Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 64 of 295
Found at i:18487144 original size:45 final size:45
Alignment explanation
Indices: 18487078--18487860 Score: 452
Period size: 45 Copynumber: 17.5 Consensus size: 45
18487068 GAATCCATAG
* * * *
18487078 ATCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
18487123 ACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAGTAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * *
18487167 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGA-CTGAAGATAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCAA
* * * *
18487212 GTCTTATCTCCCTGAAGTTGCAG-AGGAGCAGA-CTGAAGATATCAG
1 ATCTTATCTCCCTGAAGTTGCAGTA-GAACAGATC-GAAGATAGCAA
* ** *
18487257 ATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * * * *
18487302 ACCTTATCTCTCTGGAGTTGCAATAGAGCAGGTTGAAG-TAGTAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
18487346 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAGATAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCAA
* * * * *
18487391 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
18487436 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * ** * *
18487480 GTCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-CTGAAGATAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCAA
* * * * *
18487525 A-CTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGAAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * *
18487569 ATATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAG-TAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * * *
18487613 GTCTTATCTCTCTGAAGTTGTAGTGGAGCA-AACTGAAGACCA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGA-TAGCAA
* * * * *
18487658 GTCTTATCTCCTTGAAGTTGCAGT-GAAGCAGGTTGAA-ATTACCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAA-CAGATCGAAGA-TAGCAA
* * * * * ** *
18487703 CTCTTACCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * * **
18487747 ATCTCT-TCTCCCTGAAATTACATTGGAGCAGATCAAAGCCA-C-A
1 ATCT-TATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
18487790 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGAT-AAAAATACACAA
1 AT-CTTATCTCCCTGAAGTTGCAGTAGAACA-GATCGAAGATA-GCAA
* *
18487837 ACCTTATTTCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
18487861 GGAGTAGATT
Statistics
Matches: 571, Mismatches: 140, Indels: 53
0.75 0.18 0.07
Matches are distributed among these distances:
43 4 0.01
44 236 0.41
45 304 0.53
46 25 0.04
47 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
Found at i:18487230 original size:89 final size:88
Alignment explanation
Indices: 18487079--18487762 Score: 513
Period size: 89 Copynumber: 7.7 Consensus size: 88
18487069 AATCCATAGA
* * ** * * *
18487079 TCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCTTATCTCCCTGAAGTTGC
*
18487144 AGTAGAACAGGTTGAAGTAGTAAG
65 AGTAGAGCAGGTTGAAGTAGTAAG
**
18487168 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
** *
18487233 AG-AGGAGCAGACTGAAGATA-TCAG
65 AGTA-GAGCAGGTTGAAG-TAGTAAG
* * * * * *
18487257 ATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGGAGTTG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCTTATCTCCCTGAAGTTG
*
18487322 CAATAGAGCAGGTTGAAGTAGTAAG
64 CAGTAGAGCAGGTTGAAGTAGTAAG
* * * * *
18487347 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAGATCTTATCTCCCTAAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* ** * * *
18487412 AGTGGAATAGATTGAAGATAGCAAA
65 AGTAGAGCAGGTTGAAG-TAGTAAG
* * * * * * *
18487437 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAAGTCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACA-GATGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * **
18487501 AGTGGAGTAGACTGAAG-A-TAACAG
65 AGTAGAGCAGGTTGAAGTAGT-A-AG
* * * ** * * * * *
18487525 ACTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAATATTATCTCTCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCTTATCTCCCTGAAGTTGC
*
18487590 AGTAGAGCAGGTTGAAGTAGCAAG
65 AGTAGAGCAGGTTGAAGTAGTAAG
* * * * * * *
18487614 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAACTGAAGACCA-CAAGTCTTATCTCCTTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGA-TAGCAAATCTTATCTCCCTGAAGTTG
* ** *
18487678 CAGT-GAAGCAGGTTGAAATTACCAAC
64 CAGTAG-AGCAGGTTG-AAGTAGTAAG
* * * ** *
18487704 TCTTACCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTA-CAAATCTCT-TCTCCCTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCT-TATCTCCCTGAA
18487763 ATTACATTGG
Statistics
Matches: 468, Mismatches: 105, Indels: 44
0.76 0.17 0.07
Matches are distributed among these distances:
87 4 0.01
88 28 0.06
89 286 0.61
90 148 0.32
91 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
GTAGAGCAGGTTGAAGTAGTAAG
Found at i:18487350 original size:134 final size:133
Alignment explanation
Indices: 18487169--18487676 Score: 678
Period size: 134 Copynumber: 3.8 Consensus size: 133
18487159 AGTAGTAAGT
* * * ** *
18487169 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTGAAGTTGCA
* **
18487234 GAGGAGCAGACTGAAGATATCAGATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAG
65 GTGGAGCAGACTGAAGATA-CAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAG
18487299 CAAAC
129 CAAAC
* * *
18487304 CTTATCTCTCTGGAGTTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
18487369 TGGAGCAGACTAAAGATAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGC
66 TGGAGCAGACTGAAGATA-CAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGC
18487434 AAAC
130 AAAC
* *
18487438 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
18487503 TGGAGTAGACTGAAGATAACAGA-CTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGA
66 TGGAGCAGACTGAAGAT-ACAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGC
*
18487567 AAAT
130 AAAC
* * * *
18487571 ATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCTCTGAAGTTGTAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
* * *
18487636 TGGAGCAAACTGAAGACCACA-AGTCTTATCTCCTTGAAGTT
66 TGGAGCAGACTGAAGA-TACAGA-TCTTATCTCCCTGAAGTT
18487677 GCAGTGAAGC
Statistics
Matches: 327, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
132 1 0.00
133 114 0.35
134 182 0.56
135 30 0.09
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (133 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTGAAGATACAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGCA
AAC
Found at i:18487387 original size:179 final size:179
Alignment explanation
Indices: 18487076--18487458 Score: 586
Period size: 179 Copynumber: 2.1 Consensus size: 179
18487066 GTGAATCCAT
*
18487076 AGATCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
1 AGATCTTATCTCACTGAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
* *
18487141 TGCAGTAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGA
66 TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA
* * * * *
18487206 TAGCAGGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATATC
131 TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
* * * *
18487255 AGATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGGAGT
1 AGATCTTATCTCACTGAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
* *
18487320 TGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA
66 TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA
* * *
18487385 TAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGC
131 TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
* * *
18487434 AAACCTTATCTCTCTGAAGTTGCAG
1 AGATCTTATCTCACTGAAGTTGCAG
18487459 TAGAGCAGGT
Statistics
Matches: 183, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
179 183 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (179 bp):
AGATCTTATCTCACTGAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA
TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
Found at i:18487809 original size:267 final size:266
Alignment explanation
Indices: 18487125--18487778 Score: 610
Period size: 267 Copynumber: 2.4 Consensus size: 266
18487115 GATAGCAAAC
* * * * * * ** * * *
18487125 CTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAGTAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGCAAACCTTACCTCTCTGAAGTTCCA
* * ** * * * * *
18487189 GTGGAACAGA-CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATA
66 GTAGAGCAGATC-GAA-ATAGCAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGACA
* ** * * * *
18487253 TCAGATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGGA
129 ACAGA-CTTATCT-CCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAACATTATCTCTCTGAA
* *
18487318 GTTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
192 GTTGCAATAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAA
*
18487383 GATAGCAGAT
257 GACAGCAGAT
* * *
18487393 CTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGCAAACCTTACCTCTCTGAAGTTCCA
* * * * * * *
18487458 GTAGAGCAGGTTGAAATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAAC
66 GTAGAGCAGATCGAAATAGCAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGACAAC
*
18487523 AGACTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAATATTATCTCTCTGAAGTT
131 AGACTTATCT-CCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAACATTATCTCTCTGAAGTT
* * * * *
18487588 GTAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAAACTGAAGAC
195 GCAATAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGA-
18487653 CA-CA-AGT
259 CAGCAGA-T
* * * * *
18487660 CTTATCTCCTTGAAGTTGCAGT-GAAGCAGGTTGAA-ATTA-CCAACTCTTACCTC-CTTGAAGT
1 CTTATCTCCCTAAAGTTACAGTGGAA-CAGATTGAAGA-TAGCAAAC-CTTACCTCTC-TGAAGT
* * * *
18487721 TCCAGTGGAGTAGATCGAAGCTA-CAAATCTCT-TCTCCCTGAAA-TTACATTGGAGCAGA
62 TCCAGTAGAGCAGATCGAA-ATAGCAAATCT-TATCTCCCT-AAAGTTACAGTGGAGCAGA
18487779 TCAAAGCCAC
Statistics
Matches: 323, Mismatches: 52, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
266 10 0.03
267 194 0.60
268 85 0.26
269 34 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (266 bp):
CTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGCAAACCTTACCTCTCTGAAGTTCCA
GTAGAGCAGATCGAAATAGCAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGACAAC
AGACTTATCTCCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAACATTATCTCTCTGAAGTTG
CAATAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGACA
GCAGAT
Found at i:18487820 original size:44 final size:45
Alignment explanation
Indices: 18487753--18487869 Score: 110
Period size: 46 Copynumber: 2.6 Consensus size: 45
18487743 ACAAATCTCT
* * * * * * *
18487753 TCTCCCTGAAATTACATTGGAGCAGAT-CAAAGCCACAATCCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATAAAAAGACACAAACCTTA
* *
18487797 TCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCA-GATAAAAAGACACAAACCTTA
* * *
18487843 TTTCCCTGAAGTTGCAGTGGAGTAGAT
1 TCTCCCTGAAGTTGCAGTAGAGCAGAT
18487870 TGAAATTACC
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 19 0.33
45 6 0.10
46 33 0.57
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (45 bp):
TCTCCCTGAAGTTGCAGTAGAGCAGATAAAAAGACACAAACCTTA
Found at i:18488937 original size:15 final size:14
Alignment explanation
Indices: 18488881--18488995 Score: 60
Period size: 15 Copynumber: 8.1 Consensus size: 14
18488871 TTATTATGTT
*
18488881 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
18488895 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
18488909 TACTATTATTATTTA
1 T-CTATTTTTATTTA
18488924 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
18488939 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
18488953 TACTATTATTA-TT-
1 T-CTATTTTTATTTA
*
18488966 TCTATTTATTCTATT-
1 TCTATTT-TTAT-TTA
*
18488981 TCTATTTCTATTTA
1 TCTATTTTTATTTA
18488995 T
1 T
18488996 ATACTAATAT
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
12 11 0.14
13 7 0.09
14 20 0.26
15 31 0.40
16 2 0.03
17 7 0.09
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:18488950 original size:29 final size:28
Alignment explanation
Indices: 18488881--18488951 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
18488871 TTATTATGTT
18488881 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
18488909 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
18488939 TCTATTTATATTT
1 TCTATTTATATTT
18488952 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:18488971 original size:21 final size:22
Alignment explanation
Indices: 18488936--18488996 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
18488926 TAATTTTTAT
* *
18488936 TTATCTATTTATATTTCTACTA
1 TTATCTATTTCTATTTATACTA
*
18488958 TTAT-TATTTCTATTTATTCTA
1 TTATCTATTTCTATTTATACTA
18488979 TT-TCTATTTCTATTTATA
1 TTATCTATTTCTATTTATA
18488997 TACTAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.85
22 4 0.12
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATCTATTTCTATTTATACTA
Found at i:18489135 original size:3 final size:3
Alignment explanation
Indices: 18489127--18489158 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18489117 TTTAAAACTT
18489127 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18489159 TATAGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18489211 original size:18 final size:18
Alignment explanation
Indices: 18489188--18489225 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18489178 AATTGCTCCC
18489188 TTAATTTTATT-TTATATT
1 TTAA-TTTATTCTTATATT
*
18489206 TTAATTTATTCTTCTATT
1 TTAATTTATTCTTATATT
18489224 TT
1 TT
18489226 TAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTAATTTATTCTTATATT
Found at i:18492982 original size:32 final size:32
Alignment explanation
Indices: 18492936--18493016 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 32
18492926 AAATTTTAGT
18492936 TTGTTGGATT-TTGAAATTATTATGTCTTGAAT-
1 TTGTTGG-TTATTGAAATTATTATGT-TTGAATC
* *
18492968 TTGTTAGG-TATTGAATTTATTATGTTTTAATC
1 TTGTT-GGTTATTGAAATTATTATGTTTGAATC
18493000 TTGTTGGTTATTGAAAT
1 TTGTTGGTTATTGAAAT
18493017 GATTGACAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 8 0.19
32 32 0.76
33 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.54
Consensus pattern (32 bp):
TTGTTGGTTATTGAAATTATTATGTTTGAATC
Found at i:18494736 original size:6 final size:6
Alignment explanation
Indices: 18494725--18494759 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
18494715 ACCAACCAGT
* *
18494725 ATTATA ATTATA ATTATA ATCATA ATCATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTAT
18494760 TATATTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTATA
Found at i:18495201 original size:15 final size:16
Alignment explanation
Indices: 18495178--18495216 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
18495168 TTATGGATAC
*
18495178 AAAATAATAAGAT-TT
1 AAAAGAATAAGATGTT
18495193 AAAAGAATAAGATGTT
1 AAAAGAATAAGATGTT
18495209 -AAAGAATA
1 AAAAGAATA
18495217 TATCATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
AAAAGAATAAGATGTT
Found at i:18502992 original size:3 final size:3
Alignment explanation
Indices: 18502986--18503025 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18502976 ATTATTATTA
18502986 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
18503026 CGGAACCATC
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:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:18503821 original size:131 final size:131
Alignment explanation
Indices: 18503524--18503878 Score: 432
Period size: 131 Copynumber: 2.7 Consensus size: 131
18503514 CTTAGAAAAT
** * *
18503524 ATGAGTGAAATTCCGAAGGGATATTCGATTATTTGATA-CAAACGAGAGATTGCAACCCAGCACG
1 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTA-AGCAAACGAGAAATTGCAACCCAGCACG
* * * ** ** *
18503588 ATAGGGCACTACTCCCTGAATTGCCAAACATCGAGTATTTCCTTTGTTTTAAAGAGTTTTTAGAA
65 TTAGGGCACAATTCCC-GAATTGCCAAACATCGAGTATCGCCTTTCATTTAAAGAGTTTTTAAAA
18503653 GAC
129 GAC
* *
18503656 ATGAATGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGT
** *
18503721 TAGGGCACAATTCCGCGAATTGCCAAATTTCGCA-TATCGCC-TTCATTT-AAGGGATTTTTAAA
66 TAGGGCACAATTCC-CGAATTGCCAAACATCG-AGTATCGCCTTTCATTTAAAGAG-TTTTTAAA
18503783 AGAC
128 AGAC
* *
18503787 ATTG-GTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACG
1 A-TGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACG
*
18503851 TTAGGGCACGATTCCACGAATTGCCAAA
65 TTAGGGCACAATTCC-CGAATTGCCAAA
18503879 ATATCAAATC
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
130 4 0.02
131 100 0.51
132 89 0.46
133 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (131 bp):
ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGT
TAGGGCACAATTCCCGAATTGCCAAACATCGAGTATCGCCTTTCATTTAAAGAGTTTTTAAAAGA
C
Found at i:18514836 original size:18 final size:18
Alignment explanation
Indices: 18514813--18514860 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
18514803 ATCTCCGTGT
18514813 TTTCAAAAAATTCTCG-AC
1 TTTCAAAAAATT-TCGTAC
**
18514831 TTTCAAAAAATTTCGTGT
1 TTTCAAAAAATTTCGTAC
18514849 TTTCAAAAAATT
1 TTTCAAAAAATT
18514861 GACATTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (18 bp):
TTTCAAAAAATTTCGTAC
Found at i:18514984 original size:21 final size:21
Alignment explanation
Indices: 18514928--18515000 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 21
18514918 CAAAATTTTT
18514928 GTGTTTTC-AAAATAAAATT-
1 GTGTTTTCAAAAATAAAATTC
18514947 GTGTTTT-AAAAATAAAATTC
1 GTGTTTTCAAAAATAAAATTC
*
18514967 GTGTTTTCAAAAAAAAAATTC
1 GTGTTTTCAAAAATAAAATTC
18514988 -TCGTGTTTCAAAA
1 GT-GT-TTTCAAAA
18515001 TTTTCGTGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
19 18 0.38
20 8 0.17
21 14 0.29
22 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (21 bp):
GTGTTTTCAAAAATAAAATTC
Found at i:18514996 original size:22 final size:20
Alignment explanation
Indices: 18514932--18515000 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
18514922 ATTTTTGTGT
*
18514932 TTTC-AAAATAAAATT-GTG
1 TTTCAAAAAAAAAATTCGTG
* *
18514950 TTTTAAAAATAAAATTCGTG
1 TTTCAAAAAAAAAATTCGTG
18514970 TTTTCAAAAAAAAAATTCTCGTG
1 -TTTCAAAAAAAAAA-T-TCGTG
18514993 TTTCAAAA
1 TTTCAAAA
18515001 TTTTCGTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 3 0.07
19 11 0.26
20 3 0.07
21 12 0.28
22 9 0.21
23 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (20 bp):
TTTCAAAAAAAAAATTCGTG
Found at i:18515000 original size:18 final size:17
Alignment explanation
Indices: 18514979--18515103 Score: 62
Period size: 17 Copynumber: 7.1 Consensus size: 17
