Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 144 of 356
Found at i:46379166 original size:194 final size:193
Alignment explanation
Indices: 46378919--46379580 Score: 1122
Period size: 194 Copynumber: 3.4 Consensus size: 193
46378909 TTAGGATTCT
* *
46378919 ATGTGATGGATGTGAACA-TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
* *
46378981 AAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
65 AAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
*
46379045 ATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
128 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
*
46379110 G
193 A
*
46379111 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
46379176 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
46379241 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
130 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
46379305 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
46379370 AGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTGAT
66 AGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
46379435 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
130 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
* *
46379499 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
46379562 GGTG-TATAAATGTGATAAG
66 AGTGATATATATGTGATAAG
46379581 TCCCGAAGGG
Statistics
Matches: 452, Mismatches: 13, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
190 14 0.03
191 1 0.00
192 60 0.13
194 332 0.73
196 45 0.10
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (193 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
AGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
Found at i:46379705 original size:37 final size:37
Alignment explanation
Indices: 46379654--46379769 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
46379644 TATTATCACT
46379654 GATTAATGTCCGGGTAAGACCCGATGACTACGTGTGGA
1 GATT-ATGTCCGGGTAAGACCCGATGACTACGTGTGGA
46379692 GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
1 GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
* * *
46379729 GATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGA
1 GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
46379766 GATT
1 GATT
46379770 TCGTCTGAGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
37 71 0.95
38 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
Found at i:46381334 original size:25 final size:25
Alignment explanation
Indices: 46381292--46381361 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
46381282 GAGGAAGTGC
*
46381292 AAAAGGGCTTTGCCCCAGTTTA-CG
1 AAAAGGGCTTTGCCCCAGTTTATCA
46381316 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTATCA
46381342 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46381362 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
24 8 0.19
25 26 0.60
26 9 0.21
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:46381374 original size:24 final size:24
Alignment explanation
Indices: 46381291--46381374 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 24
46381281 GGAGGAAGTG
46381291 CAAAAGGGCTTTGCCCCAGTTTA-
1 CAAAAGGGCTTTGCCCCAGTTTAT
46381314 CGAAAAGGGCTTTTGCCCCAGTTTAT
1 C-AAAAGGGC-TTTGCCCCAGTTTAT
46381340 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
46381364 TAAAAGAGGCT
1 CAAAAG-GGCT
46381375 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
23 6 0.11
24 16 0.29
25 24 0.44
26 9 0.16
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:46381385 original size:50 final size:50
Alignment explanation
Indices: 46381292--46381386 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
46381282 GAGGAAGTGC
**
46381292 AAAAGGGCTTTGCCCCAGTTTACGAAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACGAAAAGGGCTTAGGCCCCAGTTTATCA
**
46381342 AAAAGGGCTTTGCCCCAG-TTATTAAAAGAGGC-TAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACGAAAAG-GGCTTAGGCC-CCAGTT
46381387 ATATGACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
49 12 0.31
50 27 0.69
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACGAAAAGGGCTTAGGCCCCAGTTTATCA
Found at i:46381619 original size:31 final size:31
Alignment explanation
Indices: 46381581--46381664 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
46381571 TTGTTACAGT
*
46381581 AAAGGCTTTGACCCAGTGATATGAATAATGA
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* * *
46381612 AAAGGCTTCGGCCCAGTGATATGAGTAATGT
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
46381643 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
46381665 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGAATAATGA
Found at i:46386205 original size:14 final size:14
Alignment explanation
Indices: 46386186--46386215 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
46386176 CACACTATCA
46386186 CAGGTTAAATGTGG
1 CAGGTTAAATGTGG
46386200 CAGGTTAAATGTGG
1 CAGGTTAAATGTGG
46386214 CA
1 CA
46386216 TGTATAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (14 bp):
CAGGTTAAATGTGG
Found at i:46387899 original size:21 final size:22
Alignment explanation
Indices: 46387866--46387906 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
46387856 TTCATTTATG
*
46387866 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
46387887 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
46387907 CAACACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:46388384 original size:28 final size:28
Alignment explanation
Indices: 46388318--46388390 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
46388308 ATCATTTGAC
46388318 ATTTCGCACACTAAGTGTCATTCTAAAT
1 ATTTCGCACACTAAGTGTCATTCTAAAT
* * *
46388346 ATCTCACACACTAAGTGTCATTCTCAAT
1 ATTTCGCACACTAAGTGTCATTCTAAAT
* *
46388374 ATTTCGTACACTGAGTG
1 ATTTCGCACACTAAGTG
46388391 CCATATTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (28 bp):
ATTTCGCACACTAAGTGTCATTCTAAAT
Found at i:46390593 original size:624 final size:622
Alignment explanation
Indices: 46389368--46390615 Score: 2388
Period size: 624 Copynumber: 2.0 Consensus size: 622
46389358 TTTTTTTGAC
46389368 CAATTTACGATATTAACCTTTATACACTTTATTTATTACACCAAATGCCAAGCCATCATATCCCA
1 CAATTTACGATATTAACCTTTATACACTTTATTTATTACACCAAATGCCAAGCCATCATATCCCA
*
46389433 CTATCTCTTTAATGGGCTAATTACCAAATAAAGACTTCCACTTTAAATTTCTATAGCTCTTTAAT
66 CTATCTCTTTAATGGGCTAATTACCAAATAAAGACTTCCACTTTAAATTTCTATAGCTATTTAAT
*
46389498 ACCTTTAGCTTATAGAACACAACTTTTGTACTTTACGCGATTTAGTCCTTTTTGCTTAATTAACT
131 ACCTTTAGCTTATAGAACACAACTTTTGTACTTTACACGATTTAGTCCTTTTTGCTTAATTAACT
*
46389563 ATCAAACGATAAAATTTTTCAACGAAACTTTAATACCATCTTATTGCCACAACGTAAATATTTAT
196 ATCAAACGATAAAAGTTTTCAACGAAACTTTAATACCATCTTATTGCCACAACGTAAATATTTAT
*
46389628 AAAAATATTTACGACTCAGTTTATAGAAACAAGGTCTCGATACCTCATTTTCTAAACCCACTTGA
261 AAAAATATTTACGACTCAGTTTATAGAAACAAGGTCCCGATACCTCATTTTCTAAACCCACTTGA
46389693 CCTTAGGGTCATACCACTTGAACTTAATAAATCGCTTATAAAATAAAAATCACAATATCAAAAAA
326 CCTTAGGGTCATACCACTTGAACTTAATAAATCGCTTATAAAATAAAAATCACAATATCAAAAAA
46389758 AAATTAAAATCACAATTAACTCGTAAATATTAAATATAATATTTACAAACCTACTCGTCGGATTT
391 AAATTAAAATCACAATTAACTCGTAAATATTAAATATAATATTTACAAACCTACTCGTCGGATTT
*
46389823 GGTGGCCCCGAAACCACTGTTCCGATTAACCCTAAAAACGGGTTGTTACATCATCAAGTATTTAT
456 GGTGGCCCCGAAACCACTGTTCCGATTAACCCTAAAAACGGGCTGTTACATCATCAAGTATTTAT
46389888 TTGATTTGATAAAGTAGAAATTATTTTCCATCAATCCATTACAAATTAAACAATAATTTCTGTGA
521 TTGATTTGATAAAGTAGAAATTATTTTCCATCAATCCATTACAAATTAAACAATAATTTCTGTGA
46389953 ATAACAATCCCTTTACTGAATGTCACAGAATAATAAA
586 ATAACAATCCCTTTACTGAATGTCACAGAATAATAAA
46389990 CAATTTACGATATTAACCTTTATACACTTTATTTATTACACCAAATGCCAAGCCATCATATCCCA
1 CAATTTACGATATTAACCTTTATACACTTTATTTATTACACCAAATGCCAAGCCATCATATCCCA
*
46390055 CTATCTCTTTAATGGGCTAATTGCCAAATAAAGACTTCCACTTTAAATTTCTATAGCTATTTAAT
66 CTATCTCTTTAATGGGCTAATTACCAAATAAAGACTTCCACTTTAAATTTCTATAGCTATTTAAT
46390120 ACCTTTAGCTTATAGAACACAACTTTTGTACTTTACACGATTTAGTCCTTTTTGCTTAATTAACT
131 ACCTTTAGCTTATAGAACACAACTTTTGTACTTTACACGATTTAGTCCTTTTTGCTTAATTAACT
46390185 ATCAAAACGATAAAAGTTTTCAACGAAACTTTAATACCATCTTATTGCCACAACGTAAATATTTA
196 ATC-AAACGATAAAAGTTTTCAACGAAACTTTAATACCATCTTATTGCCACAACGTAAATATTTA
46390250 TAAAAATATTTACGACTCAGTTTATAGAAACAAGGTCCCGATACCTCATTTTCTAAACCCACTTG
260 TAAAAATATTTACGACTCAGTTTATAGAAACAAGGTCCCGATACCTCATTTTCTAAACCCACTTG
*
46390315 ACCTTAGGGTCATACCACTTGAACTTAATAAATTGCTTATAAAATAAAAATCACAATATCAAAAA
325 ACCTTAGGGTCATACCACTTGAACTTAATAAATCGCTTATAAAATAAAAATCACAATATCAAAAA
*
46390380 AAAATTTAAGATCACAATTAACTCGTAAATATTAAATATAATATTTACAAACCTACTCGTCGGAT
390 AAAA-TTAAAATCACAATTAACTCGTAAATATTAAATATAATATTTACAAACCTACTCGTCGGAT
46390445 TTGGTGGCCCCGAAACCACTGTTCCGATTAACCCTAAAAACGGGCTGTTACATCATCAAGTATTT
454 TTGGTGGCCCCGAAACCACTGTTCCGATTAACCCTAAAAACGGGCTGTTACATCATCAAGTATTT
* *
46390510 ATTTGATTTGATAAAGTAGAAATTATTTTCCATCAATCCATTACAAATTAAAGAATGATTTCTGT
519 ATTTGATTTGATAAAGTAGAAATTATTTTCCATCAATCCATTACAAATTAAACAATAATTTCTGT
46390575 GAATAACAATCCCTTTACTGAATGTCACAGAATAATAAA
584 GAATAACAATCCCTTTACTGAATGTCACAGAATAATAAA
46390614 CA
1 CA
46390616 TGCTACAGAA
Statistics
Matches: 614, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
622 195 0.32
623 192 0.31
624 227 0.37
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (622 bp):
CAATTTACGATATTAACCTTTATACACTTTATTTATTACACCAAATGCCAAGCCATCATATCCCA
CTATCTCTTTAATGGGCTAATTACCAAATAAAGACTTCCACTTTAAATTTCTATAGCTATTTAAT
ACCTTTAGCTTATAGAACACAACTTTTGTACTTTACACGATTTAGTCCTTTTTGCTTAATTAACT
ATCAAACGATAAAAGTTTTCAACGAAACTTTAATACCATCTTATTGCCACAACGTAAATATTTAT
AAAAATATTTACGACTCAGTTTATAGAAACAAGGTCCCGATACCTCATTTTCTAAACCCACTTGA
CCTTAGGGTCATACCACTTGAACTTAATAAATCGCTTATAAAATAAAAATCACAATATCAAAAAA
AAATTAAAATCACAATTAACTCGTAAATATTAAATATAATATTTACAAACCTACTCGTCGGATTT
GGTGGCCCCGAAACCACTGTTCCGATTAACCCTAAAAACGGGCTGTTACATCATCAAGTATTTAT
TTGATTTGATAAAGTAGAAATTATTTTCCATCAATCCATTACAAATTAAACAATAATTTCTGTGA
ATAACAATCCCTTTACTGAATGTCACAGAATAATAAA
Found at i:46392767 original size:40 final size:40
Alignment explanation
Indices: 46392723--46392950 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
46392713 GCTACTTGCT
46392723 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46392763 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46392803 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46392843 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
46392883 CAACTGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
46392922 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46392951 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46400888 original size:40 final size:40
Alignment explanation
Indices: 46400844--46401071 Score: 379
Period size: 40 Copynumber: 5.7 Consensus size: 40
46400834 GCTACTTGCT
*
46400844 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46400884 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46400924 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
