Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007808.1 Hibiscus syriacus cultivar Beakdansim tig00110129_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: 1698870
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1418815 original size:2 final size:2
Alignment explanation
Indices: 1418808--1418870 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
1418798 GCTTTACTTT
1418808 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
1418850 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1418871 TATGTTTCTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1428267 original size:36 final size:36
Alignment explanation
Indices: 1428220--1428402 Score: 267
Period size: 36 Copynumber: 5.1 Consensus size: 36
1428210 TCCTCCAAGC
1428220 CATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
1 CATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
** *
1428256 CATCTTAAGCCTTCACAAAAGAGTAGTGAAACAAAT
1 CATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
* * * *
1428292 CATCTTAATCCTTTACAGAATAGTAGTGAAGCAAAT
1 CATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
* *
1428328 CATCTTAAGCCTTCACGAAAGAGTAGTGAAGCGAAT
1 CATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
*
1428364 CATCTATAAGCCTTCACGGAAGAGTATTGAAGCAAAT
1 CATCT-TAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
1428401 CA
1 CA
1428403 AGATCGAGTC
Statistics
Matches: 129, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
36 99 0.77
37 30 0.23
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (36 bp):
CATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAAT
Found at i:1428484 original size:55 final size:55
Alignment explanation
Indices: 1428406--1428777 Score: 354
Period size: 55 Copynumber: 6.8 Consensus size: 55
1428396 CAAATCAAGA
* * * * * *
1428406 TCGAGTCCTATACTCCTTGAAAGAATAGGTAGCGGACACGTTCGTTGAAAATTAT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTAT
* * ** * *
1428461 TCGAGTCCTATACTCCCTAAAAGAATAGGGAGCATACATATTTACTGAAGATTGT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTAT
* ** * *
1428516 TCGAGTCCTATACTCTCTGAAAGAATAGGGAGCAGTTATGTTTGGTGAAGATTAT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTAT
* * * * * * *
1428571 TCTAGTCCTATACTCTCTGAAAGAATAAGGAAC-GTACATGTTTGGTGAAGATTTT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAG-ACACGTTTGCTGAAGATTAT
* * * * *
1428626 TTGAGTCCTATACTCCCTAAAAGAATAGGGAGCAGACATC-TTTGCTAAATATTGT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACA-CGTTTGCTGAAGATTAT
* * ** * *
1428681 TTGAGTCTTATACTCCCTGAAAGAATAGGGAGTGGAC-CATTTTCTGAAGATTAT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTAT
* * * *
1428735 TCGAGTCCTATATTCCCTGAAGGAATAAGGAGTAGACACGTTT
1 TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTT
1428778 TCCAAAGTTT
Statistics
Matches: 259, Mismatches: 53, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
53 1 0.00
54 43 0.17
55 214 0.83
56 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (55 bp):
TCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTGCTGAAGATTAT
Found at i:1428695 original size:165 final size:163
Alignment explanation
Indices: 1428406--1428765 Score: 436
Period size: 165 Copynumber: 2.2 Consensus size: 163
1428396 CAAATCAAGA
* *
1428406 TCGAGTCCTATACTCCTTGAAAGAAT-AGGTAGCGGACACGTTCGTTGAAAATTATTCGAGTCCT
1 TCGAGTCCTATACTCC-TGAAAGAATAAGG-AACGGACACGTTCGGTGAAAATTATTCGAGTCCT
* * *
1428470 ATACTCCCTAAAAGAATAGGGAGCATACATATTTACTGAAGATTGTTCGAGTCCTATACTCTCTG
64 ATACTCCCTAAAAGAATAGGGAGCAGACATATTTACTAAAGATTGTTCGAGTCCTATACTCCCTG
** *
1428535 AAAGAATAGGGAGCAG-TTATGTTTGGTGAAGATTAT
129 AAAGAATAGGGAGCAGACCAT-TTT-CTGAAGATTAT
* * * * * * *
1428571 TCTAGTCCTATACTCTCTGAAAGAATAAGGAACGTACATGTTTGGTGAAGATTTTTTGAGTCCTA
1 TCGAGTCCTATACTC-CTGAAAGAATAAGGAACGGACACGTTCGGTGAAAATTATTCGAGTCCTA
* * * * *
1428636 TACTCCCTAAAAGAATAGGGAGCAGACATCTTTGCTAAATATTGTTTGAGTCTTATACTCCCTGA
65 TACTCCCTAAAAGAATAGGGAGCAGACATATTTACTAAAGATTGTTCGAGTCCTATACTCCCTGA
**
1428701 AAGAATAGGGAGTGGACCATTTTCTGAAGATTAT
130 AAGAATAGGGAGCAGACCATTTTCTGAAGATTAT
* *
1428735 TCGAGTCCTATATTCCCTGAAGGAATAAGGA
1 TCGAGTCCTATACT-CCTGAAAGAATAAGGA
1428766 GTAGACACGT
Statistics
Matches: 166, Mismatches: 25, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
164 36 0.22
165 124 0.75
166 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (163 bp):
TCGAGTCCTATACTCCTGAAAGAATAAGGAACGGACACGTTCGGTGAAAATTATTCGAGTCCTAT
ACTCCCTAAAAGAATAGGGAGCAGACATATTTACTAAAGATTGTTCGAGTCCTATACTCCCTGAA
AGAATAGGGAGCAGACCATTTTCTGAAGATTAT
Found at i:1429012 original size:2 final size:2
Alignment explanation
Indices: 1429000--1429039 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1428990 GAGCTTTACT
*
1429000 TA TA TA AA 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
1429040 CATTTACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1430152 original size:580 final size:581
Alignment explanation
Indices: 1428915--1430533 Score: 2817
Period size: 580 Copynumber: 2.8 Consensus size: 581
1428905 CCGTTGTAGA
*
1428915 TGCTCTATTCTCGTTGCACAATAATGAGCAAAGAGGTGCAGTTGTAGATGCTCGTTTTGTCCGGG
1 TGCTCTATTCTCGTTGCACAATAATGAGCAAAGAGGGGCAGTTGTAGATGCTCGTTTTGTCCGGG
1428980 GTATTTGTTCGAGCTTTACTTATATAAATATATATATATATATATATATATATATATATACATTT
66 GTATTTGTTCGAGCTTTAC-----------T-TATATA-A-ATATATATATATATATATACATTT
1429045 ACATATAATAATAATTTTTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAG
117 ACATATAATAATAATTTTTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAG
1429110 ACCAAAAATAGTTACAAAGAATGTAACATTTATTCAATCCAAGTAGAGACCCAATTTGGGAGCAA
182 ACCAAAAATAGTTACAAAGAATGTAACATTTATTCAATCCAA-TAGAGACCCAATTTGGGAGCAA
*
1429175 ACCTGGACCAATGGATCGAGTAGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGC
246 ACCTGGACCAATGGATCGAGTGGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGC
* * *
1429240 CAGCCGAGTCCCATAAGCCAGTTGCCTAACCATGCAACCGCTTTGATGTACCTATAATAAACGGG
311 CAGCCGAGTCCCATAAGCCAGTTGTCTAACCGTGCAACCGCTTTGATGTACCTGTAATAAACGGG
1429305 AAAAAGGAGGTTCTCTCAGCCATATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATC
376 AAAAAGGAGGTTCTCTCAGCCA-ATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATC
* *
1429370 GGTGTCCTATATCCCTGAAGGAATAGGGAGTAGACACGTTTTCCGAAGTTTTTTCAAGTCTCACT
440 GGCGTCCTATATCCCTGAAGGAATAGGGAGTAGACACATTTTCCGAAGTTTTTTCAAGTCTCACT
*
1429435 TATCTTAAGGTTACAGTGGAGTAGATTAATCTTTTGAAAATCTCATGGCCGGACAATCTTGACCA
505 TATCTTAAGGTTACAGTGGAGCAGATTAATCTTTTGAAAATCTCATGGCCGGACAATCTTGACCA
1429500 TCTACTAATCAT
570 TCTACTAATCAT
* * *
1429512 TGCTCTATTCTCGTTGCATAATAATGAGCATAGAGGGGCAGTTGTAGATGCTCGTTTTGTCTGGG
1 TGCTCTATTCTCGTTGCACAATAATGAGCAAAGAGGGGCAGTTGTAGATGCTCGTTTTGTCCGGG
1429577 GTATTTGTTCGAGCTTTACTTATATAAATATATATATATATATATACATTTACATATAATAATAA
66 GTATTTGTTCGAGCTTTACTTATATAAATATATATATATATATATACATTTACATATAATAATAA
*
1429642 TTTTTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAGACAAAAAATAGTTA
131 TTTTTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAGACCAAAAATAGTTA
1429707 CAAAGAATGTAACATTTATTCAATCCATATAGAGACCCAATTTGGGAGCAAACCTGGACCAATGG
196 CAAAGAATGTAACATTTATTCAATCCA-ATAGAGACCCAATTTGGGAGCAAACCTGGACCAATGG
1429772 ATCGAGTGGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGCCAGCCGAGTCCCAT
260 ATCGAGTGGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGCCAGCCGAGTCCCAT
1429837 AAGCCAGTTGTCTAACCGTGCAAACCGCTTTGATGTACCTGTAATAAACGGGAAAAAGGAGG-T-
325 AAGCCAGTTGTCTAACCGTGC-AACCGCTTTGATGTACCTGTAATAAACGGGAAAAAGGAGGTTC
1429900 TCTCAGCC-ATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATCGGCGTCCTATATCC
389 TCTCAGCCAATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATCGGCGTCCTATATCC
1429964 CTGAAGGAATAGGGAGTAGTA-ACATTTTCCGAAGTTTTTTCAAGTCTCACTTATCTTAAGGTTA
454 CTGAAGGAATAGGGAGTAG-ACACATTTTCCGAAGTTTTTTCAAGTCTCACTTATCTTAAGGTTA
*
1430028 CAGTGGAGCAGATTAATCTTTTGAAAATCTCATGGTCGGACAATCTTGACCATCTACTAATCAT
518 CAGTGGAGCAGATTAATCTTTTGAAAATCTCATGGCCGGACAATCTTGACCATCTACTAATCAT
* *
1430092 TGCTCTATTCTCGTTGCACAATAATGAGCAAAGAGGGGCAGTTGTAAATGCTCATTTTGTCCGGG
1 TGCTCTATTCTCGTTGCACAATAATGAGCAAAGAGGGGCAGTTGTAGATGCTCGTTTTGTCCGGG
1430157 GTATTTGTTCGAGCTTTAC---T-T--ATATATATATATATATATACATTTACATATAATAATAA
66 GTATTTGTTCGAGCTTTACTTATATAAATATATATATATATATATACATTTACATATAATAATAA
*
1430216 TTTGTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAGACCAAAAATAGTTA
131 TTTTTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAGACCAAAAATAGTTA
1430281 CAAAGAATGTAACATTTATTCAATCCAAATAGAGACCCAATTTGGGAGCAAACCTGGACCAATGG
196 CAAAGAATGTAACATTTATTCAATCC-AATAGAGACCCAATTTGGGAGCAAACCTGGACCAATGG
*
1430346 ATTGAGTGGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGCCAGCCGAGTCCCAT
260 ATCGAGTGGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGCCAGCCGAGTCCCAT
*
1430411 AAGCCAGTTGTCTAACCGTGCAACCGCTTTGATGTACCTGCAATAAACGGGAAAAAGGAGGTTCT
325 AAGCCAGTTGTCTAACCGTGCAACCGCTTTGATGTACCTGTAATAAACGGGAAAAAGGAGGTTCT
1430476 CTCAGCCATATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATCGGCGTCC
390 CTCAGCCA-ATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATCGGCGTCC
1430534 ATTATCATCA
Statistics
Matches: 992, Mismatches: 22, Indels: 36
0.94 0.02 0.03
Matches are distributed among these distances:
573 39 0.04
574 250 0.25
575 9 0.01
576 1 0.00
577 50 0.05
580 257 0.26
581 1 0.00
582 8 0.01
583 249 0.25
584 41 0.04
585 6 0.01
586 1 0.00
597 80 0.08
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (581 bp):
TGCTCTATTCTCGTTGCACAATAATGAGCAAAGAGGGGCAGTTGTAGATGCTCGTTTTGTCCGGG
GTATTTGTTCGAGCTTTACTTATATAAATATATATATATATATATACATTTACATATAATAATAA
TTTTTATTTTATGTTTCTAGGTTTATTACGAGGTCCAAAGGAGGATTAAAGACCAAAAATAGTTA
CAAAGAATGTAACATTTATTCAATCCAATAGAGACCCAATTTGGGAGCAAACCTGGACCAATGGA
TCGAGTGGTTGGATCCAGCAGGTGGAAATTACAATTGTTGTTCCAGATGCCAGCCGAGTCCCATA
AGCCAGTTGTCTAACCGTGCAACCGCTTTGATGTACCTGTAATAAACGGGAAAAAGGAGGTTCTC
TCAGCCAATATGGTTACTGGCAAGTTATTATGAGTTAACCAAAATAATCGGCGTCCTATATCCCT
GAAGGAATAGGGAGTAGACACATTTTCCGAAGTTTTTTCAAGTCTCACTTATCTTAAGGTTACAG
TGGAGCAGATTAATCTTTTGAAAATCTCATGGCCGGACAATCTTGACCATCTACTAATCAT
Found at i:1432212 original size:2 final size:2
Alignment explanation
Indices: 1432205--1432243 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1432195 TATAATTAAA
*
1432205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1432244 ATTTTGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1442739 original size:66 final size:66
Alignment explanation
Indices: 1442631--1442934 Score: 410
Period size: 66 Copynumber: 4.6 Consensus size: 66
1442621 TGTTTTTACA
* * * *
1442631 GAGTGATCTATACGATATTCAATTATCACTCTACCTCATGCACCCCAAAGGTACACTAGTCACAT
1 GAGTGATCTATACAATATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCACAT
1442696 C
66 C
* * * * *
1442697 GAGTGATCTGTATAGTATTCAATTATCACTCCACCTCGTGCACCACAAAGTTACACGAGTCACAT
1 GAGTGATCTATACAATATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCACAT
1442762 C
66 C
* * * *
1442763 GAGTGATCTATACAATATTCAATTATCACTCTAGCTCATGCACCACAAAGGTACATGAGTCATAT
1 GAGTGATCTATACAATATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCACAT
1442828 C
66 C
* * * *
1442829 GAGTGATATTGTACAATATTCAATTACCACTCCACCTCATGCACCACAAAGGTACACGAGTAACA
1 GAGTGAT-CTATACAATATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCACA
1442894 TC
65 TC
* * * *
1442896 AAGTGATCTATATAGTATTCAATTATCATTCCACCTCAT
1 GAGTGATCTATACAATATTCAATTATCACTCCACCTCAT
1442935 TCATCACTGA
Statistics
Matches: 204, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
66 147 0.72
67 57 0.28
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (66 bp):
GAGTGATCTATACAATATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCACAT
C
Found at i:1442907 original size:133 final size:132
Alignment explanation
Indices: 1442632--1442934 Score: 437
Period size: 133 Copynumber: 2.3 Consensus size: 132
1442622 GTTTTTACAG
* *
1442632 AGTGATCTATACGATATTCAATTATCACTCTACCTCATGCACCCCAAAGGTACACTAGTCACATC
1 AGTGATCTATACAATATTCAATTATCACTCTACCTCATGCACCACAAAGGTACACTAGTCACATC
* * * * * *
1442697 GAGTGATCTGTATAGTATTCAATTATCACTCCACCTCGTGCACCACAAAGTTACACGAGTCACAT
66 GAGTGATCTGTACAATATTCAATTACCACTCCACCTCATGCACCACAAAGGTACACGAGTAACAT
*
1442762 CG
131 CA
* *
1442764 AGTGATCTATACAATATTCAATTATCACTCTAGCTCATGCACCACAAAGGTACA-TGAGTCATAT
1 AGTGATCTATACAATATTCAATTATCACTCTACCTCATGCACCACAAAGGTACACT-AGTCACAT
*
1442828 CGAGTGATATTGTACAATATTCAATTACCACTCCACCTCATGCACCACAAAGGTACACGAGTAAC
65 CGAGTGAT-CTGTACAATATTCAATTACCACTCCACCTCATGCACCACAAAGGTACACGAGTAAC
1442893 ATCA
129 ATCA
* * * *
1442897 AGTGATCTATATAGTATTCAATTATCATTCCACCTCAT
1 AGTGATCTATACAATATTCAATTATCACTCTACCTCAT
1442935 TCATCACTGA
Statistics
Matches: 152, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.01
132 66 0.43
133 85 0.56
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (132 bp):
AGTGATCTATACAATATTCAATTATCACTCTACCTCATGCACCACAAAGGTACACTAGTCACATC
GAGTGATCTGTACAATATTCAATTACCACTCCACCTCATGCACCACAAAGGTACACGAGTAACAT
CA
Found at i:1446316 original size:14 final size:14
Alignment explanation
Indices: 1446281--1446329 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
1446271 ATTTTATCAA
1446281 GAAAAAAATGAAAAAT
1 GAAAAAAA-G-AAAAT
1446297 GAAAAAGAAGAAAAT
1 GAAAAA-AAGAAAAT
1446312 GAAAAAAAGAAAA-
1 GAAAAAAAGAAAAT
1446325 GAAAA
1 GAAAA
1446330 TTAAAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.16
14 7 0.22
15 11 0.34
16 7 0.22
17 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (14 bp):
GAAAAAAAGAAAAT
Found at i:1446324 original size:22 final size:22
Alignment explanation
Indices: 1446279--1446329 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1446269 AGATTTTATC
*
1446279 AAGAAAAAAATGAAAAATGAAA
1 AAGAAAAAAATGAAAAAAGAAA
*
1446301 AAGAAGAAAATGAAAAAA-AGAA
1 AAGAAAAAAATGAAAAAAGA-AA
1446323 AAGAAAA
1 AAGAAAA
1446330 TTAAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (22 bp):
AAGAAAAAAATGAAAAAAGAAA
Found at i:1447532 original size:115 final size:116
Alignment explanation
Indices: 1447307--1447571 Score: 345
Period size: 115 Copynumber: 2.3 Consensus size: 116
1447297 AAGGATATGG
* * * * * *
1447307 ATCAACATTTTCAAGATAGAGTTCATAATAAGAAAATCTCGTCTAAAGAAGAAGAAGTTCATAAT
1 ATCAACATTTCCAAAATAGAGTTCATAATGAGAAAATCTCGTCCAAAAAAGAAGAAATTCATAAT
* *
1447372 GAGAAGAACTTGTTCGTTCTCTTTAATCAAGTCCATCACAGAAGAAAGTAA
66 GAGAAGAACTTGTTCGTTCTATTTAATCAAGTCCATCACAAAAGAAAGTAA
* *
1447423 ATCAACATTTCCAAAATAGAGTTCGTAATGAGAATAA-CTTGTCCAAAAAAGAAGAAATTC-TAA
1 ATCAACATTTCCAAAATAGAGTTCATAATGAGAA-AATCTCGTCCAAAAAAGAAGAAATTCATAA
* * * * *
1447486 TGAGAAGAACTTGTTCGTTCTATTTAATGAAGTGCATTACAAAAGAAGGTGA
65 TGAGAAGAACTTGTTCGTTCTATTTAATCAAGTCCATCACAAAAGAAAGTAA
* * *
1447538 ATCAAAATTTCTAGAATAGAGTTCATAATGAGAA
1 ATCAACATTTCCAAAATAGAGTTCATAATGAGAA
1447572 GAAGAAGAAG
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
115 78 0.60
116 49 0.38
117 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (116 bp):
ATCAACATTTCCAAAATAGAGTTCATAATGAGAAAATCTCGTCCAAAAAAGAAGAAATTCATAAT
GAGAAGAACTTGTTCGTTCTATTTAATCAAGTCCATCACAAAAGAAAGTAA
Found at i:1447711 original size:100 final size:100
Alignment explanation
Indices: 1447471--1447777 Score: 350
Period size: 100 Copynumber: 3.0 Consensus size: 100
1447461 TTGTCCAAAA
* * * * * * *
1447471 AAGAAGAAATTC-TAATGAGAAGAACTTGTTCGTTCTATTTAATGAAGTGCATTACAAAAGAAGG
1 AAGAAGAAATTCATAATGAGAAGAACTTGTTCGTTCTCTTTACTCAAGTCCATCACAGAAGGAGG
* *
1447535 TGAATCAA-AATTTCTAGAATAGAGTTCATAATGAG
66 TGAATCAACATTTTC-AGAAGAGAGTTCATAATGAG
*
1447570 AAGAAGAAGAAGTTCATAATGAGAAGAACTTGCTT-GTTCTCTTTACTCAAGTCCATCATAGAAG
1 AAGAAG-A-AA-TTCATAATGAGAAGAACTTG-TTCGTTCTCTTTACTCAAGTCCATCACAGAAG
* *
1447634 GAGGTGGATCAACATTTTCAGAAGAAAGTTCATAATGAG
62 GAGGTGAATCAACATTTTCAGAAGAGAGTTCATAATGAG
* * * * * *
1447673 AAGAAGAATTTCATAATAAAAAGAACTTGTTCGATCTCTTTACTCAAATCCATCACAGAAGGAGA
1 AAGAAGAAATTCATAATGAGAAGAACTTGTTCGTTCTCTTTACTCAAGTCCATCACAGAAGGAGG
* * * *
1447738 TGAATCAACGTTTCCAGAAGGGAGATCATAATGAG
66 TGAATCAACATTTTCAGAAGAGAGTTCATAATGAG
1447773 AAGAA
1 AAGAA
1447778 CTCGTCAAAT
Statistics
Matches: 176, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
99 8 0.05
100 82 0.47
101 3 0.02
102 4 0.02
103 72 0.41
104 7 0.04
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.27
Consensus pattern (100 bp):
AAGAAGAAATTCATAATGAGAAGAACTTGTTCGTTCTCTTTACTCAAGTCCATCACAGAAGGAGG
TGAATCAACATTTTCAGAAGAGAGTTCATAATGAG
Found at i:1447996 original size:3 final size:3
Alignment explanation
Indices: 1447990--1448056 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
1447980 ATTTTTTGCC
* * * * * * *
1447990 TTA TTA TTA TTA TTA TTG TTG TTG TTG TTG TTG TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1448038 TTA CTA ATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
1448057 ACTAAAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1449357 original size:21 final size:21
Alignment explanation
Indices: 1449333--1449372 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1449323 AATATTTGTT
1449333 ATTTTCATT-TTTACCATTTAA
1 ATTTTCATTATTTA-CATTTAA
*
1449354 ATTTTTATTATTTACATTT
1 ATTTTCATTATTTACATTT
1449373 CTACCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTCATTATTTACATTTAA
Found at i:1449396 original size:31 final size:31
Alignment explanation
Indices: 1449297--1449406 Score: 120
Period size: 30 Copynumber: 3.6 Consensus size: 31
1449287 ATAATTTTAA
*
1449297 TTTT-TTATTTACATTTC-ACCCCTTTAAAT
1 TTTTGTTATTTACATTTCTACCCATTTAAAT
* * *
1449326 ATTTGTTATTTTCATTTTTA-CCATTTAAAT
1 TTTTGTTATTTACATTTCTACCCATTTAAAT
* * *
1449356 TTTTATTATTTACATTTCTACCCTTTTATAT
1 TTTTGTTATTTACATTTCTACCCATTTAAAT
1449387 TTTTGTTATTTTA-ATTTCTA
1 TTTTGTTA-TTTACATTTCTA
1449407 TTTTTTAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
29 3 0.05
30 36 0.55
31 23 0.35
32 4 0.06
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.61
Consensus pattern (31 bp):
TTTTGTTATTTACATTTCTACCCATTTAAAT
Found at i:1449417 original size:60 final size:59
Alignment explanation
Indices: 1449290--1449406 Score: 155
Period size: 61 Copynumber: 2.0 Consensus size: 59
1449280 TTATTCGATA
* *
1449290 ATTTTAA-TTTTTTATTTACATTTCACCCCTTTAAATATTTGTTATTTTCATTTTTACC
1 ATTTTAATTTTTTTATTTACATTTCACCCCTTTAAATATTTGTTATTTTAATTTCTACC
* * * *
1449348 ATTTAAATTTTTATTATTTACATTTCTACCCTTTTATATTTTTGTTATTTTAATTTCTA
1 ATTTTAATTTTT-TTATTTACATTTC-ACCCCTTTAAATATTTGTTATTTTAATTTCTA
1449407 TTTTTTAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
58 6 0.12
59 4 0.08
60 13 0.26
61 27 0.54
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.61
Consensus pattern (59 bp):
ATTTTAATTTTTTTATTTACATTTCACCCCTTTAAATATTTGTTATTTTAATTTCTACC
Found at i:1451721 original size:21 final size:20
Alignment explanation
Indices: 1451695--1451927 Score: 158
Period size: 21 Copynumber: 11.3 Consensus size: 20
1451685 ATTTTGGACT
*
1451695 ATCGCAACGAATTTGGAATA
1 ATCGCAACGAACTTGGAATA
* *
1451715 CATCGCAACGCGAACTTCGACT-
1 -ATCGCAA--CGAACTTGGAATA
1451737 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
*
1451758 ATCGCAACGCGAACTTGGACT-
1 ATCGCAA--CGAACTTGGAATA
*
1451779 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
* *
1451800 ATCGCAACGAGAACTTTGACT-
1 ATCGCAAC--GAACTTGGAATA
1451821 ATCGCAACGAACTT-GAACT-
1 ATCGCAACGAACTTGGAA-TA
* *
1451840 ATTGCAACGCGAACTTGGACT-
1 ATCGCAA--CGAACTTGGAATA
*
1451861 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
* *
1451882 ATAGCAATGCGAACTTGGACT-
1 ATCGCAA--CGAACTTGGAATA
*
1451903 ATCGCAACGAATTTGGAA-A
1 ATCGCAACGAACTTGGAATA
1451922 ATCGCA
1 ATCGCA
1451928 TTGTGATAGT
Statistics
Matches: 170, Mismatches: 23, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
18 2 0.01
19 58 0.34
21 70 0.41
22 2 0.01
23 38 0.22
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAACTTGGAATA
Found at i:1451738 original size:42 final size:42
Alignment explanation
Indices: 1451688--1451927 Score: 355
Period size: 42 Copynumber: 5.8 Consensus size: 42
1451678 CGTTGTGATT
*
1451688 TTGGACTATCGCAACGAATTTGGAATACATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
1451730 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
1451772 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * *
1451814 TTTGACTATCGCAACGAACTT-GAACT--ATTGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAA-TAAATCGCAACGCGAAC
* *
1451854 TTGGACTATCGCAACGAATTTGGAATAAATAGCAATGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1451896 TTGGACTATCGCAACGAATTTGG-A-AAATCGCA
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCA
1451928 TTGTGATAGT
Statistics
Matches: 179, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
40 39 0.22
41 7 0.04
42 133 0.74
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:1451956 original size:21 final size:21
Alignment explanation
Indices: 1451923--1451975 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1451913 ATTTGGAAAA
* *
1451923 TCGCATTGTGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
1451944 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
*
1451965 TTGCGTTGCGA
1 TCGCGTTGCGA
1451976 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:1452172 original size:27 final size:28
Alignment explanation
Indices: 1452119--1452181 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
1452109 GGTTATTTTC
1452119 TCTTTATATTAATTAATATATTATATAT
1 TCTTTATATTAATTAATATATTATATAT
*
1452147 T-TTTATATTAATTCCAAT-TCTT-TATAT
1 TCTTTATATTAATT--AATATATTATATAT
1452174 TCTTTATA
1 TCTTTATA
1452182 ATTCTTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 18 0.58
28 10 0.32
29 3 0.10
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (28 bp):
