Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 202 of 344
Found at i:67400956 original size:39 final size:39
Alignment explanation
Indices: 67400913--67400987 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
67400903 CAGGCTACGT
*
67400913 GCTGGAAATATGTCCGGG-CTAAAGTCCCGCAGGCTTCAA
1 GCTGGAAATAT-ACCGGGTCTAAAGTCCCGCAGGCTTCAA
* * * *
67400952 GCTGGTATTATACCGGGTTTAAATTCCCGCAGGCTT
1 GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTT
67400988 GTGCTGGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.17
39 25 0.83
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTTCAA
Found at i:67404705 original size:16 final size:16
Alignment explanation
Indices: 67404669--67404710 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
67404659 TAAATTATTT
67404669 GTTTATTATCATAAATA
1 GTTT-TTATCATAAATA
67404686 -TTTTTATCAGTAAA-A
1 GTTTTTATCA-TAAATA
67404701 GTTTTTATCA
1 GTTTTTATCA
67404711 ATTCCGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (16 bp):
GTTTTTATCATAAATA
Found at i:67419002 original size:205 final size:204
Alignment explanation
Indices: 67418623--67419952 Score: 1966
Period size: 205 Copynumber: 6.5 Consensus size: 204
67418613 GCAGCATAAT
* *
67418623 AGATCTGGCCTACAGATGTTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 AGATCTCGCCTTCAGATGTT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
* *
67418687 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATG
65 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* * * * **
67418752 ATTTATCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
130 ATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCA
67418817 GACACATAGC
195 GACACATAGC
*
67418827 AGATCTCGCCTTTAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 AGATCTCGCCTTCAGATG-TTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
* *
67418892 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGAGTATGATGAAGCAAATCTAAGATG
65 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* *
67418957 ATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAAAGCA
130 ATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCA
*
67419022 GATACATAGC
195 GACACATAGC
*
67419032 AGATCT-GACCTTTAGATGTTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 AGATCTCG-CCTTCAGATGTTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
* * *
67419096 AGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGTAAATCTAAGATG
65 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* * * * **
67419161 ATTTGTGGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
130 ATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCA
67419226 GACACATAGC
195 GACACATAGC
* *
67419236 AGATCTCGCCTTCAGATGATTTCATTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACA
1 AGATCTCGCCTTCAGATG-TTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
*
67419301 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAATATG
65 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* * * * * *
67419366 ATTTTTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATATTCAC-TCTAATAGAGAGC
130 ATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTC-AATGGAGAGC
*
67419430 AGGCACATAGC
194 AGACACATAGC
* *
67419441 AGATCTCGCCTTTAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTTTTTACA
1 AGATCTCGCCTTCAGATG-TTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
**
67419506 AGGAATGAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
65 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* *
67419571 ATTTGTGGTCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCA
130 ATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCA
*
67419636 GATACATAGC
195 GACACATAGC
* * * * *
67419646 ATATCT-GACCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGATTTGGCATCCTTGTGCTTA
1 AGATCTCG-CCTTCAGATGTTT-CACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTA
* * *
67419710 TAAGGAACAAATCGAAGACATAGCTGATTTGGCTTGCACGTGATTACAATGAAGCAAATCTAAGA
63 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGA
* * *
67419775 TGATTTGTGGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCCCCACTTCAATGGAGAG
128 TGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAG
*
67419840 CAGATACATAGC
193 CAGACACATAGC
** * * * *
67419852 AGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTAC
1 AGATCTCGCCTTCAGATGTTT-CACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTAC
* *
67419917 AAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
64 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTC
67419953 GGATGTTCCC
Statistics
Matches: 1035, Mismatches: 80, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
204 211 0.20
205 568 0.55
206 256 0.25
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (204 bp):
AGATCTCGCCTTCAGATGTTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAA
GGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGA
TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAG
ACACATAGC
Found at i:67419382 original size:409 final size:409
Alignment explanation
Indices: 67418636--67419952 Score: 2061
Period size: 409 Copynumber: 3.2 Consensus size: 409
67418626 TCTGGCCTAC
*
67418636 AGATGTTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGA
1 AGATGTT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
* *
67418700 AGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTATCGTCTCT
65 AGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTGTGGTCTCT
67418765 GTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGA
130 GTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGA
* *
67418830 TCTCGCCTTTAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGG
195 TCTCGCCTTCAGATGATTTCATTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGG
* *
67418895 AACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGAGTATGATGAAGCAAATCTAAGATGATT
260 AACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATT
*
67418960 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAAAGCAGAT
325 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGAT
67419025 ACATAGCAGATCTGACCTTT
390 ACATAGCAGATCTGACCTTT
*
67419045 AGATGTTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATTGAA
1 AGATGTTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA
*
67419110 GACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGTAAATCTAAGATGATTTGTGGTCTCTG
66 GACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTGTGGTCTCTG
67419175 TATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGAT
131 TATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGAT
*
67419240 CTCGCCTTCAGATGATTTCATTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACAAGGA
196 CTCGCCTTCAGATGATTTCATTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGA
*
67419305 ACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAATATGATTT
261 ACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTT
* * * * * **
67419370 TTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATATTCAC-TCTAATAGAGAGCAGGC
326 GTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTC-AATAGAGAGCAGAT
67419434 ACATAGCAGATCTCG-CCTTT
390 ACATAGCAGATCT-GACCTTT
* **
67419454 AGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTTTTTACAAGGAATGAATCGA
1 AGATG-TTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
*
67419519 AGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTCT
65 AGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTGTGGTCTCT
* * * * ** * *
67419584 ATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCATA
130 GTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGA
* * * *
67419649 TCT-GACCTTCAGATG-TTT-ATACTGAAGCAAAATCCAAGATGATTTGGCATCCTTGTGCTTAT
195 TCTCG-CCTTCAGATGATTTCAT--TGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTAC
* *
67419711 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTGCACGTGATTACAATGAAGCAAATCTAAGAT
256 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGAT
* * * *
67419776 GATTTGTGGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCCCCACTTCAATGGAGAGC
321 GATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGC
* *
67419841 AGATACATAGCAGATCTAACCTTC
386 AGATACATAGCAGATCTGACCTTT
* * * *
67419865 AGATGTTTATACTGAAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCG
1 AGATGTTT-CACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* *
67419930 AAGACATAGCAGATTTGACTTTC
64 AAGACATAGCTGATTTGGCTTTC
67419953 GGATGTTCCC
Statistics
Matches: 833, Mismatches: 63, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
408 5 0.01
409 392 0.47
410 198 0.24
411 175 0.21
412 63 0.08
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (409 bp):
AGATGTTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA
GACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTGTGGTCTCTG
TATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGAT
CTCGCCTTCAGATGATTTCATTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGA
ACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTT
GTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGATA
CATAGCAGATCTGACCTTT
Found at i:67420140 original size:44 final size:44
Alignment explanation
Indices: 67420092--67420319 Score: 232
Period size: 44 Copynumber: 5.2 Consensus size: 44
67420082 CCGTATTGTC
* *
67420092 AGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTAT
1 AGGGAACAAGTTGAAGATAACAGATTTGGCATCCCTGTGCTTAT
* * * *
67420136 AGGGAAC-AGATTGAAGATAGCAGATCTGACATTCCTGTGCTTA-
1 AGGGAACAAG-TTGAAGATAACAGATTTGGCATCCCTGTGCTTAT
* * ** *
67420179 CGGTGAAGC-AGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTAT
1 AGG-GAA-CAAG-TTGAAGATAACAG-ATTTGGCATCCCTGTGCTTAT
* *
67420224 AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTAT
1 AGGGAACAAGTTGAAGATAACAGATTTGGCATCCCTGTGCTTAT
* *
67420268 AGGGAACAAGTTGAAGACAACAGATTTGGCATCCCTGTGTTTAT
1 AGGGAACAAGTTGAAGATAACAGATTTGGCATCCCTGTGCTTAT
*
67420312 GGGGAACA
1 AGGGAACA
67420320 GATCGAAGAA
Statistics
Matches: 154, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
42 1 0.01
43 15 0.10
44 121 0.79
45 16 0.10
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
AGGGAACAAGTTGAAGATAACAGATTTGGCATCCCTGTGCTTAT
Found at i:67420257 original size:132 final size:131
Alignment explanation
Indices: 67420092--67420328 Score: 341
Period size: 132 Copynumber: 1.8 Consensus size: 131
67420082 CCGTATTGTC
* *
67420092 AGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGATTGAAGATAG
1 AGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGACAA
* *
67420156 CAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCT
65 CAGATCTGACATCCCTGTGCTTACGGGGAA-CAGATCGAAGATTTCAGCATGGAATCCCTGTGCT
67420221 TAT
129 TAT
* * * *
67420224 AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGACAAC
1 AGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGACAAC
* * * *
67420289 AGATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA
66 AGATCTGACATCCCTGTGCTTACGGGGAACAGATCGAAGA
67420329 AGCAGATCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
131 11 0.12
132 79 0.86
133 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (131 bp):
AGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGACAAC
AGATCTGACATCCCTGTGCTTACGGGGAACAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTA
T
Found at i:67420302 original size:88 final size:87
Alignment explanation
Indices: 67420092--67420336 Score: 275
Period size: 88 Copynumber: 2.8 Consensus size: 87
67420082 CCGTATTGTC
*
67420092 AGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGC
1 AGGGAACAAGTTGAAGACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGC
*
67420157 AGATCTGACATTCCTGTGCTTA
66 AGATCTGACATCCCTGTGCTTA
* * *** *
67420179 CGGTGAAGC-AGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAG
1 AGG-GAA-CAAG-TTGAAGACAACAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TTGAAG
* * *
67420240 ATAGCAGATTTGGCATCCCTGTGTTTA
61 ATAGCAGATCTGACATCCCTGTGCTTA
* * *
67420267 TAGGGAACAAGTTGAAGACAACAGATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA-AG
1 -AGGGAACAAGTTGAAGACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAG
67420331 CAGATC
65 CAGATC
67420337 AAGAACTCAA
Statistics
Matches: 127, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
86 1 0.01
87 20 0.16
88 93 0.73
89 12 0.09
90 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (87 bp):
AGGGAACAAGTTGAAGACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGC
AGATCTGACATCCCTGTGCTTA
Found at i:67420564 original size:6 final size:6
Alignment explanation
Indices: 67420527--67420560 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
67420517 CCCAATACCC
* *
67420527 AAAACA AAAACA AAAACA AAAAAA AAAAGA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
67420561 GAAACCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:67420830 original size:25 final size:26
Alignment explanation
Indices: 67420787--67420870 Score: 116
Period size: 25 Copynumber: 3.2 Consensus size: 26
67420777 TATTTTGGAG
67420787 AGAAGAGATTTTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTTTGAGATTCA
67420813 AGAAGAGA-TTTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTTTGAGATTCA
* *
67420838 AGAGGGGATTTTTCTTTTTTTGAGATTCA
1 AGAAGAGA--TTT-TTTTTTTGAGATTCA
67420867 AGAA
1 AGAA
67420871 TAAAAAATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
25 23 0.45
26 8 0.16
28 2 0.04
29 18 0.35
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (26 bp):
AGAAGAGATTTTTTTTTTGAGATTCA
Found at i:67421733 original size:16 final size:16
Alignment explanation
Indices: 67421712--67421743 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67421702 CTATTGTTAC
67421712 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
67421728 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
67421744 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:67421785 original size:11 final size:13
Alignment explanation
Indices: 67421755--67421786 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
67421745 TTATTATAAT
67421755 TTATTATTGTTAC
1 TTATTATTGTTAC
67421768 TTATTATT-TTAC
1 TTATTATTGTTAC
67421780 -TATTATT
1 TTATTATT
67421787 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:67421978 original size:22 final size:22
Alignment explanation
Indices: 67421948--67422008 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
67421938 TTATTATATC
*
67421948 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
67421970 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
67421992 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
67422009 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:67421982 original size:3 final size:3
Alignment explanation
Indices: 67421743--67421963 Score: 66
Period size: 3 Copynumber: 74.3 Consensus size: 3
67421733 TTCTCATCAC
* * *
67421743 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
67421789 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * *
67421834 TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT T-T TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * ** * * * *
67421879 T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT TAC TAT TAC
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
67421923 TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT T
67421964 GTTGTATTTT
Statistics
Matches: 155, Mismatches: 45, Indels: 36
0.66 0.19 0.15
Matches are distributed among these distances:
2 16 0.10
3 123 0.79
4 16 0.10
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:67426845 original size:50 final size:49
Alignment explanation
Indices: 67426705--67426950 Score: 231
Period size: 50 Copynumber: 5.0 Consensus size: 49
67426695 TGGTACTTAT
* * * * *
67426705 CCACAAAGGGTTTTTAAGAGATTAACCAAAAAGGTTTCCTAGATAATGCG
1 CCACAGAGGCTTTTCAA-AGATTAACCACAAAGGTTTCCCAGATAATGCG
* * * * *
67426755 CCACAGAGGCTTTTCAAAGATTATCTATAAATGTTTCCCAGATAATGCA
1 CCACAGAGGCTTTTCAAAGATTAACCACAAAGGTTTCCCAGATAATGCG
* *
67426804 CCACAGAGTCTTTTCAAAAGATTAACCACAAAGGCTTCCCAGATAATGCG
1 CCACAGAGGCTTTTC-AAAGATTAACCACAAAGGTTTCCCAGATAATGCG
* * * * * * ** *
67426854 TCATAGAGGCTTTTCAAATATTAGCCACATAGGCTTCAAAAATAATGCG
1 CCACAGAGGCTTTTCAAAGATTAACCACAAAGGTTTCCCAGATAATGCG
* * * * *
67426903 TCACAGAGGGTTTTTAAAAGATTAGCCACAAAGGTTTCCTAGATAATG
1 CCACAGA-GGCTTTTCAAAGATTAACCACAAAGGTTTCCCAGATAATG
67426951 TTGTGTTTGA
Statistics
Matches: 160, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 74 0.46
50 86 0.54
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (49 bp):
CCACAGAGGCTTTTCAAAGATTAACCACAAAGGTTTCCCAGATAATGCG
Found at i:67426899 original size:99 final size:99
Alignment explanation
Indices: 67426705--67426950 Score: 267
Period size: 99 Copynumber: 2.5 Consensus size: 99
67426695 TGGTACTTAT
* * * * *
67426705 CCACAAAGGGTTTTTAAGAGATTAACCAAAAAGGTTTCCTAGATAATGCGCCACAGAGGCTTTTC
1 CCACAGAGGCTTTTCAAAAGATTAACCACAAAGGTTTCCTAGATAATGCGCCACAGAGGCTTTTC
* * * * * ** *
67426770 AAAGATTATCTATAAATGTTTCCCAGATAATGCA
66 AAAGATTAGCCACAAAGGCTTCAAAAATAATGCA
* * * * *
67426804 CCACAGAGTCTTTTCAAAAGATTAACCACAAAGGCTTCCCAGATAATGCGTCATAGAGGCTTTTC
1 CCACAGAGGCTTTTCAAAAGATTAACCACAAAGGTTTCCTAGATAATGCGCCACAGAGGCTTTTC
* * *
67426869 AAATATTAGCCACATAGGCTTCAAAAATAATGCG
66 AAAGATTAGCCACAAAGGCTTCAAAAATAATGCA
* * * *
67426903 TCACAGAGGGTTTTTAAAAGATTAGCCACAAAGGTTTCCTAGATAATG
1 CCACAGAGGCTTTTCAAAAGATTAACCACAAAGGTTTCCTAGATAATG
67426951 TTGTGTTTGA
Statistics
Matches: 119, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
99 119 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (99 bp):
CCACAGAGGCTTTTCAAAAGATTAACCACAAAGGTTTCCTAGATAATGCGCCACAGAGGCTTTTC
AAAGATTAGCCACAAAGGCTTCAAAAATAATGCA
Found at i:67435129 original size:27 final size:25
Alignment explanation
Indices: 67435103--67435152 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
67435093 ACAACAAATA
67435103 ATTTAAAA-AAATTAAATATATATAAT
1 ATTTAAAACAAA-T-AATATATATAAT
67435129 ATTTAAAACAAATAATATATATAA
1 ATTTAAAACAAATAATATATATAA
67435153 AACTATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.48
26 9 0.39
27 3 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTTAAAACAAATAATATATATAAT
Found at i:67437676 original size:3 final size:3
Alignment explanation
Indices: 67437668--67437755 Score: 74
Period size: 3 Copynumber: 29.0 Consensus size: 3
67437658 TGTCTTTCTC
* *
67437668 ATT ATT ATT ATT ATT ATT -CT ATT CATT AGTCT ATT -TA ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT A-T-T ATT ATT ATT -ATT ATT
* * *
67437715 ATT ATT ATT ATT ATT ACT GTC A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
67437756 TTCATATATG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 3 0.04
3 55 0.81
4 8 0.12
5 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:67437773 original size:23 final size:23
Alignment explanation
Indices: 67437714--67437762 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
67437704 AATTAATTAT
67437714 TATTATTATTATTATTACTGTCA
1 TATTATTATTATTATTACTGTCA
* *
67437737 TATTATTATTATTATTATTTTCA
1 TATTATTATTATTATTACTGTCA
67437760 TAT
1 TAT
67437763 ATGTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTATTATTATTATTACTGTCA
Found at i:67437773 original size:32 final size:32
Alignment explanation
Indices: 67437669--67437773 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
67437659 GTCTTTCTCA
* * *
67437669 TTATTATTATTATTATTCTATTCATTAGTCTATT
1 TTATTATTATTATTATTATTTTCATTA--CTGTT
* *
67437703 TAATTAATTATTATTATTATTATT-ATTACTGTC
1 TTATT-ATTATTATTATTATT-TTCATTACTGTT
*
67437736 ATATTATTATTATTATTATTTTCATATA-TGTT
1 TTATTATTATTATTATTATTTTCAT-TACTGTT
67437768 TTATTA
1 TTATTA
67437774 CAAATTGTGC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 8 0.14
34 4 0.07
35 17 0.29
36 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (32 bp):
TTATTATTATTATTATTATTTTCATTACTGTT
Found at i:67447672 original size:6 final size:6
Alignment explanation
Indices: 67447651--67447690 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
67447641 AAATTTTTAT
*
67447651 ATAAAA CATTAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
67447691 TTATTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:67455909 original size:16 final size:16
Alignment explanation
Indices: 67455888--67455920 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67455878 AGGGCATAGT
67455888 ACATCACGATGTCTTA
1 ACATCACGATGTCTTA
67455904 ACATCACGATGTCTTA
1 ACATCACGATGTCTTA
67455920 A
1 A
67455921 TTGCTCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (16 bp):
ACATCACGATGTCTTA
Found at i:67457085 original size:18 final size:19
Alignment explanation
Indices: 67457047--67457086 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
67457037 AAATAAAATA
*
67457047 AAATAATAATGACAATAAT
1 AAATAAAAATGACAATAAT
*
67457066 AAATAAAAATG-CACTAAT
1 AAATAAAAATGACAATAAT
67457084 AAA
1 AAA
67457087 AACATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATAAAAATGACAATAAT
Found at i:67457143 original size:4 final size:4
Alignment explanation
Indices: 67457123--67457175 Score: 65
Period size: 4 Copynumber: 13.8 Consensus size: 4
67457113 TGTAAAAAAG
* * *
67457123 TAAA TAAA GAAG T-AA TAAA TAAA TAAA TGAA TAAA TAAA T-AA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
