Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397311.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_253.0, 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: 81586
ACGTcount: A:0.26, C:0.08, G:0.09, T:0.26
Warning! 25634 characters in sequence are not A, C, G, or T
Found at i:766 original size:170 final size:168
Alignment explanation
Indices: 577--2150 Score: 1259
Period size: 170 Copynumber: 9.2 Consensus size: 168
567 NNNNNNNNNN
* *
577 AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACCATTTAAAAG-GAGTAATAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-AATTT-AAAGTGAGTAATAG
641 GGCTTTGAAAGGAATGAGAGACTATAAATAGAA-TTTTCTTTCAAATAAATGAGTTTTTCTACAC
64 GGCTTTG-AAGGAATGAGAGACTATAAAT-GAACTTTTCTTTCAAATAAATGAGTTTTTCTACAC
** * * ** *
705 GTTTCTTGAGGTAGTCATTCAATTACAGCCAATTTTAACT-AG
127 GTTTCTCAAGGTAG-CATTCAATTATAGTCTGTTTTAACTAAA
* * * *
747 AAATGTGAAAAAGTCAACTTAAAATCAATTATGAGATTATCAAAATATTTAAAGTGGGTAATAAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAAAAATTTAAAGTGAGTAAT-AG
*** * * * *
812 AATTTTGAAGGAATGAAAGACTTTAAATGAACTTTTC-TTCTAAATAAATGGGTTTTTCTATACG
64 GGCTTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTTC-AAATAAATGAGTTTTTCTACACG
* * *
876 TTTCTCAAGGTAACCATTCAATTATTA-TCTGTTTTAGC-GAA
128 TTTCTCAAGGT-AGCATTCAATTA-TAGTCTGTTTTAACTAAA
* * * * * *
917 CAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAATCATTTAAGGTGTGTAATAAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-AATTTAAAGTGAGTAATAGG
* * * *
982 ACTTTTGAAGGAATGTA-TGACTATAAATTGATA-TTTT-TTATCAAATAAATGGGTTTTTCTAT
65 GC-TTTGAAGGAATG-AGAGACTATAAA-TGA-ACTTTTCTT-TCAAATAAATGAGTTTTTCTAC
** * *
1044 ACGTTTCTCAAGACCAACATTCAATTATAGTCTGTTTTAA-TGAA
125 ACGTTTCTCAAG-GTAGCATTCAATTATAGTCTGTTTTAACTAAA
* *
1088 AAATATAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAAGAATTTAAAGTGAGTAATAGG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-AATTTAAAGTGAGTAATAGG
* *
1153 GCTTTGGAAGGAATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTTTACATGT
65 GCTTT-GAAGGAATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTCTACACGT
* * * * *
1218 TTTTCGAGGCAATCATTCAATTATAG-CTCGTTTTAACT-AG
129 TTCTCAAGG-TAGCATTCAATTATAGTCT-GTTTTAACTAAA
* * * * *
1258 AAATATAAAAAAGTT-AACTTAAAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAA
1 AAATGTAAAAAA-TTCAACTTAAAATCAATTATGAGATTAT-AAAAAATTTAAAGTGAGTAATAG
* * * *
1322 GGCTTTTGAAGGAATG-GAAGACTATAAATAAACTTTTC-TTCTAAAGAAAT-AGGTTTTCCCAC
64 GGC-TTTGAAGGAATGAG-AGACTATAAATGAACTTTTCTTTC-AAATAAATGA-GTTTTTCTAC
* * *
1384 ACGTTTCTCAAGGTAGCCATTCAATTATTGT-TCGTTTTAGC-GAA
125 ACGTTTCTCAAGGTAG-CATTCAATTATAGTCT-GTTTTAACTAAA
* * * *
1428 AAATGTAAACAATTCAACTTAAAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAAAAATTTAAAGTGAGTAAT-AG
**
1493 GTTTTTGAAGGAATG-GAAGACTATAAATGAACTTTTC-TTCTAAATAAATGAGTTTTTGC-ACA
64 GGCTTTGAAGGAATGAG-AGACTATAAATGAACTTTTCTTTC-AAATAAATGAGTTTTT-CTACA
* * * *
1555 CGTTTCTCGAGTTAGCTATTCAATTATTGTCTGTTTT-AGTAAA
126 CGTTTCTCAAGGTAGC-ATTCAATTATAGTCTGTTTTAACTAAA
* ********** * * ** *
1598 AAATGTAAAAAATTTAACTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAGGCAAGTAATAAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-AATTTAAAGTGAGTAATAGG
* * *
1663 GCTTTTGAAAGAATTG-GTGACTATAAATGGACTTTT-TTTACCAAATAAATGAGTTTTTCTACA
65 GC-TTTGAAGGAA-TGAGAGACTATAAATGAACTTTTCTTT--CAAATAAATGAGTTTTTCTACA
* * * * *
1726 CGTTTCTCAAGATCGACATTCAGTTATAGTTTGTTTTAA-TGAA
126 CGTTTCTCAAGGTAG-CATTCAATTATAGTCTGTTTTAACTAAA
* * *
1769 AAATGTAAAAAATTTAACTTGAAATCAATTACT-AGATTACAAAACAATTTAAAGTGAGTAATAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTA-TGAGATTATAAAA-AATTTAAAGTGAGTAATAG
* * * * * * * * * *
1833 AGCTTTTCAAGGAATAAGATATTATAAAAGGACTTTTCTTCCATATAAATGAGTTTTTCTATACG
64 GGC-TTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTCTACACG
* * ** *
1898 TTTCCCAAGGTAAGCATTCAATTACAAACT-ATTTAA-TAAAA
128 TTTCTCAAGGT-AGCATTCAATTATAGTCTGTTTTAACT-AAA
* * * *
1939 AAATATAAAAAAATT-AACTTAAAATCAATTATTAGATTATAAGAAAAATTTAAAGCGAGCAATA
1 AAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTAT-A-AAAAATTTAAAGTGAGTAATA
* * ********** *
2003 AGGCTTTTAAAGGAATGAGNNNNNNNNNNTGGACTTTTCTTTCAAATAAATGAGTTTTTCTACAC
63 GGGC-TTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTCTACAC
** * **
2068 AGTTT-TTGAGGCAAATATTCAATTATAGTCTGTTTTAA-TAAA
127 -GTTTCTCAAGG-TAGCATTCAATTATAGTCTGTTTTAACTAAA
2110 AAATGTAAAAAATTTC-ACTTAAAATCAATTATGAGATTATA
1 AAATGTAAAAAA-TTCAACTTAAAATCAATTATGAGATTATA
2151 NNNNNNNNNN
Statistics
Matches: 1151, Mismatches: 189, Indels: 128
0.78 0.13 0.09
Matches are distributed among these distances:
169 41 0.04
170 670 0.58
171 419 0.36
172 21 0.02
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.34
Consensus pattern (168 bp):
AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAATTTAAAGTGAGTAATAGGG
CTTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTCTACACGTTT
CTCAAGGTAGCATTCAATTATAGTCTGTTTTAACTAAA
Found at i:1501 original size:511 final size:510
Alignment explanation
Indices: 577--2150 Score: 1507
Period size: 511 Copynumber: 3.1 Consensus size: 510
567 NNNNNNNNNN
*
577 AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACCATTTAAAAGGAGTAATAGG
1 AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACAATTTAAAAGGAGTAATAGG
642 GCTTTGAAAGGAATGAGAGACTATAAATAGAATTTTCTTTCAAATAAATGAGTTTTTCTACACGT
66 GCTTTGAAAGGAATGAGAGACTATAAATAGAATTTTCTTTCAAATAAATGAGTTTTTCTACACGT
* * * *
707 TTCTTGAGGTAGTCATTCAATTACAGCCAATTTTAACTAGAAATGTGAAAAAGTCAACTTAAAAT
131 TTCTTGAGGCAATCATTCAATTACAGCCAATTTTAACTAGAAATATAAAAAAGTCAACTTAAAAT
* * * *
772 CAATTATGAGATTATCAAAATATTTAAAGTGGGTAATAAGAATTTTGAAGGAATGAAAGACTTTA
196 CAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGAATTTTGAAGGAATGAAAGACTATA
* * * * * *
837 AATGAACTTTTCTTCTAAATAAATGGGTTTTTCTATACGTTTCTCAAGGTAACCATTCAATTATT
261 AATAAACTTTTCTTCTAAAGAAATAGGTTTTCCCACACGTTTCTCAAGGTAACCATTCAATTATT
*
902 ATCTGTTTTAGCGAACAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAATCATTT
326 ATCTGTTTTAGCGAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAATCATTT
* * * * * * *
967 AAGGTGTGTAATAAGACTTTTGAAGGAATGTATGACTATAAATTGATA-TTTT-TTATCAAATAA
391 AAAGCGAGCAATAAGACTTTTGAAGGAATGGAAGACTATAAA-TGA-ACTTTTCTTCT-AAATAA
* * *
1030 ATGGGTTTTT-CTATACGTTTCTCAAGACCAAC-ATTCAATTATAGTCTGTTTTAATGAA
453 ATGAGTTTTTGC-ACACGTTTCTCAAG-CCAACTATTCAATTATAGTCTGTTTTAATAAA
* *
1088 AAATATAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAAGAATTT-AAAGTGAGTAATAG
1 AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACAATTTAAAAG-GAGTAATAG
* * *
1152 GGCTTTGGAAGGAATGAGAGACTATAAAT-GAACTTTTCTTTCAAATAAATGAGTTTTTTTACAT
65 GGCTTTGAAAGGAATGAGAGACTATAAATAGAA-TTTTCTTTCAAATAAATGAGTTTTTCTACAC
* * *
1216 GTTT-TTCGAGGCAATCATTCAATTATAGCTC-GTTTTAACTAGAAATATAAAAAAGTTAACTTA
129 GTTTCTT-GAGGCAATCATTCAATTACAGC-CAATTTTAACTAGAAATATAAAAAAGTCAACTTA
** *
1279 AAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGGCTTTTGAAGGAATGGAAGAC
192 AAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGAATTTTGAAGGAATGAAAGAC
*
1344 TATAAATAAACTTTTCTTCTAAAGAAATAGGTTTTCCCACACGTTTCTCAAGGTAGCCATTCAAT
257 TATAAATAAACTTTTCTTCTAAAGAAATAGGTTTTCCCACACGTTTCTCAAGGTAACCATTCAAT
* * *
1409 TATTGT-TCGTTTTAGCGAAAAATGTAAACAATTCAACTTAAAATCAATTATGAGATTATCAAAA
322 TATTATCT-GTTTTAGCGAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATAT-AAAA
**
1473 T-ATTTAAAGCGAGCAATAAGGTTTTTGAAGGAATGGAAGACTATAAATGAACTTTTCTTCTAAA
385 TCATTTAAAGCGAGCAATAAGACTTTTGAAGGAATGGAAGACTATAAATGAACTTTTCTTCTAAA
* ** * * *
1537 TAAATGAGTTTTTGCACACGTTTCTCGAGTTAGCTATTCAATTATTGTCTGTTTTAGTAAA
450 TAAATGAGTTTTTGCACACGTTTCTCAAGCCAACTATTCAATTATAGTCTGTTTTAATAAA
* * ********** *
1598 AAATGTAAAAAATTTAACTTAAAATCAATTNNNNNNNNNNAAAACCATTT--AAGGCAAGTAATA
1 AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACAATTTAAAAGG--AGTAATA
* * * *
1661 AGGCTTTTGAAA-GAATTG-GTGACTATAAATGGACTTTT-TTTACCAAATAAATGAGTTTTTCT
64 GGGC-TTTGAAAGGAA-TGAGAGACTATAAATAGAATTTTCTTT--CAAATAAATGAGTTTTTCT
** * * * * **** * * * *
1723 ACACGTTTCTCAAGATCGA-CATTCAGTTATAGTTTGTTTTAA-TGAAAAATGTAAAAAATTTAA
125 ACACGTTTCTTGAG-GCAATCATTCAATTACAGCCAATTTTAACT-AGAAATATAAAAAAGTCAA
* * * * * *
1786 CTTGAAATCAATTACT-AGATTA-CAAAACAATTTAAAGTGAGTAAT-AGAGCTTTTCAAGGAAT
188 CTTAAAATCAATTA-TGAGATTATCAAAA-TATTTAAAGCGAGCAATAAGA-ATTTTGAAGGAAT
* * * * * * * * * *
1848 -AAGATATTATAAA-AGGACTTTTCTTCCATATAAAT-GAGTTTTTCTATACGTTTCCCAAGGTA
250 GAA-AGACTATAAATA-AACTTTTCTTCTAAAGAAATAG-GTTTTCCCACACGTTTCTCAAGGTA
* ** * * * *** * *
1910 AGCATTCAATTACAAACTATTTAATAAAAAAATATAAAAAAATT-AACTTAAAATCAATTATTAG
312 ACCATTCAATTATTATCTGTTTTAGCGAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAG
* ** * * ******** *
1974 ATTATAAGAAAAATTTAAAGCGAGCAATAAGGCTTTTAAAGGAAT-G-AGNNNNNNNNNNTGGAC
376 AATATAA-AATCATTTAAAGCGAGCAATAAGACTTTTGAAGGAATGGAAG--ACTATAAATGAAC
** * *
2037 TTTTCTT-TCAAATAAATGAGTTTTT-CTACACAGTTT-TTGAGGCAAATATTCAATTATAGTCT
438 TTTTCTTCT-AAATAAATGAGTTTTTGC-ACAC-GTTTCTCAAGCCAACTATTCAATTATAGTCT
2099 GTTTTAATAAA
500 GTTTTAATAAA
*
2110 AAATGTAAAAAATTTC-ACTTAAAATCAATTATGAGATTATA
1 AAATGTAAAAAA-TTCAACTTGAAATCAATTATGAGATTATA
2151 NNNNNNNNNN
Statistics
Matches: 885, Mismatches: 141, Indels: 73
0.81 0.13 0.07
Matches are distributed among these distances:
508 1 0.00
509 9 0.01
510 145 0.16
511 587 0.66
512 137 0.15
513 6 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.34
Consensus pattern (510 bp):
AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACAATTTAAAAGGAGTAATAGG
GCTTTGAAAGGAATGAGAGACTATAAATAGAATTTTCTTTCAAATAAATGAGTTTTTCTACACGT
TTCTTGAGGCAATCATTCAATTACAGCCAATTTTAACTAGAAATATAAAAAAGTCAACTTAAAAT
CAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGAATTTTGAAGGAATGAAAGACTATA
AATAAACTTTTCTTCTAAAGAAATAGGTTTTCCCACACGTTTCTCAAGGTAACCATTCAATTATT
ATCTGTTTTAGCGAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAATCATTT
AAAGCGAGCAATAAGACTTTTGAAGGAATGGAAGACTATAAATGAACTTTTCTTCTAAATAAATG
AGTTTTTGCACACGTTTCTCAAGCCAACTATTCAATTATAGTCTGTTTTAATAAA
Found at i:1747 original size:681 final size:679
Alignment explanation
Indices: 577--2019 Score: 1764
Period size: 681 Copynumber: 2.1 Consensus size: 679
567 NNNNNNNNNN
* * * * *
577 AAATGTAAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACCATTTAAAAG-GAGTAATAG
1 AAATATAAAAAATT-AACTTAAAATCAATTATGAGATTATAAAA-AATTT-AAAGCGAGCAATAA
* * *
641 GGC-TTTGAAAGGAAT-GAGAGACTATAAATAGAATTTTCTTTCAAATAAATGAGTTTTTCTACA
63 GGCTTTTG-AAGGAATGGAGAGACTATAAATAGAATTTTCTTTCAAAGAAATGAGTTTTCCCACA
** * * *
704 CGTTTCTTGAGGTAGTCATTCAATTACAGCCAATTTTAACTAGAAATGTGAAAAAGTCAACTTAA
127 CGTTTCTCAAGGTAGCCATTCAATTACAGCCAATTTTAACGAAAAATGTGAAAAAGTCAACTTAA
* * *
769 AATCAATTATGAGATTATCAAAATATTTAAAGTGGGTAATAAGAATTTTGAAGGAATGAAAGACT
192 AATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGAATTTTGAAGGAATGAAAGACT
* * *
834 TTAAATGAACTTTTCTTCTAAATAAATGGGTTTTTCTATACGTTTCTCAAGGTAACCATTCAATT
257 ATAAATGAACTTTTCTTCTAAATAAATGAGTTTTTCTACACGTTTCTCAAGGTAACCATTCAATT
* * *
899 ATTATCTGTTTTAGCGAACAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAATCA
322 ATTATCTGTTTTAGCAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAACCA
*** * * *
964 TTTAAGGTGTGTAATAAGACTTTTGAAGGAATGTATGACTATAAATTGATATTTTTTATCAAATA
387 TTTAAGGCAAGTAATAAGACTTTTGAAAGAATGTATGACTATAAATGGATATTTTTTACCAAATA
* *
1029 AATGGGTTTTTCTATACGTTTCTCAAGACCAACATTCAATTATAGTCTGTTTTAATGAAAAATAT
452 AATGAGTTTTTCTACACGTTTCTCAAGACCAACATTCAATTATAGTCTGTTTTAATGAAAAATAT
* * *
1094 AAAAAATTCAACTTGAAATCAATTA-TGAGATTATAAAAGAATTTAAAGTGAGTAATAGGGCTTT
517 AAAAAATTCAACTTGAAATCAATTACT-AGATTACAAAACAATTTAAAGTGAGTAATAGAGCTTT
* * * * * * **
1158 GGAAGGAATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTTTACATGTTTTTC
581 GCAAGGAATAAGAGACTATAAAAGAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTCCC
* * * * * *
1223 GAGGCAATCATTCAATTA-TAGCTCGTTTTAACT-AG
646 AAGGCAAGCATTCAATTACAAACT--ATTTAA-TAAA
*
1258 AAATATAAAAAAGTTAACTTAAAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAG
1 AAATATAAAAAA-TTAACTTAAAATCAATTATGAGATTAT-AAAAAATTTAAAGCGAGCAATAAG
1323 GCTTTTGAAGGAATGGA-AGACTATAAATA-AACTTTTC-TTCTAAAGAAAT-AGGTTTTCCCAC
64 GCTTTTGAAGGAATGGAGAGACTATAAATAGAA-TTTTCTTTC-AAAGAAATGA-GTTTTCCCAC
** * * * *
1384 ACGTTTCTCAAGGTAGCCATTCAATTATTGTTC-GTTTTAGCGAAAAATGT-AAACAATTCAACT
126 ACGTTTCTCAAGGTAGCCATTCAATTACAG-CCAATTTTAACGAAAAATGTGAAA-AAGTCAACT
** *
1447 TAAAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGGTTTTTGAAGGAATGGAAG
189 TAAAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGAATTTTGAAGGAATGAAAG
* * * *
1512 ACTATAAATGAACTTTTCTTCTAAATAAATGAGTTTTTGC-ACACGTTTCTCGAGTTAGCTATTC
254 ACTATAAATGAACTTTTCTTCTAAATAAATGAGTTTTT-CTACACGTTTCTCAAGGTAACCATTC
* * * **********
1576 AATTATTGTCTGTTTTAGTAAAAAATGTAAAAAATTTAACTTAAAATCAATTNNNNNNNNNNAAA
318 AATTATTATCTGTTTTAGCAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAA
* *
1641 ACCATTTAAGGCAAGTAATAAGGCTTTTGAAAGAAT-TGGTGACTATAAATGGACT-TTTTTTAC
383 ACCATTTAAGGCAAGTAATAAGACTTTTGAAAGAATGT-ATGACTATAAATGGA-TATTTTTTAC
* * * *
1704 CAAATAAATGAGTTTTTCTACACGTTTCTCAAGATCGACATTCAGTTATAGTTTGTTTTAATGAA
446 CAAATAAATGAGTTTTTCTACACGTTTCTCAAGACCAACATTCAATTATAGTCTGTTTTAATGAA
* *
1769 AAATGTAAAAAATTTAACTTGAAATCAATTACTAGATTACAAAACAATTTAAAGTGAGTAATAGA
511 AAATATAAAAAATTCAACTTGAAATCAATTACTAGATTACAAAACAATTTAAAGTGAGTAATAGA
* * * * * *
1834 GCTTTTCAAGGAATAAGATATTATAAAAGGACTTTTCTTCCATATAAATGAGTTTTTCTATACGT
576 GCTTTGCAAGGAATAAGAGACTATAAAAGAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGT
*
1899 TTCCCAAGGTAAGCATTCAATTACAAACTATTTAATAAAA
641 TTCCCAAGGCAAGCATTCAATTACAAACTATTTAAT-AAA
*
1939 AAATATAAAAAAATTAACTTAAAATCAATTATTAGATTATAAGAAAAATTTAAAGCGAGCAATAA
1 AAATAT-AAAAAATTAACTTAAAATCAATTATGAGATTAT-A-AAAAATTTAAAGCGAGCAATAA
*
2004 GGCTTTTAAAGGAATG
63 GGCTTTTGAAGGAATG
2020 AGNNNNNNNN
Statistics
Matches: 651, Mismatches: 92, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
679 1 0.00
680 19 0.03
681 570 0.88
682 61 0.09
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (679 bp):
AAATATAAAAAATTAACTTAAAATCAATTATGAGATTATAAAAAATTTAAAGCGAGCAATAAGGC
TTTTGAAGGAATGGAGAGACTATAAATAGAATTTTCTTTCAAAGAAATGAGTTTTCCCACACGTT
TCTCAAGGTAGCCATTCAATTACAGCCAATTTTAACGAAAAATGTGAAAAAGTCAACTTAAAATC
AATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGAATTTTGAAGGAATGAAAGACTATAA
ATGAACTTTTCTTCTAAATAAATGAGTTTTTCTACACGTTTCTCAAGGTAACCATTCAATTATTA
TCTGTTTTAGCAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAACCATTTA
AGGCAAGTAATAAGACTTTTGAAAGAATGTATGACTATAAATGGATATTTTTTACCAAATAAATG
AGTTTTTCTACACGTTTCTCAAGACCAACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAA
AATTCAACTTGAAATCAATTACTAGATTACAAAACAATTTAAAGTGAGTAATAGAGCTTTGCAAG
GAATAAGAGACTATAAAAGAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTCCCAAGGC
AAGCATTCAATTACAAACTATTTAATAAA
Found at i:2051 original size:341 final size:335
Alignment explanation
Indices: 583--2148 Score: 1290
Period size: 341 Copynumber: 4.6 Consensus size: 335
573 NNNNAAATGT
* ** * *
583 AAAAAATTCAACTTGAAATCAATTATGAGATTATAAAACCATTTAAAAG-GAGTAATAGGGCTTT
1 AAAAAATT-AACTTAAAATCAATTATGAGATTATAAAAAAATTT-AAAGCGAGCAATAAGGCTTT
* * * *
647 GAAAGGAATGAGAGACTATAAATAGAATTTTCTTTCAAATAAATGAGTTTTTCTACACGTTTCTT
64 TAAAGGAAT--GAGACTATAAATGGACTTTTCTTTCAAATAAATGAGTTTTTCTACACGTTTCTC
* * * * * ** * * *
712 GAGGT-AGTCATTCAATTACAGCCAATTTTAACT-AGAAATGTGAAAAAGTCAACTTAAAATCAA
127 AAGATCA-ACATTCAATTATAGTCTGTTTTAA-TGAAAAATGTAAAAAATTCAACTTAAAATCAA
* * * *
775 TTATGAGATTATCAAAATATTTAAAGTGGGTAATA-AGAATTTTGAAGGAATGAA-AGACTTTAA
190 TTATGAGATTA-CAAAAAATTTAAAGTGAGTAATAGAG-CTTTTGAAGGAAT-AAGA-ACTATAA
* * * * *
838 ATGAACTTTTCTTCTAAATAAATGGGTTTTTCTATACGTTTCTCAAGGTAACCATTCAATTATTA
251 ATGAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTCTCGAGGTAAGCATTCAATTA-TA
* ** *** * *
903 TCTGTTTTAGCGAACAATGT-
315 ACTCATTTATAAAAAAATATA
* ** * * * * *
923 AAAAAATTCAACTTAAAATCAATTATGAGAATATAAAATCATTTAAGGTGTGTAATAAGACTTTT
1 AAAAAATT-AACTTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGCAATAAGGCTTTT
* * * * *
988 GAAGGAATGTATGACTATAAATTGA-TATTTTTTATCAAATAAATGGGTTTTTCTATACGTTTCT
65 AAAGGAATG-A-GACTATAAATGGACT-TTTCTT-TCAAATAAATGAGTTTTTCTACACGTTTCT
* * *
1052 CAAGACCAACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTGAAATCAAT
126 CAAGATCAACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAATTCAACTTAAAATCAAT
* * * *
1117 TATGAGATTATAAAAGAATTTAAAGTGAGTAATAGGGCTTTGGAAGGAATGAGAGACTATAAATG
191 TATGAGATTACAAAA-AATTTAAAGTGAGTAATAGAGCTTTTGAAGGAATAAGA-ACTATAAATG
* * * * * * *
1182 AACTTTTCTTTCAAATAAATGAGTTTTTTTACATGTTTTTCGAGGCAATCATTCAATTATAGCTC
254 AACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTCTCGAGGTAAGCATTCAATTATAACTC
* *
1247 GTTT-TAACTAGAAATATA
319 ATTTATAA--AAAAATATA
* * * *
1265 AAAAAGTTAACTTAAAATCAATTATGAGATTATCAAAATATTTAAAGCGAGCAATAAGGCTTTTG
1 AAAAAATTAACTTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGCAATAAGGCTTTTA
** * * *
1330 AAGGAATGGAAGACTATAAATAAACTTTTC-TTCTAAAGAAAT-AGGTTTTCCCACACGTTTCTC
66 AAGGAAT-G-AGACTATAAATGGACTTTTCTTTC-AAATAAATGA-GTTTTTCTACACGTTTCTC
* * * ** *
1393 AAGGT-AGCCATTCAATTATTGT-TCGTTTTAGCGAAAAATGTAAACAATTCAACTTAAAATCAA
127 AAGATCA-ACATTCAATTATAGTCT-GTTTTAATGAAAAATGTAAAAAATTCAACTTAAAATCAA
* * * *
1456 TTATGAGATTATCAAAATATTTAAAGCGAGCAATA-AGGTTTTTGAAGGAATGGAAG-ACTATAA
190 TTATGAGATTA-CAAAAAATTTAAAGTGAGTAATAGA-GCTTTTGAAGGAAT--AAGAACTATAA
* *
1519 ATGAACTTTTCTTCTAAATAAATGAGTTTTTGC-ACACGTTTCTCGA-GTTAGCTATTCAATTAT
251 ATGAACTTTTCTTCCAAATAAATGAGTTTTT-CTACACGTTTCTCGAGGTAAGC-ATTCAATTA-
** ** *
1582 TGTCTGTTTTAGT-AAAAAATGTA
313 TAACTCATTTA-TAAAAAAATATA
* ********** ** * * *
1605 AAAAATTTAACTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAGGCAAGTAATAAGGCTTTTG
1 AAAAAATTAACTTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGCAATAAGGCTTTT-
*
1670 AAA-GAATTGGTGACTATAAATGGACTTTT-TTTACCAAATAAATGAGTTTTTCTACACGTTTCT
65 AAAGGAA-T-GAGACTATAAATGGACTTTTCTTT--CAAATAAATGAGTTTTTCTACACGTTTCT
* * * * *
1733 CAAGATCGACATTCAGTTATAGTTTGTTTTAATGAAAAATGTAAAAAATTTAACTTGAAATCAAT
126 CAAGATCAACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAATTCAACTTAAAATCAAT
* * *
1798 TACT-AGATTACAAAACAATTTAAAGTGAGTAATAGAGCTTTTCAAGGAATAAGATATTATAAAA
191 TA-TGAGATTACAAAA-AATTTAAAGTGAGTAATAGAGCTTTTGAAGGAATAAGA-ACTATAAAT
* * * * * *
1862 GGACTTTTCTTCCATATAAATGAGTTTTTCTATACGTTTCCCAAGGTAAGCATTCAATTACAAAC
253 GAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTCTCGAGGTAAGCATTCAATTA-TAAC
1927 T-ATTTAATAAAAAAATATA
317 TCATTT-ATAAAAAAATATA
*
1946 AAAAAATTAACTTAAAATCAATTATTAGATTATAAGAAAAATTTAAAGCGAGCAATAAGGCTTTT
1 AAAAAATTAACTTAAAATCAATTATGAGATTATAA-AAAAATTTAAAGCGAGCAATAAGGCTTTT
******** *
2011 AAAGGAATGAGNNNNNNNNNNTGGACTTTTCTTTCAAATAAATGAGTTTTTCTACACAGTTT-TT
65 AAAGGAATGAG--ACTATAAATGGACTTTTCTTTCAAATAAATGAGTTTTTCTACAC-GTTTCTC
* * * *
2075 GAG-GCAAATATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAATTTC-ACTTAAAATCAA
127 AAGATC-AACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAA-TTCAACTTAAAATCAA
2138 TTATGAGATTA
190 TTATGAGATTA
2149 TANNNNNNNN
Statistics
Matches: 979, Mismatches: 193, Indels: 107
0.77 0.15 0.08
Matches are distributed among these distances:
338 1 0.00
339 15 0.02
340 347 0.35
341 545 0.56
342 67 0.07
343 4 0.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (335 bp):
AAAAAATTAACTTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGCAATAAGGCTTTTA
AAGGAATGAGACTATAAATGGACTTTTCTTTCAAATAAATGAGTTTTTCTACACGTTTCTCAAGA
TCAACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAATTCAACTTAAAATCAATTATGA
GATTACAAAAAATTTAAAGTGAGTAATAGAGCTTTTGAAGGAATAAGAACTATAAATGAACTTTT
CTTCCAAATAAATGAGTTTTTCTACACGTTTCTCGAGGTAAGCATTCAATTATAACTCATTTATA
AAAAAATATA
Found at i:2735 original size:172 final size:161
Alignment explanation
Indices: 2542--2858 Score: 303
Period size: 172 Copynumber: 1.9 Consensus size: 161
2532 ATTTGAAATA
* * * *
2542 AGTAATAAGGCTTTTGAAGGAAT-GAGAGACTATAAATAAATTTTTCTTCCTAATGAATACCTTT
1 AGTAATAAGGCTTTTGAAGGAATAG-GAGACTATAAATAAACTTTTCTTACAAATGAATACATTT
* * * * *
2606 TTCTTCACGTTTCTCAACGTAGACATTTAATTGTAATCTGTTTTAATAAAAAAGGTAAAACAAAT
65 TTCTTCACGTCTCTCAACGTAGACATTCAAGTATAATCTGTTTTAACAAAAAAGGTAAAA-AAAT
*
2671 TGAACTTAAAATCAATTTTGNNNNNNNNNNACCATTTAAAGTG
129 TCAACTTAAAATCAATTTTG----------ACCATTTAAAGTG
* * * * * *
2714 AGTAATATGGTTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTAGAAATGAATTCATTTT
1 AGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAAACTTTTCTTACAAATGAATACATTTT
* ** * * * * *
2779 TTTTCACGTCTCTTGAGGTAGACATTCAAGTATAGTCTGTTTTAACCAAAAATGTAAAAAACTTC
66 TCTTCACGTCTCTCAACGTAGACATTCAAGTATAATCTGTTTTAACAAAAAAGGTAAAAAAATTC
2844 AACTTAAAATCAATT
131 AACTTAAAATCAATT
2859 ATAAGATTAN
Statistics
Matches: 120, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
171 19 0.16
172 100 0.83
173 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.36
Consensus pattern (161 bp):
AGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAAACTTTTCTTACAAATGAATACATTTT
TCTTCACGTCTCTCAACGTAGACATTCAAGTATAATCTGTTTTAACAAAAAAGGTAAAAAAATTC
AACTTAAAATCAATTTTGACCATTTAAAGTG
Found at i:4359 original size:172 final size:172
Alignment explanation
Indices: 4035--4384 Score: 439
Period size: 172 Copynumber: 2.0 Consensus size: 172
4025 NNNNNNNNNN
* * * * *
4035 TGAGATTATAAAACTATTTAAAGCGAGTAATAAGACTTTTGAAGAAATGGGTGATTACAAATAGA
1 TGAGATGATAAAACCATTTAAAGCGAGTAATAAGACTTTCGAAGAAATGGGAGACTACAAATAGA
* *
4100 CTTTTCTTACCAATGAATGCTTTTTCCTTCATGTTTCTCGAGGTAGACATTCAATTGTAGTCTGT
66 CTTTTCTTACCAATGAATGCTTTTTCCTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGC
* * * * * *
4165 TTTAATTAAAAAGGTTAAAAAAACTGAATATAAAATTAATTT
131 CTAAACTAAAAAGGTAAAAAAAACTAAACATAAAATTAATTT
* * * * * *
4207 TGAGATGATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGAATGTGAGACTATAAATGGA
1 TGAGATGATAAAACCATTTAAAGCGAGTAATAAGACTTTCGAAGAAATGGGAGACTACAAATAGA
*** * * *
4272 CTTTTCTTATTGATGAATGCTTTTTTCTTCATGTTTCTTGAGGTAGACATTTAATTATAGTCTGC
66 CTTTTCTTACCAATGAATGCTTTTTCCTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGC
* ** *
4337 CTAAACTACAATTGTAAAAAAAATTAAACATAAAATTAATTT
131 CTAAACTAAAAAGGTAAAAAAAACTAAACATAAAATTAATTT
4379 TGAGAT
1 TGAGAT
4385 AATNNNNNNN
Statistics
Matches: 149, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
172 149 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (172 bp):
TGAGATGATAAAACCATTTAAAGCGAGTAATAAGACTTTCGAAGAAATGGGAGACTACAAATAGA
CTTTTCTTACCAATGAATGCTTTTTCCTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTGC
CTAAACTAAAAAGGTAAAAAAAACTAAACATAAAATTAATTT
Found at i:4997 original size:21 final size:21
Alignment explanation
Indices: 4948--4997 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
4938 GTAAATGGAC
*
4948 TTTTCTTATCAATAAATATCT
1 TTTTCTTCTCAATAAATATCT
4969 TTTTCTTCTCAATAAATATCT
1 TTTTCTTCTCAATAAATATCT
4990 TTTTCTTC
1 TTTTCTTC
4998 ACGTTTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTCTTCTCAATAAATATCT
Found at i:11099 original size:170 final size:169
Alignment explanation
Indices: 10811--11146 Score: 464
Period size: 170 Copynumber: 2.0 Consensus size: 169
10801 NNNNNNNNNN
* * *
10811 AGATTATAAAATCATTTAAAGCGAGTAATAGGGCTTTGGAAGGAATGAGAGACTTAAATGGACCT
1 AGATTATAAAATCATTTAAAGCGAGTAATAGGGCTTTGGAAGGAAAGAGAAACTTAAATGAACCT
*
10876 TTCTTCGAAATAAATGAGTTTTTCCACACGTTTCTCGAGGCAGTCATTCAATTATAGCCTGTTTT
66 TTCTTCGAAATAAATGAGTTTTTCCACACGTTTCTCGAGGCAGTCACTCAATTATAGCCTGTTTT
* *
10941 AACAAGAAATGTAAAAAAGTCAACTCAAAATCAATTATG
131 AACAAAAAATATAAAAAAGTCAACTCAAAATCAATTATG
*
10980 AGATTATCAAAAT-ATTTAAAGCGAGTAATAGGGCTTTTGAAGGAACAGA-AAACTATAAATGAA
1 AGATTAT-AAAATCATTTAAAGCGAGTAATAGGGCTTTGGAAGGAA-AGAGAAACT-TAAATGAA
* * * * * *
11043 CTTTTCTTCTAAATAAATG-GATTTTTCCACATGTTTCTCGAGGTAG-CTACTCAATTATTGTCT
63 CCTTTCTTCGAAATAAATGAG-TTTTTCCACACGTTTCTCGAGGCAGTC-ACTCAATTATAGCCT
* *
11106 GTTTTAACAAAAAATATAAAAAATTCAACTTAAAATCAATT
126 GTTTTAACAAAAAATATAAAAAAGTCAACTCAAAATCAATT
11147 NNNNNNNNNN
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
169 44 0.30
170 103 0.70
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (169 bp):
AGATTATAAAATCATTTAAAGCGAGTAATAGGGCTTTGGAAGGAAAGAGAAACTTAAATGAACCT
TTCTTCGAAATAAATGAGTTTTTCCACACGTTTCTCGAGGCAGTCACTCAATTATAGCCTGTTTT
AACAAAAAATATAAAAAAGTCAACTCAAAATCAATTATG
Found at i:12336 original size:171 final size:160
Alignment explanation
Indices: 12159--12642 Score: 319
Period size: 171 Copynumber: 2.9 Consensus size: 160
12149 GTAATATAGT
* * * * * * *
12159 TTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGGAAATGAATTCATT-TTTTTTCACGTT
1 TTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTCGAAATAAATGCATTGTTCTAT-ACATT
* * ** * *
12223 TCTTGAGGTAAGCATTCAATTATAGTCTGTTTTAATCGAAAATGTAAAAAACTTCAACTTAAAAT
65 TCTCGAGGTAAGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAA-GTCAACTTAAAAT
12288 CAATTATGAGATTATATAACCATTTANNNNNNNNNNTAAGGC
129 CAATTATGAGATTATATAACCATTTA----------TAAGGC
* **
12330 TTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTCGAAATAAATGGGTTGTTCTATACATTT
1 TTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTCGAAATAAATGCATTGTTCTATACATTT
* * * * *
12395 CTCGAGGTAGGCTTTCAATTATAGTTTATTTTAATAAAAAATATAAGAAAGTCAACTTAAAATTA
66 CTCGAGGTAAGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAGTCAACTTAAAATCA
** * * * * *
12460 ATTATGAGANNNNNNNNNNATTTAAAGCGACTAATAAGAC
131 ATTATGAGA--------TTATAT-AA-CCATTTATAAGGC
* * * * **
12500 TTTTGAAGAAACGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGGGTT-TT-T-TACATGT
1 TTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTCGAAATAAATGCATTGTTCTATACAT-T
* * * * * * * * * *
12562 TTTCCAAAGCAGGCATTCAATTATAGTCGATTTTAATGAAAAATGTAAAAAATTTAACTTAAAAT
65 TCT-CGAGGTAAGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAGTCAACTTAAAAT
*
12627 GAATTATGAGATTATA
129 CAATTATGAGATTATA
12643 AAATNNNNNN
Statistics
Matches: 253, Mismatches: 47, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
161 2 0.01
167 5 0.02
168 4 0.02
169 62 0.25
170 76 0.30
171 91 0.36
172 4 0.02
178 3 0.01
179 2 0.01
180 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.35
Consensus pattern (160 bp):
TTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTCGAAATAAATGCATTGTTCTATACATTT
CTCGAGGTAAGCATTCAATTATAGTCTATTTTAATAAAAAATATAAAAAAGTCAACTTAAAATCA
ATTATGAGATTATATAACCATTTATAAGGC
Found at i:13423 original size:172 final size:158
Alignment explanation
Indices: 13236--13560 Score: 294
Period size: 169 Copynumber: 2.0 Consensus size: 158
13226 NNNNNNNNNN
* * ** * * * *
13236 TAATAAGGCTTTTGAAGGAATGGGAGATTATAAATGGATTTTTC-TGACCAATGAATGTCTTTTT
1 TAATAAGACTTTTGAAAGAATAAGAGACTATAAATAGACTTTTCTTG-CAAATGAAT-T-TTTTT
* * *
13300 CTTCACGTTTCTTGACATAGACATTCAATTATAATTTGTTTTAATCAAAAA-AGCAAAACAAATT
63 -TTAACGTTTCTTGACATAGACATTCAATTATAATCTGTTTTAATCAAAAATA--AAAAAAAATT
* * *
13364 GAAGTGAAAATCAATTTTGAGATTATAAAANNNNNNNNNNTGAG
125 CAACTGAAAATCAAATTTGAGATTATAAAA----------TGAG
* *
13408 TAATAAGATTTTTGAAAGAATAAGTGACTATAAATAGACTTTTCTTGCAAATGAATTTTTTTTTA
1 TAATAAGACTTTTGAAAGAATAAGAGACTATAAATAGACTTTTCTTGCAAATGAATTTTTTTTTA
* ** * *
13473 ATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAATAAAAAAAAATTCAACTT
66 ACGTTTCTTGACATAGACATTCAATTATAATCTGTTTTAATCAAAAATAAAAAAAAATTCAACTG
*
13538 CAAATCAAATTTGAGATTATAAA
131 AAAATCAAATTTGAGATTATAAA
13561 CNNNNNNNNN
Statistics
Matches: 129, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
168 33 0.26
169 44 0.34
170 6 0.05
171 1 0.01
172 43 0.33
173 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.36
Consensus pattern (158 bp):
TAATAAGACTTTTGAAAGAATAAGAGACTATAAATAGACTTTTCTTGCAAATGAATTTTTTTTTA
ACGTTTCTTGACATAGACATTCAATTATAATCTGTTTTAATCAAAAATAAAAAAAAATTCAACTG
AAAATCAAATTTGAGATTATAAAATGAG
Found at i:14611 original size:14 final size:14
Alignment explanation
Indices: 14587--14620 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14577 ATGAACTTTT
*
14587 CTTGTTGATGAATG
1 CTTGTTCATGAATG
*
14601 TTTGTTCATGAATG
1 CTTGTTCATGAATG
14615 CTTGTT
1 CTTGTT
14621 TTTTCATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.50
Consensus pattern (14 bp):
CTTGTTCATGAATG
Found at i:17104 original size:171 final size:169
Alignment explanation
Indices: 16504--17437 Score: 712
Period size: 170 Copynumber: 5.5 Consensus size: 169
16494 TTCTACATGT
* * * * * * *
16504 TTCAATTACAATCTGTTTTAA-CAAAAA-ATGAATAAATTTTAACTTAAAATTAATTATGACATT
1 TTCAATTATAGTCTGTTTTAATGAAAAATAT-AA-AAAATTCAACTTAAAATCAATTATGAGATT
* * *
16567 ATAAAACCATTTAAAGCGTA-TAATAAGGCTTTTGAAGGAATGAGAGAATATAAATGAACTTTTC
64 ATAAAACTATTTAAAGCG-AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATG-ACTTTTC
* * * * * * *
16631 TTCCAAATAAATGGATTTTTCTACACGTTTCTAGAGGTAAACT
127 TTCCTAATGAATGGATTTTTCTACACATTTCTCGAAGTAGACA
* * *
16674 TTTAATTACAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTACAATCAATTATGAGATTAT
1 TTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTAT
********** * *
16739 AANNNNNNNNNNAGCGAGCAATAAGGCTTTTGAAGGAATGAGTGACAATAAATAGACTTTTCTTG
66 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTT-
** * * * **
16804 CCT-ATGAATGCCTTCTTCTTCA-AGTTTCTTGATTTA-ATCA
129 CCTAATGAATGGATTTTTCTACACA-TTTCTCGAAGTAGA-CA
* * * * * * *
16844 TTCAATTATAATCTGTTTTAGTCAAAAAAGTAAAAACAAATTGAGCTTAAAATCAATTATGAGAA
1 TTCAATTATAGTCTGTTTTAAT-GAAAAA-TATAAA-AAATTCAACTTAAAATCAATTATGAGAT
* * * *
16909 TATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGAAAT-AGGTGACTATAAATAGGCTTCT
63 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAAT-GACTTTT
** *
16973 CTTCCTAATGAATATATTTTTCTTCACATTTCTCGAAGTAGACA
126 CTTCCTAATGAATGGATTTTTCTACACATTTCTCGAAGTAGACA
* * *
17017 TTTAATTATAGTCTGCTTTAAAT-AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGAGT
1 TTCAATTATAGTCTG-TTTTAATGAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATT
* *
17081 ACACAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA-TAGACTATAAATGGACTTTTC
64 ATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGT-GACTATAAAT-GACTTTTC
* * *
17145 TTCC-AATTCAATGGATTTTTCTACACGTTTCTCG-AGCCATG-CA
127 TTCCTAA-TGAATGGATTTTTCTACACATTTCTCGAAG-TA-GACA
* * * * *
17188 TTCAATTATAGTTTTTTTTAATGAAAAATATAAAAAATCCAACCTAAAATCAATTATAAGATTAT
1 TTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * ********** * * * *
17253 AAAACCATTTAAAGTGACTNNNNNNNNNNTTGAAGTAATGGGAGACTATAAATAGACTTTTCTTT
66 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTC
* * * *
17318 CAAATAAAT-GAGTTTTTCTACA-AGCTTCTC-AAGGCA-AGCA
130 CTAATGAATGGA-TTTTTCTACACA-TTTCTCGAA-GTAGA-CA
* * *
17358 TTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAATTCAACTTGAAATTAATTATGAGATTAT
1 TTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTAT
*
17423 AAAACCATTTAAAGC
66 AAAACTATTTAAAGC
17438 AAGTNNNNNN
Statistics
Matches: 607, Mismatches: 127, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
169 4 0.01
170 315 0.52
171 148 0.24
172 21 0.03
173 112 0.18
174 7 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.34
Consensus pattern (169 bp):
TTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTAT
AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGACTTTTCTTCC
TAATGAATGGATTTTTCTACACATTTCTCGAAGTAGACA
Found at i:20397 original size:172 final size:172
Alignment explanation
Indices: 19436--22079 Score: 1280
Period size: 172 Copynumber: 15.4 Consensus size: 172
19426 NNNNNNNNNN
* * * * *
19436 TTTTCTACATGTTTCCTGAGGCAGACATTCAATTACAGTCTGTTTTAAT--AAAAA-TATAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTA-AAAAA
* * * * * * * **
19498 AA-TCAACTTAAAATCGATTATGAGTTTAGAAAACTATTTAAAGCGACTGATAATACTTTTGAAG
65 AATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAG
* * * * **
19562 GAATGGGAGACTATAAATGGACTTTTTTTTCCAAATAAATGGGT
130 GAATGGGAGACTATAAATAGAC-TTTTCTTGCAAATGAATGCCT
* * * * ** * * *
19606 TTTT-TTACACGTTTC-TGAAGGCA-AGCACTCAACTGTAGTCAATTTTAAT-GAGAAA-TATAA
1 TTTTCTT-CACGTTTCTTG-AGGTAGA-CATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAA
* * ********** *