TCTTTATATTAATTAATATATTATATAT
Found at i:1452838 original size:23 final size:23
Alignment explanation
Indices: 1452794--1452849 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
1452784 AATCGACAAG
* *
1452794 CATCACTGTATCAAATCCGCAAA
1 CATCACTGCATCAAATCAGCAAA
* * *
1452817 CATCATTGCATCAATTCAGCAAG
1 CATCACTGCATCAAATCAGCAAA
1452840 CATC-CTGCAT
1 CATCACTGCAT
1452850 TCGGAAAGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (23 bp):
CATCACTGCATCAAATCAGCAAA
Found at i:1454702 original size:111 final size:112
Alignment explanation
Indices: 1454476--1454702 Score: 291
Period size: 111 Copynumber: 2.0 Consensus size: 112
1454466 GTTTGGGGAA
*
1454476 GAACACGGATGAACAAGGGTTTGATTTTTGGGTGTTTAATCGAAAAAAACATGATTGGGTTTAGG
1 GAACACGGATGAACAAGGGTTTGATTTTTGGGTGTTTAATCGAAAAAAACA-GAATGGGTTTAGG
** *
1454541 TTTTGGTGTTTGTAAAGATCAAATAATGGTTTGGGGAAGAACCGAGAT
65 TTTTGGAATTTGTAAAGATCAAATAAGGGTTTGGGGAAGAACCGAGAT
* * *
1454589 GAACACGGATGAACAATGG-TTGAATTTTTGGGTGTTTGATCGAAAAAAAC-GAAAT-GGTTTGG
1 GAACACGGATGAACAAGGGTTTG-ATTTTTGGGTGTTTAATCGAAAAAAACAG-AATGGGTTTAG
* * * *
1454651 GTTTTTGAATTTGTGAAGATCAAATAAGGGTTTTGGGATGAACACGA-AT
64 GTTTTGGAATTTGTAAAGATCAAATAAGGGTTTGGGGAAGAAC-CGAGAT
1454700 GAA
1 GAA
1454703 AAAAGATGAA
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
111 48 0.48
112 8 0.08
113 44 0.44
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (112 bp):
GAACACGGATGAACAAGGGTTTGATTTTTGGGTGTTTAATCGAAAAAAACAGAATGGGTTTAGGT
TTTGGAATTTGTAAAGATCAAATAAGGGTTTGGGGAAGAACCGAGAT
Found at i:1454993 original size:60 final size:61
Alignment explanation
Indices: 1454921--1455055 Score: 184
Period size: 60 Copynumber: 2.2 Consensus size: 61
1454911 CCTAGTTTTC
* *
1454921 AATTTGTTCAATTTAGTCCAAATATAATGATGC-AATGCATTAGTTTAAGCTT-ATATTTAA
1 AATTTGTTCAATTTAGTCCAAATATAAT-ATGCTAATGCATTAATGTAAGCTTCATATTTAA
* * ** *
1454981 AATTTGTTCAATTTAGTCCAAATTTAATATTCTAATTTATTAATGTATGCTTCATATTTAA
1 AATTTGTTCAATTTAGTCCAAATATAATATGCTAATGCATTAATGTAAGCTTCATATTTAA
1455042 AATTTGTTCAATTT
1 AATTTGTTCAATTT
1455056 GATCCTTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 3 0.05
60 41 0.62
61 22 0.33
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.47
Consensus pattern (61 bp):
AATTTGTTCAATTTAGTCCAAATATAATATGCTAATGCATTAATGTAAGCTTCATATTTAA
Found at i:1455151 original size:25 final size:25
Alignment explanation
Indices: 1455083--1455186 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
1455073 CAATTCTTTC
1455083 AATTAATATATATGTTTATATTAATA
1 AATTAATATATA-GTTTATATTAATA
*
1455109 AATTAATATATACTTTATATTAATA
1 AATTAATATATAGTTTATATTAATA
1455134 AATTAATATATAGGTTATATATACTAATGA
1 AATTAATATATA-GTT-TATAT--TAAT-A
1455164 ACTATATAATATATAGTTTATAT
1 A--AT-TAATATATAGTTTATAT
1455187 ATACTAATGA
Statistics
Matches: 68, Mismatches: 2, Indels: 11
0.84 0.02 0.14
Matches are distributed among these distances:
25 24 0.35
26 14 0.21
27 5 0.07
29 4 0.06
30 2 0.03
31 5 0.07
32 5 0.07
33 9 0.13
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (25 bp):
AATTAATATATAGTTTATATTAATA
Found at i:1455178 original size:33 final size:33
Alignment explanation
Indices: 1455137--1455223 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
1455127 ATTAATAAAT
*
1455137 TAATATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
1455170 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
1455203 TAATATATTA-TTTATATATAC
1 TAATATA-TAGTTTATATATAC
1455224 CATTTAGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
33 50 0.96
34 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:1455382 original size:22 final size:21
Alignment explanation
Indices: 1455360--1455417 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
1455350 TACTTTGAAT
1455360 TTATATATTATAAATTATAAA
1 TTATATATTATAAATTATAAA
*
1455381 TTATATAAGTATAAATTAT--A
1 TTATAT-ATTATAAATTATAAA
1455401 TTATATAATATATAAAT
1 TTATAT-AT-TATAAAT
1455418 ATCAACTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.27
21 13 0.39
22 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATATATTATAAATTATAAA
Found at i:1455393 original size:15 final size:15
Alignment explanation
Indices: 1455361--1455401 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1455351 ACTTTGAATT
* *
1455361 TATATATTATA-AAT
1 TATAAATTATATAAG
1455375 TATAAATTATATAAG
1 TATAAATTATATAAG
1455390 TATAAATTATAT
1 TATAAATTATAT
1455402 TATATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TATAAATTATATAAG
Found at i:1455403 original size:27 final size:27
Alignment explanation
Indices: 1455373--1455486 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
1455363 TATATTATAA
* *
1455373 ATTATA-AATTATATAAGTATAAATTAT
1 ATTATATAA-TATATAAATATAAACTAT
*
1455400 ATTATATAATATATAAATATCAACTAT
1 ATTATATAATATATAAATATAAACTAT
* **
1455427 AGTATATAATATATAAATACCAACTAT
1 ATTATATAATATATAAATATAAACTAT
* * * * *
1455454 AGTATATAGTTTATATATATATA-TAT
1 ATTATATAATATATAAATATAAACTAT
1455480 A-TATATA
1 ATTATATA
1455487 GTTTTTATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.08
26 4 0.05
27 63 0.84
28 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (27 bp):
ATTATATAATATATAAATATAAACTAT
Found at i:1455415 original size:7 final size:7
Alignment explanation
Indices: 1455361--1455442 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
1455351 ACTTTGAATT
*
1455361 TATATAT
1 TATATAA
1455368 TATA-AA
1 TATATAA
1455374 T-TATAAA
1 TATAT-AA
1455381 TTATATAA
1 -TATATAA
1455389 GTATA-AA
1 -TATATAA
*
1455396 T-TATAT
1 TATATAA
1455402 TATATAA
1 TATATAA
1455409 TATATAA
1 TATATAA
1455416 -ATATCAA
1 TATAT-AA
* *
1455423 -CTATAG
1 TATATAA
1455429 TATATAA
1 TATATAA
1455436 TATATAA
1 TATATAA
1455443 ATACCAACTA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 10 0.17
7 35 0.59
8 7 0.12
9 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:1455488 original size:25 final size:26
Alignment explanation
Indices: 1455451--1455499 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
1455441 AAATACCAAC
1455451 TATAGTATATAGTTTATATATATATA
1 TATAGTATATAGTTTATATATATATA
*
1455477 TATA-TATATAGTTTTTATATATA
1 TATAGTATATAGTTTATATATATA
1455500 GTTATGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
TATAGTATATAGTTTATATATATATA
Found at i:1455677 original size:24 final size:24
Alignment explanation
Indices: 1455632--1455689 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
1455622 TGCAAACATA
*
1455632 TTTTTGAAAACATATGTAATATAG
1 TTTTTGAAAACATATATAATATAG
1455656 TTTTTGAAAACATATAATATATATA-
1 TTTTTGAAAACATAT-ATA-ATATAG
1455681 TTTTT-AAAA
1 TTTTTGAAAA
1455690 TGATTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 19 0.61
25 7 0.23
26 5 0.16
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (24 bp):
TTTTTGAAAACATATATAATATAG
Found at i:1455700 original size:36 final size:39
Alignment explanation
Indices: 1455657--1455758 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 39
1455647 GTAATATAGT
1455657 TTTTGAAAACATATAATATATATATTTTT-AA-A-ATGA
1 TTTTGAAAACATATAATATATATATTTTTAAACATATGA
*
1455693 TTTTGAAAACATAT-ATA-ATATAGTTTTTGAAAACATATTA
1 TTTTGAAAACATATAATATATATA-TTTTT--AAACATATGA
1455733 TTTTGAAAACATATATATATATATAT
1 TTTTGAAAACATATA-ATATATATAT
1455759 AGTTTTTCTT
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
34 5 0.09
35 8 0.14
36 14 0.25
38 2 0.04
39 1 0.02
40 17 0.30
42 4 0.07
43 5 0.09
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (39 bp):
TTTTGAAAACATATAATATATATATTTTTAAACATATGA
Found at i:1455902 original size:24 final size:25
Alignment explanation
Indices: 1455869--1455915 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
1455859 TTAATACATA
1455869 TTTTACTTTTCATTT-TTATATTTCT
1 TTTTACTTTT-ATTTATTATATTTCT
*
1455894 TTTTA-TTTTATTTATTTTATTT
1 TTTTACTTTTATTTATTATATTT
1455916 TATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTACTTTTATTTATTATATTTCT
Found at i:1455909 original size:19 final size:18
Alignment explanation
Indices: 1455874--1455922 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1455864 ACATATTTTA
*
1455874 CTTTTCATTTTTATATTT
1 CTTTTTATTTTTATATTT
*
1455892 CTTTTTATTTTATTTATTT
1 CTTTTTATTTT-TATATTT
1455911 -TATTTTATTTTT
1 CT-TTTTATTTTT
1455923 TTCAGGTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
CTTTTTATTTTTATATTT
Found at i:1455913 original size:14 final size:13
Alignment explanation
Indices: 1455893--1455924 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
1455883 TTTATATTTC
1455893 TTTTTATTTTATT
1 TTTTTATTTTATT
1455906 TATTTTATTTTATT
1 T-TTTTATTTTATT
1455920 TTTTT
1 TTTTT
1455925 CAGGTCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:1458547 original size:22 final size:22
Alignment explanation
Indices: 1458504--1458546 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1458494 CTAATTTGTT
* *
1458504 TTCTTTCATTTTCTTCATTTTA
1 TTCTTTCATTTGCATCATTTTA
1458526 TTCTTATCATTTGCATCATTT
1 TTCTT-TCATTTGCATCATTT
1458547 AAAGAGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.19, G:0.02, T:0.63
Consensus pattern (22 bp):
TTCTTTCATTTGCATCATTTTA
Found at i:1461161 original size:24 final size:24
Alignment explanation
Indices: 1461134--1461197 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
1461124 TCATGCACTG
*
1461134 CAAAAGCACAAGCTTCATCTGCCA
1 CAAAAGCACAAGCTTCATCTACCA
* * * **
1461158 CAAAGGCACAAGTTTCGTCTACTG
1 CAAAAGCACAAGCTTCATCTACCA
*
1461182 TAAAAGCACAAGCTTC
1 CAAAAGCACAAGCTTC
1461198 TGTAACTAAC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (24 bp):
CAAAAGCACAAGCTTCATCTACCA
Found at i:1467149 original size:12 final size:11
Alignment explanation
Indices: 1467129--1467185 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
1467119 TTTTTTACAT
1467129 TATATAATATA
1 TATATAATATA
1467140 TATGATAATATA
1 TAT-ATAATATA
1467152 TATATAATA-A
1 TATATAATATA
*
1467162 T-T-TCAA-AAA
1 TATAT-AATATA
1467171 TATATAATATA
1 TATATAATATA
1467182 TATA
1 TATA
1467186 GTTTTTGAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
8 2 0.05
9 5 0.13
10 5 0.13
11 16 0.41
12 11 0.28
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TATATAATATA
Found at i:1467157 original size:23 final size:20
Alignment explanation
Indices: 1467129--1467184 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 20
1467119 TTTTTTACAT
*
1467129 TATATAATATATATGATAATATA
1 TATATAATATATATCA-AA-A-A
*
1467152 TATATAATA-ATTTCAAAAA
1 TATATAATATATATCAAAAA
1467171 TATATAATATATAT
1 TATATAATATATAT
1467185 AGTTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.34
20 4 0.14
21 2 0.07
22 4 0.14
23 9 0.31
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TATATAATATATATCAAAAA
Found at i:1467206 original size:20 final size:19
Alignment explanation
Indices: 1467177--1467214 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1467167 AAAATATATA
