Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold320
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: 2598547
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 17
Found at i:466188 original size:16 final size:16
Alignment explanation
Indices: 466163--466199 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
466153 AATTACTTTT
466163 TGTT-GATGGATATTA
1 TGTTGGATGGATATTA
466178 TGTTGGATGGATATTA
1 TGTTGGATGGATATTA
*
466194 TTTTGG
1 TGTTGG
466200 TTCTTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (16 bp):
TGTTGGATGGATATTA
Found at i:468394 original size:61 final size:61
Alignment explanation
Indices: 468241--468445 Score: 164
Period size: 61 Copynumber: 3.4 Consensus size: 61
468231 ATGTAAGGAG
** * * *
468241 ATATAAAAATTCATCGATTGGATTA-TAATCACTAATATCAAGTAGAATTAATGTAACTAC
1 ATATAAAAATTCATTAATTGGATTATTAATCACAAATTTCAAGTAGAATTAATGTAACTAA
* * ** * * * *
468301 ATA-ATTAGATTC-TTCAATTATATTATTGATCACCAATTTCGAGTAGATTTAATGTAACTAA
1 ATATA-AAAATTCATT-AATTGGATTATTAATCACAAATTTCAAGTAGAATTAATGTAACTAA
* * * * * *
468362 ATATACAAATTCATTAATTGGACTATTAATCACAAATTTCAACTACAATTAGTGTAACTAT
1 ATATAAAAATTCATTAATTGGATTATTAATCACAAATTTCAAGTAGAATTAATGTAACTAA
* * * *
468423 ATCTATAAATTGATCAATTGGAT
1 ATATAAAAATTCATTAATTGGAT
468446 ACCCTTAACC
Statistics
Matches: 110, Mismatches: 30, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
59 2 0.02
60 15 0.14
61 90 0.82
62 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.37
Consensus pattern (61 bp):
ATATAAAAATTCATTAATTGGATTATTAATCACAAATTTCAAGTAGAATTAATGTAACTAA
Found at i:468457 original size:121 final size:121
Alignment explanation
Indices: 468349--468567 Score: 269
Period size: 121 Copynumber: 1.8 Consensus size: 121
468339 TCGAGTAGAT
* * * * *
468349 TTAATGTAACTAAATATACAAATTCATTAATTGGACTA-TTAATCACAAATTTCAACTACAATTA
1 TTAATGTAACTAAATATACAAATTCATCAATTAGA-TAGCTAATCACAAATTCCAACTAAAATTA
* * * * *
468413 GTGTAACTATATCTATAAATTGATCAATTGGATACCCTTAACCAATTTAAAGTAAAA
65 GCGTAACTATATATACAAATTAATCAATTAGATACCCTTAACCAATTTAAAGTAAAA
* * * * * **
468470 TTAGTGTAATTAGATATACAAATTTATCAATTAGATAGCTAATTATTAATTCCAACTAAAATTAG
1 TTAATGTAACTAAATATACAAATTCATCAATTAGATAGCTAATCACAAATTCCAACTAAAATTAG
468535 CGTAACTATATATACAAATTAATCAATTAGATA
66 CGTAACTATATATACAAATTAATCAATTAGATA
468568 GCTAATTATT
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
120 2 0.03
121 78 0.98
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (121 bp):
TTAATGTAACTAAATATACAAATTCATCAATTAGATAGCTAATCACAAATTCCAACTAAAATTAG
CGTAACTATATATACAAATTAATCAATTAGATACCCTTAACCAATTTAAAGTAAAA
Found at i:468548 original size:61 final size:61
Alignment explanation
Indices: 468465--468623 Score: 282
Period size: 61 Copynumber: 2.6 Consensus size: 61
468455 CAATTTAAAG
* * * *
468465 TAAAATTAGTGTAATTAGATATACAAATTTATCAATTAGATAGCTAATTATTAATTCCAAC
1 TAAAATTAGCGTAACTATATATACAAATTAATCAATTAGATAGCTAATTATTAATTCCAAC
468526 TAAAATTAGCGTAACTATATATACAAATTAATCAATTAGATAGCTAATTATTAATTCCAAC
1 TAAAATTAGCGTAACTATATATACAAATTAATCAATTAGATAGCTAATTATTAATTCCAAC
468587 TAAAATTAGCGTAACTATATATACAAATTAATCAATT
1 TAAAATTAGCGTAACTATATATACAAATTAATCAATT
468624 GGACTACCCT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 94 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (61 bp):
TAAAATTAGCGTAACTATATATACAAATTAATCAATTAGATAGCTAATTATTAATTCCAAC
Found at i:468740 original size:183 final size:182
Alignment explanation
Indices: 468396--468748 Score: 422
Period size: 183 Copynumber: 1.9 Consensus size: 182
468386 ATTAATCACA
* * * * * *
468396 AATTTCAACTACAATTAGTGTAACTATATCTATAAATTGATCAATTGGATACCCTTAACCAATTT
1 AATTCCAACTAAAATTAGCGTAACTATATATACAAATTAATCAATTGGATACCCTTAACCAATTT
* * * * * * * **
468461 AAAGTAAAATTAGTGTAATTAGATATACAAATTTATCAATTAGATAGCTAATTATTAATTCCAAC
66 AAAGTAAAACTAATGTAACTAGATACACAAATTCATCAATCAGATAGCTAATCACCAATTCCAAC
*
468526 TAAAATTAGCGTAACTATATATACAAATTAATCAATTAGATAGCTAATTATT
131 TAAAATTAGCATAACTATATATACAAATTAATCAATTAGATAGCTAATTATT
*
468578 AATTCCAACTAAAATTAGCGTAACTATATATACAAATTAATCAATTGGACTACCCTTAACCACTT
1 AATTCCAACTAAAATTAGCGTAACTATATATACAAATTAATCAATTGGA-TACCCTTAACCAATT
* * * *
468643 TAACA-TAGAACTAATGTAACTAGATACACAAATTCATTACTCAGATTA-CTAATCACCAATTTC
65 TAA-AGTAAAACTAATGTAACTAGATACACAAATTCATCAATCAGA-TAGCTAATCACCAATTCC
* * * ** *
468706 AACTATAATTAGTATAACTATTTATATGAATTAATTAATTAGA
128 AACTAAAATTAGCATAACTATATATACAAATTAATCAATTAGA
468749 ATAATTTTAA
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
182 43 0.30
183 95 0.67
184 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (182 bp):
AATTCCAACTAAAATTAGCGTAACTATATATACAAATTAATCAATTGGATACCCTTAACCAATTT
AAAGTAAAACTAATGTAACTAGATACACAAATTCATCAATCAGATAGCTAATCACCAATTCCAAC
TAAAATTAGCATAACTATATATACAAATTAATCAATTAGATAGCTAATTATT
Found at i:475753 original size:25 final size:25
Alignment explanation
Indices: 475724--475772 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
475714 TTTTTTTAAC
*
475724 TTTTTATTTAAATAAAAAATAAATAA
1 TTTTT-TTCAAATAAAAAATAAATAA
* *
475750 TTTTTTTCAAGTTAAAAATAAAT
1 TTTTTTTCAAATAAAAAATAAAT
475773 TAGTTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTTTTCAAATAAAAAATAAATAA
Found at i:475880 original size:18 final size:18
Alignment explanation
Indices: 475859--475917 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
475849 AAATTTTCTT
475859 TATTTTTAATTAAAATAA
1 TATTTTTAATTAAAATAA
*
475877 TATTATTTAATT-TAATAA
1 TATT-TTTAATTAAAATAA
*
475895 TATAATTTAATTAAAAATAA
1 TAT-TTTTAATT-AAAATAA
475915 TAT
1 TAT
475918 AAAATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 19 0.56
19 7 0.21
20 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTTTAATTAAAATAA
Found at i:477463 original size:228 final size:228
Alignment explanation
Indices: 477049--478416 Score: 1185
Period size: 228 Copynumber: 6.0 Consensus size: 228
477039 ATTTAATAGG
* * * * * * * * * *
477049 ATGCAAATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGACAC
1 ATGCAAATATTTGTCAAGACTCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCCGACAC
* * * * * * * *
477114 CATCGATAATGTGAAGGCCAAGATTCAGGACAAGGAAGGGATCCCTCCTGATCAGCAAAGGCTTA
66 CATTGATAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTCA
* ** * * * *
477179 TCTTTGCTGGCAAA-CAACTTGAAGATGGTCGCACGCTAGCTGACTACAATATCCAGAAGGAATC
131 TCTTTGCTGG-AAAGCAGCTTGAAGATGGGAGCACACTAGCTGACTATAACATCCAGAAGGAGTC
*
477243 CACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGT
195 AACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGT
* * * * * *
477277 ATGCAAATATTCGTCAAGACTCTCACTGGAAAGACCATTACGTTGGAGGTCGAAAGCTCTGACAC
1 ATGCAAATATTTGTCAAGACTCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCCGACAC
* * * * * * * *
477342 TATTGATAATGTTAAGGCTAAGATCCAAGACAAGGAAGGAATCCCCCCGGACCAACAGAGGCTCA
66 CATTGATAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTCA
* * * * *
477407 TCTTTGCTGGAAAGCAGCTTGAAGATGGGCGTACACTGGCAGACTATAACATCCAGAAGGAGTCT
131 TCTTTGCTGGAAAGCAGCTTGAAGATGGGAGCACACTAGCTGACTATAACATCCAGAAGGAGTCA
* * * * * * *
477472 ACCCTCCACCTCGTGCTTCGTCTTCGAGGTGGC
196 ACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGT
* * * * * * *
477505 ATGCAAATCTTTGTCAAAACCCTTACGGGCAAA-ACCATTACCCTT-GAGGTTGAGAGTTCCGAC
1 ATGCAAATATTTGTCAAGACTCTCACTGG-AAAGACCATCA-CCTTGGAGGTTGAAAGTTCCGAC
*
477568 ACCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCT
64 ACCATTGATAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCT
* * ** * *
477633 TATTTTTGCTGGAAAGCAGCTTGAAGATGGTCGCAC-CTTAGCTGACTACAACATCCAGAAAGAG
129 CATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGCACAC-TAGCTGACTATAACATCCAGAAGGAG
* * * * *
477697 TCTACCCTCCA-TCTGGTCCTTCGTCTTCGTGGTGGC
193 TCAACTCTCCACT-TGGTTCTTCGCCTTCGTGGTGGT
* * * * * *
477733 ATGCAAATATTTGTTAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATATTTGTCAAGACTCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCCGACAC
* * * * * * * **
477798 CATTGATAACGTAAAAGCCAAA-ATTCAGGACAAAG-AGGGTATACCACCAGACCAGCAAAGATT
66 CATTGATAATGT-GAAGGCAAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGCT
* * * * * * * * *
477861 GATTTTTGCAGGAAAACAGCTTGAAGATGGAAGGACACTTGCTGATTATAATATCCAGAAGGAGT
129 CATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGCACACTAGCTGACTATAACATCCAGAAGGAGT
* * *
477926 CAACTCTTCATTTGGTTCTCCGCCTTCGTGGTGGT
194 CAACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGT
* * * * * * * * * *
477961 ATGCAGATCTTTGTGAAAACTCTGACCGGAAAGACGATCACTTTGGAAGTTGAAAGTTCGGACAC
1 ATGCAAATATTTGTCAAGACTCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCCGACAC
* * * * *
478026 CATTGACAACGTGAAGGCAAAGATCCAAGACAAGGAAGGTATTCCC-CCAGATCAGCAAAGACTC
66 CATTGATAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGA-TCCCACCAGACCAGCAAAGGCTC
* * * ** * * *
478090 ATCTTTGCTGGCAAGCAGCTAGAAGATGGGAGGACGTTGGCTGACTATAATATCCAAAAGGAGTC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGCACACTAGCTGACTATAACATCCAGAAGGAGTC
* * * * * *
478155 AACACTTCACTTGGTGT-TGCGTCTGCGTGGTGGG
195 AACTCTCCACTTGGT-TCTTCGCCTTCGTGGTGGT
* * * * * *
478189 ATGCAGATATTTGTGAAGAC-CTTAACTGGAAAGACGATCACTTTGGAAGTTGAAAGTTCCGACA
1 ATGCAAATATTTGTCAAGACTC-TCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCCGACA
* * * * *
478253 CCATTGATAATGTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTG
65 CCATTGATAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
* * * * * * * * *
478318 AT-TTTCGCTGGGAAGCAGCTGGAGGATGGGAGAACTCTTGCAGATTATAACATCCAGAAGGAAT
130 ATCTTT-GCTGGAAAGCAGCTTGAAGATGGGAGCACACTAGCTGACTATAACATCCAGAAGGAGT
* * * *
478382 CCACTCTGCATCTT-GTCCTTCGCCTTCGAGGTGGT
194 CAACTCTCCA-CTTGGTTCTTCGCCTTCGTGGTGGT
478417 TTCTAGGGTT
Statistics
Matches: 931, Mismatches: 189, Indels: 40
0.80 0.16 0.03
Matches are distributed among these distances:
227 30 0.03
228 876 0.94
229 25 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (228 bp):
ATGCAAATATTTGTCAAGACTCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCCGACAC
CATTGATAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTCA
TCTTTGCTGGAAAGCAGCTTGAAGATGGGAGCACACTAGCTGACTATAACATCCAGAAGGAGTCA
ACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGT
Found at i:477919 original size:456 final size:451
Alignment explanation
Indices: 477049--478415 Score: 1441
Period size: 456 Copynumber: 3.0 Consensus size: 451
477039 ATTTAATAGG
* * * * *
477049 ATGCAAATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGACAC
1 ATGCAAATCTTTGTGAAAACCCTTACCGG-AAAACCATCACCCTTGAGGTTGAGAGTTCCGACAC
* * * * * *
477114 CATCGATAATGTGAAGGCCAAGATTCAGGACAAGGAAGGGATCCCTCCTGATCAGCAAAGGCTTA
65 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCC-CCAGATCAGCAAAGGCTTA
* * *
477179 TCTTTGCTGGCAAA-CAACTTGAAGATGGTCGCACGC-TAGCTGACTACAATATCCAGAAGGAAT
129 TCTTTGCTGG-AAAGCAGCTTGAAGATGGTCGCAC-CTTAGCTGACTACAATATCCAGAAAGAGT
* * * * *
477242 CCACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGTATGCAAATATTCGTCAAGACTCTCACTGGA
192 CAACACTCCACTTGG-TCTTCGTCTTCGTGGTGGCATGCAAATATTTGTCAAGACTCTCACTGGA
* * * * * * * * * *
477307 AAGACCATTACGTTGGAGGTCGAAAGCTCTGACACTATTGATAATGTTAAGGCTAAGATCCAAGA
256 AAGACAATTACCTTGGAGGTTGAAAGTTCAGACACCATTGATAATG-TAAAGCCAAAATTCAAGA
* * * * * * * *
477372 CAAGGAAGGAATCCCCCCGGACCAACAGAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGC
320 CAAGG-AGGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTTGAAGATGGGA
* * * * * * * *
477437 GTACACTGGCAGACTATAACATCCAGAAGGAGTCTACCCTCCACCTCGTGCTTCGTCTTCGAGGT
384 GAACACTTGCAGATTATAACATCCAGAAGGAGTCAACTCTCCATCTCGTCCTTCGCCTTCGAGGT
477502 GGC
449 GGC
* * *
477505 ATGCAAATCTTTGTCAAAACCCTTACGGGCAAAACCATTACCCTTGAGGTTGAGAGTTCCGACAC
1 ATGCAAATCTTTGTGAAAACCCTTACCGG-AAAACCATCACCCTTGAGGTTGAGAGTTCCGACAC
*
477570 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
65 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCC-CCAGATCAGCAAAGGCTTA
* * *
477635 TTTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGACTACAACATCCAGAAAGAGTCT
129 TCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGACTACAATATCCAGAAAGAGTCA
* *
477700 ACCCTCCA-TCTGGTCCTTCGTCTTCGTGGTGGCATGCAAATATTTGTTAAGACTCTCACTGGAA
194 ACACTCCACT-TGGT-CTTCGTCTTCGTGGTGGCATGCAAATATTTGTCAAGACTCTCACTGGAA
* * * *
477764 AGACAATTACCTTGGAGGTTGAGAGTTCAGATACCATTGATAACGTAAAAGCCAAAATTCAGGAC
257 AGACAATTACCTTGGAGGTTGAAAGTTCAGACACCATTGATAATGT-AAAGCCAAAATTCAAGAC
* * * * * * *
477829 AAAGAGGGTATACCACCAGACCAGCAAAGATTGATTTTTGCAGGAAAACAGCTTGAAGATGGAAG