67457169 TAAA TAA
1 TAAA TAA
67457176 TAATTTGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 5 0.12
4 36 0.88
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:67457176 original size:11 final size:11
Alignment explanation
Indices: 67457140--67457178 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
67457130 AGAAGTAATA
67457140 AATAAATAAAT
1 AATAAATAAAT
67457151 GAATAAATAAAT
1 -AATAAATAAAT
67457163 AATAAATAAAT
1 AATAAATAAAT
67457174 AATAA
1 AATAA
67457179 TTTGTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:67461283 original size:20 final size:20
Alignment explanation
Indices: 67461245--67461283 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67461235 TAAGCTCGGT
*
67461245 TGAGCTCAAACGAGTTGAAA
1 TGAGCTCAAACGAGCTGAAA
*
67461265 TGAGCTCAAATGAGCTGAA
1 TGAGCTCAAACGAGCTGAA
67461284 TTAAGTTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:67462476 original size:14 final size:14
Alignment explanation
Indices: 67462437--67462479 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
67462427 TTTACTATTA
67462437 TTATTTATTTTT-G
1 TTATTTATTTTTGG
* *
67462450 TTTTTTATATTTGG
1 TTATTTATTTTTGG
67462464 TTATTTATTTTTGG
1 TTATTTATTTTTGG
67462478 TT
1 TT
67462480 TTGGGCTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (14 bp):
TTATTTATTTTTGG
Found at i:67462672 original size:44 final size:44
Alignment explanation
Indices: 67462622--67462923 Score: 153
Period size: 51 Copynumber: 6.6 Consensus size: 44
67462612 ATTCTAACCT
* *
67462622 ACTGCAACTTCAGGGATATAAGATTTGGCGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAAATAAGATTTGGCGCTTTAATCTGCTCC
* * * * * *
67462666 ACTGCAACTTTAGGGAGATGATATTTGTAACTTATAGCTTTAATC-GATTCC
1 ACTGCAACTTCAGGGAAATAAGATTTG--GC-----GCTTTAATCTG-CTCC
* **
67462717 ACTACAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAAATAAGATTTGGCGCTTTAATCTGCTCC
* * * * *
67462761 ATTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTTAATCTGTTCC
1 ACTGCAACTTCAGGGAAATAAGATTTG------G-CGCTTTAATCTGCTCC
* * * *
67462812 ACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAATTTGCTCC
1 ACTGCAACTTCAGGGAAATAAGATTTGGC--GCTTTAATCTGCTCC
* * * * ** *
67462857 ACTGTAACTTCAGGGAGATGAG-GTTGTAGCTTTAATCTG-TTC
1 ACTGCAACTTCAGGGAAATAAGATTTGGCGCTTTAATCTGCTCC
* * *
67462899 ATTGCAACTTCAGAGAGATAAGATT
1 ACTGCAACTTCAGGGAAATAAGATT
67462924 CACTATGGTA
Statistics
Matches: 193, Mismatches: 45, Indels: 41
0.69 0.16 0.15
Matches are distributed among these distances:
42 20 0.10
43 9 0.05
44 59 0.31
45 33 0.17
46 1 0.01
50 3 0.02
51 68 0.35
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAAATAAGATTTGGCGCTTTAATCTGCTCC
Found at i:67462743 original size:51 final size:50
Alignment explanation
Indices: 67462651--67462836 Score: 197
Period size: 51 Copynumber: 3.8 Consensus size: 50
67462641 AAGATTTGGC
* * * * * *
67462651 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATGATATTTGTAACTTATA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTT-TA
*
67462702 GCTTTAATC-GATTCCACTACAACTTCAGGGAAATAAGATTTG------TA
1 GCTTTAATCTG-TTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTTA
* * * *
67462746 GCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTT-TA
67462797 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
67462837 CGCTATCTTC
Statistics
Matches: 110, Mismatches: 16, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
44 37 0.34
45 1 0.01
50 1 0.01
51 71 0.65
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTTA
Found at i:67462789 original size:95 final size:95
Alignment explanation
Indices: 67462626--67462881 Score: 352
Period size: 95 Copynumber: 2.7 Consensus size: 95
67462616 TAACCTACTG
* ** * **
67462626 CAACTTCAGGGATATAAGATTTGGCGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATGATATT
1 CAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGGTT
67462691 TGTAACTTATAGCTTTAATC-GATTCCACTA
66 TGTAACTTATAGCTTTAATCTG-TTCCACTA
* * *
67462721 CAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGGTT
1 CAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGGTT
* *
67462786 TGTAACTTGTAGCTTTAATCTGTTCCACTG
66 TGTAACTTATAGCTTTAATCTGTTCCACTA
* * * *
67462816 CAACTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCACTGTAACTTCAGGGAGATGAGGT
1 CAACTTCAGGGAAATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGGT
67462881 T
65 T
67462882 GTAGCTTTAA
Statistics
Matches: 141, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
95 104 0.74
96 37 0.26
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (95 bp):
CAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGGTT
TGTAACTTATAGCTTTAATCTGTTCCACTA
Found at i:67478865 original size:28 final size:28
Alignment explanation
Indices: 67478802--67478955 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
67478792 ATATTAAGTC
* * *
67478802 CGCACACTCAGTGCCATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
67478829 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
67478857 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
67478885 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
67478913 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
67478941 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67478956 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.17
28 100 0.83
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:67478894 original size:56 final size:55
Alignment explanation
Indices: 67478802--67478980 Score: 259
Period size: 56 Copynumber: 3.2 Consensus size: 55
67478792 ATATTAAGTC
* * *
67478802 CGCACACTCAGTGCCATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
*
67478857 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTATATAATCAAACT
* * * *
67478913 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTATATAA-TCAAACT
67478970 CGCACACTTAG
1 CGCACACTTAG
67478981 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
55 22 0.20
56 72 0.64
57 18 0.16
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:67497124 original size:206 final size:206
Alignment explanation
Indices: 67496803--67497312 Score: 727
Period size: 206 Copynumber: 2.5 Consensus size: 206
67496793 GGCATCTCTG
*
67496803 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAGCAAATCTAAGATG
1 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATG
* * *
67496868 ATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTTTGGCTTCTCCATATCCGAAGGAGAGC
66 ATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATCCGAAGGAGAGC
* * ** *
67496933 AGATACATAGCAGATCTGGCCTTCAGAT-ATTTATACTGAAGCAGATCCAAGATGATTTGGCATC
131 AAACACATAGCAGATCTAACCTTCAGATGA-TTAGACTGAAGCAGATCCAAGATGATTTGGCATC
*
67496997 CTTGTGTTTACA
195 CTTGTGCTTACA
* * ** *
67497009 AGGAACAAATCGAA-ATCATAGCTGATTTAGCTTTCACTTGCTTACGCGGAAGCAAGTCTAAGAT
1 AGGAACAAATCGAAGA-CATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
* ** * *
67497073 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAATTTTGGCGTCTCCATATTTGACGGAGGG
65 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATCCGAAGGAGAG
* * *
67497138 CAAACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGCTCCAAGATGGTTTGGTATC
130 CAAACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGATTTGGCATC
67497203 CTTGTGCTTACA
195 CTTGTGCTTACA
* * * *
67497215 AGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGTTGAAGCAAATCTAAGATG
1 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATG
* *
67497280 ATTTGGAAACTCTGTATTGTCAGAGAACAAATC
66 ATTTGGCATCTCTGTATTGTCAGAGAACAAATC
67497313 GAAGAATCAG
Statistics
Matches: 268, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
205 1 0.00
206 265 0.99
207 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATG
ATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATCCGAAGGAGAGC
AAACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGATTTGGCATCC
TTGTGCTTACA
Found at i:67499118 original size:24 final size:25
Alignment explanation
Indices: 67499086--67499201 Score: 79
Period size: 24 Copynumber: 4.8 Consensus size: 25
67499076 GAATATACGT
67499086 ATATTTTA-TA-ATTAT-TTACTT-
1 ATATTTTATTATATTATATTACTTC
67499107 ATATTTTATTATATTATATTACTTC
1 ATATTTTATTATATTATATTACTTC
* * *
67499132 ATATTTT-TCTACTATCATAGTAATAT-
1 ATATTTTAT-TA-TATTATATTACT-TC
**
67499158 ATATTTTAACATA-TATCATTACTT-
1 ATATTTTATTATATTAT-ATTACTTC
67499182 AT-TATTTATTATATTATATT
1 ATAT-TTTATTATATTATATT
67499202 TTATCACATA
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
21 8 0.11
22 2 0.03
23 6 0.08
24 22 0.30
25 18 0.24
26 17 0.23
27 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.57
Consensus pattern (25 bp):
ATATTTTATTATATTATATTACTTC
Found at i:67499319 original size:28 final size:26
Alignment explanation
Indices: 67499258--67499326 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 26
67499248 TTTAACAATA
*
67499258 TATTA-TTTCATATTATTATTATCTAT
1 TATTATTTTCATA-TATTATTATCCAT
67499284 TATATATTTTCATATATTATTATTCACAT
1 TAT-TATTTTCATATATTATTA-TC-CAT
*
67499313 TATTATTTTTATAT
1 TATTATTTTCATAT
67499327 CTAATTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 3 0.08
27 10 0.27
28 19 0.51
29 5 0.14
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (26 bp):
TATTATTTTCATATATTATTATCCAT
Found at i:67499765 original size:20 final size:20
Alignment explanation
Indices: 67499740--67499778 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
67499730 TTTAAATATA
67499740 TGTTGAATTACATGTTTATG
1 TGTTGAATTACATGTTTATG
67499760 TGTTGAATTACATGTTTAT
1 TGTTGAATTACATGTTTAT
67499779 TTCTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (20 bp):
TGTTGAATTACATGTTTATG
Found at i:67511339 original size:16 final size:16
Alignment explanation
Indices: 67511315--67511346 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67511305 GGGTAGTTTA
67511315 GATAATATTTTATTTT
1 GATAATATTTTATTTT
*
67511331 GATATTATTTTATTTT
1 GATAATATTTTATTTT
67511347 TGAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
GATAATATTTTATTTT
Found at i:67515020 original size:65 final size:65
Alignment explanation
Indices: 67514919--67515065 Score: 206
Period size: 65 Copynumber: 2.3 Consensus size: 65
67514909 TGCAACTACA
* * *
67514919 GCAGCTCTTTATGAGCGTCCTGCTTATTGATTGGTTGTGATCCTACATATGTTGCAGACACAAAC
1 GCAGCTCTTTATGAGCGTCCTACTTATCGATAGGTTGTGATCCTACATATGTTGCAGACACAAAC
* * * **
67514984 GCAGCTCTTTGTGAGTGTCCTAC-TATACGATAGGTTGTGATCCTGCATATGTTGTGGACACAAA
1 GCAGCTCTTTATGAGCGTCCTACTTAT-CGATAGGTTGTGATCCTACATATGTTGCAGACACAAA
67515048 C
65 C
67515049 GCAGCTCTTTATGAGCG
1 GCAGCTCTTTATGAGCG