1467177 ATATATATAGTTTTTGAAG
1 ATATATATAGTTTTTGAAG
1467196 ATATAATATAGTTTTTGAA
1 ATAT-ATATAGTTTTTGAA
1467215 AACATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (19 bp):
ATATATATAGTTTTTGAAG
Found at i:1467241 original size:2 final size:2
Alignment explanation
Indices: 1467234--1467258 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1467224 TTTTGAAAAC
1467234 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 A
1467259 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1467261 original size:53 final size:50
Alignment explanation
Indices: 1467196--1467305 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 50
1467186 GTTTTTGAAG
*
1467196 ATATAATATAGTTTTT-GAAAACAT-ATTATTTTGAAAACA-TATATATATATAT
1 ATATAATATAGTTTTTAAAAAAC-TGA-T-TTTTGAAAA-AGTATATA-ATATAT
1467248 ATATATATATAGTTTTTAAAAAACTGATTTTTGAAAAAGTATATAATATAT
1 ATATA-ATATAGTTTTTAAAAAACTGATTTTTGAAAAAGTATATAATATAT
1467299 ATATAAT
1 ATATAAT
1467306 CTTTGAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
50 2 0.04
51 12 0.23
52 20 0.38
53 13 0.25
54 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (50 bp):
ATATAATATAGTTTTTAAAAAACTGATTTTTGAAAAAGTATATAATATAT
Found at i:1467350 original size:23 final size:22
Alignment explanation
Indices: 1467292--1467344 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1467282 AAAAGTATAT
* *
1467292 AATATA-TATATAATCTTTGAA
1 AATATATTATATTATTTTTGAA
1467313 AATATATTATATTATTTTTG-A
1 AATATATTATATTATTTTTGAA
1467334 AATATATTATA
1 AATATATTATA
1467345 AATTATATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AATATATTATATTATTTTTGAA
Found at i:1467387 original size:13 final size:12
Alignment explanation
Indices: 1467369--1467402 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
1467359 AATACATATA
1467369 TTTTATTTTTCAT
1 TTTTATTTTTC-T
*
1467382 TTTTATCTTTCT
1 TTTTATTTTTCT
1467394 TTTTATTTT
1 TTTTATTTT
1467403 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTCT
Found at i:1469355 original size:20 final size:20
Alignment explanation
Indices: 1469310--1469405 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
1469300 ATCAACTATT
*
1469310 GTATATAGTATATA-ATTATA
1 GTATATAGTTTATATA-TATA
**
1469330 AAATATAGTTTATATATATA
1 GTATATAGTTTATATATATA
* * * *
1469350 GTATATACTATATAAATAGA
1 GTATATAGTTTATATATATA
* * * *
1469370 TTATATAGTTCATATGTAAA
1 GTATATAGTTTATATATATA
*
1469390 CTATATAGTTTATATA
1 GTATATAGTTTATATA
1469406 GTTGATATAT
Statistics
Matches: 56, Mismatches: 19, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
20 55 0.98
21 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (20 bp):
GTATATAGTTTATATATATA
Found at i:1469384 original size:29 final size:28
Alignment explanation
Indices: 1469344--1469418 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
1469334 ATAGTTTATA
1469344 TATATAG-TATATACTATA-TAAATAGAT
1 TATATAGTTATATA-TATACTAAATAGAT
* * * *
1469371 TATATAGTTCATATGTAAACTATATAGTT
1 TATATAGTT-ATATATATACTAAATAGAT
1469400 TATATAGTTGATATATATA
1 TATATAGTT-ATATATATA
1469419 GTTCATATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 7 0.18
28 4 0.11
29 27 0.71
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (28 bp):
TATATAGTTATATATATACTAAATAGAT
Found at i:1469404 original size:82 final size:80
Alignment explanation
Indices: 1469311--1469464 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 80
1469301 TCAACTATTG
* *
1469311 TATATAGTATATAATT-ATAAAATATAGTTTATATATATAGTATATACTATATAAATAGATTATA
1 TATATAGTATATAATTGAT-AAATATAGTTCATATATATAATATATACTATATAAATAGATTATA
1469375 TAGTTCATATGTAAAC
65 TAGTTCATATGTAAAC
* * * * *
1469391 TATATAGTTTATATAGTTGATATATATAGTTCATATGTGTAATATATACTATATAAATAGTTTAT
1 TATATAG--TATATAATTGATAAATATAGTTCATATATATAATATATACTATATAAATAGATTAT
1469456 ATAGTTCAT
64 ATAGTTCAT
1469465 TAATAAATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 7 0.11
82 55 0.86
83 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (80 bp):
TATATAGTATATAATTGATAAATATAGTTCATATATATAATATATACTATATAAATAGATTATAT
AGTTCATATGTAAAC
Found at i:1469435 original size:20 final size:19
Alignment explanation
Indices: 1469371--1469438 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 19
1469361 ATAAATAGAT
*
1469371 TATATAGTTCATATGTAAA
1 TATATAGTTCATATGTTAA
*
1469390 CTATATAGTTTATATAGTTGATA
1 -TATATAGTTCATAT-GTT-A-A
1469413 TATATAGTTCATATGTGTAA
1 TATATAGTTCATATGT-TAA
1469433 TATATA
1 TATATA
1469439 CTATATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 20 0.49
21 5 0.12
22 15 0.37
23 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (19 bp):
TATATAGTTCATATGTTAA
Found at i:1469437 original size:33 final size:30
Alignment explanation
Indices: 1469400--1469492 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 30
1469390 CTATATAGTT
1469400 TATATAGTTGATATATATAGTTCATATGTGTAA
1 TATATA-TT-ATATATATAGTTCATATGT-TAA
* * * *
1469433 TATATACTATATAAATAGTTTATATAGTTCAT
1 TATATATTATATATATAGTTCATAT-GTT-AA
*
1469465 TAATAAATTATATATATAGTTCATATGT
1 T-ATATATTATATATATAGTTCATATGT
1469493 AAACCACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
31 16 0.33
32 7 0.14
33 26 0.53
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (30 bp):
TATATATTATATATATAGTTCATATGTTAA
Found at i:1469457 original size:42 final size:41
Alignment explanation
Indices: 1469332--1469458 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 41
1469322 TAATTATAAA
* * * *
1469332 ATATAGTTTATATATATAGTATATACTATATAAATAG-AT-T
1 ATATAGTTCATATGT-TAATATATACTATATAAATAGTTTAT
* * *
1469372 ATATAGTTCATATGTAAACTATATAGT-T-TATATAGTTGATAT
1 ATATAGTTCATATGTTAA-TATATACTATATAAATAGTT--TAT
1469414 ATATAGTTCATATGTGTAATATATACTATATAAATAGTTTAT
1 ATATAGTTCATATGT-TAATATATACTATATAAATAGTTTAT
1469456 ATA
1 ATA
1469459 GTTCATTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
38 6 0.09
39 2 0.03
40 20 0.29
41 1 0.01
42 29 0.42
43 3 0.04
44 8 0.12
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (41 bp):
ATATAGTTCATATGTTAATATATACTATATAAATAGTTTAT
Found at i:1469478 original size:42 final size:41
Alignment explanation
Indices: 1469351--1469480 Score: 104
Period size: 42 Copynumber: 3.1 Consensus size: 41
1469341 ATATATATAG
* * *
1469351 TATATACTATATAAATAGATTATATAGTTCATATGTAAACTA
1 TATATACTATATAAATAGTTTATATAGTTCATA-ATAAATTA
* * * * *** *
1469393 TATAGT-TTATAT-AGTTGATATATATAGTTCAT-ATGTGTAA
1 TATA-TACTATATAAATAG-TTTATATAGTTCATAATAAATTA
1469433 TATATACTATATAAATAGTTTATATAGTTCATTAATAAATTA
1 TATATACTATATAAATAGTTTATATAGTTCA-TAATAAATTA
1469475 TATATA
1 TATATA
1469481 TAGTTCATAT
Statistics
Matches: 63, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
39 1 0.02
40 23 0.37
41 7 0.11
42 31 0.49
43 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (41 bp):
TATATACTATATAAATAGTTTATATAGTTCATAATAAATTA
Found at i:1469529 original size:9 final size:9
Alignment explanation
Indices: 1469513--1469555 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
1469503 ACTATATATA
1469513 TTATATAGT
1 TTATATAGT
*
1469522 TTACATAGT
1 TTATATAGT
1469531 ATATATATAGT
1 -T-TATATAGT
*
1469542 GTATATAGT
1 TTATATAGT
1469551 TTATA
1 TTATA
1469556 CATATAGCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 20 0.71
10 1 0.04
11 7 0.25
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (9 bp):
TTATATAGT
Found at i:1469539 original size:20 final size:20
Alignment explanation
Indices: 1469509--1469555 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1469499 CTAAACTATA
*
1469509 TATATTATATAGTTTACATAG
1 TATA-TATATAGTGTACATAG
*
1469530 TATATATATAGTGTATATAG
1 TATATATATAGTGTACATAG
*
1469550 TTTATA
1 TATATA
1469556 CATATAGCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (20 bp):
TATATATATAGTGTACATAG
Found at i:1469687 original size:20 final size:20
Alignment explanation
Indices: 1469514--1469688 Score: 69
Period size: 20 Copynumber: 8.7 Consensus size: 20
1469504 CTATATATAT
* *
1469514 TATATAGTTTACATAGTATA
1 TATATAGTTTATATAGTTTA
*
1469534 TATATAGTGTATATAGTTTA
1 TATATAGTTTATATAGTTTA
* * **
1469554 TACATATAGCTCATAT-GTAAA
1 T--ATATAGTTTATATAGTTTA
* * *
1469575 CTATAGAGTATATTTA-TTTCA
1 -TATATAGTTTATATAGTTT-A
* **
1469596 TATGTAAATTATATAG--TA
1 TATATAGTTTATATAGTTTA
* *
1469614 TATATAGTTTACATA--TAA
1 TATATAGTTTATATAGTTTA
1469632 TATA-AGTTAGTATATATTGTTTA
1 TATATAGTT--TATATA--GTTTA
*
1469655 TATATA-TACTATATAGTTTA
1 TATATAGT-TTATATAGTTTA
1469675 TATATAGTTTATAT
1 TATATAGTTTATAT
1469689 TAAAAACCAT
Statistics
Matches: 109, Mismatches: 30, Indels: 32
0.64 0.18 0.19
Matches are distributed among these distances:
17 4 0.04
18 17 0.16
19 6 0.06
20 52 0.48
21 5 0.05
22 17 0.16
23 7 0.06
24 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
TATATAGTTTATATAGTTTA
Found at i:1469707 original size:32 final size:32
Alignment explanation
Indices: 1469642--1469722 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
1469632 TATAAGTTAG
* * * * *
1469642 TATATATTGTTTATA-TATATACTATATAGTT
1 TATATATAGTTTATATTAAAAACCATATAATT
1469673 TATATATAGTTTATATTAAAAACCATATAATT
1 TATATATAGTTTATATTAAAAACCATATAATT
* *
1469705 TATACATAGTATATATTA
1 TATATATAGTTTATATTA
1469723 TTTATAACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 14 0.33
32 28 0.67
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (32 bp):
TATATATAGTTTATATTAAAAACCATATAATT
Found at i:1469792 original size:13 final size:11
Alignment explanation
Indices: 1469762--1469938 Score: 83
Period size: 11 Copynumber: 17.0 Consensus size: 11
1469752 AGTTGCAGAG
1469762 TTTATATATAA
1 TTTATATATAA
*
1469773 TTCATATATAA
1 TTTATATATAA
1469784 TTTATATATAA
1 TTTATATATAA
1469795 ---ACTATATAA
1 TTTA-TATATAA
1469804 TTTATAT-TAA
1 TTTATATATAA
** *
1469814 TAAACTATGTAA
1 TTTA-TATATAA
1469826 TTTATATAT-A
1 TTTATATATAA
* * *
1469836 GTT-CA-ATAG
1 TTTATATATAA
*
1469845 TTCATATATAA
1 TTTATATATAA
**
1469856 AATAT-TATAA
1 TTTATATATAA
1469866 TTTATATAT-A
1 TTTATATATAA
* *
1469876 -GTATATATAG
1 TTTATATATAA
1469886 TTTATATAT-A
1 TTTATATATAA
* * *
1469896 TATACATATAG
1 TTTATATATAA
1469907 TTTATATAT-A
1 TTTATATATAA
1469917 -TTATATAATAA
1 TTTATAT-ATAA
* *
1469928 TATAAATATAA
1 TTTATATATAA
1469939 ACTATATAAT
Statistics
Matches: 119, Mismatches: 31, Indels: 32
0.65 0.17 0.18
Matches are distributed among these distances:
8 3 0.03
9 22 0.18
10 27 0.23
11 57 0.48
12 10 0.08
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (11 bp):
TTTATATATAA
Found at i:1469853 original size:2 final size:2
Alignment explanation
Indices: 1469848--1469959 Score: 58
Period size: 2 Copynumber: 57.5 Consensus size: 2
1469838 TCAATAGTTC
* * *
1469848 AT AT AT A- AA AT AT -T AT A- AT TT AT AT AT AGT AT AT AT AGT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT
* *