19666 AAAATTCAACTTAAAATCAATTATGAAATTATAAANNNNNNNNNNGTGAGTAATAAGGCTTTTGG
63 AAAATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
* * * *
19731 AGGAATGGGTGACTATAAAT-GAACTTTTCTTGCCAACGAATGCTT
128 AGGAATGGGAGACTATAAATAG-ACTTTTCTTGCAAATGAATGCCT
* ********** * *
19776 TTTTCTTCATGTTTCNNNNNNNNNNCATTCAATTATAGTCTGTTTTAA-CTAAAAATGTTAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATC-AAAAAAGTAAAAAA
* * * * ********** *
19840 AATTTAACATAAAATTAATTTTGAGATAATAAANNNNNNNNNNGTGAGTAATAAGGCTTTTGAAA
65 AATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAG
* ***
19905 GAATGGGAGCCTATAAATAGACTTTTCTTGTTGATGAATG-CT
130 GAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * ** * * *
19947 TTTTTTTCATGTTTATCAAGGTAGACATTCAATTATAGTCTGTCTAAATTAAAATTAA--AAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAA--AAGTAAAAA
* * * * * *
20010 AAATTGAACATAAAATTAATTTTGAGA-TACTAAAACCATTTACAA-TG-GATAATATGACTTTT
64 AAATTCAACTTAAAATCAATTTTGAGATTA-TAAAACTATTTA-AAGTGAG-TAATAAGGCTTTT
* * * * * * *
20072 GAAGGAAAGAGTGACTATAAGTAGACTATTCTTGTC-AATAAATGTCT
126 GAAGGAATGGGAGACTATAAATAGACTTTTCTTG-CAAATGAATGCCT
* * ** ** * * * * *
20119 TTTTATTCATGTTTCTCAATATAGACATTCAATTATAGTCCGTTTTAACCAATAATGTAAAAACA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAAAA
* * ****************** * *
20184 ATTGAACATANNNNNNNNNNNNNNNNNNTAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGG
66 ATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGG
* * * *
20249 AATAGGAGACTATAAATAGATTTTTCTTCCCAATGAATGCCT
131 AATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * *
20291 TTTTCTACACGTTTGTTGATGTAGACATTCAATTATAATCTGTTTTAATCAAAAAAGTAAAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAAAA
* * * * * *
20356 AATGAACTGAAAATCTATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGTTTTTGAAAG
66 ATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGG
********** * *
20421 AATNNNNNNNNNNAAATAGACTTTTCTTGCAAATGAATTCAT
131 AATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * * *
20463 TTTT-TTAAACATTTTTTGAGGTAGACATTTAATTATAGTCTGTTTTAAT-AAAAAATGT-GAAA
1 TTTTCTT-CACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAA-GTAAAAA
* * * *
20525 AAGTTCAACTTAAAATCAAATTTGAGATTATAAACCT-TTTAAAAT-AGGTAATAAGGCTTTTGA
64 AAATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGA-GTAATAAGGCTTTTGA
* * * * *
20588 GGGAATGGGTGACTATAAAT-GAACTTTTCTTGCTAATAAATGTCT
128 AGGAATGGGAGACTATAAATAG-ACTTTTCTTGCAAATGAATGCCT
* * ** * * *
20633 TTTTCTTCATGTTTCTTAATATAGACATTCAATTATAGTTTTTTTTAA-CTAAAAATGT-AAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATC-AAAAAAGTAAAAAA
* * *
20696 AATTCAACTCAAAATCAATTATGAGATTATAAAACCT-TCT-AAG-GAGT-ATAAGGCTTTTGAA
65 AATTCAACTTAAAATCAATTTTGAGATTATAAAA-CTATTTAAAGTGAGTAATAAGGCTTTTGAA
* * * * * *
20757 AGAATTGAGAGACCGTAATAAATGGATTTTTCTTACCAATGAATGCCT
129 GGAA-TGGGAGA-C-T-ATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * *
20805 TTTTCTTCATGTTTGTTGACGTAGACATTCAATTATAATCTGTTTTAATCAAAAAAGTAAAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGT--AAAAA
* * * * *
20870 AAATTGAACTGAAAATCAATTTTGAGATTATAAAACTATTTAACGTAAGTAATAAGGTTTTTGAA
64 AAATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAA
* * * * *
20935 AGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCAAT
129 GGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGC-CT
*
20980 TTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATC-AAAAA-TATAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTA-AAAAA
** * * * * * *
21043 AATTCAACTTTCAATCAAATTTGAGATTAT-AAACCATTTAAAATGGGCAATAAGGCTTTTGAGG
65 AATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAG
* * * * * *
21107 GAATGGGTGACTGTAAAT-GAACTTTTCTTACTAATAAATGTCT
130 GAATGGGAGACTATAAATAG-ACTTTTCTTGCAAATGAATGCCT
* ** * * ** *
21150 TTTTCTTCATGTTTCTCAATGTAGACATTCAATTATAGTTTGTTTTAGCCCCAAAAATGT-AAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTA--ATCAAAAAAGTAAAAA
* * * * *
21214 AAATTCAACTTAAAATCAATTATAAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGGA
64 AAATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAA
* * * * * **
21279 GGAATGGGAGACTATAAATGGATTTTTCTTCCAAATAAAGGAGT
129 GGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * ** * * * *
21323 TTTTCTACACGTTTTTTGAGGCCGACACTCAATTATAGTCTATTTTAA-CTAATAATGTAAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATC-AAAAAAGTAAAAAA
* * * * ** *****
21387 CATTGAACATAAAATCAATTATGAGATTATAAAA-TCATTTAAACCGAGTAATAAGGCTTNNNNN
65 AATTCAACTTAAAATCAATTTTGAGATTATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGAA
************************ *
21451 NNNNNNNNNNNNNNNNNNNNNNNNTTTCTTGCCAATGAATGCCT
129 GGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * * * *
21495 TTTTC-TCTACGTGTCATAAGGTATG-CATTCAATTGTAATCTGTTTTAA-CTAAAAATGT-AAA
1 TTTTCTTC-ACGTTTCTTGAGGTA-GACATTCAATTATAGTCTGTTTTAATC-AAAAAAGTAAAA
* * * ********** * * *
21556 CAAATTGAACTTAAAATCAAATTTG-NNNNNNNNNNCCATTTAAAATG-GTAATAAAGCTTTTGA
63 AAAATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
* * * * * * * * *
21619 AAGAATGGGTGACTATAAATATATTTTTTTTACCAATAAATACCT
128 AGGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * * *
21664 TTTTCTTCACGTTTCTTGATGTAGGCATTCAATTATAGTCTGTTTTAACCAGTAATA-TAAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCA-AAAAAGTAAAAAA
* * * * * * **********
21728 AATTGAACATAAAATCAATTATAAGATTATAAAA-TCATTTAAAGCGAGTAGTNNNNNNNNNNAA
65 AATTCAACTTAAAATCAATTTTGAGATTATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGAA
* * * *
21792 GGAATGGGAGACTATAAATGGATTTTTCTTGCCAATGAATACCT
129 GGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * * *
21836 TCTTCTTCACGTTTCTTGACGTAAACATTCAATTATAATCTGTTTTAATC-AAAAAGTAAAACAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAAAA
* ********** * * * *
21900 ATTGAACTTAANNNNNNNNNNGAGATTATAAATCCATTTAAAGTGAGTAATAAAG-TTTTTAAGG
66 ATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAA-G
* * * ** * *
21964 GAATGAGTGACTATAAATAGACTTTTCTTACAAACAAATTCAT
130 GAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
* * * * * *
22007 TTTTTTTCATGTTTCTTGTGGTAGACATTCAATTATAGTTTGTTTTAAGCAAAAATGT-AAAAAA
1 TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAAAA
22071 ATTCAACTT
66 ATTCAACTT
22080 NNNNNNNNNN
Statistics
Matches: 1828, Mismatches: 570, Indels: 151
0.72 0.22 0.06
Matches are distributed among these distances:
168 17 0.01
169 79 0.04
170 294 0.16
171 472 0.26
172 713 0.39
173 108 0.06
174 33 0.02
175 85 0.05
176 3 0.00
177 7 0.00
178 17 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (172 bp):
TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAAAA
ATTCAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGG
AATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCCT
Found at i:21150 original size:517 final size:514
Alignment explanation
Indices: 19886--22079 Score: 1733
Period size: 514 Copynumber: 4.3 Consensus size: 514
19876 NNNNNNNGTG
* * * * *** *
19886 AGTAATAAGGCTTTTGAAAGAATGGGAGCCTATAAATAGACTTTTCTTGTTGATGAATGC-TTTT
1 AGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCATTTT
** ** * ** * * * * *
19950 TTTTCATGTTTATCAAGGTAGACATTCAATTATAGTCTGTCTAAATTAAAATTAAAAAAAAAATT
66 TTTAAACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATAAAAAAT-ATAAAAAAATT
* * * * * * * * *
20015 GAACATAAAATTAATTTTGAGA-TACTAAAACCATTTACAAT-GGATAATATGACTTTTGAAGGA
130 CAACTTAAAATCAAATTTGAGATTA-T-AAACCATTTAAAATAGG-CAATAAGGCTTTTGAGGGA
* * * * * *
20078 AAGAGTGACTATAAGT-AGACTATTCTT-GTCAATAAATGTCTTTTTATTCATGTTTCTCAATAT
192 ATGGGTGACTATAAATGA-ACTTTTCTTACT-AATAAATGTCTTTTTCTTCATGTTTCTCAATAT
** * * **********
20141 AGACATTCAATTATAGTCCGTTTTA-ACCAATAATGTAAAAACAATTGAACAT-ANNNNNNNNNN
255 AGACATTCAATTATAGTTTGTTTTACACCAAAAATGTAAAAA-AATTCAAC-TCAAAATCAATTA
******** * * * *
20204 NNNNNNNNTAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGAATAGGAGACTATAAATAGA
318 TAAGATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGAATTGGAGACTATAAATGGA
*
20269 TTTTTCTTCCCAATGAATGCCTTTTTCTACACGTTTGTTGATGTAGACATTCAATTATAATCTGT
383 TTTTTCTT-CCAATGAATGCCTTTTTCTACACGTTTGTTGACGTAGACATTCAATTATAATCTGT
*
20334 TTTAATCAAAAAAGTAAAAAAAAA-TGAACTGAAAATCTATTTTGAGATTATAAAACTATTTAAA
447 TTTAATCAAAAAAGTAAAAAAAAATTGAACTGAAAATCAATTTTGAGATTATAAAACTATTTAAA
*
20398 GTG
512 GTA
**********
20401 AGTAATAAGGTTTTTGAAAGAATNNNNNNNNNNAAATAGACTTTTCTTGCAAATGAATTCATTTT
1 AGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCATTTT
* * * * *
20466 TTTAAACATTTTTTGAGGTAGACATTTAATTATAGTCTGTTTTAATAAAAAATGTGAAAAAGTTC
66 TTTAAACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTC
* *
20531 AACTTAAAATCAAATTTGAGATTATAAACCTTTTAAAATAGGTAATAAGGCTTTTGAGGGAATGG
131 AACTTAAAATCAAATTTGAGATTATAAACCATTTAAAATAGGCAATAAGGCTTTTGAGGGAATGG
* *
20596 GTGACTATAAATGAACTTTTCTTGCTAATAAATGTCTTTTTCTTCATGTTTCTTAATATAGACAT
196 GTGACTATAAATGAACTTTTCTTACTAATAAATGTCTTTTTCTTCATGTTTCTCAATATAGACAT
* * *
20661 TCAATTATAGTTTTTTTTA-ACTAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGATTA
261 TCAATTATAGTTTGTTTTACACCAAAAATGTAAAAAAATTCAACTCAAAATCAATTATAAGATTA
*
20725 TAAAACC-TTCTA-AG-GAGT-ATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGGATTT
326 TAAAACCATT-TACAGTGAGTAATAAGGCTTTTGAAGGAATTG-GAGA-C-T-ATAAATGGATTT
* *
20786 TTCTTACCAATGAATGCCTTTTTCTTCATGTTTGTTGACGTAGACATTCAATTATAATCTGTTTT
386 TTCTT-CCAATGAATGCCTTTTTCTACACGTTTGTTGACGTAGACATTCAATTATAATCTGTTTT
*
20851 AATCAAAAAAGTAAAAAAAAAATTGAACTGAAAATCAATTTTGAGATTATAAAACTATTTAACGT
450 AATCAAAAAAGT-AAAAAAAAATTGAACTGAAAATCAATTTTGAGATTATAAAACTATTTAAAGT
20916 A
514 A
20917 AGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCAATTT
1 AGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTC-ATTT
** * *
20982 TTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATCAAAAATATAAAAAAATT
65 TTTTAAACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATT
** *
21047 CAACTTTCAATCAAATTTGAGATTATAAACCATTTAAAATGGGCAATAAGGCTTTTGAGGGAATG
130 CAACTTAAAATCAAATTTGAGATTATAAACCATTTAAAATAGGCAATAAGGCTTTTGAGGGAATG
* *
21112 GGTGACTGTAAATGAACTTTTCTTACTAATAAATGTCTTTTTCTTCATGTTTCTCAATGTAGACA
195 GGTGACTATAAATGAACTTTTCTTACTAATAAATGTCTTTTTCTTCATGTTTCTCAATATAGACA
* *
21177 TTCAATTATAGTTTGTTTTAGCCCCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAAGAT
260 TTCAATTATAGTTTGTTTTA-CACCAAAAATGTAAAAAAATTCAACTCAAAATCAATTATAAGAT
* *
21242 TATAAAACCATTTACAGTGAGTAATAAGGCTTTTGGAGGAATGGGAGACTATAAATGGATTTTTC
324 TATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGAATTGGAGACTATAAATGGATTTTTC
* * ** * * ** * * *
21307 TTCCAAATAAAGGAGTTTTTCTACACGTTTTTTGAGGCCGACACTCAATTATAGTCTATTTTAA-
389 TTCC-AATGAATGCCTTTTTCTACACGTTTGTTGACGTAGACATTCAATTATAATCTGTTTTAAT
* * * * ***
21371 CTAATAATGT-AAAAAACATTGAACAT-AAAATCAATTATGAGATTATAAAA-TCATTTAAACCG
453 C-AAAAAAGTAAAAAAAAATTGAAC-TGAAAATCAATTTTGAGATTATAAAACT-ATTTAAAGTA
* ***************************** * * *
21433 AGTAATAAGGCTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTCTTGCCAATGAATGCCTTTT
1 AGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCATTTT
* ** * * * * * * * *
21498 TCTCTACGTGTCATAAGGTATG-CATTCAATTGTAATCTGTTTTAACT-AAAAATGTAAACAAAT
66 TTTAAACATTTCTTGAGGTA-GACATTCAATTATAGTCTGTTTTAA-TAAAAAATATAAAAAAAT
* ********** * * **
21561 TGAACTTAAAATCAAATTTGNNNNNNNNNNCCATTTAAAAT-GGTAATAAAGCTTTTGAAAGAAT
129 TCAACTTAAAATCAAATTTGAGATTATAAACCATTTAAAATAGGCAATAAGGCTTTTGAGGGAAT
* * * ** * ** * *
21625 GGGTGACTATAAAT-ATATTTTTTTTACCAATAAATACCTTTTTCTTCACGTTTCTTGATGTAGG
194 GGGTGACTATAAATGA-ACTTTTCTTACTAATAAATGTCTTTTTCTTCATGTTTCTCAATATAGA
* ** * *
21689 CATTCAATTATAGTCTGTTTTA-ACCAGTAATATAAAAAAAATTGAACAT-AAAATCAATTATAA
258 CATTCAATTATAGTTTGTTTTACACCAAAAATGT-AAAAAAATTCAAC-TCAAAATCAATTATAA
* * * * ********** *
21752 GATTATAAAATCATTTAAAGCGAGTAGTNNNNNNNNNNAAGGAATGGGAGACTATAAATGGATTT
321 GATTATAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGAATTGGAGACTATAAATGGATTT
* * * * *
21817 TTCTTGCCAATGAATACCTTCTTCTTCACGTTTCTTGACGTAAACATTCAATTATAATCTGTTTT
386 TTCTT-CCAATGAATGCCTTTTTCTACACGTTTGTTGACGTAGACATTCAATTATAATCTGTTTT
* * ********** * * *
21882 AATC-AAAAAGT-AAAACAAATTGAACTTAANNNNNNNNNNGAGATTATAAATCCATTTAAAGTG
450 AATCAAAAAAGTAAAAAAAAATTGAACTGAAAATCAATTTTGAGATTATAAAACTATTTAAAGTA
* * * **
21945 AGTAATAAAGTTTTT-AAGGGAAT-GAGTGACTATAAATAGACTTTTCTTACAAACAAATTCATT
1 AGTAATAAGGTTTTTGAA-AGAATAG-GTGACTATAAATAGACTTTTCTTGCAAATGAATTCATT
** ** * * ** *
22008 TTTTTTCATGTTTCTTGTGGTAGACATTCAATTATAGTTTGTTTTAAGCAAAAATGTAAAAAAAT
64 TTTTTAAACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAT
22073 TCAACTT
129 TCAACTT
22080 NNNNNNNNNN
Statistics
Matches: 1330, Mismatches: 312, Indels: 77
0.77 0.18 0.04
Matches are distributed among these distances:
510 18 0.01
511 10 0.01
512 132 0.10
513 144 0.11
514 296 0.22
515 166 0.12
516 209 0.16
517 204 0.15
518 69 0.05
519 51 0.04
520 5 0.00
521 8 0.01
522 18 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (514 bp):
AGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCATTTT
TTTAAACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAATTC
AACTTAAAATCAAATTTGAGATTATAAACCATTTAAAATAGGCAATAAGGCTTTTGAGGGAATGG
GTGACTATAAATGAACTTTTCTTACTAATAAATGTCTTTTTCTTCATGTTTCTCAATATAGACAT
TCAATTATAGTTTGTTTTACACCAAAAATGTAAAAAAATTCAACTCAAAATCAATTATAAGATTA
TAAAACCATTTACAGTGAGTAATAAGGCTTTTGAAGGAATTGGAGACTATAAATGGATTTTTCTT
CCAATGAATGCCTTTTTCTACACGTTTGTTGACGTAGACATTCAATTATAATCTGTTTTAATCAA
AAAAGTAAAAAAAAATTGAACTGAAAATCAATTTTGAGATTATAAAACTATTTAAAGTA
Found at i:21176 original size:345 final size:343
Alignment explanation
Indices: 19458--21445 Score: 1015
Period size: 343 Copynumber: 5.8 Consensus size: 343
19448 TTCCTGAGGC
* * *
19458 AGACATTCAATTACAGTCTGTTTTAAT-AAAAATA-TAAAAAAA-TCAACTTAAAATCGATTATG
1 AGACATTCAATTATAGTCTGTTTTAATCAAAAA-AGTAAAAAAATTCAACTTAAAATCAATTTTG
* * * ** * * ** *
19520 AGTTTAGAAAACTATTTAAAGCGACTGATAATACTTTTGAAGGAATGGGAGACTATAAATGGACT
65 AGATTATAAAACTATTTAACGTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAC-
* * *** * * * * *
19585 TTTTTTTCCAAATAAATGGGTTTTT-TTACACGTTTC-TGAAGGCA-AGCACTCAACTGTAGTCA
128 TTTTCTTGCAAAT-AATTCATTTTTCTT-CACGTTTCTTG-AGGTAGA-CATTCAATTATAGTCT
* * * ********
19647 ATTTTAA-TGAGAAATAT-AAAAAATTCAACTTAAAATCAATTATGAAATTAT-AAANNNNNNNN
189 ATTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
** * * * * * **
19709 NNGTGAGTAATAAGGCTTTTGGAGGAA-TGGGTGA-C-T-ATAAATGAACTTTTCTTGCCAACGA
253 AAG-GAG-AATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGAACTTTTCTTACCAATAA
* *******
19770 ATGCTTTTTTCTTCATGTTTCNNNNNNN
316 ATGCCTTTTTCTTCATGTTTCTCAACGT
*** * * * *
19798 NNNCATTCAATTATAGTCTGTTTTAA-CTAAAAATGTTAAAAAAATTTAACATAAAATTAATTTT
1 AGACATTCAATTATAGTCTGTTTTAATC-AAAAAAG-TAAAAAAATTCAACTTAAAATCAATTTT
* ********** * * * *
19862 GAGATAATAAANNNNNNNNNNGTGAGTAATAAGGCTTTTGAAAGAATGGGAGCCTATAAATAGAC
64 GAGATTATAAAACTATTTAACGTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GAC
*** * * * * ** * *
19927 TTTTCTTGTTGATGAATGC-TTTTTTTTCATGTTTATCAAGGTAGACATTCAATTATAGTCTGTC
128 TTTTCTTGCAAAT-AATTCATTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATT
* * * ** * * * *
19991 TAAATTAAAATTAAAAAAAAAATTGAACATAAAATTAATTTTGAGA-TACTAAAACCATTTACAA
192 TTAACTAAAAAT-GTAAAAAAATTCAACTTAAAATCAATTATGAGATTA-TAAAACCATTTA-AA
* * * * * * * * * **
20055 TGGATAATATGACTTTTGAAGGAA-AGAGTGA-C-T-ATAAGT-AGACTATTCTTGTCAATAAAT
254 AGGAGAATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGA-ACTTTTCTTACCAATAAAT
* * **
20115 GTCTTTTTATTCATGTTTCTCAATAT
318 GCCTTTTTCTTCATGTTTCTCAACGT
* * * * * * ************
20141 AGACATTCAATTATAGTCCGTTTTAACCAATAATGTAAAAACAATTGAACATANNNNNNNNNNNN
1 AGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAA-AATTCAACTTAAAATCAATTTTG
****** * * * * * * *
20206 NNNNNNTAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGGAATAGGAGACTATAAATAGATT
65 AGATTATAAAACTATTTAACGTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GACT
* * * * * * * * *
20271 TTTCTTCCCAATGAATGCCTTTTTCTACACGTTTGTTGATGTAGACATTCAATTATAATCTGTTT
