Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 53 of 56
Found at i:12125756 original size:23 final size:23
Alignment explanation
Indices: 12125727--12125774 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
12125717 AAATAGGTCA
* *
12125727 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGATACCTAATACATT
*
12125750 ATATAAGCGATACCTAATATATT
1 ATATAAGCGATACCTAATACATT
12125773 AT
1 AT
12125775 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGATACCTAATACATT
Found at i:12129871 original size:18 final size:18
Alignment explanation
Indices: 12129848--12129916 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
12129838 GCGTAGAATT
*
12129848 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
* * *
12129866 TGTCCCGAAGAATCACTG
1 TGTCCCGAAGGACCACTA
12129884 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
12129902 TGTCCCGAAGGACCA
1 TGTCCCGAAGGACCA
12129917 TGTAGAACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:12131765 original size:2 final size:2
Alignment explanation
Indices: 12131758--12131783 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12131748 TCGATACTCA
12131758 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
12131784 TTCTTTTTCA
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:12134142 original size:18 final size:18
Alignment explanation
Indices: 12134113--12134218 Score: 158
Period size: 18 Copynumber: 5.9 Consensus size: 18
12134103 CGCTTAAATT
*
12134113 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
12134131 TGTCTCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
12134149 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
12134167 TGTCCCGAAGGACCACAA
1 TGTCCCGAAGGACCACTA
12134185 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
12134203 TATCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
12134219 GTAGATCCCT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 80 1.00
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:12135350 original size:41 final size:41
Alignment explanation
Indices: 12135304--12135393 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
12135294 CCTTATACCT
12135304 TAACACTTATCTATACATATGTAAACCTTCTTATAACACTA
1 TAACACTTATCTATACATATGTAAACCTTCTTATAACACTA
12135345 TAACACTTATCTATACATATGTAAACCTTCTTATAACACTA
1 TAACACTTATCTATACATATGTAAACCTTCTTATAACACTA
12135386 TAACACTT
1 TAACACTT
12135394 TACCATCTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (41 bp):
TAACACTTATCTATACATATGTAAACCTTCTTATAACACTA
Found at i:12138959 original size:40 final size:40
Alignment explanation
Indices: 12138897--12138973 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
12138887 TCCTTCCCCA
*
12138897 AAGTATTTTGTTAGTACTAATGACATTGTCTGAGAAGACG
1 AAGTATTTTGTTAGCACTAATGACATTGTCTGAGAAGACG
12138937 AAGTATTTTGTTAGCA-TAAATGACATTGTCTGAGAAG
1 AAGTATTTTGTTAGCACT-AATGACATTGTCTGAGAAG
12138974 GAACCATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (40 bp):
AAGTATTTTGTTAGCACTAATGACATTGTCTGAGAAGACG
Found at i:12142348 original size:36 final size:36
Alignment explanation
Indices: 12142307--12142382 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
12142297 ATTTTCGGGA
*
12142307 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12142343 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12142379 TTTT
1 TTTT
12142383 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:12142825 original size:15 final size:15
Alignment explanation
Indices: 12142805--12142834 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12142795 TATCACAATC
12142805 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
12142820 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
12142835 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:12147352 original size:36 final size:36
Alignment explanation
Indices: 12147311--12147386 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
12147301 ATTTTCGGGA
*
12147311 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12147347 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12147383 TTTT
1 TTTT
12147387 TTTAGCTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:12147824 original size:15 final size:15
Alignment explanation
Indices: 12147804--12147833 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12147794 TATCACAATC
12147804 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
12147819 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
12147834 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:12152352 original size:36 final size:36
Alignment explanation
Indices: 12152311--12152386 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
12152301 ATTTTCGGGA
*
12152311 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12152347 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12152383 TTTT
1 TTTT
12152387 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:12152829 original size:15 final size:15
Alignment explanation
Indices: 12152809--12152838 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12152799 TATCACAATC
12152809 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
12152824 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
12152839 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:12157355 original size:36 final size:36
Alignment explanation
Indices: 12157314--12157389 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
12157304 ATTTTCGGGA
*
12157314 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12157350 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
12157386 TTTT
1 TTTT
12157390 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:12162471 original size:13 final size:13
Alignment explanation
Indices: 12162453--12162480 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12162443 TATTGACATG
12162453 GCATATCAAATTA
1 GCATATCAAATTA
12162466 GCATATCAAATTA
1 GCATATCAAATTA
12162479 GC
1 GC
12162481 TCTAGAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.29
Consensus pattern (13 bp):
GCATATCAAATTA
Found at i:12163358 original size:472 final size:472
Alignment explanation
Indices: 12162467--12163779 Score: 2434
Period size: 472 Copynumber: 2.8 Consensus size: 472
12162457 ATCAAATTAG
*
12162467 CATATCAAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGAGTTTCAAGTCAAGATTATT
1 CATATCCAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGAGTTTCAAGTCAAGATTATT
12162532 GACATGGCATATAACTATTTTCCATAACGACTCTTTATAAGAAACGAACTTCCACATCCACTTCC
66 GACATGGCATATAACTATTTTCCATAACGACTCTTTATAAGAAACGAACTTCCACATCCACTTCC
*
12162597 CCAAAAGAGCTTTGTTCATAATATCTAGATTTACTATTCCCAGACCACCCAAATTCTCC-AGTCT
131 CCAAAAGAGCTTTGTTCATAAGATCTAGATTTACTATTCCCAGACCACCCAAATTCTCCGA-TCT
*
12162661 GCAAACCGAAGCCCATTATACCTAGTGAATACTTTTTTCTATCAATCGACCCTCATAAGAAACCA
195 GCAAACCGAAGCCCATTATACCCAGTGAATACTTTTTTCTATCAATCGACCCTCATAAGAAACCA
*
12162726 TCCATAATAGTGTTTAACTTCTTTAGCACACATGCAAGAATTCTGAATAAAGACATTAAA-TATA
260 TCCATAATAGTGTTCAACTTCTTTAGCACACATGCAAGAATTCTGAATAAAGACA-TAAAGTATA
12162790 TTGGCAAGGAGCTTAACACAAACTCGATTAACTCAACTACATCATGCCAAAACGAAATTGACTCA
324 TTGGCAAGGAGCTTAACACAAACTCGATTAACTCAACTACATCATGCCAAAACGAAATTGACTCA
12162855 CTATTACCAACCTTAATGTGAGTATTGCCCCTAAAAAAGAGACCAAAAGCATCACATGAAGAACA
389 CTATTACCAACCTTAATGTGAGTATTGCCCCTAAAAAAGAGACCAAAAGCATCACATGAAGAACA
*
12162920 CTTTTTAACTATGCCTTTT
454 CTTTTTAACTATCCCTTTT
*
12162939 CATATCCAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGACTTTCAAGTCAAGATTATT
1 CATATCCAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGAGTTTCAAGTCAAGATTATT
*
12163004 GACATGGCATATAACTATTTTCCATAACGACTCTTTATAAGAAATGAACTTCCACATCCACTTCC
66 GACATGGCATATAACTATTTTCCATAACGACTCTTTATAAGAAACGAACTTCCACATCCACTTCC
12163069 CCAAAAGAGCTTTGTTCATAAGATCTAGATTTACTATTCCCAGACCACCCAAATTCTCCGATCTG
131 CCAAAAGAGCTTTGTTCATAAGATCTAGATTTACTATTCCCAGACCACCCAAATTCTCCGATCTG
12163134 CAAACCGAAGCCCATTATACCCAGTGAATACTTTTTTCTATCAATCGACCCTCATAAGAAACCAT
196 CAAACCGAAGCCCATTATACCCAGTGAATACTTTTTTCTATCAATCGACCCTCATAAGAAACCAT
* *
12163199 CCATAATAGTGTTCAACTTCTCTAGCACACATGTAAGAATTCTGAATAAAGACATAAAGTATATT
261 CCATAATAGTGTTCAACTTCTTTAGCACACATGCAAGAATTCTGAATAAAGACATAAAGTATATT
12163264 GGCAAGGAGCTTAACACAAACTCGATTAACTCAACTACATCATGCCAAAACGAAATTGACTCACT
326 GGCAAGGAGCTTAACACAAACTCGATTAACTCAACTACATCATGCCAAAACGAAATTGACTCACT
*
12163329 ATTACCAACCTTAATGTGAGTATTGCCCCTAAAAAGGAGACCAAAAGCATCACATGAAGAACACT
391 ATTACCAACCTTAATGTGAGTATTGCCCCTAAAAAAGAGACCAAAAGCATCACATGAAGAACACT
12163394 TTTTAACTATCCCTTTT
456 TTTTAACTATCCCTTTT
12163411 CATATCCAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGAGTTTCAAGTCAAGATTATT
1 CATATCCAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGAGTTTCAAGTCAAGATTATT
* *
12163476 GACATGGAATATAACTCTTTTCCATAACGACTCTTTATAAGAAACGAACTTCCACATCCACTTCC
66 GACATGGCATATAACTATTTTCCATAACGACTCTTTATAAGAAACGAACTTCCACATCCACTTCC
* *
12163541 CCAAAAGAGCTTTGTTCATAAGATCTAGATTTACTATTCCCAGACCACCCAAATTCTTCGGTCTG
131 CCAAAAGAGCTTTGTTCATAAGATCTAGATTTACTATTCCCAGACCACCCAAATTCTCCGATCTG
*
12163606 CAAACCGAAGCCCATTATACCCAGTGAATACCTTTTTCTATCAATCGACCCTCATAAGAAACCAT
196 CAAACCGAAGCCCATTATACCCAGTGAATACTTTTTTCTATCAATCGACCCTCATAAGAAACCAT
12163671 CCATAATAGTGTTCAACTTCTTTAGCACACATGCAAGAATTCTGAATAAAGACATAAAGTATATT
261 CCATAATAGTGTTCAACTTCTTTAGCACACATGCAAGAATTCTGAATAAAGACATAAAGTATATT
* *
12163736 GGCAAGGAGCTTAACACAAACTCAATTAACTCAACT-CTTCATGC
326 GGCAAGGAGCTTAACACAAACTCGATTAACTCAACTACATCATGC
12163780 TAAAGACAAG
Statistics
Matches: 818, Mismatches: 21, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
471 11 0.01
472 806 0.99
473 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (472 bp):
CATATCCAATTAGCTCTAGAGGAAATCAAATTATGAACCGAAAAGAGTTTCAAGTCAAGATTATT
GACATGGCATATAACTATTTTCCATAACGACTCTTTATAAGAAACGAACTTCCACATCCACTTCC
CCAAAAGAGCTTTGTTCATAAGATCTAGATTTACTATTCCCAGACCACCCAAATTCTCCGATCTG
CAAACCGAAGCCCATTATACCCAGTGAATACTTTTTTCTATCAATCGACCCTCATAAGAAACCAT
CCATAATAGTGTTCAACTTCTTTAGCACACATGCAAGAATTCTGAATAAAGACATAAAGTATATT
GGCAAGGAGCTTAACACAAACTCGATTAACTCAACTACATCATGCCAAAACGAAATTGACTCACT
ATTACCAACCTTAATGTGAGTATTGCCCCTAAAAAAGAGACCAAAAGCATCACATGAAGAACACT