1469889 AT AT AT AT AT AC AT AT AGT TT AT AT AT AT -T AT AT A- AT A- AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1469929 AT AA AT AT AA ACT AT AT A- AT TT CT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
1469960 GTTGTTTTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
1 7 0.08
2 71 0.86
3 5 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1469894 original size:62 final size:61
Alignment explanation
Indices: 1469762--1469962 Score: 151
Period size: 62 Copynumber: 3.2 Consensus size: 61
1469752 AGTTGCAGAG
* * * * *
1469762 TTTATATATAATTCATATATAATTTATATATAAACTA-TATAATTTATAT-TA-ATAAACTATGT
1 TTTATATATAGTTC--ATATAGTTCATATATAAAATATTATAATTTATATATATATATA-TA-GT
1469824 AATTTATATATAGTTCA-ATAGTTCATATATAAAATATTATAATTTATATATAGTATATATAGT
1 --TTTATATATAGTTCATATAGTTCATATATAAAATATTATAATTTATATATA-TATATATAGT
* * ** * * * * *
1469887 TTATATATATA-TACATATAGTTTATATATATTATATAATAATATAAATATAAACTATATAAT
1 TT-TATATATAGTTCATATAGTTCATATATAAAATATTATAATTTATATATATA-TATATAGT
1469949 TTCTATATATAGTT
1 TT-TATATATAGTT
1469963 GTTTTAATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
61 22 0.19
62 67 0.59
63 5 0.04
64 15 0.13
65 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (61 bp):
TTTATATATAGTTCATATAGTTCATATATAAAATATTATAATTTATATATATATATATAGT
Found at i:1469905 original size:30 final size:29
Alignment explanation
Indices: 1469871--1469959 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 29
1469861 TATAATTTAT
*
1469871 ATATAGTATATATAGTTTATATATATATAC
1 ATATAGTATATATA-TTTATATATATATAA
*
1469901 ATATAGTTTATATATATTATATAATAATATAA
1 ATATAGTATATATAT-TTATAT-AT-ATATAA
* *
1469933 ATATA-AACTATATAATTTCTATATATA
1 ATATAGTA-TATAT-ATTTATATATATA
1469960 GTTGTTTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
29 1 0.02
30 22 0.45
31 4 0.08
32 20 0.41
33 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (29 bp):
ATATAGTATATATATTTATATATATATAA
Found at i:1472801 original size:16 final size:17
Alignment explanation
Indices: 1472769--1472801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1472759 TAAAGATACA
*
1472769 TTTAAAAATGCTACTGT
1 TTTAAAAATGATACTGT
1472786 TTTAAAAATGAT-CTGT
1 TTTAAAAATGATACTGT
1472802 ACGTTTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTAAAAATGATACTGT
Found at i:1480367 original size:2 final size:2
Alignment explanation
Indices: 1480360--1480394 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1480350 TTTCATTCGG
1480360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1480395 GAGACTCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1487957 original size:20 final size:20
Alignment explanation
Indices: 1487910--1487958 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1487900 TGATTGTCTA
1487910 AAAGTT-CATTTAGGATCAT
1 AAAGTTGCATTTAGGATCAT
*
1487929 AAAGATGCATTTAGGAGT-AT
1 AAAGTTGCATTTAGGA-TCAT
*
1487949 ATAGTTGCAT
1 AAAGTTGCAT
1487959 GTGGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 19 0.76
21 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (20 bp):
AAAGTTGCATTTAGGATCAT
Found at i:1494980 original size:33 final size:33
Alignment explanation
Indices: 1494918--1494994 Score: 77
Period size: 33 Copynumber: 2.3 Consensus size: 33
1494908 AATAATTATT
* *
1494918 AATTAATAATTAGTATTATTAGTATTATTAAAA
1 AATTAATAATTAGTATTATCAGTACTATTAAAA
**
1494951 AATTAATAGATTAGTCATTATCA-T-CTATTAGTA
1 AATTAATA-ATTAGT-ATTATCAGTACTATTAAAA
*
1494984 GATTAATAATT
1 AATTAATAATT
1494995 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
32 3 0.08
33 21 0.57
34 7 0.19
35 6 0.16
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (33 bp):
AATTAATAATTAGTATTATCAGTACTATTAAAA
Found at i:1496118 original size:3 final size:3
Alignment explanation
Indices: 1496110--1496149 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
1496100 GTATTTACCA
* *
1496110 AAT AAT AAT AAT AAT ATT ATT AAT AAT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
1496150 TACAAATGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1505942 original size:137 final size:137
Alignment explanation
Indices: 1505441--1507081 Score: 1472
Period size: 137 Copynumber: 11.8 Consensus size: 137
1505431 AATGAAATAA
* *
1505441 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCTTCTACTGACCAGATCT
1 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * * ** *
1505506 CCTCATCACGTAGGAGTTGTGTCATCCTTAGATAACCAA-AATTCATCATCATGAAAGAATC-GT
66 CCTCATCACGAAGGAGTCGCGTCATCCTTAGATAA-CAAGAATTCCTCATCGCGAAGGAA-CAGT
*
1505569 GTTATCTCT
129 GTTATCTCC
* * * *
1505578 ATTATCAAAAAAATATGGCCAGACGTCCTCATTACGAAGGAACAATATCATCTACCAACCAGATC
1 ATTAT-AAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATC
* * * * * * * * *
1505643 TCTTGATCACGTACGAGTCGCATCATCCTTAGATAACTAGAATTCCTTATCGCGAAGGAACCGTC
65 TCCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGTG
1505708 TTATCTCC
130 TTATCTCC
* * * * *
1505716 ATTATAAAAAAAAAGAAACATGGCCAGACGTCCTCATCGCGAATGAGCATTGTCATCTACCGACT
1 ATTAT--AAAAAAAG----ATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACC
* * * *
1505781 AGATCTCATCATCACGTAGGAGTCGCGTCATCCTTAGATAACAAGATTTCCTCATCGCCAAGGAA
60 AGATCTCCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAA
* * *
1505846 CCGTGTTATATCT
125 CAGTGTTATCTCC
**
1505859 ATTATAGTAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
1 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * *
1505924 CTTTATCACGTAGAAGTCGCGTCATCCTTAGATAACCAA-AATTCCTCATCGCGAAGGAACCA-T
66 CCTCATCACGAAGGAGTCGCGTCATCCTTAGATAA-CAAGAATTCCTCATCGCGAAGGAA-CAGT
1505987 GTTATCTCC
129 GTTATCTCC
* * * * *
1505996 ATTATCAAAAAAGAAAGATAGCCAGACATCTTCATCACGAAAGAAAAATGTCATCTACCGACCAG
1 ATTAT---AAAA-AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAG
** * * *
1506061 ATCTCCTGACGATATTGCTCATCACGAAGGAG-CTATGTCATCCTTAGATAGCCAGAATTCTTCA
62 A--T-CT--C-------CTCATCACGAAGGAGTC-GCGTCATCCTTAGATAACAAGAATTCCTCA
* * * * *
1506125 TCACAAAGGAATATTGTTATATCC
114 TCGCGAAGGAACAGTGTTATCTCC
* * *
1506149 ATTATCGAAAAAA-ATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCTATCGACCAGATC
1 ATTAT-AAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATC
* * * * * * *
1506213 TCCTCATTATGAAGGAGCCACGTCATCCTTAGATAACCAGAATTCCTCATCGCGAAGGAAAAATG
65 TCCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGTG
1506278 TTATCTCC
130 TTATCTCC
* * * *
1506286 ATTAT--AAAAA-ATGGTCAGAAGTCCTCATCACGAAGGAACAATGTTATCTACTGACCAGATCT
1 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * ** * ** *
1506348 CCTCATCACAAAGGAGTCGTGTCATCCTTAGATAGCCTGAATTCCTTATCATGAAGGAACCGTGT
66 CCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGTGT
*
1506413 TATCTCA
131 TATCTCC
* * * ** *
1506420 ATTATAAAAAAAAAGATGGCTAGATGTCCTCATCATGAAGGAACAATACCTTCTACCGACCAGAT
1 ATTAT--AAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGAT
* * * * * * *
1506485 CTCCTCATCGCGAAGGAGCCACGTCATCCTAAGATAACTAGAATTCCTCATCACCAAGGAACAGT
64 CTCCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGT
**
1506550 GTTATCTAT
129 GTTATCTCC
* * * * * *
1506559 ATTATTAAAATAGATGGCTAGACGTCCTCATGATGAAGGAACAATGTCATCTACTGACCAGATCT
1 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * * * * * * * * *
1506624 CCACATCACGAAAGAGCCCCGTCATCCTTAGATAACCATAATTCTTCATCGAGAAGGAATATTGG
66 CCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGTGT
* *
1506689 TATATCA
131 TATCTCC
* * * *
1506696 ATTACAAAAAAATATGGTCAGACGTCCTCATCACGAAGGAACAATGTCATCTACTGACCAGATCT
1 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * * * * * * * *
1506761 CATCATCATGAAGGAGTCGTGTCATCCTTATATAGCCAA-AATTTCTCATTGTGTAGGAACAATG
66 CCTCATCACGAAGGAGTCGCGTCATCCTTAGATA-ACAAGAATTCCTCATCGCGAAGGAACAGTG
1506825 TTATCTCC
130 TTATCTCC
** * * * *
1506833 ATTATAAAAAAAGATGGTTAAACGTCCTCATCACGAAGAAACAATGTCATCTACTGGCCAGATCT
1 ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * * * * * * * * *
1506898 CCTCATCACAAATGAG-CTGTGTCTTCCTTAGATAGCCAGAATTCCTCATAGTGTAGGAATAATG
66 CCTCATCACGAAGGAGTC-GCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGTG
*
1506962 TTATCTCT
130 TTATCTCC
* * * ** *
1506970 ATTATCTAAAAATA-ATGGCCAGACGTCCTCATCACGAAGGAATAATTTCATCTACTAATCAGAT
1 ATTA--TAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGAT
* * *
1507034 CTCCTCGTCACGAAGGAGCCACGTCATCCTTAGATAGACAA-AATTCCT
64 CTCCTCATCACGAAGGAGTCGCGTCATCCTTAGATA-ACAAGAATTCCT
1507082 TATCATGTAG
Statistics
Matches: 1233, Mismatches: 229, Indels: 83
0.80 0.15 0.05
Matches are distributed among these distances:
134 113 0.09
136 3 0.00
137 513 0.42
138 200 0.16
139 122 0.10
140 2 0.00
141 54 0.04
143 111 0.09
144 3 0.00
146 3 0.00
147 1 0.00
149 42 0.03
150 3 0.00
151 3 0.00
152 4 0.00
153 56 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (137 bp):
ATTATAAAAAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
CCTCATCACGAAGGAGTCGCGTCATCCTTAGATAACAAGAATTCCTCATCGCGAAGGAACAGTGT
TATCTCC
Found at i:1515739 original size:21 final size:21
Alignment explanation
Indices: 1515710--1515759 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1515700 TCTAATAAAT
*
1515710 TTGACATCCATAACAACAAAC
1 TTGAAATCCATAACAACAAAC
*
1515731 TTGAAATCCATAACAAGAAAC
1 TTGAAATCCATAACAACAAAC
1515752 TTGAAATC
1 TTGAAATC
1515760 TCTAATGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.22
Consensus pattern (21 bp):
TTGAAATCCATAACAACAAAC
Found at i:1517486 original size:14 final size:15
Alignment explanation
Indices: 1517455--1517490 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1517445 AATACATTTT
1517455 AAAATAATTTTAAGA
1 AAAATAATTTTAAGA
1517470 AAAATAATTTTAA-A
1 AAAATAATTTTAAGA
1517484 AAAATAA
1 AAAATAA
1517491 AAAATGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATAATTTTAAGA
Found at i:1519371 original size:3 final size:3
Alignment explanation
Indices: 1519363--1519398 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
1519353 TTTAATTATT
* *
1519363 TAA TAA TAA TAA TAA TAA TGA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1519399 CAGGACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1519827 original size:137 final size:135
Alignment explanation
Indices: 1519631--1520046 Score: 481
Period size: 137 Copynumber: 3.1 Consensus size: 135
1519621 TTGGTTTCTG
* *
1519631 GAAGAACAAATCTGAAAAAAGAAAAATATGCTCTACTACTCTTTATGGGAGATCAGACTCGAGAA
1 GAAGACCAAATCTGAAAAAAGAAAAATATGCTCCACTACTCTTTATGGGAGATCAGACTCGAGAA
* * *
1519696 GAATTTTGATCTACTTCGCTGCTCTTCAAGGAAGATTGGATTGAATTTGATTTGCTTCCCTGCTT
66 GAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGGATTGAACTTGATTTGCTTCGCTGCTT
1519761 TTCAA
131 TTCAA
* *
1519766 GAAGACCAAATCTGATAAAAAAGAAAAATATACTCCATTACTCTTTATGGGAGATCAGACTCGAG
1 GAAGACCAAATCTG--AAAAAAGAAAAATATGCTCCACTACTCTTTATGGGAGATCAGACTCGAG
* * * * * *
1519831 AAAAATTTTGATCCACTTCGCTGCTATTCAGGGAAGATT-GAATCATACTTGATTTGCTTTGCTG