129 TTTCTTGCAAAT-AATTCATTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATTT
* * * * * * *
20336 TAA-TCAAAAAAGTAAAAAAAAATGAACTGAAAATCTATTTTGAGATTATAAAACTATTT-AAAG
193 TAACT-AAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAG
* ********** * * * * *
20399 TGAGTAATAAGGTTTTTGAAAGAA-TNNNNNNNNNNAA-ATA-G-ACTTTTCTTGCAAATGAATT
256 -GAG-AATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGAACTTTTCTTACCAATAAATG
* ** *
20460 CATTTTT-TTAAACAT-TTT-TTGAGGT
319 CCTTTTTCTT---CATGTTTCTCAACGT
* * * *
20485 AGACATTTAATTATAGTCTGTTTTAAT-AAAAAATGTGAAAAAGTTCAACTTAAAATCAAATTTG
1 AGACATTCAATTATAGTCTGTTTTAATCAAAAAA-GTAAAAAAATTCAACTTAAAATCAATTTTG
* ** * *
20549 AGATTATAAACCT-TTTAAAATAGGTAATAAGGCTTTTGAGGGAATGGGTGACTATAAATGAACT
65 AGATTATAAAACTATTTAACGTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG-ACT
* * * ** * *
20613 TTTCTTGCTAATAAATGTC-TTTTTCTTCATGTTTCTTAATATAGACATTCAATTATAGTTTTTT
129 TTTCTTGCAAAT-AAT-TCATTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATT
*
20677 TTAACTAAAAATGTAAAAAAATTCAACTCAAAATCAATTATGAGATTATAAAACC-TTCT--AAG
192 TTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT-TAAAAG
* * * *
20739 GAGTATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGGATTTTTCTTACCAATGAATGCC
256 GAGAATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGAACTTTTCTTACCAATAAATGCC
* **
20804 TTTTTCTTCATGTTTGTTGACGT
321 TTTTTCTTCATGTTTCTCAACGT
* * *
20827 AGACATTCAATTATAATCTGTTTTAATCAAAAAAGTAAAAAAAAAATTGAACTGAAAATCAATTT
1 AGACATTCAATTATAGTCTGTTTTAATCAAAAAAGT---AAAAAAATTCAACTTAAAATCAATTT
* * *
20892 TGAGATTATAAAACTATTTAACGTAAGTAATAAGGTTTTTGAAAGAATAGGTGACTATAAATAGA
63 TGAGATTATAAAACTATTTAACGTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GA
* *
20957 CTTTTCTTGCAAATGAATTCAATTTTTTTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTG
127 CTTTTCTTGCAAAT-AATTC-ATTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTA
* **
21022 TTTTAA-TCAAAAATATAAAAAAATTCAACTTTCAATCAAATT-TGAGATTAT-AAACCATTTAA
190 TTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATC-AATTATGAGATTATAAAACCATTTAA
** * * * *
21084 AATGG-GCAATAAGGCTTTTGAGGGAA-TGGGTGA-C-T-GTAAATGAACTTTTCTTACTAATAA
253 AA-GGAG-AATAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGAACTTTTCTTACCAATAA
* *
21144 ATGTCTTTTTCTTCATGTTTCTCAATGT
316 ATGCCTTTTTCTTCATGTTTCTCAACGT
* ** * *
21172 AGACATTCAATTATAGTTTGTTTTAGCCCCAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
1 AGACATTCAATTATAGTCTGTTTTA--ATCAAAAAAGTAAAAAAATTCAACTTAAAATCAATTTT
* * * * *
21237 AAGATTATAAAACCATTT-ACAGTGAGTAATAAGGCTTTTGGAGGAATGGGAGACTATAAATGGA
64 GAGATTATAAAACTATTTAAC-GTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-GA
* * *** * * ** *
21301 TTTTTCTTCCAAATAAAGGAGTTTTTCTACACGTTTTTTGAGGCCGACACTCAATTATAGTCTAT
127 CTTTTCTTGCAAATAATTCA-TTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTAT
* * * * *
21366 TTTAACTAATAATGTAAAAAACATTGAACATAAAATCAATTATGAGATTATAAAATCATTTAAAC
191 TTTAACTAAAAATGTAAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAA
*
21431 CGAGTAATAAGGCTT
255 GGAG-AATAAGGCTT
21446 NNNNNNNNNN
Statistics
Matches: 1245, Mismatches: 337, Indels: 127
0.73 0.20 0.07
Matches are distributed among these distances:
338 17 0.01
339 6 0.00
340 32 0.03
341 81 0.07
342 195 0.16
343 333 0.27
344 263 0.21
345 131 0.11
346 68 0.05
347 89 0.07
348 12 0.01
349 18 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (343 bp):
AGACATTCAATTATAGTCTGTTTTAATCAAAAAAGTAAAAAAATTCAACTTAAAATCAATTTTGA
GATTATAAAACTATTTAACGTAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGACTTT
TCTTGCAAATAATTCATTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATTTTAA
CTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAGGAGAA
TAAGGCTTTTGAAAGAATTGAGAGACCGTAATAAATGAACTTTTCTTACCAATAAATGCCTTTTT
CTTCATGTTTCTCAACGT
Found at i:23164 original size:173 final size:171
Alignment explanation
Indices: 22841--23297 Score: 456
Period size: 173 Copynumber: 2.7 Consensus size: 171
22831 NNNNNNNNNN
* * * *
22841 ATGCTTTTTTCTTCATGTTTATCAAGGTAAACATTCAATTATAGTCTGTTTTAACTAAAAATGTT
1 ATGCTTTTTTCTTCATGTTTCTCAACGTAAACATTCAATTATAGTCTGTTTAAACT-AAAATGTA
* ********** *
22906 AAAAAAA-TGAACATAAAATGAATTTTGAGATNNNNNNNNNNTTTAAAGTGAGTAATAAGGCTTT
65 AAAAAAATTGAACATAAAATCAATTTTGAGATAATAAAACCATTTAAAATGAGTAATAAGGCTTT
* * * ** *
22970 TCAAAAAATGGGAGCCTATAAAT-GAACTTTTCTTGTTGATGA
130 TCAAAAAATGAGAGACTATAAATAG-ACTATTCTTGTCAATAA
* * * *
23012 ATGCTTTTTTCTTAATATTTCTCATA-GTAAACATTCAATTATAGTCTGTCTAAACCAAAATTGT
1 ATGCTTTTTTCTTCATGTTTCTCA-ACGTAAACATTCAATTATAGTCTGTTTAAACTAAAA-TGT
* *
23076 AAAAAAAATTTGAACATAAAATTAATTTTGAGATAATAAAACCATTTAAAATG-GATAATATGGC
64 AAAAAAAA-TTGAACATAAAATCAATTTTGAGATAATAAAACCATTTAAAATGAG-TAATAAGGC
* *
23140 TTTTGAAAAAATGAGTGACTATAAATAGACTATTCTTGTCAATAA
127 TTTTCAAAAAATGAGAGACTATAAATAGACTATTCTTGTCAATAA
* * * * *
23185 AAGCCTTTTTT-TTCATGTTTCTCAACATAAACATTCATTTATAGTTTGTTTCAACTAATAATGT
1 ATG-CTTTTTTCTTCATGTTTCTCAACGTAAACATTCAATTATAGTCTGTTTAAACTAA-AATGT
* * * *
23249 AAAAAAAATTAAACATAAAATCAATTATGAGATTATAAAATCATTTAAA
64 AAAAAAAATTGAACATAAAATCAATTTTGAGATAATAAAACCATTTAAA
23298 GCGAGTANNN
Statistics
Matches: 235, Mismatches: 42, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
170 4 0.02
171 58 0.25
172 39 0.17
173 124 0.53
174 10 0.04
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.37
Consensus pattern (171 bp):
ATGCTTTTTTCTTCATGTTTCTCAACGTAAACATTCAATTATAGTCTGTTTAAACTAAAATGTAA
AAAAAATTGAACATAAAATCAATTTTGAGATAATAAAACCATTTAAAATGAGTAATAAGGCTTTT
CAAAAAATGAGAGACTATAAATAGACTATTCTTGTCAATAA
Found at i:24218 original size:172 final size:168
Alignment explanation
Indices: 23930--25211 Score: 546
Period size: 172 Copynumber: 7.5 Consensus size: 168
23920 NNNNNTTATG
* * * *
23930 AGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTGAAAGAATGGGAGACTATAAATGGATT
1 AGATTATAAAACCATTTAAAGTGAGTAATAAGG-TTTTGAAAGAAT-GGTGACTATAAAT-GACT
* * * *
23995 TTTCTTGCCAATGAA-TGCATTTTTCTTCATGTTTGTTGAAGTAGACATTCAATTATAATCTATT
63 TTTCTTGCAAATGAATTTC-TTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATT
* * * *
24059 TTAATCAAAAAAGTAAAAAAAATTTAAGTGAAAATTAATTTTA
127 TTAATCAAAAATGT-AAAAAAATTTAACTTAAAATTAAATTTA
* *
24102 AAATTATAAAACTATTTAAAGTGAGTAATAAGGTGTTTGAAAGAATAGGTGACTATAAATAGACT
1 AGATTATAAAACCATTTAAAGTGAGTAATAAGGT-TTTGAAAGAAT-GGTGACTATAAAT-GACT
* * *******
24167 TTTCTTGCAAATGAATTTCTTTTTTTTCATGTTTCTTGAGGTAGACATTCAATTATAGNNNNNNN
63 TTTCTTGCAAATGAATTTCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATTT
*** * *
24232 NNNTCAAAAATGTAAAAAAATTCAACTTAAAATTAAATTTG
128 TAATCAAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
* * * ** *
24273 AGATTAT-AAACCATTTAAAATGGGCAATAAGGCTTTTGAGGGAATGAGTGACTGTAAATGAACT
1 AGATTATAAAACCATTTAAAGTGAGTAATAAGG-TTTTGAAAGAATG-GTGACTATAAATG-ACT
* * * * * * *
24337 TTTCTTGCTAATAAATGTCTTTTTCTTCATGCTTC-TCAATGTAGACATTCAATTATAGTTTGTT
63 TTTCTTGCAAATGAATTTCTTTTTCTTCATGTTTCTTGAA-GTAGACATTCAATTATAGTCTATT
* * * * *
24401 TTAACCAAAAATGTAAAAAAATTTAATTTAAAATCAAGTATA
127 TTAATCAAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
* * * ********* *
24443 AGATTATAAAACCATTTACAA-CGAGCAATAAGGCTTTTGAAGGAATNNNNNNNNNNAAATAGAT
1 AGATTATAAAACCATTTA-AAGTGAGTAATAAGG-TTTTGAAAGAAT-GGTGACTATAAAT-GAC
* * * **** * * * * * *
24507 TTTTTTTCCAAATAAAAGAGTTTTTCTACACGTTTTTTGAGGCAGACACTCAATTATAGTCTATT
62 TTTTCTTGCAAATGAATTTCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATT
* * * * ***
24572 TTAA-CTAATAATGTAAAAAAAAATTGAACATAAAA-TCAATNNNN
127 TTAATC-AAAAATGT--AAAAAAATTTAACTTAAAATTAAAT-TTA
****** * * *
24616 NNNNNNTAAAACCATTTAAAGCGAGTAATAACGCTTTTGAAAGAATGAGAGACTATAAATGGACT
1 AGATTATAAAACCATTTAAAGTGAGTAATAA-GGTTTTGAAAGAATG-GTGACTATAAAT-GACT
* ** * * * * *
24681 TTTCTTATC-AATGAATGCCTTTTTC-TCTATGTGTCAT-AAGGTATG-CAGTCAATTGTAATCT
63 TTTCTT-GCAAATGAATTTCTTTTTCTTC-ATGTTTCTTGAA-GTA-GACATTCAATTATAGTCT
* ********** *
24742 GTTTTAA-CTAAAAATGTAAAAANNNNNNNNNNAAAATTAAATTTG
124 ATTTTAATC-AAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
* * * *
24787 AGATTAT-AAACCATTTAAAATG-GTAATATGGCTTTTGAAAGAATAGGTGACTAGAAATGTATT
1 AGATTATAAAACCATTTAAAGTGAGTAATAAGG-TTTTGAAAGAAT-GGTGACTATAAATG-ACT
* * * ** * ** *
24850 TTTTTTATC-AATAAATACCTTTTTCTTCATGTTTCTCGATTTAGACATTCAATTATAGTCTGTT
63 TTTCTT-GCAAATGAATTTCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATT
* * * * * *
24914 TTAACCAATAATGTAAAAAAAAATTAACATAAAA-TCAATTATG
127 TTAATCAAAAATGT-AAAAAAATTTAACTTAAAATTAAATT-TA
* ** ********* * * *
24957 AGATTATAAAATCATTTAAAGCAANNNNNNNNNNTTTTG-ATGAAATAGGAGACTATAAATGGAT
1 AGATTATAAAACCATTTAAAGTGA-GTAATAAGGTTTTGAAAG-AAT-GGTGACTATAAAT-GAC
* ** * * * **
25021 TTTTCTTGCCAATGAATGCCTTTTTCTTCCTGTTTGTTGACGTAGACATTCAATTATTA-TCCGT
62 TTTTCTTGCAAATGAATTTCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTA-TAGTCTAT
* * * * * * *
25085 TCTAATCAAAAAAGTAAAAAAAAATTGAACTAAAAATCAATTTTN
126 TTTAATCAAAAATGT--AAAAAAATTTAACTTAAAATTAAATTTA
********* *
25130 NNNNNNNNNAACCATTTAAAGTGAGTAATAAGGTTTTTGAAAGAATAGGTTACTATAAATAGACT
1 AGATTATAAAACCATTTAAAGTGAGTAATAAGG-TTTTGAAAGAAT-GGTGACTATAAAT-GACT
25195 TTTCTTGCAAATGAATT
63 TTTCTTGCAAATGAATT
25212 NNNNNNNNNN
Statistics
Matches: 814, Mismatches: 253, Indels: 85
0.71 0.22 0.07
Matches are distributed among these distances:
168 3 0.00
169 96 0.12
170 167 0.21
171 149 0.18
172 212 0.26
173 179 0.22
174 8 0.01
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.35
Consensus pattern (168 bp):
AGATTATAAAACCATTTAAAGTGAGTAATAAGGTTTTGAAAGAATGGTGACTATAAATGACTTTT
CTTGCAAATGAATTTCTTTTTCTTCATGTTTCTTGAAGTAGACATTCAATTATAGTCTATTTTAA
TCAAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
Found at i:24412 original size:170 final size:170
Alignment explanation
Indices: 23930--24976 Score: 528
Period size: 170 Copynumber: 6.1 Consensus size: 170
23920 NNNNNTTATG
* * * * * * * *
23930 AGATTATAAAACTATTTAAAGCGAGTAATAAGGTTTTTGAAAGAATGGGAGACTATAAATGGATT
1 AGATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACT
* * * *
23995 TTTCTTGCCAATGAATG-CATTTTTCTTCATGTTTGTTGAAGTAGACATTCAATTATAATCTATT
66 TTTCTTGCAAATGAATGTC-TTTTTCTTCATGTTT-CTCAAGTAGACATTCAATTATAGTCTATT
* * * *
24059 TTAATCAAAAAAGTAAAAAAAATTTAAGTGAAAATTAATTTTA
129 TTAATCAAAAATGT-AAAAAAATTTAACTTAAAATTAAATTTA
* * ** *
24102 AAATTATAAAACTATTTAAAGTGAGTAATAAGG-TGTTTGAAAGAAT-AGGTGACTATAAAT-AG
1 AGATTATAAAACCATTTAAAACGAGCAATAAGGCT-TTTGAAAGAATGA-GTGACTATAAATGA-
* * * * ****
24164 ACTTTTCTTGCAAATGAATTTCTTTTTTTTCATGTTTCTTGAGGTAGACATTCAATTATAGNNNN
63 ACTTTTCTTGCAAATGAATGTCTTTTTCTTCATGTTTC-TCAAGTAGACATTCAATTATAGTCTA
****** * *
24229 NNNNNNTCAAAAATGTAAAAAAATTCAACTTAAAATTAAATTTG
127 TTTTAATCAAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
* * ** *
24273 AGATTAT-AAACCATTTAAAATGGGCAATAAGGCTTTTGAGGGAATGAGTGACTGTAAATGAACT
1 AGATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACT
* * * * *
24337 TTTCTTGCTAATAAATGTCTTTTTCTTCATGCTTCTCAATGTAGACATTCAATTATAGTTTGTTT
66 TTTCTTGCAAATGAATGTCTTTTTCTTCATGTTTCTCAA-GTAGACATTCAATTATAGTCTATTT
* * * * *
24402 TAACCAAAAATGTAAAAAAATTTAATTTAAAATCAAGTATA
130 TAATCAAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
* * ********** *
24443 AGATTATAAAACCATTTACAACGAGCAATAAGGCTTTTGAAGGAATNNNNNNNNNNAAAT-AGAT
1 AGATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGA-AC
* * * * ** * * * * * * *
24507 TTTTTTTCCAAATAAAAGAGTTTTTCTACACGTTTTTTGAGGCAGACACTCAATTATAGTCTATT
65 TTTTCTTGCAAATGAATGTCTTTTTCTTCATG-TTTCTCAAGTAGACATTCAATTATAGTCTATT
* * * * ***
24572 TTAA-CTAATAATGTAAAAAAAAATTGAACATAAAA-TCAATNNNN
129 TTAATC-AAAAATGT--AAAAAAATTTAACTTAAAATTAAAT-TTA
****** * * * * *
24616 NNNNNNTAAAACCATTTAAAGCGAGTAATAACGCTTTTGAAAGAATGAGAGACTATAAATGGACT
1 AGATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACT
* * * * * *
24681 TTTCTTATC-AATGAATGCCTTTTTC-TCTATGTGTCAT-AAGGTATG-CAGTCAATTGTAATCT
66 TTTCTT-GCAAATGAATGTCTTTTTCTTC-ATGTTTC-TCAA-GTA-GACATTCAATTATAGTCT
* ********** *
24742 GTTTTAA-CTAAAAATGTAAAAANNNNNNNNNNAAAATTAAATTTG
126 ATTTTAATC-AAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
* * * * * *
24787 AGATTAT-AAACCATTTAAAATG-GTAATATGGCTTTTGAAAGAAT-AGGTGACTAGAAATGTAT
1 AGATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAAGAATGA-GTGACTATAAATGAAC
* * * ** ** *
24849 TTTTTTTATC-AATAAATACCTTTTTCTTCATGTTTCTCGATTTAGACATTCAATTATAGTCTGT
65 TTTTCTT-GCAAATGAATGTCTTTTTCTTCATGTTTCTC-AAGTAGACATTCAATTATAGTCTAT
* * * * * *
24913 TTTAACCAATAATGTAAAAAAAAATTAACATAAAA-TCAATTATG
128 TTTAATCAAAAATGT-AAAAAAATTTAACTTAAAATTAAATT-TA
*
24957 AGATTATAAAATCATTTAAA
1 AGATTATAAAACCATTTAAA
24977 GCAANNNNNN
Statistics
Matches: 652, Mismatches: 191, Indels: 65
0.72 0.21 0.07
Matches are distributed among these distances:
168 3 0.00
169 97 0.15
170 167 0.26
171 148 0.23
172 127 0.19
173 108 0.17
174 2 0.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.35
Consensus pattern (170 bp):
AGATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACT
TTTCTTGCAAATGAATGTCTTTTTCTTCATGTTTCTCAAGTAGACATTCAATTATAGTCTATTTT
AATCAAAAATGTAAAAAAATTTAACTTAAAATTAAATTTA
Found at i:25993 original size:168 final size:160
Alignment explanation
Indices: 25743--26067 Score: 291
Period size: 168 Copynumber: 2.0 Consensus size: 160
25733 GTAATAAGGC
** * * * *
25743 TTTTGAAGGAATGAAAGACTATAAATGAACTTTTCTTGTCAATGAATGCCTTTTTCTCTACGTGT
1 TTTTGAAGGAATGAAAGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCTCTACATGT
** * *
25808 CACGAGGTATGCATTCAATTGTA-ACATGTTTTAACAAAAAATAT-AAAAAATTAAACTTAAAAT
66 CACGAGGTAAACATTCAATTATAGAC-TGTTTTAACAAAAAATATAAAAAAATTAAACATAAAAT
25871 CAAATT-TGAGATTAT-AAACCATTTAAAATNNNNNNNNNNT
130 C-AATTATGAGATTATAAAACCATTTAAAAT----------T
** *
25911 TTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCT-TCACATT
1 TTTTGAAGGAATGAAAGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCTCT-ACATG
* * * * ** * *
25975 TCTCGATGTAAACATTCAATTATAGTCTGTTTTGACAAGTAATTTAAAAAAATTTAACATAAAAT
65 TCACGAGGTAAACATTCAATTATAGACTGTTTTAACAAAAAATATAAAAAAATTAAACATAAAAT
* *
26040 CCATTATGAGATTATAAAATCATTTAAA
130 CAATTATGAGATTATAAAACCATTTAAA
26068 GCGAGTAGTA
Statistics
Matches: 129, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
167 1 0.01
168 89 0.69
169 28 0.22
170 11 0.09
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.36
Consensus pattern (160 bp):
TTTTGAAGGAATGAAAGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCTCTACATGT
CACGAGGTAAACATTCAATTATAGACTGTTTTAACAAAAAATATAAAAAAATTAAACATAAAATC
AATTATGAGATTATAAAACCATTTAAAATT
Found at i:26168 original size:171 final size:171
Alignment explanation
Indices: 25910--26226 Score: 365
Period size: 171 Copynumber: 1.9 Consensus size: 171
25900 NNNNNNNNNN
* *
25910 TTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCTTCACATT
1 TTTTTGAAGAAATGAGAGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCTTCACATT
* * * * ** *
25975 TCTCGATGTAAACATTCAATTATAGTCTGTTTTGA-CAAGTAATTTAAAA-AAATTTAACATAAA
66 TCTCGATGTAAACATGCAATTATAATCTATTTTAATCAAACAA--TAAAACAAATTGAACATAAA
*
26038 ATCCATTATGAGATTATAAAATCATTTAAAGCGAGTAGTAAGA
129 ATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAGTAAGA
* * * * * **
26081 TTTTTGAAGAAAT-AGGAGACTATAAAT-AGATTTTTCTTGCCAATGAATTCCTTTTTCTTCATG
1 TTTTTGAAGAAATGA-GAGACTATAAATGA-ACTTTTCTTACCAATAAATACATTTTTCTTCACA
* * *
26144 TTTCTTGACT-TAGACATGCAATTATAATCTATTTTAATCAAACAATAAAACAAATTGAACTTAA
64 TTTCTCGA-TGTAAACATGCAATTATAATCTATTTTAATCAAACAATAAAACAAATTGAACATAA
*
26208 AATCAATTTTGAGATTATA
128 AATCAATTATGAGATTATA
26227 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
170 7 0.06
171 107 0.89
172 6 0.05
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (171 bp):
TTTTTGAAGAAATGAGAGACTATAAATGAACTTTTCTTACCAATAAATACATTTTTCTTCACATT
TCTCGATGTAAACATGCAATTATAATCTATTTTAATCAAACAATAAAACAAATTGAACATAAAAT
CAATTATGAGATTATAAAATCATTTAAAGCGAGTAGTAAGA
Found at i:27528 original size:170 final size:170
Alignment explanation
Indices: 26982--27574 Score: 525
Period size: 171 Copynumber: 3.5 Consensus size: 170