321 AAGGAGGG-ATCCCACCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTTGAAGATGGGAG
* * * * * * * * *
477894 GACACTTGCTGATTATAATATCCAGAAGGAGTCAACTCTTCATTTGGTTCTCCGCCTTCGTGGTG
385 AACACTTGCAGATTATAACATCCAGAAGGAGTCAACTCTCCATCTCGTCCTTCGCCTTCGAGGTG
*
477959 GT
450 GC
* * * * * * * *
477961 ATGCAGATCTTTGTGAAAACTCTGACCGGAAAGACGATCA-CTTTGGAAGTTGAAAGTTCGGACA
1 ATGCAAATCTTTGTGAAAACCCTTACCGGAAA-ACCATCACCCTT-GAGGTTGAGAGTTCCGACA
* * * *
478025 CCATTGACAACGTGAAGGCAAAGATCCAAGACAAGGAAGGTATTCCCCCAGATCAGCAAAGACTC
64 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGA-TCCCCCAGATCAGCAAAGGCTT
* * ** * * * *
478090 ATCTTTGCTGGCAAGCAGCTAGAAGATGGGAGGACGTTGGCTGACTATAATATCCA-AAAGGAGT
128 ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGACTACAATATCCAGAAA-GAGT
* * * * * * *
478154 CAACACTTCACTTGGTGTTGCGTCTGCGTGGTGGGATGCAGATATTTGTGAAGAC-CTTAACTGG
192 CAACACTCCACTTGGTCTT-CGTCTTCGTGGTGGCATGCAAATATTTGTCAAGACTC-TCACTGG
* * * * * * *
478218 AAAGACGATCACTTTGGAAGTTGAAAGTTCCGACACCATTGATAATGTTAAGGCAAAGATTCAAG
255 AAAGACAATTACCTTGGAGGTTGAAAGTTCAGACACCATTGATAATGTAAAGCCAAA-ATTCAAG
* * * *
478283 ACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTGATTTTCGCTGGGAAGCAGCTGGAGGATGGG
319 ACAAGG-AGGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTTGAAGATGGG
* * * * *
478348 AGAACTCTTGCAGATTATAACATCCAGAAGGAATCCACTCTGCATCTTGTCCTTCGCCTTCGAGG
383 AGAACACTTGCAGATTATAACATCCAGAAGGAGTCAACTCTCCATCTCGTCCTTCGCCTTCGAGG
478413 TGG
448 TGG
478416 TTTCTAGGGT
Statistics
Matches: 755, Mismatches: 141, Indels: 30
0.82 0.15 0.03
Matches are distributed among these distances:
455 29 0.04
456 717 0.95
457 9 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (451 bp):
ATGCAAATCTTTGTGAAAACCCTTACCGGAAAACCATCACCCTTGAGGTTGAGAGTTCCGACACC
ATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCCCAGATCAGCAAAGGCTTATC
TTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGACTACAATATCCAGAAAGAGTCAAC
ACTCCACTTGGTCTTCGTCTTCGTGGTGGCATGCAAATATTTGTCAAGACTCTCACTGGAAAGAC
AATTACCTTGGAGGTTGAAAGTTCAGACACCATTGATAATGTAAAGCCAAAATTCAAGACAAGGA
GGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTTGAAGATGGGAGAACACT
TGCAGATTATAACATCCAGAAGGAGTCAACTCTCCATCTCGTCCTTCGCCTTCGAGGTGGC
Found at i:478402 original size:684 final size:684
Alignment explanation
Indices: 477049--478415 Score: 1580
Period size: 684 Copynumber: 2.0 Consensus size: 684
477039 ATTTAATAGG
* * * * *
477049 ATGCAAATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGACAC
1 ATGCAAATATTTGTGAAAACCCTCACTGGAAAGACAATCACCCTGGAGGTGGAGAGTTCAGACAC
* * * * * * * * * *
477114 CATCGATAATGTGAAGGCCAAGATTCAGGACAAGGAAGGGATCCCTCCTGATCAGCAAAGGCTTA
66 CATCGATAACGTAAAAGCCAAAATTCAGGACAAAGAAGGGATACCACCAGACCAGCAAAGGATTA
* * ** * *
477179 TCTTTGCTGGCAAACAACTTGAAGATGGTCGCACGCTAGCTGACTACAATATCCAGAAGGAATCC
131 TCTTTGCAGGAAAACAACTTGAAGATGGAAGCACACTAGCTGACTACAATATCCAGAAGGAATCA
* * *
477244 ACTCTCCACTTGGTTCTTCGCCTTCGTGGTGGTATGCAAATATTCGTCAAGACTCTCACTGGAAA
196 ACTCTCCACTTGGTTCTCCGCCTTCGTGGTGGTATGCAAATATTCGTCAAAACTCTCACCGGAAA
* * * * * * * *
477309 GACCATTACGTTGGAGGTCGAAAGCTCTGACACTATTGATAATGTTAAGGCTAAGATCCAAGACA
261 GACCATCACGTTGGAAGTCGAAAGCTCGGACACCATTGACAACGTGAAGGCAAAGATCCAAGACA
* * * * * *
477374 AGGAAGGAATCCCCCCGGACCAACAGAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGCGT
326 AGGAAGGAATCCCCCCAGACCAACAAAGACTCATCTTTGCTGGAAAGCAGCTAGAAGATGGGAGG
* * * *
477439 ACACTGGCAGACTATAACATCCAGAAGGAGTCTACCCTCCACCTCGTGCTTCGTCTTCGAGGTGG
391 ACACTGGCAGACTATAACATCCAAAAGGAGTCAACACTCCACCTCGTGCTTCGTCTGCGAGGTGG
* * * *
477504 CATGCAAATCTTTGTCAAAACCCTTACGGGCAAAACCATTACCCTTGAGGTTGAGAGTTCCGACA
456 CATGCAAATATTTGTCAAAACCCTTACGGGCAAAACCATCACCCTTGAAGTTGAAAGTTCCGACA
477569 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
521 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * ** * * *
477634 ATTTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGACTACAACATCCAGAAAGAGTC
586 ATTTTCGCTGGAAAGCAGCTGGAAGATGGGAGAACCTTAGCAGACTACAACATCCAGAAAGAATC
* * *
477699 TACCCTCCATCTGGTCCTTCGTCTTCGTGGTGGC
651 CACCCTCCATCTGGTCCTTCGCCTTCGAGGTGGC
* * * * * * *
477733 ATGCAAATATTTGTTAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATATTTGTGAAAACCCTCACTGGAAAGACAATCACCCTGGAGGTGGAGAGTTCAGACAC
*
477798 CATTGATAACGTAAAAGCCAAAATTCAGGACAAAG-AGGGTATACCACCAGACCAGCAAA-GATT
66 CATCGATAACGTAAAAGCCAAAATTCAGGACAAAGAAGGG-ATACCACCAGACCAGCAAAGGATT
* * * * * * *
477861 GATTTTTGCAGGAAAACAGCTTGAAGATGGAAGGACACTTGCTGATTATAATATCCAGAAGGAGT
130 -ATCTTTGCAGGAAAACAACTTGAAGATGGAAGCACACTAGCTGACTACAATATCCAGAAGGAAT
* * * * * * *
477926 CAACTCTTCATTTGGTTCTCCGCCTTCGTGGTGGTATGCAGATCTTTGTGAAAACTCTGACCGGA
194 CAACTCTCCACTTGGTTCTCCGCCTTCGTGGTGGTATGCAAATATTCGTCAAAACTCTCACCGGA
* * * *
477991 AAGACGATCACTTTGGAAGTTGAAAGTTCGGACACCATTGACAACGTGAAGGCAAAGATCCAAGA
259 AAGACCATCACGTTGGAAGTCGAAAGCTCGGACACCATTGACAACGTGAAGGCAAAGATCCAAGA
* * * * *
478056 CAAGGAAGGTATTCCCCCAGATCAGCAAAGACTCATCTTTGCTGGCAAGCAGCTAGAAGATGGGA
324 CAAGGAAGGAATCCCCCCAGACCAACAAAGACTCATCTTTGCTGGAAAGCAGCTAGAAGATGGGA
** * * * * * *
478121 GGACGTTGGCTGACTATAATATCCAAAAGGAGTCAACACTTCACTTGGTG-TTGCGTCTGCGTGG
389 GGACACTGGCAGACTATAACATCCAAAAGGAGTCAACACTCCACCTCGTGCTT-CGTCTGCGAGG
* * * * * * *
478185 TGGGATGCAGATATTTGTGAAGA-CCTTAACTGG-AAAGACGATCA-CTTTGGAAGTTGAAAGTT
453 TGGCATGCAAATATTTGTCAAAACCCTT-ACGGGCAAA-ACCATCACCCTT-GAAGTTGAAAGTT
* * * *
478247 CCGACACCATTGATAATGTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAG
515 CCGACACCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAA
* * * *
478312 AGG-TTGATTTTCGCTGGGAAGCAGCTGGAGGATGGGAGAACTCTT-GCAGATTATAACATCCAG
580 AGGCTT-ATTTTCGCTGGAAAGCAGCTGGAAGATGGGAGAAC-CTTAGCAGACTACAACATCCAG
* * * *
478375 AAGGAATCCACTCTGCATCTTGTCCTTCGCCTTCGAGGTGG
643 AAAGAATCCACCCTCCATCTGGTCCTTCGCCTTCGAGGTGG
478416 TTTCTAGGGT
Statistics
Matches: 561, Mismatches: 114, Indels: 16
0.81 0.16 0.02
Matches are distributed among these distances:
683 21 0.04
684 537 0.96
685 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (684 bp):
ATGCAAATATTTGTGAAAACCCTCACTGGAAAGACAATCACCCTGGAGGTGGAGAGTTCAGACAC
CATCGATAACGTAAAAGCCAAAATTCAGGACAAAGAAGGGATACCACCAGACCAGCAAAGGATTA
TCTTTGCAGGAAAACAACTTGAAGATGGAAGCACACTAGCTGACTACAATATCCAGAAGGAATCA
ACTCTCCACTTGGTTCTCCGCCTTCGTGGTGGTATGCAAATATTCGTCAAAACTCTCACCGGAAA
GACCATCACGTTGGAAGTCGAAAGCTCGGACACCATTGACAACGTGAAGGCAAAGATCCAAGACA
AGGAAGGAATCCCCCCAGACCAACAAAGACTCATCTTTGCTGGAAAGCAGCTAGAAGATGGGAGG
ACACTGGCAGACTATAACATCCAAAAGGAGTCAACACTCCACCTCGTGCTTCGTCTGCGAGGTGG
CATGCAAATATTTGTCAAAACCCTTACGGGCAAAACCATCACCCTTGAAGTTGAAAGTTCCGACA
CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
ATTTTCGCTGGAAAGCAGCTGGAAGATGGGAGAACCTTAGCAGACTACAACATCCAGAAAGAATC
CACCCTCCATCTGGTCCTTCGCCTTCGAGGTGGC
Found at i:478532 original size:21 final size:21
Alignment explanation
Indices: 478506--478545 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
478496 CCTTTTGCCT
*
478506 ATAAATAATATCTGAAACCAA
1 ATAAATAATATCCGAAACCAA
478527 ATAAATAATATCCGAAACC
1 ATAAATAATATCCGAAACC
478546 CCTTTGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAAATAATATCCGAAACCAA
Found at i:479302 original size:44 final size:44
Alignment explanation
Indices: 479222--479349 Score: 190
Period size: 43 Copynumber: 2.9 Consensus size: 44
479212 GTGCGAGAAA
* *
479222 TAAACTGTA-CTGAAACGACCTGCCAACC-AATCTTAGGTCATAAT
1 TAAA-TGTACCTGAGACGA-CTGCCAACCAAAGCTTAGGTCATAAT
*
479266 TAAATGTACCTGAGACGACTGCCACCCAAAGCTTAGGTCATAAT
1 TAAATGTACCTGAGACGACTGCCAACCAAAGCTTAGGTCATAAT
479310 TAAATGTACC-GAGACGACTGCCAACCAAAGCTTAGGTCAT
1 TAAATGTACCTGAGACGACTGCCAACCAAAGCTTAGGTCAT
479350 GTGCAAAGTG
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
43 41 0.53
44 37 0.47
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (44 bp):
TAAATGTACCTGAGACGACTGCCAACCAAAGCTTAGGTCATAAT
Found at i:482719 original size:13 final size:13
Alignment explanation
Indices: 482648--482721 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
482638 TATAAAATAC
*
482648 ATATTATTTTGTAA
1 ATATAATTTT-TAA
482662 ATA-ATATTTTTAA
1 ATATA-ATTTTTAA
*
482675 ATATTA-TTTT-A
1 ATATAATTTTTAA
* *
482686 GTATAA-TTCTAA
1 ATATAATTTTTAA
482698 AT-TATATTTTTAA
1 ATATA-ATTTTTAA
482711 ATATAATTTTT
1 ATATAATTTTT
482722 TAGAATTTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
11 10 0.21
12 7 0.15
13 20 0.43
14 10 0.21
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (13 bp):
ATATAATTTTTAA
Found at i:483851 original size:13 final size:13
Alignment explanation
Indices: 483833--483857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
483823 TTTTACAATT
483833 TGTATCGATACAA
1 TGTATCGATACAA
483846 TGTATCGATACA
1 TGTATCGATACA
483858 TAAGTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:499114 original size:14 final size:14
Alignment explanation
Indices: 499091--499125 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
499081 ATTATCAACA
*
499091 AAATTGTTGTCAAG
1 AAATTTTTGTCAAG
499105 AAATTTTTGTCAAG
1 AAATTTTTGTCAAG
*
499119 AACTTTT
1 AAATTTT
499126 GTCGAGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (14 bp):
AAATTTTTGTCAAG
Found at i:502282 original size:52 final size:52
Alignment explanation
Indices: 502204--502384 Score: 299
Period size: 52 Copynumber: 3.5 Consensus size: 52
502194 CGAAATATGA
* * *
502204 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
*
502256 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
*
502308 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
* *
502360 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTACATGTATCGATACA
502385 AAGATCAGTG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
Found at i:502411 original size:13 final size:13
Alignment explanation
Indices: 502393--502417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502383 CAAAGATCAG
502393 TGTATCGATACAA
1 TGTATCGATACAA
502406 TGTATCGATACA
1 TGTATCGATACA
502418 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:503578 original size:49 final size:49
Alignment explanation
Indices: 503456--504361 Score: 1250
Period size: 49 Copynumber: 18.7 Consensus size: 49
503446 AAAAGGATGT
* *
503456 CAATGTGTTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
503508 CAATATGCTGATTCAATGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
503557 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
503605 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
503654 CAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
503703 CAATGT-CATGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGC-TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
503752 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
503801 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
503850 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
503893 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
503942 CAATGTGCTGATTCAAGGCCAGCTATATTAGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
503990 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
504039 TAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
504088 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
504137 CAATGTGCTGAGTCAAGGCTAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
504186 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
504229 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
504277 CAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
504326 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
504362 GAAGGGTTGC
Statistics
Matches: 758, Mismatches: 80, Indels: 35
0.87 0.09 0.04
Matches are distributed among these distances:
43 72 0.09
44 2 0.00
45 3 0.00
46 4 0.01
47 3 0.00
48 141 0.19
49 496 0.65
50 1 0.00
51 1 0.00
52 35 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:504123 original size:336 final size:336
Alignment explanation
Indices: 503456--504361 Score: 1510
Period size: 336 Copynumber: 2.7 Consensus size: 336
503446 AAAAGGATGT
* * **
503456 CAATGTGTTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT--AAAA-GTGCCAATATGCTGATT
*
503521 CAATGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
63 CAAGGCCAGCTATATTGGACTTAAA---G-A--TGCCAATGTGCTGAGTCAAGGCCAGCTACATT
503586 GGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
122 GGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