64 AAGAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGGATTGA-ACTTGATTTGCTTCGCTG
*
1519895 CTCTTCAA
128 CTTTTCAA
* * * * *
1519903 GAATATCAAATCTGAAAGAAGAAGAATATGCTCCGCTACTCTTTA---G-G-T--G-CTCGAGAA
1 GAAGACCAAATCTGAAAAAAGAAAAATATGCTCCACTACTCTTTATGGGAGATCAGACTCGAGAA
* * * * * * * *
1519960 GAATTTTGATCCACTTCGCTGATCTCCATGGATGATTGAATCGAACTTGATTTGCTTCGATCCTT
66 GAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGGATTGAACTTGATTTGCTTCGCTGCTT
*
1520025 CTTCAG
131 -TTCAA
1520031 GAAGACCAAATCTGAA
1 GAAGACCAAATCTGAA
1520047 GGATTAGATT
Statistics
Matches: 238, Mismatches: 38, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
127 56 0.24
128 21 0.09
130 1 0.00
131 1 0.00
132 1 0.00
135 39 0.16
136 4 0.02
137 115 0.48
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (135 bp):
GAAGACCAAATCTGAAAAAAGAAAAATATGCTCCACTACTCTTTATGGGAGATCAGACTCGAGAA
GAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGGATTGAACTTGATTTGCTTCGCTGCTT
TTCAA
Found at i:1521004 original size:24 final size:24
Alignment explanation
Indices: 1520977--1521031 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
1520967 ATTTATTTTC
1520977 TTTTTTTCCTTT-TTCTTTTCCTTT
1 TTTTTTTCCTTTGTTCTTTT-CTTT
* *
1521001 TTTTGTT-CTTTGTTCTTTTTTTT
1 TTTTTTTCCTTTGTTCTTTTCTTT
1521024 TTTTTTTC
1 TTTTTTTC
1521032 TATTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.82
Consensus pattern (24 bp):
TTTTTTTCCTTTGTTCTTTTCTTT
Found at i:1521011 original size:17 final size:18
Alignment explanation
Indices: 1520989--1521022 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1520979 TTTTTCCTTT
1520989 TTCTTT-TCCTTTTTTTG
1 TTCTTTGTCCTTTTTTTG
*
1521006 TTCTTTGTTCTTTTTTT
1 TTCTTTGTCCTTTTTTT
1521023 TTTTTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (18 bp):
TTCTTTGTCCTTTTTTTG
Found at i:1521018 original size:18 final size:16
Alignment explanation
Indices: 1520997--1521039 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
1520987 TTTTCTTTTC
1520997 CTTTTTTTGTTCTTTGTT
1 CTTTTTTT-TT-TTTGTT
*
1521015 CTTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTGTT
1521031 CTATTTTTT
1 CT-TTTTTT
1521040 AAGGCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (16 bp):
CTTTTTTTTTTTTGTT
Found at i:1521037 original size:9 final size:8
Alignment explanation
Indices: 1520972--1521039 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
1520962 CTTTTATTTA
1520972 TTTTCTTT
1 TTTTCTTT
*
1520980 TTTTC-CT
1 TTTTCTTT
1520987 TTTTCTTT
1 TTTTCTTT
1520995 TCCTTT-TTT
1 T--TTTCTTT
*
1521004 TGTTC-TT
1 TTTTCTTT
*
1521011 TGTTCTTT
1 TTTTCTTT
*
1521019 TTTTTTTT
1 TTTTCTTT
1521027 TTTTCTATT
1 TTTTCT-TT
1521036 TTTT
1 TTTT
1521040 AAGGCAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 15 0.31
8 20 0.42
9 10 0.21
10 3 0.06
ACGTcount: A:0.01, C:0.13, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1521039 original size:12 final size:11
Alignment explanation
Indices: 1520977--1521039 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
1520967 ATTTATTTTC
*
1520977 TTTTTTTCCTT
1 TTTTTTTTCTT
*
1520988 TTTCTTTTCCTT
1 TTT-TTTTTCTT
*
1521000 TTTTTGTTCTT
1 TTTTTTTTCTT
1521011 TGTTCTTTTT-TT
1 T-TT-TTTTTCTT
*
1521023 TTTTTTTTCTA
1 TTTTTTTTCTT
1521034 TTTTTT
1 TTTTTT
1521040 AAGGCAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.11
11 19 0.43
12 16 0.36
13 4 0.09
ACGTcount: A:0.02, C:0.13, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:1522986 original size:46 final size:45
Alignment explanation
Indices: 1522913--1523020 Score: 148
Period size: 46 Copynumber: 2.4 Consensus size: 45
1522903 TATAAAATCC
* *
1522913 CTTACCATTTA-TCCCTAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
1522957 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTATCAATATA
1 CTTACCATTT-ATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
*
1523003 CTTGCCA-TTATTCCATAA
1 CTTACCATTTATTCCATAA
1523021 CCATATACCA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 19 0.33
45 3 0.05
46 35 0.61
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:1523042 original size:20 final size:20
Alignment explanation
Indices: 1523017--1523059 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1523007 CCATTATTCC
* *
1523017 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
*
1523037 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
1523057 ATA
1 ATA
1523060 GCCCAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:1523136 original size:61 final size:61
Alignment explanation
Indices: 1523064--1523193 Score: 251
Period size: 61 Copynumber: 2.1 Consensus size: 61
1523054 ACAATAGCCC
1523064 AATATACAACCCTGAGGACCCTGGGTACACGAGTCAAATACTTGCACCGTAGTGCAATCCCA
1 AATATA-AACCCTGAGGACCCTGGGTACACGAGTCAAATACTTGCACCGTAGTGCAATCCCA
1523126 AATATAAACCCTGAGGACCCTGGGTACACGAGTCAAATACTTGCACCGTAGTGCAATCCCA
1 AATATAAACCCTGAGGACCCTGGGTACACGAGTCAAATACTTGCACCGTAGTGCAATCCCA
1523187 AATATAA
1 AATATAA
1523194 CACATAAGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 62 0.91
62 6 0.09
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (61 bp):
AATATAAACCCTGAGGACCCTGGGTACACGAGTCAAATACTTGCACCGTAGTGCAATCCCA
Found at i:1523284 original size:60 final size:59
Alignment explanation
Indices: 1523182--1523311 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 59
1523172 CGTAGTGCAA
* * * * * **
1523182 TCCCAAATATAACACATAAGGTCTTGTCCACCATTTGTACTAGGTATCCTTAAGTACAGT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACA-T
* **
1523242 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAT
1523301 TCCCGAATATG
1 TCCCGAATATG
1523312 CAGCCTACTG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 12 0.20
60 48 0.80
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAT
Found at i:1526743 original size:17 final size:17
Alignment explanation
Indices: 1526723--1526757 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1526713 ACTACTTCCC
1526723 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
1526740 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
1526757 T
1 T
1526758 TATGAACAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:1527854 original size:21 final size:21
Alignment explanation
Indices: 1527830--1527869 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1527820 CTCATTTTCA
1527830 CTCTCAAT-TCTCTTTTCAATG
1 CTCTCAATGTCT-TTTTCAATG
1527851 CTCTCAATGTCTTTTTCAA
1 CTCTCAATGTCTTTTTCAA
1527870 CTCTTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (21 bp):
CTCTCAATGTCTTTTTCAATG
Found at i:1529890 original size:29 final size:29
Alignment explanation
Indices: 1529858--1529916 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1529848 AAAGATGAAA
1529858 AGAATTCATCCTTGAATTGCTTTGAATAG
1 AGAATTCATCCTTGAATTGCTTTGAATAG
1529887 AGAATTCATCCTTGAATTGCTTTGAATAG
1 AGAATTCATCCTTGAATTGCTTTGAATAG
1529916 A
1 A
1529917 AGCATTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (29 bp):
AGAATTCATCCTTGAATTGCTTTGAATAG
Found at i:1533686 original size:32 final size:32
Alignment explanation
Indices: 1533650--1533710 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1533640 CCGAAGGACC
*
1533650 TGTCCATATGTCTCGAAGGACATAGGTAATCA
1 TGTCCATATGTCCCGAAGGACATAGGTAATCA
*
1533682 TGTCCATATGTCCCTAAGGACATAGGTAA
1 TGTCCATATGTCCCGAAGGACATAGGTAA
1533711 CCCTCGACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAGGACATAGGTAATCA
Found at i:1537513 original size:63 final size:64
Alignment explanation
Indices: 1537403--1537560 Score: 148
Period size: 63 Copynumber: 2.5 Consensus size: 64
1537393 CCTTGACGGG
* * *
1537403 TGCATCGATGCACTA-TCTATGCATCGATACA-TAAATCCTATTTGATGTTTGTA-TTTAAGTGG
1 TGCATCGATGCACTACT-TGTGCATCGATACACTAAATCCTATTCGATGTTTGTATTTTAAAT--
1537465 GA
63 GA
* * * *
1537467 -GCATCGATGCACTACTTGTGCATCGATACACT-GATGGC-ATTCGATGTTTTTATTTTAAATTA
1 TGCATCGATGCACTACTTGTGCATCGATACACTAAAT-CCTATTCGATGTTTGTATTTTAAATGA
* * *
1537529 TGCATTGATGCACTTCATGTGCATCGATACAC
1 TGCATCGATGCACTACTTGTGCATCGATACAC
1537561 CTTGAACAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 69 0.87
64 9 0.11
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (64 bp):
TGCATCGATGCACTACTTGTGCATCGATACACTAAATCCTATTCGATGTTTGTATTTTAAATGA
Found at i:1543672 original size:23 final size:23
Alignment explanation
Indices: 1543654--1543714 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1543644 CTCGTATAAA
1543654 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
1543677 TGCACCGAAGTGTCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1543700 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
1543715 TATAAAATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1553845 original size:2 final size:2
Alignment explanation
Indices: 1553838--1553897 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
1553828 CACCCCCAAA
1553838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1553880 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1553898 GGTTGCTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1554302 original size:3 final size:3
Alignment explanation
Indices: 1554294--1554323 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1554284 TTTAATTATT
1554294 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1554324 CGGGACAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1557909 original size:13 final size:13
Alignment explanation
Indices: 1557893--1557928 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1557883 GTCAACGGGT
1557893 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
1557906 CGGGTCTGGTCAA
1 CGGGTCGGGTCAA
1557919 CGGGTCGGGT
1 CGGGTCGGGT
1557929 TGTGATCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1557928 original size:18 final size:18
Alignment explanation
Indices: 1557882--1557916 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1557872 GCCGGTCAAC
1557882 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1557900 GGTCAACGGGTCTGGTC
1 GGTCAACGGGTCGGGTC
1557917 AACGGGTCGG
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:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1560200 original size:38 final size:39
Alignment explanation
Indices: 1560115--1560255 Score: 176
Period size: 38 Copynumber: 3.6 Consensus size: 39
1560105 CTTTAGCAGT
*
1560115 GTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGAGGC
1 GTTTGTATAAAAATGCCACT-AAG-ACGAGTCTATAGTGGC
*
1560156 GATTGTATAAAAATGCCACTAA-ACGAGTCTATAGTGGC
1 GTTTGTATAAAAATGCCACTAAGACGAGTCTATAGTGGC
* * *
1560194 GTTTGTATAAAAATGCCACTAAGTATGAATCTTTAGTGGC
1 GTTTGTATAAAAATGCCACTAAG-ACGAGTCTATAGTGGC
* * *
1560234 ATTTGTATACAAACGCCACTAA
1 GTTTGTATAAAAATGCCACTAA
1560256 TGTACTGATA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 36 0.40
40 34 0.38
41 19 0.21