67515066 GCCCAATATG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 3 0.04
65 68 0.96
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (65 bp):
GCAGCTCTTTATGAGCGTCCTACTTATCGATAGGTTGTGATCCTACATATGTTGCAGACACAAAC
Found at i:67523295 original size:26 final size:26
Alignment explanation
Indices: 67523266--67523317 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
67523256 CTGGTATGTT
67523266 AGTTTTTATGCTAACCTTTATGATAA
1 AGTTTTTATGCTAACCTTTATGATAA
67523292 AGTTTTTATGCTAACCTTTATGATAA
1 AGTTTTTATGCTAACCTTTATGATAA
67523318 CGAGTTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (26 bp):
AGTTTTTATGCTAACCTTTATGATAA
Found at i:67524869 original size:17 final size:17
Alignment explanation
Indices: 67524847--67524882 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
67524837 ATAAGTATAC
*
67524847 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
67524864 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
67524881 AT
1 AT
67524883 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:67524893 original size:16 final size:17
Alignment explanation
Indices: 67524847--67524893 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
67524837 ATAAGTATAC
*
67524847 ATTGTCATTGCATTTTT
1 ATTGTCAGTGCATTTTT
* *
67524864 ATTGTCATTACATTTTT
1 ATTGTCAGTGCATTTTT
*
67524881 A-TGTTAGTGCATT
1 ATTGTCAGTGCATT
67524894 GGGGCAATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (17 bp):
ATTGTCAGTGCATTTTT
Found at i:67525432 original size:15 final size:15
Alignment explanation
Indices: 67525412--67525442 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
67525402 CCTTATTCTG
67525412 AAAAAATATATAAAT
1 AAAAAATATATAAAT
67525427 AAAAAATATATAAAT
1 AAAAAATATATAAAT
67525442 A
1 A
67525443 CTTAGTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATATATAAAT
Found at i:67527362 original size:17 final size:19
Alignment explanation
Indices: 67527340--67527382 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
67527330 ATATTGTCAC
67527340 AAATTTGAA-AT-TAGTTT
1 AAATTTGAATATCTAGTTT
*
67527357 AAATTT-AATCTCTAGTTT
1 AAATTTGAATATCTAGTTT
67527375 AAATTTGA
1 AAATTTGA
67527383 TTTTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.09
17 7 0.32
18 12 0.55
19 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (19 bp):
AAATTTGAATATCTAGTTT
Found at i:67530739 original size:40 final size:40
Alignment explanation
Indices: 67530663--67530747 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
67530653 TGAAAAATGC
* *
67530663 CGCTAAAGAACGAGCATTAGCGGCGCTTCTCCAAAAACGT
1 CGCTAAAGAACGAGCATTAGCGGCACTTCTCAAAAAACGT
* * * *
67530703 GGCTAAAGAACGAGCATTAGTGGTACTT-TATAAAAAACGT
1 CGCTAAAGAACGAGCATTAGCGGCACTTCT-CAAAAAACGT
67530743 CGCTA
1 CGCTA
67530748 TAGGTTCACC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (40 bp):
CGCTAAAGAACGAGCATTAGCGGCACTTCTCAAAAAACGT
Found at i:67531163 original size:40 final size:40
Alignment explanation
Indices: 67531102--67531196 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
67531092 CCTTAGTGGC
*
67531102 ATTAGCGGCGTTTTTCAG-AAAACGCCTCTATAAGTAGAGT
1 ATTAGCGGCGTTTTTCAGAAAAACGCCGCTATAAGT-GAGT
* ** *
67531142 ATTAGTGGCGTTTTTTTGAAAAACGCCGCTATAGGTGAGT
1 ATTAGCGGCGTTTTTCAGAAAAACGCCGCTATAAGTGAGT
*
67531182 ATTAGCGGCGGTTTT
1 ATTAGCGGCGTTTTT
67531197 AAACGCGCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 32 0.68
41 15 0.32
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
ATTAGCGGCGTTTTTCAGAAAAACGCCGCTATAAGTGAGT
Found at i:67531570 original size:15 final size:15
Alignment explanation
Indices: 67531549--67531587 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
67531539 AATATTTTAA
67531549 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
*
67531564 TGTTTAGGGATTATG
1 GGTTTAGGGATTATG
67531579 GGTTTAGGG
1 GGTTTAGGG
67531588 GTTGTGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:67531656 original size:15 final size:16
Alignment explanation
Indices: 67531622--67531661 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
67531612 AGTGGGTAGG
67531622 GGTTAAGGGTTTTAAC
1 GGTTAAGGGTTTTAAC
* *
67531638 GGTTATGGG-TTTAAT
1 GGTTAAGGGTTTTAAC
67531653 GGTTAAGGG
1 GGTTAAGGG
67531662 GACATGGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.23, C:0.03, G:0.38, T:0.38
Consensus pattern (16 bp):
GGTTAAGGGTTTTAAC
Found at i:67531877 original size:30 final size:30
Alignment explanation
Indices: 67531841--67531905 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
67531831 CAGGGGTTAT
* * *
67531841 GGGTTATGGGTTTAAAGGGA-TAGGTTTTAG
1 GGGTTATAGGATTAAAGGGACAAGG-TTTAG
67531871 GGGTTATAGGATTAAAGGGACAAGGTTTAG
1 GGGTTATAGGATTAAAGGGACAAGGTTTAG
67531901 GGGTT
1 GGGTT
67531906 GTTTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.40, T:0.32
Consensus pattern (30 bp):
GGGTTATAGGATTAAAGGGACAAGGTTTAG
Found at i:67531967 original size:27 final size:26
Alignment explanation
Indices: 67531941--67532034 Score: 136
Period size: 26 Copynumber: 3.6 Consensus size: 26
67531931 TCAAAATTCA
67531941 AAGATTTCAAA-TTTAGAATAATTTTC
1 AAGATTTCAAATTTTA-AATAATTTTC
* *
67531967 AAGAATTAAAATTTTAAATAATTTTC
1 AAGATTTCAAATTTTAAATAATTTTC
67531993 AAGATTTCAAATTTTAAATAATTTTC
1 AAGATTTCAAATTTTAAATAATTTTC
* *
67532019 AATATTTCAAAATTTA
1 AAGATTTCAAATTTTA
67532035 TCTAATTCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 57 0.93
27 4 0.07
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (26 bp):
AAGATTTCAAATTTTAAATAATTTTC
Found at i:67532687 original size:13 final size:13
Alignment explanation
Indices: 67532669--67532701 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
67532659 ACATTAGGTC
67532669 TTTCCCCTAAAAT
1 TTTCCCCTAAAAT
*
67532682 TTTCCCTTAAAAT
1 TTTCCCCTAAAAT
67532695 TTTCCCC
1 TTTCCCC
67532702 CTAACCCCAA
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:0.24, C:0.33, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTCCCCTAAAAT
Found at i:67532787 original size:27 final size:28
Alignment explanation
Indices: 67532757--67532812 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
67532747 TCGCTGGACC
*
67532757 CGACCATCTGTTGCATCACCATCG-ACT
1 CGACCATCTGCTGCATCACCATCGTACT
* *
67532784 CGACCATCTGCTGCGTCACCGTCGTACT
1 CGACCATCTGCTGCATCACCATCGTACT
67532812 C
1 C
67532813 ATCTGCTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.18, C:0.39, G:0.18, T:0.25
Consensus pattern (28 bp):
CGACCATCTGCTGCATCACCATCGTACT
Found at i:67534383 original size:67 final size:67
Alignment explanation
Indices: 67534275--67534412 Score: 267
Period size: 67 Copynumber: 2.1 Consensus size: 67
67534265 CTCAATTTAT
67534275 AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
1 AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
67534340 AA
66 AA
*
67534342 AATGGCAAACCACATAGACATCTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
1 AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
67534407 AA
66 AA
67534409 AATG
1 AATG
67534413 CAGGTGTATG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (67 bp):
AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
AA
Found at i:67535137 original size:29 final size:29
Alignment explanation
Indices: 67535105--67535170 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
67535095 TAATTTGGAT
67535105 TAATTTATT-TAAATATTATTAAATTAATA
1 TAATTT-TTATAAATATTATTAAATTAATA
* *
67535134 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTAAATTAATA
*
67535163 TATTTTTT
1 TAATTTTT
67535171 TTCCATCTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTAAATTAATA
Found at i:67535161 original size:15 final size:15
Alignment explanation
Indices: 67535107--67535166 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
67535097 ATTTGGATTA
*
67535107 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
67535122 ATTAAATTAATATAATT
1 ATTTAATTAA-AT-ATT
67535139 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
67535151 ATTTAATTAAAATATT
1 ATTTAATT-AAATATT
67535167 TTTTTTCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
12 3 0.08
13 5 0.14
14 4 0.11
15 10 0.28
16 11 0.31
17 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:67535457 original size:9 final size:9
Alignment explanation
Indices: 67535440--67535571 Score: 174
Period size: 9 Copynumber: 14.7 Consensus size: 9
67535430 TATATACTTG
67535440 AACTTACAT
1 AACTTACAT
*
67535449 AACTAACAT
1 AACTTACAT
*
67535458 AAGTTACAT
1 AACTTACAT
*
67535467 AACTTATAT
1 AACTTACAT
67535476 AACTTACAT
1 AACTTACAT
67535485 AACTTACAT
1 AACTTACAT
* *
67535494 AGCTCACAT
1 AACTTACAT
* *
67535503 AACTCACGT
1 AACTTACAT
* *
67535512 AACTCATAT
1 AACTTACAT
67535521 AACTTACAT
1 AACTTACAT
67535530 AACTTACAT
1 AACTTACAT
*
67535539 AACTCACAT
1 AACTTACAT
67535548 AACTTACAT
1 AACTTACAT
67535557 AACTTACAT
1 AACTTACAT
67535566 AACTTA
1 AACTTA
67535572 TTTATACTTA
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 107 1.00
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:67540609 original size:13 final size:14
Alignment explanation
Indices: 67540593--67540621 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
67540583 TTATAAATAT
67540593 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
67540606 TTATAATGGTTTAA
1 TTATAATGGTTTAA
67540620 TT
1 TT
67540622 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:67541082 original size:21 final size:21
Alignment explanation
Indices: 67541023--67541088 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
67541013 ACAACTTAGA
* * *
67541023 GCAGAGGCAGTAGAGAAGAAG
1 GCAGCGGCAGCAGAGAGGAAG
*
67541044 GCAGCGGCAGCA-ACGAGGTAG
1 GCAGCGGCAGCAGA-GAGGAAG
*
67541065 GCAGCGGCAGCAGAGAGGGAG
1 GCAGCGGCAGCAGAGAGGAAG
67541086 GCA
1 GCA
67541089 AAGGTAGTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
GCAGCGGCAGCAGAGAGGAAG
Found at i:67541395 original size:31 final size:31
Alignment explanation
Indices: 67541349--67541407 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
67541339 CAGTTGTATT
67541349 TTTTAAGCTAAATTTGCTGTTTTTGGTTTCA
1 TTTTAAGCTAAATTTGCTGTTTTTGGTTTCA
* *
67541380 TTTTATGCTATATTTGCTGTTTTTGGTT
1 TTTTAAGCTAAATTTGCTGTTTTTGGTT
67541408 GGATTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.15, C:0.08, G:0.17, T:0.59
Consensus pattern (31 bp):
TTTTAAGCTAAATTTGCTGTTTTTGGTTTCA
Found at i:67545740 original size:25 final size:25
Alignment explanation
Indices: 67545712--67545778 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
67545702 TTTCTGTCAT
** *
67545712 GTATGCTCATACGAGCTACGAGTCG
1 GTATGCTTTTACGAGCTACGAATCG
*
67545737 GTATGCTTTTACGAGCTATGAATCG
1 GTATGCTTTTACGAGCTACGAATCG
67545762 GTATGCTTTTACGAGCT
1 GTATGCTTTTACGAGCT