46400964 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46401004 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
46401043 CAAATGCCTTCGGGACTTAACCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46401072 CATCCGAATA
Statistics
Matches: 178, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.19
40 142 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46405231 original size:17 final size:17
Alignment explanation
Indices: 46405192--46405234 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
46405182 CTTATCAAGA
*
46405192 TAAATATTAGATTATAT
1 TAAATATTAGAATATAT
*
46405209 TTAATATTA-AATATAT
1 TAAATATTAGAATATAT
46405225 TAAAATATTA
1 T-AAATATTA
46405235 TTATTTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TAAATATTAGAATATAT
Found at i:46405935 original size:9 final size:9
Alignment explanation
Indices: 46405921--46405945 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46405911 TCATATTGAT
46405921 TTTAATTAA
1 TTTAATTAA
46405930 TTTAATTAA
1 TTTAATTAA
46405939 TTTAATT
1 TTTAATT
46405946 TTACTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:46407915 original size:26 final size:26
Alignment explanation
Indices: 46407876--46408398 Score: 319
Period size: 26 Copynumber: 20.1 Consensus size: 26
46407866 TTTAATTAAT
* *
46407876 AGCTCGCACACATGCATTGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
* * *
46407902 AACTCACATACATGCAAGGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
* *
46407928 AGCTCACATACATGCAAGGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
*
46407954 AGCTCGCACACATGCATGGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
* * * * *
46407980 ATCTCATATACATGCAAGGTAATAAA
1 AGCTCACACACATGCATGGTAATAAC
** ** * *
46408006 AATTTGCACACATGCATCGTAATAAT
1 AGCTCACACACATGCATGGTAATAAC
* *
46408032 AGCTCACACACATGTATGGTAATAAT
1 AGCTCACACACATGCATGGTAATAAC
** *
46408058 AGCTCGTACACATGCAAGGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
* *
46408084 AGCTCGCACACATGCATAGG-AATAAT
1 AGCTCACACACATGCAT-GGTAATAAC
** ** *
46408110 AGCTTGCATTCATGCAAGGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
* * * * *
46408136 AACTCGCATACATGCAAGGTAATAAT
1 AGCTCACACACATGCATGGTAATAAC
* ** *
46408162 AGCTCAC-GACATGCATAATAATAAT
1 AGCTCACACACATGCATGGTAATAAC
* ** * *
46408187 AACAT-ACATTCATGCAAGGTAATAAT
1 AGC-TCACACACATGCATGGTAATAAC
* * *
46408213 AACTCGA-ACACATGTGTAAGGTAATAAC
1 AGCTC-ACACACA--TGCATGGTAATAAC
* *
46408241 AACTCGA-ACACATGCATGATAATAAC
1 AGCTC-ACACACATGCATGGTAATAAC
* * *
46408267 AACTCACATACAAGTG-A-GGTAATAAT
1 AGCTCACACAC-A-TGCATGGTAATAAC
** *
46408293 AGCTTGCACACATGCATAGTAATAAC
1 AGCTCACACACATGCATGGTAATAAC
** *
46408319 AAAATGCA-A-ACATGCATGTTAATAAC
1 -AGCT-CACACACATGCATGGTAATAAC
* *
46408345 AGCTCGCATACATGCATGGTAAT-AC
1 AGCTCACACACATGCATGGTAATAAC
*
46408370 TAGCTCGCACACATGCATGGTAATAAC
1 -AGCTCACACACATGCATGGTAATAAC
46408397 AG
1 AG
46408399 TTAGCATACC
Statistics
Matches: 392, Mismatches: 86, Indels: 38
0.76 0.17 0.07
Matches are distributed among these distances:
24 3 0.01
25 29 0.07
26 324 0.83
27 10 0.03
28 26 0.07
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (26 bp):
AGCTCACACACATGCATGGTAATAAC
Found at i:46408226 original size:77 final size:77
Alignment explanation
Indices: 46408049--46408319 Score: 242
Period size: 77 Copynumber: 3.5 Consensus size: 77
46408039 ACACATGTAT
* * * * *
46408049 GGTAATAATAGCTCGTACACATGCAAGGTAATAACAGCTCGCACACATGCATAGGAATAATAGCT
1 GGTAATAATAACTCGAACACATGCAAGGTAATAACAGCTC-CACACATGCATAAGAATAATAACA
*
46408114 TGCATTCATGCAA
65 TACATTCATGCAA
* * * * *
46408127 GGTAATAACAACTCGCATACATGCAAGGTAATAATAGCT-CACGACATGCATAATAATAATAACA
1 GGTAATAATAACTCGAACACATGCAAGGTAATAACAGCTCCAC-ACATGCATAAGAATAATAACA
46408191 TACATTCATGCAA
65 TACATTCATGCAA
* * * * * *
46408204 GGTAATAATAACTCGAACACATGTGTAAGGTAATAACAACTCGAACACATGCATGATAATAACAA
1 GGTAATAATAACTCGAACACA--TGCAAGGTAATAACAGCTC-CACACATGCATAAGAATAATAA
* * **
46408269 C-TCACATACAAGTGA
63 CAT-ACATTCATGCAA
* * *
46408284 GGTAATAATAGCTTGCACACATGCATA-GTAATAACA
1 GGTAATAATAACTCGAACACATGCA-AGGTAATAACA
46408320 AAATGCAAAC
Statistics
Matches: 159, Mismatches: 27, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
76 3 0.02
77 47 0.30
78 46 0.29
79 17 0.11
80 44 0.28
81 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (77 bp):
GGTAATAATAACTCGAACACATGCAAGGTAATAACAGCTCCACACATGCATAAGAATAATAACAT
ACATTCATGCAA
Found at i:46414385 original size:44 final size:46
Alignment explanation
Indices: 46414330--46414426 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
46414320 ATTACAACAT
* *
46414330 CATTCCATTCAACCAAACACA-AGAA-TA-TCATTATAGTTCTATTC
1 CATTACATTCAACCAAACA-ATAGAATTACTCATTATAGCTCTATTC
* *
46414374 CATTACATTCAACCAAACAATTGAATTACTGATTATAGCTCTATTC
1 CATTACATTCAACCAAACAATAGAATTACTCATTATAGCTCTATTC
46414420 CATTACA
1 CATTACA
46414427 GCTCTATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 2 0.04
46 22 0.48
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (46 bp):
CATTACATTCAACCAAACAATAGAATTACTCATTATAGCTCTATTC
Found at i:46414429 original size:16 final size:16
Alignment explanation
Indices: 46414405--46414506 Score: 150
Period size: 16 Copynumber: 6.4 Consensus size: 16
46414395 TGAATTACTG
* *
46414405 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCT
46414421 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
*
46414437 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCT
*
46414453 ATTACAGCTATATTCT
1 ATTACAGCTCTATTCT
*
46414469 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCT
*
46414485 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCT
46414501 ATTACA
1 ATTACA
46414507 ACAAACCAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 77 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:46414457 original size:32 final size:32
Alignment explanation
Indices: 46414412--46414508 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
46414402 CTGATTATAG
*
46414412 CTCTATTCCATTACAGCTCTATTCTATTACAA
1 CTCTATTCTATTACAGCTCTATTCTATTACAA
*
46414444 CTCTATTCTATTACAGCTATATTCTATTACAA
1 CTCTATTCTATTACAGCTCTATTCTATTACAA
*
46414476 CTCTATTCTATTACAGCTCTATTCCATTACAA
1 CTCTATTCTATTACAGCTCTATTCTATTACAA
46414508 C
1 C
46414509 AAACCAAACA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (32 bp):
CTCTATTCTATTACAGCTCTATTCTATTACAA
Found at i:46419732 original size:2 final size:2
Alignment explanation
Indices: 46419725--46419755 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46419715 GTGAGTGTTT
46419725 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46419756 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46421478 original size:5 final size:5
Alignment explanation
Indices: 46421468--46421493 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46421458 GACAAGAAGG
46421468 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
46421494 AAGGGCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:46424954 original size:5 final size:5
Alignment explanation
Indices: 46424944--46425022 Score: 158
Period size: 5 Copynumber: 15.8 Consensus size: 5
46424934 AATGGACATG
46424944 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
46424994 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
46425023 TATTCTAGTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:46427169 original size:15 final size:15
Alignment explanation
Indices: 46427151--46427179 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46427141 ATATTTATAA
46427151 AATTATTATTATTAT
1 AATTATTATTATTAT
46427166 AATTATTATTATTA
1 AATTATTATTATTA
46427180 GATAGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:46427876 original size:62 final size:62
Alignment explanation
Indices: 46427779--46427905 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
46427769 AGGCCCAAGG
46427779 GCGGATGGAGGTCTGGGGTTCGAGTCTCACCTTACGCACGGAAGGCTTCGGTTTTGCTGCAC
1 GCGGATGGAGGTCTGGGGTTCGAGTCTCACCTTACGCACGGAAGGCTTCGGTTTTGCTGCAC
46427841 GCGGATGGAGGTCTGGGGTTCGAGTCTCACCTTACGCACGGAAGGCTTCGGTTTTGCTGCAC
1 GCGGATGGAGGTCTGGGGTTCGAGTCTCACCTTACGCACGGAAGGCTTCGGTTTTGCTGCAC
46427903 GCG
1 GCG
46427906 TGGAGAAAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.14, C:0.24, G:0.36, T:0.25
Consensus pattern (62 bp):
GCGGATGGAGGTCTGGGGTTCGAGTCTCACCTTACGCACGGAAGGCTTCGGTTTTGCTGCAC
Found at i:46429271 original size:60 final size:60
Alignment explanation
Indices: 46429171--46429308 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
46429161 AACTGTGTTA
* *
46429171 ATATGGGCAAGGCCCAATATATCTCGAATTGTAATAGGGCTACGGCCTAGATTAATACTG
1 ATATGGGCTAGGCCCAATATATCTCGAACTGTAATAGGGCTACGGCCTAGATTAATACTG
* * * *
46429231 ATATGGGCTAGGCCCAGTATA-CTCTGATACTGTAA-GGGGCTATGGCCTAGATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GA-ACTGTAATAGGGCTACGGCCTAGATTAATACTG
*
46429291 TTATGGGCTAAGGCCCAA
1 ATATGGGCT-AGGCCCAA
46429309 ATAGCTCTGA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 3 0.04
60 51 0.76
61 13 0.19
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGAACTGTAATAGGGCTACGGCCTAGATTAATACTG
Found at i:46431896 original size:40 final size:40
Alignment explanation
Indices: 46431838--46432022 Score: 264
Period size: 40 Copynumber: 4.6 Consensus size: 40
46431828 CGGATGATAA
* *
46431838 CCGGGCTAAGTCCTGAAGGCATTTGTGCGACTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
46431878 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
46431918 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
46431958 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
*
46431998 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46432023 AGTGAGTAGC
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 126 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:46441313 original size:46 final size:46
Alignment explanation
Indices: 46441263--46441434 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
46441253 TGAGCATCCA
46441263 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
46441309 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
46441356 AACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
46441402 AGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46441435 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 29 0.28
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:46441415 original size:93 final size:93
Alignment explanation
Indices: 46441256--46441427 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46441246 GGATGGTTGA
* * *
46441256 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
46441321 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
46441349 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
