Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1571
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: 244772
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
File 2 of 2
Found at i:228307 original size:952 final size:953
Alignment explanation
Indices: 224583--233651 Score: 7690
Period size: 951 Copynumber: 9.5 Consensus size: 953
224573 GAAGACTATG
* * * * *
224583 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCTCAATTTTTAAAAAAATGGAGACTG
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
* * * * * * * * * * * *
224648 TCACAAGAATCAATGCTTGCCTTATTGAAGGGACAAACTTTAATTTAAAGTAAAATAGGGAAAAG
66 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* * *
224713 AAAAGATTTT-CGTGCGAAAGAAAACCATCAATATCATTTATGCTAATGAGGAGAATGTGTTTAT
131 AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
** * * *
224777 AGTGCCTAATCACAAAACGAATGAAGATCATTTAGCTAGAATCCCTGTTTGTCTCATTTGAGGCA
196 AGTGCCTAATCATGAAATGAATGAAGATC-CTTA-CTAGAATCCATGTTTGTCTCATTTGAGGCA
* * *
224842 CA-AACTTAGACTTTAAAAAAATTGGTGGGAAGAAAGCATTTCTTGCGAAACCAAAGCATCAATA
259 -AGAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATA
* * * * ***
224906 TCATTTATCCTTATGAGAAGACTATGTTTATAGTGCCTAATCCCGAAAAGAATATCGATTAGTAT
323 TCATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTAT
* * *
224971 GAGTATTTAGGTTTGTCTTATTTAAGAGACAAACTTTGATTCCATCAATAACGGTGGAAAGACAA
388 GAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAA
* * * *
225036 CCTTCTCTTGCGACACCAAAGCAAT-ATTGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTT
453 GCTTCTCTTGCGACACCAAAGC-ATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTT
* * * *
225100 CCCAATCTTGAAAAGAATGGAGACTTTTACAAGAATCAATGCATGTCTCATCTAAAGAACAAACT
517 CCTAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACT
* * * * **
225165 TTGATTTTAAGGAAAATTA-GCAAAGAAAAGATTTTCATGCAAAAGAAATCCATCAATATCATGC
582 TTGATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCATTT
* * ** *
225229 ATCCTGATGAGGAGAATGTGTTTATAGCGCCTAATCGTGAAATGAATGAAGATCCTTAGTAGAAT
647 ATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAAT
* * * * * *
225294 CCATGTTTGTCTCATTTGAGGAACGAACTTAGAATTTAC-AAAATTGGTGTGAAGGAAGCGTATC
712 CCATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAGCGTTTC
* * *
225358 TTGCGAAACCAAAGCATCAATATAATGTATCCTTATAAGAAGACTATGTTTATGGTGCCGAATCC
777 TTGCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCC
* * * *
225423 TGAAAAGAATGGGGATTAGTGTGAGAATTCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCT
842 TGAAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCT
** * *
225488 ATCAATAACGGTGGAAAGG-CTAGCTTCTTTTGCGACAGCAAAGCATC
907 ATCAATAACGGTGG-AAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * **
225535 ATTATCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTAAAAAAGAATGGAGACTT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
** * * * *
225600 TTACGGGAATCAACGCATGTCTAATTTAAAGTATAAACTTTGATTTTAAGGAAAATAAAGCAAAG
66 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* *
225665 AAAAGATTTT-CATGCAAAAGAAAACCATCAATATCATTTATCCTAAAGCGGAGAATGTGTTTAT
131 AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* *