67545779 GTAATCGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (25 bp):
GTATGCTTTTACGAGCTACGAATCG
Found at i:67551177 original size:17 final size:16
Alignment explanation
Indices: 67551138--67551179 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
67551128 TATATTTCAT
*
67551138 TATATT-TTATTTATA
1 TATATTATTACTTATA
*
67551153 TATGTTATTACTTATCA
1 TATATTATTACTTAT-A
67551170 TATATTATTA
1 TATATTATTA
67551180 TATATTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 10 0.45
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATTATTACTTATA
Found at i:67551182 original size:10 final size:10
Alignment explanation
Indices: 67551121--67551188 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
67551111 ATATTTATTG
67551121 TATTATT-TA
1 TATTATTATA
67551130 TATTTCATTATA
1 TA-TT-ATTATA
*
67551142 TTTTATT-TA
1 TATTATTATA
*
67551151 TATATGTTAT-
1 TAT-TATTATA
*
67551161 TACTTATCATA
1 TA-TTATTATA
67551172 TATTATTATA
1 TATTATTATA
67551182 TATTATT
1 TATTATT
67551189 CCCTATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
9 6 0.13
10 28 0.61
11 9 0.20
12 3 0.07
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:67554420 original size:39 final size:40
Alignment explanation
Indices: 67554375--67554559 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 40
67554365 GCTCCTCGTT
* *
67554375 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* ** * *
67554415 C-AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* * * *
67554454 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* * * * * *
67554494 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CA
*
67554535 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
67554560 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
39 37 0.31
40 72 0.61
41 9 0.08
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
Found at i:67554475 original size:40 final size:39
Alignment explanation
Indices: 67554377--67554483 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
67554367 TCCTCGTTCA
* **
67554377 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
* *
67554416 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
* *
67554455 GAATGCCTTTGGGACTTAACCCGGATTTA
1 -AATGCCTTCGGGACATAACCCGGATTTA
67554484 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 34 0.57
40 26 0.43
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
Found at i:67554549 original size:80 final size:78
Alignment explanation
Indices: 67554375--67554559 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 78
67554365 GCTCCTCGTT
* *
67554375 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
* *
67554440 TTTAACAATTCGCA
65 TATAACAATTAGCA
* * * * * * *
67554454 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCG
* *
67554518 GATATATTCACTTAGCA
63 GATATA-ACAATTAGCA
67554535 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
67554560 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
79 35 0.41
80 43 0.50
81 8 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
ATAACAATTAGCA
Found at i:67562343 original size:40 final size:39
Alignment explanation
Indices: 67562245--67562467 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
67562235 TCCTCGTTCA
* * ** * *
67562245 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
67562284 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
67562323 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
67562363 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
67562403 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
67562444 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
67562468 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:67562401 original size:80 final size:79
Alignment explanation
Indices: 67562243--67562467 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
67562233 GCTCCTCGTT
* * ** * *
67562243 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
67562308 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
67562322 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
67562387 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
67562402 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
67562465 GGA
63 GGA
67562468 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:67562467 original size:120 final size:119
Alignment explanation
Indices: 67562245--67562467 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
67562235 TCCTCGTTCA
* * *
67562245 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
67562310 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
67562364 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
67562428 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
67562468 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:67574598 original size:40 final size:40
Alignment explanation
Indices: 67574521--67574599 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
67574511 AAAAATAGCA
* * ** * *
67574521 GATTTGGTATCTCTGTATTGTCAGAGAGTAGATCGAAGAT
1 GATTTGGCATCTCAGTATTGTCAGAGAACAAAGCGAAGAT
*
67574561 GATTTGGCATCTCAGTATTGTCAGGGAACAAAGCGAAGA
1 GATTTGGCATCTCAGTATTGTCAGAGAACAAAGCGAAGA
67574600 AGCAAATTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (40 bp):
GATTTGGCATCTCAGTATTGTCAGAGAACAAAGCGAAGAT
Found at i:67576487 original size:17 final size:18
Alignment explanation
Indices: 67576440--67576532 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 18
67576430 TATAAAATAG
67576440 TATATATTATT-T-TTA-
1 TATATATTATTATATTAT
*
67576455 TATATTATCCATTATATTAT
1 TATA-TAT-TATTATATTAT
**
67576475 T-TATATTATTATACAAT
1 TATATATTATTATATTAT
* *
67576492 T-TAT-TTATAAATTTTAT
1 TATATATTAT-TATATTAT
*
67576509 TATATATTA-TATGTTAT
1 TATATATTATTATATTAT
67576526 TATATAT
1 TATATAT
67576533 ACTATTCCTA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
15 4 0.07
16 7 0.12
17 33 0.55
18 7 0.12
19 8 0.13
20 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
TATATATTATTATATTAT
Found at i:67576727 original size:17 final size:16
Alignment explanation
Indices: 67576688--67576729 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
67576678 TATATTTCAT
*
67576688 TATATT-TTATTTATA
1 TATATTATTACTTATA
*
67576703 TATTTTATTACTTATCA
1 TATATTATTACTTAT-A
67576720 TATATTATTA
1 TATATTATTA
67576730 TATATTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 10 0.45
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTATTACTTATA
Found at i:67576732 original size:10 final size:10
Alignment explanation
Indices: 67576671--67576738 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
67576661 ATATTTATTG
67576671 TATTATT-TA
1 TATTATTATA
67576680 TATTTCATTATA
1 TA-TT-ATTATA
*
67576692 TTTTATTTATA
1 TATTA-TTATA
67576703 TATT-TTAT-
1 TATTATTATA
*
67576711 TACTTATCATA
1 TA-TTATTATA
67576722 TATTATTATA
1 TATTATTATA
67576732 TATTATT
1 TATTATT
67576739 CCCTATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 2 0.04
9 8 0.17
10 20 0.42
11 15 0.31
12 3 0.06
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTATTATA
Found at i:67576816 original size:202 final size:198
Alignment explanation
Indices: 67576469--67576838 Score: 443
Period size: 202 Copynumber: 1.8 Consensus size: 198
67576459 TTATCCATTA
* *
67576469 TATTATTTATATTATTATACAATTTATTTATAAATTTTATTATATATTATATGTTATTATATATA
1 TATTATTTATATTATTATA-AATTTATTTATAAATTTTATTATATATCATATATTATTATATATA
* * *
67576534 CTATTCCTAGTATTTTTATTTTATTATAAATTATGTATTATTTTATTATTCATTAATTGTCTAAA
65 -TATTCCTAGTATTTTTATTTTATTATAAATTATGTATTATTTTATTATTCATTAAGTATATAAA
*
67576599 ATTTTAAATATTTTAAAATTATTATTAAA-TAATAGTATATATGTACTATCCTTATTTATATGAT
129 ATATTAAATATTTT-AAATTATTA-TAAATTAATA-TATATATGTACTATCCTTATTTATATGAT
67576663 ATTTATTG
191 ATTTATTG
* *
67576671 TATTATTTATATTTCATTAT-ATTTTATTTATATATTTTATTACT-TATCATATATTATTATATA
1 TATTATTTATA-TT-ATTATAAATTTATTTATAAATTTTATTA-TATATCATATATTATTATATA
* * *
67576734 T-TATTCCCTA-TATTATCTTCCTTTTATTATATATATTATTTCATTA-TTTATTATTTATT-AG
63 TATATT-CCTAGTATT-T-TT-ATTTTATTATA-A-ATTATGT-ATTATTTTATTATTCATTAAG
67576795 TATATAAAA-ATTAAA-ATTTTAAATTATTATAAATTAATATATAT
121 TATATAAAATATTAAATATTTTAAATTATTATAAATTAATATATAT
67576839 TGTTATTATA
Statistics
Matches: 146, Mismatches: 11, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
200 17 0.12
201 19 0.13
202 56 0.38
203 18 0.12
204 14 0.10
205 18 0.12
206 4 0.03
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (198 bp):
TATTATTTATATTATTATAAATTTATTTATAAATTTTATTATATATCATATATTATTATATATAT
ATTCCTAGTATTTTTATTTTATTATAAATTATGTATTATTTTATTATTCATTAAGTATATAAAAT
ATTAAATATTTTAAATTATTATAAATTAATATATATATGTACTATCCTTATTTATATGATATTTA
TTG
Found at i:67577009 original size:19 final size:20
Alignment explanation
Indices: 67576978--67577016 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
67576968 TTGCTCAATA
67576978 TATTTCA-TTTTTTATTTTT
1 TATTTCATTTTTTTATTTTT
67576997 TATTT-ATTGTTTTTATTTTT
1 TATTTCATT-TTTTTATTTTT
67577017 ATCCTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 6 0.33
20 11 0.61
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (20 bp):
TATTTCATTTTTTTATTTTT
Found at i:67582980 original size:12 final size:11
Alignment explanation
Indices: 67582929--67583024 Score: 72
Period size: 11 Copynumber: 8.8 Consensus size: 11
67582919 ATATATAGTG
*
67582929 TATAACATAATT
1 TATAA-ATAATA
* *
67582941 TACAAATAAAA
1 TATAAATAATA
*
67582952 TATATA-AATA
1 TATAAATAATA
*
67582962 TATAAATCATA
1 TATAAATAATA
67582973 TAATAAATAATA
1 T-ATAAATAATA
67582985 TATAAAT-ATA
1 TATAAATAATA
*
67582995 TAT-AATAAAA
1 TATAAATAATA
* *
67583005 TGTATATAATA
1 TATAAATAATA
*
67583016 TATATATAA
1 TATAAATAA
67583025 AAGAAAGAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
9 3 0.05
10 18 0.27
11 31 0.47
12 14 0.21
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (11 bp):
TATAAATAATA
Found at i:67582988 original size:23 final size:24
Alignment explanation
Indices: 67582958--67583003 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
67582948 AAAATATATA
67582958 AATATATAAAT-CATATAATAAAT
1 AATATATAAATACATATAATAAAT
*
67582981 AATATATAAATATATATAATAAA
1 AATATATAAATACATATAATAAA
67583004 ATGTATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATATATAAATACATATAATAAAT
Found at i:67583014 original size:31 final size:31
Alignment explanation
Indices: 67582950--67583025 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 31
67582940 TTACAAATAA
* *
67582950 AATATATAAATATATAAATCATATAATAAAT
1 AATATATAAATATATAAATAAAATAATAAAT
*
67582981 AATATATAAATATATATAATAAAATGTATATAAT
1 AATATATAAATATATA-AATAAAAT-AATA-AAT
67583015 ATATATATAAA