503651 TGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTCATGAGT
187 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTCATGAGT
503716 CAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATT
252 CAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATT
503781 GGACTTAATGGTGAAGGTGC
317 GGACTTAATGGTGAAGGTGC
503801 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAA
503866 GGCCAGCTATATTGGACTTAAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
503931 GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTAGACTTAAAGATG-AGGTGCCAATG
131 GATG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
503995 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATGTGC-TGAGTCAAGGCC
195 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT-CATGAGTCAAGGCC
*
504059 AGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
259 AGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
504124 ATGGTGAAGGTGC
324 ATGGTGAAGGTGC
* *
504137 CAATGTGCTGAGTCAAGGCTAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAA
* *
504202 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
504267 GGTGAGGTGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
131 GATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
* * *
504332 GCTGATTCAGGGCCAGCTATATTGGGCTTA
196 GCTGATTCAAGGCCAGCTACATTGGACTTA
504362 GAAGGGTTGC
Statistics
Matches: 534, Mismatches: 24, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
335 44 0.08
336 359 0.67
337 47 0.09
338 1 0.00
339 1 0.00
342 41 0.08
343 4 0.01
345 37 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (336 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
GATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTCATGAGTCAAGGCCAG
CTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAT
GGTGAAGGTGC
Found at i:504463 original size:33 final size:33
Alignment explanation
Indices: 504354--504472 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
504344 CCAGCTATAT
504354 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
504384 TGGGCTTTAG-AGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGA-AGGTTGCCACCGACTTGTG
*
504417 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
504450 TGGGCTTTAGAAGAAGG-TGCCAC
1 TGGGCTTTAGAAGAAGGTTGCCAC
504473 GGAGTCGTGG
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.09
31 4 0.05
32 6 0.07
33 61 0.75
34 3 0.04
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:504525 original size:33 final size:33
Alignment explanation
Indices: 504466--504900 Score: 293
Period size: 33 Copynumber: 13.9 Consensus size: 33
504456 TTAGAAGAAG
* * *
504466 GTGCCACGGAGTCGTGGACTTAAAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
*
504499 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAA-A
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
* * *
504531 GATGCCATGGAGTTATGGGC-TT--A--AAATG-
1 G-TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
** * *
504559 GTGCCACAAAGTTGTGGACTTAAAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
* *
504592 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGG--AAAAGA
* * *
504627 GTGCCACGGAGTCGTGGAC-TT-----AAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
504654 GTGCCACGGAGTTGTGGGCTTT--A--AAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
* * * *
504683 GTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGG-AAAAGA
* *
504717 GTGCCACGAAGTTGTGGGCTTTGAAA--AGAAG-
1 GTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGA
* *
504748 GTGCCACGAAGTTGTGGGC-TTAAACG----G-
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
*
504775 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
*
504808 GTGCCACGTAGTTGTGGGCTTT----GAAAAGGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAA-GA
* * *
504838 GGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAG-
1 -GTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGA
* * *
504872 GTGCCACGGAGTCGTGGACTTAAAAGGAA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAA
504901 TGCCACTTAA
Statistics
Matches: 321, Mismatches: 48, Indels: 67
0.74 0.11 0.15
Matches are distributed among these distances:
27 55 0.17
28 12 0.04
29 32 0.10
30 6 0.02
31 39 0.12
32 19 0.06
33 104 0.32
34 25 0.08
35 25 0.08
36 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (33 bp):
GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGA
Found at i:504572 original size:60 final size:60
Alignment explanation
Indices: 504499--504771 Score: 155
Period size: 60 Copynumber: 4.4 Consensus size: 60
504489 AAGGAAAAGA
** * * *
504499 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAA-AGATGCCATGGAGTTATGGGCTTAAAATG
1 GTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAG-TGCCACGGAGTTATGGGCTTAAAATG
* *
504559 GTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAA
1 GTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTATGGGC-TT-------AAA
*
504624 AGG
58 ATG
** * * *
504627 GTGCCACGGAGTCGTGGACTTAAAA-G----G-GTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTATGGGC-TTAAAATG
** * * * * *
504682 AGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGAAGTTGTGGGCTTTGAAAAGAA
1 -GTGCCACAAAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGGAGTTATGGGC-TT--AAA-AT
504747 G
60 G
* *
504748 GTGCCACGAAGTTGTGGGCTTAAA
1 GTGCCACAAAGTTGTGGACTTAAA
504772 CGGGTGCCAC
Statistics
Matches: 176, Mismatches: 17, Indels: 35
0.77 0.07 0.15
Matches are distributed among these distances:
55 5 0.03
56 25 0.14
57 1 0.01
60 42 0.24
61 4 0.02
62 22 0.12
63 22 0.12
65 24 0.14
66 3 0.02
67 1 0.01
68 27 0.15
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (60 bp):
GTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTATGGGCTTAAAATG
Found at i:504659 original size:27 final size:28
Alignment explanation
Indices: 504620--504896 Score: 180
Period size: 27 Copynumber: 9.1 Consensus size: 28
504610 CTTTAAAGGA
* *
504620 AAAAAGGGTGCCACGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGGCTT
504648 -AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGGC-TT
* * *
504676 AAAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGGCTT
*
504704 AAAAGGAAAAAGGGTGCCACGAAGTTGTGGGCTTT
1 ------AAAAAGGGTGCCACGGAGTTGTGGGC-TT
* *
504739 GAAAAGAAGGTGCCACGAAGTTGTGGGCTT
1 -AAAA-AGGGTGCCACGGAGTTGTGGGCTT
*
504769 -AAACGGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGGTGCCACGGAGTTGTGGGCTT
* *
504796 AAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT
1 ---A--AAAAGGGTGCCACGGAGTTGTGGGC-TT
* * *
504830 GAAAAGGAGGTGCCACAGAGTTGTGGACTTT
1 -AAAAAG-GGTGCCACGGAGTTGTGGGC-TT
* * *
504861 GAAAGAAAAAGGTGCCACGGAGTCGTGGACTT
1 ---A-AAAAGGGTGCCACGGAGTTGTGGGCTT
504893 AAAA
1 AAAA
504897 GGAATGCCAC
Statistics
Matches: 201, Mismatches: 27, Indels: 42
0.74 0.10 0.16
Matches are distributed among these distances:
27 44 0.22
28 10 0.05
29 23 0.11
30 11 0.05
31 40 0.20
32 3 0.01
33 41 0.20
34 27 0.13
35 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.20
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:504730 original size:63 final size:65
Alignment explanation
Indices: 504648--504900 Score: 196
Period size: 63 Copynumber: 4.0 Consensus size: 65
504638 TCGTGGACTT
* *
504648 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAG-A-GTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGA
* * *
504711 AAAAGGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAGTTGTGGGCTT-------
1 AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGA
* * * * * *
504769 AAACGGGTGCCACGGAGTTGTGGGC-TTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAA
1 AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAA--AGAAG-GTGCCACGAAGTCGTGGAC-TT-AA
504833 AAGG-
61 AAGGA
* * *
504837 ---A-GGTGCCAC-AGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAA
1 AAAAGGGTGCCACGA-AGTTGTGGGCTTT-AAA-AAGAAGGTGCCACGAAGTCGTGGACTTAAAA
504897 GGA
63 GGA
504900 A
1 A
504901 TGCCACTTAA
Statistics
Matches: 155, Mismatches: 16, Indels: 37
0.75 0.08 0.18
Matches are distributed among these distances:
57 5 0.03
58 23 0.15
59 4 0.03
60 18 0.12
61 2 0.01
62 6 0.04
63 34 0.22
64 34 0.22
65 25 0.16
66 3 0.02
67 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (65 bp):
AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGA
Found at i:504778 original size:121 final size:119
Alignment explanation
Indices: 504533--504799 Score: 349
Period size: 121 Copynumber: 2.2 Consensus size: 119
504523 AGGAAAAAGA
* * * *
504533 TGCCATGGAGTTATGGGCTTAAAATGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCA
1 TGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACAAAGTCGTGGACTTAAAAGGAAAAGAGTGCCA
* *
504598 CGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGG
66 CGAAGTTGTGGGCTTT--A-GAAAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGG
** *
504655 TGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGGTG
1 TGCCACGGAGTTGTGGGC-TTAAAAAG-GTGCCACAAAGTCGTGGACTTAAAAGG-AAAAGAGTG
* * *
504720 CCACGAAGTTGTGGGCTTT-GAAAAGAA-GGTGCCACGAAGTTGTGGGCTTAAACGGG
63 CCACGAAGTTGTGGGCTTTAGAAAA-AAGGGTGCCACGAAGTCGTGGACTTAAAAGGG
504776 TGCCACGGAGTTGTGGGCTTAAAA
1 TGCCACGGAGTTGTGGGCTTAAAA
504800 GGAAAAGAGT
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
120 6 0.05
121 48 0.37
122 18 0.14
123 7 0.05
124 24 0.19
125 26 0.20
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (119 bp):
TGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACAAAGTCGTGGACTTAAAAGGAAAAGAGTGCCA
CGAAGTTGTGGGCTTTAGAAAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGG
Found at i:504833 original size:91 final size:91
Alignment explanation
Indices: 504448--504900 Score: 364
Period size: 91 Copynumber: 4.8 Consensus size: 91
504438 CACCGACTTG
* * * * * *
504448 TGTGGGCTTTAGAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTG
1 TGTGGGC-TTAAAAGAAGGTGCCACGAAGTTGTGGGCTT---A--AAAAGGGTGCCACGGAGTTG
* *
504513 TGGGCTTTAAAGGAAAAAGA-TGCCATGGAGT
60 TGGGCTTAAAAGGAAAAAGAGTGCCACGGAGT
* * * * * *
504544 TATGGGCTT-AAA-ATGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGT
1 TGTGGGCTTAAAAGAAGGTGCCACGAAGTTGTGGGCTT---A--AAAAGGGTGCCACGGAGTTGT
* *
504607 GGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
61 GGGCTTAAAAGG-AAAAAGAGTGCCACGGAGT
* * * * * *
504639 CGTGGACTTAAAAG--GGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGAC
1 TGTGGGCTTAAAAGAAGGTGCCACGAAGTTGTGGGC-TTAAAAAGGGTGCCACGGAGTTGTGGGC
* *
504702 TTAAAAGGAAAAAGGGTGCCACGAAGT
65 TTAAAAGGAAAAAGAGTGCCACGGAGT
*
504729 TGTGGGCTTTGAAAAGAAGGTGCCACGAAGTTGTGGGCTT-AAACGGGTGCCACGGAGTTGTGGG
1 TGTGGGC-TT-AAAAGAAGGTGCCACGAAGTTGTGGGCTTAAAAAGGGTGCCACGGAGTTGTGGG
*
504793 CTTAAAAGG-AAAAGAGTGCCACGTAGT
64 CTTAAAAGGAAAAAGAGTGCCACGGAGT
* * *
504820 TGTGGGCTTTGAAAAGGAGGTGCCAC-AGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGC-TT-AAAAGAAGGTGCCACGA-AGTTGTGGGC-TT---A-AAAAGGGTGCCACGGAGT
* *
504884 CGTGGACTTAAAAGGAA
58 TGTGGGCTTAAAAGGAA
504901 TGCCACTTAA
Statistics
Matches: 306, Mismatches: 34, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
90 24 0.08
91 81 0.26
92 36 0.12
93 62 0.20
94 27 0.09
95 35 0.11
96 11 0.04
97 29 0.09
98 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (91 bp):
TGTGGGCTTAAAAGAAGGTGCCACGAAGTTGTGGGCTTAAAAAGGGTGCCACGGAGTTGTGGGCT
TAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:504834 original size:121 final size:117
Alignment explanation
Indices: 504533--504898 Score: 337
Period size: 121 Copynumber: 3.0 Consensus size: 117
504523 AGGAAAAAGA
* * * ** * *
504533 TGCCATGGAGTTATGGGCTT-AAAATG-GTGCCACAAAGTTGTGGACTTAAAAGG-AAAAGAGTG
1 TGCCACGGAGTTGTGGGCTTAAAAAAGAGTGCCACGGAGTCGTGGACTT---AGGAAAAAGGGTG
*
504595 CCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGG
63 CCACGAAGTTGTGGGCTTT----GAAAAAA-GGTGCCACGGAGTCGTGGACTTAAAAGGG
*
504655 TGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGGTG
1 TGCCACGGAGTTGTGGGCTTAAAAAAGAGTGCCACGGAGTCGTGGACTT---AGGAAAAAGGGTG
* * * *
504720 CCACGAAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAGTTGTGGGCTTAAACGGG
63 CCACGAAGTTGTGGGCTTTGAAAA-AAGGTGCCACGGAGTCGTGGACTTAAAAGGG
* * * * *
504776 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTT-TGAAAAGGAGG
1 TGCCACGGAGTTGTGGGCTT--AA--AAAAGAGTGCCACGGAGTCGTGGACTTAGGAAAAAG-GG
*
504840 TGCCAC-AGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG
61 TGCCACGA-AGTTGTGGGCTTTG--A-AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG
504899 AATGCCACTT
Statistics
Matches: 208, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
121 57 0.27
122 41 0.20
123 6 0.03
124 51 0.25
125 53 0.25
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (117 bp):
TGCCACGGAGTTGTGGGCTTAAAAAAGAGTGCCACGGAGTCGTGGACTTAGGAAAAAGGGTGCCA
CGAAGTTGTGGGCTTTGAAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGG
Found at i:504916 original size:125 final size:119
Alignment explanation
Indices: 504533--504898 Score: 361
Period size: 124 Copynumber: 3.0 Consensus size: 119
504523 AGGAAAAAGA
* * * ** *
504533 TGCCATGGAGTTATGGGCTT-AAAATG-GTGCCACAAAGTTGTGGACTT-AAAAGGAAAAGAGTG
1 TGCCACGGAGTTGTGGGCTTAAAAAAGAGTGCCACGGAGTCGTGGACTTGAAAAGG---AG-GTG
*
504595 CCACGTAGTTGTGGGCTTT-AAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGG
62 CCACGAAGTTGTGGGCTTTGAAA-G-AAAAA-GGTGCCACGGAGTCGTGGACTTAAAAGGG
*
504655 TGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGACTT-AAAAGGAAAAAGGGT
1 TGCCACGGAGTTGTGGGCTTAAAAAAGAGTGCCACGGAGTCGTGGACTTGAAAAGG----A-GGT
* * * * *
504719 GCCACGAAGTTGTGGGCTTTG-AA-AAGAAGGTGCCACGAAGTTGTGGGCTTAAACGGG
61 GCCACGAAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGG
* * *
504776 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGGAGGT
1 TGCCACGGAGTTGTGGGCTT--AA--AAAAGAGTGCCACGGAGTCGTGGAC-TTGAAAAGGAGGT
*
504841 GCCAC-AGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG
61 GCCACGA-AGTTGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG
504899 AATGCCACTT
Statistics
Matches: 208, Mismatches: 22, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
121 46 0.22
122 43 0.21
123 9 0.04
124 52 0.25
125 49 0.24
126 3 0.01
127 6 0.03
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (119 bp):
TGCCACGGAGTTGTGGGCTTAAAAAAGAGTGCCACGGAGTCGTGGACTTGAAAAGGAGGTGCCAC
GAAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGG
Found at i:504937 original size:31 final size:31
Alignment explanation
Indices: 504899--505200 Score: 193
Period size: 31 Copynumber: 9.7 Consensus size: 31
504889 ACTTAAAAGG
* * *
504899 AATGCCACTTAATTGTGGACTTTTAGGACAA
1 AATGCCACTGAATCGTGGACTTTTAGAACAA
* * * * *
504930 AATGCCACTGAGTCGTGGGCTTTGAGAAGAG
1 AATGCCACTGAATCGTGGACTTTTAGAACAA
* * **
504961 ATTGCCACT-AAGTCGTGGACTTTAAGAAGGA
1 AATGCCACTGAA-TCGTGGACTTTTAGAACAA
* * *
504992 GATGCCACTGAATTGTGGAC-TTTAGGACAA
1 AATGCCACTGAATCGTGGACTTTTAGAACAA
* * * * *
505022 AATGCCATTGAGTCGTGGGCTTTGAGAAGAA
1 AATGCCACTGAATCGTGGACTTTTAGAACAA
* * * *
505053 AGGGTGCCACGGAGTCGTGGAC-TTTAGGACAA
1 A--ATGCCACTGAATCGTGGACTTTTAGAACAA
* * *
505085 AATGCCACTGATTCGTGGGCTTTGAAGAA-AA
1 AATGCCACTGAATCGTGGACTTT-TAGAACAA
* *
505116 GGATGCCACT-AAGTCGTGGACTTTGAG-ACAA
1 -AATGCCACTGAA-TCGTGGACTTTTAGAACAA
* * * *
505147 AATGCCACTGAGTCGTGGACTTTGAGAAGAG
1 AATGCCACTGAATCGTGGACTTTTAGAACAA
* *
505178 ATTGCCACTGAGTCGTGGACTTT
1 AATGCCACTGAATCGTGGACTTT
505201 AAAAAGGTAT
Statistics
Matches: 208, Mismatches: 51, Indels: 24
0.73 0.18 0.08
Matches are distributed among these distances:
30 60 0.29
31 102 0.49
32 31 0.15
33 15 0.07
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (31 bp):
AATGCCACTGAATCGTGGACTTTTAGAACAA
Found at i:504954 original size:92 final size:92
Alignment explanation
Indices: 504840--505201 Score: 337
Period size: 92 Copynumber: 3.9 Consensus size: 92
504830 GAAAAGGAGG
* * *
504840 TGCCACAGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAA-AAGGA-ATG
1 TGCCACTGAGTCGTGGGCTTTGAAAG-AAAAGGTGCCACGGAGTCGTGGACTTAAGAAGGAGATG
*
504903 CCACTTAATTGTGGACTTTTAGGACAAAA
65 CCACTGAATTGTGGAC-TTTAGGACAAAA
* * **
504932 TGCCACTGAGTCGTGGGCTTTG--AGAAGAGATTGCCACTAAGTCGTGGACTTTAAGAAGGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAAGAAAAG-GTGCCACGGAGTCGTGGAC-TTAAGAAGGAGAT
504995 GCCACTGAATTGTGGACTTTAGGACAAAA
64 GCCACTGAATTGTGGACTTTAGGACAAAA
* * * * ** *
505024 TGCCATTGAGTCGTGGGCTTTGAGAAGAAAGGGTGCCACGGAGTCGTGGACTTTAGGACAAAATG
1 TGCCACTGAGTCGTGGGCTTTGA-AAGAAAAGGTGCCACGGAGTCGTGGACTTAAGAAGGAGATG
* *
505089 CCACTG-ATTCGTGGGCTTTGAAGA-AAAGGA
65 CCACTGAATT-GTGGACTTT-AGGACAAA--A
* * * * * *
505119 TGCCACTAAGTCGTGGACTTTGAGACAAAA--TGCCACTGAGTCGTGGACTTTGAGAA-GAGATT
1 TGCCACTGAGTCGTGGGCTTTGAAAGAAAAGGTGCCACGGAGTCGTGGAC-TTAAGAAGGAGA-T
* *
505181 GCCACTGAGTCGTGGACTTTA
64 GCCACTGAATTGTGGACTTTA
505202 AAAAGGTATT
Statistics
Matches: 221, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
89 4 0.02
90 18 0.08
91 4 0.02
92 80 0.36
93 65 0.29
94 24 0.11
95 26 0.12
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (92 bp):
TGCCACTGAGTCGTGGGCTTTGAAAGAAAAGGTGCCACGGAGTCGTGGACTTAAGAAGGAGATGC
CACTGAATTGTGGACTTTAGGACAAAA
Found at i:504997 original size:62 final size:61
Alignment explanation
Indices: 504840--505201 Score: 292
Period size: 62 Copynumber: 5.9 Consensus size: 61
504830 GAAAAGGAGG
* * * *
504840 TGCCACAGAGTTGTGGACTTTGAAAGAAAAAGG-TGCCACGGAGTCGTGGAC-TTA-AA-AGGAA
1 TGCCACTGAGTCGTGGACTTT--AAG-AAAAGGATGCCACTGAGTCGTGGACTTTAGAACA-AAA
* * * * * * * *
504901 TGCCACTTAATTGTGGACTTTTAGGACAAA--ATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGAC-TTTAAGA-AAAGGATGCCACTGAGTCGTGGACTTT-AGAACAAAA
* * * * *
504963 TGCCACTAAGTCGTGGACTTTAAG-AAGGAGATGCCACTGAATTGTGGACTTTAGGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAG-GATGCCACTGAGTCGTGGACTTTAGAACAAAA
* * * * * *
505024 TGCCATTGAGTCGTGGGCTTTGAGAAGAAAGGGTGCCACGGAGTCGTGGACTTTAGGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAG-A-AAAGGATGCCACTGAGTCGTGGACTTTAGAACAAAA
* * *
505087 TGCCACTGATTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGGATGCCACTGAGTCGTGGACTTTAGA-ACAAAA
* *
505149 TGCCACTGAGTCGTGGACTTTGAGAAGA-GATTGCCACTGAGTCGTGGACTTTA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGGA-TGCCACTGAGTCGTGGACTTTA
505202 AAAAGGTATT
Statistics
Matches: 244, Mismatches: 40, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
59 19 0.08
60 9 0.04
61 72 0.30
62 90 0.37
63 49 0.20
64 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTAAGAAAAGGATGCCACTGAGTCGTGGACTTTAGAACAAAA
Found at i:505113 original size:125 final size:122
Alignment explanation
Indices: 504963--505201 Score: 313
Period size: 125 Copynumber: 1.9 Consensus size: 122
504953 GAGAAGAGAT
* *
504963 TGCCACTAAGTCGTGGACTTTAAG-AAGGAGATGCCACTGAA-TTGTGGACTTT-AGGACAAAAT
1 TGCCACTAAGTCGTGGACTTTAAGAAAAG-GATGCCACT-AAGTCGTGGACTTTGA-GACAAAAT
* * *
505025 GCCATTGAGTCGTGGGCTTTGAGAAGAAAGGGTGCCACGGAGTCGTGGACTTTAGGACAAAA
63 GCCACTGAGTCGTGGACTTTGAGAAG--AGAGTGCCACGGAGTCGTGGACTTTAGGACAAAA
* * *
505087 TGCCACTGATTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAATGC
1 TGCCACTAAGTCGTGGACTTT-AAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAATGC
* *
505152 CACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTA
65 CACTGAGTCGTGGACTTTGAGAAGAGAGTGCCACGGAGTCGTGGACTTTA
505202 AAAAGGTATT
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
123 23 0.23
124 20 0.20
125 54 0.53
126 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (122 bp):
TGCCACTAAGTCGTGGACTTTAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAATGCC
ACTGAGTCGTGGACTTTGAGAAGAGAGTGCCACGGAGTCGTGGACTTTAGGACAAAA
Found at i:513356 original size:52 final size:51
Alignment explanation
Indices: 513278--513426 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
513268 CGAAGTATGA
513278 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
513330 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
513382 AAATTTGCCTGCATGTATTGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
513427 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:513433 original size:13 final size:13
Alignment explanation
Indices: 513415--513439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
513405 CAAAGATCAG
513415 TGTATCGATACAA
1 TGTATCGATACAA
513428 TGTATCGATACA
1 TGTATCGATACA
513440 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:513517 original size:33 final size:33
Alignment explanation
Indices: 513480--513546 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
513470 AGTAGCTTAA
513480 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
513513 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
513546 A
1 A
513547 AATCGTTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:513520 original size:13 final size:13
Alignment explanation
Indices: 513502--513526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
513492 CAAAAAAATA
513502 TGTATCGATACAT
1 TGTATCGATACAT
513515 TGTATCGATACA
1 TGTATCGATACA
513527 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:513873 original size:12 final size:14
Alignment explanation
Indices: 513856--513887 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
513846 GTCTATAATG
513856 TGTCAA-AAAC-TT
1 TGTCAAGAAACGTT
513868 TGTCAAGAAACGTT
1 TGTCAAGAAACGTT
513882 TGTCAA
1 TGTCAA
513888 CACGAATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 4 0.22
14 8 0.44
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (14 bp):
TGTCAAGAAACGTT
Found at i:514202 original size:32 final size:32
Alignment explanation
Indices: 514151--514407 Score: 283
Period size: 32 Copynumber: 8.0 Consensus size: 32
514141 CTAGTAGAGA
*
514151 AACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1 AACCTTCTCAAAAGCCCACACAAGTTGGTGGC
514183 AA-CTTCGTCAAAAGCCCACACAAGTTGGTGGC
1 AACCTTC-TCAAAAGCCCACACAAGTTGGTGGC
* *
514215 AACCCTTC-CTAAAGCCCACATAAGTTGGTGGC
1 AA-CCTTCTCAAAAGCCCACACAAGTTGGTGGC
* **
514247 AAAC-TCTTCAAAAGCCCACACAAGTTTATGGC
1 AACCTTC-TCAAAAGCCCACACAAGTTGGTGGC
* *
514279 AACCCTTCT-TAAAGCCCACACAAATTGGTGGC
1 AA-CCTTCTCAAAAGCCCACACAAGTTGGTGGC
* *
514311 AACCTTTTCAAAAGCCCACACAAGTTTGTGGC
1 AACCTTCTCAAAAGCCCACACAAGTTGGTGGC
* *
514343 AACCCTTCT-TAAAGTCCACACAAGTTGGTGGC
1 AA-CCTTCTCAAAAGCCCACACAAGTTGGTGGC
* * *
514375 AATCCTT-TTAAAAGCCCACATAGGTTGGTGGC
1 AA-CCTTCTCAAAAGCCCACACAAGTTGGTGGC
514407 A
1 A
514408 TCTCCTTCTA
Statistics
Matches: 189, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
30 2 0.01
31 11 0.06
32 163 0.86
33 7 0.04
34 6 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (32 bp):
AACCTTCTCAAAAGCCCACACAAGTTGGTGGC
Found at i:514260 original size:64 final size:64
Alignment explanation
Indices: 514153--514423 Score: 334
Period size: 64 Copynumber: 4.2 Consensus size: 64
514143 AGTAGAGAAA
*
514153 CCTTCTCTAAAGCCCACACAAGTTGGTGGC-AACTTCGTCAAAAGCCCACACAAGTTGGTGGCAA
1 CCTTC-CTAAAGCCCACACAAGTTGGTGGCAAAC-TCTTCAAAAGCCCACACAAGTTGGTGGCAA
514217 C
64 C
* **
514218 CCTTCCTAAAGCCCACATAAGTTGGTGGCAAACTCTTCAAAAGCCCACACAAGTTTATGGCAAC
1 CCTTCCTAAAGCCCACACAAGTTGGTGGCAAACTCTTCAAAAGCCCACACAAGTTGGTGGCAAC
* * * * *
514282 CCTTCTTAAAGCCCACACAAATTGGTGGCAACCTTTTCAAAAGCCCACACAAGTTTGTGGCAAC
1 CCTTCCTAAAGCCCACACAAGTTGGTGGCAAACTCTTCAAAAGCCCACACAAGTTGGTGGCAAC
* * * * * * *
514346 CCTTCTTAAAGTCCACACAAGTTGGTGGCAATC-CTTTTAAAAGCCCACATAGGTTGGTGGCATC
1 CCTTCCTAAAGCCCACACAAGTTGGTGGCAAACTC-TTCAAAAGCCCACACAAGTTGGTGGCAAC
514410 TCCTT-CTAAA-CCCA
1 -CCTTCCTAAAGCCCA
514424 ATGTCGCTGG
Statistics
Matches: 182, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
63 3 0.02
64 167 0.92
65 12 0.07
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (64 bp):
CCTTCCTAAAGCCCACACAAGTTGGTGGCAAACTCTTCAAAAGCCCACACAAGTTGGTGGCAAC
Found at i:514403 original size:96 final size:97
Alignment explanation
Indices: 514153--514407 Score: 313
Period size: 96 Copynumber: 2.6 Consensus size: 97
514143 AGTAGAGAAA
*
514153 CCTTCTCTAAAGCCCACACAAGTTGGTGGCAA-CTTCGTCAAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCT-TAAAGCCCACACAAGTTGGTGGCAACCTTC-TTAAAAGCCCACACAAGTTGGTGGCAA
* *
514217 CCCTTCCTAAAGCCCACATAAGTTGGTGGCAAAC
64 CCCTTCCAAAAGCCCACACAAGTTGGTGGCAAAC
* * ** *
514251 TCTTC-AAAAGCCCACACAAGTTTATGGCAACCCTTCTT-AAAGCCCACACAAATTGGTGGCAAC
1 CCTTCTTAAAGCCCACACAAGTTGGTGGCAA-CCTTCTTAAAAGCCCACACAAGTTGGTGGCAAC
* * *
514314 CTTTTCAAAAGCCCACACAAGTTTGTGGC-AAC
65 CCTTCCAAAAGCCCACACAAGTTGGTGGCAAAC
* * *
514346 CCTTCTTAAAGTCCACACAAGTTGGTGGCAATCCTT-TTAAAAGCCCACATAGGTTGGTGGCA
1 CCTTCTTAAAGCCCACACAAGTTGGTGGCAA-CCTTCTTAAAAGCCCACACAAGTTGGTGGCA
514408 TCTCCTTCTA
Statistics
Matches: 133, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
95 9 0.07
96 115 0.86
97 1 0.01
98 8 0.06
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (97 bp):
CCTTCTTAAAGCCCACACAAGTTGGTGGCAACCTTCTTAAAAGCCCACACAAGTTGGTGGCAACC
CTTCCAAAAGCCCACACAAGTTGGTGGCAAAC