46441414 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46441428 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46442818 original size:40 final size:40
Alignment explanation
Indices: 46442759--46442881 Score: 158
Period size: 40 Copynumber: 3.1 Consensus size: 40
46442749 GCTGCGTTAC
* *
46442759 AGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTGCG
1 AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* * *
46442799 AGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTGGTGCC
1 AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* * *
46442839 CGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAGCG
1 AGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
46442879 AGT
1 AGT
46442882 AGCTATATCC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
40 68 0.97
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
Found at i:46447751 original size:44 final size:45
Alignment explanation
Indices: 46447641--46447755 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 45
46447631 GATTCCCGAA
* *
46447641 ATAATGCCATAGTATATTTCAACTATGATCTTGATCGTTTTTCGAT
1 ATAATGCCATAGTATATTTCAACTAGGATCTTGACCG-TTTTCGAT
* * * *
46447687 ATAATGCCGTAGTATCTTTCAACTAGGGTCTT-ACCCG-TTTCGGT
1 ATAATGCCATAGTATATTTCAACTAGGATCTTGA-CCGTTTTCGAT
* *
46447731 TTAATGCCATAGTGTATTTCAACTA
1 ATAATGCCATAGTATATTTCAACTA
46447756 TGGTTTTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
44 27 0.47
45 1 0.02
46 30 0.52
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (45 bp):
ATAATGCCATAGTATATTTCAACTAGGATCTTGACCGTTTTCGAT
Found at i:46451370 original size:24 final size:22
Alignment explanation
Indices: 46451342--46451388 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
46451332 CATCGACTTT
*
46451342 ATAATATTTAGATTTACAGTTTAA
1 ATAATATATAGATTTA-A-TTTAA
*
46451366 ATAATATATAGCTTTAATTTAA
1 ATAATATATAGATTTAATTTAA
46451388 A
1 A
46451389 AACTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (22 bp):
ATAATATATAGATTTAATTTAA
Found at i:46456404 original size:6 final size:6
Alignment explanation
Indices: 46456393--46456494 Score: 52
Period size: 6 Copynumber: 16.7 Consensus size: 6
46456383 TAAATATATA
* *
46456393 AAAAAT AAAAAT -AAAA- CAAAAT AAAAAT ATTAAAT -AAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT
* * * *
46456438 AAGAAAT GATAAT AATAAT AATAAT AAATAAT AACAAGAGT AAAAA- ATAAAAT
1 AA-AAAT AAAAAT AAAAAT AAAAAT AAA-AAT AA-AA-A-T AAAAAT A-AAAAT
46456491 AAAA
1 AAAA
46456495 TAATAGTAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
5 18 0.23
6 36 0.46
7 17 0.22
8 4 0.05
9 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:46456408 original size:13 final size:13
Alignment explanation
Indices: 46456380--46456499 Score: 55
Period size: 16 Copynumber: 8.4 Consensus size: 13
46456370 ATTGTAAAAT
46456380 AAATAAATATATAAA
1 AAATAAA-A-ATAAA
46456395 AAATAAAAATAAAACA
1 AAATAAAAAT--AA-A
**
46456411 AAATAAAAATATT
1 AAATAAAAATAAA
46456424 AAAT-AAAATAAA
1 AAATAAAAATAAA
* *
46456436 ATAAGAAATGATAATA
1 A-AATAAA-AATAA-A
*
46456452 ATAATAATAATAAA
1 A-AATAAAAATAAA
*
46456466 TAATAACAAGAGTAAA
1 AAATAA-AA-A-TAAA
46456482 AAAT-AAAATAAA
1 AAATAAAAATAAA
46456494 ATAATA
1 A-AATA
46456500 GTAATGATAA
Statistics
Matches: 81, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
12 12 0.15
13 17 0.21
14 8 0.10
15 19 0.23
16 25 0.31
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:46456427 original size:23 final size:22
Alignment explanation
Indices: 46456393--46456471 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
46456383 TAAATATATA
46456393 AAAAATAAAAATAAAACAAAAT
1 AAAAATAAAAATAAAACAAAAT
* *
46456415 AAAAATATTAAATAAAATAAAAT
1 AAAAATA-AAAATAAAACAAAAT
* * *
46456438 AAGAAATGATAATAATAATAATAAT
1 AA-AAATAAAAATAA-AACAA-AAT
46456463 AAATAATAA
1 AAA-AATAA
46456472 CAAGAGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 7 0.15
23 20 0.43
24 10 0.22
25 9 0.20
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (22 bp):
AAAAATAAAAATAAAACAAAAT
Found at i:46456431 original size:18 final size:16
Alignment explanation
Indices: 46456380--46456436 Score: 62
Period size: 15 Copynumber: 3.5 Consensus size: 16
46456370 ATTGTAAAAT
* *
46456380 AAATAAATATATAA-A
1 AAATAAAAATAAAACA
46456395 AAATAAAAATAAAACA
1 AAATAAAAATAAAACA
*
46456411 AAATAAAAATATTAAATA
1 AAATAAAAATA--AAACA
46456429 AAATAAAA
1 AAATAAAA
46456437 TAAGAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.33
16 12 0.33
18 12 0.33
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAAAATAAAACA
Found at i:46456437 original size:10 final size:10
Alignment explanation
Indices: 46456374--46456497 Score: 56
Period size: 10 Copynumber: 11.3 Consensus size: 10
46456364 AAGCTAATTG
46456374 TAAAAT-AAA
1 TAAAATAAAA
*
46456383 TAAATATATAA
1 TAAA-ATAAAA
46456394 -AAAATAAAAA
1 TAAAAT-AAAA
*
46456404 TAAAACAAAA
1 TAAAATAAAA
46456414 TAAAAATATTAAA
1 T-AAAATA--AAA
46456427 TAAAATAAAA
1 TAAAATAAAA
*
46456437 TAAGAAATGATAA
1 T-A-AAAT-AAAA
46456450 TAATAATAATAA
1 TAA-AATAA-AA
46456462 T-AAATAATAA
1 TAAAATAA-AA
* *
46456472 CAAGAGTAAAAAA
1 TAA-A--ATAAAA
46456485 TAAAATAAAA
1 TAAAATAAAA
46456495 TAA
1 TAA
46456498 TAGTAATGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
9 6 0.07
10 33 0.37
11 16 0.18
12 19 0.21
13 12 0.13
14 3 0.03
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:46456437 original size:58 final size:63
Alignment explanation
Indices: 46456396--46456527 Score: 171
Period size: 66 Copynumber: 2.1 Consensus size: 63
46456386 ATATATAAAA
*
46456396 AATAA-AAATAA-AACAA-AATAAAAATATTAAATAAAATAAAATAAGAAATGATAATAATAAT
1 AATAATAAATAATAACAAGAATAAAAA-ATAAAATAAAATAAAATAAGAAATGATAATAATAAT
* * *
46456457 AATAATAAATAATAACAAGAGTAAAAAATAAAATAAAATAATAGTAATGATAATGATAATAATGA
1 AATAATAAATAATAACAAGAATAAAAAATAAAATAAAATAA-AATAA-GA-AATGATAATAATAA
46456522 T
63 T
46456523 AATAA
1 AATAA
46456528 ATAATAGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
61 5 0.08
62 6 0.10
63 18 0.30
64 11 0.18
65 2 0.03
66 19 0.31
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (63 bp):
AATAATAAATAATAACAAGAATAAAAAATAAAATAAAATAAAATAAGAAATGATAATAATAAT
Found at i:46456454 original size:3 final size:3
Alignment explanation
Indices: 46456425--46456807 Score: 307
Period size: 3 Copynumber: 127.7 Consensus size: 3
46456415 AAAAATATTA
* *
46456425 AAT AA- AAT AA- AAT AAGA AAT GAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * * *
46456470 AAC AAG AGT AA- AA- AAT AA- AAT AA- AAT AAT AGT AAT GAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
46456514 AAT AAT GAT AAT AAAT AAT AGT AAA AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
46456560 AAT AAT GAT AAT AAAT AAT AGT AAA AAT AAT AAT AAT AAT ACT AAC
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
46456606 AAT AAT AAT GAT AAT AAAT AAT AAT AGT AA- AA- AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
46456650 AAC AGT AAT AAT AAT GAT AAT AATT AAT TGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
* * *
46456696 AAT AAT AAT AAT AAT AAT AAAT AAT AGT AA- ATAT AAT AAT AGT AAA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * *
46456742 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT GAT GAT GAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * *
46456788 AAT AGT AAA AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AA
46456808 AATTAATTAA
Statistics
Matches: 299, Mismatches: 65, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
2 17 0.06
3 258 0.86
4 24 0.08
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:46457489 original size:18 final size:18
Alignment explanation
Indices: 46457468--46457502 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46457458 AAACAGATTC
46457468 AAAAAAGAAAAAGAAAAG
1 AAAAAAGAAAAAGAAAAG
46457486 AAAAAAGAAAAAGAAAA
1 AAAAAAGAAAAAGAAAA
46457503 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAG
Found at i:46457520 original size:6 final size:6
Alignment explanation
Indices: 46457469--46457503 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
46457459 AACAGATTCA
46457469 AAAAAG AAAAAG -AAAAG AAAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAA
46457504 ATAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:46457830 original size:155 final size:155
Alignment explanation
Indices: 46457645--46457956 Score: 624
Period size: 155 Copynumber: 2.0 Consensus size: 155
46457635 TTTATAGTAA
46457645 TTACATTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
1 TTACATTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
46457710 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAGGAG
66 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAGGAG
46457775 CGGCGGCAGACCTAAGGGCTAGGGT
131 CGGCGGCAGACCTAAGGGCTAGGGT
46457800 TTACATTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
1 TTACATTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
46457865 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAGGAG
66 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAGGAG
46457930 CGGCGGCAGACCTAAGGGCTAGGGT
131 CGGCGGCAGACCTAAGGGCTAGGGT
46457955 TT
1 TT
46457957 TTTCTAAAAA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 157 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (155 bp):
TTACATTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAGGAG
CGGCGGCAGACCTAAGGGCTAGGGT
Found at i:46458329 original size:44 final size:44
Alignment explanation
Indices: 46458281--46458745 Score: 416
Period size: 44 Copynumber: 10.6 Consensus size: 44
46458271 TCCACTCTAT
* * * *
46458281 TGCAACTTCAGAGAGATAAGACTTGTAGCTTAAATCTGCTCCGC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * * *
46458325 TGCAACTTCAGGGAGATAAGAATAGTAACTTCATTCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * * * * *
46458369 TGCATCTTTAGGGAGATAAGGTTTATAGCTTTAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * *
46458413 TGCAACTTCAGAGAGATAAGATTTGTTATCTTTAATCTGTTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAACTTCAATCTGCTCCAC
* * * ** * *
46458458 TGTACCTTCAGGGAGATAAGACCTATAACTTCAATATGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * *
46458502 TGCAACTTCAGAGAGATAAGGTTTGCTATCTTCAATCTACTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAACTTCAATCTGCTCCAC
** * * * * * *
46458547 TATAACTTCAGGGAGTTGAGATTCGTAATTTCAACCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * *
46458591 TGCAACTTCAGGGAGATAAGGTTTGTAACTTCAATCTACTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * ** ** *
46458635 TGCATCTTTAGAAAGATAAGATTTGT--GGT-AATCCACTCCTC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * *
46458676 TACAACTTCAGAG-GTATGAGATTTGTAACTTCAATCTACTCCAC
1 TGCAACTTCAGAGAG-ATAAGATTTGTAACTTCAATCTGCTCCAC
46458720 TGCAACTTCAGAGAGATAAGATTTGT
1 TGCAACTTCAGAGAGATAAGATTTGT