225729 AGTGCCTAATCATGAAATGAATGAAGATCCATACTAGAATCCATGTTTGTCTCATTTGAGGCCCA
196 AGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGG-CAA
* *
225794 -AACTTAGAATTTACACAAAA-TGGTGGGACGAAAGCGTATCTTGCGAAACCAAAGCATCAATAT
260 GAACTTAGAATTTACA-AAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATAT
* * * *
225857 CATGTATCCGTATAAAAAGACTATGTTTATGGTGCCTAATCCGGAAAAGAATAGGGATTAGTATG
324 CATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATG
* *
225922 AGTATTCCTGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAATCACGGTGGAAAGACAAG
389 AGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAAG
* * * * *
225986 CTTCTCTTGCGACACCAAAGCTTTAATGTCATGTATCATAATCAAAGGAAAGTGTTTTTGGTTCC
454 CTTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTCC
*
226051 TAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACATT
519 TAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTT
* * **
226116 GATTGTAAGGAAAATAAGGCAAAGAAAAGATTTCGATGCAAAAGAAAAAAATCAATACCATTTAT
584 GATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCATTTAT
*
226181 CCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCGTTACTAGAATCC
649 CCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCC
* * * * * *
226246 ATGTTTGTCTAATTCGAGGATTGAACTTATACTTTAAAAAAATTGGAGGGAAGAAAGCATTTCTT
714 ATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAGCGTTTCTT
* * * *
226311 GCGAAACCAAAGC-TGCAATATCATGTATTCATATGAGAAGTCTATGTTTATGGTGCCTAATCCG
779 GCGAAACCAAAGCAT-CAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCT
* * * *
226375 GAAAAGAATGTGGATTAGTCTAAGTATTCATCTTTGTCTTATTTAAGAGACAAACTTTGATTCCA
843 GAAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTA
* * * *
226440 TCAATAACGGTGGAAAGACAAGCTTCTCTTGTGACACCAAAGCAAC
908 TCAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * *
226486 -ATCGTCGTGTATCCTAATGAAAGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACT
1 AAT-GTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACT
* * * * *
226550 TTTACGAGAATCAATGCATTTCTCATTTAAAGTGCAAACTTTGATTTTATGGAAAATAAGGTAAA
65 TTTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
**
226615 GAAAAGA-TTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGCATTTA
130 GAAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTA
* * * *
226679 TAGTGCCTAATCATGAAATAAATGGAGATCCTTACTAGAATCCATGTTTCTCTCATTTGAGGCAC
195 TAGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAA
* * * * *
226744 GAACTAAGAATTTACAAAAATTGATGGGAAAAAAGCGTTTCTTGTGAAACCAAATCATCAATATC
260 GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATATC
* * * *
226809 CTGTATCCTTATGAGAAGACTAAGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTGTGA
325 ATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGA
* *
226874 GTATTCATGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAATAACAGTGGAAAAACAAGC
390 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAAGC
*
226938 TTCTCTTGCGACACTAAAGCATCAATGTCATGTATCCTAA-AGAAAGGAATGTGTTTTTGGTTCC
455 TTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATA-AAAGGAATGTGTTTTTGGTTCC
227002 TAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTT
519 TAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTT
* *
227067 TATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCGATGCAAAAGAAAACCATCAATACCATTTAT
584 GATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCATTTAT
*
227132 CCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCGTTACTAGAATCC
649 CCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCC
* * * * *
227197 ATGTTTGTCTAAGTTGAGGAATGGACTTATACTTTTCAAAAATTGGAGGGAAGAAAGCGTTTCTT
714 ATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAGCGTTTCTT
* *
227262 GCGAAACCAAAGCTTCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCAG
779 GCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTG
* * *
227327 AAAAGAATGGGGATTTGTATAAGTATTCATGTTTATCTTATTTAAGAGGCAAACTTTGATAT-TA
844 AAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGAT-TCTA
* * *
227391 TCAATAACGTTTGAAGGAAAAGCTTCTCTTGGGACACCAAAGCATC
908 TCAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * **
227437 AATGTCATGTTTCCTAGTGAAGGGAATGTGTTTTTGGTTGACAATCTTGAAAAGAATGGAGACTT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
* *
227502 TTATAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGTAAAG
66 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* * *
227567 AAAA-ATTTTCCATGCAAAAGAAAACCATCAATAACATTTATCCTAACGCGGAGAATGTGTTTAT
131 AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* ** * * * *
227631 AGTGCCTAATCACGAAATGAATGAAGATCCCGACAAGAATCCGTGTTTGTCTCGTTT-AAGCAAT
196 AGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAA-
* * * * * * *
227695 GAACTCATACTTTACACAAATTGGTGAGAAGAAAGCGTATCTTGCAAAACCAAAGCATCAATATC
260 GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATATC
* * * * *
227760 ATGTATCCATATAAGAAGACTAAGTTTATGGTGCCTAATCTAGAAAAGAATGGGGAATAGTATGA
325 ATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGA
*
227825 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAGGC
390 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAAGC
* * * * *
227890 TTCTCTTGTGACCCCAAAGCAACATTGTCCTGTATCCTAATAAAAGGAATGTGTTTTTGGTTCCT
455 TTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTCCT
* *
227955 AATCTTGAAAAGAATGGAGACTTTTACGACAATCAATGCATGTCTCATTTAAAGTGCAAACTTTG
520 AATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTG
* **
228020 ATTTTATGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATATTATTTATC
585 ATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCATTTATC
* ** * *
228085 CTAATGAGGAGAATGCGTTTATAGTGCCTAATCATTAAATGAATGAAGATCCTTGCTAGATTCCA
650 CTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCA
* * * * *
228150 TGTTTCTCTCATTTGAGGCATGAACTTAGAATTTACAAAAA-TCGATGGGAAAAAAGCGTTTCTT
715 TGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGA-GGGAAGAAAGCGTTTCTT
* *
228214 GCGAAACCAAATCATCAATATCCTGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTG
779 GCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTG
* * * *
228279 AAAAGAATGGCGATTCGTATGAGTATTCATGTTTGTCTTATTTAAGAGGCAAACTTTGATAT-TA
844 AAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGAT-TCTA
**
228343 TCAATAACCTTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
908 TCAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * * ** *