Found at i:514477 original size:43 final size:43
Alignment explanation
Indices: 514421--514503 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
514411 CCTTCTAAAC
* *
514421 CCAATGTCGCTGGCCCTGAATCAGCATATTGGCACCTTTAAGT
1 CCAATATCACTGGCCCTGAATCAGCATATTGGCACCTTTAAGT
**
514464 CCAATATCACTGGCTTTGAATCAGCATATTGGCACCTTTA
1 CCAATATCACTGGCCCTGAATCAGCATATTGGCACCTTTA
514504 CCATCTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
CCAATATCACTGGCCCTGAATCAGCATATTGGCACCTTTAAGT
Found at i:514535 original size:52 final size:52
Alignment explanation
Indices: 514456--514909 Score: 279
Period size: 52 Copynumber: 8.8 Consensus size: 52
514446 ATATTGGCAC
* * *
514456 CTTTAAGTCCAATATCACTGGCTTTGAATCAGCATATTGGCACCTTTACCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * *
514508 CTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGTACC-TT--CAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * * * *
514557 -TTTCAAGTCCGATATCACTGGCCTTGAATCAGCATATTGGCATCTTTAACAT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * * * * * *
514609 -TCCTAAGCCCTAATGTCGCTGGTCTTGAATCAGAACATTGACA-TTCTTACCAT
1 CT-TTAAGTCC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACCT-TTACCAT
* * *
514662 CTTTAAGTCCAATGTCGCTGGCTTTGAATCAACATATTGGCACCATT---AT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * * * * * *
514711 CTTTAAATCCGATATCGCTGGCCTTGAATTAGCATATTGGCATCTGTAACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
** * * * * * * *
514763 -TCCAAAGCCCAATATCGTTGACCTTGAATCAGTACATTGGCA--TTCTTCTCAT
1 CT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAC-CAT
* * * * * * ** ***
514815 CTTCAAGTCTAATGTCGCTGGGCGTGAATCAGCACATTGACATTTTTTGTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* *
514867 CTTTAAG-CCTAATAG-CACTGGCCTTGAATTAGCATATTGGCAC
1 CTTTAAGTCC-AAT-GTCGCTGGCCTTGAATCAGCATATTGGCAC
514910 TTTTCTCATT
Statistics
Matches: 304, Mismatches: 78, Indels: 40
0.72 0.18 0.09
Matches are distributed among these distances:
48 3 0.01
49 76 0.25
50 3 0.01
51 5 0.02
52 172 0.57
53 42 0.14
54 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
Found at i:514592 original size:101 final size:98
Alignment explanation
Indices: 514421--514853 Score: 333
Period size: 101 Copynumber: 4.3 Consensus size: 98
514411 CCTTCTAAAC
* *
514421 CCAATGTCGCTGGCCCTGAATCAGCATATTGGCAC--C--TTTAAGTCCAATATCACTGGCTTTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATTTTAAGTCCAATATCACTGGCTTTG
514482 AATCAGCATATTGGCACCTTTACCATCTTTAAGT
66 AATCAGCATATTGGCACCTTTA-CATCTTTAAGT
* * * *
514516 CCAATGTCGCTGGCCTTGAATTAGCACATTGGTACCTTCATTTTCAAGTCCGATATCACTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATTTT-AAGTCCAATATCACTGGCTT
* * *
514581 TGAATCAGCATATTGGCATCTTTAACAT-TCCTAAGC
64 TGAATCAGCATATTGGCACCTTT-ACATCT-TTAAGT
* * * * *
514617 CCTAATGTCGCTGGTCTTGAATCAGAACATTGACATTCTTACCATCTTTAAGTCCAATGTCGCTG
1 CC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTT--CAT-TTTAAGTCCAATATCACTG
* * *
514682 GCTTTGAATCAACATATTGGCACCATT--ATCTTTAAAT
60 GCTTTGAATCAGCATATTGGCACCTTTACATCTTTAAGT
* * * * ** * ** *
514719 CCGATATCGCTGGCCTTGAATTAGCATATTGGCATCTGTAACATTCCAAAGCCCAATATCGTTGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CT-T--CATT-TTAAGTCCAATATCACTGG
* * * * *
514784 CCTTGAATCAGTACATTGGCATTCTTCT-CATCTTCAAGT
61 CTTTGAATCAGCATATTGGCA-CCTT-TACATCTTTAAGT
* * *
514823 CTAATGTCGCTGGGCGTGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
514854 ACATTTTTTG
Statistics
Matches: 265, Mismatches: 54, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
95 30 0.11
96 1 0.00
98 1 0.00
100 8 0.03
101 109 0.41
102 37 0.14
103 5 0.02
104 32 0.12
105 39 0.15
106 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (98 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATTTTAAGTCCAATATCACTGGCTTTG
AATCAGCATATTGGCACCTTTACATCTTTAAGT
Found at i:514761 original size:154 final size:153
Alignment explanation
Indices: 514501--514853 Score: 460
Period size: 154 Copynumber: 2.3 Consensus size: 153
514491 ATTGGCACCT
* * * *
514501 TTACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGTACCTTCATTTTCAAGTC
1 TTACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATTTTCAAATC
* * * *
514566 CGATATCACTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCTAATGTCGCTGG
66 CGATATCACTGGCCTTGAATCAGCATATTGGCATCTGTAACATTCCAAAGCCC-AATATCGCTGA
*
514631 TCTTGAATCAGAACATTGACATTC
130 CCTTGAATCAGAACATTGACATTC
* *
514655 TTACCATCTTTAAGTCCAATGTCGCTGGCTTTGAATCAACATATTGGCACCATT-ATCTTT-AAA
1 TTACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACC-TTCAT-TTTCAAA
* * *
514718 TCCGATATCGCTGGCCTTGAATTAGCATATTGGCATCTGTAACATTCCAAAGCCCAATATCGTTG
64 TCCGATATCACTGGCCTTGAATCAGCATATTGGCATCTGTAACATTCCAAAGCCCAATATCGCTG
* *
514783 ACCTTGAATCAGTACATTGGCATTC
129 ACCTTGAATCAGAACATTGACATTC
* * * * *
514808 TT-CTCATCTTCAAGTCTAATGTCGCTGGGCGTGAATCAGCACATTG
1 TTAC-CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTG
514854 ACATTTTTTG
Statistics
Matches: 173, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
152 1 0.01
153 66 0.38
154 101 0.58
155 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (153 bp):
TTACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATTTTCAAATC
CGATATCACTGGCCTTGAATCAGCATATTGGCATCTGTAACATTCCAAAGCCCAATATCGCTGAC
CTTGAATCAGAACATTGACATTC
Found at i:516903 original size:42 final size:40
Alignment explanation
Indices: 516808--516904 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 40
516798 GTTTTTAACG
* * *
516808 TAAACGCCGCTAAGTAATTTATTTTAGCGGCGTTTTAATAA
1 TAAACGCCACTAA-TAATTTATATTAACGGCGTTTTAATAA
* * * *
516849 CAAACGCTACTAATTATTTAGTATTAACGGCGTTTTACTAA
1 TAAACGCCACTAATAATTTA-TATTAACGGCGTTTTAATAA
516890 TTAAACGCCACTAAT
1 -TAAACGCCACTAAT
516905 CTTATTTTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 6 0.13
41 27 0.60
42 12 0.27
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (40 bp):
TAAACGCCACTAATAATTTATATTAACGGCGTTTTAATAA
Found at i:520224 original size:466 final size:463
Alignment explanation
Indices: 519345--520254 Score: 1492
Period size: 466 Copynumber: 2.0 Consensus size: 463
519335 TTTTGTAAGT
*
519345 ATTTACAATATATATATATATATACACCAATAAAAAATAACTTTAACAATCTTATTATAATTTTG
1 ATTTACAATATATATATATATATACACCAATAAAAAATAACTTTAACAATCTTATTAGAATTTTG
* *
519410 AACATTAATAATAATAATAATTATTATTATTATAATATAAAAAACCAACAGCAAACAAATTACAT
66 AACATTAATAATAATAATAATTATTATTATTATAATATAAAAAACCAACAACAAACAAATCACAT
*
519475 GTCAACAGCAAACATTAATAATAATTTACAATATATATATATACACCAATAGAAAATAACTTCAA
131 GCCAACAGCAAACATTAATAATAATTTACAATATATATATATACACCAATAGAAAATAACTTCAA
* *
519540 CAATCTTTTTAGAATTTTGAACATTAATAATAATAATTATTATTATTATTATAAACTAAAAAACC
196 CAATCTTATTAGAATTTTAAACATTAATAATAATAATTATTATTATTATTATAAACTAAAAAACC
* *
519605 TACAACAACAAACAAATCATATGTCAACAGCAAACATTAATAATAATTTACAATATATATATATA
261 TACAACAACAAACAAATCACATGTCAACAACAAACATTAATAATAATTTAC---A-ATATATATA
*
519670 TATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTGAACATTAATAATAA
322 TATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTAAACATTAATAATAA
519735 TAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACATGTCAACAGCAA
387 TAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACATGTCAACAGCAA
519800 ACATTAATAATA
452 ACATTAATAATA
*
519812 ATTTAC-A-ATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTG
1 ATTTACAATATATATATATATATACACCAATAAAAAATAACTTTAACAATCTTATTAGAATTTTG
*
519875 AACATTAATAATAATAATTATTATTATTATTATAA-ACTAAAAAACCTACAACAACAAACAAATC
66 AACATTAATAATAATAATAATTATTATTATTATAATA-TAAAAAA-C--CAACAACAAACAAATC
519939 ACATGCCAACAGCAAACATTAATAATAATTTAC-A-ATATATATATACACCAATAGAAAATAACT
127 ACATGCCAACAGCAAACATTAATAATAATTTACAATATATATATATACACCAATAGAAAATAACT
* *
520002 TTAACAATCTTATTATAATTTTAAACATTAATAATAATAATTATTATTATTATTATTATTATAAA
192 TCAACAATCTTATTAGAATTTTAAACA-T--TAATAATAA-TA--ATTATTATTATTATTATAAA
*
520067 CTAAAAAACCTACAACAGCAAACAAATCACATGTCAACAACAAACATTAATAATAATTTAC-A-A
251 CTAAAAAACCTACAACAACAAACAAATCACATGTCAACAACAAACATTAATAATAATTTACAATA
* *
520130 TATATATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACATTAA
316 TATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTAAACATTAA
*
520195 TAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAATCACAT
381 TAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACAT
520255 AACAACAATT
Statistics
Matches: 416, Mismatches: 17, Indels: 21
0.92 0.04 0.05
Matches are distributed among these distances:
464 1 0.00
465 95 0.23
466 176 0.42
467 9 0.02
468 46 0.11
469 9 0.02
470 2 0.00
472 78 0.19
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.33
Consensus pattern (463 bp):
ATTTACAATATATATATATATATACACCAATAAAAAATAACTTTAACAATCTTATTAGAATTTTG
AACATTAATAATAATAATAATTATTATTATTATAATATAAAAAACCAACAACAAACAAATCACAT
GCCAACAGCAAACATTAATAATAATTTACAATATATATATATACACCAATAGAAAATAACTTCAA
CAATCTTATTAGAATTTTAAACATTAATAATAATAATTATTATTATTATTATAAACTAAAAAACC
TACAACAACAAACAAATCACATGTCAACAACAAACATTAATAATAATTTACAATATATATATATA
TATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTAAACATTAATAATAATAAT
AATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACATGTCAACAGCAAACAT
TAATAATA
Found at i:520262 original size:156 final size:154
Alignment explanation
Indices: 519345--520254 Score: 1417
Period size: 162 Copynumber: 5.9 Consensus size: 154
519335 TTTTGTAAGT
* *
519345 ATTTACAATATATATATATATATACACCAATAAAAAATAACTTTAACAATCTTATTATAATTTTG
1 ATTTAC-A-ATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTG
* *
519410 AACATTAATAATAATAATAATTATTATTATTATAATA-TAAAAAA-C--CAACAGCAAACAAATT
64 AACATTAATAATAATAATAATTATTATTATTATAA-ACTAAAAAACCTACAACAACAAACAAATC
519471 ACATGTCAACAGCAAACATTAATAATA
128 ACATGTCAACAGCAAACATTAATAATA
* *
519498 ATTTAC-A-ATATATATATATACACCAATAGAAAATAACTTCAACAATCTTTTTAGAATTTTGAA
1 ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTGAA
* *
519561 CATTAATAATAATAATTATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCATA
66 CATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACA
519626 TGTCAACAGCAAACATTAATAATA
131 TGTCAACAGCAAACATTAATAATA
519650 ATTTACAATATATATATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGA
1 ATTTAC-------A-ATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGA
519715 ATTTTGAACATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAAC
58 ATTTTGAACATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAAC
519780 AAATCACATGTCAACAGCAAACATTAATAATA
123 AAATCACATGTCAACAGCAAACATTAATAATA
519812 ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTGAA
1 ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTGAA
*
519877 CATTAATAATAATAATTATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACA
66 CATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACA
*
519942 TGCCAACAGCAAACATTAATAATA
131 TGTCAACAGCAAACATTAATAATA
* *
519966 ATTTAC---A-ATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAA
1 ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTGAA
*
520027 CATTAATAATAATAATTATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAA
66 CATTAATAATAAT-A--A-TA--ATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAA
*
520092 ATCACATGTCAACAACAAACATTAATAATA
125 ATCACATGTCAACAGCAAACATTAATAATA
* * *
520122 ATTTACAATATATATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTA
1 ATTTAC-A-ATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTG
*
520187 AACATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAATCA
64 AACATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCA
520252 CAT
129 CAT
520255 AACAACAATT
Statistics
Matches: 710, Mismatches: 21, Indels: 49
0.91 0.03 0.06
Matches are distributed among these distances:
148 1 0.00
149 91 0.13
150 67 0.09
151 2 0.00
152 46 0.06
153 7 0.01
154 152 0.21
155 1 0.00
156 124 0.17
158 2 0.00
159 1 0.00
161 3 0.00
162 213 0.30
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.33
Consensus pattern (154 bp):
ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTAGAATTTTGAA
CATTAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAACAAACAAATCACA
TGTCAACAGCAAACATTAATAATA
Found at i:520311 original size:15 final size:18
Alignment explanation
Indices: 520275--520310 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
520265 TCACACCTCC
520275 AATTTAGCAATATATAAT
1 AATTTAGCAATATATAAT
520293 AATTTAGCAATATATAAT
1 AATTTAGCAATATATAAT