18514969 GTTTTCAAAA
18514979 AAAAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
* *
18514997 -AAAATTTTCGTGTTTTTTTA
1 AAAAAATTTCGTG----TTTC
*
18515017 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
* * * *
18515034 -TAAAATTCTTGTATTTT
1 AAAAAATT-TCGTGTTTC
*
18515051 AAAATATTTCGTGTTTC
1 AAAAAATTTCGTGTTTC
18515068 GAAAAAATGTT-GTGTTTC
1 -AAAAAAT-TTCGTGTTTC
18515086 --AAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
18515102 AA
1 AA
18515104 TTGGATCACG
Statistics
Matches: 78, Mismatches: 16, Indels: 26
0.65 0.13 0.22
Matches are distributed among these distances:
14 1 0.01
15 6 0.08
16 17 0.22
17 21 0.27
18 18 0.23
19 2 0.03
20 3 0.04
21 10 0.13
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:18515000 original size:20 final size:19
Alignment explanation
Indices: 18514874--18515000 Score: 60
Period size: 20 Copynumber: 5.9 Consensus size: 19
18514864 ATTGTTTCAT
18514874 AAATTTCCGTGTTTCAAAAA
1 AAATTT-CGTGTTTCAAAAA
*
18514894 AAATCCTCGTGTTTCATAATTTATCA
1 AAAT-TTCGTGTTTCA-AA---A--A
*
18514920 AAATTTTTGTGTTTTCAAAATA
1 AAA-TTTCGTG-TTTCAAAA-A
*
18514942 AAA-TT-GTGTTTTAAAAA
1 AAATTTCGTGTTTCAAAAA
*
18514959 TAAAATTCGTGTTTTCAAAAAAA
1 -AAATTTCGTG-TTTC--AAAAA
18514982 AAATTCTCGTGTTTCAAAA
1 AAATT-TCGTGTTTCAAAA
18515001 TTTTCGTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
17 1 0.01
18 10 0.12
19 5 0.06
20 22 0.26
21 6 0.07
22 12 0.14
23 11 0.13
24 1 0.01
26 10 0.12
27 6 0.07
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATTTCGTGTTTCAAAAA
Found at i:18515002 original size:16 final size:16
Alignment explanation
Indices: 18514981--18515011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18514971 TTTCAAAAAA
18514981 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
18514997 AAAATTTTCGTGTTT
1 AAAATTCTCGTGTTT
18515012 TTTTAAAAAA
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:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:18515007 original size:39 final size:37
Alignment explanation
Indices: 18514917--18515040 Score: 101
Period size: 39 Copynumber: 3.2 Consensus size: 37
18514907 TCATAATTTA
* *
18514917 TCAAAATTTTTGTGTTTTCAAAATAAAA-TT-GTGTTT
1 TCAAAATTTTCGTGTTTTCAAAAAAAAATTTCGTG-TT
* *
18514953 TAAAAATAAAATTCGTGTTTTCAAAAAAAAAATTCTCGTGTT
1 TCAAAAT---TTTCGTGTTTTC-AAAAAAAAATT-TCGTGTT
**
18514995 TCAAAATTTTCGTGTTTTTTTAAAAAAAA-TTCGTGTT
1 TCAAAATTTTCGTG-TTTTCAAAAAAAAATTTCGTGTT
18515032 TCTAAAATT
1 TC-AAAATT
18515041 CTTGTATTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
36 6 0.08
37 9 0.13
38 7 0.10
39 24 0.34
40 12 0.17
41 1 0.01
42 9 0.13
43 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (37 bp):
TCAAAATTTTCGTGTTTTCAAAAAAAAATTTCGTGTT
Found at i:18515037 original size:19 final size:19
Alignment explanation
Indices: 18514932--18515038 Score: 55
Period size: 19 Copynumber: 5.5 Consensus size: 19
18514922 ATTTTTGTGT
18514932 TTTC-AAAATAAAATT-GTG
1 TTTCTAAAA-AAAATTCGTG
18514950 TTT-TAAAAATAAAATTCGTG
1 TTTCT-AAAA-AAAATTCGTG
*
18514970 TTTTCAAAAAAAAAATTCTCGTG
1 -TTTC-TAAAAAAAA-T-TCGTG
**
18514993 TTTC---AAAATTTTCGTG
1 TTTCTAAAAAAAATTCGTG
*
18515009 TTTTTTTAAAAAAAATTCGTG
1 --TTTCTAAAAAAAATTCGTG
18515030 TTTCTAAAA
1 TTTCTAAAA
18515039 TTCTTGTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 25
0.68 0.07 0.25
Matches are distributed among these distances:
16 5 0.07
17 1 0.01
18 10 0.14
19 19 0.28
20 3 0.04
21 17 0.25
22 9 0.13
23 5 0.07
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (19 bp):
TTTCTAAAAAAAATTCGTG
Found at i:18515098 original size:16 final size:16
Alignment explanation
Indices: 18515025--18515103 Score: 59
Period size: 16 Copynumber: 4.7 Consensus size: 16
18515015 TAAAAAAAAT
18515025 TCGTGTTTCTAAAATTC
1 TCGTGTTTC-AAAATTC
* * * *
18515042 TTGTATTTTAAAATATT
1 TCGTGTTTCAAAAT-TC
* *
18515059 TCGTGTTTCGAAAAAATG
1 TCGTGTTTC--AAAATTC
*
18515077 TTGTGTTTCAAAATTC
1 TCGTGTTTCAAAATTC
18515093 TCGTGTTTCAA
1 TCGTGTTTCAA
18515104 TTGGATCACG
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
16 20 0.43
17 13 0.28
18 9 0.20
19 4 0.09
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (16 bp):
TCGTGTTTCAAAATTC
Found at i:18518529 original size:17 final size:16
Alignment explanation
Indices: 18518509--18518543 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
18518499 ATTTAAGTAA
18518509 TAGTTTAATTTTGATTG
1 TAGTTTAATTTTG-TTG
18518526 TAGTTTAATTTTGTTG
1 TAGTTTAATTTTGTTG
18518542 TA
1 TA
18518544 CGCTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (16 bp):
TAGTTTAATTTTGTTG
Found at i:18520094 original size:20 final size:20
Alignment explanation
Indices: 18520069--18520130 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
18520059 AATTAAATTC
18520069 TAAAAGATAAATACAAATAAA
1 TAAAAGATAAATA-AAATAAA
*
18520090 T-AAAGATAATTAAAGAT-AA
1 TAAAAGATAAATAAA-ATAAA
18520109 TAAAAGATAAATGAAAATAAA
1 TAAAAGATAAAT-AAAATAAA
18520130 T
1 T
18520131 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 5 0.14
20 23 0.66
21 7 0.20
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (20 bp):
TAAAAGATAAATAAAATAAA
Found at i:18520098 original size:10 final size:10
Alignment explanation
Indices: 18520071--18520130 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
18520061 TTAAATTCTA
18520071 AAAGATAAAT
1 AAAGATAAAT
18520081 ACAA-ATAAAT
1 A-AAGATAAAT
*
18520091 AAAGATAATT
1 AAAGATAAAT
18520101 AAAGAT-AAT
1 AAAGATAAAT
18520110 AAAAGATAAAT
1 -AAAGATAAAT
18520121 GAAA-ATAAAT
1 -AAAGATAAAT
18520131 CCTAAAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
9 4 0.09
10 31 0.72
11 8 0.19
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:18520119 original size:30 final size:30
Alignment explanation
Indices: 18520071--18520128 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
18520061 TTAAATTCTA
*
18520071 AAAGATAAATACAAATAAAT-AAAGATAATT
1 AAAGATAAATAAAAATAAATGAAA-ATAATT
18520101 AAAGAT-AATAAAAGATAAATGAAAATAA
1 AAAGATAAATAAAA-ATAAATGAAAATAA
18520129 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 6 0.24
30 16 0.64
31 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAAAATAAATGAAAATAATT
Found at i:18522106 original size:4 final size:4
Alignment explanation
Indices: 18522099--18522174 Score: 52
Period size: 4 Copynumber: 18.8 Consensus size: 4
18522089 CACCCAAACA
* * *
18522099 AAAT AAAT TAAT AAAT -AAT AAAAT AAAAT AAAGT -AAT GAAT AAAT ATAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAA-T AAAT AAAT AAAT AAAT
18522148 AAA- AAAT AAAAT AAAAT AAA- AAAT AAA
1 AAAT AAAT -AAAT -AAAT AAAT AAAT AAA
18522175 AATTGGGTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
3 10 0.17
4 32 0.53
5 18 0.30
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:18522126 original size:25 final size:25
Alignment explanation
Indices: 18522098--18522175 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
18522088 TCACCCAAAC
*
18522098 AAAATAAATTAATAAATAATAAAAT
1 AAAATAAAATAATAAATAATAAAAT
* *
18522123 AAAATAAAGTAATGAATAAATATATAA-
1 AAAATAAAATAATAAAT-AATA-A-AAT
18522150 AAAATAAAAT-A-AAATAA-AAAAT
1 AAAATAAAATAATAAATAATAAAAT
18522172 AAAA
1 AAAA
18522176 ATTGGGTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.04
22 5 0.11
23 1 0.02
24 2 0.04
25 18 0.40
26 5 0.11
27 10 0.22
28 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAATAAAATAATAAATAATAAAAT
Found at i:18522173 original size:32 final size:33
Alignment explanation
Indices: 18522103--18522174 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
18522093 CAAACAAAAT
* * *
18522103 AAATTAATAAATAATAAAATAAAATAAAGTAAT
1 AAATAAATAAATAATAAAATAAAATAAAATAAA
* *
18522136 GAATAAATATATAA-AAAATAAAATAAAATAAA
1 AAATAAATAAATAATAAAATAAAATAAAATAAA
18522168 AAATAAA
1 AAATAAA
18522175 AATTGGGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (33 bp):
AAATAAATAAATAATAAAATAAAATAAAATAAA
Found at i:18522175 original size:5 final size:5
Alignment explanation
Indices: 18522115--18522168 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
18522105 ATTAATAAAT
* *
18522115 AATAA AATAA AATAA AGTAA TGAATAA ATATAT AA-AA AATAA AATAA
1 AATAA AATAA AATAA AATAA --AATAA A-ATAA AATAA AATAA AATAA
18522162 AATAA AA
1 AATAA AA
18522169 AATAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 3 0.07
5 30 0.73
6 4 0.10
7 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:18524705 original size:29 final size:28
Alignment explanation
Indices: 18524647--18524735 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
18524637 GAACTTGAAT
*
18524647 TTTTAAAATATAAAAAGTAGAAAAACTAAA
1 TTTTAAAA-ATAAAAA-TAAAAAAACTAAA
* *
18524677 TCTTTAAAAATAAGAATAAAAAAATTAAA
1 T-TTTAAAAATAAAAATAAAAAAACTAAA
*
18524706 TTGTTGAAAATAAAAAT-AAAAAA-TAAA
1 TT-TTAAAAATAAAAATAAAAAAACTAAA
18524733 TTT
1 TTT
18524736 CAAATATACG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 7 0.13
29 24 0.46
30 7 0.13
31 7 0.13
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (28 bp):
TTTTAAAAATAAAAATAAAAAAACTAAA
Found at i:18536832 original size:45 final size:45
Alignment explanation
Indices: 18536775--18536866 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