26972 NNNNNGAAGT
* * * * * *
26982 GAGTAATAAGGCTTTTGAAGGAAT-AGGTGACTATAAATGGACTTTTTTTATC-AATAAATACCT
1 GAGTAATAAGGCTTTTGAAAGAATGA-GAGACTATAAATGGACTTTTCTT-CCAAATAAATGCGT
* * * * *
27045 TTTTCTTCACGTTTCTTGAGGTAGATATTCAATTATAATCT-TTTATAATCAAAAATGTAGAAAA
64 TTTTCTACACGTTTCATAAGGTAGACATTCAATTATAATCTGTTT-TAAT-AAAAA-ATAGAAAA
* * * ** *
27109 AATTGAACTTAAAATCGATTACAAGATTATAAAAATCATTTAAAGC
126 AATTCAACTTAAAATCAAATATGAGATTAT-AAAACCATTTAAAGC
* * * * *
27155 AAGTAATAAGGCTTTT-AAAGGAATGAGAGAATATAAATGGACTTTTCTTCCTAATGAATGCTTT
1 GAGTAATAAGGCTTTTGAAA-GAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGCGTT
* * ** ** *
27219 TTTCT-C-CGTATTTCATTACGTAGACATTCAATTATTCTCTGTTTTAGCAAAAAATATAAAAAA
65 TTTCTACACG--TTTCATAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAGAAAAAA
27282 GTTCAACTTAAAATCAAATATGAGATTATAAAACCATTTAAAGC
128 -TTCAACTTAAAATCAAATATGAGATTATAAAACCATTTAAAGC
************ * * *
27326 GAGTAATANNNNNNNNNNNGGAATGTGAGACTATAAATAGACTTTTCTTCCAAATAAATGGGTTT
1 GAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGCGTTT
* * * * * *
27391 TTCTACACGTTTCCTAAGGTAGGCATTTAATTATAGTCTGTTTTAATGAAAAATAGAAAAAAATC
66 TTCTACACGTTTCATAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAGAAAAAATTC
*
27456 AACTTAAAATCAAATATGAGATTATAAAACCATTT-ATGAC
131 AACTTAAAATCAAATATGAGATTATAAAACCATTTAAAG-C
* * * *
27496 GAGTAATAAGACTTTTGAAAGAATGAGAGACTATGAATGGACTTTTTTTCCTAAATAAATGAGTT
1 GAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTCC-AAATAAATGCGTT
*
27561 TTTATACACGTTTC
65 TTTCTACACGTTTC
27575 TTGNNNNNNN
Statistics
Matches: 333, Mismatches: 75, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
169 2 0.01
170 73 0.22
171 140 0.42
172 33 0.10
173 81 0.24
174 4 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
GAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGCGTTT
TTCTACACGTTTCATAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAGAAAAAATTC
AACTTAAAATCAAATATGAGATTATAAAACCATTTAAAGC
Found at i:35886 original size:174 final size:173
Alignment explanation
Indices: 35605--36009 Score: 480
Period size: 174 Copynumber: 2.4 Consensus size: 173
35595 AGTTGAATTG
* * * ** *
35605 TTTTACATTTTTTAGTAAAAGAGACTATAATTGATTGTCTACCTCGAGAAACATGAAGAAAATGA
1 TTTTACATTTTTTACTAAAACAGACTATAATTGAATGTCTAAATCGAGAAACATGAAGAAAAGGA
** * *
35670 ATACATTTAGAAGAAAAGTCTATTTATAATCACCCATTCCTTCAAAAGCCTTATTACTCGCCTTA
66 ATACATAGACAAGAAAAGTCCATTTATAATCACCCATTCCTTCAAAAGCCTTATTACTCGCCTTA
35735 AATGGTTTTATAATCTCAAAATTCATGTTAAGCTC-AATTTTTT
131 AATGGTTTTATAATCTCAAAATTCATGTTAAG-TCGAATTTTTT
*
35778 TTTTAC-TTTTTTGACTAAAACAGATTATAATTGAATGTCTAAATCGAGAAACATGAAGAAGAAG
1 TTTTACATTTTTT-ACTAAAACAGACTATAATTGAATGTCTAAATCGAGAAACATGAAGAA-AAG
* * * * * *
35842 GCATTCATAGACAAGAAAAGTCCATTTATAGTCACTCATTCCTTCAAAAGCCTTTTTACTCGCTT
64 GAATACATAGACAAGAAAAGTCCATTTATAATCACCCATTCCTTCAAAAGCCTTATTACTCGCCT
* * *
35907 TAAATGGTTTTATAATCTCATAATTGATTTTAAGTCGAA----TT
129 TAAATGGTTTTATAATCTCAAAATTCATGTTAAGTCGAATTTTTT
* * * * * * ** *
35948 TTTTACATTTCTCATTAAAATAGACTATAATTGAAAGCCTACCTCGAGAAACATGTAGAAAA
1 TTTTACATTTTTTACTAAAACAGACTATAATTGAATGTCTAAATCGAGAAACATGAAGAAAA
36010 ATCTATTTAT
Statistics
Matches: 198, Mismatches: 30, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
169 2 0.01
170 47 0.24
171 4 0.02
172 6 0.03
173 49 0.25
174 90 0.45
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (173 bp):
TTTTACATTTTTTACTAAAACAGACTATAATTGAATGTCTAAATCGAGAAACATGAAGAAAAGGA
ATACATAGACAAGAAAAGTCCATTTATAATCACCCATTCCTTCAAAAGCCTTATTACTCGCCTTA
AATGGTTTTATAATCTCAAAATTCATGTTAAGTCGAATTTTTT
Found at i:36079 original size:169 final size:168
Alignment explanation
Indices: 35550--36135 Score: 613
Period size: 169 Copynumber: 3.4 Consensus size: 168
35540 NNNNNNNNNN
* ** *
35550 TTATTACTCACTTTAAATAGTTTTATCTTCTCATAATTGATTTTAAGTTGAATTGTTTTACATTT
1 TTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTCGAATT-TTTTACATTT
* * * * *
35615 TTTAGTAAAAGAGACTATAATTGATTGTCTACCTCGAGAAACATGAAG-AAAATGAATACATTTA
65 TTTATTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAAT-CATTCATTT-
* * *
35679 GAAGAAAAGTCTATTTATAATCACCCATTCCTTCAAAAGCC
128 GAAAAAAAGTCCATTTATAATCACTCATTCCTTCAAAAGCC
* * * * *
35720 TTATTACTCGCCTTAAATGGTTTTATAATCTCAAAATTCATGTTAAGCTC-AATTTTTTTTTTAC
1 TTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAG-TCGAA----TTTTTTAC
* * ** **
35784 -TTTTTTGACTAAAACAGATTATAATTGAATGTCTAAATCGAGAAACATGAAGAAGAAGGCATTC
61 ATTTTTT-ATTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACATGAAGAA-AAATCATTC
* *
35848 A-TAGACAAGAAAAGTCCATTTATAGTCACTCATTCCTTCAAAAGCC
124 ATTTGA-AA-AAAAGTCCATTTATAATCACTCATTCCTTCAAAAGCC
* * *
35894 TTTTTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTCGAATTTTTTACATTTC
1 TTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTCGAATTTTTTACATTTT
* * * * * *
35959 TCATTAAAATAGACTATAATTGAAAGCCTACCTCGAGAAACATGTAGAAAAATCTATTTATTTGA
66 TTATTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAATC-ATTCATTTGA
* * * *
36024 AAAAAAGTCCATTTATATTCTCTCATTCTTTCAAAAACC
130 AAAAAAGTCCATTTATAATCACTCATTCCTTCAAAAGCC
* * * * * * * *
36063 TTATTGCACTCTTTAAATAATTTTATAATCTTATAATTGATTTTAAATTGAATTTTATACATTTT
1 TTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTCGAATTTTTTACATTTT
36128 TTATTAAA
66 TTATTAAA
36136 NNNNNNNNNN
Statistics
Matches: 343, Mismatches: 59, Indels: 29
0.80 0.14 0.07
Matches are distributed among these distances:
169 97 0.28
170 94 0.27
171 8 0.02
172 8 0.02
173 49 0.14
174 85 0.25
175 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (168 bp):
TTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTCGAATTTTTTACATTTT
TTATTAAAACAGACTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAATCATTCATTTGAA
AAAAAGTCCATTTATAATCACTCATTCCTTCAAAAGCC
Found at i:36766 original size:172 final size:171
Alignment explanation
Indices: 36456--36766 Score: 426
Period size: 172 Copynumber: 1.8 Consensus size: 171
36446 CCTCAAAAAT
* *
36456 CTTATTACTCACTTTAAATGGATTTATAATCTCAAAATGGATTTTAAGTTCAATTTGTTTTACTG
1 CTTACTACTCACTTTAAATGGATTTATAATCTCAAAATGGATTTTAAGTTAAATTTGTTTTACTG
* * * * * ** *
36521 TTCGATTAAAACAGATTATAATTACATGTCTAGGTCAAGAAATGTGAAGAAAAAGGTATTCATTG
66 TACGATTAAAACAAACTATAATTAAATATCTACATCAAGAAACGTGAAGAAAAAGGTATTCATTG
*
36586 GTAAGAAAAATCCATTTATAGCCTCTCATTCGTTCAAAAGC
131 ATAAGAAAAATCCATTTATAGCCTCTCATTCGTTCAAAAGC
* * * * *
36627 CTTACTACTCGCTTTAAATGGTTTTATAATCTCATAATGGATTTTATGTTAAATTTTTTTTACAT
1 CTTACTACTCACTTTAAATGGATTTATAATCTCAAAATGGATTTTAAGTTAAATTTGTTTTAC-T
* * *
36692 -TACTAGTTAAAACAAACTATAATTAAATATCTACATCGAGAAACGTGAAGAAAAAGGTATTTAT
65 GTACGA-TTAAAACAAACTATAATTAAATATCTACATCAAGAAACGTGAAGAAAAAGGTATTCAT
36756 TGATAAGAAAA
129 TGATAAGAAAA
36767 GTCTNNNNNN
Statistics
Matches: 119, Mismatches: 19, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
171 59 0.50
172 60 0.50
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (171 bp):
CTTACTACTCACTTTAAATGGATTTATAATCTCAAAATGGATTTTAAGTTAAATTTGTTTTACTG
TACGATTAAAACAAACTATAATTAAATATCTACATCAAGAAACGTGAAGAAAAAGGTATTCATTG
ATAAGAAAAATCCATTTATAGCCTCTCATTCGTTCAAAAGC
Found at i:49092 original size:171 final size:171
Alignment explanation
Indices: 48690--49295 Score: 535
Period size: 172 Copynumber: 3.5 Consensus size: 171
48680 NNNNNNNTAA
* * * * * *
48690 GGCTTTTTAAGAAATGGGTGACTATAAATGGAC-TTTTCTTGCCAATGAATG-GTTTTTCCTTCA
1 GGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTTCTTG-CAATGAATGCCTTTTT-CTTCA
* * * *
48753 TATTTCTCAAGGAAGACATTGAATTATAGTCTGTTTTAACTAAAATTGTTAAAAAAACTGAACAT
64 TATTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAATTGTAAAAAAAATTGAACAT
********** *
48818 AAAATCAATTTTGAGATAATAAAACCATNNNNNNNNNNTAATAA
128 AAAATCAATTTTGAGATAATAAAACCATTTAAAACGAGTAATAT
* * ***
48862 GGCTTTTGAAGGAATGGGAGACTATAAAT-AGACTTTTCTTATTG--ATGAATATTTTTTTCTTC
1 GGCTTTTGAAGGAATGAGAGACTATAAATGA-AC-TTT-TTCTTGCAATGAATGCCTTTTTCTTC
** ** * * *
48924 ATATTTCTTGAGGTAGACATTCAATTATAGTCTGCCTAAACTAAATTGTAAAAAAAATTAAATAT
63 ATATTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAATTGTAAAAAAAATTGAACAT
* * *
48989 AAAATCAATTTTGACATAATAAAACCATTTAAAATGGGTAA-AT
128 AAAATCAATTTTGAGATAATAAAACCATTTAAAACGAGTAATAT
* * * * *
49032 GGCTTTTGAAGGAATGAGTGACTATCAATTAACTTTTTTTTGTCAATGAATGCCTTTTTCTTCAC
1 GGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTTCTTG-CAATGAATGCCTTTTTCTTCAT
* ** * * * *
49097 ATTTCTCAATGTAGACATTCAATTAT-GATCCATTTTAACTAATAATATAAACAAAATTGAACAA
65 ATTTCTCAAGGTAGACATTCAATTATAG-TCTGTTTTAACTAA-ATTGTAAAAAAAATTGAACAT
* * * *
49161 AAAATCAGTTATGAGATTATAAAACCATTTAAAGCGAGTAATAT
128 AAAATCAATTTTGAGATAATAAAACCATTTAAAACGAGTAATAT
* * *
49205 GGCTTTTGAAGGAATGAAAGACTATAAATGAA-TTTTTCTTACTAATAAATGCCTTTTTCTTCAT
1 GGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTTCTTGC-AATGAATGCCTTTTTCTTCAT
* ** *
49269 GTTTCTTGACGTAGACATTCAATTATA
65 ATTTCTCAAGGTAGACATTCAATTATA
49296 ATAAAAAAAG
Statistics
Matches: 349, Mismatches: 71, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
168 5 0.01
169 3 0.01
170 30 0.09
171 99 0.28
172 170 0.49
173 35 0.10
174 2 0.01
175 5 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.36
Consensus pattern (171 bp):
GGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTTCTTGCAATGAATGCCTTTTTCTTCATA
TTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAATTGTAAAAAAAATTGAACATAAA
ATCAATTTTGAGATAATAAAACCATTTAAAACGAGTAATAT
Found at i:50917 original size:170 final size:170
Alignment explanation
Indices: 50504--51466 Score: 577
Period size: 171 Copynumber: 5.6 Consensus size: 170
50494 AAAAATGTAA
* * * * * *
50504 AAAAAATTAAACTTAAAATCGATTACGAGATTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTT
1 AAAAAATT-AACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTT
** * * * ** * * * * * *
50569 GAA-AGAATGGGCGAATATGAATAGACTTTTCTTGTAAATGAATGCTTTTTTCTTCACGTTTCAT
65 GAAGA-AATGGTAGACTATAAATGGACTTTTCTTACAAATAAATGGTTTTTCCTACACATTTC-C
* * * *
50633 C-ACGTAGACATTCAATTATACTCTA--TTCTAGC-AAAA-TATTTT
128 CAAGGAAGACATTCAATTATAGTC-AGCTT-TAACTAAAACTA--TT
* * * *
50675 AAAAAATTTACCTTAAAATCAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTT
1 AAAAAATTAACC-TAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTT
* *
50740 GAAGAAATGGTAGACTATAAATGGACTTTTCTTTCAAATAAATGGATTTTT-CTACACGTTTCCC
65 GAAGAAATGGTAGACTATAAATGGACTTTTCTTACAAATAAATGG-TTTTTCCTACACATTTCCC
* *
50804 AAGGTAGGCATTCAATTATAGTCAGCTTTAA-TGAGAAA-TA-T
129 AAGGAAGACATTCAATTATAGTCAGCTTTAACT-A-AAACTATT
* *
50845 AAAAAATTCAACCTAAAATCAATTATGAGATTATAAAAATATTTAAAGCTAGTAATAAGGCTTTA
1 AAAAAATT-AACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTT
* * * * * * *
50910 CAAGAAATGGGT-GACTACAAATGGACTTTTCTTACCAATGAATGGTTTTTCCTTCATATTTCTC
65 GAAGAAAT-GGTAGACTATAAATGGACTTTTCTTACAAATAAATGGTTTTTCCTACACATTTCCC
* * * *
50974 GAGGAAGACATTGAATTATAGTCTGTTTTAACTAAAACTATT
129 AAGGAAGACATTCAATTATAGTCAGCTTTAACTAAAACTATT
* * * * *
51016 AAAAAAACTGAACATAAAATTAATTTTGAGATAATAAAACTATTTAAAG-TGAGTAATAAGGCTT
1 -AAAAAA-TTAACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCT-AGTAATAAGGCTT
* * * *** * * * ** **
51080 TTGAAGGAATGAG-AGACAATAAATAGACTTTTCTTATTGATGAAT-TTTTTTTCTTTATGTTTC
63 TTGAAGAAATG-GTAGACTATAAATGGACTTTTCTTACAAATAAATGGTTTTTCCTACACATTTC
** * * * * * *
51143 TTAAGGTAGACATTCAATTATAGTCTG-TCTAAACTAAAATTGTA
127 CCAAGGAAGACATTCAATTATAGTCAGCT-TTAACTAAAACTATT
** ** * * * * * *
51187 AAAAAAAAAATTATAAAATCAATTTTGAGATAATAAAACCATTTAAA-ATGGGTAA-ATGGCTTT
1 AAAAAATTAA-CCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCT-AGTAATAAGGCTTT
* * * ** * * *
51250 CGAA-AGAATGAGT-GACTATAAATGAACTTTTTTTATGAATGAATGCCTTTTT-CTTCACATTT
64 TGAAGA-AATG-GTAGACTATAAATGGACTTTTCTTACAAATAAATG-GTTTTTCCTACACATTT
* * * * * *
51312 CTCAATGTAGACATTCAATTATGGTCCA-TTTTAACTAATAA-TATA
126 CCCAAGGAAGACATTCAATTATAGT-CAGCTTTAACTAA-AACTATT
** * *
51357 AACAAAATTGAACAAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
1 AA-AAAATT-AACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTT
* * ** * *
51422 TGAAGGAATGAG-AGAATATAAATAAATTTTTCTTACTAATAAATG
64 TGAAGAAATG-GTAGACTATAAATGGACTTTTCTTACAAATAAATG
51467 CCTTTTTCTT
Statistics
Matches: 643, Mismatches: 113, Indels: 71
0.78 0.14 0.09
Matches are distributed among these distances:
169 51 0.08
170 220 0.34
171 228 0.35
172 138 0.21
173 6 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
AAAAAATTAACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGCTAGTAATAAGGCTTTTG
AAGAAATGGTAGACTATAAATGGACTTTTCTTACAAATAAATGGTTTTTCCTACACATTTCCCAA
GGAAGACATTCAATTATAGTCAGCTTTAACTAAAACTATT
Found at i:51020 original size:341 final size:338
Alignment explanation
Indices: 50366--51506 Score: 1014
Period size: 341 Copynumber: 3.3 Consensus size: 338
50356 NNNNNNNNNN
* * * * * *
50366 AAAACCCTTTAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTGACCAGAAAT-GAACTTTTCTT
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG-ACTTTTCTT
* * * * * * * ** * * * ** * *
50430 GCCAATGAATTCTTTTTTTTTCATGTTTTTCAAGATAGATATTCAATTATAATCTTTTTTAACTA
65 TCTAATAAATGCATTTTTCTTCACGTTTCCCAAGGTAGACATTCAATTATAGTCAGTCTAAACT-
* * * * * *
50495 AAAATGTAAAAAAAATTAAACTTAAAATCGATTACGAGATTATAAAACCATTTAAAGCGAGTAGT
129 AAAAT-TATAAAAAATTAAACATAAAATCAATTATGAGATTATAAAACCATTTAAAGCTAGTAAT
* * * * *
50560 AAGGCTTTTGA-AAG-AATGGGCGAATATGAATAGACTTTTCTTGTAAATGAATGCTTTTTTCTT
193 AAGGC-TTT-ACAAGAAATGGGTGACTATAAATGGACTTTTCTTATAAATGAATGC-TTTTTCTT
* * * * * *
50623 CACGTTTCATCACGTAGACATTCAATTATACTCTATTCTAGC-AAAATATTTTAAAAAATTTACC
255 CACATTTC-TCACGTAGACATTCAATTATAGTCTATTTTAACTAAAATA--TTAAAAAATTGAAC
*
50687 TTAAAATCAATTATGAGATTAT
317 ATAAAATCAATTATGAGATTAT
* * *
50709 AAAACCATTTGAAGCGAGTAATAAGGCTTTTGAAGAAATG-GTAGACTATAAATGGACTTTTCTT
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAG-AGACTATAAATAGACTTTTCTT
* * * * *
50773 TCAAATAAATGGATTTTTCTACACGTTTCCCAAGGTAGGCATTCAATTATAGTCAG-CTTTAA-T
65 TCTAATAAATGCATTTTTCTTCACGTTTCCCAAGGTAGACATTCAATTATAGTCAGTC-TAAACT
* * **
50836 GAGAAA-TATAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAAATATTTAAAGCTAGTAA
129 -A-AAATTATAAAAAATTAAACATAAAATCAATTATGAGATTATAAAACCATTTAAAGCTAGTAA
* ** *
50900 TAAGGCTTTACAAGAAATGGGTGACTACAAATGGACTTTTCTTACCAATGAATGGTTTTTCCTTC
192 TAAGGCTTTACAAGAAATGGGTGACTATAAATGGACTTTTCTTATAAATGAATGCTTTTT-CTTC
* * * * * *
50965 ATATTTCTCGAGGAAGACATTGAATTATAGTCTGTTTTAACTAAAACTATTAAAAAAACTGAACA
256 ACATTTCTC-ACGTAGACATTCAATTATAGTCTATTTTAACTAAAA-TATT-AAAAAATTGAACA
* * *
51030 TAAAATTAATTTTGAGATAAT
318 TAAAATCAATTATGAGATTAT
* * *
51051 AAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACAATAAATAGACTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTT-
* * ** * * ** *
51116 T-TGATGAAT-TTTTTTTCTTTATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTCTAAACTA
65 TCTAATAAATGCATTTTTCTTCACGTTTCCCAAGGTAGACATTCAATTATAGTCAGTCTAAACTA
* ** * * * * *
51179 AAATTGTAAAAAAAAAAATTATAAAATCAATTTTGAGATAATAAAACCATTTAAA-ATGGGTAA-
130 AAATTATAAAAAATTAAA-CATAAAATCAATTATGAGATTATAAAACCATTTAAAGCT-AGTAAT
* * * * *
51242 ATGGCTTT-CGAA-AGAATGAGTGACTATAAATGAACTTTTTTTATGAATGAATGCCTTTTTCTT
193 AAGGCTTTAC-AAGA-AATGGGTGACTATAAATGGACTTTTCTTATAAATGAATG-CTTTTTCTT
* * * *
51305 CACATTTCTCAATGTAGACATTCAATTATGGTCCATTTTAACTAATAATATAAACAAAATTGAAC
255 CACATTTCTC-ACGTAGACATTCAATTATAGTCTATTTTAACTAA-AATATTAA-AAAATTGAAC
*
51370 AAAAAATCAATTATGAGATTAT
317 ATAAAATCAATTATGAGATTAT
* * * *
51392 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGAATATAAATAAATTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTT
* *** *
51457 CTAATAAATGCCTTTTTCTTCACGTTTCTTTACGTAGACATTCAATTATA
66 CTAATAAATGCATTTTTCTTCACGTTTCCCAAGGTAGACATTCAATTATA
51507 ATAAAAAAGT
Statistics
Matches: 644, Mismatches: 129, Indels: 51
0.78 0.16 0.06
Matches are distributed among these distances:
339 1 0.00
340 20 0.03
341 348 0.54
342 172 0.27
343 102 0.16
344 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (338 bp):
AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTT
CTAATAAATGCATTTTTCTTCACGTTTCCCAAGGTAGACATTCAATTATAGTCAGTCTAAACTAA
AATTATAAAAAATTAAACATAAAATCAATTATGAGATTATAAAACCATTTAAAGCTAGTAATAAG
GCTTTACAAGAAATGGGTGACTATAAATGGACTTTTCTTATAAATGAATGCTTTTTCTTCACATT
TCTCACGTAGACATTCAATTATAGTCTATTTTAACTAAAATATTAAAAAATTGAACATAAAATCA
ATTATGAGATTAT
Found at i:51455 original size:513 final size:513
Alignment explanation
Indices: 50366--51508 Score: 1191
Period size: 513 Copynumber: 2.2 Consensus size: 513
50356 NNNNNNNNNN
* * * * * *
50366 AAAACCCTTTAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTGACCAGAAATGAACTTTTCTTG
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTACAAATGAACTTTTCTTA
* ** * * * *
50431 CCAATGAATTCTTTTTTTTTCATGTTTTTCAAGATAGATATTCAATTATAATCTTTTTTAACTAA
66 CCAATGAATGCTTTTTCCTTCATATTTCTCAAGATAGACATTCAATTATAATCTGTTTTAACTAA
* * * * * *
50496 AAATGTAAAAAAAATTAAACTTAAAATCGATTACGAGATTATAAAACCATTTAAAGCGAGTAGTA
131 AAATATAAAAAAAACTAAACATAAAATCAATTACGAGATAATAAAACCATTTAAAGCGAGTAATA
* * * *
50561 AGGCTTTTGAAAGAATGGGCGAATATGAATAGACTTTTCTTGTAAATGAATGCTTTTTTCTTCAC
196 AGGCTTTTGAAAGAATGAGAGAATATAAATAGACTTTTCTTATAAATGAATGCTTTTTTCTTCAC
* * * * *** *
50626 GTTTCATCACGTAGACATTCAATTATACTCTATTCTAGCAAAATATTTTAAAAAATTTACCTTAA
261 GTTTCATAACGTAGACATTCAATTATACTCTAGTCTAACAAAATATTGTAAAAAAAAAAACTTAA
* * * *
50691 AATCAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTTGAAGAAATGGTAGACT
326 AATCAATTATGAGATAATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGAAATGGTAGACT
* * * *
50756 ATAAATGGACTTTTCTTTCAAATAAATGGATTTTTCTACACGTTTCCCAAGGTAGGCATTCAATT
391 ATAAATGAACTTTTCTTTCAAATAAATGCATTTTTCTACACATTTCCCAAGGTAGACATTCAATT
**
50821 ATAGTCAGCTTTAATGAGAAATATAAAAAATTCAACCTAAAATCAATTATGAGATTAT
456 ATAGTCAGCTTTAATGAGAAATATAAAAAATTCAACAAAAAATCAATTATGAGATTAT
** * ** * * *
50879 AAAAATATTTAAAGCTAGTAATAAGGCTTTACAAGAAATGGGTGACTACAAATGGACTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTACAAATGAACTTTTCTTA
* * * *
50944 CCAATGAATGGTTTTTCCTTCATATTTCTCGAGGA-AGACATTGAATTATAGTCTGTTTTAACTA
66 CCAATGAATGCTTTTTCCTTCATATTTCTC-AAGATAGACATTCAATTATAATCTGTTTTAACTA
* * * * ** * *
51008 AAACTATTAAAAAAACTGAACATAAAATTAATTTTGAGATAATAAAACTATTTAAAGTGAGTAAT
130 AAAATATAAAAAAAACTAAACATAAAATCAATTACGAGATAATAAAACCATTTAAAGCGAGTAAT
* ** * *
51073 AAGGCTTTTGAAGGAATGAGAGACA-ATAAATAGACTTTTCTTATTGATGAAT-TTTTTTTCTTT
195 AAGGCTTTTGAAAGAATGAGAGA-ATATAAATAGACTTTTCTTATAAATGAATGCTTTTTTCTTC
* * * * * *
51136 ATGTTTCTTAAGGTAGACATTCAATTATAGTCT-GTCTAAACTAAA-ATTGTAAAAAAAAAAATT
259 ACGTTTCATAACGTAGACATTCAATTATACTCTAGTCT-AACAAAATATTGTAAAAAAAAAAACT
* * * *
51199 ATAAAATCAATTTTGAGATAATAAAACCATTTAAAATGGGTAA-ATGGCTTTCGAA-AGAATGAG
323 -TAAAATCAATTATGAGATAATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGA-AATG-G
* * * * *
51262 T-GACTATAAATGAACTTTT-TTT-ATGAATGAATGCCTTTTTCTTCACATTTCTCAATGTAGAC
385 TAGACTATAAATGAACTTTTCTTTCA--AATAAATGCATTTTTCTACACATTTCCCAAGGTAGAC
* * *
51324 ATTCAATTATGGTCCA-TTTTAACT-A-ATAATATAAACAAAATTGAACAAAAAATCAATTATGA
448 ATTCAATTATAGT-CAGCTTTAA-TGAGA-AATAT-AA-AAAATTCAACAAAAAATCAATTATGA
51386 GATTAT
508 GATTAT
* * * * *
51392 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGAATATAAATAAATTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTACAAATGAACTTTTCTTA
* * ** * *
51457 CTAATAAATGCCTTTTT-CTTCACGTTTCTTTACG-TAGACATTCAATTATAAT
66 CCAATGAATG-CTTTTTCCTTCATATTTC-TCAAGATAGACATTCAATTATAAT
51509 AAAAAAGTAA
Statistics
Matches: 508, Mismatches: 106, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
509 1 0.00
510 5 0.01
511 98 0.19
512 85 0.17
513 309 0.61
514 10 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (513 bp):
AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTACAAATGAACTTTTCTTA
CCAATGAATGCTTTTTCCTTCATATTTCTCAAGATAGACATTCAATTATAATCTGTTTTAACTAA
AAATATAAAAAAAACTAAACATAAAATCAATTACGAGATAATAAAACCATTTAAAGCGAGTAATA
AGGCTTTTGAAAGAATGAGAGAATATAAATAGACTTTTCTTATAAATGAATGCTTTTTTCTTCAC
GTTTCATAACGTAGACATTCAATTATACTCTAGTCTAACAAAATATTGTAAAAAAAAAAACTTAA
AATCAATTATGAGATAATAAAACCATTTAAAACGAGTAATAAGGCTTTCGAAGAAATGGTAGACT
ATAAATGAACTTTTCTTTCAAATAAATGCATTTTTCTACACATTTCCCAAGGTAGACATTCAATT
ATAGTCAGCTTTAATGAGAAATATAAAAAATTCAACAAAAAATCAATTATGAGATTAT
Found at i:51472 original size:172 final size:170
Alignment explanation
Indices: 50366--51585 Score: 1005
Period size: 172 Copynumber: 7.2 Consensus size: 170
50356 NNNNNNNNNN
* * * * * *
50366 AAAACCCTTTAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTGACCAGAAAT-GAACTTTTCTT
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG-ACTTTTCTT
* * * * * * * * * *
50430 GCCAATGAATTCTTTTTTTTTCATGTTTTTCAAGATAGATATTCAATTATAATCTTTTTTAACTA
65 ACTAATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACT-
* * * *
50495 AAAATGTAAAAAAAATTAAACTTAAAATCGATTACGAGATTAT
129 AAAATAT-AAAAAAATTAAACATAAAATCAATTATGAGATTAT
* * * * * *
50538 AAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAAGAATGGGCGAATATGAATAGACTTTTCTT-
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTA
* * * * *
50602 GTAAATGAATGCTTTTTTCTTCACGTTTCATC-ACGTAGACATTCAATTATACTCTATTCTAGC-
66 CT-AATGAATGCTTTTTTCTTCACGTTTC-TCAAGGTAGACATTCAATTATAGTCTATTTTAACT
* * * *
50665 AAAATATTTTAAAAAATTTACCTTAAAATCAATTATGAGATTAT
129 AAAATA--TAAAAAAATTAAACATAAAATCAATTATGAGATTAT
* * *
50709 AAAACCATTTGAAGCGAGTAATAAGGCTTTTGAAGAAATG-GTAGACTATAAATGGACTTTTCTT
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAG-AGACTATAAATAGACTTTTCTT
* * * ** * * * *
50773 TCAAATAAATGGATTTTTCTACACGTTTCCCAAGGTAGGCATTCAATTATAGTC-AGCTTTAA-T
65 ACTAATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTA-TTTTAACT
* *
50836 GAGAAATAT-AAAAAATTCAACCTAAAATCAATTATGAGATTAT
129 -A-AAATATAAAAAAATTAAACATAAAATCAATTATGAGATTAT
** * ** * * * * *
50879 AAAAATATTTAAAGCTAGTAATAAGGCTTTACAAGAAATGGGTGACTACAAATGGACTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTA
* * * ** * * * *
50944 CCAATGAATGGTTTTTCCTTCATATTTCTCGAGGAAGACATTGAATTATAGTCTGTTTTAACTAA
66 CTAATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACTAA
* * * * *
51009 AACTATTAAAAAAACTGAACATAAAATTAATTTTGAGATAAT
131 AA-TA-TAAAAAAATTAAACATAAAATCAATTATGAGATTAT
* * *
51051 AAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACAATAAATAGACTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTA
* * * * * * * * *
51116 TTGATGAAT-TTTTTTTCTTTATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTCTAAACTAA
66 CTAATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACTAA
* * * * *
51180 AATTGTAAAAAAA-AAAATTATAAAATCAATTTTGAGATAAT
131 AA-TATAAAAAAATTAAA-CATAAAATCAATTATGAGATTAT
** * * * * * *
51221 AAAACCATTTAAAATGGGTAA-ATGGCTTTCGAAAGAATGAGTGACTATAAAT-GAACTTTTTTT
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAG-ACTTTTCTT
* * * * *
51284 A-TGAATGAATGCCTTTTTCTTCACATTTCTCAATGTAGACATTCAATTATGGTCCATTTTAACT
65 ACT-AATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACT
* *
51348 AATAATATAAACAAAATTGAACAAAAAATCAATTATGAGATTAT
129 AA-AATATAAA-AAAATTAAACATAAAATCAATTATGAGATTAT
* * *
51392 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGAATATAAATAAATTTTTCTTA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTA
* * ** *
51457 CTAATAAATGCCTTTTTCTTCACGTTTCTTTACGTAGACATTCAATTATA----A---TAA--AA
66 CTAATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACTAA
* * *
51513 AAGTA-AAAAAAATTGAACTTACAATCAAATT-TGAGATTAT
131 AA-TATAAAAAAATTAAACATAAAATC-AATTATGAGATTAT
** *
51553 AAAACCATTTAAAATGAGTAATACGG-TTTTGAA
1 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
51586 TGAGCAGGTG
Statistics
Matches: 853, Mismatches: 165, Indels: 72
0.78 0.15 0.07
Matches are distributed among these distances:
160 7 0.01
161 47 0.06
162 9 0.01
163 4 0.00
165 3 0.00
168 3 0.00
169 46 0.05
170 237 0.28
171 223 0.26
172 265 0.31
173 9 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTA
CTAATGAATGCTTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACTAA
AATATAAAAAAATTAAACATAAAATCAATTATGAGATTAT
Found at i:52247 original size:169 final size:170
Alignment explanation
Indices: 52062--52386 Score: 447
Period size: 169 Copynumber: 1.9 Consensus size: 170
52052 NNNNNNNNNN
* * * * * *
52062 GCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCTTCCAAATAAATGGTTTTTTGTATACGT
1 GCTTTTGAAAGAATGAGAGAATATAAATAGACTGTTCTTCCAAATAAATAGATTTTTCTACACGT
* * * *
52127 TTCCTGAGACAGGCATTCAATTACAATATGTTTTAA-AAAAAATGTATAAAATTTAACTTAAAAT
66 TTCCTGAGACAAGCATTCAATTACAATATGTTTTAATAAAAAATATAAAAAATTCAACTTAAAAT
52191 CAATTATGAGATTATAAAACCATTTAGAGCGTGTAATAAG
131 CAATTATGAGATTATAAAACCATTTAGAGCGTGTAATAAG
*
52231 GCTTTT-AAATGAATGAGAGAATATAAATAGACTGTTCTTCGAAATAAATAGATTTTTCTACACG
1 GCTTTTGAAA-GAATGAGAGAATATAAATAGACTGTTCTTCCAAATAAATAGATTTTTCTACACG
* * * * * * **
52295 TTTCTTGAGTCAAGCTTTCAATTATAGTCTGTTTTAATAGGAAATATAAAAAATTCAACTTAAAA
65 TTTCCTGAGACAAGCATTCAATTACAATATGTTTTAATAAAAAATATAAAAAATTCAACTTAAAA
*
52360 TCAATTATGAGATTATAAAACTATTTA
130 TCAATTATGAGATTATAAAACCATTTA
52387 AAANNNNNNN
Statistics
Matches: 134, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
168 3 0.02
169 83 0.62
170 48 0.36
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (170 bp):
GCTTTTGAAAGAATGAGAGAATATAAATAGACTGTTCTTCCAAATAAATAGATTTTTCTACACGT
TTCCTGAGACAAGCATTCAATTACAATATGTTTTAATAAAAAATATAAAAAATTCAACTTAAAAT
CAATTATGAGATTATAAAACCATTTAGAGCGTGTAATAAG
Found at i:58535 original size:172 final size:159
Alignment explanation
Indices: 58337--58646 Score: 280
Period size: 171 Copynumber: 1.9 Consensus size: 159
58327 NNNNNNNNAG
* * * * * * *
58337 GGAATGGGTGGCTATGAATAGACTTTTCTTGCAAATAAATTCATTTTTTTTTTACATTTCT-TAG
1 GGAATGGGAGACTATAAATAGACTTTTCTTCCAAATAAA-TCATTTTTTCTATACATTTCTCGAG
*** * * * * * *
58401 GGTGGACATTTAATTATAGTTTGTTTTAACCAAAAATGTAACAAAATTTAACTTAAAATCAATTA
65 ACAGG-CATTCAATTATAATCTATTTTAACAAAAAATGT-ACAAAATTCAACTTAAAATCAATTA
58466 TAAGATTATAAAGCTATTTANNNNNNNNNNNAAGGCTTTTGAA
128 TAAGATTATAAAGCTATTTA-----------AAGGCTTTTGAA
* ** **
58509 GGAATGGGAGACTATAAATGGACTTTTCTTCCAAATAAATGGTTTTTTCTATATGTTTCTCGAGA
1 GGAATGGGAGACTATAAATAGACTTTTCTTCCAAATAAATCATTTTTTCTATACATTTCTCGAGA
* *
58574 CAGGCATTCAATTATAATCTATTTTAACAAAAAATGTATAAAATTCAACTTAAAATCAATTATGA
66 CAGGCATTCAATTATAATCTATTTTAACAAAAAATGTACAAAATTCAACTTAAAATCAATTATAA
58639 GATTATAA
131 GATTATAA
58647 NNNNNNNNNN
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
170 33 0.29
171 43 0.38
172 38 0.33
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.37
Consensus pattern (159 bp):
GGAATGGGAGACTATAAATAGACTTTTCTTCCAAATAAATCATTTTTTCTATACATTTCTCGAGA
CAGGCATTCAATTATAATCTATTTTAACAAAAAATGTACAAAATTCAACTTAAAATCAATTATAA
GATTATAAAGCTATTTAAAGGCTTTTGAA
Found at i:61716 original size:169 final size:169
Alignment explanation
Indices: 61540--64055 Score: 1066
Period size: 172 Copynumber: 14.9 Consensus size: 169
61530 NNNNNAGAGG
* *
61540 CTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTCTACATGTCACGAGGTATG-CATTCA
1 CTATAAATAGACTTTTCTTGCCAATGAATG-CTTTTTCTCTACATTTCTCGAGGTA-GACATTCA
* * * *
61604 ATTGTAATCTGTTTTAACTAAAAATATAAAAAAATTGAACTTTAAATCAAATT-TGAGATTA-CA
64 ATTATAGTCTGTTTTAA-TAAAAATATAAAAAAATTGAACTTAAAATC-AATTATGAGATTATAA
* *
61667 AACCATTTTAAA-TG-GTAATAAGGCTTTTGAAGGAATGGGTGA
127 AACCA-TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * *
61709 CTATAAAT-GTACTTTTCTTACCAATAAATATCTTTTTCT-TCACGTTTCTCGATGTAGACATTT
1 CTATAAATAG-ACTTTTCTTGCCAATGAAT-GCTTTTTCTCT-ACATTTCTCGAGGTAGACATTC
** * * * * *
61772 AATTATAGTCTGTTTTAACTAGTAATGTAAAAAAAGTTTAACATAAAATCCATTATAAGATTATA
63 AATTATAGTCTGTTTTAA-TAAAAATATAAAAAAA-TTGAACTTAAAATCAATTATGAGATTATA
* * * * ** *
61837 AAACTATTTAAAACGAGTAGTAAGGCTTTTAAAGGAATGAAAGG
126 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * * ** *
61881 CTATAAATGGATTTTTCTTCCCAATGAATACCTTTTTCT-TCACGTTTCTTGATATAGGCATTCA
1 CTATAAATAGACTTTTCTTGCCAATGAAT-GCTTTTTCTCT-ACATTTCTCGAGGTAGACATTCA
* * * *
61945 ATGATAATCTGTTTTAATCAAAAAGTA-AAACAAATTGAACTTAAAATCAATTTTGAGATTATAA
64 ATTATAGTCTGTTTTAAT-AAAAA-TATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAA
* * * * * *
62009 ATCTATTTAAAGTGAGTAATAAGGTTTTTG-AGAAAATGGGTGA
127 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAG-GAATGGGAGA
* ** * ** *
62052 CTATAAATAGACTTTTCTTGCAAATGAAT--TCATT-TC-AC-TTTTTTTATGGTAGACATTTAA
1 CTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTCTCTACATTTCTCGA-GGTAGACATTCAA
* * * * * *
62112 TTATAGTCTGTTTTAACTAAAAATGTAAAAAAACTCAAATCAAAATCAATTATAAGATTATAAAA
65 TTATAGTCTGTTTTAA-TAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAA
* *
62177 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAAA
129 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
*** * * * * **
62218 CTATAAATAGACTTTT-TTTTAAATAAATAGGTTTTTCTAC-ACGTTTGTCGAGCCA-AGCATTC
1 CTATAAATAGACTTTTCTTGCCAATGAAT-GCTTTTTCT-CTACATTTCTCGAGGTAGA-CATTC
** * * *
62280 AATTACGGTCTGTTTTAATAAAAATTATAAAAAAGTCG-ACTTAAAATGAATTATGAGATTATAA
63 AATTATAGTCTGTTTTAATAAAAA-TATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAA
* * * *
62344 AACCATTTAAACCGACTAATTAGGCTTTTGAAGGAATAGGAGA
127 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * * * * * *
62387 CTAAAAATGGACTTTTTTTTTCAAATAAATAGGTTTTT-T-TACATGTT-TCCTAAGGCAGACTT
1 CTATAAATAGAC-TTTTCTTGCCAATGAAT-GCTTTTTCTCTACAT-TTCT-C-GAGGTAGACAT
** *
62449 TCAATTATAGTC-GATTTTAATGAGTAATAT-AAAAAATTTAACTTAAAATCAATTATGAGATTA
61 TCAATTATAGTCTG-TTTTAAT-AAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
* * *
62512 TAAAACCATTTACAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGA
124 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* *
62558 CTATAAATAGAC-TTTCTCGCCAATGAATGCTTTTT-TCTTCATGTTTCTCGAGGTAGACATTCA
1 CTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTCTCTACA--TTTCTCGAGGTAGACATTCA
* * * * * * *
62621 ATTATAGTCTGTTTTATTTAAAAATATTAAAAAATTTAAACATAAAATTAATTTTGAGATAATAA
64 ATTATAGTCTGTTTTA-ATAAAAATA-TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAA
* * *
62686 AACCATTTAATGTGAGTAATAAGGC---T-------T-----N
127 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
*****************************************************************
62714 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 CTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTCTCTACATTTCTCGAGGTAGACATTCAAT
**********************************
62779 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAACTTAAAATCAAATT-TGAGATTAT-AAAC
66 TATAGTCTGTTTTAATAAAAATATAAAAAAATTGAACTTAAAATC-AATTATGAGATTATAAAAC
** * * *
62842 CATTTAAATTTG-GTAATAAGGTTTTTGAAGGAATAGGTGA
130 CATTTAAA-GCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * * * *
62882 CTGTAAAT-GAACTTTTCTTGTCAATAAATATCTCTTTCT-TCACGTTTCTAGACGTAGACATTC
1 CTATAAATAG-ACTTTTCTTGCCAATGAAT-GCTTTTTCTCT-ACATTTCTCGAGGTAGACATTC
* * * *
62945 AATTATAGTCTGTTTTAACCAATAATGTAAAAAAAATTGAACATAAAATCAATTATGAGATTATA
63 AATTATAGTCTGTTTTAA-TAAAAATAT-AAAAAAATTGAACTTAAAATCAATTATGAGATTATA
* *
63010 AAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATGAGAGA
126 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * *
63054 CTATAAATAGATTTTTCTTGCCAATGAATGCCTTTTTCT-T-CATGTTTTTCAATGTAGACATTC
1 CTATAAATAGACTTTTCTTGCCAATGAATG-CTTTTTCTCTACA--TTTCTCGAGGTAGACATTC
* * * * *
63117 AATTATAGTCTATTTTAATCAATAATGTAAAAACAAATTGAGCATAAAATCAATTATGAGATTAT
63 AATTATAGTCTGTTTTAAT-AAAAATAT-AAAA-AAATTGAACTTAAAATCAATTATGAGATTAT
* *
63182 AAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGGAGA
125 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * **
63227 CTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTCTACATGTCAT-GAGGTATCCATTCA
1 CTATAAATAGACTTTTCTTGCCAATGAATG-CTTTTTCTCTACATTTC-TCGAGGTAGACATTCA
* * * * * *
63291 ATTGTAATCTATTTTAACTAAAATTGTAAAAAAATTGAA-TCTAAAATCAAATT-TGAGACTAT-
64 ATTATAGTCTGTTTTAA-TAAAAATATAAAAAAATTGAACT-TAAAATC-AATTATGAGATTATA
** ** ** *
63353 AAACCATTTAAAATG-GTAATAAGGCTTTTGAAAAAATAAGTGA
126 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * ** * **
63396 CTATAAATGGACTTTTCTTGTCAAT---T--TTTCT-TC-ATGTTTCTGGACATAGACATTCAAT
1 CTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTCTCTACATTTCTCGAGGTAGACATTCAAT