TTTTAACTATCCCTTTT
Found at i:12167172 original size:23 final size:23
Alignment explanation
Indices: 12167128--12167206 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
12167118 CACCTAAGTG
*
12167128 CCACATAGAATTTGTCCTGAAGGA
1 CCACATAG-ATTTGTCCCGAAGGA
*
12167152 CCACATAGTTTTGTCCCGAAGGA
1 CCACATAGATTTGTCCCGAAGGA
* *
12167175 CCATATAGGTTTGTCCCGAAGGA
1 CCACATAGATTTGTCCCGAAGGA
12167198 CCACATAGA
1 CCACATAGA
12167207 ACCCTCAACT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
23 41 0.84
24 8 0.16
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
CCACATAGATTTGTCCCGAAGGA
Found at i:12180172 original size:55 final size:55
Alignment explanation
Indices: 12180017--12180884 Score: 1105
Period size: 55 Copynumber: 15.8 Consensus size: 55
12180007 ATTACCAAAT
* * * * * * * * *
12180017 AGGCACTAAGTGTGC-ATTTCACGGACTTCATCCTAAGTGGATGAATAATCGTTTC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG-TAC
* * * * * *
12180072 -GGCACTAAGTGTGCATAT-CACGAAATTCATCCTAAGTGGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
12180125 AGGCACTATGTGTGCAAATCCACAGAATTCATCATCAGTTGATGAATAACCGTAT
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
12180180 AGGAACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
12180235 AGACACCATGTGTGCAAATCCACGGAATTCATCATAAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
12180290 ATGCACTATATGTGTAAATCCATGAAATTCATCATGAGTTGATGAATAACCATAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * *
12180345 AGGCACTATCTGTGCAAATCCATGGAACTCATCATGAGTTAATGAATAATCATAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
12180400 ATGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** ** * *
12180455 AGGCAGGATGTGTGCAAATCCACAAAATTCATCATGAGCTGATGAATAACTGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
12180510 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAACAACCTTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * ** *
12180565 AGGCACTACGTGTGAAAATCCACAAAATTCATAATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
12180620 ATGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTAT
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
12180675 AGGCACTATGTGTGTAAATCCACGGAATTCATCATGAGGTAATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
12180730 AGGCATTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACGGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
***
12180785 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATTATAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
12180840 AGACACGATGTGTG-TAACCCACGGAATTCATCATGAGTTGATGAA
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA
12180885 CTATCGTATA
Statistics
Matches: 714, Mismatches: 96, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.00
54 88 0.12
55 624 0.87
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (55 bp):
AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:12181144 original size:68 final size:68
Alignment explanation
Indices: 12181060--12181516 Score: 675
Period size: 68 Copynumber: 6.8 Consensus size: 68
12181050 AAAGAATAAT
* * *
12181060 GGCCTAAATGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
12181125 AGA
66 TGA
* * *
12181128 GGCCTAACTGTGCATTTGATAGAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTGGCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
12181193 TGA
66 TGA
* * * * * * *
12181196 GGCTTAACTGTGCATTTGACAGAAAGATGGCAATAATGACAGTTAGATGAAAGGC-ATGTTCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
12181260 TGA
66 TGA
* ** *
12181263 GGCCTAATTGTGCATTTGATTGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
12181328 TGA
66 TGA
* *
12181331 GGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAG-TAGATGAAAGGCTAAATGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
12181395 TCA
66 TGA
* *
12181398 GGACTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
12181463 TGA
66 TGA
**
12181466 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATATCAGTTAGATGAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
12181517 CAGTTAAACA
Statistics
Matches: 344, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
67 117 0.34
68 227 0.66
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:12181311 original size:135 final size:136
Alignment explanation
Indices: 12181060--12181516 Score: 677
Period size: 135 Copynumber: 3.4 Consensus size: 136
12181050 AAAGAATAAT
* * * *
12181060 GGCCTAAATGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTT
* * *
12181125 AGAGGCCTAACTGTGCATTTGATAGAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTGG
66 TGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
12181190 CTTTGA
131 CTTTGA
* * * * * *
12181196 GGCTTAACTGTGCATTTGACAGAAAGATGGCAATAATGACAGTTAGATGAAAGGC-ATGTTCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTT
* * *
12181260 TGAGGCCTAATTGTGCATTTGATTGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
12181325 CTTTGA
131 CTTTGA
* * *
12181331 GGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAG-TAGATGAAAGGCTAAATGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTT
* * * *
12181395 TCAGGACTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
12181460 CTTTGA
131 CTTTGA
12181466 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTAT-ATCAGTTAGATGAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGA-CAGTTAGATGAA
12181517 CAGTTAAACA
Statistics
Matches: 284, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
134 12 0.04
135 217 0.76
136 55 0.19
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (136 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
CTTTGA
Found at i:12181465 original size:203 final size:203
Alignment explanation
Indices: 12181060--12181516 Score: 663
Period size: 203 Copynumber: 2.3 Consensus size: 203
12181050 AAAGAATAAT
*
12181060 GGCCTAAATGTGCATTTGACAT-AAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAAATGTGCATTTGA-ATGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
* * *
12181124 TAGAGGCCTAACTGTGCATTTGATAGAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTG
65 TAGAGGCCTAACTGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAATG
* * *
12181189 GCTTTGAGGCTTAACTGTGCATTTGACAGAAAGATGGCAATAATGACAGTTAGATGAAAGGCATG
130 CCTTTCAGGCTTAACTGTGCATTTGACAGAAAGATGGCAATAATGACAGTTAGATGAAAGGCAAG
*
12181254 TTCCTTTGA
195 TGCCTTTGA
* * *
12181263 GGCCTAATTGTGCATTTGATTGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAAATGTGCATTTGAATGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
12181328 TGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAG-TAGATGAAAGGCTAAATGC
66 AGAGGCCTAACTGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAATGC
* * *
12181392 CTTTCAGGAC-TAACTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAAGGCTA
131 CTTTCAGG-CTTAACTGTGCATTTGACAGAAA-GATGGCAATAATGACAGTTAGATGAAAGGC-A
12181455 AGTGCCTTTGA
193 AGTGCCTTTGA
* **
12181466 GGCCTAACTGTGCATTTGACA-GAAAGGTGTCAATTATATCAGTTAGATGAA
1 GGCCTAAATGTGCATTTGA-ATGAAAGGTGTCAATTATGCCAGTTAGATGAA
12181517 CAGTTAAACA
Statistics
Matches: 228, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
202 71 0.31
203 157 0.69
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (203 bp):
GGCCTAAATGTGCATTTGAATGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
AGAGGCCTAACTGTGCATTTGACAAAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAATGC
CTTTCAGGCTTAACTGTGCATTTGACAGAAAGATGGCAATAATGACAGTTAGATGAAAGGCAAGT
GCCTTTGA
Found at i:12181754 original size:45 final size:44
Alignment explanation
Indices: 12181702--12181872 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 44
12181692 CGTAAACAAA
* *
12181702 ATATAAAAGACATGAAATGATGCAATAAATGAAATGTATAATAGT
1 ATATAAAAGGCATGAAAGGATGC-ATAAATGAAATGTATAATAGT
* * *
12181747 TTATAAAAGGCATGAAATGATGCCATAAATGAAATGTTTAATAGT
1 ATATAAAAGGCATGAAAGGATG-CATAAATGAAATGTATAATAGT
* *
12181792 ATATAAAAGGCATTAAAGGATGTCATAAATGCAATGTATAATAGT
1 ATATAAAAGGCATGAAAGGATG-CATAAATGAAATGTATAATAGT
* *
12181837 GTATAAAAGGCATGAAAGGATGCTATAATTGAAATG
1 ATATAAAAGGCATGAAAGGATGC-ATAAATGAAATG
12181873 CATATATGTG
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 109 0.98
46 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (44 bp):
ATATAAAAGGCATGAAAGGATGCATAAATGAAATGTATAATAGT
Found at i:12181834 original size:90 final size:90
Alignment explanation
Indices: 12181702--12181872 Score: 254
Period size: 90 Copynumber: 1.9 Consensus size: 90
12181692 CGTAAACAAA
* * *
12181702 ATATAAAAGACATGAAATGATGCAATAAATGAAATGTATAATAGTTTATAAAAGGCATGAAATGA
1 ATATAAAAGACATGAAAGGATGCAATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGGA
12181767 TGCCATAAATGAAATGTTTAATAGT
66 TGCCATAAATGAAATGTTTAATAGT
* * *
12181792 ATATAAAAGGCATTAAAGGATGTC-ATAAATGCAATGTATAATAGTGTATAAAAGGCATGAAAGG
1 ATATAAAAGACATGAAAGGATG-CAATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGG
* *
12181856 ATGCTATAATTGAAATG
65 ATGCCATAAATGAAATG
12181873 CATATATGTG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 71 0.99
91 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (90 bp):
ATATAAAAGACATGAAAGGATGCAATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGGA
TGCCATAAATGAAATGTTTAATAGT
Found at i:12183506 original size:2 final size:2
Alignment explanation
Indices: 12183499--12183541 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
12183489 TAGATTAGAA
*
12183499 AT AT AT AT AT GT 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 AT AT AT AT
12183541 A
1 A
12183542 GCTTTTCTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12185631 original size:20 final size:20
Alignment explanation
Indices: 12185608--12185659 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
12185598 CAATGAGGTA
12185608 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
*
12185628 GTATCAATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
12185648 GTATCGATACCA
1 GTATCGATACCA
12185660 AGAAACATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:12186189 original size:55 final size:55
Alignment explanation
Indices: 12186113--12186681 Score: 714