18536765 GTAGAGAAAA
* *
18536775 TTAATGTCAATGAGGAGGTTGATAGCCAGCTAGCAAGTGAGAAGC
1 TTAATGTCAATGAGGAGGTTAACAGCCAGCTAGCAAGTGAGAAGC
*
18536820 TTAATGTCAATGAGGAGGTTAACAGTCAGCTAGCAAGTGAGAAGC
1 TTAATGTCAATGAGGAGGTTAACAGCCAGCTAGCAAGTGAGAAGC
18536865 TT
1 TT
18536867 TGTTCTGCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (45 bp):
TTAATGTCAATGAGGAGGTTAACAGCCAGCTAGCAAGTGAGAAGC
Found at i:18539213 original size:15 final size:15
Alignment explanation
Indices: 18539193--18539222 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18539183 ATGCTTATCT
18539193 AATTAACAATATTTA
1 AATTAACAATATTTA
18539208 AATTAACAATATTTA
1 AATTAACAATATTTA
18539223 GCTGTATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTAACAATATTTA
Found at i:18542536 original size:27 final size:28
Alignment explanation
Indices: 18542496--18542564 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
18542486 GTTATGAAAG
18542496 TATATGAAAT-TAATTTAATTT-T-TACAT
1 TATAT-AAATATAATTT-ATTTGTATACAT
*
18542523 TATATAAATATAA-TTATTTGTATATAT
1 TATATAAATATAATTTATTTGTATACAT
*
18542550 AATATAAATATAATT
1 TATATAAATATAATT
18542565 ATTATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 4 0.11
26 7 0.19
27 24 0.67
28 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
TATATAAATATAATTTATTTGTATACAT
Found at i:18546702 original size:120 final size:120
Alignment explanation
Indices: 18546565--18546827 Score: 508
Period size: 120 Copynumber: 2.2 Consensus size: 120
18546555 TTTTCAAGTT
18546565 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
18546630 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
18546685 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
18546750 TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
18546805 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
18546828 TAAATATGAT
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 141 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAACATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:18546804 original size:18 final size:17
Alignment explanation
Indices: 18546776--18546810 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18546766 ATTATTAAGA
*
18546776 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18546793 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18546811 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18547067 original size:16 final size:16
Alignment explanation
Indices: 18547046--18547114 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
18547036 GATTAGCTAT
18547046 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18547062 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
18547079 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
18547095 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
18547111 TACA
1 TACA
18547115 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18547088 original size:33 final size:32
Alignment explanation
Indices: 18547046--18547114 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
18547036 GATTAGCTAT
18547046 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
18547079 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
18547111 TACA
1 TACA
18547115 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:18547332 original size:15 final size:16
Alignment explanation
Indices: 18547302--18547340 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
18547292 TAGTAAAAAT
18547302 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
18547319 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
18547334 ATAATTT
1 ATAATTT
18547341 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:18548470 original size:20 final size:20
Alignment explanation
Indices: 18548418--18548472 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
18548408 AACTTTTTAT
18548418 GTATTTA-TATAATTTTCTAA
1 GTATTTATTAT-ATTTTCTAA
* *
18548438 ATTTTTATT-TATTTTC-AA
1 GTATTTATTATATTTTCTAA
18548456 GTATTTATGTATATTTT
1 GTATTTAT-TATATTTT
18548473 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 12 0.43
21 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (20 bp):
GTATTTATTATATTTTCTAA
Found at i:18550110 original size:23 final size:23
Alignment explanation
Indices: 18550081--18550300 Score: 151
Period size: 23 Copynumber: 9.3 Consensus size: 23
18550071 CTGTTTACAA
18550081 AAGGGGTTCACATATCATTCACT
1 AAGGGGTTCACATATCATTCACT
** *
18550104 AAGGGGTTCGTATAACATTCACT
1 AAGGGGTTCACATATCATTCACT
* *
18550127 AAGGGGTTCACACAACATTCACT
1 AAGGGGTTCACATATCATTCACT
* *
18550150 AAGGGGTTGGCACAAAT-ATTCATT
1 AAGGGGTT--CACATATCATTCACT
* *
18550174 AAGGGGTTGGCATAAAT-ATTCACT
1 AAGGGGTT--CACATATCATTCACT
* * *
18550198 GAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCACATATCATTCACT
* * *
18550221 GAGGGGTTCGCATAAAT-ATTCATT
1 AAGGGGTTCACAT--ATCATTCACT
** *
18550245 AAGGGGTTTGCATAACATTCACT
1 AAGGGGTTCACATATCATTCACT
* *
18550268 AAAGGGGTTTGCATAAAT-ATTCACT
1 -AAGGGG-TT-CACATATCATTCACT
18550293 AAGGGGTT
1 AAGGGGTT
18550301 GGGCTTATCC
Statistics
Matches: 161, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
22 4 0.02
23 76 0.47
24 64 0.40
25 15 0.09
26 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (23 bp):
AAGGGGTTCACATATCATTCACT
Found at i:18550176 original size:24 final size:24
Alignment explanation
Indices: 18550097--18550302 Score: 215
Period size: 24 Copynumber: 8.7 Consensus size: 24
18550087 TTCACATATC
* * *
18550097 ATTCACTAAGGGGTTCGTAT-AAC
1 ATTCACTAAGGGGTTGGCATAAAT
* *
18550120 ATTCACTAAGGGGTT--CACACAAC
1 ATTCACTAAGGGGTTGGCATA-AAT
*
18550143 ATTCACTAAGGGGTTGGCACAAAT
1 ATTCACTAAGGGGTTGGCATAAAT
*
18550167 ATTCATTAAGGGGTTGGCATAAAT
1 ATTCACTAAGGGGTTGGCATAAAT
* * *
18550191 ATTCACTGAGGGGTTCGCAT-AAC
1 ATTCACTAAGGGGTTGGCATAAAT
* *
18550214 ATTCACTGAGGGGTTCGCATAAAT
1 ATTCACTAAGGGGTTGGCATAAAT
* * *
18550238 ATTCATTAAGGGGTTTGCAT-AAC
1 ATTCACTAAGGGGTTGGCATAAAT
*
18550261 ATTCACTAAAGGGGTTTGCATAAAT
1 ATTCACT-AAGGGGTTGGCATAAAT
18550286 ATTCACTAAGGGGTTGG
1 ATTCACTAAGGGGTTGG
18550303 GCTTATCCGA
Statistics
Matches: 159, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.01
23 63 0.40
24 82 0.52
25 13 0.08
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (24 bp):
ATTCACTAAGGGGTTGGCATAAAT
Found at i:18550203 original size:71 final size:69
Alignment explanation
Indices: 18550081--18550302 Score: 250
Period size: 71 Copynumber: 3.1 Consensus size: 69
18550071 CTGTTTACAA
* * *
18550081 AAGGGGTT--CACATATCATTCACTAAGGGGTTCGTATAACATTCACTAAGGGGTTCACACAACA
1 AAGGGGTTGGCACAAAT-ATTCATTAAGGGGTTCGCATAACATTCACTAAGGGGTTCACA-AACA
18550144 TTCACT
64 TTCACT
* * * *
18550150 AAGGGGTTGGCACAAATATTCATTAAGGGGTTGGCATAAATATTCACTGAGGGGTTCGCATAACA
1 AAGGGGTTGGCACAAATATTCATTAAGGGGTTCGCAT-AACATTCACTAAGGGGTTCACA-AACA
18550215 TTCACT
64 TTCACT
* * * * * *
18550221 GAGGGGTTCGCATAAATATTCATTAAGGGGTTTGCATAACATTCACTAAAGGGGTTTGCATAAAT
1 AAGGGGTTGGCACAAATATTCATTAAGGGGTTCGCATAACATTCACT-AAGGGG-TT-CACAAAC
18550286 ATTCACT
63 ATTCACT
18550293 AAGGGGTTGG
1 AAGGGGTTGG
18550303 GCTTATCCGA
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
69 8 0.06
70 26 0.20
71 73 0.57
72 19 0.15
73 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (69 bp):
AAGGGGTTGGCACAAATATTCATTAAGGGGTTCGCATAACATTCACTAAGGGGTTCACAAACATT
CACT
Found at i:18550384 original size:43 final size:43
Alignment explanation
Indices: 18550305--18550428 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 43
18550295 GGGGTTGGGC
*
18550305 TTATCCGATGATGCATTGTGTGTATGCCAATATAGTTGCTCCGAT
1 TTATCCGATGATGCA--ATGTGTATGCCAATATAGTTGCTCCGAT
* * ** *
18550350 TTATCTGATGATGCAATGTGTATACCAATATAGTTGCTTTGGT
1 TTATCCGATGATGCAATGTGTATGCCAATATAGTTGCTCCGAT
*
18550393 TTATCCGATGATGCACTGTGTATGCCAATATAGTTG
1 TTATCCGATGATGCAATGTGTATGCCAATATAGTTG
18550429 TTCCAGTATA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 56 0.80
45 14 0.20
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (43 bp):
TTATCCGATGATGCAATGTGTATGCCAATATAGTTGCTCCGAT
Found at i:18550448 original size:43 final size:42
Alignment explanation
Indices: 18550305--18550454 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
18550295 GGGGTTGGGC
* * *
18550305 TTATCCGATGATGCATTGTGTGTATGCCAATATAGTTGCTCCGAT
1 TTATCTGATGATGCA--CTGTGTATGCCAATATAGTTGTTCCG-T
* * **
18550350 TTATCTGATGATGCAATGTGTATACCAATATAGTTGCTTTGGT
1 TTATCTGATGATGCACTGTGTATGCCAATATAGTTG-TTCCGT
*
18550393 TTATCCGATGATGCACTGTGTATGCCAATATAGTTGTTCCAGT
1 TTATCTGATGATGCACTGTGTATGCCAATATAGTTGTTCC-GT
* * *
18550436 ATATTTGGTGATGCACTGT
1 TTATCTGATGATGCACTGT
18550455 ATGTGCTAGC
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 70 0.80
44 2 0.02
45 14 0.16
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.39
Consensus pattern (42 bp):
TTATCTGATGATGCACTGTGTATGCCAATATAGTTGTTCCGT
Found at i:18550469 original size:86 final size:87
Alignment explanation
Indices: 18550305--18550490 Score: 196
Period size: 86 Copynumber: 2.1 Consensus size: 87
18550295 GGGGTTGGGC
* * *
18550305 TTATCCGATGATGCATTGTGTGTATGCCAATATAGTTGCTCCGATTTATCTGATGATGCAATGTG
1 TTATCCGATGATGCA-TCTGTGTATGCCAATATAGTTGCTCCGATATATCTGATGATGCAATGTA