520311 TATCTCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
AATTTAGCAATATATAAT
Found at i:527199 original size:56 final size:56
Alignment explanation
Indices: 527103--527208 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 56
527093 AAATATAAAA
* * *
527103 GCCACTAAATTTGAATATTTAGCGGCGTTTACTAAAAAAAACGGCACTAAAAAATT
1 GCCACTAAATTTGAATAGTTAGCGGCGTTTACCAAAAAAAACGCCACTAAAAAATT
* ***
527159 GCCACTAAATTT-AAGTAGTTAGCGGCGTTTTCCCTGAAAAACGCCACTAA
1 GCCACTAAATTTGAA-TAGTTAGCGGCGTTTACCAAAAAAAACGCCACTAA
527209 TTATTTTTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 2 0.05
56 40 0.95
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (56 bp):
GCCACTAAATTTGAATAGTTAGCGGCGTTTACCAAAAAAAACGCCACTAAAAAATT
Found at i:527920 original size:15 final size:15
Alignment explanation
Indices: 527894--527928 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
527884 TGCAATGGAT
527894 CAAAACCCTGATGAG
1 CAAAACCCTGATGAG
527909 CCAAAA-CCTGATGAG
1 -CAAAACCCTGATGAG
527924 CAAAA
1 CAAAA
527929 TAGCATGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 9 0.47
16 5 0.26
ACGTcount: A:0.46, C:0.26, G:0.17, T:0.11
Consensus pattern (15 bp):
CAAAACCCTGATGAG
Found at i:529004 original size:28 final size:28
Alignment explanation
Indices: 528947--529010 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
528937 TTTAAAAAAA
*
528947 TTAAA-TATAATAATATAAATATATTTTT
1 TTAAATTA-AATAACATAAATATATTTTT
* *
528975 TTGAATTAAATAACATAGATA-ATTTCTT
1 TTAAATTAAATAACATAAATATATTT-TT
529003 TTAAATTA
1 TTAAATTA
529011 TTCAGAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 4 0.13
28 24 0.80
29 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAAATTAAATAACATAAATATATTTTT
Found at i:530025 original size:93 final size:93
Alignment explanation
Indices: 529856--530590 Score: 831
Period size: 93 Copynumber: 7.9 Consensus size: 93
529846 AACCGTAGAA
* * * *
529856 GTAGCACAGAATAATGAAGCATCTTTAATAGTTGGAAACAATAATGA--G--TTTGAATATCAGA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAAT-ATTGCTTTTGAATATCAGA
* * *
529917 ATTCGAAAGCATCTCAGCCAACCGTTAGT
65 ATTCGAATGCATCTCAGCCAACTGTTACT
* * * *
529946 CTAGCAAAGAATAACGAAGCTTCTTTAATGGCTGGAGATAATAATATTGCTTTTGAATATCAGAA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAATATTGCTTTTGAATATCAGAA
*
530011 TTCGAATGCATCTCAACCAACTGTTACT
66 TTCGAATGCATCTCAGCCAACTGTTACT
* * * *
530039 GTAGCTCAGAATAACGAAGCTTCTTTAATGGCTGGAAACAGTAATACTGCTTTTCAATATCAGAA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAATATTGCTTTTGAATATCAGAA
* *
530104 TTCGAATGCATATCAACCAACTGTT-CTT
66 TTCGAATGCATCTCAGCCAACTGTTAC-T
* * ** * ** *
530132 GTAGCACAGAATAACCAAGCTTCTGTAACAGCTGGAAACCATGAAT-TTGGGTTTGAAGATCAGA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAAT-AATATTGCTTTTGAATATCAGA
* * *
530196 ACTTTG-ATGCATCTCAGCCGATTGTTACT
65 A-TTCGAATGCATCTCAGCCAACTGTTACT
* *
530225 GTAGCTCAGAATAACGAAGCTTCTTTAATGGCTGGAAACAGTAATATTGCTTTTGAATATCAGAA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAATATTGCTTTTGAATATCAGAA
* * * * * *
530290 TTGGTATGCATATCAGTCAGCTGTTAAT
66 TTCGAATGCATCTCAGCCAACTGTTACT
* * * *
530318 GTAGCAAAGAATAACGAAGGTTCTTTAATGGCTGGAGACGATAATATTGCTTTTGAATATCAGAA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAATATTGCTTTTGAATATCAGAA
530383 TTCGAATGCATCTCAGCCAACTGTTACT
66 TTCGAATGCATCTCAGCCAACTGTTACT
* *
530411 GTAGCTCAGAATAACGAAGCTTCTTTAATGGCTGGAAACAGTAATATTGCTTTTGAATATCAGAA
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAATATTGCTTTTGAATATCAGAA
* * * ** *
530476 TTGGAATGCATATCAGTCGGCTGTTAAT
66 TTCGAATGCATCTCAGCCAACTGTTACT
* * * * **
530504 GTAGCACAGAATAAGGAAGCTTCTGTAATGGCTGAAAACTATGAAT-TTGAGTTTG-ATGATCAG
1 GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAAT-AATATTGCTTTTGAAT-ATCAG
* * *
530567 AATTTGGATGCATCTCCGCCAACT
64 AATTCGAATGCATCTCAGCCAACT
530591 CCTAATGAAG
Statistics
Matches: 539, Mismatches: 94, Indels: 21
0.82 0.14 0.03
Matches are distributed among these distances:
89 1 0.00
90 37 0.07
91 1 0.00
92 9 0.02
93 481 0.89
94 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (93 bp):
GTAGCACAGAATAACGAAGCTTCTTTAATGGCTGGAAACAATAATATTGCTTTTGAATATCAGAA
TTCGAATGCATCTCAGCCAACTGTTACT
Found at i:530819 original size:27 final size:27
Alignment explanation
Indices: 530781--530832 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
530771 TTTGGACTGG
530781 TTTGATGGATTTCGATTAAGATTATAC
1 TTTGATGGATTTCGATTAAGATTATAC
*
530808 TTTGATGGATTTCGGTTAAGATTAT
1 TTTGATGGATTTCGATTAAGATTAT
530833 GCTAAGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTGATGGATTTCGATTAAGATTATAC
Found at i:530879 original size:16 final size:16
Alignment explanation
Indices: 530838--530914 Score: 75
Period size: 16 Copynumber: 4.7 Consensus size: 16
530828 ATTATGCTAA
530838 GTTTAAATTATTTTAG
1 GTTTAAATTATTTTAG
* *
530854 G-TGACGATTATTTTAG
1 GTTTA-AATTATTTTAG
*
530870 GTTTGAATTATTTTAG
1 GTTTAAATTATTTTAG
*
530886 ATTTAAATTATTTTAATG
1 GTTTAAATTATTTT-A-G
*
530904 GTTTAAGTTAT
1 GTTTAAATTAT
530915 ATATTTTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 2 0.04
16 34 0.71
17 2 0.04
18 10 0.21
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (16 bp):
GTTTAAATTATTTTAG
Found at i:532299 original size:99 final size:97
Alignment explanation
Indices: 532082--532304 Score: 254
Period size: 99 Copynumber: 2.2 Consensus size: 97
532072 ATTGGAGGAG
*
532082 AAAAGTGAAAATATAAAAAATATTATGCTTGATTGGAAAGATGGAATAATAAAAATAAAAAATAA
1 AAAAGAGAAAATATAAAAAATATTATGCTTGATTGGAAAGATGGAATAATAAAAATAAAAAATAA
* ** *
532147 TATTATTTCCACCCATTGCTTGGCATTAGAGGAG
66 TATTATTTCCACCCA-TGCTT-GCATTAAAAAAA
* * *
532181 AAAAGTGAAAATATAAAAAATATTATGCTTGATTGGAAAGATGGAATAATAAAACTAAAATATAA
1 AAAAGAGAAAATATAAAAAATATTATGCTTGATTGGAAAGATGGAATAATAAAAATAAAAAATAA
** *
532246 TATTATTTTTA-CC-TGGTAT-CATTAAAAAATA
66 TATTATTTCCACCCATGCT-TGCATTAAAAAA-A
532277 AAAAGAAAGAAAATAAATAAAAAATATT
1 AAAAG--AGAAAAT--ATAAAAAATATT
532305 TTTTACAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
95 7 0.06
96 8 0.07
97 1 0.01
98 8 0.07
99 72 0.67
100 12 0.11
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (97 bp):
AAAAGAGAAAATATAAAAAATATTATGCTTGATTGGAAAGATGGAATAATAAAAATAAAAAATAA
TATTATTTCCACCCATGCTTGCATTAAAAAAA
Found at i:534964 original size:29 final size:29
Alignment explanation
Indices: 534885--534992 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 29
534875 TTATTAATTT
* *
534885 TTTATTACATTAAATAAATTATTAACATTTAA
1 TTTA-TAC-TTAAATAAATT-TAAACTTTTAA
** *
534917 TTTGCACTCAAATAAAATTTAAACTTTTAA
1 TTTATACTTAAAT-AAATTTAAACTTTTAA
*
534947 TTTATACTTAAATAAATTTATAACTTATAA
1 TTTATACTTAAATAAATTTA-AACTTTTAA
* *
534977 TTTAAATTTAAATAAA
1 TTTATACTTAAATAAA
534993 CTTTTAATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
29 7 0.11
30 46 0.73
31 7 0.11
32 3 0.05
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.44
Consensus pattern (29 bp):
TTTATACTTAAATAAATTTAAACTTTTAA
Found at i:535084 original size:29 final size:28
Alignment explanation
Indices: 535022--535099 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
535012 TTTATTTAAA
*
535022 ATAAAAATTTATTTAAATACAAATCAAAAC
1 ATAAAAATTTATTTAAA-A-AAATAAAAAC
*
535052 ATAAAAATTTATTTAAAAATAATAAAAAT
1 ATAAAAATTTATTTAAAAA-AATAAAAAC
* *
535081 ATAAAAACTTACTTAAAAA
1 ATAAAAATTTATTTAAAAA
535100 GAAGTGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 25 0.58
30 17 0.40
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
ATAAAAATTTATTTAAAAAAATAAAAAC
Found at i:535381 original size:20 final size:20
Alignment explanation
Indices: 535353--535427 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
535343 TCATACCCTG
535353 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
535373 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
535393 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
535413 ATGTATCGATACATT
1 ATGTATCGATACATT
535428 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:535420 original size:40 final size:39
Alignment explanation
Indices: 535353--535430 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
535343 TCATACCCTG
* *
535353 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
535393 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
535431 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:544483 original size:22 final size:22
Alignment explanation
Indices: 544456--544500 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
544446 ACTATTAAAA
*
544456 ATATATTTTTAT-ATTAATATTT
1 ATATATTTTCATAATTAA-ATTT
544478 ATATATTTTCATAATTAAATTT
1 ATATATTTTCATAATTAAATTT
544500 A
1 A
544501 AATAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATATTTTCATAATTAAATTT
Found at i:545787 original size:6 final size:6
Alignment explanation
Indices: 545765--545805 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
545755 TAATTTTCTG
* *
545765 AATATA ATTAAA AATATA AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATATA AATATA AATAT
545806 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:546862 original size:2 final size:2
Alignment explanation
Indices: 546855--546896 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
546845 GGCACTCCAA
546855 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
546897 CCTTTTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:553391 original size:22 final size:23
Alignment explanation
Indices: 553333--553394 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
553323 TTTTTATTTT
553333 TATTTTAAAATATAATATTAAAAA
1 TATTTTAAAA-ATAATATTAAAAA
* **
553357 TATTAATATAAAATAAT-TTATTAA
1 TATT-TTA-AAAATAATATTAAAAA
553381 TATTTTAAAAATAA
1 TATTTTAAAAATAA
553395 ATGAGCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 7 0.22
23 2 0.06
24 13 0.41
25 7 0.22
26 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTTAAAAATAATATTAAAAA
Found at i:557586 original size:78 final size:79
Alignment explanation
Indices: 557268--557587 Score: 378
Period size: 78 Copynumber: 4.1 Consensus size: 79
557258 TTATTAATGT
** * * *
557268 TTTTATTTCTAACCCACCAATTTTTCACCATCAAGGATACTCCAACCCCGTTATTTTC-AAGAGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAG-
*
557332 ATACTCCAACCCCGG
65 ATACTCCAACCCCGA
* * * * * * * *
557347 TTTTATTTTTAAAACACTAATTTTTCACAATTGGGGATATTCCAACCTCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGA
*
557412 TACTCCAACCTC-A
66 TACTCCAACCCCGA
* * * * *
557425 TTTTATTTCCAAAATACCGATTTTTCACAATCGGGGATACTTCAACCCCGTTATTTTCGA-GAGG
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGA-G
*
557489 ATACTCCAACCCCAA
65 ATACTCCAACCCCGA
*
557504 TTTTATTTCTAAAACA-CAATTTTTCACAATCGAGGATACTCTAACCCCGTTATTTTCGAGGAGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGA
* *
557568 TACTCCAACTCCGT
66 TACTCCAACCCCGA
557582 TTTTAT
1 TTTTAT
557588 CTCCAAAATA
Statistics
Matches: 201, Mismatches: 36, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
77 1 0.00
78 121 0.60
79 76 0.38
80 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGA
TACTCCAACCCCGA
Found at i:557586 original size:157 final size:157
Alignment explanation
Indices: 557287--557597 Score: 428
Period size: 157 Copynumber: 2.0 Consensus size: 157
557277 TAACCCACCA
* **
557287 ATTTTTCACCATCAAGGATACTCCAACCCCGTTATTTTCAAGAGAATACTCCAACCCCGGTTTTA
1 ATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTTCAAGAGAATACTCCAACCCCAATTTTA
* * * * * * *
557352 TTTTTAAAACACTAATTTTTCACAATTGGGGATATTCCAACCTCGTTATTTTTGAGGGGATACTC
66 TTTCTAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGATACTC
*
557417 CAACCTCATTTTATTTCCAAAATACCG
131 CAACCTCATTTTATCTCCAAAATACCG
** * * *
557444 ATTTTTCACAATCGGGGATACTTCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCAATTTTA
1 ATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTTCAAGAGAATACTCCAACCCCAATTTTA
*
557509 TTTCTAAAACAC-AATTTTTCACAATCGAGGATACTCTAACCCCGTTATTTTCGAGGAGATACTC
66 TTTCTAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGATACTC
*
557573 CAA-CTCCGTTTTTATCTCCAAAATA
131 CAACCT-C-ATTTTATCTCCAAAATA
557598 GTAAATTTTT
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
155 2 0.01
156 49 0.37
157 83 0.62
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (157 bp):
ATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTTCAAGAGAATACTCCAACCCCAATTTTA
TTTCTAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGATACTC
CAACCTCATTTTATCTCCAAAATACCG
Found at i:560287 original size:2 final size:2