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (39 bp):
GTTTGTATAAAAATGCCACTAAGACGAGTCTATAGTGGC
Found at i:1560557 original size:41 final size:41
Alignment explanation
Indices: 1560091--1560562 Score: 242
Period size: 41 Copynumber: 11.7 Consensus size: 41
1560081 CACAAACACC
* * *
1560091 ACTAAAGTACGAGTCTTTAGCAGTGTTTGTATAAAAATGCC
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
* * * *
1560132 ACTAAAGTACGAGTCTATAGAGGCGATTGTATAAAAATGCC
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
* * *
1560173 ACT-AA--ACGAGTCTATAGTGGCGTTTGTATAAAAATGCC
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
* * * * * * *
1560211 ACT-AAGTATGAATCTTTAGTGGCATTTGTATACAAACGCC
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
* ** * * * *
1560251 ACTAATGTACTGA-TAAATT-GTGTCGTTTATTTAAAAAT--T
1 ACTAAAGTAC-GAGT-CTTTAGCGGCGTTTGTATAAAAATGCT
* * * * * *
1560290 AC---AGTATGAATCTCTTA-CGACATTT-T-TCAAAAAAGCC
1 ACTAAAGTACGAGTCT-TTAGCGGCGTTTGTAT-AAAAATGCT
* * * *
1560327 ACT--A-TATGTGTCCTATTA-CGACGTTTGCATAAAAATGCT
1 ACTAAAGTACGAGT-CT-TTAGCGGCGTTTGTATAAAAATGCT
**
1560366 ACTAAAGTACGAGTCTTTAGTAGCGTTTGTATAAAAATGCT
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
* * * *
1560407 ACTAAAGTACGAGTCTATAGCGGCGTTTATATAAAAATACC
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
** * * *
1560448 ACTGCAGTACGAGTCTTTAGCGACGTTTGTATACAAACGCT
1 ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
* * ** * * *
1560489 ACAAAAATTTGAGTCTTTAGCGTAGCGGCATTTTTATACAAATGCC
1 ACTAAAGTACGAGTCTTTAGCG--GC-G--TTTGTATAAAAATGCT
*
1560535 ACTATAGTACGAGTCTTTAGCGGCGTTT
1 ACTAAAGTACGAGTCTTTAGCGGCGTTT
1560563 TCGCTTAAAA
Statistics
Matches: 331, Mismatches: 76, Indels: 48
0.73 0.17 0.11
Matches are distributed among these distances:
34 1 0.00
35 8 0.02
36 11 0.03
37 7 0.02
38 49 0.15
39 12 0.04
40 36 0.11
41 163 0.49
42 9 0.03
43 2 0.01
44 3 0.01
46 30 0.09
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (41 bp):
ACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCT
Found at i:1563713 original size:18 final size:18
Alignment explanation
Indices: 1563674--1563720 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
1563664 CCTTTATACA
1563674 AAATATTTTTACTCAAAT
1 AAATATTTTTACTCAAAT
*
1563692 -AATATTTTTA-TCAATTT
1 AAATATTTTTACTCAA-AT
1563709 AAATAATTTTTA
1 AAAT-ATTTTTA
1563721 AAATTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.16
17 11 0.44
18 3 0.12
19 7 0.28
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATTTTTACTCAAAT
Found at i:1567301 original size:23 final size:23
Alignment explanation
Indices: 1567275--1567325 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1567265 AATAACATAT
**
1567275 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
1567298 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
1567321 TAGGT
1 TAGGT
1567326 TAATTACTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:1567514 original size:23 final size:23
Alignment explanation
Indices: 1567488--1567547 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1567478 ATCAAGCACA
*
1567488 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1567511 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1567534 ATAATAAAATAGGT
1 ATAACATAATAGGT
1567548 TAATTACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1567692 original size:22 final size:23
Alignment explanation
Indices: 1567646--1567704 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
1567636 ATCAAGTAGA
*
1567646 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
1567669 ATAACGTAATAGGTAGC-CTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1567691 ATAATAAAATAGGT
1 ATAACATAATAGGT
1567705 TAATTACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1567777 original size:157 final size:158
Alignment explanation
Indices: 1567366--1567836 Score: 854
Period size: 158 Copynumber: 3.0 Consensus size: 158
1567356 ACATATTAGA
1567366 TAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCC
1 TAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCC
1567431 TAAAATGTTACCAAGGATAACATAACTGGTTATTTACTGGAAACATTATCAAGCACAATAACATA
66 TAAAATGTTACCAAGGATAACATAACTGGTTATTTACTGGAAACATTATCAAGCACAATAACATA
*
1567496 TTAGGTAGCGCTTATATAATGTAATAGG
131 TTAGGTAGCGCTTATATAACGTAATAGG
1567524 TAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCC
1 TAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCC
* * *
1567589 TAAAATGTTACCAAGGATAACATAACCGGTTATTTACTGGAAACATTATCAAGTAGAATAACATA
66 TAAAATGTTACCAAGGATAACATAACTGGTTATTTACTGGAAACATTATCAAGCACAATAACATA
1567654 TTAGGTAGCGCTTATATAACGTAATAGG
131 TTAGGTAGCGCTTATATAACGTAATAGG
*
1567682 TAGC-CTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTGAACGCC
1 TAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCC
*
1567746 TAAAATGTTACCAAGGATAACATAACTGGTTAATTACTGGAAACATTATCAAGCACAATAACATA
66 TAAAATGTTACCAAGGATAACATAACTGGTTATTTACTGGAAACATTATCAAGCACAATAACATA
* * *
1567811 TTAGGTAGAGCTTGTGTAACGTAATA
131 TTAGGTAGCGCTTATATAACGTAATA
1567837 AGTTGCGTAT
Statistics
Matches: 301, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
157 143 0.48
158 158 0.52
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (158 bp):
TAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCC
TAAAATGTTACCAAGGATAACATAACTGGTTATTTACTGGAAACATTATCAAGCACAATAACATA
TTAGGTAGCGCTTATATAACGTAATAGG
Found at i:1570581 original size:64 final size:64
Alignment explanation
Indices: 1570466--1570609 Score: 154
Period size: 64 Copynumber: 2.3 Consensus size: 64
1570456 CATCCCTTGA
* * *
1570466 CAGGTGCATCGATGCACTATTCATGCATCGGTGCATAAATCCTATTTGATGTT-TGTATTTTAAG
1 CAGGTGCATCGATGCACTATTCATGCATCGATGCATAAATACTATTCGATGTTATGTA-TTTAAG
* * * *
1570530 CAGGTGCATCGATGCACTCCTT-ATGCATCGATGCACTGATTAC-ATTCGATGTTCATTTATTTA
1 CAGGTGCATCGATGCACT-ATTCATGCATCGATGCA-TAAATACTATTCGATGTT-ATGTATTTA
1570593 AG
63 AG
1570595 -A-GTGCATCGATGCAC
1 CAGGTGCATCGATGCAC
1570610 ATTGAAGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
63 14 0.20
64 40 0.58
65 12 0.17
66 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (64 bp):
CAGGTGCATCGATGCACTATTCATGCATCGATGCATAAATACTATTCGATGTTATGTATTTAAG
Found at i:1572314 original size:15 final size:15
Alignment explanation
Indices: 1572273--1572322 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
1572263 GAAGAAATAA
*
1572273 TTGGTTGAGAAAGAGG
1 TTGGTTGAG-AAGAGC
1572289 TTGTCGTTGAGAAGAGC
1 TTG--GTTGAGAAGAGC
1572306 TTGGTTGAGAAGAGC
1 TTGGTTGAGAAGAGC
1572321 TT
1 TT
1572323 TGAGAAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 14 0.45
16 3 0.10
17 8 0.26
18 6 0.19
ACGTcount: A:0.26, C:0.06, G:0.38, T:0.30
Consensus pattern (15 bp):
TTGGTTGAGAAGAGC
Found at i:1572967 original size:198 final size:198
Alignment explanation
Indices: 1572616--1573134 Score: 781
Period size: 198 Copynumber: 2.6 Consensus size: 198
1572606 TTACTTTTAC
* * * *
1572616 AAAAGTATCGACACAAATTTAAAACATGTCGATACATTATGTAAACCTATTTTCTCATAAAAATG
1 AAAAGTATCGACACAATTTTAAAA-GTGTCGATACATTATGTAGACCTATTTTCTCATAAAACTG
* * *
1572681 ATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTT
65 ATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCAATGATTT
* *
1572746 TTGGATAGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCTG
130 TAGGACAGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCTG
1572811 GACA
195 GACA
* * *
1572815 AAAAATATCGACACAATTTTAAAAGTGTCAATACATTATGTAGACCTATTTTCTCATAAAACCGA
1 AAAAGTATCGACACAATTTTAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACTGA
* *
1572880 TATATGTATACCGGTTACATT-TAAATTTACCTATTACATTGTAATTATCAGTTTCAATGATTTT
66 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCAATGATTTT
* * * * *
1572944 AGGACCGATAC-TTTTAATAAATGTATTGATACTTTATGTGTGCACCTAGTTTGTCATTCATTCT
131 AGGACAGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCT
1573008 GGACA
194 GGACA
* * *
1573013 AAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGATCTATTTTCTCATAAAACTG
1 AAAAGTATCGACAC-AATTTTAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACTG
*
1573078 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTC
65 ATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTC
1573135 GATGTGTTTG
Statistics
Matches: 288, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
196 3 0.01
197 48 0.17
198 117 0.41
199 87 0.30
200 33 0.11
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (198 bp):
AAAAGTATCGACACAATTTTAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACTGA
TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCAATGATTTT
AGGACAGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCTGG
ACA
Found at i:1578739 original size:18 final size:18
Alignment explanation
Indices: 1578716--1578756 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1578706 CAACGGTCAA
1578716 CGGGTCGAGTCAACAGGT
1 CGGGTCGAGTCAACAGGT
* *
1578734 CGGGTCGGGTCAACGGGT
1 CGGGTCGAGTCAACAGGT
1578752 CGGGT
1 CGGGT
1578757 AAATGGGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.22, G:0.46, T:0.17
Consensus pattern (18 bp):
CGGGTCGAGTCAACAGGT
Found at i:1578768 original size:18 final size:18
Alignment explanation
Indices: 1578747--1578792 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1578737 GTCGGGTCAA
*
1578747 CGGGTCGGGTAAATGGGT
1 CGGGTCGGGTAAACGGGT
*
1578765 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
1578783 CGGGTCGGGT
1 CGGGTCGGGT
1578793 TATGACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:1578785 original size:31 final size:31
Alignment explanation
Indices: 1578710--1578787 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
1578700 GACGGTCAAC
* *
1578710 GGTCAACGGGTCGAGTCAACAGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACAGGTCGGGTCG
**
1578741 GGTCAACGGGTCGGGTAAATGGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACAGGTCGGGTCG
1578772 GGTCAACGGGTCGGGT
1 GGTCAACGGGTCGGGT
1578788 CGGGTTATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.17, C:0.19, G:0.46, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACAGGTCGGGTCG
Found at i:1578788 original size:13 final size:13
Alignment explanation
Indices: 1578734--1578770 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1578724 GTCAACAGGT
1578734 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
1578747 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
*
1578760 TGGGTCGGGTC
1 CGGGTCGGGTC
1578771 GGGTCAACGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1582834 original size:20 final size:19
Alignment explanation
Indices: 1582797--1582835 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1582787 TAGAAAAAGA
1582797 TTGGAAGCTAGAAATCAAG
1 TTGGAAGCTAGAAATCAAG
* *
1582816 TTGGTAAGCTGGAATTCAAG
1 TTGG-AAGCTAGAAATCAAG
1582836 AGTAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (19 bp):