1 A-ATATATAAA
67583026 AGAAAGAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 16 0.42
32 6 0.16
33 3 0.08
34 4 0.11
35 9 0.24
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (31 bp):
AATATATAAATATATAAATAAAATAATAAAT
Found at i:67583016 original size:29 final size:28
Alignment explanation
Indices: 67582945--67583023 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
67582935 ATAATTTACA
67582945 AATAAAA-TATATAAATATATAA-ATCATAT
1 AATAAAATTATAT-AATATA-AATAT-ATAT
67582974 AAT-AAA-TA-AT-ATATAAATATATAT
1 AATAAAATTATATAATATAAATATATAT
*
67582998 AATAAAATGTATATAATATATATATA
1 AATAAAAT-TATATAATATAAATATA
67583024 AAAGAAAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
24 9 0.21
25 10 0.23
27 4 0.09
28 7 0.16
29 13 0.30
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (28 bp):
AATAAAATTATATAATATAAATATATAT
Found at i:67583019 original size:23 final size:23
Alignment explanation
Indices: 67582958--67583026 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
67582948 AAAATATATA
67582958 AATATATAAATCATATAAT-AAAT
1 AATATATAAAT-ATATAATAAAAT
67582981 AATATATAAATATAT-ATAATAA-
1 AATATATAAATATATAATAA-AAT
*
67583003 AATGTATATAATATATATATAAAA
1 AATATATA-AATATATA-ATAAAA
67583027 GAAAGAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 2 0.05
22 12 0.30
23 20 0.50
24 2 0.05
25 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (23 bp):
AATATATAAATATATAATAAAAT
Found at i:67583068 original size:17 final size:17
Alignment explanation
Indices: 67583048--67583100 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
67583038 ATTATAATGA
67583048 ATAATATATAATAAAAT
1 ATAATATATAATAAAAT
*
67583065 ATAATATGTAATAAAA-
1 ATAATATATAATAAAAT
* *
67583081 AT-ATGTA-GATAAAAT
1 ATAATATATAATAAAAT
67583096 ATAAT
1 ATAAT
67583101 GAAATATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.20
15 5 0.17
16 4 0.13
17 15 0.50
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAATATATAATAAAAT
Found at i:67583186 original size:17 final size:15
Alignment explanation
Indices: 67583159--67583262 Score: 70
Period size: 16 Copynumber: 6.9 Consensus size: 15
67583149 TATTTTACAT
67583159 ATAAAAATATAGTAAA
1 ATAAAAATATA-TAAA
*
67583175 ATAAATAATATATATA
1 ATAAA-AATATATAAA
*
67583191 ATAAAAATATATAAC
1 ATAAAAATATATAAA
* *
67583206 AT-ATAATATA-AAT
1 ATAAAAATATATAAA
* * *
67583219 ATAAATATA-ACAGA
1 ATAAAAATATATAAA
*
67583233 ATAAATAATATACAAA
1 ATAAA-AATATATAAA
*
67583249 ACAAAAAATATATA
1 A-TAAAAATATATA
67583263 TATATGATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
13 5 0.07
14 17 0.25
15 13 0.19
16 25 0.36
17 9 0.13
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (15 bp):
ATAAAAATATATAAA
Found at i:67583189 original size:29 final size:28
Alignment explanation
Indices: 67583157--67583244 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
67583147 AGTATTTTAC
67583157 ATATAAAAATATAGTAAAATAAATAATAT
1 ATATAAAAATATA-TAAAATAAATAATAT
* * * *
67583186 ATATAATAAAAATATATAACATATAATAT
1 ATATAA-AAATATATAAAATAAATAATAT
* *
67583215 AAATATAAATATA-ACAGAATAAATAATAT
1 ATATAAAAATATATA-A-AATAAATAATAT
67583244 A
1 A
67583245 CAAAACAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.02
28 6 0.13
29 33 0.72
30 6 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
ATATAAAAATATATAAAATAAATAATAT
Found at i:67583204 original size:22 final size:22
Alignment explanation
Indices: 67583172--67583227 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
67583162 AAAATATAGT
*
67583172 AAAATAAATAATATATATAATA
1 AAAATATATAATATATATAATA
*
67583194 AAAATATAT-A-ACATATAATA
1 AAAATATATAATATATATAATA
*
67583214 TAAATATA-AATATA
1 AAAATATATAATATA
67583228 ACAGAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 17 0.61
21 3 0.11
22 8 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATATATAATATATATAATA
Found at i:67583216 original size:12 final size:13
Alignment explanation
Indices: 67583199--67583230 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
67583189 TAATAAAAAT
67583199 ATATAACATAT-A
1 ATATAACATATAA
67583211 ATATAA-ATATAA
1 ATATAACATATAA
67583223 ATATAACA
1 ATATAACA
67583231 GAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 13 0.72
13 1 0.06
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAACATATAA
Found at i:67583226 original size:58 final size:58
Alignment explanation
Indices: 67583068--67583262 Score: 137
Period size: 61 Copynumber: 3.3 Consensus size: 58
67583058 ATAAAATATA
* * * * * ** **
67583068 ATATGTAATAAAAATATGT-AGATAAAATAT-AAT-GAAATATAGTATGATAAGGAAT
1 ATATATAATAAAAATATATAACATATAATATAAATAAAAATATAGTAAAATAAATAAT
* * * *
67583123 ATATAGAATAATAATGATATAACA-AGTATTTTACATATAAAAATATAGTAAAATAAATAAT
1 ATATATAATAAAAAT-ATATAACATA-TAATATA-A-ATAAAAATATAGTAAAATAAATAAT
* ** *
67583184 ATATATAATAAAAATATATAACATATAATATAAATATAAATATAACAGAATAAATAAT
1 ATATATAATAAAAATATATAACATATAATATAAATAAAAATATAGTAAAATAAATAAT
* * *
67583242 ATACAAAACAAAAAATATATA
1 ATATATAA-TAAAAATATATA
67583263 TATATGATAA
Statistics
Matches: 107, Mismatches: 24, Indels: 14
0.74 0.17 0.10
Matches are distributed among these distances:
55 12 0.11
56 4 0.04
57 5 0.05
58 27 0.25
59 13 0.12
60 15 0.14
61 31 0.29
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (58 bp):
ATATATAATAAAAATATATAACATATAATATAAATAAAAATATAGTAAAATAAATAAT
Found at i:67583240 original size:24 final size:23
Alignment explanation
Indices: 67583181--67583266 Score: 61
Period size: 25 Copynumber: 3.6 Consensus size: 23
67583171 TAAAATAAAT
*
67583181 AATATATATAATAAAAATATATAACA
1 AATA-ATATAAT-ATAA-ATATAACA
*
67583207 TATAATATAAATATAAATATAACA
1 AATAATAT-AATATAAATATAACA
*
67583231 GAATAA-ATAATATACA-A-AACA
1 -AATAATATAATATAAATATAACA
*
67583252 AAAAATATATATATA
1 AATAATATA-ATATA
67583267 TGATAAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.08
21 7 0.14
22 6 0.12
23 7 0.14
24 10 0.20
25 11 0.22
26 6 0.12
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (23 bp):
AATAATATAATATAAATATAACA
Found at i:67584899 original size:78 final size:78
Alignment explanation
Indices: 67584787--67585416 Score: 931
Period size: 78 Copynumber: 8.1 Consensus size: 78
67584777 CGATATCTGC
* * *
67584787 TGTCTTTGCTCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
*
67584852 GTCCA-ATCTGTTA
66 GT-CAGATCTGCTA
** *
67584865 TGTCTTTAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATGTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
*
67584930 GTCCA-ATCTGTTA
66 GT-CAGATCTGCTA
* * *
67584943 TGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCGGTTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
67585008 GTCAGATCTGCTA
66 GTCAGATCTGCTA
* * *
67585021 TGTCTTCGATTTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
67585086 GTCAGATCTGCTA
66 GTCAGATCTGCTA
* *
67585099 TGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGGAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
67585164 GTCAGATCTGCTA
66 GTCAGATCTGCTA
* * **
67585177 TGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
*
67585242 GTCAGATCTGCTG
66 GTCAGATCTGCTA
* * *
67585255 TGTCTTCGATCTACTTCCCGTCTAATACAGAGACGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
* *
67585320 GTCAGATCTACTG
66 GTCAGATCTGCTA
* * * * * *
67585333 TGTCTTCAATCTGCTTCCTGTCTAATACAAAGATGCCAAATCATCTTGGATCTACTTTAATGAAG
1 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
*
67585398 GTCTGATCTGCTA
66 GTCAGATCTGCTA
67585411 TGTCTT
1 TGTCTT
67585417 AGCCTGTTAC
Statistics
Matches: 508, Mismatches: 43, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
77 2 0.00
78 506 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
GTCAGATCTGCTA
Found at i:67585738 original size:30 final size:30
Alignment explanation
Indices: 67585702--67585762 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
67585692 TGACCCACCA
67585702 AAAATGTCTGTAAGATGATCCTCTCTTAGG
1 AAAATGTCTGTAAGATGATCCTCTCTTAGG
67585732 AAAATGTCTGTAAGATGATCCTCTCTTAGG
1 AAAATGTCTGTAAGATGATCCTCTCTTAGG
67585762 A
1 A
67585763 TCGAATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (30 bp):
AAAATGTCTGTAAGATGATCCTCTCTTAGG
Found at i:67586394 original size:54 final size:55
Alignment explanation
Indices: 67586312--67586449 Score: 233
Period size: 55 Copynumber: 2.5 Consensus size: 55
67586302 CCTTTGGTCA
*
67586312 CAAGGCGCCCTTTGCAGGTTTTCACCTTGGCCTCTCCA-ATTTTTTTCGAAAACT
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATATTTTTTTCGAAAACT
* * *
67586366 CAAGGCGTCCTTTGTGGGTTTTCACCTTGGCCTCTCCATTTTTTTTTCGAAAACT
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATATTTTTTTCGAAAACT
67586421 CAAGGCGCCCTTTGCGGGTTTTCACCTTG
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTG
67586450 AATTCTCCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 35 0.45
55 42 0.55
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (55 bp):
CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATATTTTTTTCGAAAACT
Found at i:67597444 original size:17 final size:15
Alignment explanation
Indices: 67597417--67597459 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
67597407 TATTTTACAT
67597417 ATAAAAATATAGTAGA
1 ATAAAAATATA-TAGA
*
67597433 ATAAATAATATATATA
1 ATAAA-AATATATAGA
67597449 ATAAAAATATA
1 ATAAAAATATA
67597460 AATATAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAAAAATATATAGA
Found at i:67597448 original size:21 final size:20
Alignment explanation
Indices: 67597423--67597482 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 20
67597413 ACATATAAAA
67597423 ATATAGTAGAATAAATAATAT
1 ATATA-TAGAATAAATAATAT
67597444 ATATAATA-AA-AATATAA-AT
1 ATAT-ATAGAATAA-ATAATAT
*
67597463 ATA-ACAGAATAAATAATAT
1 ATATATAGAATAAATAATAT
67597482 A
1 A
67597483 CAAAACAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
19 12 0.36
20 6 0.18
21 6 0.18
22 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
ATATATAGAATAAATAATAT
Found at i:67597466 original size:17 final size:16
Alignment explanation
Indices: 67597417--67597466 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
67597407 TATTTTACAT
* *
67597417 ATAAAAATATAGTAGA
1 ATAAAAATATAATATA
67597433 ATAAATAATAT-ATATA
1 ATAAA-AATATAATATA
67597449 ATAAAAATATAAATATA
1 ATAAAAATAT-AATATA
67597466 A
1 A
67597467 CAGAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 5 0.17
16 13 0.45
17 11 0.38
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAAAAATATAATATA
Found at i:67597493 original size:38 final size:39
Alignment explanation
Indices: 67597421--67597503 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 39
67597411 TTACATATAA
** * * *
67597421 AAATATAGTAGAATAAATAATATATATAA-TAAAAATAT