Period size: 55 Copynumber: 10.6 Consensus size: 55
12186103 AACCTAAGTG
* * *
12186113 GATGAATAACCTTACAGGCACTATATGTGCAAATCCACGGAATTCATCATGAGTA
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
12186168 GATGAATAACCGTACATGCACTATGTGTGCAAATCCACGGAATTCATCAAGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * ** *
12186223 GATAAATAACCATACAGGCATTATGTGTGCAAATCCATAGAATTCATCAAGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
12186278 GATGAATAATCGTACATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * * *
12186333 GATGAATAATCGTACAGGCATTATGTGTGCAAATCCATGAAATTCATCATAAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
12186388 GATGAATAACCGTACAGGCACTATGTGTTCAAATCCGCGGAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* *
12186443 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCTTGCG-T
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * *
12186497 --T--AT-A-C--A-A-GCATTATGTGTACAAATCCACGGAAGTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * *
12186542 GATGAATACCCGTACAAGCACTATGAGTGCAAATCCACGGAATTCTTCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * * *
12186597 GATGAATAACCGTACATGCACTATTTGTAC-AACCCACGGAATTCATCATGAGTT
1 GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
* * *
12186651 GATGAA-ATACCATATAGGCACTTTGTGTGCA
1 GATGAATA-ACCGTACAGGCACTATGTGTGCA
12186682 TCTTAATAAA
Statistics
Matches: 442, Mismatches: 59, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
44 31 0.07
45 2 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 3 0.01
50 2 0.00
51 1 0.00
52 1 0.00
53 2 0.00
54 46 0.10
55 351 0.79
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (55 bp):
GATGAATAACCGTACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTT
Found at i:12186580 original size:99 final size:99
Alignment explanation
Indices: 12186400--12186586 Score: 302
Period size: 99 Copynumber: 1.9 Consensus size: 99
12186390 TGAATAACCG
* * * * *
12186400 TACAGGCACTATGTGTTCAAATCCGCGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACT
1 TACAAGCACTATGTGTACAAATCCACGGAAGTCATCATGAGTTGATGAATAACCGTACAAGCACT
*
12186465 ATGTGTGCAAATCCACGGAATTCATCTTGCGTTA
66 ATGAGTGCAAATCCACGGAATTCATCTTGCGTTA
* *
12186499 TACAAGCATTATGTGTACAAATCCACGGAAGTCATCATGAGTTGATGAATACCCGTACAAGCACT
1 TACAAGCACTATGTGTACAAATCCACGGAAGTCATCATGAGTTGATGAATAACCGTACAAGCACT
12186564 ATGAGTGCAAATCCACGGAATTC
66 ATGAGTGCAAATCCACGGAATTC
12186587 TTCATGAGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (99 bp):
TACAAGCACTATGTGTACAAATCCACGGAAGTCATCATGAGTTGATGAATAACCGTACAAGCACT
ATGAGTGCAAATCCACGGAATTCATCTTGCGTTA
Found at i:12186915 original size:68 final size:68
Alignment explanation
Indices: 12186832--12187086 Score: 402
Period size: 68 Copynumber: 3.8 Consensus size: 68
12186822 AAAGAATAAT
* * *
12186832 GGCCAAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
12186897 TGG
66 TGA
12186900 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
12186965 TGA
66 TGA
* * * * * *
12186968 GACCTAATTGTGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTATGTGACTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
12187033 TGA
66 TGA
* *
12187036 GGTCTAACTGTGCATTTGACAGAAAGGTATCAATTATGCCAGTTAGATGAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
12187087 TGGTTAAACA
Statistics
Matches: 171, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 171 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:12187122 original size:29 final size:29
Alignment explanation
Indices: 12187080--12187136 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
12187070 TATGCCAGTT
12187080 AGATGAATGGTTAAACACTATTGAGTAAA
1 AGATGAATGGTTAAACACTATTGAGTAAA
* * *
12187109 AGATGATTGGTTAAACATTGTTGAGTAA
1 AGATGAATGGTTAAACACTATTGAGTAA
12187137 GAGAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (29 bp):
AGATGAATGGTTAAACACTATTGAGTAAA
Found at i:12187205 original size:2 final size:2
Alignment explanation
Indices: 12187198--12187229 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12187188 TGAAGGGATG
12187198 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
12187230 TGTACAACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12187341 original size:45 final size:45
Alignment explanation
Indices: 12187287--12187442 Score: 249
Period size: 45 Copynumber: 3.5 Consensus size: 45
12187277 GTAAACAGAA
* *
12187287 TATAGAAGGCATGAAAGGATGTCATAAATGAAATGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* *
12187332 TATAAAAGGCATGAAAGGATACCATATATGAAATGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
* *
12187377 TATAAAAGGCATGAAAGAATGCCATAAATGCAATGTATAATAGTG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
*
12187422 TATAAAAGGCATGAAATGATG
1 TATAAAAGGCATGAAAGGATG
12187443 TTATAATTTA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 101 1.00
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.26
Consensus pattern (45 bp):
TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTG
Found at i:12189383 original size:12 final size:12
Alignment explanation
Indices: 12189366--12189392 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12189356 TTAATTGTGA
12189366 AAATTAGAATTT
1 AAATTAGAATTT
12189378 AAATTAGAATTT
1 AAATTAGAATTT
12189390 AAA
1 AAA
12189393 AATCCGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTAGAATTT
Found at i:12189515 original size:25 final size:25
Alignment explanation
Indices: 12189481--12189539 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
12189471 TATGAAAAAG
* * *
12189481 AATAATAAAAATATTAATATAATAATA
1 AATAAAAAAAAGA-TAA-ATAAAAATA
12189508 AATAAAAAAAAGATAAATAAAAATA
1 AATAAAAAAAAGATAAATAAAAATA
12189533 AATAAAA
1 AATAAAA
12189540 TTGGGTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 15 0.52
26 3 0.10
27 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (25 bp):
AATAAAAAAAAGATAAATAAAAATA
Found at i:12191588 original size:84 final size:84
Alignment explanation
Indices: 12191307--12192389 Score: 1130
Period size: 84 Copynumber: 12.9 Consensus size: 84
12191297 CTGAATGGAA
* * ** * ** **
12191307 TCGAACTCAAAGGT-ATTTGTTAACAGATAACCCTTCTTGCCTTGAGTTATGCTATTAGTTTGAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT-GCA-AATGAT
* * *
12191371 GTGCCTTTGAGCTGAGTGTAA
64 ATGCCTTTGAGCTGAGCGTAG
** * *
12191392 TCGAACTCGAAGGTC-TTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
* * *
12191456 GCGTTTGAGCTGA-TGTAA
66 GCCTTTGAGCTGAGCGTAG
** * * * **
12191474 TCGAACTCGAAGGTCTTTTGTTAACAGATAACCCTCCTTGCCTTGAGCTATGCTGCAAATGATGC
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
* * * *
12191539 ACCTTTGAGTTGAGTGTAA
66 GCCTTTGAGCTGAGCGTAG
* * * *
12191558 TCAAACTCGAAGGTCTTTTGATGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATAC
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
* * * *
12191623 GTCTATGAGCTGAGTGTAA
66 GCCTTTGAGCTGAGCGTAG
* * * * * * *
12191642 TCAAACTCGAAGGCCTTTTGGTGACAGATAACCCTTCTGGCCTTGAGTTATGCTGCAAAAGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
*
12191707 GCCTTGGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * * ** *
12191726 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGGCTTGAGCTATATTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
*
12191791 GCCTTGGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * ** *
12191810 TCAAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGCCATGAGTTATGCTATAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
* *
12191875 TCCTTGGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* *
12191894 TCGAACTCGAAGGT-TTTTGGTTGGCAGATAACCCTTCTAGCCTTGAATTATACTGCAAATGATA
1 TCGAACTCGAAGGTCTTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATA
*
12191958 TACCTTTGAGCTGAGCGTAG
65 TGCCTTTGAGCTGAGCGTAG
* * * * * * * *
12191978 TCGAACTCGAAGGTTTTTTGTTGGTAAATAGCCATTCTTGCCTTGAGATATGTTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
* *
12192043 GCCTTAGAGCTGAACGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * * *
12192062 TCGAACTCGAAAGTATTTGGTTGGCAGATAACCCTTCTAGCCTTAAGTTATACTACAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
*
12192127 GTCTTTGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * * * * ** * * * *
12192146 TCGAACTCAAAAGTCTTTTATTAGAAAATAGCCCTTCTTTCCTTGAGCTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
*
12192211 GCCTTGGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * *
12192230 TCGAACTCGAAGGTCATTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
*
12192295 ACCTTTGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * * *
12192314 TCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAATAATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
*
12192379 GCCTTGGAGCT
66 GCCTTTGAGCT
12192390 ATACTACAAA
Statistics
Matches: 839, Mismatches: 154, Indels: 11
0.84 0.15 0.01
Matches are distributed among these distances:
82 20 0.02
83 71 0.08
84 697 0.83
85 51 0.06
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
GCCTTTGAGCTGAGCGTAG
Found at i:12192390 original size:27 final size:27
Alignment explanation
Indices: 12192353--12192417 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
12192343 AGCCCTTCTA
*
12192353 GCCTT-GAGCTATGCTACAAATAATGT
1 GCCTTGGAGCTATACTACAAATAATGT
12192379 GCCTTGGAGCTATACTACAAATAATGT
1 GCCTTGGAGCTATACTACAAATAATGT
12192406 GCCTTGGAGCTA
1 GCCTTGGAGCTA
12192418 AATGTAGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 5 0.14
27 32 0.86
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (27 bp):
GCCTTGGAGCTATACTACAAATAATGT
Found at i:12194003 original size:101 final size:97
Alignment explanation
Indices: 12193697--12194008 Score: 384
Period size: 95 Copynumber: 3.2 Consensus size: 97
12193687 CATAAATCCA
* * *
12193697 AGGCGTTTAACCAATTGCTCTAGATGGACATCTTAATATCATTGTATAGATATTATAATCACCTT
1 AGGCGTTTAACCAATTGCTCTAGA-GGACAACTTAATTTTATTGTATAGATATTATAATCACCTT
* *
12193762 TATCAGG-TTAGTTGAATATTATCCATAAAGCTG
65 TATCAGGCTTAGCTGAATCTTATCCATAAAGC-G
*
12193795 AGGCGTTTAACTAATTGCTCTAGAGGGACAACTTAAGTTTTATTG--T--ATATTATAATCACCT
1 AGGCGTTTAACCAATTGCTCTAGA-GGACAACTTAA-TTTTATTGTATAGATATTATAATCACCT
* *
12193856 TTATCAGGC-TATCTGAATCTTATCCATAAAGCCA