46458746 TATTTTTGAC
Statistics
Matches: 329, Mismatches: 85, Indels: 14
0.77 0.20 0.03
Matches are distributed among these distances:
40 1 0.00
41 29 0.09
42 1 0.00
43 1 0.00
44 226 0.69
45 71 0.22
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
Found at i:46458498 original size:133 final size:133
Alignment explanation
Indices: 46458281--46458740 Score: 443
Period size: 133 Copynumber: 3.5 Consensus size: 133
46458271 TCCACTCTAT
* * *
46458281 TGCAACTTCAGAGAGATAAGACTTG-TAGCTTAAATCTGCTCCGCTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
46458345 AATAGTAACTTCATTCTGCTCTACTGCATCTTTAGGGAGATAAGGTTT-ATAGCTTTAATCTGCT
66 AATA-TAACTTCAATCTGCTCCACTGCATCTTTAGAGAGATAAGGTTTGATAGCTTCAATCTACT
46458409 CCAC
130 CCAC
* * * *
46458413 TGCAACTTCAGAGAGATAAGATTTGTTATCTTTAATCTGTTCCACTGTACCTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
46458478 ACCTATAACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGGTTTGCTATCTTCAATCTACT
66 A-ATATAACTTCAATCTGCTCCACTGCATCTTTAGAGAGATAAGGTTTGATAGCTTCAATCTACT
46458543 CCAC
130 CCAC
** * * * * * * *
46458547 TATAACTTCAGGGAGTTGAGATTCGTAAT-TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAA-
** * * * * * *
46458611 GTTTGTAACTTCAATCTACTCCACTGCATCTTTAGAAAGATAAGATTTG-T-G-GT-AATCCACT
65 GAATATAACTTCAATCTGCTCCACTGCATCTTTAGAGAGATAAGGTTTGATAGCTTCAATCTACT
*
46458672 CCTC
130 CCAC
* * * * * *
46458676 TACAACTTCAGAG-GTATGAGATTTG-TAACTTCAATCTACTCCACTGCAACTTCAGAGAGATAA
1 TGCAACTTCAGAGAG-ATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAA
46458739 GA
65 GA
46458741 TTTGTTATTT
Statistics
Matches: 269, Mismatches: 53, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
128 3 0.01
129 60 0.22
130 1 0.00
132 25 0.09
133 139 0.52
134 41 0.15
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (133 bp):
TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
AATATAACTTCAATCTGCTCCACTGCATCTTTAGAGAGATAAGGTTTGATAGCTTCAATCTACTC
CAC
Found at i:46458503 original size:89 final size:89
Alignment explanation
Indices: 46458284--46458740 Score: 354
Period size: 89 Copynumber: 5.2 Consensus size: 89
46458274 ACTCTATTGC
* * * * * * * *
46458284 AACTTCAGAGAGATAAGACTTGTAGCTTAAATCTGCTCCGCTGCAACTTCAGGGAGATAAGAATA
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
* * * *
46458349 G-TAACTTCATTCTGCTCTACTGC
66 GTTATCTTCAATCTGCTCCACTGT
* * ** * *
46458372 ATCTTTAGGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
* *
46458437 GTTATCTTTAATCTGTTCCACTGT
66 GTTATCTTCAATCTGCTCCACTGT
* * * *
46458461 ACCTTCAGGGAGATAAGACCTATAACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGGTTT
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
* * *
46458526 GCTATCTTCAATCTACTCCACTAT
66 GTTATCTTCAATCTGCTCCACTGT
* * * * * * *
46458550 AACTTCAGGGAGTTGAGA-TTCGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTT-ATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
* * *
46458614 TG-TAACTTCAATCTACTCCACTGC
65 TGTTATCTTCAATCTGCTCCACTGT
* * ** **** ** * * *
46458638 ATCTTTAGAAAGATAAGA-TT-TGTGGT-AATCCACTCCTCTACAACTTCAGAG-GTATGAGATT
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAG-ATAAGATT
* * *
46458699 TG-TAACTTCAATCTACTCCACTGC
65 TGTTATCTTCAATCTGCTCCACTGT
*
46458723 AACTTCAGAGAGATAAGA
1 AACTTCAGGGAGATAAGA
46458741 TTTGTTATTT
Statistics
Matches: 302, Mismatches: 64, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
84 1 0.00
85 64 0.21
86 2 0.01
88 89 0.29
89 146 0.48
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (89 bp):
AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
GTTATCTTCAATCTGCTCCACTGT
Found at i:46458967 original size:44 final size:44
Alignment explanation
Indices: 46458904--46459017 Score: 174
Period size: 44 Copynumber: 2.6 Consensus size: 44
46458894 CTTCTACCTG
46458904 CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
* * * *
46458948 CTCTACTGCAACTTTAGGGAGATAACGTTAATGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
* *
46458992 CTCCACTGTAACTTCGGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
46459018 ATTCGCCATG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
Found at i:46463095 original size:67 final size:67
Alignment explanation
Indices: 46462987--46463121 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
46462977 TTGTCTACTA
* * * *
46462987 AGGTGTCGATATGGGGCAATGGAAAATTGTCTTTCAGGTTGGCTTTGTTCAAATCCCTATAGTCT
1 AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCCTTGTTCAAATCCCTATAGTCT
46463052 AT
66 AT
46463054 AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCCTTGTTCAAATCCCTATAGTCT
1 AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCCTTGTTCAAATCCCTATAGTCT
46463119 AT
66 AT
46463121 A
1 A
46463122 CACATCCGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (67 bp):
AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCCTTGTTCAAATCCCTATAGTCT
AT
Found at i:46464161 original size:20 final size:20
Alignment explanation
Indices: 46464136--46464175 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
46464126 TTACATATAT
46464136 GGCCTTGCCCTGATACTTAA
1 GGCCTTGCCCTGATACTTAA
46464156 GGCCTTGCCCTGATACTTAA
1 GGCCTTGCCCTGATACTTAA
46464176 TAAGCCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (20 bp):
GGCCTTGCCCTGATACTTAA
Found at i:46466253 original size:16 final size:15
Alignment explanation
Indices: 46466212--46466259 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
46466202 AAGCTAATTG
* *
46466212 TAAAATAAATAAATA
1 TAAAAAAAATAAAAA
*
46466227 TATAAAAAATAAAAA
1 TAAAAAAAATAAAAA
46466242 TAAAACAAAATAAAAA
1 TAAAA-AAAATAAAAA
46466258 TA
1 TA
46466260 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:46466290 original size:23 final size:23
Alignment explanation
Indices: 46466231--46466282 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
46466221 TAAATATATA
*
46466231 AAAAATA-AAAATAAAACAAAAT
1 AAAAATATTAAATAAAACAAAAT
46466253 AAAAATATTAAATAAAACAAAAT
1 AAAAATATTAAATAAAACAAAAT
46466276 AAGAAAT
1 AA-AAAT
46466283 GATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAAATATTAAATAAAACAAAAT
Found at i:46466292 original size:3 final size:3
Alignment explanation
Indices: 46466284--46466444 Score: 152
Period size: 3 Copynumber: 54.7 Consensus size: 3
46466274 ATAAGAAATG
* * *
46466284 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A-A A-A ATA ACA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
46466330 GTA A-A AAA ATA A-A ATA A-A ACA ATA GTA ATA ATA ATG ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
46466375 ATA ATAA ATT ATA ATA GTAA ATA ATA ATA ATA GTA ATA ATA ATA ATG
1 ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
46466422 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
46466445 GATGATGATG
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
2 10 0.08
3 115 0.88
4 5 0.04
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:46466449 original size:3 final size:3
Alignment explanation
Indices: 46466443--46466531 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
46466433 AATAATAATA
46466443 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
46466491 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
46466532 AATAAATAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:46466606 original size:3 final size:3
Alignment explanation
Indices: 46466530--46466588 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
46466520 GATGATGATG
* *
46466530 ATA ATAA ATA ATA ATA GTA ATA ATA ATA ATC ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
46466576 ATA GTA ATA ATA A
1 ATA ATA ATA ATA A
46466589 CAACGATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46468370 original size:22 final size:22
Alignment explanation
Indices: 46468330--46468372 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46468320 CACTAAGTCA
**
46468330 ACAGGATGGCTCAACGCCGTAG
1 ACAGGATGGCGAAACGCCGTAG
*
46468352 ACAGGATGGCGAAAGGCCGTA
1 ACAGGATGGCGAAACGCCGTA
46468373 AATATCGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.35, T:0.12
Consensus pattern (22 bp):
ACAGGATGGCGAAACGCCGTAG
Found at i:46470148 original size:39 final size:41
Alignment explanation
Indices: 46470105--46470189 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 41
46470095 CTAAGCCCAT
** *
46470105 TACAGATTCAGATACAGTTTA-GGCCTTAGCCTATC-CAGA
1 TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
* *
46470144 TACAGTTTCAGATATAAATTAGGGCCTTAGCCCATCTCAGA
1 TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
46470185 TACAG
1 TACAG
46470190 TATGCATACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 17 0.44
40 13 0.33
41 9 0.23
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (41 bp):
TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
Found at i:46477678 original size:13 final size:13
Alignment explanation
Indices: 46477662--46477724 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
46477652 TTTAAATCAA
*
46477662 ACTTTTTAAAAAC
1 ACTTTTTAAAAGC
* * *
46477675 ACTTCTCAAAAGT
1 ACTTTTTAAAAGC
* *
46477688 ACTTTTTCATAGC
1 ACTTTTTAAAAGC
* *
46477701 ACTCTTTAAAAGT
1 ACTTTTTAAAAGC
46477714 ACTTTTTAAAA
1 ACTTTTTAAAA
46477725 ATATTGCCAA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:46477692 original size:26 final size:26
Alignment explanation
Indices: 46477662--46477725 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
46477652 TTTAAATCAA
46477662 ACTTTTTAAAAACACT-TCTCAAAAGT
1 ACTTTTTAAAAACACTCT-TCAAAAGT
* * * *
46477688 ACTTTTTCATAGCACTCTTTAAAAGT
1 ACTTTTTAAAAACACTCTTCAAAAGT
46477714 ACTTTTTAAAAA
1 ACTTTTTAAAAA
46477726 TATTGCCAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (26 bp):
ACTTTTTAAAAACACTCTTCAAAAGT
Found at i:46478509 original size:14 final size:14
Alignment explanation
Indices: 46478490--46478517 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46478480 TTTGGGTAAA
46478490 AGTACCATAGAGGT
1 AGTACCATAGAGGT
46478504 AGTACCATAGAGGT
1 AGTACCATAGAGGT
46478518 CTTTGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (14 bp):
AGTACCATAGAGGT
Found at i:46486217 original size:54 final size:54
Alignment explanation
Indices: 46486158--46486266 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
46486148 GGAAGGGTGA
* * * *
46486158 TGATGTTACTTTCAGTGAAGGTGGTGAGATTGATA-AATATGGTGAGGAGGAGGT
1 TGATGTTACTGTCAATGAAGGTGGTAAGAGTGATAGAA-ATGGTGAGGAGGAGGT
* * *
46486212 TGATGTTGCTGTCAATGAAGGTGGTAAGAGTGATAGAAGTGGTGAGGAGGGGGT
1 TGATGTTACTGTCAATGAAGGTGGTAAGAGTGATAGAAATGGTGAGGAGGAGGT
46486266 T
1 T
46486267 AGGGAAGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 45 0.96
55 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.40, T:0.29
Consensus pattern (54 bp):
TGATGTTACTGTCAATGAAGGTGGTAAGAGTGATAGAAATGGTGAGGAGGAGGT
Found at i:46487806 original size:158 final size:157