TTGGAAGCTAGAAATCAAG
Found at i:1589472 original size:13 final size:13
Alignment explanation
Indices: 1589454--1589479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1589444 TGACATATTC
1589454 TAAATATGTCAAA
1 TAAATATGTCAAA
1589467 TAAATATGTCAAA
1 TAAATATGTCAAA
1589480 AGTTGAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TAAATATGTCAAA
Found at i:1590293 original size:16 final size:15
Alignment explanation
Indices: 1590268--1590301 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1590258 CTGCAATTTC
*
1590268 TTAATATAATTAGTA
1 TTAATATAATTAATA
1590283 TTAATTATAATTAATA
1 TTAA-TATAATTAATA
1590299 TTA
1 TTA
1590302 TGATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:1590634 original size:3 final size:3
Alignment explanation
Indices: 1590628--1590652 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1590618 ATCGAAAATA
1590628 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1590653 TTTTTCCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1593750 original size:20 final size:21
Alignment explanation
Indices: 1593725--1593765 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1593715 CAAAGAGAAA
1593725 AACATATAAATATT-TAATAC
1 AACATATAAATATTGTAATAC
**
1593745 AACATATCCATATTGTAATAC
1 AACATATAAATATTGTAATAC
1593766 CCTAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (21 bp):
AACATATAAATATTGTAATAC
Found at i:1594665 original size:95 final size:95
Alignment explanation
Indices: 1594537--1594762 Score: 267
Period size: 95 Copynumber: 2.4 Consensus size: 95
1594527 ATACCGATGA
* * * * * *
1594537 GGTATTATCGATAAT-ATGGTAAGGGTATTGATACTACGCAACATCAAATCTAAAATTGGTATCG
1 GGTAGTATCGAT-ATCATGGTAAGTGTATCGATACTACGCAACATCAAACCTAAAACTGATATCG
* *
1594601 ATACCGGAAGGGGATATCAGTACTATAGTAT
65 ATACCGGAAGGGGATATCAATACCATAGTAT
* * *
1594632 GGTAGTATCGATATCATGGTAAGTGTATCGATACTAGGCAACTTCGAACCTAAAACTGATATCGA
1 GGTAGTATCGATATCATGGTAAGTGTATCGATACTACGCAACATCAAACCTAAAACTGATATCGA
* *
1594697 TACCGTAAGGGGGTATCAATACCATAGTAT
66 TACCGGAAGGGGATATCAATACCATAGTAT
* * * *
1594727 AGAAGTATCGGTACCATGGT-AGTAGTATCGATACTA
1 GGTAGTATCGATATCATGGTAAGT-GTATCGATACTA
1594763 TTGAACTGCG
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 5 0.04
95 107 0.96
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (95 bp):
GGTAGTATCGATATCATGGTAAGTGTATCGATACTACGCAACATCAAACCTAAAACTGATATCGA
TACCGGAAGGGGATATCAATACCATAGTAT
Found at i:1595133 original size:59 final size:59
Alignment explanation
Indices: 1595062--1595273 Score: 370
Period size: 59 Copynumber: 3.6 Consensus size: 59
1595052 TGTACAAAGT
*
1595062 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* * *
1595121 TAAGAAATTCATATTAAGTGTATGAATTTCCATATTGGGCACTTTGTATGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
*
1595180 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGAGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
*
1595239 TAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1595274 GGGAAATATA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 144 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
Found at i:1595728 original size:68 final size:68
Alignment explanation
Indices: 1595619--1595874 Score: 404
Period size: 68 Copynumber: 3.8 Consensus size: 68
1595609 AAAAGATTAA
* *
1595619 AGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1595684 TTG
66 TTG
* * *
1595687 AGGCCTAATTGTGCATTTGACAAAAAGGTTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1595752 TTG
66 TTG
* * * *
1595755 AGGCCTAACTGTGCATTTGACAGAGAGGTATCAATTATGCCAGTTAGATGGAAGGCTAAGTGGCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1595820 TTG
66 TTG
* * *
1595823 AGGCCTAACTGTGCATTTGATAGAAATGTGTCAATTATGCTAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1595875 CAGTTAAATA
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 171 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1595973 original size:81 final size:81
Alignment explanation
Indices: 1595832--1596281 Score: 564
Period size: 81 Copynumber: 5.5 Consensus size: 81
1595822 GAGGCCTAAC
* * * * * *
1595832 TGTGCATTTGATAGAAATGTGTCAATTATGCTAGTTAGATGAACAGTTAAATACCATTGAGTAAA
1 TGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTATCGTTGAGTAAA
* *
1595897 AGAATAATAGTCTAGC
66 AGAATAATAGCCTAGT
* * *
1595913 TGTGCATTTGAAAGAAAGGTGTTAATTATGCCAGCTAGATAAACAGTTAAGTATCGTTGAGTAAA
1 TGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTATCGTTGAGTAAA
*
1595978 AGAATAATAGCCTCGT
66 AGAATAATAGCCTAGT
* * *
1595994 TGTGCATTTGAAAGAAATGTGTCAATTATACCAGTTAGATGAACGGTTAAGTATCGTTGAGTAAA
1 TGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTATCGTTGAGTAAA
1596059 AGAATAATAGCCTAGT
66 AGAATAATAGCCTAGT
* * * *
1596075 TTTGCATTGGACAA-AAAGGAGTCAATTATGCCAGTTAGATGAAC-GATTAAGTACCGTTGAGTA
1 TGTGCATTTGA-AAGAAAGGTGTCAATTATGCCAGTTAGATGAACAG-TTAAGTATCGTTGAGTA
*
1596138 AAAGAATAATAGGCTAGT
64 AAAGAATAATAGCCTAGT
* * * * **
1596156 TGTTCATTCGACAA-AAATGTGTCAATTATTCCAGTTAGATGAATGGTTAAGTATCGTTGAGTAA
1 TGTGCATTTGA-AAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTATCGTTGAGT-A
*
1596220 AAAGAATAATGGCCTAGT
64 AAAGAATAATAGCCTAGT
* * * *
1596238 TGTGCATTTGACAGAAAGTTGTCAATTATTCCAGTTAGAGGAAC
1 TGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAC
1596282 GATTAAACAC
Statistics
Matches: 321, Mismatches: 43, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.00
81 265 0.83
82 55 0.17
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
TGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTATCGTTGAGTAAA
AGAATAATAGCCTAGT
Found at i:1599353 original size:20 final size:16
Alignment explanation
Indices: 1599303--1599340 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
1599293 TTATTGAAAA
1599303 GATTTAAAAATATGAG
1 GATTTAAAAATATGAG
1599319 GATTTAAAAATATGAG
1 GATTTAAAAATATGAG
1599335 GATTTA
1 GATTTA
1599341 TTCAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (16 bp):
GATTTAAAAATATGAG
Found at i:1600629 original size:59 final size:59
Alignment explanation
Indices: 1600548--1600711 Score: 253
Period size: 59 Copynumber: 2.8 Consensus size: 59
1600538 ATGGCACTAA
* *
1600548 GTGTGC-AAAGT--TAAGAAATTCATACTAAGTGTATGAGTTTCCGTATTGGGCACTTT
1 GTGTGCTAAAGTGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGAACTTT
* *
1600604 GTGTGCTAAAGTGATAAGAAATTCATACTAAGTGTATGAATTTCTGTAATGGGAACTTT
1 GTGTGCTAAAGTGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGAACTTT
* *
1600663 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
1 GTGTGCTAAAGTGATAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1600712 GGAAAATATA
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
56 6 0.06
57 5 0.05
59 86 0.89
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (59 bp):
GTGTGCTAAAGTGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGAACTTT
Found at i:1601181 original size:68 final size:68
Alignment explanation
Indices: 1601065--1601405 Score: 531
Period size: 68 Copynumber: 5.0 Consensus size: 68
1601055 AAAAGATTAA
** * * *
1601065 AGGCCTAACTGTGCATTTGACAGAAAAATGTTAATAATACCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1601130 TTG
66 TTG
* * * *
1601133 AGGTCTGACTGTGCATTTGACAGAAAAGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1601198 TTG
66 TTG
*
1601201 AGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1601266 TTG
66 TTG
* *
1601269 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTAT-ACAGTTAGATGAAAGGCTAATTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1601333 TTG
66 TTG
* * * *
1601336 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCG
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1601401 TTG
66 TTG
1601404 AG
1 AG
1601406 TAAAAGAATA
Statistics
Matches: 251, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
67 65 0.26
68 186 0.74
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1605495 original size:45 final size:45
Alignment explanation
Indices: 1605398--1605687 Score: 465
Period size: 45 Copynumber: 6.5 Consensus size: 45
1605388 GGTAAACATG
**
1605398 AAAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * *
1605442 AAATTAAGCTTACGATCTTATGGAATAAATGGTGAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
1605487 AAAATAAGCTTACGAGCTTATGGAGTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
1605532 AAAATAAGCTTACGAGCTTATGGAATAAATGGTGAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
1605577 AAAATAATCTTACGAGCTTATGGAGTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
1605622 AAAATAAGCTTACAATCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
1605667 AGAATAAGCTTACGAGCTTAT
1 AAAATAAGCTTACGAGCTTAT
1605688 AAGATAAATG
Statistics
Matches: 224, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
44 24 0.11
45 200 0.89
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:1607644 original size:13 final size:13
Alignment explanation
Indices: 1607628--1607655 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1607618 TGATATCAGC
1607628 AATGGTTGCGATT
1 AATGGTTGCGATT
1607641 AATGGTTGCGATT
1 AATGGTTGCGATT
1607654 AA
1 AA
1607656 GATGATGTAA
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:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (13 bp):
AATGGTTGCGATT
Found at i:1608416 original size:21 final size:20
Alignment explanation
Indices: 1608392--1608430 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1608382 ATATGCTAAA
1608392 CTATCA-AAGTATGAGTTTTGG
1 CTATCAGAAGT-TGA-TTTTGG
1608413 CTATCAGAAGTTGATTTT
1 CTATCAGAAGTTGATTTT
1608431 CTTAGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (20 bp):
CTATCAGAAGTTGATTTTGG
Found at i:1608498 original size:19 final size:19
Alignment explanation
Indices: 1608467--1608532 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
1608457 CATAAGAGCT
1608467 AAAAA-AAAA-AAAACAGA
1 AAAAAGAAAAGAAAACAGA
*
1608484 AAACAGAAAAGAAAACAGA
1 AAAAAGAAAAGAAAACAGA
1608503 AAAAAGAAAA-AAGAA-AGA
1 AAAAAGAAAAGAA-AACAGA
*
1608521 AAAGAGAAAAGA
1 AAAAAGAAAAGA
1608533 GAAAAAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.10
18 18 0.43
19 20 0.48
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAGAAAACAGA
Found at i:1608522 original size:30 final size:30
Alignment explanation
Indices: 1608470--1608547 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 30
1608460 AAGAGCTAAA
1608470 AAAAAAAAAACAGAAAACAGAAAAGA-AAACAGA-
1 AAAAAAAAAA-AG--AA-AGAAAAGAGAAA-AGAG
1608503 AAAAAGAAAAAAGAAAGAAAAGAGAAAAGAG
1 AAAAA-AAAAAAGAAAGAAAAGAGAAAAGAG
*
1608534 AAAAAAAGAAAGAA
1 AAAAAAAAAAAGAA
1608548 TTAAGAGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 19 0.46
31 10 0.24
33 7 0.17
34 5 0.12
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAAAGAAAGAAAAGAGAAAAGAG
Done.