* * *
18550370 TATACCAATATAGTTGCTTTGGT
65 TATACCAACATAGTTGATTCGGT
* * * *
18550393 TTATCCGATGATGCA-CTGTGTATGCCAATATAGTTGTTCC-AGTATATTTGGTGATGCACTGTA
1 TTATCCGATGATGCATCTGTGTATGCCAATATAGTTGCTCCGA-TATATCTGATGATGCAATGTA
* * * * *
18550456 TGTGCTAGCATAGTTTATTCGGT
65 TATACCAACATAGTTGATTCGGT
*
18550479 TTATCCAATGAT
1 TTATCCGATGAT
18550491 TCATTATTTG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
85 1 0.01
86 65 0.80
88 15 0.19
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (87 bp):
TTATCCGATGATGCATCTGTGTATGCCAATATAGTTGCTCCGATATATCTGATGATGCAATGTAT
ATACCAACATAGTTGATTCGGT
Found at i:18550578 original size:44 final size:43
Alignment explanation
Indices: 18550473--18550585 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
18550463 GCATAGTTTA
* * * *
18550473 TTCGGTTTATCCAATGATTCATTATTTGTGACAGTATAATTGT
1 TTCGATTTATCCAATGATGCATTATGTGTGACAATATAATTGT
* * * * *
18550516 TTCGATATATTCAATGATGCATTGTGTGTGCCAATATGATTGT
1 TTCGATTTATCCAATGATGCATTATGTGTGACAATATAATTGT
*
18550559 TTCAGTTTTATCCAATGATGCATTATG
1 TTC-GATTTATCCAATGATGCATTATG
18550586 ATGCTAGATT
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
43 37 0.66
44 19 0.34
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (43 bp):
TTCGATTTATCCAATGATGCATTATGTGTGACAATATAATTGT
Found at i:18582577 original size:24 final size:24
Alignment explanation
Indices: 18582561--18582607 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
18582551 AATGAATTGT
18582561 TAATT-TAAAA-TTAAAATATTTA
1 TAATTATAAAATTTAAAATATTTA
18582583 TAATTATAAAATTTAAAATTATTTA
1 TAATTATAAAATTTAAAA-TATTTA
18582608 AATCTGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 5 0.23
24 6 0.27
25 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATTATAAAATTTAAAATATTTA
Found at i:18582587 original size:15 final size:15
Alignment explanation
Indices: 18582562--18582604 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
18582552 ATGAATTGTT
18582562 AATTTAAAATTA-AA
1 AATTTAAAATTATAA
*
18582576 ATATTTATAATTATAA
1 A-ATTTAAAATTATAA
18582592 AATTTAAAATTAT
1 AATTTAAAATTAT
18582605 TTAAATCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 21 0.84
16 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAAATTATAA
Found at i:18595622 original size:24 final size:24
Alignment explanation
Indices: 18595594--18595645 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
18595584 TTCATAGATA
* *
18595594 AAATAAATTGTGCTAACAAATACT
1 AAATAAATTATACTAACAAATACT
* * *
18595618 AAATATATTATACTAATACATACT
1 AAATAAATTATACTAACAAATACT
18595642 AAAT
1 AAAT
18595646 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAACAAATACT
Found at i:18597114 original size:29 final size:30
Alignment explanation
Indices: 18597041--18597117 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
18597031 AAATTAGTAT
* *
18597041 ATAATAAAATTAT-ACTTAAATCTATTAAA
1 ATAATAAAAATATAAATTAAATCTATTAAA
* *
18597070 ATAATAAAAATTTAAATTAAAT-TTTTAAA
1 ATAATAAAAATATAAATTAAATCTATTAAA
*
18597099 ATTATAAAAATATAAATTA
1 ATAATAAAAATATAAATTA
18597118 TTGAAATGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 34 0.83
30 7 0.17
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAATAAAAATATAAATTAAATCTATTAAA
Found at i:18597124 original size:24 final size:23
Alignment explanation
Indices: 18597083--18597130 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
18597073 ATAAAAATTT
* *
18597083 AAATTAAATTTTTAAAATTATAA
1 AAATTAAATTATTAAAATGATAA
*
18597106 AAATATAAATTATTGAAATGATAA
1 AAAT-TAAATTATTAAAATGATAA
18597130 A
1 A
18597131 CTTAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
AAATTAAATTATTAAAATGATAA
Found at i:18608235 original size:18 final size:18
Alignment explanation
Indices: 18608212--18608247 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18608202 TAAATATAAT
18608212 TTGCCTTTCGCCTCTTAG
1 TTGCCTTTCGCCTCTTAG
18608230 TTGCCTTTCGCCTCTTAG
1 TTGCCTTTCGCCTCTTAG
18608248 AAGCATGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.33, G:0.17, T:0.44
Consensus pattern (18 bp):
TTGCCTTTCGCCTCTTAG
Found at i:18610898 original size:12 final size:13
Alignment explanation
Indices: 18610875--18610901 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18610865 TCACTCAACC
18610875 AAAATTCAAAAAA
1 AAAATTCAAAAAA
18610888 AAAATTCAAAAAA
1 AAAATTCAAAAAA
18610901 A
1 A
18610902 TTTAAAATTC
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:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATTCAAAAAA
Found at i:18612919 original size:13 final size:13
Alignment explanation
Indices: 18612900--18612960 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
18612890 AATCAAAATA
18612900 ATTAAAAAATATT
1 ATTAAAAAATATT
* *
18612913 TTTAAAAAATATG
1 ATTAAAAAATATT
* *
18612926 AAT-CAAAATA--
1 ATTAAAAAATATT
18612936 ATTAAAAAATATT
1 ATTAAAAAATATT
*
18612949 TTTAAAAAATAT
1 ATTAAAAAATAT
18612961 ATAAATTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
10 2 0.05
11 6 0.16
12 6 0.16
13 23 0.62
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
ATTAAAAAATATT
Found at i:18612931 original size:36 final size:36
Alignment explanation
Indices: 18612884--18612960 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
18612874 CCAATAACCC
18612884 AATATGAATCAAAATAATTAAAAAATATTTTTAAAA
1 AATATGAATCAAAATAATTAAAAAATATTTTTAAAA
18612920 AATATGAATCAAAATAATTAAAAAATATTTTTAAAA
1 AATATGAATCAAAATAATTAAAAAATATTTTTAAAA
18612956 AATAT
1 AATAT
18612961 ATAAATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (36 bp):
AATATGAATCAAAATAATTAAAAAATATTTTTAAAA
Found at i:18613151 original size:28 final size:28
Alignment explanation
Indices: 18613102--18613156 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
18613092 CTTATTAAAA
* *
18613102 TAAAATTCAAAGATGTATTAATATCAAC
1 TAAAATTAAAAGATATATTAATATCAAC
*
18613130 TAAAATGTAAAAGATATA-TAATTTCAA
1 TAAAAT-TAAAAGATATATTAATATCAA
18613157 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (28 bp):
TAAAATTAAAAGATATATTAATATCAAC
Found at i:18613367 original size:18 final size:17
Alignment explanation
Indices: 18613344--18613383 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
18613334 TTTAGGGTTT
18613344 TTTTTTTCAATTTTGATA
1 TTTTTTTCAATTTTGA-A
*
18613362 TTTTTTTGAATTTTGAA
1 TTTTTTTCAATTTTGAA
18613379 TTTTT
1 TTTTT
18613384 ATTTTTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTTTTTCAATTTTGAA
Found at i:18615874 original size:3 final size:3
Alignment explanation
Indices: 18615866--18615903 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
18615856 ACTAATGTAC
*
18615866 AAT AAT AAT AAT AAT AAT AAT AAAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
18615904 TGAAAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18617023 original size:20 final size:19
Alignment explanation
Indices: 18616998--18617056 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
18616988 TAAAAAAATT
18616998 TCTTAAAAATAATTCTAAAA
1 TCTTAAAAATAATT-TAAAA
*
18617018 TCTTAAAAATAATTAAAAA
1 TCTTAAAAATAATTTAAAA
* *
18617037 TATTAAAAATATTTTAAAA
1 TCTTAAAAATAATTTAAAA
18617056 T
1 T
18617057 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TCTTAAAAATAATTTAAAA
Found at i:18617035 original size:10 final size:10
Alignment explanation
Indices: 18617000--18617070 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
18616990 AAAAAATTTC
18617000 TTAAAAATAA
1 TTAAAAATAA
* *
18617010 TTCTAAAAT-C
1 TT-AAAAATAA
18617020 TTAAAAATAA
1 TTAAAAATAA
18617030 TTAAAAAT-A
1 TTAAAAATAA
*
18617039 TTAAAAATAT
1 TTAAAAATAA
*
18617049 TTTAAAATAA
1 TTAAAAATAA
18617059 TTTTAAAAATAA
1 --TTAAAAATAA
18617071 AAATTTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 14 0.29
10 20 0.42
11 5 0.10
12 9 0.19
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (10 bp):
TTAAAAATAA
Found at i:18618684 original size:22 final size:22
Alignment explanation
Indices: 18618622--18618686 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
18618612 CTCCGATTAT
* * * *
18618622 TAGCACCTTAGTACTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
*
18618644 TAGCACATTCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
18618666 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
18618687 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:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:18620142 original size:13 final size:13
Alignment explanation
Indices: 18620124--18620181 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
18620114 TGGCAATACC
18620124 TTTGAAAAGTACT
1 TTTGAAAAGTACT
*
18620137 TTTGAAAAGTGCT
1 TTTGAAAAGTACT
* * *
18620150 GTGGAAAAGTGCT
1 TTTGAAAAGTACT
18620163 TTTGAAAAGTACT
1 TTTGAAAAGTACT
18620176 TTTGAA
1 TTTGAA
18620182 GTTTGGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (13 bp):
TTTGAAAAGTACT
Found at i:18621579 original size:27 final size:27
Alignment explanation
Indices: 18621531--18621597 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
18621521 TACAAATAAT
* *
18621531 GCAGAGCCACCAGAAAATATATATGTG
1 GCAGAGCCACCAGAAAAGATATATATG
** *
18621558 GCAGAGCCACCAGATCAGATATTTATG
1 GCAGAGCCACCAGAAAAGATATATATG
*
18621585 GCATAGCCACCAG