Alignment explanation
Indices: 46487519--46487908 Score: 372
Period size: 158 Copynumber: 2.5 Consensus size: 157
46487509 ATGCATTCAA
* * * * * * *
46487519 CCTAACACAACGGGAACACATGTATATCTTAAACACTTTTTCATTGTCAATTCCAAAATATTAAA
1 CCTAACACAACTGGAGCACAGGTATATCGTAAACACTTTTT-AATGTCAATTCAAAAATATTTAA
* * ** * * *
46487584 ATCTAATTTGGGTTTTGATTTTTTTAGTCCTAGTTTAGTACGAGTACGAGAACCAGAAGCCCAAA
65 ATCTAATTTGGGTTCTAACATTTTTAGGCCTAGTCTAGTACGAGTACGAAAACCAGAAGCCCAAA
* * * * **
46487649 AAATAACAATATAACAACATGCATTTTT
130 AAAGAACAACAGAACAACACGCATTTAG
* * * *
46487677 CCTAATACAACTGGAGCATAGGTATATCGTATACACTATTTTAATGTCAATTCAAAAATATTTTA
1 CCTAACACAACTGGAGCACAGGTATATCGTAAACACT-TTTTAATGTCAATTCAAAAATATTTAA
* * *
46487742 ATCTAATTTGGGGTTCTAACATTTTT-GGCCTTAGTCTGGTACGAGTAC-ACAAACTATAAG-CC
65 ATCTAATTT-GGGTTCTAACATTTTTAGGCC-TAGTCTAGTACGAGTACGA-AAACCAGAAGCCC
* * *
46487804 AAAAGAGAACAACAGAACATCACGCGTTTAG
127 AAAAAAGAACAACAGAACAACACGCATTTAG
* * * * * * *
46487835 CTTAACACAATTGGATCACAGGTATATTGTAAACACTTTTTTAATGTCAATTCTAAATTACTTAA
1 CCTAACACAACTGGAGCACAGGTATATCGTAAACAC-TTTTTAATGTCAATTCAAAAATATTTAA
46487900 ATCTAATTT
65 ATCTAATTT
46487909 AAGGTTCTGA
Statistics
Matches: 186, Mismatches: 41, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
158 147 0.79
159 39 0.21
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (157 bp):
CCTAACACAACTGGAGCACAGGTATATCGTAAACACTTTTTAATGTCAATTCAAAAATATTTAAA
TCTAATTTGGGTTCTAACATTTTTAGGCCTAGTCTAGTACGAGTACGAAAACCAGAAGCCCAAAA
AAGAACAACAGAACAACACGCATTTAG
Found at i:46491526 original size:16 final size:16
Alignment explanation
Indices: 46491505--46491535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46491495 GATATTTTAA
46491505 TATATTATATTAATAT
1 TATATTATATTAATAT
*
46491521 TATATTATGTTAATA
1 TATATTATATTAATA
46491536 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:46491632 original size:12 final size:12
Alignment explanation
Indices: 46491615--46491645 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46491605 GAAGCAGGGG
46491615 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
46491627 AGAAAAAGGGAA
1 AGAAAAAGAGAA
46491639 AGAAAAA
1 AGAAAAA
46491646 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:46492203 original size:22 final size:22
Alignment explanation
Indices: 46492153--46492203 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
46492143 GAAGCATCAG
*
46492153 CATCGAAAGGAAAGGAGAAAGT
1 CATCGAGAGGAAAGGAGAAAGT
46492175 CATCGAGAGGAAAGGAGAAAGT
1 CATCGAGAGGAAAGGAGAAAGT
46492197 CATCGAG
1 CATCGAG
46492204 GACTAAAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.33, T:0.10
Consensus pattern (22 bp):
CATCGAGAGGAAAGGAGAAAGT
Found at i:46494120 original size:82 final size:82
Alignment explanation
Indices: 46494025--46494184 Score: 266
Period size: 82 Copynumber: 2.0 Consensus size: 82
46494015 TTTGTTGAAA
* * *
46494025 TGGTTAACATTTTACTGCTATAGGATCATTTTGTTAGCATAACATATTTTGTTTGTTTTTTTAAA
1 TGGTTAACATTTTACTGCTATAGGATCATTTTGTTAGAATAACATATTTTGTTTGTTATTTGAAA
46494090 TGATTTATTGAAATGGT
66 TGATTTATTGAAATGGT
* *
46494107 TGGTTAACATTTTATTGCTATAGGATCATTTTGTTTGAATAACATATTTTGTTTGTTATTTGAAA
1 TGGTTAACATTTTACTGCTATAGGATCATTTTGTTAGAATAACATATTTTGTTTGTTATTTGAAA
*
46494172 TGATTTGTTGAAA
66 TGATTTATTGAAA
46494185 AATGTATACT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (82 bp):
TGGTTAACATTTTACTGCTATAGGATCATTTTGTTAGAATAACATATTTTGTTTGTTATTTGAAA
TGATTTATTGAAATGGT
Found at i:46500629 original size:18 final size:20
Alignment explanation
Indices: 46500608--46500664 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
46500598 TAAAATATAA
*
46500608 AATTTTTATAAA-TA-TTTT
1 AATTTTTAAAAATTATTTTT
*
46500626 AATTTTAAAAAATTATTTTT
1 AATTTTTAAAAATTATTTTT
*
46500646 AATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
46500665 GTGTTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.30
19 2 0.06
20 21 0.64
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTT
Found at i:46520485 original size:29 final size:29
Alignment explanation
Indices: 46520422--46520489 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46520412 TAATCAACCA
46520422 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46520451 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46520480 CGCACACTTA
1 CGCACACTTA
46520490 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46520632 original size:29 final size:30
Alignment explanation
Indices: 46520598--46520669 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
46520588 ATCAACCGCG
*
46520598 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
46520627 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
46520656 CACACTTAGTGCCA
1 CACACTTAGTGCCA
46520670 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:46527974 original size:29 final size:30
Alignment explanation
Indices: 46527935--46528013 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
46527925 CTTAATAATC
46527935 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
46527965 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46527994 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46528014 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46530177 original size:43 final size:43
Alignment explanation
Indices: 46530112--46530286 Score: 158
Period size: 43 Copynumber: 4.1 Consensus size: 43
46530102 TGTATATAGA
* *
46530112 CATCGATATGTGATTATATGTAAGACCATGTCTGGGACGTTGG
1 CATCGATATGTGATTATATGTAAGACCACGTCTGGGACATTGG
* * *
46530155 CATCGATATGTGGTTATGTGTAAGACCACGTTTGGGACATTGG
1 CATCGATATGTGATTATATGTAAGACCACGTCTGGGACATTGG
* * * * * * *
46530198 CATCTATATGTGTTTACGAT-TAAGACC-CTATTTGGGATAGTGG
1 CATCGATATGTGATTA-TATGTAAGACCAC-GTCTGGGACATTGG
* * * *
46530241 CATCGTTATGAGATTACATGTAAGACCACGT-TAGGGACGTTGG
1 CATCGATATGTGATTATATGTAAGACCACGTCT-GGGACATTGG
46530284 CAT
1 CAT
46530287 TGTACCATAT
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
42 4 0.04
43 100 0.94
44 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
CATCGATATGTGATTATATGTAAGACCACGTCTGGGACATTGG
Found at i:46534341 original size:38 final size:38
Alignment explanation
Indices: 46534288--46534508 Score: 313
Period size: 38 Copynumber: 5.8 Consensus size: 38
46534278 GGCACGAAGG
* * * *
46534288 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
46534326 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
46534364 CCTGGATATATTA-CAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
46534401 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
** *
46534439 CCCAAATATATTACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
46534477 CTCGGATATAATT-CCAGCA-TATAGCCTGCGGG
1 CCCGGATAT-ATTACCAGCACGA-AGCCTGCGGG
46534509 TCTTTAGGCC
Statistics
Matches: 167, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
37 37 0.22
38 127 0.76
39 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:46534392 original size:75 final size:76
Alignment explanation
Indices: 46534292--46534508 Score: 314
Period size: 75 Copynumber: 2.9 Consensus size: 76
46534282 CGAAGGCCCG
* * *
46534292 AATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
**
46534357 GATTTAACCTG
66 GATTTAACCCA
*
46534368 GATATATTA-CAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
46534432 GATTTAACCCA
66 GATTTAACCCA
* * *
46534443 AATATATTACCAGCATGAAGCCTGCGGGATTTAACTCGGATATAATT-CCAGCA-TATAGCCTGC
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATTACCAGCACGA-AGCCTGC
46534506 GGG
64 GGG
46534509 TCTTTAGGCC
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
75 71 0.55
76 54 0.42
77 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (76 bp):
AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
GATTTAACCCA
Found at i:46534436 original size:113 final size:114
Alignment explanation
Indices: 46534288--46534508 Score: 322
Period size: 113 Copynumber: 1.9 Consensus size: 114
46534278 GGCACGAAGG
* * **
46534288 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCT
46534353 GCGGGATTTAAC-CTGGATAT-ATTACAGCACGA-AGCCTGCGGGATTTAA
66 GCGGGATTTAACTC-GGATATAATTACAGCA-GATAGCCTGCGGGATTTAA
* * *
46534401 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCATGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCT
* *
46534466 GCGGGATTTAACTCGGATATAATTCCAGCATATAGCCTGCGGG
66 GCGGGATTTAACTCGGATATAATTACAGCAGATAGCCTGCGGG
46534509 TCTTTAGGCC
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
113 77 0.80
114 19 0.20
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (114 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCT
GCGGGATTTAACTCGGATATAATTACAGCAGATAGCCTGCGGGATTTAA
Found at i:46538878 original size:93 final size:93
Alignment explanation
Indices: 46538764--46538935 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46538754 CGCCCATAAG
* * *
46538764 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46538829 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
46538857 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46538922 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46538936 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:46538932 original size:46 final size:46
Alignment explanation
Indices: 46538757--46538932 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
46538747 TGTAACCCGC
* * * *
46538757 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
46538803 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
46538853 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46538896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
46538933 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46538951 original size:46 final size:46
Alignment explanation
Indices: 46538806--46538944 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
46538796 TTCGCATCCA
46538806 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
46538854 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
46538899 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
46538945 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:46541458 original size:18 final size:19
Alignment explanation
Indices: 46541437--46541478 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
46541427 TTAATCAACC
46541437 AATAAAAAACTTAAAG-AA
1 AATAAAAAACTTAAAGCAA
**
46541455 AAT-AAACTCTTAAAGCAA
1 AATAAAAAACTTAAAGCAA
46541473 AATAAA
1 AATAAA
46541479 TTGATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 8 0.40
19 2 0.10
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.19
Consensus pattern (19 bp):
AATAAAAAACTTAAAGCAA
Found at i:46542671 original size:244 final size:243
Alignment explanation
Indices: 46542243--46542723 Score: 845
Period size: 244 Copynumber: 2.0 Consensus size: 243
46542233 AAATCTGATT
*