* * * *
63454 TATAGTCTGTTTTAACTAATAATGTAAAAAAAATTTAACATAAAATCAATTATGAGATTATAAAA
66 TATAGTCTGTTTTAA-TAAAAATAT-AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAA
* * * *
63519 CTATTTAAAGCAAGTAGTAAGGCTTTTGAAGGAATAGGAGA
129 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * * * * *
63560 CTATAAATACATTTTTGTTGCCAATGAATACCTTTTTCT-TCACGTTTCTTGATGTAGATATTTA
1 CTATAAATAGACTTTTCTTGCCAATGAAT-GCTTTTTCTCT-ACATTTCTCGAGGTAGACATTCA
* * * *
63624 ATTATAATCTGTTTTAATCAAAAA-AGTAAAATACATTGAACTGAAAATCAATTTTGAGATTATA
64 ATTATAGTCTGTTTTAAT-AAAAATA-TAAAA-AAATTGAACTTAAAATCAATTATGAGATTATA
* * * * * * *
63688 AATCCATTTAAAGTGAGTAATAAAGTTTTTTAGGGAATGGGTGA
126 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * * *
63732 CTATAAATAGACTTTTCTTGCAAATGAATTCAATTTTTTTC-ACGTTTCTTGTGGTAAACATTCA
1 CTATAAATAGACTTTTCTTGCCAATGAATGC--TTTTTCTCTACATTTCTCGAGGTAGACATTCA
* * ** * * *
63796 ATTATAGTCTATTTTAACCAAAAAGGT-AAAAAATTCAACTTAAAATCAATTATAAGACTATAAA
64 ATTATAGTCTGTTTTAA-TAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA
* * *
63860 ACTATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGAGAGA
128 ACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * **
63902 CTATAAATAGACTTTTGTT-CCAAATAAATAG-TTTTT-TTTACATGTTTCCTC-AGACAGACAT
1 CTATAAATAGACTTTTCTTGCC-AATGAAT-GCTTTTTCTCTACA--TTT-CTCGAGGTAGACAT
* * * * * * *
63963 TCAATTACAATCTATTTTAACAAAAA-ACTATATAAAATTTAACTTAAAATCAATTATAAGATTA
61 TCAATTATAGTCTGTTTTAATAAAAATA-TA-AAAAAATTGAACTTAAAATCAATTATGAGATTA
*
64027 TAAAACCATTTAAAGCGTGTAATAAGGCT
124 TAAAACCATTTAAAGCGAGTAATAAGGCT
64056 NNNNNNNNNN
Statistics
Matches: 1715, Mismatches: 517, Indels: 228
0.70 0.21 0.09
Matches are distributed among these distances:
153 20 0.01
154 19 0.01
155 4 0.00
156 1 0.00
160 1 0.00
161 41 0.02
162 28 0.02
163 16 0.01
164 43 0.03
165 16 0.01
166 109 0.06
167 6 0.00
168 24 0.01
169 260 0.15
170 214 0.12
171 373 0.22
172 385 0.22
173 150 0.09
174 3 0.00
175 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (169 bp):
CTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTCTCTACATTTCTCGAGGTAGACATTCAAT
TATAGTCTGTTTTAATAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
Found at i:62070 original size:171 final size:170
Alignment explanation
Indices: 61540--62712 Score: 899
Period size: 171 Copynumber: 6.9 Consensus size: 170
61530 NNNNNAGAGG
* * * * *
61540 CTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTC-TCTACATGTCACGAGGTATG-CATTC
1 CTATAAATAGACTTTTCTTCCCAATGAATACCTTTTTCTTC-ACGTTTCTCGAGGTA-GACATTC
* * *
61603 AATTGTAATCTGTTTTAA-CTAAAAATATAAAAAAATTGAACTTTAAATCAAATT-TGAGATTA-
64 AATTATAGTCTGTTTTAATC-AAAAATAT-AAAAAATTGAACTTAAAATC-AATTATGAGATTAT
* * * *
61665 CAAACCATTTTAAA-TG-GTAATAAGGCTTTTGAAGGAATGGGTGA
126 AAAACCA-TTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGAGA
* * * * *
61709 CTATAAAT-GTACTTTTCTTACCAATAAATATCTTTTTCTTCACGTTTCTCGATGTAGACATTTA
1 CTATAAATAG-ACTTTTCTTCCCAATGAATACCTTTTTCTTCACGTTTCTCGAGGTAGACATTCA
** * * * * *
61773 ATTATAGTCTGTTTTAA-CTAGTAATGTAAAAAAAGTTTAACATAAAATCCATTATAAGATTATA
65 ATTATAGTCTGTTTTAATC-AAAAATAT-AAAAAA-TTGAACTTAAAATCAATTATGAGATTATA
* * * * * ** *
61837 AAACTATTTAAAACGAGTAGTAAGGCTTTTAAAGGAATGAAAGG
127 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGAGA
* * * ** *
61881 CTATAAATGGATTTTTCTTCCCAATGAATACCTTTTTCTTCACGTTTCTTGATATAGGCATTCAA
1 CTATAAATAGACTTTTCTTCCCAATGAATACCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAA
* * *
61946 TGATAATCTGTTTTAATCAAAAAGTA-AAACAAATTGAACTTAAAATCAATTTTGAGATTATAAA
66 TTATAGTCTGTTTTAATCAAAAA-TATAAA-AAATTGAACTTAAAATCAATTATGAGATTATAAA
* * * * *
62010 TCTATTTAAAGTGAGTAATAAGGTTTTTG-AGAAAATGGGTGA
129 ACCATTTAAAGCGAGTAATAAGGCTTTTGAAG-AAATGGGAGA
* * ** * ** *
62052 CTATAAATAGACTTTTCTTGCAAATG-A-A--TTCAT-TTCAC-TTTTTTTATGGTAGACATTTA
1 CTATAAATAGACTTTTCTTCCCAATGAATACCTTTTTCTTCACGTTTCTCGA-GGTAGACATTCA
* * * * * *
62111 ATTATAGTCTGTTTTAA-CTAAAAATGTAAAAAAACTCAAATCAAAATCAATTATAAGATTATAA
65 ATTATAGTCTGTTTTAATC-AAAAATAT-AAAAAATTGAACTTAAAATCAATTATGAGATTATAA
* * *
62175 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAAA
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGAGA
*** * ** * * **
62218 CTATAAATAGACTTTT-TTTTAAATAAATAGGTTTTTCTACACGTTTGTCGAGCCA-AGCATTCA
1 CTATAAATAGACTTTTCTTCCCAATGAATACCTTTTTCTTCACGTTTCTCGAGGTAGA-CATTCA
** * *
62281 ATTACGGTCTGTTTTAAT-AAAAATTATAAAAAAGTCG-ACTTAAAATGAATTATGAGATTATAA
65 ATTATAGTCTGTTTTAATCAAAAA-TATAAAAAA-TTGAACTTAAAATCAATTATGAGATTATAA
* * * * *
62344 AACCATTTAAACCGACTAATTAGGCTTTTGAAGGAATAGGAGA
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGAGA
* * * * * * ** * * * *
62387 CTAAAAATGGACTTTTTTTTTCAAATAAATAGGTTTTT-TTACATGTTTC-CTAAGGCAGACTTT
1 CTATAAATAGAC-TTTTCTTCCCAATGAATACCTTTTTCTT-CACGTTTCTC-GAGGTAGACATT
* ** *
62450 CAATTATAGTC-GATTTTAATGAGTAATATAAAAAATTTAACTTAAAATCAATTATGAGATTATA
63 CAATTATAGTCTG-TTTTAATCAAAAATATAAAAAATTGAACTTAAAATCAATTATGAGATTATA
* *
62514 AAACCATTTACAGCGAGTAATAAGGCTTTTGAA-AGAATGGGTGA
127 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGA-AATGGGAGA
* * *
62558 CTATAAATAGAC-TTTC-TCGCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGTAGACATTCA
1 CTATAAATAGACTTTTCTTC-CCAATGAATACCTTTTTCTTCACGTTTCTCGAGGTAGACATTCA
* * * * * * *
62621 ATTATAGTCTGTTTTATTTAAAAATATTAAAAAATTTAAACATAAAATTAATTTTGAGATAATAA
65 ATTATAGTCTGTTTTAATCAAAAATA-TAAAAAA-TTGAACTTAAAATCAATTATGAGATTATAA
* *
62686 AACCATTTAATGTGAGTAATAAGGCTT
128 AACCATTTAAAGCGAGTAATAAGGCTT
62713 NNNNNNNNNN
Statistics
Matches: 800, Mismatches: 161, Indels: 84
0.77 0.15 0.08
Matches are distributed among these distances:
165 14 0.02
166 109 0.14
167 9 0.01
168 3 0.00
169 219 0.27
170 76 0.09
171 266 0.33
172 101 0.13
173 3 0.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (170 bp):
CTATAAATAGACTTTTCTTCCCAATGAATACCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAA
TTATAGTCTGTTTTAATCAAAAATATAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAAC
CATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGAGA
Found at i:63113 original size:172 final size:171
Alignment explanation
Indices: 62817--64055 Score: 1154
Period size: 172 Copynumber: 7.3 Consensus size: 171
62807 NNNNNNAACT
** *
62817 TAAAATCAAATT-TGAGATTAT-AAACCATTTAAATTTG-GTAATAAGGTTTTTGAAGGAAT-AG
1 TAAAATC-AATTATGAGATTATAAAACCATTTAAA-GCGAGTAATAAGGCTTTTGAAGGAATGA-
* * * * ** * * *
62878 GTGACTGTAAAT-GAACTTTTCTTGTCAATAAATATCTCTTTCTTCACGTTTCTAGACGTAGACA
63 GAGACTATAAATAG-ACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCT-GATGTAGACA
* *
62942 TTCAATTATAGTCTGTTTTAACCAATAATGTAAAAAAAATTGAACA
126 TTCAATTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAACA
*
62988 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATGAGAG
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAG
* * *
63053 ACTATAAATAGATTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTTTCAATGTAGACATTCA
66 ACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCT-GATGTAGACATTCA
* * *
63118 ATTATAGTCTATTTTAATCAATAATGTAAAAACAAATTGAGCA
130 ATTATAGTCTATTTTAACCAAAAATGTAAAAA-AAATTGAACA
* * *
63161 TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGGAG
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAG
* * **
63226 ACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTCTACATG--TCATGAGGTATCCATT
66 ACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCT-T-CATGTTTC-TGATGTAGACATT
* * * *
63289 CAATTGTAATCTATTTTAACTAAAATTGT-AAAAAAATTGAATC-
128 CAATTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAA-CA
* ** ** * *
63332 TAAAATCAAATT-TGAGACTAT-AAACCATTTAAAATG-GTAATAAGGCTTTTGAAAAAATAAGT
1 TAAAATC-AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGA
* * **
63394 GACTATAAATGGACTTTTCTTG----TCAA----TTTTTCTTCATGTTTCTGGACATAGACATTC
65 GACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCT-GATGTAGACATTC
* * * *
63451 AATTATAGTCTGTTTTAACTAATAATGTAAAAAAAATTTAACA
129 AATTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAACA
* * *
63494 TAAAATCAATTATGAGATTATAAAACTATTTAAAGCAAGTAGTAAGGCTTTTGAAGGAAT-AGGA
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA-GA
* * * * * * *
63558 GACTATAAATACATTTTTGTTGCCAATGAATACCTTTTTCTTCACGTTTCTTGATGTAGATATTT
65 GACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTC-TGATGTAGACATTC
* * * * * *
63623 AATTATAATCTGTTTTAATCAAAAAAGTAAAATACATTGAAC-
129 AATTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAACA
* * * * * * * * *
63665 TGAAAATCAATTTTGAGATTATAAATCCATTTAAAGTGAGTAATAAAGTTTTTTAGGGAATGGGT
1 T-AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGA
* * * * *
63730 GACTATAAATAGACTTTTCTTGCAAATGAATTCAATTTTT-TTCACGTTTCTTG-TGGTAAACAT
65 GACTATAAATAGACTTTTCTTGCCAATGAATGC-CTTTTTCTTCATGTTTC-TGAT-GTAGACAT
* * *
63793 TCAATTATAGTCTATTTTAACCAAAAAGGT--AAAAAATTCAACT
127 TCAATTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAACA
* * * *
63836 TAAAATCAATTATAAGACTATAAAACTATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGAGAG
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAG
* * * * *
63901 ACTATAAATAGACTTTTGTT-CCAAATAAATAG--TTTTTTTTACATGTTTCCTCA-GACAGACA
66 ACTATAAATAGACTTTTCTTGCC-AATGAAT-GCCTTTTTCTT-CATGTTT-CTGATG-TAGACA
* * ** * * * *
63962 TTCAATTACAATCTATTTTAA-CAAAAAACTATATAAAATTTAACT
126 TTCAATTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAACA
* *
64007 TAAAATCAATTATAAGATTATAAAACCATTTAAAGCGTGTAATAAGGCT
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
64056 NNNNNNNNNN
Statistics
Matches: 884, Mismatches: 141, Indels: 86
0.80 0.13 0.08
Matches are distributed among these distances:
159 4 0.00
160 2 0.00
161 46 0.05
162 26 0.03
163 12 0.01
164 38 0.04
165 3 0.00
168 8 0.01
169 53 0.06
170 133 0.15
171 101 0.11
172 304 0.34
173 148 0.17
174 2 0.00
175 4 0.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (171 bp):
TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAG
ACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTGATGTAGACATTCAA
TTATAGTCTATTTTAACCAAAAATGTAAAAAAAATTGAACA
Found at i:63501 original size:506 final size:503
Alignment explanation
Indices: 62813--64052 Score: 1472
Period size: 506 Copynumber: 2.4 Consensus size: 503
62803 NNNNNNNNNN
* * * *
62813 AACTTAAAATCAAATTTGAGATTATAAACCATTTAAATTTGGTAATAAGGTTTTTGAAGGAATAG
1 AACTTAAAATCAAATTTGAGACTATAAACCATTTAAA-ATGGTAATAAGGCTTTTGAAGGAATAA
* * *
62878 GTGACTGTAAATGAACTTTTCTTGTCAATAAATATCTCTTTCTTCACGTTTCTAGACGTAGACAT
65 GTGACTATAAATGGACTTTTCTTGTC-----ATAT-T-TTTCTTCATGTTTCTAGAC-TAGACAT
*
62943 TCAATTATAGTCTGTTTTAACCAATAATGTAAAAAAAATTGAACATAAAATCAATTATGAGATTA
122 TCAATTATAGTCTGTTTTAA-CAATAATGTAAAAAAAATTTAACATAAAATCAATTATGAGATTA
*
63008 TAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAAT-GAGAGACTATAAATAGATTTTTCT
186 TAAAACCATTTAAAGCGAGTAATAAGACTTTTGAAGGAATAG-GAGACTATAAATACATTTTTCT
* * *
63072 TGCCAATGAATGCCTTTTTCTTCATGTTT-TTCAATGTAGACATTCAATTATAGTCTATTTTAAT
250 TGCCAATGAATACCTTTTTCTTCACGTTTCTT-AATGTAGACATTCAATTATAATCTATTTTAAT
* * *
63136 CAATAATGTAAAA-ACAAATTGAGCAT-AAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
314 CAAAAAAGTAAAATAC--ATTGAAC-TGAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
* * * *
63199 GTAATAAGGCTTTTAAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGC-CTTTT
376 GTAATAAAGCTTTTAAAGGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCAATTTT
** * * ** *
63263 TCTCTACATGTCATGAGGTATCCATTCAATTGTAATCTATTTTAACTAAAATTGTAAAAAAATTG
441 TCTC-ACATGTCATGAGGTAAACATTCAATTATAATCTATTTTAACCAAAAAGGT-AAAAAATTC
**
63328 AA-TCTAAAATCAAATTTGAGACTATAAACCATTTAAAATGGTAATAAGGCTTTTGAAAAAATAA
1 AACT-TAAAATCAAATTTGAGACTATAAACCATTTAAAATGGTAATAAGGCTTTTGAAGGAATAA
*
63392 GTGACTATAAATGGACTTTTCTTGTCA-ATTTTTCTTCATGTTTCTGGACATAGACATTCAATTA
65 GTGACTATAAATGGACTTTTCTTGTCATATTTTTCTTCATGTTTCTAGAC-TAGACATTCAATTA
*
63456 TAGTCTGTTTTAACTAATAATGTAAAAAAAATTTAACATAAAATCAATTATGAGATTATAAAACT
129 TAGTCTGTTTTAAC-AATAATGTAAAAAAAATTTAACATAAAATCAATTATGAGATTATAAAACC
* * * *
63521 ATTTAAAGCAAGTAGTAAGGCTTTTGAAGGAATAGGAGACTATAAATACATTTTTGTTGCCAATG
193 ATTTAAAGCGAGTAATAAGACTTTTGAAGGAATAGGAGACTATAAATACATTTTTCTTGCCAATG
* * * *
63586 AATACCTTTTTCTTCACGTTTCTTGATGTAGATATTTAATTATAATCTGTTTTAATCAAAAAAGT
258 AATACCTTTTTCTTCACGTTTCTTAATGTAGACATTCAATTATAATCTATTTTAATCAAAAAAGT
* * *
63651 AAAATACATTGAACTGAAAATCAATTTTGAGATTATAAATCCATTTAAAGTGAGTAATAAAGTTT
323 AAAATACATTGAACTGAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGCTT
* * * * * * * *
63716 TTTAGGGAATGGGTGACTATAAATAGACTTTTCTTGCAAATGAATTCAATTTTTTTCACGTTTCT
388 TTAAAGGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCAATTTTTCTCACATGTCA
* *
63781 TGTGGTAAACATTCAATTATAGTCTATTTTAACCAAAAAGGTAAAAAATTC
453 TGAGGTAAACATTCAATTATAATCTATTTTAACCAAAAAGGTAAAAAATTC
* * **
63832 AACTTAAAATC-AATTATAAGACTATAAAACTATTTAAAGCGTGTAATAAGGCTTTTGAAGGAAT
1 AACTTAAAATCAAATT-TGAGACTAT-AAACCATTTAAAATG-GTAATAAGGCTTTTGAAGGAAT
* * * * * * *
63896 GAGAGACTATAAATAGACTTTTGTTCCAAATAAATAGTTTTTTTTACATGTTTCCTCAGAC-AGA
63 AAGTGACTATAAATGGACTTTTCTT----GT-CATA-TTTTTCTT-CATGTTT-CT-AGACTAGA
* * * * ** * * * *
63960 CATTCAATTACAATCTATTTTAACAAAAAACTATATAAAATTTAACTTAAAATCAATTATAAGAT
119 CATTCAATTATAGTCTGTTTTAACAATAATGTAAAAAAAATTTAACATAAAATCAATTATGAGAT
*
64025 TATAAAACCATTTAAAGCGTGTAATAAG
184 TATAAAACCATTTAAAGCGAGTAATAAG
64053 GCTNNNNNNN
Statistics
Matches: 624, Mismatches: 80, Indels: 44
0.83 0.11 0.06
Matches are distributed among these distances:
503 4 0.01
504 26 0.04
505 145 0.23
506 255 0.41
507 6 0.01
508 2 0.00
509 1 0.00
510 1 0.00
511 1 0.00
512 1 0.00
513 65 0.10
514 78 0.12
515 36 0.06
516 3 0.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (503 bp):
AACTTAAAATCAAATTTGAGACTATAAACCATTTAAAATGGTAATAAGGCTTTTGAAGGAATAAG
TGACTATAAATGGACTTTTCTTGTCATATTTTTCTTCATGTTTCTAGACTAGACATTCAATTATA
GTCTGTTTTAACAATAATGTAAAAAAAATTTAACATAAAATCAATTATGAGATTATAAAACCATT
TAAAGCGAGTAATAAGACTTTTGAAGGAATAGGAGACTATAAATACATTTTTCTTGCCAATGAAT
ACCTTTTTCTTCACGTTTCTTAATGTAGACATTCAATTATAATCTATTTTAATCAAAAAAGTAAA
ATACATTGAACTGAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGCTTTTA
AAGGAATGGGAGACTATAAATAGACTTTTCTTGCAAATGAATGCAATTTTTCTCACATGTCATGA
GGTAAACATTCAATTATAATCTATTTTAACCAAAAAGGTAAAAAATTC
Found at i:69707 original size:170 final size:160
Alignment explanation
Indices: 69529--69836 Score: 312
Period size: 170 Copynumber: 1.9 Consensus size: 160
69519 CAGTTATGAA
* * *
69529 ATTATAAAACCATTTAAAGCTAGTAATAAGGCTTCTGAAGGAATAGGAGACTATAAATGGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTCTAAAGGAATAGGAGACTATAAATAGACTTT
* ** * * * * *** * *
69594 TGTTCCAAATAAATGGGTTTTTTTACACGTTT-TCTGAGCCTGGCATTCAATTATAGTTTGTTTT
66 TCTTCCAAATAAACAGATTTTTTTACACATTTCTC-AAGACAAACACTCAATTATAGTCTGTTTT
69658 AATGAAAAATATAAAAAATTCANNNNNNNNNNAATTATAAG
130 AATGAAAAATATAAAAAATTCA----------AATTATAAG
* * * * * *
69699 ATTATAAAATCATTTAATGCGAGTAATAAGTCTTCTAAAGTAATGGGAGACTATAAGTAGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTCTAAAGGAATAGGAGACTATAAATAGACTTT
*
69764 TCTTTCAAATAAACAGATTTTTTTACACATTTCTCAAGACAAACACTCAATTATAGTCTGTTTTA
66 TCTTCCAAATAAACAGATTTTTTTACACATTTCTCAAGACAAACACTCAATTATAGTCTGTTTTA
69829 ATGAAAAA
131 ATGAAAAA
69837 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
170 113 0.98
171 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.34
Consensus pattern (160 bp):
ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTCTAAAGGAATAGGAGACTATAAATAGACTTT
TCTTCCAAATAAACAGATTTTTTTACACATTTCTCAAGACAAACACTCAATTATAGTCTGTTTTA
ATGAAAAATATAAAAAATTCAAATTATAAG
Found at i:70248 original size:172 final size:172
Alignment explanation
Indices: 70065--70411 Score: 386
Period size: 172 Copynumber: 2.0 Consensus size: 172
70055 NNNNNNNNNN
* * * *
70065 TAAGGCTTTTGAAGGAATGGGTGACCA-GAAATAAACTTTTCTTACCAATGAATATCA-TTTTCT
1 TAAGACTTTTGAAGGAATGGGAGAACATG-AATAAACTTTTCTTACCAATGAAT-GCATTTTTCT
* *
70128 -T-CATGTTTC-TCGAGATAGATATTCAATTATAATCCT-TTTTAA-CAAAAAATGTAAAAAAAA