64 TTATCAGGCTTAGCTGAATCTTATCCATAAAG-CG
* *
12193890 AGGCGTTTAACCAATTGCTTTAGAGAGACAACTCAATCTTTATTGTATAGATATTATAAATCACC
1 AGGCGTTTAACCAATTGCTCTAGAG-GACAACTTAAT-TTTATTGTATAGATATTAT-AATCACC
*
12193955 TTTATCAGGCTTAGCAGAATCTTATCCATAAAGTCG
63 TTTATCAGGCTTAGCTGAATCTTATCCATAAAG-CG
* *
12193991 GGGCATTTAACCAATTGC
1 AGGCGTTTAACCAATTGC
12194009 GTTTAATCAA
Statistics
Matches: 185, Mismatches: 18, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
94 2 0.01
95 80 0.43
96 1 0.01
97 2 0.01
98 33 0.18
99 13 0.07
100 17 0.09
101 37 0.20
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (97 bp):
AGGCGTTTAACCAATTGCTCTAGAGGACAACTTAATTTTATTGTATAGATATTATAATCACCTTT
ATCAGGCTTAGCTGAATCTTATCCATAAAGCG
Found at i:12207057 original size:21 final size:19
Alignment explanation
Indices: 12207019--12207064 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
12207009 AATTAATCCT
12207019 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
12207039 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
12207060 A-TAAT
1 ACTAAT
12207065 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:12209106 original size:18 final size:18
Alignment explanation
Indices: 12209083--12209117 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12209073 AGAGCCAGAG
*
12209083 ATGAAAACTTTGAAAAAT
1 ATGAAAACATTGAAAAAT
*
12209101 ATGAAATCATTGAAAAA
1 ATGAAAACATTGAAAAA
12209118 AAAAGTCAGT
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:0.06, G:0.11, T:0.26
Consensus pattern (18 bp):
ATGAAAACATTGAAAAAT
Found at i:12209659 original size:22 final size:22
Alignment explanation
Indices: 12209634--12209719 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
12209624 ACATCAATAT
12209634 AATAATAATAAATAAAAAGATA
1 AATAATAATAAATAAAAAGATA
* *
12209656 AATAAAAATAAATAAAATTGAGTA
1 AATAATAATAAATAAAA-AGA-TA
* *
12209680 GA-AATAATAAAATAAAAAAATGA
1 AATAATAAT-AAATAAAAAGAT-A
*
12209703 AATAA-GATAAATAAAAA
1 AATAATAATAAATAAAAA
12209720 TAATAATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 26 0.51
23 12 0.24
24 13 0.25
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAATAATAAATAAAAAGATA
Found at i:12216765 original size:2 final size:2
Alignment explanation
Indices: 12216758--12216789 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12216748 GATTGAATGA
12216758 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
12216790 TAAATACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12217200 original size:22 final size:20
Alignment explanation
Indices: 12217154--12217242 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
12217144 TCGAAATTCA
*
12217154 CGTTGCGATTTTTCATTTCG
1 CGTTGCGATTTTCCATTTCG
12217174 CGTTGCGATTTTCCATTTCGCG
1 CGTTGCGATTTTCCATTT--CG
** * **
12217196 CGTTGCGATAGTCTAAAATCG
1 CGTTGCGATTTTC-CATTTCG
*
12217217 CATTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
12217237 CGTTGC
1 CGTTGC
12217243 TATAGTCCAA
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
20 26 0.49
21 12 0.23
22 13 0.25
23 2 0.04
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:12217255 original size:41 final size:42
Alignment explanation
Indices: 12217171--12217274 Score: 156
Period size: 41 Copynumber: 2.5 Consensus size: 42
12217161 ATTTTTCATT
* *
12217171 TCGCGTTGCGATTTTCCATTTCGCGCGTTGCGATAGTCTAAAA
1 TCGCATTGCGATTTTCCATTTC-CGCGTTGCGATAGTCCAAAA
*
12217214 TCGCATTGCGATTTTCCATTT-CGCGTTGCTATAGTCCAAAA
1 TCGCATTGCGATTTTCCATTTCCGCGTTGCGATAGTCCAAAA
*
12217255 TTGCATTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
12217275 GCATTTGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
41 37 0.65
43 20 0.35
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (42 bp):
TCGCATTGCGATTTTCCATTTCCGCGTTGCGATAGTCCAAAA
Found at i:12218141 original size:20 final size:20
Alignment explanation
Indices: 12218118--12218181 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
12218108 ATTTTGGACT
12218118 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** **
12218138 ATCGCAATGCGATTTTGGACT
1 ATCGCAACGCGA-AATGGAAA
12218159 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
12218179 ATC
1 ATC
12218182 ACAATGTGAT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:12218161 original size:41 final size:41
Alignment explanation
Indices: 12218104--12218212 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
12218094 CCAGTCGCGT
*
12218104 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAA
1 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCACAA
12218145 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCACAA
1 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCACAA
* * *
12218186 TGTGATTTTGGACTATCACAATGCGAA
1 TGCGATTTTGGACTATCGCAACGCGAA
12218213 TTTGGAAACT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (41 bp):
TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCACAA
Found at i:12218203 original size:21 final size:21
Alignment explanation
Indices: 12218104--12218218 Score: 81
Period size: 21 Copynumber: 5.6 Consensus size: 21
12218094 CCAGTCGCGT
* *
12218104 TGCGATTTTGGACTATCGCAA
1 TGCGAATTTGGACTATCACAA
* * ** *
12218125 CGCGAA-ATGGAAAATCGCAA
1 TGCGAATTTGGACTATCACAA
* *
12218145 TGCGATTTTGGACTATCGCAA
1 TGCGAATTTGGACTATCACAA
* * **
12218166 CGCGAA-ATGGAAAATCACAA
1 TGCGAATTTGGACTATCACAA
* *
12218186 TGTGATTTTGGACTATCACAA
1 TGCGAATTTGGACTATCACAA
12218207 TGCGAATTTGGA
1 TGCGAATTTGGA
12218219 AACTGAGTTG
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 28 0.41
21 40 0.59
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (21 bp):
TGCGAATTTGGACTATCACAA
Found at i:12218277 original size:21 final size:21
Alignment explanation
Indices: 12218250--12218312 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
12218240 TCGCGTTGCG
*
12218250 ATATCGCAATGCGAATTTGGA
1 ATATCGCAACGCGAATTTGGA
* *
12218271 CTATCGCAACGCGAA-ATGGA
1 ATATCGCAACGCGAATTTGGA
*
12218291 AAATCGCAACGCGAATTTGGA
1 ATATCGCAACGCGAATTTGGA
12218312 A
1 A
12218313 ACTGAGTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (21 bp):
ATATCGCAACGCGAATTTGGA
Found at i:12219933 original size:16 final size:16
Alignment explanation
Indices: 12219908--12219948 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
12219898 TTTTGCTCGA
12219908 CTCG-TGCTCGTTAAG
1 CTCGTTGCTCGTTAAG
*
12219923 CTTGTTGCTCGTTAAG
1 CTCGTTGCTCGTTAAG
12219939 CTCGTTGCTC
1 CTCGTTGCTC
12219949 TGCCTGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.10, C:0.27, G:0.24, T:0.39
Consensus pattern (16 bp):
CTCGTTGCTCGTTAAG
Found at i:12220846 original size:9 final size:10
Alignment explanation
Indices: 12220819--12220851 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
12220809 TAAATAAATC
12220819 AAATATAAAA
1 AAATATAAAA
12220829 AAATATAAAA
1 AAATATAAAA
12220839 AAAT-TAAAGA
1 AAATATAAA-A
12220849 AAA
1 AAA
12220852 AGCTGGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATATAAAA
Found at i:12222763 original size:83 final size:84
Alignment explanation
Indices: 12222666--12222867 Score: 232
Period size: 83 Copynumber: 2.4 Consensus size: 84
12222656 GACAGTTTTC
* * *
12222666 TGTTGACAGATAACCCTTCTCGCCTTGA-TATATGCTGTAAATATT-ATATGCCCTTGAGCTGAA
1 TGTTGACAGATAACCCTTCTCGCCTTGAGT-TATGCTATAAAT-TTGATATGACCTTGAGCTAAA
*
12222729 TGTAATCGAATTAG-A-GCGTT
64 TGTAATCGAACTAGAAGGC-TT
* **
12222749 TGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTATAAATTTGGTATGATTTTGAGCTAAATG
1 TGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTATAAATTTGATATGACCTTGAGCTAAATG
*
12222814 TAATCGAACTCGAAGGTCTT
66 TAATCGAACTAGAAGG-CTT
* ** *
12222834 TGTTGACAGATAGCCCTTCTTACCTTGAGCTATG
1 TGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
12222868 TTGTAATAGG
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
82 2 0.02
83 64 0.63
84 2 0.02
85 33 0.32
86 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (84 bp):
TGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTATAAATTTGATATGACCTTGAGCTAAATG
TAATCGAACTAGAAGGCTT
Found at i:12223159 original size:22 final size:22
Alignment explanation
Indices: 12223123--12223164 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12223113 GTGAAATTAT
* * *
12223123 GAAGATGTTGGTGGCCTTGATA
1 GAAGATATTGATGGCATTGATA
12223145 GAAGATATTGATGGCATTGA
1 GAAGATATTGATGGCATTGA
12223165 AGTTGAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (22 bp):
GAAGATATTGATGGCATTGATA
Found at i:12227674 original size:22 final size:22
Alignment explanation
Indices: 12227649--12227690 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12227639 GCAGAATTAT
*
12227649 GAAGATGTTGGTGGCCTTGATG
1 GAAGATGTTGATGGCCTTGATG
*
12227671 GAAGATGTTGATGGCGTTGA
1 GAAGATGTTGATGGCCTTGA
12227691 AGTTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.40, T:0.31
Consensus pattern (22 bp):
GAAGATGTTGATGGCCTTGATG
Found at i:12229902 original size:32 final size:32
Alignment explanation
Indices: 12229866--12229936 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
12229856 TCCAAAGATA
12229866 CCCCAATATTCGATGTTGAATCTCAAAAAATG
1 CCCCAATATTCGATGTTGAATCTCAAAAAATG
* * ** *
12229898 CCCCAACATTTGATGTTGAATCTTGAAAGATG
1 CCCCAATATTCGATGTTGAATCTCAAAAAATG
12229930 CCCCAAT
1 CCCCAAT
12229937 TGTTCCCCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (32 bp):
CCCCAATATTCGATGTTGAATCTCAAAAAATG
Found at i:12230994 original size:11 final size:11
Alignment explanation
Indices: 12230973--12231004 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
12230963 CTCTTTTTTA
12230973 TTTTCTCTTTGC
1 TTTT-TCTTTGC
12230985 TTTTTCTTTGC
1 TTTTTCTTTGC
12230996 TTTTTCTTT
1 TTTTTCTTT
12231005 TTTGCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (11 bp):
TTTTTCTTTGC
Found at i:12231005 original size:16 final size:17
Alignment explanation
Indices: 12230997--12231029 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12230987 TTTCTTTGCT
12230997 TTTTC-TTTTTTGCTTC
1 TTTTCTTTTTTTGCTTC
12231013 TTTTCTTTTTTTG-TTC
1 TTTTCTTTTTTTGCTTC
12231029 T
1 T
12231030 GATTGGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTTTGCTTC
Found at i:12233997 original size:19 final size:19