46542243 TCATACTTTTTGATCTTACCACTACCTTTGGGCAGGTAGACTATGCCTATTACTTAACTCAGAGT
1 TCATACTTTTTGATCTTACCACTACCTTTGGGCAGGTAGACTATGCCCATTACTTAACTCAGAGT
* * *
46542308 TCATAAGGATCTTCCTTACTTTAGATTACTATTTTTACCTTCCCTTAACTTACATCCCGAATTTG
66 TCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATCCCAAATTCG
* * *
46542373 CCAGATGTTTTGGCGTCTTCTAGTTTCACTGTTCATTTCTCATTACTAGACAAGTTCGCCATTTT
131 CCACATGTTTTGGCGTCTTCTAGTTTCACTGTTCATCTCTCATTACTAGACAAGTTCGCCATTTC
* *
46542438 GTTTACATATAGAGTGTTTCTTTCAGAGTTCGCTGGATATAAAAATTC
196 GTTTACATATAGAGTCTTTCTTTCAGAGTTCGATGGATATAAAAATTC
46542486 TCATACTTTTTGATCTTACCACTACCTTTGGGCAAGGTAGACTATGCCCATTACTTAACTCAGAG
1 TCATACTTTTTGATCTTACCACTACCTTTGGGC-AGGTAGACTATGCCCATTACTTAACTCAGAG
*
46542551 TTCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATGCCAAATTC
65 TTCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATCCCAAATTC
*
46542616 GCCACATGTTTTGGCGTCTTCTAGTTTCACTGTTTATCTCTCATTACTAGACAAGTTCGCCATTT
130 GCCACATGTTTTGGCGTCTTCTAGTTTCACTGTTCATCTCTCATTACTAGACAAGTTCGCCATTT
*
46542681 CGTTTACATATAGAGTCTTTCTTTCAGAGTTCTATGGATATAA
195 CGTTTACATATAGAGTCTTTCTTTCAGAGTTCGATGGATATAA
46542724 GAGTTTCCTG
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
243 33 0.15
244 192 0.85
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (243 bp):
TCATACTTTTTGATCTTACCACTACCTTTGGGCAGGTAGACTATGCCCATTACTTAACTCAGAGT
TCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATCCCAAATTCG
CCACATGTTTTGGCGTCTTCTAGTTTCACTGTTCATCTCTCATTACTAGACAAGTTCGCCATTTC
GTTTACATATAGAGTCTTTCTTTCAGAGTTCGATGGATATAAAAATTC
Found at i:46542728 original size:17 final size:18
Alignment explanation
Indices: 46542706--46542746 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46542696 TCTTTCTTTC
46542706 AGAGTTCT-ATGGATATA
1 AGAGTTCTCATGGATATA
*
46542723 AGAGTT-TCCTGGATATA
1 AGAGTTCTCATGGATATA
*
46542740 AAAGTTC
1 AGAGTTC
46542747 CTCCTACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (18 bp):
AGAGTTCTCATGGATATA
Found at i:46543116 original size:29 final size:28
Alignment explanation
Indices: 46543084--46543153 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
46543074 TCTACTTTAG
*
46543084 AGGCATTCCTTTAATAGAGATC-ACCATGA
1 AGGCATTCCTTTAAT--AGATCTACCATAA
*
46543113 AGGCATTTCCTTTCATAGATCTACCATAA
1 AGGCA-TTCCTTTAATAGATCTACCATAA
46543142 AGGCATTCCTTT
1 AGGCATTCCTTT
46543154 TCATTCAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 12 0.32
29 16 0.43
30 9 0.24
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (28 bp):
AGGCATTCCTTTAATAGATCTACCATAA
Found at i:46543155 original size:29 final size:29
Alignment explanation
Indices: 46543084--46543185 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 29
46543074 TCTACTTTAG
* *
46543084 AGGCATTCCTTTAAT-AGAGATC-ACCATGA
1 AGGCATTCCTTT--TCATAGATCTACCATAA
46543113 AGGCATTTCC-TTTCATAGATCTACCATAA
1 AGGCA-TTCCTTTTCATAGATCTACCATAA
*
46543142 AGGCATTCCTTTTCATTCAGTACTCT-CCATAT
1 AGGCATTCCTTTTCA-T-AG-A-TCTACCATAA
46543174 AGGCATTCCTTT
1 AGGCATTCCTTT
46543186 AAGAGATTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
27 1 0.02
28 10 0.16
29 23 0.37
30 5 0.08
31 2 0.03
32 18 0.29
33 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (29 bp):
AGGCATTCCTTTTCATAGATCTACCATAA
Found at i:46543310 original size:62 final size:61
Alignment explanation
Indices: 46543240--46543368 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 61
46543230 GATTTACCTT
* * *
46543240 TCCAGAGTTTTGCCACAAAGGCAATCTTTAACATTCAGTACTCACTACAAAAGGCTTTTCTG
1 TCCAGAGTTTTACCACAAAGGCAATCTTTAACATCCAGTACTCACCACAAAA-GCTTTTCTG
* * *** * * *
46543302 TCCAGAGTTTTACCATAAGGGTTTTCTTTTACATCCAGTACTCGCCACAAAAGCTTTTTTG
1 TCCAGAGTTTTACCACAAAGGCAATCTTTAACATCCAGTACTCACCACAAAAGCTTTTCTG
46543363 TCCAGA
1 TCCAGA
46543369 AGTTCACCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
61 14 0.25
62 42 0.75
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (61 bp):
TCCAGAGTTTTACCACAAAGGCAATCTTTAACATCCAGTACTCACCACAAAAGCTTTTCTG
Found at i:46544007 original size:30 final size:30
Alignment explanation
Indices: 46543967--46544038 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
46543957 ACCAGCAGGT
*
46543967 TTCATGCATTACATGCTCTTATGCTT-ATCC
1 TTCATACATTACATGCTCTTATG-TTCATCC
*
46543997 TTCATACATTAAATGCTCTTATGTTCATCC
1 TTCATACATTACATGCTCTTATGTTCATCC
46544027 TTCATACATTAC
1 TTCATACATTAC
46544039 TTTTCTTAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (30 bp):
TTCATACATTACATGCTCTTATGTTCATCC
Found at i:46546381 original size:20 final size:20
Alignment explanation
Indices: 46546329--46546397 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
46546319 AAGGAGGAAA
* * *
46546329 TACTGGCAGTTTATCTACAT
1 TACTGGCAGCTTGTCCACAT
* * *
46546349 TACTAGTAACTTGTCCACAT
1 TACTGGCAGCTTGTCCACAT
* **
46546369 TATTGGCAGCTTGTCTGCAT
1 TACTGGCAGCTTGTCCACAT
46546389 TACTGGCAG
1 TACTGGCAG
46546398 TTTATTTGTA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (20 bp):
TACTGGCAGCTTGTCCACAT
Found at i:46553295 original size:22 final size:22
Alignment explanation
Indices: 46553270--46553326 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 22
46553260 GAATTATATA
46553270 TTAATATATATATTTTT-ATTT
1 TTAATATATATATTTTTAATTT
* *
46553291 TT--TAAAT-TATTTTAAATTT
1 TTAATATATATATTTTTAATTT
46553310 TTAATATA-ACTATTTTT
1 TTAATATATA-TATTTTT
46553327 TATTATATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
21 5 0.19
22 6 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTAATATATATATTTTTAATTT
Found at i:46553387 original size:21 final size:22
Alignment explanation
Indices: 46553361--46553419 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
46553351 GTTTTAAGAA
*
46553361 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
46553382 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
46553404 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
46553420 GATTATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:46553434 original size:25 final size:24
Alignment explanation
Indices: 46553390--46553438 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
46553380 ATTTGTTTTA
* *
46553390 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTATTATATTTTTAAAT
46553414 ATATTTGATTATTATATTTTTAAAT
1 ATATTTG-TTATTATATTTTTAAAT
46553439 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTATTATATTTTTAAAT
Found at i:46553581 original size:6 final size:5
Alignment explanation
Indices: 46553552--46553582 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
46553542 CCCATATTTT
46553552 GGGCC GGGCC GGGCC GGGCC GGGCCC GGGCC
1 GGGCC GGGCC GGGCC GGGCC GGG-CC GGGCC
46553583 TAGGCCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:46555072 original size:12 final size:12
Alignment explanation
Indices: 46555055--46555098 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
46555045 AGGACGACAC
*
46555055 GGCTCAGGCTCA
1 GGCTCAAGCTCA
*
46555067 GGCTCAAGCGCA
1 GGCTCAAGCTCA
46555079 GGCTCAAGCTCA
1 GGCTCAAGCTCA
*
46555091 AGCTCAAG
1 GGCTCAAG
46555099 AGCATGCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.30, T:0.14
Consensus pattern (12 bp):
GGCTCAAGCTCA
Found at i:46555082 original size:18 final size:18
Alignment explanation
Indices: 46555059--46555093 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46555049 CGACACGGCT
*
46555059 CAGGCTCAGGCTCAAGCG
1 CAGGCTCAAGCTCAAGCG
46555077 CAGGCTCAAGCTCAAGC
1 CAGGCTCAAGCTCAAGC
46555094 TCAAGAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.29, T:0.11
Consensus pattern (18 bp):
CAGGCTCAAGCTCAAGCG
Found at i:46555097 original size:6 final size:6
Alignment explanation
Indices: 46555056--46555098 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
46555046 GGACGACACG
* * * *
46555056 GCTCAG GCTCAG GCTCAA GCGCAG GCTCAA GCTCAA GCTCAA G
1 GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA G
46555099 AGCATGCTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.14
Consensus pattern (6 bp):
GCTCAA
Found at i:46560093 original size:18 final size:18
Alignment explanation
Indices: 46560069--46560112 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
46560059 CTAACATTAT
46560069 TTCTTTTTGTTCTTC-TTTC
1 TTCTTTTT-TT-TTCATTTC
46560088 -TCTTTTTTTTTCATTTC
1 TTCTTTTTTTTTCATTTC
46560105 TTCTTTTT
1 TTCTTTTT
46560113 CTTCCTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 6 0.26
18 14 0.61
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (18 bp):
TTCTTTTTTTTTCATTTC
Found at i:46563178 original size:20 final size:20
Alignment explanation
Indices: 46563135--46563180 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
46563125 ACTGTTTTAT
*
46563135 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATCAA
* *
46563154 AATGGGCCCAACTGTGTCAA
1 TATGGGCCCAACTGTATCAA
46563174 TATGGGC
1 TATGGGC
46563181 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTATCAA
Found at i:46568189 original size:16 final size:16
Alignment explanation
Indices: 46568170--46568201 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46568160 AATTGTTTTA
46568170 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
46568186 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
46568202 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:46568487 original size:50 final size:50
Alignment explanation
Indices: 46568412--46568789 Score: 304
Period size: 50 Copynumber: 7.5 Consensus size: 50
46568402 CTGTTACGCA
*
46568412 TAGTAGCTTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
** * * * * *
46568462 TAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
** * ** *
46568512 TAGTAGCCTGCACTGT-GTACTACACACGTGATCAAAGT-T-AA-CGGGTATGCA
1 TAGTAGCCTGCACT-TAGTACTACACA--TG--CAACCTATCAATCTGGTACACG
** *
46568563 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
* * * * *
46568613 TAGTAGCCTACACTTAGTACTTCACACATG--ACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTAC-T-ACACATGCAACCTATCAATCTGGTACACG
* * * ** * * * *
46568663 TAGTAGCCTACATTTAGTACTACACACATG-ATCGAAGTTAAT-GGGTACGCA
1 TAGTAGCCTGCACTTAGTACT--ACACATGCAACCTA-TCAATCTGGTACACG
* *
46568714 TAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
*
46568764 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
46568790 CGTGACTCAC
Statistics
Matches: 255, Mismatches: 57, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
47 2 0.01
48 1 0.00
49 15 0.06
50 167 0.65
51 56 0.22
52 12 0.05
54 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
Found at i:46568683 original size:151 final size:151
Alignment explanation
Indices: 46568406--46568796 Score: 613
Period size: 151 Copynumber: 2.6 Consensus size: 151
46568396 AGCTCTCTGT
* *
46568406 TACGCATAGTAGCTTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
* * *
46568471 GCACTTAGTACTACACATGTGACTTAACCATTTGATACACGTAGTAGCCTGCACTGTGTACTACA