1 AAATATAACAGAATAAATAATATACAAAACAAAAAATAT
67597459 AAATATAACAGAATAAATAATATACAAAACAAAAAATAT
1 AAATATAACAGAATAAATAATATACAAAACAAAAAATAT
*
67597498 ATATAT
1 AAATAT
67597504 GATGAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
38 25 0.66
39 13 0.34
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (39 bp):
AAATATAACAGAATAAATAATATACAAAACAAAAAATAT
Found at i:67601088 original size:27 final size:27
Alignment explanation
Indices: 67601047--67601153 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
67601037 GAGGAAGCGT
*
67601047 CCTGGTGGCTATGCCACAATTATCTGA
1 CCTGGTGGCTCTGCCACAATTATCTGA
* *
67601074 CCTGGTGGCTCTGCCACATACT-TCTGT
1 CCTGGTGGCTCTGCCACA-ATTATCTGA
* *
67601101 TCTGGTGGCTCTGCCACGATTATCTGTA
1 CCTGGTGGCTCTGCCACAATTATCTG-A
* * *
67601129 TCTGGTGACTCTGTCAC-ATTATCTG
1 CCTGGTGGCTCTGCCACAATTATCTG
67601154 TTCTGGCAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (27 bp):
CCTGGTGGCTCTGCCACAATTATCTGA
Found at i:67601154 original size:54 final size:53
Alignment explanation
Indices: 67601048--67601159 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
67601038 AGGAAGCGTC
*
67601048 CTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATACTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGACCTGGTGACTCTGCCACATAC-TCTGTT
* * * *
67601102 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTA-TCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ACCTGGTGACTCTGCCACA-TACTCTGTT
67601156 CTGG
1 CTGG
67601160 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 33 0.65
55 16 0.31
56 2 0.04
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGACCTGGTGACTCTGCCACATACTCTGTT
Found at i:67604383 original size:23 final size:23
Alignment explanation
Indices: 67604341--67604417 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
67604331 TTCCGAGCTG
* *
67604341 AACAGTAAGCT-CTATGGAGCTGA
1 AACAGTAAGCTCCAAT-GAGCTAA
**
67604364 AATGGTAAGCTCCAATGAGCTAA
1 AACAGTAAGCTCCAATGAGCTAA
67604387 AACAGTAAGCTCCAATGAGCTAA
1 AACAGTAAGCTCCAATGAGCTAA
67604410 AACAGTAA
1 AACAGTAA
67604418 ACTCTTACGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 44 0.94
24 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (23 bp):
AACAGTAAGCTCCAATGAGCTAA
Found at i:67604429 original size:23 final size:23
Alignment explanation
Indices: 67604368--67604431 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
67604358 AGCTGAAATG
* *
67604368 GTAAGCTCCAATGAGCTAAAACA
1 GTAAACTCCAACGAGCTAAAACA
* *
67604391 GTAAGCTCCAATGAGCTAAAACA
1 GTAAACTCCAACGAGCTAAAACA
**
67604414 GTAAACTCTTACGAGCTA
1 GTAAACTCCAACGAGCTA
67604432 TAGTGAGTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (23 bp):
GTAAACTCCAACGAGCTAAAACA
Found at i:67607829 original size:6 final size:6
Alignment explanation
Indices: 67607815--67607844 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
67607805 TAGTCCCAAC
*
67607815 TTTTGT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
67607845 GACTTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:67611054 original size:11 final size:11
Alignment explanation
Indices: 67611038--67611068 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
67611028 CTTACTTGAT
67611038 ATATGAAATTG
1 ATATGAAATTG
67611049 ATATGAAATTG
1 ATATGAAATTG
*
67611060 GTATGAAAT
1 ATATGAAAT
67611069 GAGTTGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (11 bp):
ATATGAAATTG
Found at i:67611361 original size:43 final size:43
Alignment explanation
Indices: 67611314--67611400 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
67611304 TGGTGCTCTA
*
67611314 TGTGTGTGCCAGTATAACTACTTTCGTATATCTGATGATGCAC
1 TGTGTGTGCCAGTAAAACTACTTTCGTATATCTGATGATGCAC
* * * *
67611357 TGTGTGTGCCAGTAAAATTGCTTTGGTATATCTGATGGTGCAC
1 TGTGTGTGCCAGTAAAACTACTTTCGTATATCTGATGATGCAC
67611400 T
1 T
67611401 TTGTCACACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (43 bp):
TGTGTGTGCCAGTAAAACTACTTTCGTATATCTGATGATGCAC
Found at i:67612652 original size:26 final size:27
Alignment explanation
Indices: 67612622--67612689 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
67612612 GGCATTACCA
* *
67612622 TTAATGTAGAAGTCCATCACGACGATC
1 TTAATGTGGAAGTCCATCAAGACGATC
* * *
67612649 -TAATATGGAATTCTATCAAGACGATC
1 TTAATGTGGAAGTCCATCAAGACGATC
67612675 TTAACTGTGGAAGTC
1 TTAA-TGTGGAAGTC
67612690 TGCTAGAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 21 0.66
27 3 0.09
28 8 0.25
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (27 bp):
TTAATGTGGAAGTCCATCAAGACGATC
Found at i:67615210 original size:6 final size:6
Alignment explanation
Indices: 67615194--67615227 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
67615184 TAGGTTTCCA
* *
67615194 AAAATG GAAATG AAAATG AAAATT AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
67615228 CTTGCAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:67615414 original size:26 final size:26
Alignment explanation
Indices: 67615368--67615441 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
67615358 ATGAATTTTC
* *
67615368 CAAAAGTTTACCAGGGATAAAATCAT
1 CAAAATTTTATCAGGGATAAAATCAT
*
67615394 CAAAATTTTATCAGAGG-TAAAATTAT
1 CAAAATTTTATCAG-GGATAAAATCAT
*
67615420 CAAAATTTTAT-AGGGTTAAAAT
1 CAAAATTTTATCAGGGATAAAAT
67615442 TGGGGTGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.05
25 8 0.19
26 31 0.72
27 2 0.05
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (26 bp):
CAAAATTTTATCAGGGATAAAATCAT
Found at i:67615818 original size:33 final size:33
Alignment explanation
Indices: 67615777--67615842 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
67615767 CAACTTTTGA
67615777 GAGATTGTTATTCTGCCAAAAAATAGAAAGAAT
1 GAGATTGTTATTCTGCCAAAAAATAGAAAGAAT
*
67615810 GAGATTGTTATTCTGCCAAAAAATAGAGAGAAT
1 GAGATTGTTATTCTGCCAAAAAATAGAAAGAAT
67615843 TTATTCTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (33 bp):
GAGATTGTTATTCTGCCAAAAAATAGAAAGAAT
Found at i:67617670 original size:80 final size:80
Alignment explanation
Indices: 67617537--67617695 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 80
67617527 ACTACGAACA
* ** *
67617537 CTTCAATGTTGCTCCAAAATGGTTGATGAACACCCCTTTTCCAAGGGAAGAAATTGGGAAGAAAG
1 CTTCAATGTTGCTCCAAAATGGCTGATGAACACCCCTTTTCCAAGGGAAGAAATCAGCAAGAAAG
67617602 AAAGAGAATTTAGAG
66 AAAGAGAATTTAGAG
* *
67617617 CTTCAATGTTGCTCCAAAATGGCTGATGAACACCCTTTTTCCAAGGGAAGAAATCAGCAAGAGAG
1 CTTCAATGTTGCTCCAAAATGGCTGATGAACACCCCTTTTCCAAGGGAAGAAATCAGCAAGAAAG
*
67617682 CAAGAGAATTTAGA
66 AAAGAGAATTTAGA
67617696 ATGGGAAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (80 bp):
CTTCAATGTTGCTCCAAAATGGCTGATGAACACCCCTTTTCCAAGGGAAGAAATCAGCAAGAAAG
AAAGAGAATTTAGAG
Found at i:67623117 original size:201 final size:200
Alignment explanation
Indices: 67622715--67623093 Score: 485
Period size: 201 Copynumber: 1.9 Consensus size: 200
67622705 GTCTTTACAG
*
67622715 TTTACATCTACCATAGTTACAGAATTCAATCTAATGAAAGTGAGTAGAATCATTCGAATATTCAA
1 TTTACATCTACCATAGTTACAGAATTCAATCTAATGAAAGTGAGTAGAATCATTCGAATATCCAA
* *
67622780 ACTGATCCTATAGGTCTGCCAAGAATAAGTTAGCAGGCAACTGTAAGAAAGTCAGAGTATATATG
66 ACTCATCCTATAGGTCTGCCAAGAATAAGTTAGCAGGCAACTGTAAGAAAGTCAGAGTATATAGG
* * * * *
67622845 ACAGTCCTCCAAGTTCATGTTAGGGACAATATGAGAGTATTCCTATATACTACTAAAATGCGTGA
131 AAAGCCCGCAAAGTTCATGTTAGGGACAATATGAGAGCATTCCTATATACTACTAAAATGCGTGA
67622910 ATGGT
196 ATGGT
* * ** * ** * *
67622915 TTTATATCTACCGTAGTTATGGAATTCAATCTAATGGAAGTGAGTAGAATTGTTTGCATATCCAA
1 TTTACATCTACCATAGTTACAGAATTCAATCTAATGAAAGTGAGTAGAATCATTCGAATATCCAA
* * * * * * *
67622980 ACCTCATTCTATTGGT-TCGCCAAGAATAAGTCTA-CTGGCAATTGTAAGGAAGTCATATTATAT
66 A-CTCATCCTATAGGTCT-GCCAAGAATAAGT-TAGCAGGCAACTGTAAGAAAGTCAGAGTATAT
67623043 AGGAAAGCCCGCAAAGGTT-ATGTTAGGGACAATATGAGAGCATTCCTATAT
128 AGGAAAGCCCGCAAA-GTTCATGTTAGGGACAATATGAGAGCATTCCTATAT
67623094 CCTATTGGAA
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
200 57 0.38
201 89 0.59
202 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (200 bp):
TTTACATCTACCATAGTTACAGAATTCAATCTAATGAAAGTGAGTAGAATCATTCGAATATCCAA
ACTCATCCTATAGGTCTGCCAAGAATAAGTTAGCAGGCAACTGTAAGAAAGTCAGAGTATATAGG
AAAGCCCGCAAAGTTCATGTTAGGGACAATATGAGAGCATTCCTATATACTACTAAAATGCGTGA
ATGGT
Found at i:67634142 original size:46 final size:47
Alignment explanation
Indices: 67633994--67634307 Score: 211
Period size: 46 Copynumber: 6.7 Consensus size: 47
67633984 TATGTGTGCT
* *
67633994 AGTGTAAGACATGTCTGGGACAT-GCATC-GACCTCGTGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-CCTC--GAGATGTAAGCC
* * * * * * * *
67634042 AGTGTAAGACATGTTTAGGACATGGCATCGGCATTGAAACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGTA-AGCC
* *
67634089 AGTGTAAGATATGTCTGGGACAT-GCATCCGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGTAAGCC
* * * *
67634135 AGTGTAAGACATGTCTGGGGCAT-GCATCAG-TTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCT-CGAGATGTAAGCC
* ** *
67634179 AGTGTAAGACTATGTCTGGGACATGGCGTCAGCCTCGATTTCG-ATAGTC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCAGCCTCGAGAT-GTA-AGCC
* *
67634228 AGTGTAAGACCATGTCTGGGACATGGCATC-GTCTTGACGAATG--AGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCGA-G-ATGTAAGCC
* * *
67634275 AGTGTAAGACCATATCTGGAACGTGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGC
67634308 ATTACACCCT
Statistics
Matches: 211, Mismatches: 39, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.06
45 13 0.06
46 59 0.28
47 59 0.28
48 27 0.13
49 38 0.18
50 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGTAAGCC
Found at i:67634293 original size:47 final size:45
Alignment explanation
Indices: 67633994--67634304 Score: 199
Period size: 47 Copynumber: 6.6 Consensus size: 45
67633984 TATGTGTGCT
* *
67633994 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGTGA-TATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-CCT--TGACGA--TGAGCC
* * * *
67634042 AGTGTAAGACATGTTTAGGACATGGCATCGGCATTGAAACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCTTG--ACGATGAGCC
* *
67634089 AGTGTAAGATATGTCTGGGACAT-GCATCCGCCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCAT-CGCCTTGACGATG--AGCC
* * * *
67634135 AGTGTAAGACATGTCTGGGGCAT-GCATCAG-TTATGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCT-TGACGATGAGCC
* * *
67634179 AGTGTAAGACTATGTCTGGGACATGGCGTCAGCCTCGATTTCGAT-AGTC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATC-GCCTTGA---CGATGAGCC
*
67634228 AGTGTAAGACCATGTCTGGGACATGGCATCGTCTTGACGAATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCTTGACG-ATGAGCC
* * *
67634275 AGTGTAAGACCATATCTGGAACGTGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
67634305 AGCATTACAC