228389 AATGTCATGTTTCCTAGTGAAGGGAGTGTGTTTTTGGTTCTTAATCTTGAAAAGAATGGAGACAT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
*
228454 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTGTAAGGAAAATAAGGCAAAG
66 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* *
228519 AAAAGA-TTTCGATGCAAAAGAAAACCATCAATACCATTTATCCTAATGAGGAGAATGTGTTTAT
131 AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* * * * *
228583 AGTGCCTAGTCATGAAATGAATGAAGATCGTTAGTAGAATCCATGTTGGTCTAATTTGAGG-AAT
196 AGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAA-
* * * *
228647 GAACTTATATTTTACAAAAATTGGGGGGAAGAAAACGTTTCTTGCGAAACCAAAGCATCAATATC
260 GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATATC
* * * * *
228712 ACGTATCCGTATGAGAAGTCTATGTTTATGGTGCCTAATCCGGAAAAGAGTGTGGATTAGTATGA
325 ATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGA
* * * * * *
228777 GTATTCATGTTTGTCTTATTTGAGAGGCAAACTTTGATAT-TATCAATAACGTTGGAAGGAAAAC
390 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGAT-TCTATCAATAACGGTGGAAAGACAAG
** * * * * * *
228841 CTTCTCTTGCGATGCCAAAGCATCAATATCATGTTTCATGATGAAGGGAATGTGTTTTTGGTTCA
454 CTTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTC-
* * * **
228906 C-AATCTTGAAAAGAATGGAGACTCTTACAAGAATCAATGCACGTCTCATTTAAAG---AAACGC
518 CTAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTT
* * * * * *** * * * * ** * ** * * ** *
228967 TAATGTCATGTATCCTAATG-AAGGGAAAGTGTTTTTGGATCCTAATCTTGGAAACGATGGAGA-
583 TGATTTTAAGGAAAATAAGGCAA-AGAAA-AG-ATTTCCATGC-AA--AAGAAAACCATCAATAC
* ** * * * * * **** * * *
229030 CTTTTA-CGAGAATCA--ATGCATGTCTCATTTAAAGT-AC-AGA-CTTTTATTTAGA-GCAAAA
642 CATTTATC-CTAATGAGGA-GAATG--T-GTTTATAGTGCCTA-ATCACGAAATGA-ATG-AAGA
*** * *** * * **** ** * ** **
229088 TAAGGTA-AAGAAAAGAT-TTCGATGCAAAAGAAAACAATCAA--TACCATTTATCCTAAA---G
699 T-CCTTACTAGAATCCATGTTTG-T-CTAATTTGAGGAATGAACTTAGAATTTA-CAAAAATTGG
* * * * * * * * *
229146 A-GG-AGAATGTGTTTATAGTGCCTAATCACAAATGAATGAAGATCGTTACTAGAATCC--AT-A
760 AGGGAAGAAAGCGTTTCT--TG-CGAAAC-CAAA-GCATCAATATC---A-T-GTATCCTTATGA
*** * * * * * *
229206 TTTGTCTAAT-TTGA-GGAATGAAC-ATATACTTTACAAA-AATTGAAGGGA--AG-A-AAGCAT
815 GAAGACT-ATGTTTATGG--TG-CCTA-AT-CCTGA-AAAGAA-TG--GGGATTAGTATAAGTAT
* ** *** * * * * ** *
229263 T--T-CTTGT-GAAACCAA-AG-CATCAACATCATGTATCCGTATGAGA-AATCTATGTTTATGG
870 TCATGTTTGTCTTATTTAAGAGACA--AAC-T-TTG-ATTC-TATCA-ATAA-C--GGTGGAAGG
* ** * * ** * * *
229321 ---TGC--CTAATCCAGAAAAGAATGTGGATT
925 AAAAGCTTCTCTTGC-GACACCAA--AGCATC
* * * * ** ** *
229348 AGTATGAGTATTCATGTTTGTCTTATTTAAGAGGCAA----ACTTTCATTCCATCAATAACGGTG
1 A--AT--G---TCATG--TATCCTAATGAAG-GG-AATGTGTTTTTGGTTCC--CAAT--C-TTG
* * *** * * * * * *
229409 GAAAGACA-AGCTTCTCTTGCGACACCA-AAGCAA--CATTGTCATGTATCCTAATGTA-AGAAA
50 AAAAGA-ATGGAGACT-TT--TACA--AGAATCAATGCA-TGTC-T-CAT-TTAAAGTACA-AAC
* * **** * * * * ** **
229469 TGTG-TTTT-TGGTTCCTAA-TCTTGAAATGAATGGAGACTTTT--ACG-AGAATCAATGCAT--
104 TTTGATTTTAAGGAAAATAAGGC---AAA-GAA--AAGA-TTTTCCATGCAAAAGAAAACCATCA
* * * * * *** * *
229526 GTCTCATTTA----AA-GTGCA-AACTTTGATTT-TA-TGGAAAATTAGGCAAA-GAA--AAGAT
162 ATATCATTTATCCTAATGAGGAGAA-TGTG-TTTATAGTGCCTAATCATG-AAATGAATGAAGAT
* * * * * * * * * *** * * *