Alignment explanation
Indices: 12233973--12234015 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
12233963 CTTAATAGCG
*
12233973 AAAATTAAAAAATTTAATT
1 AAAATTAAAAAATTCAATT
*
12233992 AAAATTTAAAAATTCAATT
1 AAAATTAAAAAATTCAATT
*
12234011 CAAAT
1 AAAAT
12234016 AATTACCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTAAAAAATTCAATT
Found at i:12235336 original size:12 final size:12
Alignment explanation
Indices: 12235319--12235353 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12235309 ATGGGCCTGC
*
12235319 AAAAATATTAAT
1 AAAAATAATAAT
12235331 AAAAATAATAAT
1 AAAAATAATAAT
*
12235343 AATAATAATAA
1 AAAAATAATAA
12235354 AATTTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:12236014 original size:38 final size:37
Alignment explanation
Indices: 12235965--12236172 Score: 284
Period size: 38 Copynumber: 5.6 Consensus size: 37
12235955 AAAAATTGAT
*
12235965 TTTTGAAAATATATATAATATATAGTTTTCGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
12236002 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTG-AAAATATATATAATATATAGTTTTTGAAAACA
*
12236040 TTTTTGAAAATATATATAATATATAG-TTTTGAAAACGT
1 -TTTTGAAAATATATATAATATATAGTTTTTGAAAAC-A
*
12236078 TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTT-GAAAACA
*
12236116 TTTT--AAA-A-A-ATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
12236148 TTTTTGAAAATGTATATAATATATA
1 -TTTTGAAAATATATATAATATATA
12236173 TTTGAAAATA
Statistics
Matches: 153, Mismatches: 7, Indels: 21
0.85 0.04 0.12
Matches are distributed among these distances:
32 5 0.03
33 20 0.13
34 1 0.01
35 4 0.03
36 3 0.02
37 41 0.27
38 69 0.45
39 10 0.07
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:12236176 original size:23 final size:23
Alignment explanation
Indices: 12236145--12236193 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
12236135 GTTTTTGAAA
* *
12236145 ATATTTTTGAAAATGTATATAAT
1 ATATATTTGAAAATATATATAAT
*
12236168 ATATATTTGAAAATATATATTAT
1 ATATATTTGAAAATATATATAAT
12236191 ATA
1 ATA
12236194 GTTTTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
ATATATTTGAAAATATATATAAT
Found at i:12236184 original size:21 final size:22
Alignment explanation
Indices: 12236145--12236202 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
12236135 GTTTTTGAAA
*
12236145 ATATTTTTGAAAATGTATATAAT
1 ATATATTTGAAAA-GTATATAAT
*
12236168 ATATATTTGAAAA-TATATATT
1 ATATATTTGAAAAGTATATAAT
*
12236189 ATATAGTTTTAAAA
1 ATATA-TTTGAAAA
12236203 CAATTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.39
22 7 0.23
23 12 0.39
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATATTTGAAAAGTATATAAT
Found at i:12236259 original size:38 final size:37
Alignment explanation
Indices: 12236173--12236276 Score: 133
Period size: 38 Copynumber: 2.8 Consensus size: 37
12236163 ATAATATATA
*
12236173 TTTG-AAA-ATATATATTATATAGTTTTAAAACAATT
1 TTTGAAAACATATATATTATATAGTTTTAAAACAAAT
* *
12236208 TTTGAAAATATATATATTATATGGTTTTGAAAACAAAT
1 TTTGAAAACATATATATTATATAGTTTT-AAAACAAAT
*
12236246 TTT-AAAAGCATATATAATATATAGTTTTAAA
1 TTTGAAAA-CATATATATTATATAGTTTTAAA
12236277 TTTTTTTTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
35 4 0.07
36 3 0.05
37 25 0.42
38 28 0.47
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTGAAAACATATATATTATATAGTTTTAAAACAAAT
Found at i:12236259 original size:94 final size:94
Alignment explanation
Indices: 12236079--12236268 Score: 212
Period size: 94 Copynumber: 2.0 Consensus size: 94
12236069 TGAAAACGTT
*
12236079 TTTGAAAATATATATAATATATAGTTTTTAAAAAACATTTTAAAAAATAATATATAGTTTTTGAA
1 TTTGAAAATATATAT-ATATATAGTTTTTAAAAAACATTTTAAAAAATAATATATAGGTTTTGAA
* * *
12236144 AATATTTTTGAAAATG-TATATAATATATA
65 AAAAATTTTGAAAATGCAATATAATATATA
* *
12236173 TTTGAAAATATATAT-TATATAG-TTTTAAAACAA-TTTTTGAAAATATATATATTATATGGTTT
1 TTTGAAAATATATATATATATAGTTTTTAAAA-AACATTTT-AAAAAATA-ATA-TATA-GGTTT
12236235 TGAAAACAAATTTT-AAAA-GCATATATAATATATA
61 TGAAAA-AAATTTTGAAAATGCA-ATATAATATATA
12236269 GTTTTAAATT
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
91 12 0.15
92 16 0.20
93 3 0.04
94 20 0.24
95 14 0.17
96 17 0.21
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (94 bp):
TTTGAAAATATATATATATATAGTTTTTAAAAAACATTTTAAAAAATAATATATAGGTTTTGAAA
AAAATTTTGAAAATGCAATATAATATATA
Found at i:12236280 original size:129 final size:128
Alignment explanation
Indices: 12236042--12236283 Score: 321
Period size: 129 Copynumber: 1.8 Consensus size: 128
12236032 TGAAAACATT
*
12236042 TTTGAAAATATATATAATATATAGTTTTGAAAACGTTTTTGAAAATATATATAATATATAGTTTT
1 TTTGAAAATATATAT-ATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTT
*
12236107 TAAAAAACATTTTAAAAAATAATATATAGTTTTTGAAAATATTTTTGAAAATGTATATAATATAT
65 GAAAAAACATTTTAAAAAATAATATATAGTTTTT--AAATATTTTTGAAAATGTATATAATATAT
12236172 A
128 A
* *
12236173 TTTGAAAATATATAT-TATATAGTTTT-AAAACAATTTTTGAAAATATATATATTATATGGTTTT
1 TTTGAAAATATATATATATATAGTTTTGAAAAC-ATTTTTGAAAATATATATAATATATAGTTTT
*
12236236 GAAAACAA-ATTTTAAAAGCATATATAATATATAG-TTTTAAATTTTTTT
65 GAAAA-AACATTTT-AAA--A-A-ATAATATATAGTTTTTAAATATTTTT
12236284 TCTTTCTTTT
Statistics
Matches: 99, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
128 5 0.05
129 48 0.48
130 5 0.05
131 24 0.24
132 1 0.01
133 5 0.05
134 11 0.11
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (128 bp):
TTTGAAAATATATATATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTG
AAAAAACATTTTAAAAAATAATATATAGTTTTTAAATATTTTTGAAAATGTATATAATATATA
Found at i:12236551 original size:19 final size:20
Alignment explanation
Indices: 12236519--12236556 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
12236509 ACCCAATCCA
12236519 ACGGCCATAAAGCGATCTCG
1 ACGGCCATAAAGCGATCTCG
12236539 ACGGCCA-AAAGCGATCTC
1 ACGGCCATAAAGCGATCTC
12236557 AAATGGCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.13
Consensus pattern (20 bp):
ACGGCCATAAAGCGATCTCG
Found at i:12237439 original size:28 final size:31
Alignment explanation
Indices: 12237372--12237442 Score: 76
Period size: 33 Copynumber: 2.3 Consensus size: 31
12237362 GACCCTTTAA
12237372 AATTTTAGTTATTCATTTTTTTAAATTCTTTTT
1 AATTTTAG-TATTCATTTTTTT-AATTCTTTTT
*
12237405 ACTATTTTA-TATTCATTTTTTT-CTTC-TTTT
1 A--ATTTTAGTATTCATTTTTTTAATTCTTTTT
12237435 AATTTTAG
1 AATTTTAG
12237443 CATGTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
28 6 0.18
30 5 0.15
31 3 0.09
33 14 0.41
35 6 0.18
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (31 bp):
AATTTTAGTATTCATTTTTTTAATTCTTTTT
Found at i:12237603 original size:5 final size:5
Alignment explanation
Indices: 12237593--12237708 Score: 77
Period size: 5 Copynumber: 23.8 Consensus size: 5
12237583 AATTTAATAT
* *
12237593 TTTTA TTTTA -TTT- TTTTC TTTGA TTAATT- TTTTA TTTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT--TTA TTTTA -TTTTA -TTTTA
* *
12237639 TGTTT- TTTTA TTTTA TTTTA TTTTA -TTT- TTTTA TTTGA -TTTA TTTAA
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
12237686 TATT- CTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
12237709 TCTTTTCTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
4 22 0.25
5 49 0.56
6 16 0.18
7 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:12237614 original size:42 final size:43
Alignment explanation
Indices: 12237536--12237617 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
12237526 TTTATTACTT
12237536 TTAAAATTTAACATTTTTTATTTTATTTTTCCCTTTGATTTAG
1 TTAAAATTTAACATTTTTTATTTTATTTTTCCCTTTGATTTAG
* **
12237579 TTAAAATTTAATA-TTTTTATTTTATTTTTTTCTTTGATT
1 TTAAAATTTAACATTTTTTATTTTATTTTTCCCTTTGATT
12237618 AATTTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 24 0.67
43 12 0.33
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (43 bp):
TTAAAATTTAACATTTTTTATTTTATTTTTCCCTTTGATTTAG
Found at i:12237648 original size:10 final size:9
Alignment explanation
Indices: 12237592--12237732 Score: 74
Period size: 10 Copynumber: 14.6 Consensus size: 9
12237582 AAATTTAATA
12237592 TTTTTATTT
1 TTTTTATTT
12237601 TATTTT-TTT
1 T-TTTTATTT
12237610 CTTTGATTAATTT
1 -TTT--TT-ATTT
12237623 TTTATT-TTT
1 TTT-TTATTT
12237632 ATTTTTATGTT
1 -TTTTTAT-TT
12237643 TTTTTATTT
1 TTTTTATTT
12237652 TATTTTATTT
1 T-TTTTATTT
12237662 TATTTT-TTT
1 T-TTTTATTT
* *
12237671 ATTTGATTT
1 TTTTTATTT
* * *
12237680 ATTTAATAT
1 TTTTTATTT
*
12237689 TCTTTATTT
1 TTTTTATTT
12237698 TATTTTATTT
1 T-TTTTATTT
12237708 TTCTTT-TCTT
1 TT-TTTAT-TT
12237718 TTTTTATTT
1 TTTTTATTT
12237727 ATTTTT
1 -TTTTT
12237733 TCCTTTGATT
Statistics
Matches: 107, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
8 3 0.03
9 40 0.37
10 51 0.48
11 7 0.07
12 3 0.03
13 3 0.03
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:12237652 original size:15 final size:14
Alignment explanation
Indices: 12237592--12237731 Score: 90
Period size: 14 Copynumber: 9.7 Consensus size: 14
12237582 AAATTTAATA
12237592 TTTTTATTTTA-TT
1 TTTTTATTTTATTT
* *
12237605 TTTTTCTTTGATTAAT
1 TTTTTATTTTATT--T
12237621 TTTTTATTTTTATTT
1 TTTTTA-TTTTATTT
*
12237636 TTATGTTTTTTTATTT
1 TT-T-TTATTTTATTT
12237652 TATTTTATTTTA-TT
1 T-TTTTATTTTATTT
*
12237666 TTTTTATTTGATTT
1 TTTTTATTTTATTT
* * * *
12237680 ATTTAATATTCTTT
1 TTTTTATTTTATTT
*
12237694 ATTTTATTTTATTT
1 TTTTTATTTTATTT
12237708 TTCTTT-TCTTT-TTT
1 TT-TTTAT-TTTATTT
*
12237722 TATTTATTTT
1 TTTTTATTTT
12237732 TTCCTTTGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
13 24 0.24
14 33 0.33
15 16 0.16
16 17 0.17
17 9 0.09
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:12237676 original size:61 final size:63
Alignment explanation
Indices: 12237593--12237753 Score: 202
Period size: 61 Copynumber: 2.6 Consensus size: 63
12237583 AATTTAATAT
* **
12237593 TTTTATTTTATTTTTTTCTTTGATTAATTTTTTATT-TTTATTTTTATGTT-TTTTTATTTT-A
1 TTTTATTTTATTTTTTTCTTTGATTTATTTAATATTCTTTA-TTTTATGTTATTTTTATTTTCA
* * * *
12237654 TTTTATTTTATTTTTTTATTTGATTTATTTAATATTCTTTATTTTATTTTATTTTTCTTTTCT
1 TTTTATTTTATTTTTTTCTTTGATTTATTTAATATTCTTTATTTTATGTTATTTTTATTTTCA
* *
12237717 TTTTTTATTTATTTTTTCCTTTGATTTATTTAATATT
1 TTTTAT-TTTATTTTTTTCTTTGATTTATTTAATATT
12237754 TATTTATTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
