATT
20344707 ATATATT-TT-TATT
1 AT-TATTATTATATT
20344720 ATTAT
1 ATTAT
20344725 ACTTACCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:20344811 original size:20 final size:20
Alignment explanation
Indices: 20344778--20344819 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
20344768 TACTAGTCTA
20344778 TTATGTTTATAATTTTATTT
1 TTATGTTTATAATTTTATTT
20344798 TTAT-TTTATAAATTTTATTT
1 TTATGTTTAT-AATTTTATTT
20344818 TT
1 TT
20344820 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATGTTTATAATTTTATTT
Found at i:20344823 original size:8 final size:8
Alignment explanation
Indices: 20344810--20344850 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
20344800 ATTTTATAAA
20344810 TTTTATTT
1 TTTTATTT
20344818 TTTTA--T
1 TTTTATTT
20344824 TTTTATTT
1 TTTTATTT
*
20344832 TGTTATTT
1 TTTTATTT
20344840 TTGTTATTT
1 TT-TTATTT
20344849 TT
1 TT
20344851 GTATACATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
6 6 0.21
8 14 0.50
9 8 0.29
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:20344837 original size:14 final size:14
Alignment explanation
Indices: 20344792--20344841 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
20344782 GTTTATAATT
20344792 TTATTTTTATTTTA
1 TTATTTTTATTTTA
* * *
20344806 TAAATTTTATTTTT
1 TTATTTTTATTTTA
*
20344820 TTATTTTTATTTTG
1 TTATTTTTATTTTA
20344834 TTATTTTT
1 TTATTTTT
20344842 GTTATTTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:20344841 original size:28 final size:29
Alignment explanation
Indices: 20344790--20344850 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
20344780 ATGTTTATAA
20344790 TTTTATTTTTATTTTATAAATTTTATT-T
1 TTTTATTTTTATTTTATAAATTTTATTAT
* * * *
20344818 TTTTATTTTTATTTTGTTATTTTTGTTAT
1 TTTTATTTTTATTTTATAAATTTTATTAT
20344847 TTTT
1 TTTT
20344851 GTATACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTATTTTTATTTTATAAATTTTATTAT
Found at i:20352199 original size:10 final size:10
Alignment explanation
Indices: 20352186--20352295 Score: 73
Period size: 10 Copynumber: 10.9 Consensus size: 10
20352176 TTCTCGTGCA
20352186 AGCTCATTTC
1 AGCTCATTTC
20352196 AGCTCCATTTC
1 AGCT-CATTTC
* *
20352207 AGCTCCTCT-
1 AGCTCATTTC
*
20352216 AGCTCGTTTC
1 AGCTCATTTC
****
20352226 AGCTCCGACC
1 AGCTCATTTC
* *
20352236 AGCTCAATTG
1 AGCTCATTTC
*
20352246 AGCTTATTTC
1 AGCTCATTTC
20352256 AGCTCA-TTC
1 AGCTCATTTC
20352265 GAGCTCAATTT-
1 -AGCTC-ATTTC
20352276 AGCTACATTTC
1 AGCT-CATTTC
20352287 AGCTCATTT
1 AGCTCATTT
20352296 ATTTTATTGG
Statistics
Matches: 76, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
9 10 0.13
10 48 0.63
11 16 0.21
12 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:20352289 original size:31 final size:30
Alignment explanation
Indices: 20352236--20352294 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
20352226 AGCTCCGACC
*
20352236 AGCTCAATTGAGCTTATTTCAGCTCATTCG
1 AGCTCAATTGAGCTCATTTCAGCTCATTCG
*
20352266 AGCTCAATTTAGCTACATTTCAGCTCATT
1 AGCTCAATTGAGCT-CATTTCAGCTCATT
20352295 TATTTTATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (30 bp):
AGCTCAATTGAGCTCATTTCAGCTCATTCG
Found at i:20359469 original size:51 final size:52
Alignment explanation
Indices: 20359393--20359496 Score: 183
Period size: 51 Copynumber: 2.0 Consensus size: 52
20359383 AATCGAATAC
*
20359393 ACATAAGTTTAATGTAATACCCCCTACCCGTATTCATCGCCGAAATAGAGTAT
1 ACATAAGTTT-ATGTAATACCCCCTACCCGCATTCATCGCCGAAATAGAGTAT
20359446 ACATAAGTTT-TGTAATACCCCCTACCCGCATTCATCGCCGAAATAGAGTAT
1 ACATAAGTTTATGTAATACCCCCTACCCGCATTCATCGCCGAAATAGAGTAT
20359497 GAGGCATTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 40 0.80
53 10 0.20
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (52 bp):
ACATAAGTTTATGTAATACCCCCTACCCGCATTCATCGCCGAAATAGAGTAT
Done.