Alignment explanation
Indices: 560280--560316 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
560270 TAAAGTGTCA
560280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
560317 AAGCAAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:563561 original size:19 final size:19
Alignment explanation
Indices: 563539--563581 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
563529 TATTTATTTG
* *
563539 TTTATTTCATTTTTTTACT
1 TTTATTTAAGTTTTTTACT
563558 TTTA-TTAAGTTTTTTACT
1 TTTATTTAAGTTTTTTACT
*
563576 ATTATT
1 TTTATT
563582 GTTGTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATTTAAGTTTTTTACT
Found at i:564472 original size:16 final size:17
Alignment explanation
Indices: 564438--564477 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
564428 CATAGTGTCA
* *
564438 TTTATTTTTTTATTAAT
1 TTTATTTCTATATTAAT
564455 TTTATTTCTATATT-AT
1 TTTATTTCTATATTAAT
564471 TTTATTT
1 TTTATTT
564478 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTCTATATTAAT
Found at i:564484 original size:16 final size:16
Alignment explanation
Indices: 564438--564494 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
564428 CATAGTGTCA
*
564438 TTTATTTTTTTATTAAT
1 TTTATTTATTTATT-AT
* *
564455 TTTATTTCTATATTAT
1 TTTATTTATTTATTAT
564471 TTTATTTATTTATT-T
1 TTTATTTATTTATTAT
564486 TTTAATTTA
1 TTT-ATTTA
564495 CTTTGTCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.11
16 19 0.54
17 12 0.34
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTATTTATTAT
Found at i:581077 original size:18 final size:19
Alignment explanation
Indices: 581056--581092 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
581046 ACACCTCAAA
581056 CTTCCAAAATATAG-TTTT
1 CTTCCAAAATATAGCTTTT
*
581074 CTTCCAAATTATAGCTTTT
1 CTTCCAAAATATAGCTTTT
581093 AACTCCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (19 bp):
CTTCCAAAATATAGCTTTT
Found at i:581316 original size:17 final size:17
Alignment explanation
Indices: 581294--581328 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
581284 CCATAAGGTG
581294 TCAAAGCCTACAATAGC
1 TCAAAGCCTACAATAGC
581311 TCAAAGCCTACAATAGC
1 TCAAAGCCTACAATAGC
581328 T
1 T
581329 TTACAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (17 bp):
TCAAAGCCTACAATAGC
Found at i:581489 original size:39 final size:39
Alignment explanation
Indices: 581437--581512 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
581427 AATCTTACAA
* *
581437 TTAAACATCTTAATTTCTATAATATATAAATTGTTATGT
1 TTAAACATCTTAATTTCTATAAGATATAAACTGTTATGT
* *
581476 TTAAGCATTTTAATTTCTATAAGATATAAACTGTTAT
1 TTAAACATCTTAATTTCTATAAGATATAAACTGTTAT
581513 AAATTTTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (39 bp):
TTAAACATCTTAATTTCTATAAGATATAAACTGTTATGT
Found at i:582162 original size:20 final size:20
Alignment explanation
Indices: 582112--582162 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
582102 TCTAATTGTT
*
582112 TGTTT-ATTGTTTGTGAATA
1 TGTTTAATTATTTGTGAATA
* *
582131 TATTTCAATTATTTGTGTATA
1 TGTTT-AATTATTTGTGAATA
582152 TGTTTAATTAT
1 TGTTTAATTAT
582163 ATATTTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 16 0.62
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (20 bp):
TGTTTAATTATTTGTGAATA
Found at i:582699 original size:15 final size:16
Alignment explanation
Indices: 582679--582708 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
582669 CTCCTTACCC
582679 ATTAGTATAT-ATATT
1 ATTAGTATATCATATT
582694 ATTAGTATATCATAT
1 ATTAGTATATCATAT
582709 GCAGCCGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (16 bp):
ATTAGTATATCATATT
Found at i:585462 original size:2 final size:2
Alignment explanation
Indices: 585455--585497 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
585445 AACTCAATAA
* * *
585455 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AG AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
585497 A
1 A
585498 AAGCTTTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:590170 original size:15 final size:16
Alignment explanation
Indices: 590140--590179 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
590130 ATATAATTTT
*
590140 TTAAATATATAAAAAA
1 TTAAATATAAAAAAAA
590156 TTAAA-ATAAAAAAAA
1 TTAAATATAAAAAAAA
590171 TTAAATATA
1 TTAAATATA
590180 CACGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAATATAAAAAAAA
Found at i:592170 original size:7 final size:7
Alignment explanation
Indices: 592158--592183 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
592148 CCCCACAAGC
592158 TTTTTCT
1 TTTTTCT
592165 TTTTTCT
1 TTTTTCT
592172 TTTTTCT
1 TTTTTCT
592179 TTTTT
1 TTTTT
592184 TTCCGCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:592612 original size:24 final size:24
Alignment explanation
Indices: 592566--592612 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
592556 TAGCCATTAA
* *
592566 TTTTGATAAATAACAAGCCACCAT
1 TTTTGATAAATAAAAAGCAACCAT
592590 TTTTGATAAATACAAAAG-AACCA
1 TTTTGATAAATA-AAAAGCAACCA
592613 CTATTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (24 bp):
TTTTGATAAATAAAAAGCAACCAT
Found at i:592613 original size:27 final size:25
Alignment explanation
Indices: 592566--592632 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
592556 TAGCCATTAA
*
592566 TTTTGATAAATA-ACAAGCCACCAT
1 TTTTGATAAATACAAAAGCCACCAT
*
592590 TTTTGATAAATACAAAAGAACCACTAT
1 TTTTGATAAATACAAAAG--CCACCAT
* *
592617 TTTTGACAAACACAAA
1 TTTTGATAAATACAAA
592633 GGGTGGCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 12 0.33
25 4 0.11
27 20 0.56
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (25 bp):
TTTTGATAAATACAAAAGCCACCAT
Found at i:597111 original size:27 final size:27
Alignment explanation
Indices: 597050--597178 Score: 138
Period size: 27 Copynumber: 4.9 Consensus size: 27
597040 AAAAATTAGT
* *
597050 CACCAATTTTGACAAACAACAAG---C
1 CACCATTTTTGACAAACAAAAAGAAAC
597074 CACCATTTTTGACAAACAAAAAGAAAC
1 CACCATTTTTGACAAACAAAAAGAAAC
597101 CACCATTTTTGACAAACAAAAAGAAAC
1 CACCATTTTTGACAAACAAAAAGAAAC
* * * *
597128 CATCATTTTTTGACAAATACAAAGGAAC
1 CACCA-TTTTTGACAAACAAAAAGAAAC
* ** *
597156 TATTATTTTTGACAAACACAAAG
1 CACCATTTTTGACAAACAAAAAG
597179 GGTAATTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
24 21 0.23
27 49 0.53
28 22 0.24
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (27 bp):
CACCATTTTTGACAAACAAAAAGAAAC
Found at i:597116 original size:51 final size:53
Alignment explanation
Indices: 597050--597178 Score: 136
Period size: 55 Copynumber: 2.4 Consensus size: 53
597040 AAAAATTAGT
* *
597050 CACCAATTTTGACAAACAACAAG-CCACCA-TTTTTGACAAACAAAAAGAAAC
1 CACCATTTTTGACAAACAAAAAGACCACCATTTTTTGACAAACAAAAAGAAAC
* * * *
597101 CACCATTTTTGACAAACAAAAAGAAACCATCATTTTTTGACAAATACAAAGGAAC
1 CACCATTTTTGACAAACAAAAAG--ACCACCATTTTTTGACAAACAAAAAGAAAC
* ** *
597156 TATTATTTTTGACAAACACAAAG
1 CACCATTTTTGACAAACAAAAAG
597179 GGTAATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
51 21 0.33
54 5 0.08
55 38 0.59
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (53 bp):
CACCATTTTTGACAAACAAAAAGACCACCATTTTTTGACAAACAAAAAGAAAC
Found at i:600511 original size:20 final size:20
Alignment explanation
Indices: 600486--600528 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
600476 TAATTAATTC
*
600486 ATTTTAATAA-AATTTTAAAT
1 ATTTTAAAAATAATTTT-AAT
600506 ATTTTAAAAATAATTTTAAT
1 ATTTTAAAAATAATTTTAAT
600526 ATT
1 ATT
600529 AAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTAAAAATAATTTTAAT
Found at i:602134 original size:6 final size:6
Alignment explanation
Indices: 602125--602154 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
602115 CATGTACATG
*
602125 CATATA CATATA CATAGA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA
602155 AATTGTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (6 bp):
CATATA
Found at i:607105 original size:2 final size:2
Alignment explanation
Indices: 607098--607169 Score: 108
Period size: 2 Copynumber: 36.0 Consensus size: 2
607088 TAGGTACCAA
* * *
607098 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT GT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
607140 AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
607170 TTAGGCATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:608072 original size:2 final size:2
Alignment explanation
Indices: 608065--608092 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
608055 TATTATCATT
608065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
608093 AGATTCACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:609796 original size:2 final size:2
Alignment explanation
Indices: 609789--609822 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
609779 GATTTTTGAA
609789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
609823 CCTATATCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:611917 original size:2 final size:2
Alignment explanation
Indices: 611910--611941 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
611900 GTTGGCTTTC
*
611910 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
611942 TTAATCGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:619136 original size:2 final size:2
Alignment explanation
Indices: 619131--619158 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
619121 CAGCTGTGCT
619131 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
619159 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:619163 original size:2 final size:2
Alignment explanation
Indices: 619158--619203 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
619148 GTGTGTGTGT
619158 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
619200 GA GA
1 GA GA
619204 TCTTACTGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:623513 original size:23 final size:23
Alignment explanation
Indices: 623462--623513 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
623452 TTTCTCATAT
*
623462 TATATAATAGAAAATTATTAAAA
1 TATATAATAGAAAATTAATAAAA
* *
623485 TTTATAA-ATAAAATTAATAAAA
1 TATATAATAGAAAATTAATAAAA
623507 TAATATA
1 T-ATATA
623514 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATAATAGAAAATTAATAAAA
Found at i:623658 original size:18 final size:18
Alignment explanation
Indices: 623635--623669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
623625 ATTTTAATTT
623635 TAAAATCAAATTTGAAAA
1 TAAAATCAAATTTGAAAA
* *
623653 TAAAATGAAGTTTGAAA
1 TAAAATCAAATTTGAAA
623670 TTATAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
TAAAATCAAATTTGAAAA
Found at i:624534 original size:20 final size:21
Alignment explanation
Indices: 624497--624536 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
624487 TTAAAGTTAA
624497 TTAAATATTAAATATTTTTAT
1 TTAAATATTAAATATTTTTAT
* *
624518 TTAAAT-TTAATTTTTTTTA
1 TTAAATATTAAATATTTTTA
624537 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATATTAAATATTTTTAT
Found at i:624545 original size:30 final size:30
Alignment explanation
Indices: 624504--624605 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 30
624494 TAATTAAATA
* *
624504 TTAAATATTTTTATTTAAATTTAATTTTTT
1 TTAATTATTTTTATTTAAATTTAATTTTAT
624534 TTAATTA---TT-TTTAAA-TTAATTTTAT
1 TTAATTATTTTTATTTAAATTTAATTTTAT
*
624559 TT-ATTATTTTATATTTAAA-TTATATAATTAT
1 TTAATTATTTT-TATTTAAATTTA-AT-TTTAT
* *
624590 TTAGTTTTTTTTATTT
1 TTAATTATTTTTATTT
624606 TTGTAAGGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
24 4 0.07
25 11 0.19
26 6 0.10
27 3 0.05
28 1 0.02
29 9 0.15
30 8 0.14
31 11 0.19
32 6 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (30 bp):
TTAATTATTTTTATTTAAATTTAATTTTAT
Found at i:624576 original size:24 final size:24
Alignment explanation
Indices: 624509--624576 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
624499 AAATATTAAA
*
624509 TATTT-TTA-TTTAAATTTAATTT
1 TATTTATTATTTTATATTTAATTT
* *
624531 TTTTTAATTATTTT-TAAATTAATTT
1 TATTT-ATTATTTTAT-ATTTAATTT
624556 TATTTATTATTTTATATTTAA
1 TATTTATTATTTTATATTTAA
624577 ATTATATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 4 0.11
24 16 0.44
25 16 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTATTATTTTATATTTAATTT
Found at i:624590 original size:31 final size:29
Alignment explanation
Indices: 624538--624605 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
624528 TTTTTTTTAA
* *
624538 TTATTTTTAAATTAATTTTATTTA-TTATT
1 TTATATTTAAATTAATATTATTTAGTT-TT
624567 TTATATTTAAATTATATAATTATTTAGTTTT