61 40 0.47
62 13 0.15
63 5 0.06
64 28 0.33
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (63 bp):
TTTTATTTTATTTTTTTCTTTGATTTATTTAATATTCTTTATTTTATGTTATTTTTATTTTCA
Found at i:12237695 original size:56 final size:52
Alignment explanation
Indices: 12237590--12237733 Score: 139
Period size: 56 Copynumber: 2.6 Consensus size: 52
12237580 TAAAATTTAA
*
12237590 TATTTTTATTTTATTTTTTTCTTTGATTAATTTTTTATTTTTATTTTTATGTTT-TTT
1 TATTTTTATTTTA-TTTTTT-TTT--TT-ATTTTTTATTTATATTTTTAT-TTTATTT
12237647 TA-TTTTATTTTATTTTATTTTTTTATTTGATTTATTTAATATTCTTTATTTTATTT
1 TATTTTTATTTTATTTT-TTTTTTTATTT--TTTATTT-ATATT-TTTATTTTATTT
* * *
12237703 TATTTTTCTTTTCTTTTTTTATTTATTTTTT
1 TATTTTTATTTTATTTTTTTTTTTATTTTTT
12237734 CCTTTGATTT
Statistics
Matches: 76, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
52 4 0.05
53 2 0.03
54 10 0.13
55 14 0.18
56 32 0.42
57 14 0.18
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (52 bp):
TATTTTTATTTTATTTTTTTTTTTATTTTTTATTTATATTTTTATTTTATTT
Found at i:12237740 original size:64 final size:67
Alignment explanation
Indices: 12237616--12237754 Score: 184
Period size: 64 Copynumber: 2.1 Consensus size: 67
12237606 TTTTCTTTGA
*
12237616 TTAAT-TTTTTATTTTTATTTTTATGTTTTTTTATTTTATTTTATTTTATTTTTTTATTTGATTT
1 TTAATATTTTTATTTTTATTTTTATGTTTTTTTATTTTATTTTATTTTATTTTTTCATTTGATTT
12237680 AT
66 AT
*
12237682 TTAATATTCTTTA-TTTTA-TTTTAT-TTTTCTTT-TCTTT-TTTTA-TTTATTTTTTCCTTTGA
1 TTAATATT-TTTATTTTTATTTTTATGTTTT-TTTAT-TTTATTTTATTTTATTTTTTCATTTGA
12237741 TTTAT
63 TTTAT
12237746 TTAATATTT
1 TTAATATTT
12237755 ATTTATTATT
Statistics
Matches: 67, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
63 1 0.01
64 28 0.42
65 10 0.15
66 17 0.25
67 7 0.10
68 4 0.06
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (67 bp):
TTAATATTTTTATTTTTATTTTTATGTTTTTTTATTTTATTTTATTTTATTTTTTCATTTGATTT
AT
Found at i:12240149 original size:18 final size:18
Alignment explanation
Indices: 12240111--12240149 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12240101 AATATAAATT
* *
12240111 ATTTTTAACTTTTAGTCA
1 ATTTTTAACTTTTAATAA
*
12240129 ATTTTTCACTTTTAATAA
1 ATTTTTAACTTTTAATAA
12240147 ATT
1 ATT
12240150 ACATGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTTTAACTTTTAATAA
Found at i:12249194 original size:18 final size:18
Alignment explanation
Indices: 12249153--12249190 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12249143 TTATTTTTAC
*
12249153 TTTAATTGCTTTTACTTA
1 TTTAATCGCTTTTACTTA
12249171 TTTAATCGCTTTTA-TTA
1 TTTAATCGCTTTTACTTA
12249188 TTT
1 TTT
12249191 TAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTAATCGCTTTTACTTA
Found at i:12250892 original size:30 final size:27
Alignment explanation
Indices: 12250815--12250891 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
12250805 GAAGTAAGCG
*
12250815 CAAGATCCCAGAA-GAAAGAAGAAACTT
1 CAAGCTCCCA-AAGGAAAGAAGAAACTT
12250842 CAAGCTCCCAAAGGAAAGAAGAAACTT
1 CAAGCTCCCAAAGGAAAGAAGAAACTT
* *
12250869 CAAGCTCCCAAAGGGAATAAGAA
1 CAAGCTCCCAAAGGAAAGAAGAA
12250892 GTAGCTGACG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.10
Consensus pattern (27 bp):
CAAGCTCCCAAAGGAAAGAAGAAACTT
Found at i:12254046 original size:12 final size:12
Alignment explanation
Indices: 12254029--12254054 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12254019 ATTGCCTTGA
12254029 ATTTTTAGCCTT
1 ATTTTTAGCCTT
12254041 ATTTTTAGCCTT
1 ATTTTTAGCCTT
12254053 AT
1 AT
12254055 CCCCACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (12 bp):
ATTTTTAGCCTT
Found at i:12270170 original size:21 final size:21
Alignment explanation
Indices: 12270140--12270191 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
12270130 AAGTCGGGTT
12270140 TTTGGGTTTTTTTGGGTCGGG
1 TTTGGGTTTTTTTGGGTCGGG
* * *
12270161 TTTGGTTTTTTTTGGTTCTGG
1 TTTGGGTTTTTTTGGGTCGGG
12270182 TTTCGGGTTT
1 TTT-GGGTTT
12270192 AGTTTTGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.00, C:0.06, G:0.35, T:0.60
Consensus pattern (21 bp):
TTTGGGTTTTTTTGGGTCGGG
Found at i:12273485 original size:30 final size:30
Alignment explanation
Indices: 12273444--12273505 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
12273434 CCACACATTA
* * *
12273444 CTGTAGTTGATCATGTTGGACCACGCCCTG
1 CTGTAGCTGATCATGCTGGACCAAGCCCTG
*
12273474 CTGTAGCTGATCCTGCTGGACCAAGCCCTG
1 CTGTAGCTGATCATGCTGGACCAAGCCCTG
12273504 CT
1 CT
12273506 ACAGCTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.27
Consensus pattern (30 bp):
CTGTAGCTGATCATGCTGGACCAAGCCCTG
Found at i:12273520 original size:30 final size:30
Alignment explanation
Indices: 12273451--12273525 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
12273441 TTACTGTAGT
* * * **
12273451 TGATCATGTTGGACCACGCCCTGCTGTAGC
1 TGATCCTGCTGGACCAAGCCCTGCTACAGC
12273481 TGATCCTGCTGGACCAAGCCCTGCTACAGC
1 TGATCCTGCTGGACCAAGCCCTGCTACAGC
* * *
12273511 TTATTCTGCTAGACC
1 TGATCCTGCTGGACC
12273526 TTAACCTGCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.27
Consensus pattern (30 bp):
TGATCCTGCTGGACCAAGCCCTGCTACAGC
Found at i:12275664 original size:9 final size:9
Alignment explanation
Indices: 12275633--12275665 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
12275623 TAGAAAATAA
12275633 AATGAATGC
1 AATGAATGC
12275642 AATGCAATGC
1 AATG-AATGC
12275652 -ATGAATGC
1 AATGAATGC
12275660 AATGAA
1 AATGAA
12275666 GATATTGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (9 bp):
AATGAATGC
Found at i:12280378 original size:2 final size:2
Alignment explanation
Indices: 12280371--12280421 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
12280361 TTTTTCTTCT
12280371 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
12280413 TA TA TA TA T
1 TA TA TA TA T
12280422 TGATGCAGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12280592 original size:12 final size:12
Alignment explanation
Indices: 12280575--12280605 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
12280565 GAATGATATA
12280575 AAATAATAATTG
1 AAATAATAATTG
12280587 AAATAATAATTG
1 AAATAATAATTG
12280599 AAATAAT
1 AAATAAT
12280606 GGAATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (12 bp):
AAATAATAATTG
Found at i:12280717 original size:18 final size:18
Alignment explanation
Indices: 12280696--12280730 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12280686 GGTGAAGTAT
12280696 AAATGGCGTTGTCGTGGC
1 AAATGGCGTTGTCGTGGC
*
12280714 AAATGGTGTTGTCGTGG
1 AAATGGCGTTGTCGTGG
12280731 TAAGTGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.40, T:0.31
Consensus pattern (18 bp):
AAATGGCGTTGTCGTGGC
Found at i:12283010 original size:48 final size:48
Alignment explanation
Indices: 12282936--12283029 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
12282926 TTTGATTCGG
**
12282936 GTTGGGTCATTTTAGGTTTCGGTTTTATTCAGATCTATAGTAAGTCGT
1 GTTGGGTCATTTTAGGTTTCAATTTTATTCAGATCTATAGTAAGTCGT
* * * * *
12282984 GTTGGGTCTTTTTGGGTTTCAATTTTATTCGGGTTTATAGTAAGTC
1 GTTGGGTCATTTTAGGTTTCAATTTTATTCAGATCTATAGTAAGTC
12283030 ATGTCAGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (48 bp):
GTTGGGTCATTTTAGGTTTCAATTTTATTCAGATCTATAGTAAGTCGT
Found at i:12283890 original size:59 final size:59
Alignment explanation
Indices: 12283818--12283978 Score: 151
Period size: 59 Copynumber: 2.7 Consensus size: 59
12283808 TATAACTCTC
* ** *
12283818 ATTAGTCATTAAACTTTTAAATATTCCAATTTCATCCTTAAACTACGACTATCATTCTAA
1 ATTAGTC-CTAAACTTTTAAATATTCCAATTTCATCCCCAAACTACGAATATCATTCTAA
* * * * * ** *
12283878 ATTAGTCCTAAACTTTTGAACATTCAAATTCCATCCCCAAATTATTAATCTCATTCTAA
1 ATTAGTCCTAAACTTTTAAATATTCCAATTTCATCCCCAAACTACGAATATCATTCTAA
* * * * *
12283937 ATTGGTCCCTAAACTTTTAGATCTTTCAATTTCATCTCCAAA
1 ATTAGT-CCTAAACTTTTAAATATTCCAATTTCATCCCCAAA
12283979 TTCATCAAAA
Statistics
Matches: 79, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
59 45 0.57
60 34 0.43
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.39
Consensus pattern (59 bp):
ATTAGTCCTAAACTTTTAAATATTCCAATTTCATCCCCAAACTACGAATATCATTCTAA
Found at i:12283979 original size:60 final size:59
Alignment explanation
Indices: 12283869--12283980 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
12283859 ACTACGACTA
12283869 TCATTCTAAATTAGTCCTAAACTTTTGAACATTCAAATTCCATCCCCAAATTATTAATC
1 TCATTCTAAATTAGTCCTAAACTTTTGAACATTCAAATTCCATCCCCAAATTATTAATC
* * * * *
12283928 TCATTCTAAATTGGTCCCTAAACTTTTAGATCTTTC-AATTTCATCTCCAAATT
1 TCATTCTAAATTAGT-CCTAAACTTTT-GAACATTCAAATTCCATCCCCAAATT
12283981 CATCAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
59 14 0.30
60 26 0.57
61 6 0.13
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.40
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCTAAACTTTTGAACATTCAAATTCCATCCCCAAATTATTAATC
Found at i:12287019 original size:36 final size:36
Alignment explanation
Indices: 12286975--12287065 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 36
12286965 TTTTTAAAAC
*
12286975 TATATATTTTCAAAATATTTTCAAAACTATATGATA
1 TATATATTTTCAAAACATTTTCAAAACTATATGATA
* * *
12287011 TATATATTTTTTAATACCATTTTCAAAACTATATTATA
1 TATATA-TTTTCAA-AACATTTTCAAAACTATATGATA
*
12287049 TATATATATTCGAAAAC
1 TATATATTTTC-AAAAC
12287066 CGTTTTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 6 0.13
37 11 0.24
38 28 0.62
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (36 bp):
TATATATTTTCAAAACATTTTCAAAACTATATGATA
Found at i:12290659 original size:47 final size:45
Alignment explanation
Indices: 12290589--12290714 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
12290579 TATAAAATCT
*
12290589 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
12290634 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
** * *
12290681 CTTGTCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
12290715 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:12290863 original size:40 final size:40
Alignment explanation
Indices: 12290819--12290900 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
12290809 ACCGTAGTGC
12290819 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
12290859 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
12290899 TA
1 TA