Statistics
Matches: 212, Mismatches: 30, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 14 0.07
45 16 0.08
46 53 0.25
47 57 0.27
48 26 0.12
49 38 0.18
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCTTGACGATGAGCC
Found at i:67641758 original size:189 final size:189
Alignment explanation
Indices: 67641433--67641805 Score: 615
Period size: 189 Copynumber: 2.0 Consensus size: 189
67641423 GAGTTACATT
*
67641433 ATCCAGGCCTAGACCGAGGAAAAGCAAAGCAAGTGGACTAAGCCGAGCTAGTCGACTATTTTTGT
1 ATCCAGGCCTAGACCGAGGAAAAGCAAAGCAAGTGGACTAAGCCGAGATAGTCGACTATTTTTGT
* * * *
67641498 AATTCGAGGTAAGTTGTATGTTAATAATGCAACTATATCTTTAAATGTGTATTTGAGTTGATATG
66 AATTCAAGGGAAGGTGGATGTTAATAATGCAACTATATCTTTAAATGTGTATTTGAGTTGATATG
67641563 GCATAAATTGTCTTGGTATTGGAATATGAGAATACATGTTGAGAAACTTACGTAACAAA
131 GCATAAATTGTCTTGGTATTGGAATATGAGAATACATGTTGAGAAACTTACGTAACAAA
* * *
67641622 ATCCGGGCCTAGACCGGGGAAAAGCGAAGCAAGTGGACTAAGCCGAGAT-GTCGACTATATTTTG
1 ATCCAGGCCTAGACCGAGGAAAAGCAAAGCAAGTGGACTAAGCCGAGATAGTCGACTAT-TTTTG
* *
67641686 TAA-TCTAAGGGAAGGTGGATGTTAATAATGCGACTATATCTTTAAATGTGTATTTGAGTTGATC
65 TAATTC-AAGGGAAGGTGGATGTTAATAATGCAACTATATCTTTAAATGTGTATTTGAGTTGATA
*
67641750 TGGCATAAATTGTCTTGGTTTTGGAATATGAGAATACATGTTGAGAAACTTACGTA
129 TGGCATAAATTGTCTTGGTATTGGAATATGAGAATACATGTTGAGAAACTTACGTA
67641806 GTAAAGACTT
Statistics
Matches: 171, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 11 0.06
189 160 0.94
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (189 bp):
ATCCAGGCCTAGACCGAGGAAAAGCAAAGCAAGTGGACTAAGCCGAGATAGTCGACTATTTTTGT
AATTCAAGGGAAGGTGGATGTTAATAATGCAACTATATCTTTAAATGTGTATTTGAGTTGATATG
GCATAAATTGTCTTGGTATTGGAATATGAGAATACATGTTGAGAAACTTACGTAACAAA
Found at i:67641944 original size:46 final size:45
Alignment explanation
Indices: 67641877--67642087 Score: 192
Period size: 46 Copynumber: 4.5 Consensus size: 45
67641867 TATGTGTGCT
* * * *
67641877 AGTGTAAAACATCTTTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAG-ATGA-AGCC
* * * *
67641923 AGTGTAAGACATGTCTGGGACATGCACCGGCCTCGTGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC--GAGA-TGAAGCC
* * * * *
67641971 AGTGTAAGGCATGTCTGGGACATGGCACCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CGAGATGA-AGCC
*
67642018 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AAGCC
*
67642064 AGTGTAAGACATGTCTGGGGCATG
1 AGTGTAAGACATGTCTGGGACATG
67642088 TCTCAATTAC
Statistics
Matches: 134, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
46 66 0.49
47 30 0.22
48 28 0.21
49 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAGCC
Found at i:67642034 original size:95 final size:93
Alignment explanation
Indices: 67641916--67642087 Score: 272
Period size: 95 Copynumber: 1.8 Consensus size: 93
67641906 GCCACAGTAT
* * *
67641916 GAGAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCCTCGTGATATTTAAGCCAGTGTAAGGC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCCTC--GAGATGTAAGCCAGTGTAAGAC
67641981 ATGTCTGGGACATGGCACCGGCATTGAGAC
64 ATGTCTGGGACATGGCACCGGCATTGAGAC
* *
67642011 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCCTCGAGATGTAAGCCAGTGTAAGACAT
*
67642076 GTCTGGGGCATG
66 GTCTGGGACATG
67642088 TCTCAATTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 32 0.45
95 39 0.55
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (93 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCCTCGAGATGTAAGCCAGTGTAAGACAT
GTCTGGGACATGGCACCGGCATTGAGAC
Found at i:67642167 original size:47 final size:46
Alignment explanation
Indices: 67641920--67642185 Score: 172
Period size: 47 Copynumber: 5.7 Consensus size: 46
67641910 CAGTATGAGA
* * * * *
67641920 GCCAGTGTAAGACATGTCTGGGACAT-GCACCGGCCT-CGTGATATTT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTAC--GAGATGT
* * * *
67641966 AAGCCAGTGTAAGGCATGTCTGGGACATGGCACCGGCATTGA-GACGA-GA
1 --GCCAGTGTAAGACATGTCTGGGACATGGCATCGAC-TT-ACGA-GATGT
* * *
67642015 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCT-CGAGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTACGAGATGT
* * *
67642059 AAGCCAGTGTAAGACATGTCTGGGGCATGTC-TC-AATTACGAGATGT
1 --GCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTACGAGATGT
* * * *
67642105 GTCAGTATAAAACCATGTCTGGGACATGGCATCGTCTTGACG-GATGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACTT-ACGAGATGT
* *
67642152 GCCATTGTAAGACCATGTCTGGAACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
67642186 GCATTACACC
Statistics
Matches: 175, Mismatches: 28, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 17 0.10
46 43 0.25
47 61 0.35
48 28 0.16
49 10 0.06
50 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTACGAGATGT
Found at i:67645236 original size:46 final size:46
Alignment explanation
Indices: 67645161--67645276 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
67645151 TTTGGGCATT
* *
67645161 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACATC
1 CGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACATC
* * *
67645207 CGAACTCATTGAGTTGAGTCCGAGATCACTTATGGATGCGAACGTT
1 CGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACATC
* *
67645253 CGTACTCGTTGAGTTGAGTTCGAG
1 CGAACTCGTTGAGTTGAGTCCGAG
67645277 TTCATGAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACATC
Found at i:67650809 original size:46 final size:46
Alignment explanation
Indices: 67650753--67651069 Score: 286
Period size: 46 Copynumber: 6.8 Consensus size: 46
67650743 GATATTTTGG
* *
67650753 CATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* * * *
67650799 CATCCAAACTCGTTGAGTTGAGTCCGAGTTGACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* * * ** * * * *
67650845 CGTCCGAACTCGTTAAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGG
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG---CGA-A
*
67650892 CATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
** * * * *
67650938 CGCCCGAGCTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG---CGA-A
67650985 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
** * *
67651031 CGCCCGAGCTCTTTGAGTTGAGTCTGAGTCCACTTATGG
1 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
67651070 GCAGGTTACA
Statistics
Matches: 217, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
43 8 0.04
45 4 0.02
46 135 0.62
47 58 0.27
48 4 0.02
50 8 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
Found at i:67650911 original size:47 final size:47
Alignment explanation
Indices: 67650847--67651015 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
67650837 GATGCGAACG
* * **
67650847 TCCGAACTCGTTAAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
* * * *
67650894 TCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC---GC-
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCA
67650941 -CCGAGCTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
67650987 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC
67651016 ACTTATGGAT
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 27 0.27
47 52 0.51
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
Found at i:67651055 original size:93 final size:93
Alignment explanation
Indices: 67650807--67651059 Score: 425
Period size: 93 Copynumber: 2.7 Consensus size: 93
67650797 AACATCCAAA
* * * * * **
67650807 CTCGTTGAGTTGAGTCCGAGTTGACTTATGGATGCGAACGTCCGAACTCGTTAAGTTGAGTCCAA
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCTGA
67650872 GTTCGTGAGATGTAACTAGGCATCCGAG
66 GTTCGTGAGATGTAACTAGGCATCCGAG
*
67650900 CTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCTGA
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCTGA
67650965 GTTCGTGAGATGTAACTAGGCATCCGAG
66 GTTCGTGAGATGTAACTAGGCATCCGAG
*
67650993 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGTTGAGTCTGA
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCTGA
67651058 GT
66 GT
67651060 CCACTTATGG
Statistics
Matches: 150, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 150 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCTGA
GTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:67654046 original size:40 final size:40
Alignment explanation
Indices: 67653988--67654064 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
67653978 ACACACCATG
** *
67653988 TGGGGATAAAATTGACCCA-CCTATCCCTACAAACCAAGTA
1 TGGGGATAAAATCAACCCATCC-AACCCTACAAACCAAGTA
*
67654028 TGGGGATAAAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAAAATCAACCCATCCAACCCTACAAACCAA
67654065 ATGGTTCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.39, C:0.31, G:0.13, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAACCCTACAAACCAAGTA
Found at i:67655028 original size:29 final size:29
Alignment explanation
Indices: 67654994--67655050 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
67654984 TAATCAAACG
* *
67654994 ATGTTTACGAACGACAAGCAGAAACTTAA
1 ATGTTTACGAACAACAAGCAAAAACTTAA
67655023 ATGTTTACGAACAACAAGCAAAAACTTA
1 ATGTTTACGAACAACAAGCAAAAACTTA
67655051 CCAATGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (29 bp):
ATGTTTACGAACAACAAGCAAAAACTTAA
Found at i:67661163 original size:5 final size:6
Alignment explanation
Indices: 67661128--67661171 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
67661118 GTTTAAAGAC
67661128 TTTTAT TTATTAT TTTTATGT TTTTAT TTTTAT TTTTAT CTTTT
1 TTTTAT TT-TTAT TTTTA--T TTTTAT TTTTAT TTTTAT -TTTT
67661172 CAAAACTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 18 0.53
7 10 0.29
8 6 0.18
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:67661171 original size:14 final size:13
Alignment explanation
Indices: 67661128--67661164 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
67661118 GTTTAAAGAC
*
67661128 TTTTATTTATTAT
1 TTTTATTTTTTAT
67661141 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
67661155 TTTTATTTTT
1 TTTTATTTTT
67661165 ATCTTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:67661192 original size:5 final size:5
Alignment explanation
Indices: 67661182--67661215 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
67661172 CAAAACTACT
*
67661182 TTTTA TTTTA TTTTC TTTTA TTTTAA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTT
67661216 CATCCTTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:67663244 original size:13 final size:13
Alignment explanation
Indices: 67663226--67663252 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67663216 GAAGCAATCG
67663226 CACACGGGCATGT
1 CACACGGGCATGT
67663239 CACACGGGCATGT
1 CACACGGGCATGT
67663252 C
1 C
67663253 CCTGTCGAGC
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:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGGCATGT
Done.