64 CTACATG--TCAT-GAGATAGACATTCAATTATAAT-ATGTTTTAATCAAAAAA-GTAAAAAAAA
**
70188 TTAAACTTAAAATTGATTACGAGATTATAAAAT-CATTTAAAGCGAGTAA
124 TTAAACTTAAAATCAATTACGAGATTAT-AAATCCATTTAAAGCGAGTAA
* * *
70237 TAAGACTTTTGAAGGAATGGGAGAACATGAATAGACTTTTCTTGCTAATGAATGCATTTTTCTCT
1 TAAGACTTTTGAAGGAATGGGAGAACATGAATAAACTTTTCTTACCAATGAATGCATTTTTCTCT
* ** * * *
70302 ACATGTCATGAGGTATCCATTCAATTATAATATGTTTTAATCAAAAAAGTAAAACAAATTGAATT
66 ACATGTCATGAGATAGACATTCAATTATAATATGTTTTAATCAAAAAAGTAAAAAAAATTAAACT
** *
70367 TAAAATCAATTTTGAGATTATAAATCCATTTAAAGTGAGTAA
131 TAAAATCAATTACGAGATTATAAATCCATTTAAAGCGAGTAA
70409 TAA
1 TAA
70412 AGTNNNNNNN
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
171 7 0.05
172 126 0.86
173 10 0.07
174 4 0.03
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (172 bp):
TAAGACTTTTGAAGGAATGGGAGAACATGAATAAACTTTTCTTACCAATGAATGCATTTTTCTCT
ACATGTCATGAGATAGACATTCAATTATAATATGTTTTAATCAAAAAAGTAAAAAAAATTAAACT
TAAAATCAATTACGAGATTATAAATCCATTTAAAGCGAGTAA
Found at i:72821 original size:171 final size:159
Alignment explanation
Indices: 72497--72828 Score: 337
Period size: 171 Copynumber: 2.0 Consensus size: 159
72487 TAATTGATTT
* * *
72497 TAAGTAGAATTTTTTATATTTTTTATTAAAACAGACTATAATTGAATGCCTCTCTCAAGAGACAT
1 TAAGTTGAATTTTTTACATTTTTTATTAAAACAGACTATAATTGAATGCCTCTCTCAAGAAACAT
* * * *
72562 GTAGAAAAGCCATTTATTTAGAAGAAAAATCCATTTATAGTGTCCCATTCCTTTAAAAGCCTTAT
66 ATAGAAAACCCATTTATTTAAAAAAAAAATCCATTTATAGTGTCCCATTCCTTTAAAAGCCTTAT
* *
72627 TAGTCACTTTAAATAATTTTATAATCTCA
131 CACTCACTTTAAATAATTTTATAATCTCA
* * *
72656 TANNNNNNNNNNAGTTGAATTTTTTACATTTTTTGTTAAAAGAGA-TAATAATTGAATGCTTGC-
1 TA----------AGTTGAATTTTTTACATTTTTTATTAAAACAGACT-ATAATTGAATGCCT-CT
** * * *
72719 CTTGAGAAACGTATAGAAAAACCCATTTATTTGAAAAAAAAAATCCATTTATAGTTTCTCATT-C
54 CTCAAGAAACATATAG-AAAACCCATTTATTT-AAAAAAAAAATCCATTTATAGTGTCCCATTCC
**
72783 TTTCAAAAGCCTTATCACTTGCTTTAAATAATTTTATAATCTCA
117 TTT-AAAAGCCTTATCACTCACTTTAAATAATTTTATAATCTCA
72827 TA
1 TA
72829 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
159 2 0.01
168 1 0.01
169 53 0.38
170 19 0.14
171 64 0.46
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.38
Consensus pattern (159 bp):
TAAGTTGAATTTTTTACATTTTTTATTAAAACAGACTATAATTGAATGCCTCTCTCAAGAAACAT
ATAGAAAACCCATTTATTTAAAAAAAAAATCCATTTATAGTGTCCCATTCCTTTAAAAGCCTTAT
CACTCACTTTAAATAATTTTATAATCTCA
Found at i:73660 original size:170 final size:170
Alignment explanation
Indices: 73312--73692 Score: 428
Period size: 170 Copynumber: 2.2 Consensus size: 170
73302 CATATGCAAG
* * * * * *
73312 AAAAGTCCATTTATAGTCACTCATTTCTTCAAAAGCCTTAGTACTTACTTTAAATGATTTTATAA
1 AAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTACATACTTCAAATGATTTTATAA
*
73377 TCTCATAATTGATTTTAAGTAGAATTTTTTACATTTCCCATTAAAACAGACTATAATTGAAAGCT
66 TCTCATAATTGATTTTAAGTAGAATTTTATACATTTCCCATTAAAACAGACTATAATTGAAAGCT
* * ********
73442 TGCCTTGAGAAACATGTAGAAAAATCCATTTANNNNNNNN
131 TGCCTAGAGAAACATGTAGAAAAAACCATTTATTTGGAAA
** * *
73482 NNAAGTCCATTTATATTCTCTCATTCCTTTAAAAGCCTTATTACATGCTTCAAAT-AGTTTTATA
1 AAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTACATACTTCAAATGA-TTTTATA
* * *** * * *
73546 ATCTCATAATTGATTTTAAGTTGAATTTTATATATTTTTTATTAAAACAGATTGTAATTGAATGT
65 ATCTCATAATTGATTTTAAGTAGAATTTTATACATTTCCCATTAAAACAGACTATAATTGAAAG-
*
73611 CTAT--CTCAG-GAAACATGTAGAAAAAACTATTTATTTGGAAA
129 CT-TGCCT-AGAGAAACATGTAGAAAAAACCATTTATTTGGAAA
73652 AAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTAT
1 AAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTAT
73693 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
169 1 0.01
170 169 0.97
171 3 0.02
172 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.39
Consensus pattern (170 bp):
AAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTACATACTTCAAATGATTTTATAA
TCTCATAATTGATTTTAAGTAGAATTTTATACATTTCCCATTAAAACAGACTATAATTGAAAGCT
TGCCTAGAGAAACATGTAGAAAAAACCATTTATTTGGAAA
Found at i:74942 original size:170 final size:168
Alignment explanation
Indices: 74656--75573 Score: 731
Period size: 170 Copynumber: 5.4 Consensus size: 168
74646 NNNNNNNNNN
* * * * *
74656 ATAATCTCATAATTGATTTTAAGTTAAATTTTTT-ATATTTCTCATTAAAGCTA-AATATAATTG
1 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTAAAATTT-TTATTAAAAC-AGACTATAATTA
* * * ** * * * * *
74719 AATGCCTGCCTTAGGCAATGTGTAGAAAAACCTAATT-ATTTGGAAGAAAAGTCCATTTATAGTC
64 AATGTCTACCTCA-AAAAT-CGAAGAAAAAACT-ATTCATTAGCAAGAAAAGTCCATTTATAGTC
* * *
74783 TCCCATTCCTTCAAAAGTCTTATTACTCACTTCAAATGGTTTT
126 TCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * *
74826 ATCATCTCATAATTGATTTTAAGTTGAATTTTTTAAAATTTTTACTAAAACAGAGTATAATTAAA
1 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTAAAATTTTTATTAAAACAGACTATAATTAAA
* * * * * *
74891 TGTCTACGTGATAAAATGCGAAGAAAAAAGTATTCATTAGCAAGGAAAGTCCATTCATATTCTCC
66 TGTCTACCTCA-AAAAT-CGAAGAAAAAACTATTCATTAGCAAGAAAAGTCCATTTATAGTCTCC
*
74956 CATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGATTT
129 CATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * * * * * * *
74996 ACAATCTCGTAATCGATTTTAAGTTCAATTTTTTTTATATTTTTGGTTAAAAAATATTATAATTA
1 ATAATCTCATAATTGATTTTAAGTT-AAATTTTTTAAAATTTTT-ATTAAAACAGACTATAATTA
* * * * * * *
75061 AATATCTATCTTGAGAAACAT-GAAGAAAAAGA-TATTC-TTCGCCAAGAAAAGTTCATTTCTAT
64 AATGTCTA-CCTCA-AAA-ATCGAAGAAAAA-ACTATTCATTAG-CAAGAAAAGTCCATTTATAG
* * * * *
75123 TCACCCATTCCTTCAAAAGTCTTATTACTCGCGTTCAAGGGTTTT
124 TCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * *
75168 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTATATTTTTTGTTAAAACAGACTATAATTAAA
1 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTAAAATTTTTATTAAAACAGACTATAATTAAA
* * * * * *
75233 TATCTACCTCAAAAA-CGTATA-AAAAAACTGATTTATTTGGAAAAAAAGCCCATTTATAGTCTC
66 TGTCTACCTCAAAAATCG-A-AGAAAAAACT-ATTCATTAGCAAGAAAAGTCCATTTATAGTCTC
* * * *
75296 TCATTCCTTCAAAAGCCTTATTACTCGTTTTAAATAGTTTA
128 CCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * ** *
75337 ATAATCTCATAATTCATTTTAAGTTGAATTTTTT-ATATTTTTCATTAAAATGGACTATAATTGA
1 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTAAAATTTTT-ATTAAAACAGACTATAATTAA
* * * * * * * * * * *
75401 GTGCCTGCCTCAAGAAATATGTAGAAAAATCCATTTATTTA-AAAGAAAAATCTATTTATAGTCT
65 ATGTCTACCTCAA-AAAT-CGAAGAAAAAACTATTCA-TTAGCAAGAAAAGTCCATTTATAGTCT
* * * * * * * *
75465 CTCATTACTTCAAAAGACTAATTAGTCACTTTAAATGATTGT
127 CCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * ***
75507 ATAATCTTATAATTGATTTTAGGTTAAATTTTTTATGTTTTTTATTAAAACAGACTATAATTAAA
1 ATAATCTCATAATTGATTTTAAGTTAAATTTTTTAAAATTTTTATTAAAACAGACTATAATTAAA
75572 TG
66 TG
75574 CTTGGCTCGA
Statistics
Matches: 597, Mismatches: 129, Indels: 44
0.78 0.17 0.06
Matches are distributed among these distances:
167 3 0.01
168 15 0.03
169 119 0.20
170 288 0.48
171 48 0.08
172 114 0.19
173 8 0.01
174 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (168 bp):
ATAATCTCATAATTGATTTTAAGTTAAATTTTTTAAAATTTTTATTAAAACAGACTATAATTAAA
TGTCTACCTCAAAAATCGAAGAAAAAACTATTCATTAGCAAGAAAAGTCCATTTATAGTCTCCCA
TTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
Found at i:76380 original size:170 final size:170
Alignment explanation
Indices: 76092--76425 Score: 496
Period size: 170 Copynumber: 2.0 Consensus size: 170
76082 NNNNNNTACT
* * *
76092 TGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAACTTTTTGCATTTTCCATTAAA
1 TGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAACTTTATACATTTTCCATTAAA
* *
76157 ACAGACTATAATTGAAAGCTTGTCTCAAGAAACATGTAGAAAAATTCATTTATTTGGAAGAAAAG
66 ACAGACTATAATTGAAAGCTTGTCCCAAGAAACATGTAGAAAAACTCATTTATTTGGAAGAAAAG
*
76222 TCCATTTATATTCTCTCATTCCTTTAAAAGCCTTATTACA
131 TCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTACA
***
76262 TGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAA-TTGTATACATTTTTTGTTAA
1 TGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAACTT-TATACATTTTCCATTAA
* * *
76326 AACAGATTGTAATTGAATG-TCTGTCCC-AGAAAACATGTAGAAAAAACT-ATTTATTTGGAAGA
65 AACAGACTATAATTGAAAGCT-TGTCCCAAG-AAACATGTAG-AAAAACTCATTTATTTGGAAGA
76388 AAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTT
127 AAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTT
76426 NNNNNNNNNN
Statistics
Matches: 148, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
169 5 0.03
170 137 0.93
171 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (170 bp):
TGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAACTTTATACATTTTCCATTAAA
ACAGACTATAATTGAAAGCTTGTCCCAAGAAACATGTAGAAAAACTCATTTATTTGGAAGAAAAG
TCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTACA
Found at i:77348 original size:171 final size:172
Alignment explanation
Indices: 76588--78395 Score: 906
Period size: 171 Copynumber: 10.7 Consensus size: 172
76578 NNNNNNNNNN
* * * * * **
76588 GAATGTCTACCA-TAAGAAACGTGAAAAAAAATGAATTCATTT-GCAAGAAAAGTCTTTTTATAG
1 GAATGTCTA-CATTCAGAAACATGAAGAAAAAGGTATTC-TTTGGCAAGAAAAGTCCATTTATA-
* * * * * * * *
76651 GT-ACCCATTCCCTCAAAAACTTTATTACTCAATTTAAATGAATTTATAATCGCAAAATTGATTT
63 GTCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTT
* * * * *
76715 TAAGTTCAATTTGTTTTAC-TTTTTTGATTAAAACAGATTATAATT
128 TATGTTCAATTTTTTTTACATTATTAG-TTAAAACAGACTATAATT
* * * * * * **
76760 GAATAT-T-TATGTCAAGAAACGTGAAGAAAAAGGTATTCATTGGTAAGAAAAATGTATTTATAG
1 GAATGTCTACAT-TC-AGAAACATGAAGAAAAAGGTATTCTTTGGCAAGAAAAGTCCATTTATAG
* * *
76823 TCTCCTATTCCTTCAAAAGCCTTACTACTTACTTTAAATGATTTTATAATCTCATAATTGATTTT
64 TCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTT
*** * *
76888 ATGTT-AAACGTTTTTATATTATTGGTTAAAACAGACTATAATT
129 ATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
* ** * * *
76931 AAATGTCT--ATGTCGAGAAACATGAA-AAAAAAATATT-TATTAGTAAGAAAAGTTCATTTATA
1 GAATGTCTACAT-TC-AGAAACATGAAGAAAAAGGTATTCT-TTGGCAAGAAAAGTCCATTTATA
* * * * * *
76992 GTCACCCAATCCTTCAAAAGCCTTATTA-TTATTTTAAATG-GTTTATAATCTTA-AATTTGATT
63 GTCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAA-TTGATT
* * * *
77054 TTAGGTTCAA-TTTTTTTACATTTTTGGTTAAAACAG-CTTACAATT
127 TTATGTTCAATTTTTTTTACATTATTAGTTAAAACAGAC-TATAATT
* * * ** * * * *
77099 CAA--TCGAC-CTC-GTGACATGTAGAGAAAAAGGCATTCATTGCCAAGAAAAGTCCATTTACAG
1 GAATGTCTACATTCAGAAACATG-A-AGAAAAAGGTATTCTTTGGCAAGAAAAGTCCATTTATAG
* * *
77160 TCTCTCATTCCTTCAAAAGCCTTATTGCTCACTTTAAATGATTTTATAATCTCATAATCGATTTT
64 TCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTT
*
77225 ATGTTCAATTTTTTTTACATTATTAGTTAAAATAGACTATAATT
129 ATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
* * *
77269 GAATGTCTACATTCAAAAACATGAA-AAAAAGGCATTCTTTGGCAAGAAAAATCCATTTATAGTC
1 GAATGTCTACATTCAGAAACATGAAGAAAAAGGTATTCTTTGGCAAGAAAAGTCCATTTATAGTC
* * * * *
77333 TCCCATTCTTTCAAAAGTCTTATTACTTACTTTAAATGGTTTTATAATCTCATAATTGATTTTCT
66 TCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAT
* * *
77398 GTTCAATTTGTTTTACATTCTTAGTTAAAACAGATTATAATT
131 GTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
** * * * * * *
77440 GAATGTCTATGTTGAGAAACGTAAAGAAAAAGATATT-TATTGACAAGAAAAGTCTATTTATAGT
1 GAATGTCTACATTCAGAAACATGAAGAAAAAGGTATTCT-TTGGCAAGAAAAGTCCATTTATAGT
* * * **********
77504 C-CCACATTCCTTCAAAAGCCTTATTACCCATTTTAAATG-GTTTATAATCTCANNNNNNNNNNT
65 CTCC-CATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTT
* * * * *
77567 AAGTTGAATTTTTTATA-TTTTTTA-TTAAAACAGACTATAATT
129 ATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
** * * * * *
77609 GAATGTAGAC-CTCAAGAAACATGAAAAAAAAAGAATTCATTT-GCAAGAAAAGTCTATTTATAG
1 GAATGTCTACATTC-AGAAACATGAAGAAAAAGGTATTC-TTTGGCAAGAAAAGTCCATTTATAG
* * * * * * * **
77672 TCACCTATT-CTTCCTAAAA-TCATATTACTCATTTTAAATGGTTTTATAATCTCAAAATTGANN
64 TCTCCCATTCCTT-C-AAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATT
******** *
77735 NNNNNNNNAATTTTTTTTAC-TT-TT--TT------GATTATAATT
127 TTATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
* * * * ** * ******
77771 GAATGTCTACA-TCA-AAAAATGTGAAGACAAAGGCATTCATTGATAAGAAAAATCCATNNNNNN
1 GAATGTCTACATTCAGAAACA--TGAAGAAAAAGGTATTCTTTGGCAAGAAAAGTCCATTTATAG
**** * * * * * *
77834 NNNNCCATTCCTTCAAAAGTCTTATTACTCGCTTTAATTGGTGTTATAATCCCATAATTGATTTT
64 TCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTT
* * * * * * * * *
77899 AAGTTGAA--TTTTATATATTTTTTGTTAAAACATATTGTAATT
129 ATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
* * * * *** * * *
77941 GAATGCCTA-TTTCAAGAAACGTGTAGAAAAAACCATT-TATTTGAAAGGAAAGTCCATTTATAG
1 GAATGTCTACATTC-AGAAACATGAAGAAAAAGGTATTCT-TTGGCAAGAAAAGTCCATTTATAG
* * * * * *
78004 TCTCTCATTTCTTC-AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAATTAATTTT
64 TCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTT
*********** * * *
78068 A-ANNNNNNNNNNTTTACATTTTTGGTTAAAATAGACTATAATT
129 ATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
* * * * *
78111 GAATGTCTACCA--CAAGAAACATGAAACAAAAATGAATTCATTT-GCATGAAAAGTCTATTTAT
1 GAATGTCTA-CATTC-AGAAACATG-AAGAAAAAGGTATTC-TTTGGCAAGAAAAGTCCATTTAT
* ** * * * *
78173 AGTCACTTATTCCATCAAAAACTTTATTCCTCACTTTAAATGGA-TTTATAATCTCGA-AATTGA
62 AGTCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAAT-GATTTTATAATCTC-ATAATTGA
* ********** *
78236 TTTTAAGTTCAATTTTTTTTNNNNNNNNNNTTAAAACAGATTATAATT
125 TTTTATGTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
* ** * * * * *
78284 GAATATCT--ATGTCTAGAAATGTAAAG-ATAAGGTATTCATTGGCAAGCAAAA-TGCATTCATA
1 GAATGTCTACAT-TC-AGAAACATGAAGAAAAAGGTATTCTTTGGCAAG-AAAAGTCCATTTATA
* *
78345 GTCTCCCATTCCTTCAAAAGCCTTACTACT-AGCTTTAAATGGTTTTATAAT
63 GTCTCCCATTCCTTCAAAAGCCTTATTACTCA-CTTTAAATGATTTTATAAT
78396 NNNNNNNNNN
Statistics
Matches: 1227, Mismatches: 334, Indels: 151
0.72 0.20 0.09
Matches are distributed among these distances:
160 10 0.01
161 9 0.01
162 87 0.07
163 3 0.00
164 8 0.01
165 1 0.00
166 5 0.00
167 53 0.04
168 69 0.06
169 171 0.14
170 223 0.18
171 322 0.26
172 222 0.18
173 39 0.03
174 5 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.38
Consensus pattern (172 bp):
GAATGTCTACATTCAGAAACATGAAGAAAAAGGTATTCTTTGGCAAGAAAAGTCCATTTATAGTC
TCCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAT
GTTCAATTTTTTTTACATTATTAGTTAAAACAGACTATAATT
Found at i:79987 original size:173 final size:169
Alignment explanation
Indices: 79490--80029 Score: 552
Period size: 171 Copynumber: 3.2 Consensus size: 169
79480 NNNNNNNNNT
* *** * * ** * * *
79490 ATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTATTACCA-TTTTAAATG
1 ATTGACAAGAAAAGTCCATTTATAGTCTTTCATTCCTCCAAAAGATTTATTACTACCTATAAATG
* * * * * *
79554 G-TTTATAATCTGA-AATTTGATTTTAGGTTCAATTTTTTTACATTTTTGGTTAAAACAAATTAC
66 GTTTTATAATCTCATAA-TTGATTTTATGTTCAATTTTTTTACATTATTGGTTAAAACAGACTAT
** * * *
79617 AATTGAATGGATACCTCATAACATG-TAGAGAGAAAGGCATTC
130 AATTGAATGTCTACATGAAAACATGAT-GA-A-AAAGGCATTC
** * * * *
79659 ATTGGGAAGAAAAGTCCATTTATAGTCTTTTATTCCTTCAAAAGATTTATTACTCCCTTTAAATG
1 ATTGACAAGAAAAGTCCATTTATAGTCTTTCATTCCTCCAAAAGATTTATTACTACCTATAAATG
* *
79724 GTTTTATAATATCATAATTGATTTTATATTCAATTTTTTTACATTATTGGTTAAAACAGACTATA
66 GTTTTATAATCTCATAATTGATTTTATGTTCAATTTTTTTACATTATTGGTTAAAACAGACTATA
* **
79789 ATTGGATGTCTATGTTGAAAAACATGATGAAAAAGGCATTC
131 ATTGAATGTCTA-CATG-AAAACATGATGAAAAAGGCATTC
* * *
79830 ATTGACAAGAAAAATCCATTTATAGT-TTCTCATTTGCTCCAAAAG-TCTTATTACTAGCTATAA
1 ATTGACAAGAAAAGTCCATTTATAGTCTT-TCA-TTCCTCCAAAAGAT-TTATTACTACCTATAA
*
79893 ATGGTTTTATAATCTCATAATTGATTTTATGTTTAATTTTTTTTACATTATTGGTTAAAACAGAC
63 ATGGTTTTATAATCTCATAATTGATTTTATGTTCAA-TTTTTTTACATTATTGGTTAAAACAGAC
* ** *
79958 TATAATTGAATGTCTACATAGAGAAACATGAAGAAAAAGATATTT
127 TATAATTGAATGTCTACAT-GA-AAACATGATGAAAAAGGCATTC
*
80003 ATTGACAAGAAAAGTCCATTTACAGTC
1 ATTGACAAGAAAAGTCCATTTATAGTC
80030 ACTCANNNNN
Statistics
Matches: 311, Mismatches: 47, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
169 45 0.14
170 11 0.04
171 97 0.31
172 62 0.20
173 95 0.31
174 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (169 bp):
ATTGACAAGAAAAGTCCATTTATAGTCTTTCATTCCTCCAAAAGATTTATTACTACCTATAAATG
GTTTTATAATCTCATAATTGATTTTATGTTCAATTTTTTTACATTATTGGTTAAAACAGACTATA
ATTGAATGTCTACATGAAAACATGATGAAAAAGGCATTC
Done.