12290901 TAAACCTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:12294557 original size:37 final size:36
Alignment explanation
Indices: 12294489--12294560 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 36
12294479 TATATGTAGG
12294489 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
12294525 GGGAACAGATT-CCCCCTGGGGGGGGTATCGATTCCC
1 GGGAACAGATTCCCCCCT--GGGGGGTATCGATTCCC
12294561 ACCTAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 6 0.18
36 11 0.32
37 17 0.50
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (36 bp):
GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
Found at i:12295214 original size:18 final size:18
Alignment explanation
Indices: 12295169--12295216 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 18
12295159 CGAGGATATT
12295169 GTGGTCCTTCGGGACGTA
1 GTGGTCCTTCGGGACGTA
12295187 ---GTCCTTCGGGACGTA
1 GTGGTCCTTCGGGACGTA
*
12295202 GTGGTCCTACGGGAC
1 GTGGTCCTTCGGGAC
12295217 ATATATAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 15 0.58
18 11 0.42
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (18 bp):
GTGGTCCTTCGGGACGTA
Found at i:12297272 original size:2 final size:2
Alignment explanation
Indices: 12297265--12297301 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12297255 TATCATTGGA
12297265 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
12297302 ATAATTTGAT
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:12300620 original size:36 final size:36
Alignment explanation
Indices: 12300573--12300641 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
12300563 TATATGCAGG
*
12300573 GGGAACAGATTCCCCCCT-GGGGGGTATCTATTCCCC
1 GGGAACAGATT-CCCCCTGGGGGGGTATCGATTCCCC
*
12300609 GGGAATAGATTCCCCCTGGGGGGGTATCGATTC
1 GGGAACAGATTCCCCCTGGGGGGGTATCGATTC
12300642 TCACCTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
Found at i:12301270 original size:15 final size:15
Alignment explanation
Indices: 12301252--12301331 Score: 160
Period size: 15 Copynumber: 5.3 Consensus size: 15
12301242 CGAGGGTATT
12301252 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
12301267 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
12301282 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
12301297 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
12301312 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
12301327 GTAGT
1 GTAGT
12301332 GGTCCTATGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 65 1.00
ACGTcount: A:0.14, C:0.25, G:0.34, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:12302539 original size:14 final size:12
Alignment explanation
Indices: 12302505--12302530 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12302495 ATTTTTCTTT
12302505 CAACAATAGTCA
1 CAACAATAGTCA
12302517 CAACAATAGTCA
1 CAACAATAGTCA
12302529 CA
1 CA
12302531 CATCCATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.27, G:0.08, T:0.15
Consensus pattern (12 bp):
CAACAATAGTCA
Found at i:12305498 original size:45 final size:42
Alignment explanation
Indices: 12305442--12305556 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 42
12305432 CTCTTACCAT
*
12305442 TTATCCCATAAGCTCGTAAGCTTATTACCAAAATACTTGCCA
1 TTATTCCATAAGCTCGTAAGCTTATTACCAAAATACTTGCCA
* *
12305484 TTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATACTTGCCA
1 -TT--ATTCCATAAGCTCGTAAGCTTA--TTACCAAAATACTTGCCA
* * *
12305531 TTATTTCGTAAGCTCATAAGCTTATT
1 TTATTCCATAAGCTCGTAAGCTTATT
12305557 TGCATGGTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 19 0.31
45 21 0.34
46 2 0.03
47 16 0.26
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (42 bp):
TTATTCCATAAGCTCGTAAGCTTATTACCAAAATACTTGCCA
Found at i:12305706 original size:40 final size:40
Alignment explanation
Indices: 12305662--12305743 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
12305652 ACCGTAGTGC
12305662 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
12305702 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
12305742 TA
1 TA
12305744 TAAACCTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:12313140 original size:38 final size:37
Alignment explanation
Indices: 12313054--12313195 Score: 205
Period size: 38 Copynumber: 3.8 Consensus size: 37
12313044 TAATAAATCA
* * * *
12313054 TTTTTAAAACTATATATTATATATAATTTTCAA-AATG
1 TTTTCAAAACTATATA-TATATATATTTTTGAATACTG
12313091 TTTTCAAAACTATATGATATATATATTTTTGAATACTG
1 TTTTCAAAACTATAT-ATATATATATTTTTGAATACTG
12313129 TTTTCAAAACTATATAATATATATATTTTTGAATACTG
1 TTTTCAAAACTATAT-ATATATATATTTTTGAATACTG
12313167 TTTTCAAAACTATATTATATATATATTTT
1 TTTTCAAAACTATA-TATATATATATTTT
12313196 CGAAAATCGA
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
37 28 0.29
38 68 0.70
39 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (37 bp):
TTTTCAAAACTATATATATATATATTTTTGAATACTG
Found at i:12313230 original size:40 final size:42
Alignment explanation
Indices: 12313167--12313261 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
12313157 TTGAATACTG
* *
12313167 TTTTCAAAACTATATTATATATATATTTTC-GAAAATCGATTT
1 TTTTAAAAACTATATTATATATATATTTTCAAAAAATC-ATTT
* *
12313209 TTTTAAAAAGTATA-TAT-TATATGTTTTCAAAAAATCA-TT
1 TTTTAAAAACTATATTATATATATATTTTCAAAAAATCATTT
*
12313248 TTCT-AAAACTATAT
1 TTTTAAAAACTATAT
12313262 AAAAATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 8 0.18
39 5 0.11
40 11 0.24
41 9 0.20
42 12 0.27
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.46
Consensus pattern (42 bp):
TTTTAAAAACTATATTATATATATATTTTCAAAAAATCATTT
Found at i:12314218 original size:33 final size:33
Alignment explanation
Indices: 12314171--12314234 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
12314161 GGTTATGTAC
12314171 ATGTAATACATATTCAAAGATAACTCTCAATCA
1 ATGTAATACATATTCAAAGATAACTCTCAATCA
**
12314204 ATGTAATATGTATTCAAAGATAACTCTCAAT
1 ATGTAATACATATTCAAAGATAACTCTCAAT
12314235 TATTTGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (33 bp):
ATGTAATACATATTCAAAGATAACTCTCAATCA
Found at i:12314396 original size:22 final size:22
Alignment explanation
Indices: 12314366--12314409 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12314356 ACAATGGACC
12314366 TACAAAAATGAATAATA-ATAAT
1 TACAAAAAT-AATAATATATAAT
* *
12314388 TACATAAATAATACTATATAAT
1 TACAAAAATAATAATATATAAT
12314410 AAATATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (22 bp):
TACAAAAATAATAATATATAAT
Found at i:12314444 original size:5 final size:5
Alignment explanation
Indices: 12314391--12314510 Score: 58
Period size: 5 Copynumber: 24.6 Consensus size: 5
12314381 TAATAATTAC
* * *
12314391 ATAA- ATAAT ACT-AT ATAAT A-AAT ATAAT CTAAT CTAAT AT-GT GAT-AT
1 ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
* * **
12314438 ATAAT AT-A- ATAAT ATAAAGT ATGAT ATATAT GTAAT ATAAT ATACG
1 ATAAT ATAAT ATAAT AT-AA-T ATAAT ATA-AT ATAAT ATAAT ATAAT
* *
12314484 AT-AT ATAAC ATAAC ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
12314511 TACAAATATA
Statistics
Matches: 90, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
3 2 0.02
4 16 0.18
5 61 0.68
6 8 0.09
7 3 0.03
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:12314474 original size:23 final size:23
Alignment explanation
Indices: 12314447--12314490 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12314437 TATAATATAA
*
12314447 TAATATAA-AGTATGATATATATG
1 TAATATAATA-TACGATATATATG
12314470 TAATATAATATACGATATATA
1 TAATATAATATACGATATATA
12314491 ACATAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (23 bp):
TAATATAATATACGATATATATG
Found at i:12314543 original size:15 final size:14
Alignment explanation
Indices: 12314434--12314543 Score: 60
Period size: 15 Copynumber: 7.4 Consensus size: 14
12314424 CTAATATGTG
*
12314434 ATATATAATATAAT
1 ATATAAAATATAAT
*
12314448 AATATAAAGTATGATAT
1 -ATATAAAATAT-A-AT
**
12314465 ATATGTAATATAAT
1 ATATAAAATATAAT
** * *
12314479 ATACGATATATAAC
1 ATATAAAATATAAT
12314493 ATA-ACATAATATAAT
1 ATATA-A-AATATAAT
**
12314508 ATATACAAATATACC
1 ATATA-AAATATAAT
12314523 ATATAAAATAGTAAT
1 ATATAAAATA-TAAT
12314538 ATATAA
1 ATATAA
12314544 TATACGTATG
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 21 0.29
15 38 0.52
16 12 0.16
17 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (14 bp):
ATATAAAATATAAT
Found at i:12314700 original size:24 final size:22
Alignment explanation
Indices: 12314657--12314705 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
12314647 AGTGTTACAA
**
12314657 TAAAAATAATAATATTAAATAT
1 TAAAAATAATAATAGGAAATAT
12314679 TAAATAATAAATAATAGGAAATAT
1 TAAA-AAT-AATAATAGGAAATAT
12314703 TAA
1 TAA
12314706 TACACTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 3 0.13
24 16 0.70
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TAAAAATAATAATAGGAAATAT
Found at i:12315740 original size:34 final size:35
Alignment explanation
Indices: 12315687--12315760 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
12315677 TTCATTTAAT
* * *
12315687 GTTCGTTAACATGTTCGTGAACGTGTTTGTTTAGC
1 GTTCGTTAACATGTTCGTGAACATATTCGTTTAGC
*
12315722 GTTCGTTTA-ATGTTCGTGAACATATTCGTTTAGC
1 GTTCGTTAACATGTTCGTGAACATATTCGTTTAGC
12315756 GTTCG
1 GTTCG
12315761 CGAACATGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 27 0.77
35 8 0.23
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.43
Consensus pattern (35 bp):
GTTCGTTAACATGTTCGTGAACATATTCGTTTAGC
Found at i:12315749 original size:23 final size:23
Alignment explanation
Indices: 12315723--12315790 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
12315713 TTGTTTAGCG
*
12315723 TTCGTTTAATGTTCGTGAACATA
1 TTCGTTTAACGTTCGTGAACATA
* * *
12315746 TTCGTTTAGCGTTCGCGAACATG
1 TTCGTTTAACGTTCGTGAACATA
* * *
12315769 CTCCTTTAACATTCGTGAACAT
1 TTCGTTTAACGTTCGTGAACAT
12315791 GTTCATGAAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TTCGTTTAACGTTCGTGAACATA
Found at i:12321236 original size:325 final size:324
Alignment explanation
Indices: 12320647--12321272 Score: 1090
Period size: 325 Copynumber: 1.9 Consensus size: 324
12320637 AATCGGATGT
* *
12320647 CTCCTTTTCTGACGATCTTCAAGGTTTCATCATCGGCTAGTTGAACCTTCCCAAAATCACCACTA