66 GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTGTGTACTACA
*
46568536 CACGTGATCAAAGTTAACGGG
131 CACATGATCAAAGTTAACGGG
* * *
46568557 TATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACATAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
* * * *
46568622 ACACTTAGTACTTCACACATGACTTAACCATCTGATACACGTAGTAGCCTACA-TTTAGTACTAC
66 GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTGT-GTACTAC
* *
46568686 ACACATGATCGAAGTTAATGGG
130 ACACATGATCAAAGTTAACGGG
* *
46568708 TACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACGTAGTAGCTT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
46568773 GCACTTAGTACTACACACGTGACT
66 GCACTTAGTACTACACACGTGACT
46568797 CACAACGGAT
Statistics
Matches: 216, Mismatches: 23, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
150 2 0.01
151 214 0.99
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (151 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTGTGTACTACA
CACATGATCAAAGTTAACGGG
Found at i:46568710 original size:101 final size:100
Alignment explanation
Indices: 46568605--46568790 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 100
46568595 CTATCAATCT
* *
46568605 GGTACACATAGTAGCCTACACTTAGTACTTCACACAT-GACTTAACCATCTGATACACGTAGTAG
1 GGTACACATAGTAGCCTACACTTAGTAC-T-ACACATCGACCTAACAATCTGATACACGTAGTAG
*
46568669 CCTACATTTAGTACTACACACATGATCGAAGTTAATG
64 CCTACACTTAGTACTACACACATGATCGAAGTTAATG
* * * * *
46568706 GGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTACACTTAGTACTACACAT-CGACCTAACAATCTGATACACGTAGTAGC
* *
46568771 TTGCACTTAGTACTACACAC
65 CTACACTTAGTACTACACAC
46568791 GTGACTCACA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 5 0.07
100 1 0.01
101 67 0.92
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
GGTACACATAGTAGCCTACACTTAGTACTACACATCGACCTAACAATCTGATACACGTAGTAGCC
TACACTTAGTACTACACACATGATCGAAGTTAATG
Found at i:46569171 original size:19 final size:20
Alignment explanation
Indices: 46569143--46569189 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
46569133 AAGAACATGT
46569143 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
46569164 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
46569183 TATATAT
1 TATATAT
46569190 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:46576267 original size:58 final size:56
Alignment explanation
Indices: 46576196--46576335 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 56
46576186 TTATAGAAAA
* * *
46576196 GATTTAGTCTGGACGGGTAATCCTGATATAA-TTCCTCTCGAGCATA-TGATACAATTAG
1 GATTTAGCCTGGACTGGTAATCCTGAT-TAAGCTCCTCT-GAGCATACTGATACAA--AG
* * * *
46576254 GATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGCATACGTTATATAAAG
1 GATTTAGCCTGGACTGGTAATCCTGATTAAGCTCCTCTGAGCATAC-TGATACAAAG
46576311 GATTTAGCCTGGACTGGTAATCCTG
1 GATTTAGCCTGGACTGGTAATCCTG
46576336 TAATACAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
57 36 0.51
58 29 0.41
59 6 0.08
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (56 bp):
GATTTAGCCTGGACTGGTAATCCTGATTAAGCTCCTCTGAGCATACTGATACAAAG
Found at i:46578689 original size:42 final size:43
Alignment explanation
Indices: 46578587--46578748 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
46578577 ATCTTGTACA
* * *
46578587 ATGCCAATGTCCCAAACGTGGTCTTACATG-TAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAATCAAATAT-G
* * *
46578630 ATGCCACTATCCTAGACAG-GGTCTTACAC-AAAATCAAATATG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAAATCAAATATG
* * *
46578672 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAATCA-AA-TATG
*
46578716 ATGCCAACGTCCC-GACGTGGTCTTACACGAAAA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAA
46578749 CACATATTGG
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 25 0.26
43 56 0.57
44 16 0.16
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAAATCAAATATG
Found at i:46582107 original size:18 final size:18
Alignment explanation
Indices: 46582084--46582123 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
46582074 GAAATTGAGA
46582084 TATTGATGCA-AGTGACAC
1 TATTGATG-ATAGTGACAC
*
46582102 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACAC
46582120 TATT
1 TATT
46582124 AATTGTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (18 bp):
TATTGATGATAGTGACAC
Found at i:46586918 original size:49 final size:48
Alignment explanation
Indices: 46586851--46586979 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 48
46586841 TTTTGTGTGT
* *
46586851 CAGTGTAAGACTTGTCTGGGACATGGCATC-TACACTGATGGATGAGAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGT-CAC-GATAGATGAAAGC
* * * *
46586900 CAGTGTAAGACCTGTCTGGGACACGGCATCGGTCTCGATATATGAAAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATC-GTCACGATAGATGAAAGC
* *
46586949 CAGTGTAAGACTTTTCTAGGACATGGCATCG
1 CAGTGTAAGACTTGTCTGGGACATGGCATCG
46586980 ACTTTGATGT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 64 0.94
50 2 0.03
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACTTGTCTGGGACATGGCATCGTCACGATAGATGAAAGC
Found at i:46595178 original size:47 final size:47
Alignment explanation
Indices: 46595116--46595210 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
46595106 AATTCATATA
* *
46595116 GTCATTCATTTCCTCAGAATGCCAGTTGAACTATTCGGAATCATAAG
1 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCAGAATCATAAG
46595163 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCAGAATCATAAG
1 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCAGAATCATAAG
46595210 G
1 G
46595211 ATACGTGGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (47 bp):
GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCAGAATCATAAG
Found at i:46595342 original size:42 final size:43
Alignment explanation
Indices: 46595252--46595361 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
46595242 GTTAAGGTCT
* *
46595252 TAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCC
1 TAGACATGGTCTTACATGAAATCAAATATCGATGCCACTGTCC
* *
46595295 CAGACATGGTCTTACACGAAATCAAATAT-GATGCCGA-TGTCC
1 TAGACATGGTCTTACATGAAATCAAATATCGATGCC-ACTGTCC
46595337 TAGACATGGTCTTACATGTAAATCA
1 TAGACATGGTCTTACATG-AAATCA
46595362 CAAGTCGATG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
TAGACATGGTCTTACATGAAATCAAATATCGATGCCACTGTCC
Found at i:46598087 original size:33 final size:33
Alignment explanation
Indices: 46598038--46598114 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
46598028 AATAACACAA
46598038 TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
1 TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
* *
46598071 TATCAGTATAGTCTGGGCCAAAGCCCTATTCAG
1 TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
46598104 TATCAGTACAG
1 TATCAGTACAG
46598115 TGCAAAATGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
Found at i:46598772 original size:17 final size:19
Alignment explanation
Indices: 46598750--46598795 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
46598740 TTAATCTGCA
46598750 TGGGCCCATA-AGCCCA-T
1 TGGGCCCATACAGCCCATT
*
46598767 TGGGCCCATACGGCCCATT
1 TGGGCCCATACAGCCCATT
*
46598786 TCGGCCCATA
1 TGGGCCCATA
46598796 TAGGCCCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 10 0.40
ACGTcount: A:0.20, C:0.37, G:0.24, T:0.20
Consensus pattern (19 bp):
TGGGCCCATACAGCCCATT
Found at i:46598793 original size:19 final size:17
Alignment explanation
Indices: 46598752--46598795 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
46598742 AATCTGCATG
*
46598752 GGCCCATAAGCCCATTG
1 GGCCCATAAGCCCATTC
*
46598769 GGCCCATACGGCCCATTTC
1 GGCCCATA-AGCCCA-TTC
46598788 GGCCCATA
1 GGCCCATA
46598796 TAGGCCCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.18
Consensus pattern (17 bp):
GGCCCATAAGCCCATTC
Found at i:46616194 original size:20 final size:20
Alignment explanation
Indices: 46616157--46616194 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
46616147 CTAAAGTTCT
*
46616157 CTTCTTTTTCCTCTTTCTCC
1 CTTCTTTTTCCTATTTCTCC
46616177 CTTC-TTTTCCTATCTTCT
1 CTTCTTTTTCCTAT-TTCT
46616195 ATATGTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTCTTTTTCCTATTTCTCC
Found at i:46623887 original size:20 final size:20
Alignment explanation
Indices: 46623859--46623908 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46623849 TATATTATTA
46623859 TTCTATTTTGAAGTTAAAGG
1 TTCTATTTTGAAGTTAAAGG
* * *
46623879 TTCTGTTTTGAAGTTCAATG
1 TTCTATTTTGAAGTTAAAGG
*
46623899 TTCTCTTTTG
1 TTCTATTTTG
46623909 TATAGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (20 bp):
TTCTATTTTGAAGTTAAAGG
Found at i:46625832 original size:7 final size:7
Alignment explanation
Indices: 46625820--46625871 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
46625810 ACCTCATTTG
46625820 ATCCCTC
1 ATCCCTC
46625827 ATCCCTC
1 ATCCCTC
*
46625834 ATCACTC
1 ATCCCTC
* *
46625841 ATCACTG
1 ATCCCTC
*
46625848 ATCCCTT
1 ATCCCTC
46625855 ATCCCTC
1 ATCCCTC
*
46625862 ATCCATC
1 ATCCCTC
46625869 ATC
1 ATC
46625872 ATTCTCTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.21, C:0.46, G:0.02, T:0.31
Consensus pattern (7 bp):
ATCCCTC
Found at i:46625850 original size:28 final size:28
Alignment explanation
Indices: 46625818--46625872 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
46625808 AGACCTCATT
46625818 TGATCCCTCATCCCTCAT-CACTCATCAC
1 TGATCCCTCATCCCTCATCCA-TCATCAC
*
46625846 TGATCCCTTATCCCTCATCCATCATCA
1 TGATCCCTCATCCCTCATCCATCATCA
46625873 TTCTCTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.22, C:0.44, G:0.04, T:0.31
Consensus pattern (28 bp):
TGATCCCTCATCCCTCATCCATCATCAC
Found at i:46628553 original size:126 final size:126
Alignment explanation
Indices: 46628328--46628638 Score: 516
Period size: 126 Copynumber: 2.5 Consensus size: 126
46628318 CTTTTTATTT
* * * * *
46628328 TTTTTCTATAGTAGTATCTGAAAAAATAATTTTGAGAAAACGTTTCTAAAGAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
*
46628393 ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTAAAAAAAGCTCCAACGTGGACGCTC
*
46628454 TTTTTCTACAGTAGTATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * *
46628519 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCAACGTGGACGCTC
66 ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTAAAAAAAGCTCCAACGTGGACGCTC
*
46628580 TTTTTCTACAGAAGTATCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGT
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGT
46628639 AACAGTCTGG
Statistics
Matches: 173, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 39 0.23
126 134 0.77
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTAAAAAAAGCTCCAACGTGGACGCTC
Found at i:46638357 original size:773 final size:773
Alignment explanation
Indices: 46636872--46639190 Score: 4548
Period size: 773 Copynumber: 3.0 Consensus size: 773
46636862 TATGGATTGG