1 GCAGAGCCACCAG
18621598 GACGCTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
GCAGAGCCACCAGAAAAGATATATATG
Found at i:18627764 original size:11 final size:11
Alignment explanation
Indices: 18627732--18627766 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
18627722 AATAAAAGAA
18627732 AAAAAATA-TT
1 AAAAAATATTT
18627742 AAAATAATATTT
1 AAAA-AATATTT
18627754 AAAAAATATTT
1 AAAAAATATTT
18627765 AA
1 AA
18627767 TAATTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.17
11 13 0.57
12 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAAATATTT
Found at i:18636315 original size:24 final size:23
Alignment explanation
Indices: 18636268--18636314 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
18636258 AATTTTTCGG
18636268 CAGAGAGAGAGAGCTAAAGAAAAA
1 CAGAGAGAGAGAGC-AAAGAAAAA
18636292 CAGAGAGAAGAGAG-AAAGAAAAA
1 CAGAGAG-AGAGAGCAAAGAAAAA
18636315 AAATCAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 7 0.32
25 6 0.27
ACGTcount: A:0.62, C:0.06, G:0.30, T:0.02
Consensus pattern (23 bp):
CAGAGAGAGAGAGCAAAGAAAAA
Found at i:18640180 original size:22 final size:22
Alignment explanation
Indices: 18640140--18640192 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
18640130 TTGAAATTCA
*
18640140 AAATATATAAAAAAATTTAAAGT
1 AAATA-ATAAAAAAATTTAAAAT
* *
18640163 AAATAATAAAACATTTTAAAAT
1 AAATAATAAAAAAATTTAAAAT
*
18640185 GAATAATA
1 AAATAATA
18640193 CATAAAGCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATAATAAAAAAATTTAAAAT
Found at i:18640252 original size:52 final size:49
Alignment explanation
Indices: 18640155--18640252 Score: 115
Period size: 52 Copynumber: 1.9 Consensus size: 49
18640145 TATAAAAAAA
* * * *
18640155 TTTAAAGTAAATAATAAAACATTTTAAAATGAATAATACATAAAGCGAG
1 TTTAAAATAAATAATAAAAAATTTTAAAATCAATAATACACAAAGCGAG
* *
18640204 TTTAAAATAAATAATGTAAAAGAATTTTAAAATCTATATTACACAAAGC
1 TTTAAAATAAATAA--TAAAA-AATTTTAAAATCAATAATACACAAAGC
18640253 AAATTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 13 0.32
51 5 0.12
52 22 0.55
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (49 bp):
TTTAAAATAAATAATAAAAAATTTTAAAATCAATAATACACAAAGCGAG
Found at i:18640567 original size:13 final size:13
Alignment explanation
Indices: 18640547--18640579 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18640537 TAAAATAGTT
18640547 TAAAATAAATAAA
1 TAAAATAAATAAA
*
18640560 TGAAATAAATAAA
1 TAAAATAAATAAA
18640573 TAAAATA
1 TAAAATA
18640580 TCAAAGAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:18653900 original size:9 final size:9
Alignment explanation
Indices: 18653886--18654022 Score: 175
Period size: 9 Copynumber: 14.6 Consensus size: 9
18653876 TTTGGTTAAA
18653886 AATTACCCG
1 AATTACCCG
18653895 AATTACCCG
1 AATTACCCG
*
18653904 AATTATCCG
1 AATTACCCG
*
18653913 ACTTACCCG
1 AATTACCCG
18653922 AATTACCCG
1 AATTACCCG
18653931 AATTACCCG
1 AATTACCCG
*
18653940 AATTACTCG
1 AATTACCCG
18653949 AATTACCCG
1 AATTACCCG
*
18653958 AAAATTACCCA
1 --AATTACCCG
18653969 AATTACCCG
1 AATTACCCG
18653978 AATTACCCG
1 AATTACCCG
18653987 AAAATTACCCG
1 --AATTACCCG
18653998 AAAATTACCCG
1 --AATTACCCG
*
18654009 AATTACCTG
1 AATTACCCG
18654018 AATTA
1 AATTA
18654023 AATCACTACA
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
9 87 0.76
11 28 0.24
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:18654051 original size:17 final size:17
Alignment explanation
Indices: 18654029--18654089 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
18654019 ATTAAATCAC
18654029 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
18654046 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
*
18654066 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
18654083 TACATAA
1 TACATAA
18654090 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
19 2 0.06
20 11 0.34
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:18654129 original size:37 final size:37
Alignment explanation
Indices: 18654023--18654135 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
18654013 ACCTGAATTA
* *
18654023 AATCACTACATAATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
18654060 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
* *
18654097 AATCACTATATAATTAAAAATATTACACAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
18654133 AAT
1 AAT
18654136 TAAAACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 6 0.08
37 66 0.92
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:18654203 original size:24 final size:24
Alignment explanation
Indices: 18654176--18654234 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
18654166 ATTATCCATT
*
18654176 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
18654200 TATATTCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
18654224 TATCTCCATTT
1 TATATCCATTT
18654235 GCATTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:18658848 original size:25 final size:22
Alignment explanation
Indices: 18658802--18658848 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
18658792 TTCAAAGTTA
*
18658802 AAAATATTTTTATAAAATAATT
1 AAAATATTTTTATAAAAAAATT
18658824 AAAATATGTTTTAGATAAAAAAATT
1 AAAATAT-TTTT--ATAAAAAAATT
18658849 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 4 0.19
25 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAATATTTTTATAAAAAAATT
Found at i:18665139 original size:6 final size:6
Alignment explanation
Indices: 18665128--18665155 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18665118 AGAAAAGAAT
18665128 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
18665156 GATAAGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:18680327 original size:36 final size:37
Alignment explanation
Indices: 18680273--18680346 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
18680263 ATCCTACAAA
*
18680273 CTAGATAAAACCACTAAAATGCGAGT-AAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
** * *
18680309 CTAGATAAAAGTATTAAAAAGTGAGTAAAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
18680346 C
1 C
18680347 AGAAACTATC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 21 0.66
37 11 0.34
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (37 bp):
CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
Found at i:18686558 original size:32 final size:32
Alignment explanation
Indices: 18686492--18686559 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
18686482 TAGAACTAGA
* *
18686492 AACTTATGTTCAAATTTCATATTACATAATAG
1 AACTTATGTTCAAATTTCATAGTACATAAAAG
*
18686524 AACTTATGTTTCAGATTTCA-AGTAGC-TAAAAG
1 AACTTATG-TTCAAATTTCATAGTA-CATAAAAG
18686556 AACT
1 AACT
18686560 ACTATCTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (32 bp):
AACTTATGTTCAAATTTCATAGTACATAAAAG
Found at i:18688525 original size:23 final size:23
Alignment explanation
Indices: 18688453--18688539 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
18688443 CCTGATCAGT
18688453 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
* ** * *
18688475 A-ATGACACACGAGGTGCTTG--
1 ATACGACACATAAAGTGCCTGAA
* *
18688495 ATACGACACATGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
18688518 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
18688540 TCAGTAAAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 29 0.57
22 1 0.02
23 20 0.39
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:18691751 original size:22 final size:22
Alignment explanation
Indices: 18691725--18691774 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 22
18691715 TCTGAGCTGA
18691725 TAAACGGTAAGCTCCGA-AGAGC
1 TAAACGGTAAGCTCC-ATAGAGC
18691747 TAAACGGTAAGCTCCATAGAGC
1 TAAACGGTAAGCTCCATAGAGC
18691769 TGAAAC
1 T-AAAC
18691775 AGAAACAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.81
23 4 0.15
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (22 bp):
TAAACGGTAAGCTCCATAGAGC
Found at i:18696554 original size:79 final size:79
Alignment explanation
Indices: 18696466--18696624 Score: 264
Period size: 79 Copynumber: 2.0 Consensus size: 79
18696456 CCCTTTTCTG
* * * * *
18696466 GCTAAAAAATATTAAAGCCTGATCATGTGTCCCCAACAAAAAGATCAACCTTTTAGCTTAAAGCT
1 GCTAAAAAATACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCT
18696531 CTACTCTTCTATCT
66 CTACTCTTCTATCT
18696545 GCTAAAAAATACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCT
1 GCTAAAAAATACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCT
*
18696610 TTACTCTTCTATCT
66 CTACTCTTCTATCT
18696624 G
1 G
18696625 TTGAGGAACT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (79 bp):
GCTAAAAAATACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCT
CTACTCTTCTATCT
Found at i:18703006 original size:95 final size:95
Alignment explanation
Indices: 18702901--18703091 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
18702891 ATGCCCTAAA
*
18702901 AAATTTCATAATATATGGCATCTTATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
1 AAATTTCATAATATATGGCATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
*
18702966 TAACATAATTAAGCCATGATGACTATACAT
66 TAACATAATTAAGCCATGATGACAATACAT
18702996 AAATTTCATAATATATGGCATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
1 AAATTTCATAATATATGGCATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
18703061 TAACATAATTAAGCCATGATGACAATACAT
66 TAACATAATTAAGCCATGATGACAATACAT
18703091 A
1 A
18703092 TTTGTCTCAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (95 bp):
AAATTTCATAATATATGGCATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
TAACATAATTAAGCCATGATGACAATACAT
Found at i:18703193 original size:17 final size:17
Alignment explanation
Indices: 18703171--18703203 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18703161 AAAGTAAGGT
18703171 TATCCAATGGTGTTTAC
1 TATCCAATGGTGTTTAC
18703188 TATCCAATGGTGTTTA
1 TATCCAATGGTGTTTA
18703204 TCTCTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (17 bp):
TATCCAATGGTGTTTAC
Found at i:18703459 original size:20 final size:20
Alignment explanation
Indices: 18703420--18703459 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18703410 CTTGATGAAG
*
18703420 CTTTCTCTCTCAAGATTTAA
1 CTTTCTCTCTCAAGACTTAA
*
18703440 CTTTCTCTCTCTAGACTTAA
1 CTTTCTCTCTCAAGACTTAA
18703460 GAAAAACCTT
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:0.23, C:0.28, G:0.05, T:0.45
Consensus pattern (20 bp):
CTTTCTCTCTCAAGACTTAA
Found at i:18707174 original size:20 final size:20
Alignment explanation
Indices: 18707151--18707190 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18707141 TAATTTTCCT
18707151 CATCTAAAAAGCATTTCTAA
1 CATCTAAAAAGCATTTCTAA
18707171 CATCTAAAAAGCATTTCTAA
1 CATCTAAAAAGCATTTCTAA
18707191 TTTCTTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (20 bp):
CATCTAAAAAGCATTTCTAA
Found at i:18713720 original size:7 final size:7
Alignment explanation
Indices: 18713708--18713743 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
18713698 ATATATATGC
18713708 TAATAAA
1 TAATAAA
18713715 TAATAAA
1 TAATAAA
18713722 TAATAAAA
1 TAAT-AAA
*
18713730 TAATATA
1 TAATAAA
18713737 TAATAAA
1 TAATAAA
18713744 ATGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:18713739 original size:19 final size:19
Alignment explanation
Indices: 18713713--18713865 Score: 52
Period size: 19 Copynumber: 7.7 Consensus size: 19
18713703 TATGCTAATA
18713713 AATA-ATAAATAATAAAAT
1 AATATATAAATAATAAAAT
* *
18713731 AATATATAATAAAATGAAGAT
1 AATATATAA-ATAAT-AAAAT
* *
18713752 AATATAAAGAACAATATATAAT
1 AATATATA-AATAATA-A-AAT
*
18713774 AAAATAT-AATATATAATAA-
1 AATATATAAATA-ATAA-AAT
*
18713793 AATATATATAAT-ATACAAT
1 AATATATA-AATAATAAAAT
*
18713812 GAA-ATATAAGTAATACGATAAAT
1 -AATATATAAATAAT---A-AAAT
*
18713835 AATCACATAAATAA-AAAAT
1 AAT-ATATAAATAATAAAAT
18713854 AA-ATAT-AATAAT
1 AATATATAAATAAT
18713866 TTTTTTACAT
Statistics
Matches: 101, Mismatches: 15, Indels: 39
0.65 0.10 0.25
Matches are distributed among these distances:
16 5 0.05
17 3 0.03
18 8 0.08
19 26 0.26
20 15 0.15
21 22 0.22
22 11 0.11
23 3 0.03
24 8 0.08
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (19 bp):
AATATATAAATAATAAAAT
Found at i:18713784 original size:17 final size:17
Alignment explanation
Indices: 18713714--18713802 Score: 84
Period size: 17 Copynumber: 5.5 Consensus size: 17
18713704 ATGCTAATAA
*
18713714 ATAATAAATAAT-AAA-
1 ATAATATATAATAAAAT
18713729 ATAATATATAATAAAAT
1 ATAATATATAATAAAAT
18713746 GA-AGATA-AT-ATAAAGA-
1 -ATA-ATATATAATAAA-AT
*
18713762 ACAATATATAATAAAAT
1 ATAATATATAATAAAAT
18713779 ATAATATATAATAAAAT
1 ATAATATATAATAAAAT
18713796 AT-ATATA
1 ATAATATA
18713803 ATATACAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
15 15 0.24
16 17 0.27
17 27 0.43
18 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (17 bp):
ATAATATATAATAAAAT
Found at i:18713818 original size:33 final size:31
Alignment explanation
Indices: 18713716--18713819 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 31
18713706 GCTAATAAAT
*
18713716 AATAAATAATAAAATAATATATAATAAAATGA
1 AATATATAATAAAAT-ATATATAATAAAATGA
18713748 AGATAATATAA-AGAACA-ATATATAATAAAAT-A
1 A-AT-ATATAATA-AA-ATATATATAATAAAATGA
18713780 TAATATATAATAAAATATATATAATATACAATGA
1 -AATATATAATAAAATATATATAATA-A-AATGA
18713814 AATATA
1 AATATA
18713820 AGTAATACGA
Statistics
Matches: 61, Mismatches: 1, Indels: 19
0.75 0.01 0.23
Matches are distributed among these distances:
30 1 0.02
31 18 0.30
32 6 0.10
33 27 0.44
34 8 0.13
35 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (31 bp):
AATATATAATAAAATATATATAATAAAATGA
Found at i:18713826 original size:21 final size:21
Alignment explanation
Indices: 18713777--18713819 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18713767 ATATAATAAA
*
18713777 ATATAATATATAATAAAATAT
1 ATATAATATACAATAAAATAT
*
18713798 ATATAATATACAATGAAATAT
1 ATATAATATACAATAAAATAT
18713819 A
1 A
18713820 AGTAATACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATAATATACAATAAAATAT
Found at i:18719830 original size:14 final size:14
Alignment explanation
Indices: 18719788--18719830 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
18719778 TTTTAAATAT
18719788 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
*
18719801 TCATAATGGTTTAA
1 TTATAATGGTTTAA
18719815 TTATAATGGTTTAA
1 TTATAATGGTTTAA
18719829 TT
1 TT
18719831 CATCGTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:18720609 original size:43 final size:43
Alignment explanation
Indices: 18720546--18720698 Score: 189
Period size: 43 Copynumber: 3.6 Consensus size: 43
18720536 TGAGAAATGC
* * * * *
18720546 GCCGTTAAAAGTCAAGTTCTTTAGCGGGGTTTGTATGAAAAGC
1 GCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGT
* * * * *
18720589 GCCTCTAAAGGTCCCGTTCTTTGGCGGCGTTTGTTTGAGAAGT
1 GCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGT
* *
18720632 GTCGCTAAAGGTCACGTTCTTTAGCTGCGTTTGTATGAAAAGT
1 GCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGT
*
18720675 GCGGCTAAAGGTCACGTTCTTTAG
1 GCCGCTAAAGGTCACGTTCTTTAG
18720699 AGACGCTTTC
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 91 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (43 bp):
GCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGT
Found at i:18723239 original size:15 final size:16
Alignment explanation
Indices: 18723219--18723258 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18723209 CCATTGTTCT
18723219 AAAAAAATTAA-TGAA
1 AAAAAAATTAAGTGAA
*
18723234 AAAAAAA-GAAGTGAA
1 AAAAAAATTAAGTGAA
18723249 AAAAAAATTA
1 AAAAAAATTA
18723259 TGTTGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAAAAAATTAAGTGAA
Found at i:18724865 original size:13 final size:13
Alignment explanation
Indices: 18724849--18724881 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18724839 TTTAATTAAA
*
18724849 TTAGTTAATTAGT
1 TTAGATAATTAGT
18724862 TTAGATAATTAGT
1 TTAGATAATTAGT
18724875 TTA-ATAA
1 TTAGATAA
18724882 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:18731029 original size:15 final size:15
Alignment explanation
Indices: 18731009--18731045 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18730999 CCATTGTTCT
*
18731009 AAAAAAATGAA-TGA
1 AAAAAAAAGAAGTGA
18731023 AAAAAAAAGAAGTGA
1 AAAAAAAAGAAGTGA
18731038 AAAAAAAA
1 AAAAAAAA
18731046 ACATTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAAAAAGAAGTGA
Found at i:18731887 original size:30 final size:30
Alignment explanation
Indices: 18731851--18731911 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
18731841 GAGTTTTCAG
* *
18731851 GATCCACACGGGCTGGGC-ACACGCCCATGT
1 GATCCACACAGGC-AGGCAACACGCCCATGT
*
18731881 GATCCACACAGGCAGGCAATACGCCCATGT
1 GATCCACACAGGCAGGCAACACGCCCATGT
18731911 G
1 G
18731912 CCAGCCCCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.25, C:0.34, G:0.28, T:0.13
Consensus pattern (30 bp):
GATCCACACAGGCAGGCAACACGCCCATGT
Found at i:18735071 original size:5 final size:5
Alignment explanation
Indices: 18735061--18735085 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18735051 AATGAAATTC
18735061 TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA
18735086 AAAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:18742966 original size:16 final size:16
Alignment explanation
Indices: 18742941--18742986 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
18742931 CCAGAAAAAC
18742941 ACAA-TTGTTCTAAAT
1 ACAAGTTGTTCTAAAT
18742956 ACAAGTTGTTCTAAAT
1 ACAAGTTGTTCTAAAT
*
18742972 A-ATGGTTGTTCTAAA
1 ACA-AGTTGTTCTAAA
18742987 CATAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (16 bp):
ACAAGTTGTTCTAAAT
Found at i:18743172 original size:16 final size:15
Alignment explanation
Indices: 18743121--18743174 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
18743111 CTAGACATAG
18743121 TTATTCTCAAACAACA
1 TTATTCT-AAACAACA
* *
18743137 GCTATTCTGAACAACAA
1 -TTATTCTAAACAAC-A
18743154 TTATTCTAAACAAGCA
1 TTATTCTAAACAA-CA
18743170 TTATT
1 TTATT
18743175 GCTCCAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 23 0.74
17 8 0.26
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (15 bp):
TTATTCTAAACAACA
Found at i:18744673 original size:32 final size:33
Alignment explanation
Indices: 18744643--18744821 Score: 168
Period size: 33 Copynumber: 5.5 Consensus size: 33
18744633 GGTGTACATT
**
18744643 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* * * *