1 TTATATTTAAATTA-AT-ATTATTTAGTTTT
*
624598 TTTTATTT
1 TTATATTT
624606 TTGTAAGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
30 2 0.06
31 16 0.48
32 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (29 bp):
TTATATTTAAATTAATATTATTTAGTTTT
Found at i:624649 original size:15 final size:15
Alignment explanation
Indices: 624631--624660 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
624621 CATAAGAATT
*
624631 TTTAATATAAAATAA
1 TTTAATAAAAAATAA
624646 TTTAATAAAAAATAA
1 TTTAATAAAAAATAA
624661 AAGTAGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAATAAAAAATAA
Found at i:624935 original size:21 final size:20
Alignment explanation
Indices: 624906--624946 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
624896 TTAAGTTTTC
*
624906 TCTTGCTTTTTATTCTTTATA
1 TCTTGC-TTTTATTATTTATA
*
624927 TCTTTCTTTTATTATTTATA
1 TCTTGCTTTTATTATTTATA
624947 AAGGTTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.68
Consensus pattern (20 bp):
TCTTGCTTTTATTATTTATA
Found at i:626959 original size:3 final size:3
Alignment explanation
Indices: 626951--626977 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
626941 CATTTCTTTC
626951 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
626978 ATTTTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:627694 original size:2 final size:2
Alignment explanation
Indices: 627687--627712 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
627677 AACCTAATTG
627687 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
627713 TATTGTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:628808 original size:15 final size:15
Alignment explanation
Indices: 628788--628821 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
628778 CAATTCTTAG
628788 TTTTTT-TTTCTTTTA
1 TTTTTTATTT-TTTTA
628803 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
628818 TTTT
1 TTTT
628822 ATTTATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:629388 original size:26 final size:26
Alignment explanation
Indices: 629358--629408 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
629348 AACTAATTTT
* *
629358 AATAATTAAATAATATTATCAAGATC
1 AATAATCAAATAACATTATCAAGATC
* *
629384 AATAATCAGATCACATTATCAAGAT
1 AATAATCAAATAACATTATCAAGAT
629409 TAATGAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATCAAATAACATTATCAAGATC
Found at i:630791 original size:48 final size:51
Alignment explanation
Indices: 630661--630867 Score: 172
Period size: 47 Copynumber: 4.3 Consensus size: 51
630651 ACAAGAGCGG
*
630661 AGATATATACATTTAATTTAATAAATTAATTTGATTCATGTATAGAGAGAGA
1 AGATGTATACA-TTAATTTAATAAATTAATTTGATTCATGTATAGAGAGAGA
* *
630713 AGATG-A-ATATT-A-TTAATAAATTAATTTGATTTATGTAT-G-G-GAGA
1 AGATGTATACATTAATTTAATAAATTAATTTGATTCATGTATAGAGAGAGA
* * * * *
630757 AG-TGTATACATTAAATTTAACAAATTAATATGATTCA-GTTATGGAGAGTGG
1 AGATGTATACATT-AATTTAATAAATTAATTTGATTCATG-TATAGAGAGAGA
* * * *
630808 AGATGGAT--A-TAA-TTAATAAATAAATTTGATTCATGTAT-GAAAGTGCA
1 AGATGTATACATTAATTTAATAAATTAATTTGATTCATGTATAGAGAGAG-A
630855 AGATGTATACATT
1 AGATGTATACATT
630868 TGATTCAGAG
Statistics
Matches: 124, Mismatches: 16, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
43 2 0.02
44 7 0.06
45 5 0.04
46 7 0.06
47 55 0.44
48 25 0.20
49 5 0.04
50 5 0.04
51 5 0.04
52 8 0.06
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (51 bp):
AGATGTATACATTAATTTAATAAATTAATTTGATTCATGTATAGAGAGAGA
Found at i:630834 original size:95 final size:95
Alignment explanation
Indices: 630666--630846 Score: 256
Period size: 95 Copynumber: 1.9 Consensus size: 95
630656 AGCGGAGATA
* * * *
630666 TATACATTTAATTTAATAAATTAATTTGATTCATGTATAGAGAGAGAAGATGAATATTATTAATA
1 TATACATTAAATTTAACAAATTAATATGATTCATGTATAGAGAGAGAAGATGAATATAATTAATA
* *
630731 AATTAATTTGATTTATGTATGGGAGAAGTG
66 AATAAATTTGATTCATGTATGGGAGAAGTG
* * * *
630761 TATACATTAAATTTAACAAATTAATATGATTCA-GTTATGGAGAGTGGAGATGGATATAATTAAT
1 TATACATTAAATTTAACAAATTAATATGATTCATG-TATAGAGAGAGAAGATGAATATAATTAAT
630825 AAATAAATTTGATTCATGTATG
65 AAATAAATTTGATTCATGTATG
630847 AAAGTGCAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 74 0.99
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (95 bp):
TATACATTAAATTTAACAAATTAATATGATTCATGTATAGAGAGAGAAGATGAATATAATTAATA
AATAAATTTGATTCATGTATGGGAGAAGTG
Found at i:631656 original size:40 final size:35
Alignment explanation
Indices: 631611--631686 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 35
631601 AAAATAATAT
631611 TAAAAATTATTTTATATTAATATT-AATAATTTAATTTAAA
1 TAAAAA-TATTTT-TATT-AT-TTAAATAA--TAATTTAAA
631651 TAAAAATATTTTTATTATTTAAATAATAATTTAAA
1 TAAAAATATTTTTATTATTTAAATAATAATTTAAA
631686 T
1 T
631687 GAGATTGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
35 10 0.29
36 2 0.06
37 7 0.20
38 4 0.11
39 6 0.17
40 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (35 bp):
TAAAAATATTTTTATTATTTAAATAATAATTTAAA
Found at i:635619 original size:45 final size:45
Alignment explanation
Indices: 635555--635719 Score: 140
Period size: 45 Copynumber: 3.6 Consensus size: 45
635545 GTAGCATGTA
* *
635555 TGTGTAATAACTTGGTTACTCGCTTATATGCCCTAAGTATTTTGT
1 TGTGTAGTAACTTGGTTACTCGCTTATATGCCCTAAGCATTTTGT
* * * *
635600 TGTGTAGTAACTTGGTTACTCCACCACCTTGTAGTTCCGT-AGCATTTATG-
1 TGTGTAGTAACTTGGTTACT----C-GCTTATA-TGCCCTAAGCATTT-TGT
* * *
635650 CGTG--GTAACTTGGTTACTCGCTTATATGCCTTAAGGATTTTGT
1 TGTGTAGTAACTTGGTTACTCGCTTATATGCCCTAAGCATTTTGT
* *
635693 TGCGTGGTAACTTGGTTACTCGCTTAT
1 TGTGTAGTAACTTGGTTACTCGCTTAT
635720 CCGTGTTTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
42 6 0.06
43 13 0.14
44 1 0.01
45 40 0.42
48 14 0.15
49 1 0.01
50 14 0.15
51 6 0.06
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (45 bp):
TGTGTAGTAACTTGGTTACTCGCTTATATGCCCTAAGCATTTTGT
Found at i:635694 original size:93 final size:93
Alignment explanation
Indices: 635535--635713 Score: 268
Period size: 93 Copynumber: 1.9 Consensus size: 93
635525 TTTTTATTTT
* * *
635535 TTGTAGCTCTGTAGCATGTATGTGTAATAACTTGGTTACTCGCTTATATGCCCTAAGTATTTTGT
1 TTGTAGCTCCGTAGCATGTATGCGTAATAACTTGGTTACTCGCTTATATGCCCTAAGGATTTTGT
*
635600 TGTGTAGTAACTTGGTTACTCCACCACC
66 TGCGTAGTAACTTGGTTACTCCACCACC
* * ** *
635628 TTGTAGTTCCGTAGCATTTATGCGTGGTAACTTGGTTACTCGCTTATATGCCTTAAGGATTTTGT
1 TTGTAGCTCCGTAGCATGTATGCGTAATAACTTGGTTACTCGCTTATATGCCCTAAGGATTTTGT
*
635693 TGCGTGGTAACTTGGTTACTC
66 TGCGTAGTAACTTGGTTACTC
635714 GCTTATCCGT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (93 bp):
TTGTAGCTCCGTAGCATGTATGCGTAATAACTTGGTTACTCGCTTATATGCCCTAAGGATTTTGT
TGCGTAGTAACTTGGTTACTCCACCACC
Found at i:635742 original size:45 final size:43
Alignment explanation
Indices: 635639--635750 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 43
635629 TGTAGTTCCG
*
635639 TAGCATTTATGCGTGGTAACTTGGTTACTCGCTTATATGCCTT
1 TAGCATGTATGCGTGGTAACTTGGTTACTCGCTTATATGCCTT
* * * **
635682 AAGGATTTTGT-TGCGTGGTAACTTGGTTACTCGCTTATCCGTGTTTT
1 TAGCA---TGTATGCGTGGTAACTTGGTTACTCGCTTAT--ATGCCTT
*
635729 TAGCATGTATGCGTGGCAACTT
1 TAGCATGTATGCGTGGTAACTT
635751 TTGTTGCTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.06
44 3 0.06
45 39 0.72
46 2 0.04
47 7 0.13
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.41
Consensus pattern (43 bp):
TAGCATGTATGCGTGGTAACTTGGTTACTCGCTTATATGCCTT
Found at i:639354 original size:52 final size:51
Alignment explanation
Indices: 639276--639424 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
639266 CGAAATATGA
*
639276 AAATTTGTCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
639328 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
639380 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
639425 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:639431 original size:13 final size:13
Alignment explanation
Indices: 639413--639437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
639403 CAAAGATCAG
639413 TGTATCGATACAA
1 TGTATCGATACAA
639426 TGTATCGATACA
1 TGTATCGATACA
639438 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:639515 original size:33 final size:33
Alignment explanation
Indices: 639478--639544 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
639468 AGTAGCTTAA
*
639478 ATTGTATTGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
639511 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
639544 A
1 A
639545 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:639518 original size:13 final size:13
Alignment explanation
Indices: 639500--639524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
639490 CAAAAAAATA
639500 TGTATCGATACAT
1 TGTATCGATACAT
639513 TGTATCGATACA
1 TGTATCGATACA
639525 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:646639 original size:17 final size:18
Alignment explanation
Indices: 646619--646659 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
646609 GTGAATAAAA
646619 TATTTTAATTT-ATATGT
1 TATTTTAATTTAATATGT
* *
646636 TA-TTAAATTTAATATTT
1 TATTTTAATTTAATATGT
646653 TATTTTA
1 TATTTTA
646660 TATATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.37
17 9 0.47
18 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTAATTTAATATGT
Found at i:646649 original size:29 final size:31
Alignment explanation
Indices: 646617--646680 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
646607 TAGTGAATAA
*
646617 AATATTTTAATTTATATGTTATT-AAATT-T
1 AATATTTTAATTTATATATTATTAAAATTAT
* *
646646 AATATTTTATTTTATATATTTTTAAAATTAT
1 AATATTTTAATTTATATATTATTAAAATTAT
646677 AATA
1 AATA
646681 AATAAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 20 0.67
30 5 0.17
31 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
AATATTTTAATTTATATATTATTAAAATTAT
Found at i:646915 original size:21 final size:21
Alignment explanation
Indices: 646889--646928 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
646879 TTTATAATAA
646889 TAATAA-ATTAAATATTAAATT
1 TAATAATA-TAAATATTAAATT
646910 TAATAATATAAATATTAAA
1 TAATAATATAAATATTAAA
646929 AATACTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAATATAAATATTAAATT
Found at i:646927 original size:15 final size:14
Alignment explanation
Indices: 646883--646932 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
646873 TTTTTATTTA
646883 TAATAATAATAAATT
1 TAATAAT-ATAAATT
*
646898 AAAT-AT-TAAATT
1 TAATAATATAAATT
646910 TAATAATATAAATAT
1 TAATAATATAAAT-T
*
646925 TAAAAATA
1 TAATAATA
646933 CTTCAATCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.31
13 2 0.07
14 7 0.24
15 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATATAAATT
Found at i:650732 original size:18 final size:17
Alignment explanation
Indices: 650696--650744 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
650686 TTAATAAATT
650696 TAATATATTAAATATAAA
1 TAATA-ATTAAATATAAA
650714 TAATAATTAAATATAAAA
1 TAATAATTAAATAT-AAA
* *
650732 TACTAGTTAAATA
1 TAATAATTAAATA
650745 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TAATAATTAAATATAAA
Found at i:653376 original size:16 final size:16
Alignment explanation
Indices: 653357--653396 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
653347 ATAAAAAAAA
653357 TTTATTAAATTTTAAT
1 TTTATTAAATTTTAAT
*
653373 TTTAATAAA--TTAAT
1 TTTATTAAATTTTAAT
653387 TTT-TTAAATT
1 TTTATTAAATT
653397 AAACAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
16 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATTAAATTTTAAT
Found at i:654164 original size:15 final size:14
Alignment explanation
Indices: 654128--654157 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
654118 ACTATTTTTC
*
654128 TTGACTTTTTTATT
1 TTGAATTTTTTATT
654142 TTGAATTTTTTATT
1 TTGAATTTTTTATT
654156 TT
1 TT
654158 ATCATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (14 bp):
TTGAATTTTTTATT
Found at i:654235 original size:16 final size:18
Alignment explanation
Indices: 654214--654246 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
654204 TAAATTATAA
654214 AAAATAA-A-TTAAAAAT
1 AAAATAATATTTAAAAAT
654230 AAAATAATATTTAAAAA
1 AAAATAATATTTAAAAA
654247 ACATTATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAATATTTAAAAAT
Found at i:654524 original size:13 final size:13
Alignment explanation
Indices: 654506--654530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
654496 TTAAACCAAT
654506 TATTTTTATTTTC
1 TATTTTTATTTTC
654519 TATTTTTATTTT
1 TATTTTTATTTT
654531 ATTGTGTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTATTTTC
Done.