46636872 CTATCGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
1 CTATCGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
* *
46636937 TGAAATTATTTGAATTGAATCAGATGTTTTGAATGGCTTGCCAGCTGTGATTTCAATGATGTTAG
66 TGAAATTATTCGAATTGAATCAGATGTTTTGAACGGCTTGCCAGCTGTGATTTCAATGATGTTAG
46637002 CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
131 CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
46637067 GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
196 GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
46637132 GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
261 GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
*
46637197 CAATAGCTCCGTACAAAATGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
326 CAATAGCTCCGTACAAAACGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
*
46637262 CCAAATAACGCTTCGTACGACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
391 CCAAATAACGCTTCGCACGACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
46637327 AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
456 AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
46637392 ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
521 ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
*
46637457 TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTTAGACATTCCGAAAATTGCTTTC
586 TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTCAGACATTCCGAAAATTGCTTTC
*
46637522 CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAATGAATGCACCTGATAT
651 CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAACGAATGCACCTGATAT
46637587 CTTTATGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
716 CTTTATGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
46637645 CTATCGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
1 CTATCGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
46637710 TGAAATTATTCGAATTGAATCAGATGTTTTGAACGGCTTGCCAGCTGTGATTTCAATGATGTTAG
66 TGAAATTATTCGAATTGAATCAGATGTTTTGAACGGCTTGCCAGCTGTGATTTCAATGATGTTAG
46637775 CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
131 CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
46637840 GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
196 GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
46637905 GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
261 GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
46637970 CAATAGCTCCGTACAAAACGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
326 CAATAGCTCCGTACAAAACGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
*
46638035 CCAAATAACGCTTCGCACAACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
391 CCAAATAACGCTTCGCACGACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
46638100 AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
456 AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
46638165 ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
521 ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
46638230 TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTCAGACATTCCGAAAATTGCTTTC
586 TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTCAGACATTCCGAAAATTGCTTTC
46638295 CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAACGAATGCACCTGATAT
651 CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAACGAATGCACCTGATAT
46638360 CTTTATGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
716 CTTTATGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
*
46638418 CTATTGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
1 CTATCGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
*
46638483 TGAAATTATTCGAATTGAATCAGATATTTTGAACGGCTTGCCAGCTGTGATTTCAATGATGTTAG
66 TGAAATTATTCGAATTGAATCAGATGTTTTGAACGGCTTGCCAGCTGTGATTTCAATGATGTTAG
46638548 CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
131 CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
46638613 GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
196 GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
46638678 GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
261 GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
46638743 CAATAGCTCCGTACAAAACGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
326 CAATAGCTCCGTACAAAACGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
46638808 CCAAATAACGCTTCGCACGACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
391 CCAAATAACGCTTCGCACGACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
46638873 AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
456 AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
46638938 ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
521 ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
46639003 TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTCAGACATTCCGAAAATTGCTTTC
586 TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTCAGACATTCCGAAAATTGCTTTC
46639068 CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAACGAATGCACCTGATAT
651 CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAACGAATGCACCTGATAT
*
46639133 CTTTAAGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
716 CTTTATGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
46639191 TTCATTGATG
Statistics
Matches: 1535, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
773 1535 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (773 bp):
CTATCGATACATGATGCTATTGTGAATTGCAAACGAAAGATGATTGATTTGGGATGTTAGAGTAA
TGAAATTATTCGAATTGAATCAGATGTTTTGAACGGCTTGCCAGCTGTGATTTCAATGATGTTAG
CTCAGAAATATGTAAGAAAGGGTTGCGAAGCTTATTTAGCTTATGTGCTTGACACGAAAGTGACT
GAAAAGAAGATTGAATCAGTGCCAGTTATTTGTGAATATCTAGATATGTTTCCTGATGAGTTATC
GGGTTTACCTCCAATCCGAAAAGTTGAGTTTGGTATCGAATTAATACCGGGAACTACTCTGATAT
CAATAGCTCCGTACAAAACGGCACCAACTAAATTAAAAGAGTTGAAAGCTCAGTTGCAAGAATTG
CCAAATAACGCTTCGCACGACTGAGTTATTCTCCCTGGGGTGCACCGATTTTGTTTGTGAAAAAG
AAAGACGGAACTATGAGAATGTGCATCGATTATCGACAGATCAATAAAGTGACGATCAAGAACAA
ATATCCTTTGCTGCGGATAGATGATTTGTTTGATCAGTTGAAAGGGGCTACAGTGTTTTTAAAGA
TAAATTTGAGATCAAGTTACTATCAGTTGTGAGTAAAAGATTCAGACATTCCGAAAATTGCTTTC
CGAATAAGGTACAGTCACTATGAGTTTTTAGTTATGCCTTTCAGATTAACGAATGCACCTGATAT
CTTTATGGATTTGATGAACATAATTTTCAGATCGTATTTAGATCAATATGTTGTCATA
Found at i:46641263 original size:11 final size:11
Alignment explanation
Indices: 46641249--46641301 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
46641239 AGATAAATAT
46641249 TATTTTATTAA
1 TATTTTATTAA
*
46641260 TATTTTAATAA
1 TATTTTATTAA
* * *
46641271 GATATT-TTAT
1 TATTTTATTAA
*
46641281 TATTTTATTAT
1 TATTTTATTAA
46641292 TATTTTATTA
1 TATTTTATTA
46641302 GTATATAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:46646750 original size:17 final size:17
Alignment explanation
Indices: 46646730--46646763 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46646720 AAGTTTGTAC
46646730 AAAAATATTAATAATAT
1 AAAAATATTAATAATAT
46646747 AAAAATATTAATAATAT
1 AAAAATATTAATAATAT
46646764 CGTCTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATATTAATAATAT
Found at i:46646896 original size:21 final size:21
Alignment explanation
Indices: 46646870--46646931 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
46646860 TAGTTCAGCT
46646870 TCCGGCAGGGGTTGTGGTTGC
1 TCCGGCAGGGGTTGTGGTTGC
*
46646891 TCCGGC-GGGGATTGTGGTTTC
1 TCCGGCAGGGG-TTGTGGTTGC
* *
46646912 TCCGGCAGGGGATCTGGTTG
1 TCCGGCAGGGGTTGTGGTTG
46646932 TGGGTGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.06, C:0.19, G:0.45, T:0.29
Consensus pattern (21 bp):
TCCGGCAGGGGTTGTGGTTGC
Found at i:46647093 original size:18 final size:18
Alignment explanation
Indices: 46647067--46647108 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
46647057 GACTGGGAAA
* *
46647067 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
46647085 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
46647103 AGGATA
1 AGGATA
46647109 TGCAGTTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:46647200 original size:30 final size:30
Alignment explanation
Indices: 46647165--46647231 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
46647155 TGAAGTGTTA
46647165 GGCCCG-GTGATTGTGTGGGCGCTGTTGATG
1 GGCCCGCGT-ATTGTGTGGGCGCTGTTGATG
* **
46647195 GGCCCGCGTCTTGTGTGGGCGCTGTTGACA
1 GGCCCGCGTATTGTGTGGGCGCTGTTGATG
46647225 GGCCCGC
1 GGCCCGC
46647232 ATCGTCATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.06, C:0.25, G:0.43, T:0.25
Consensus pattern (30 bp):
GGCCCGCGTATTGTGTGGGCGCTGTTGATG
Found at i:46649936 original size:20 final size:22
Alignment explanation
Indices: 46649897--46649936 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
46649887 AAAAAGAAAA
*
46649897 TATATAATTTTATATTATTATC
1 TATATAATTTTATATAATTATC
46649919 TATAT-ATTTT-TATAATTA
1 TATATAATTTTATATAATTA
46649937 AATTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATAATTTTATATAATTATC
Found at i:46652253 original size:9 final size:9
Alignment explanation
Indices: 46652234--46652267 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
46652224 TTAAGGTTTG
46652234 AAAAG-AGA
1 AAAAGAAGA
46652242 AAAAGAAGA
1 AAAAGAAGA
46652251 AAAA-AAGA
1 AAAAGAAGA
46652259 AAAAGAAGA
1 AAAAGAAGA
46652268 TGAATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.54
9 11 0.46
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:46652259 original size:17 final size:17
Alignment explanation
Indices: 46652234--46652267 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46652224 TTAAGGTTTG
*
46652234 AAAAGAGAAAAAGAAGA
1 AAAAAAGAAAAAGAAGA
46652251 AAAAAAGAAAAAGAAGA
1 AAAAAAGAAAAAGAAGA
46652268 TGAATATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAGA
Found at i:46653825 original size:143 final size:142
Alignment explanation
Indices: 46653547--46653818 Score: 445
Period size: 143 Copynumber: 1.9 Consensus size: 142
46653537 TGAGATGGAT
* * * *
46653547 TTCATGGGAAATCTGAGAAATTGAAGGATCGGTCTTGCTGGGACAACAATGGCTGAAGGTTACAG
1 TTCATGGGAAATCCGAGAAATTGAAGGATCGGTATTGCTGGGACAACAAAGGCGGAAGGTTACAG
* * *
46653612 ATGAAGAGGCAAAGAATCTGACCCCGCCAAATTAGGCAAAGAAGATTTTTTTTTACAGTCTCTTC
66 AGGAAGAGACAAAGAATCAGACCCCGCCAAATTAGGCAAAGAAGATTTTTTTTTACAGTCTCTTC
46653677 TTATTATTATTA
131 TTATTATTATTA
46653689 TTCATTGGGAAATCCGAGAAATTGAAGGATCGGTATTGCTGGGACAACAAAGGCGGAAGGTTACA
1 TTCA-TGGGAAATCCGAGAAATTGAAGGATCGGTATTGCTGGGACAACAAAGGCGGAAGGTTACA
* *
46653754 GAGGAAGAGACAAAGAATCAGACCCCGTCAAATTAGGTAAAGAAGACTTTTTTTTTACAGTCTCT
65 GAGGAAGAGACAAAGAATCAGACCCCGCCAAATTAGGCAAAGAAGA-TTTTTTTTTACAGTCTCT
46653819 GTTATTAAGG
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
142 4 0.03
143 97 0.82
144 18 0.15
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (142 bp):
TTCATGGGAAATCCGAGAAATTGAAGGATCGGTATTGCTGGGACAACAAAGGCGGAAGGTTACAG
AGGAAGAGACAAAGAATCAGACCCCGCCAAATTAGGCAAAGAAGATTTTTTTTTACAGTCTCTTC
TTATTATTATTA
Done.