18744676 CCTTTTCATA-TGGTATACACTAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
* * **
18744709 CCTTTCCAAGT-GTACACATAAAGTATACCTTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* * * *
18744741 CCTTTTCATA-TGGTATACACTAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
*
18744774 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
*
18744806 CCTTTCCAAGTTGTAC
1 CCTTTCCAAGTGGTAC
18744822 CATTTGGGTA
Statistics
Matches: 117, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
32 54 0.46
33 62 0.53
34 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACATAA
Found at i:18744810 original size:65 final size:65
Alignment explanation
Indices: 18744643--18744803 Score: 286
Period size: 65 Copynumber: 2.5 Consensus size: 65
18744633 GGTGTACATT
18744643 CCTTTCCAAGTGGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTA
1 CCTTTCCAAGT-GTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTA
18744708 A
65 A
* *
18744709 CCTTTCCAAGTGTACACATAAAGTATACCTTTCCTTTTCATATGGTATACACTAAGTATACCTAA
1 CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTAA
*
18744774 CCTTTCCAAGTGTACACACAAAGTGTACAT
1 CCTTTCCAAGTGTACACACAAAGTATACAT
18744804 AACCTTTCCA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 79 0.88
66 11 0.12
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (65 bp):
CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTAA
Found at i:18746001 original size:13 final size:13
Alignment explanation
Indices: 18745983--18746007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18745973 CACATATTTG
18745983 ATAAAAATTTTCT
1 ATAAAAATTTTCT
18745996 ATAAAAATTTTC
1 ATAAAAATTTTC
18746008 ATGCAATATT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTTTCT
Found at i:18770111 original size:25 final size:25
Alignment explanation
Indices: 18770083--18770134 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
18770073 AAATTAACTT
18770083 ACCATTTATTTCACATTTAAGGTAA
1 ACCATTTATTTCACATTTAAGGTAA
18770108 ACCATTTATTTCACATTTAAGGTAA
1 ACCATTTATTTCACATTTAAGGTAA
18770133 AC
1 AC
18770135 TAACTAAACA
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:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (25 bp):
ACCATTTATTTCACATTTAAGGTAA
Found at i:18770529 original size:25 final size:25
Alignment explanation
Indices: 18770501--18770605 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
18770491 CCCTCTCTCA
*
18770501 AGCCATATAACAAGAAGTTCATGTG
1 AGCCATATAACAAGAAGCTCATGTG
* * *
18770526 AGCCATGTAACAGGAAGCTTAT-TCG
1 AGCCATATAACAAGAAGCTCATGT-G
* * * **
18770551 GGCTATATAACAGGAAGCTCATAAG
1 AGCCATATAACAAGAAGCTCATGTG
* *
18770576 AGCCATAT-TCAAGAAGCTCATGCG
1 AGCCATATAACAAGAAGCTCATGTG
18770600 AGCCAT
1 AGCCAT
18770606 TAATGGGTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
24 19 0.30
25 44 0.70
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (25 bp):
AGCCATATAACAAGAAGCTCATGTG
Found at i:18778504 original size:32 final size:33
Alignment explanation
Indices: 18778396--18778509 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
18778386 GGTGTACGTT
* **
18778396 CCTTTTCAACTGGTACACACAAAGTATACATTT
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
* *
18778429 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTACACACAAAGTATACATAA
* *
18778462 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
* *
18778494 CTTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
18778510 CATTTGGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
32 28 0.41
33 39 0.57
34 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACATAA
Found at i:18779707 original size:13 final size:13
Alignment explanation
Indices: 18779689--18779713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18779679 CACATATTTG
18779689 ATAAAAATTTTCT
1 ATAAAAATTTTCT
18779702 ATAAAAATTTTC
1 ATAAAAATTTTC
18779714 ATGAAATATT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTTTCT
Found at i:18781583 original size:29 final size:31
Alignment explanation
Indices: 18781535--18781598 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
18781525 TTTATAATTA
*
18781535 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
18781566 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
18781595 TTTA
1 TTTA
18781599 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:18781587 original size:8 final size:8
Alignment explanation
Indices: 18781576--18781600 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18781566 TTTAATAAGA
18781576 TATTTTAT
1 TATTTTAT
18781584 TATTTTAT
1 TATTTTAT
18781592 TATTTTAT
1 TATTTTAT
18781600 T
1 T
18781601 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:18786966 original size:19 final size:20
Alignment explanation
Indices: 18786928--18786966 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
18786918 ATCGACACTC
* *
18786928 ACATGCTCCATTTCCCATTA
1 ACATGCTCCAATTCCAATTA
18786948 ACATGCT-CAATTCCAATTA
1 ACATGCTCCAATTCCAATTA
18786967 GTTTAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (20 bp):
ACATGCTCCAATTCCAATTA
Found at i:18797303 original size:19 final size:19
Alignment explanation
Indices: 18797279--18797317 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18797269 TTCTAATGAA
*
18797279 TGCAATATTTTAGGTCATC
1 TGCAATATTTTAGATCATC
18797298 TGCAATATTTTAGATCATC
1 TGCAATATTTTAGATCATC
18797317 T
1 T
18797318 AAAATAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (19 bp):
TGCAATATTTTAGATCATC
Found at i:18797323 original size:19 final size:19
Alignment explanation
Indices: 18797282--18797323 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18797272 TAATGAATGC
* **
18797282 AATATTTTAGGTCATCTGC
1 AATATTTTAGATCATCTAA
18797301 AATATTTTAGATCATCTAA
1 AATATTTTAGATCATCTAA
18797320 AATA
1 AATA
18797324 ATCCCAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (19 bp):
AATATTTTAGATCATCTAA
Found at i:18811228 original size:17 final size:17
Alignment explanation
Indices: 18811207--18811238 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18811197 GGGTAATTGT
18811207 TTTTTTA-ATTTTTATC
1 TTTTTTAGATTTTTATC
18811223 TTTTTTAGATTTTTAT
1 TTTTTTAGATTTTTAT
18811239 ATAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTAGATTTTTATC
Found at i:18817961 original size:40 final size:40
Alignment explanation
Indices: 18817913--18818012 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 40
18817903 AACTTTGAAA
*
18817913 ATAATTTATCCGGATGAAGTATGTATTAACAGAAAACTCT
1 ATAATTTATCCGGATGAAGTATGTATTAACAGAAAACTAT
*
18817953 ATAATTTATCC-------G---GTATTAACAGAAACCTAT
1 ATAATTTATCCGGATGAAGTATGTATTAACAGAAAACTAT
18817983 ATAATTTATCCGGATGAAGTATGTATTAAC
1 ATAATTTATCCGGATGAAGTATGTATTAAC
18818013 GATATACTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
30 27 0.56
33 1 0.02
37 1 0.02
40 19 0.40
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (40 bp):
ATAATTTATCCGGATGAAGTATGTATTAACAGAAAACTAT
Found at i:18818041 original size:18 final size:18
Alignment explanation
Indices: 18818018--18818052 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18818008 TTAACGATAT
*
18818018 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
18818036 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
18818053 ACTGTCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:18818866 original size:46 final size:44
Alignment explanation
Indices: 18818773--18818866 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
18818763 ATTACATCAT
*
18818773 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
*
18818817 CATTCCATTCAACCAAACAGT-TGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAA-TAC-TATTACAGCTCTATTC
18818863 CATT
1 CATT
18818867 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
Found at i:18818869 original size:16 final size:16
Alignment explanation
Indices: 18818848--18818899 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
18818838 TGAATTACTT
18818848 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
18818864 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
18818880 ATTATAACTCTATTCC
1 ATTACAGCTCTATTCC
18818896 ATTA
1 ATTA
18818900 TAAGTGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:18820255 original size:21 final size:21
Alignment explanation
Indices: 18820224--18820281 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
18820214 ATAAAAATCA
18820224 TAAAAGAAATTATAAAAAATTG
1 TAAAAG-AATTATAAAAAATTG
* *
18820246 TAAAAGAATTGT--AAAATTT
1 TAAAAGAATTATAAAAAATTG
18820265 TATAAA-AATTATAAAAA
1 TA-AAAGAATTATAAAAA
18820282 TATATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 8 0.27
22 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
TAAAAGAATTATAAAAAATTG
Found at i:18820257 original size:11 final size:11
Alignment explanation
Indices: 18820224--18820261 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18820214 ATAAAAATCA
*
18820224 TAAAAGAAATTA
1 TAAAAG-AATTG
18820236 TAAAA-AATTG
1 TAAAAGAATTG
18820246 TAAAAGAATTG
1 TAAAAGAATTG
18820257 TAAAA
1 TAAAA
18820262 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 9 0.38
11 10 0.42
12 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (11 bp):
TAAAAGAATTG
Done.