1 CTCCTTTTCCGACGATCTTCAAGGTTTCATCATCGGCTAGATGAACCTTCCCAAAATCACCACTA
12320712 CATAGTTCTCTATGATTTCTCGGCATGGGGTGGAGTGGAAAGATGCCCCTGAATCCAAGATCCAT
66 CATAGTTCTCTATGATTTCTCGGCATGGGGTGGAGTGGAAAGATGCCCCTGAATCCAAGATCCAT
* *
12320777 GATTCAATCGGACTTTTTACGCTTAGAATCATGGCATCACCTGTCTCCTCTGTCACGTTGGCAGA
131 GATTCAATCGGACTGTTTACGCTTAGAATCATGGCATCACCTGTCTCCTCAGTCACGTTGGCAGA
* * *
12320842 ATCCTGTGCGCCGGTATTTTTCTTCGGTGCTCGGCAATCTCTTTTAAAGTGAACCTTCTTGCCAC
196 ATCCTGTACGCCAGTATTATTCTTCGGTGCTCGGCAATCTCTTTTAAAGTGAACCTTCTTGCCAC
* *
12320907 AATTATAACAGGTATAATCTTTCTTTCCCGTTCTTGATTTTAAAGCTGAAAGGAATATGTCTCA
261 AATTATAACAGGTATAATCTTTCTTTCCCATTCTTAATTTTAAAGCTGAAAGGAATATGTCTCA
*
12320971 CTCCTTTTCCGATGATCTTCAAGGTTTCATCATCGGCTAGATGAACCTTCCCAAAATCACCACTG
1 CTCCTTTTCCGACGATCTTCAAGGTTTCATCATCGGCTAGATGAACCTTCCCAAAATCACCACT-
* * *
12321036 ACATAGTTCTCTATGATTTCTCGGCATGGGGTGGAGTGGAAATATGCCTCTGTATCCAAGATCCA
65 ACATAGTTCTCTATGATTTCTCGGCATGGGGTGGAGTGGAAAGATGCCCCTGAATCCAAGATCCA
*
12321101 TGATTCAATCGGACTGTTTACGCTTAGAATCATGGCATCACCTGTCTCCTCAGTCACGTTGGTAG
130 TGATTCAATCGGACTGTTTACGCTTAGAATCATGGCATCACCTGTCTCCTCAGTCACGTTGGCAG
* * *
12321166 AATCCTGTACGCCAGTATTATTCTTTGGTGCTCGGTAATCTCTTTTAAAGTGACCCTTCTTGCCA
195 AATCCTGTACGCCAGTATTATTCTTCGGTGCTCGGCAATCTCTTTTAAAGTGAACCTTCTTGCCA
12321231 CAATTATAACAGGTATAATCTTTCTTTCCCATTCTTAATTTT
260 CAATTATAACAGGTATAATCTTTCTTTCCCATTCTTAATTTT
12321273 CCCCTTCTGG
Statistics
Matches: 284, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
324 61 0.21
325 223 0.79
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (324 bp):
CTCCTTTTCCGACGATCTTCAAGGTTTCATCATCGGCTAGATGAACCTTCCCAAAATCACCACTA
CATAGTTCTCTATGATTTCTCGGCATGGGGTGGAGTGGAAAGATGCCCCTGAATCCAAGATCCAT
GATTCAATCGGACTGTTTACGCTTAGAATCATGGCATCACCTGTCTCCTCAGTCACGTTGGCAGA
ATCCTGTACGCCAGTATTATTCTTCGGTGCTCGGCAATCTCTTTTAAAGTGAACCTTCTTGCCAC
AATTATAACAGGTATAATCTTTCTTTCCCATTCTTAATTTTAAAGCTGAAAGGAATATGTCTCA
Found at i:12322616 original size:20 final size:20
Alignment explanation
Indices: 12322591--12322628 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12322581 TTTGGTTCAC
12322591 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
12322611 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
12322629 GGAATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:12322638 original size:16 final size:18
Alignment explanation
Indices: 12322591--12322641 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
12322581 TTTGGTTCAC
12322591 GGAATGTAAGATTACCAGTG
1 GGAA-GTAAGATTACCAG-G
12322611 GGAATGTAAGATTACCA-G
1 GGAA-GTAAGATTACCAGG
12322629 GGAA-TAAGATTAC
1 GGAAGTAAGATTAC
12322642 TGGGAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.29
18 5 0.16
20 17 0.55
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (18 bp):
GGAAGTAAGATTACCAGG
Found at i:12323213 original size:19 final size:19
Alignment explanation
Indices: 12323189--12323233 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
12323179 ATATAGATTC
12323189 CATTCCCATGGGAATCCCA
1 CATTCCCATGGGAATCCCA
12323208 CATTCCCATGGGAATCCCA
1 CATTCCCATGGGAATCCCA
12323227 CATTCCC
1 CATTCCC
12323234 CCATCCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.40, G:0.13, T:0.22
Consensus pattern (19 bp):
CATTCCCATGGGAATCCCA
Found at i:12328240 original size:27 final size:28
Alignment explanation
Indices: 12328170--12328230 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
12328160 GTACGCAATA
*
12328170 TGCACTCGAAAGTGTCTCGTAGATAAAT
1 TGCACTCGAAAGTGCCTCGTAGATAAAT
*
12328198 TGCACTCGAAAGTGCCTCGTAGATAATT
1 TGCACTCGAAAGTGCCTCGTAGATAAAT
12328226 TGCAC
1 TGCAC
12328231 CATAGGTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (28 bp):
TGCACTCGAAAGTGCCTCGTAGATAAAT
Found at i:12332365 original size:59 final size:59
Alignment explanation
Indices: 12332273--12332391 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
12332263 AAATCATAAT
*
12332273 TCTTTCCAAATTCTGTTTGTACTAATTCCAAATCTTCTACTAAAATATTCTCTTGAGTG
1 TCTTTCCAAATTCTGTTTGTACTAATACCAAATCTTCTACTAAAATATTCTCTTGAGTG
12332332 TCTTTCCAAATTCTGTTTGTACTAATACCAAATCTTCTACTAAAATATTCTCTTGAGTG
1 TCTTTCCAAATTCTGTTTGTACTAATACCAAATCTTCTACTAAAATATTCTCTTGAGTG
12332391 T
1 T
12332392 GGAAAAGTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (59 bp):
TCTTTCCAAATTCTGTTTGTACTAATACCAAATCTTCTACTAAAATATTCTCTTGAGTG
Found at i:12334082 original size:2 final size:2
Alignment explanation
Indices: 12334075--12334132 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
12334065 CTTTTATAAC
12334075 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
12334117 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
12334133 CTTACTAAAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12334665 original size:36 final size:36
Alignment explanation
Indices: 12334618--12334737 Score: 231
Period size: 36 Copynumber: 3.3 Consensus size: 36
12334608 ATACAACGTC
*
12334618 AAATCAATTTACCTAGTAAACTATTTGCTTTCTTTT
1 AAATCAATTTACGTAGTAAACTATTTGCTTTCTTTT
12334654 AAATCAATTTACGTAGTAAACTATTTGCTTTCTTTT
1 AAATCAATTTACGTAGTAAACTATTTGCTTTCTTTT
12334690 AAATCAATTTACGTAGTAAACTATTTGCTTTCTTTT
1 AAATCAATTTACGTAGTAAACTATTTGCTTTCTTTT
12334726 AAATCAATTTAC
1 AAATCAATTTAC
12334738 ATGTACTGTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 83 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (36 bp):
AAATCAATTTACGTAGTAAACTATTTGCTTTCTTTT
Found at i:12339770 original size:20 final size:20
Alignment explanation
Indices: 12339740--12339799 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
12339730 TACCCGTTGG
12339740 GCCTGATGGTATCGATACTAA
1 GCCT-ATGGTATCGATACTAA
12339761 GCCTATGGTATCGATACTAA
1 GCCTATGGTATCGATACTAA
12339781 GCCTATGGTATCGATACTA
1 GCCTATGGTATCGATACTA
12339800 CTATGTGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 35 0.90
21 4 0.10
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (20 bp):
GCCTATGGTATCGATACTAA
Found at i:12351911 original size:75 final size:76
Alignment explanation
Indices: 12351826--12352032 Score: 251
Period size: 75 Copynumber: 2.7 Consensus size: 76
12351816 GTTGAACAAG
*
12351826 GGGGGAATCGGTACC-CC-ATTGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAAC
1 GGGGGAATCGGTTCCTCCTA-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAAC
** *
12351889 AAAACTGTTTAC
65 AAAACCATTCAC
* * * * *
12351901 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
*
12351965 AAACCATTCAG
66 AAACCATTCAC
**
12351976 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTATGAGCA-ATCTGGAATT
1 GGGGGAATCGGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCATA-CTGGAATT
12352033 TTTGGCTTTG
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
75 80 0.71
76 8 0.07
77 24 0.21
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
AAACCATTCAC
Found at i:12354645 original size:21 final size:21
Alignment explanation
Indices: 12354619--12354658 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12354609 CAGAACCCCA
*
12354619 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
12354640 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
12354659 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:12360675 original size:76 final size:77
Alignment explanation
Indices: 12360472--12360677 Score: 264
Period size: 75 Copynumber: 2.7 Consensus size: 77
12360462 CCGTTGAACA
*
12360472 AGGGGGGAATCGGTACC-CCGT-TGGGGGGG-ATCGGTTCCCTCCGAG-AATACTGGAAATCTCG
1 AGGGGGGAATCGGTTCCTCC-TATGGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCG
** *
12360533 GAACAAAACTGTTT
64 GAACAAAACCATTC
*
12360547 AGGGGGGAATCGGTTCCTCCTAT--GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGA
* *
12360610 GCCAAACCATTC
66 ACAAAACCATTC
**
12360622 A-GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTATGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
12360678 TTTTTGGCTT
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
74 26 0.23
75 55 0.48
76 34 0.30
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGA
ACAAAACCATTC
Found at i:12365618 original size:13 final size:13
Alignment explanation
Indices: 12365592--12365626 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
12365582 TTTTTCTAAT
12365592 AATATTATATTTAA
1 AATATTA-ATTTAA
12365606 AATATTAATTTAA
1 AATATTAATTTAA
*
12365619 ATTATTAA
1 AATATTAA
12365627 ACGCTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AATATTAATTTAA
Found at i:12372384 original size:8 final size:8
Alignment explanation
Indices: 12372371--12372411 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
12372361 CTCATTTTCA
12372371 GAGAATTT
1 GAGAATTT
12372379 GAGAATTT
1 GAGAATTT
*
12372387 -AGAGTTT
1 GAGAATTT
*
12372394 GGGAATTT
1 GAGAATTT
12372402 GAGAATTT
1 GAGAATTT
12372410 GA
1 GA
12372412 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:12372722 original size:128 final size:128
Alignment explanation
Indices: 12372494--12372969 Score: 812
Period size: 128 Copynumber: 3.7 Consensus size: 128
12372484 TATTCATATA
* * *
12372494 AAGGCGCGTTCCCGGGGACGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
* * **
12372559 ATGTCACTCATGTCCCTCGGAGACACTATTCATATCAGTACCTATTATTTCTCATGAAACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
12372622 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
12372687 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
* * *
12372750 AAGGCGCGTTCTCGGGGGCGCGCCTTCTATTATTTTGTTAGAGAATATGTTATCATTACCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
* *
12372815 ATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAATACCTATTATTTCTCAGGGGACTTG
66 ATGTCACTCATGTCCCTCGGGGACACTA-TTCATATCAGTACCTATTATTTCTCAGGGGACTTG
*
12372878 AAGGCGCG-TCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
12372942 ATGTCACTCATGTCCCTCGGGGACACTA
66 ATGTCACTCATGTCCCTCGGGGACACTA
12372970 GATGGATTGT
Statistics
Matches: 331, Mismatches: 16, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
127 80 0.24
128 250 0.76
129 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (128 bp):
AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATT
ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
Done.