229580 -TTTCATGCAAAAGAAAACCATAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTA
224 CCTT-A--C--TAG-AATCCAT-GT-T--TGTCTCAT-TTGAGG-CAA-GAACTTAGAAT---TT
* * * ** ** ** *
229644 ATCATGAAATGAATGAAGATCCGTACTAGAATCCATGTTTGTCTCATTTG-AGGCAGGAA-CTTA
273 A-CA--AAA--ATTG--G-T-GGGA--AGAAAGC--G-TT-TCT--TGCGAAACCA--AAGCAT-
* * *** ** ** * * * ** *** * * * *
229707 GAATTTACACAAATTGGTGGGACAAAAGCGTAT-CTTGCGAAACCAAAGCATCA-ATATCATGTA
318 CAATAT-CATGTATCCGTATGAGAAGA-C-TATGTTTATGGTGCCTAATC--CAGA-A--AAGAA
** * * * * * * * * * * **
229770 TCCGTATAAG-AAGACTATGTTTATG-GTGCCTAATCT-AGA-A-AAAATGGGGATTAGTATGAG
375 TGGGGATTAGTATGAGTA--TTCATGTTTGTCTTATTTAAGAGACAAACT-----TT-G-AT-TC
* ** ** ** * * ** * * * * * *
229830 TATTCCTATTTGTCTTATTTAAGAGACAA-CTT-TGATT-CTATCAATAACG-GTGGAAAGACAA
430 TA-T-C-A-ATAAC-GGTGGAA-AGACAAGCTTCT-CTTGCGA-CACCAAAGCAT-CAATGTCAT
** * *** **
229891 GCT-TCTCTTGCGACACCAAA-GCATCGACATCAT-GTATCCTAA---T-AAAAGGAATGTGTTT
486 G-TATC-C-T---A-ATAAAAGGAAT-GTGTTTTTGGT-TCCTAATCTTGAAAA-GAATG-G---
* * ** * * * * ** *
229949 TTGGTTCCTAATCTTGAAAAGAATGGAGATTGGTATGAGAATCAATGCCTGTCT-CA-TTTAAAG
537 --AG--ACT--T-TT-ACGAGAAT-CA-A-T-GCAT--G--TC--T-CAT-T-TAAAGTACAAAC
** * * *
230012 TGGAAACTTTGATTTTATGGAAAATAAGGCAAAGAAAAGATTTCCATGAAAAAAAAAACCATCAA
581 T---TT----GATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAA
* ** * * *
230077 TATCATGCATCCTGATGAGGAGAATGTGCTTATAGTGCCTAATCACGAAATGAATGAAGATCGTT
639 TACCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTT
* * *
230142 ACTAGAATCCATGTTTGTCTAATTTGAGGAACGGACTTAGACTTTACAAAAATTGGAGGGAAGAA
704 ACTAGAATCCATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAA
* ** * * *
230207 AGCGTTTCTTACGAAACCAAAGCATCAATATCATGTATTGTTTTGAGAAGACTATGTCTGTGGTG
769 AGCGTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTG
** * * * * *
230272 CCTAAAACGGAAAAGAATGGGAATTTGTGTGAGTATTCATGTTTGTCTTATTTAAGAGACAAACT
834 CCTAATCCTGAAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACT
* * * * * *
230337 TTAATTTTATCAATATCGGTGGAAAGAAAAGCTTCTCTTGTGACACCAAGGCATC
899 TTGATTCTATCAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * *
230392 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCTCAATTTTGAAAAAAATGGAGACTG
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACT-
* * * * * * * * *
230457 TTT-CAAGAATCAATGC-TTTCCCTATTGAAGGGACAAACATTGATTTTAAGTAAAATAGGGAAA
65 TTTACAAGAATCAATGCATGTCTC-ATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAA
* * * * * * *
230520 AGAAAAGA-TTTCCATACGAATGAAAACCGTCAATATCATTTATGCTAATAAGAAGAATGTGTTT
129 AGAAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTT
** * * * *
230584 ATAGTGCCTAATCACAAAACGAATGATGATCATTTTGCTAGAATCTC-TGTTTGTCTCATTTGAG
194 ATAGTGCCTAATCATGAAATGAATGAAGATC--CTTACTAGAATC-CATGTTTGTCTCATTTGAG
* * * * *
230648 G-AACAAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCATTTCTTGGGAAACCAAAACATCA
256 GCAA-GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCA
* * * * * * * **
230712 ATTTCATTTATCCTTATGAGAAGACTATGTTTACGGTGCCAAATCTAAAAAAGAATGTCGATTAG
320 ATATCATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAG
* * * * * * * *
230777 TATGAGTATTTAGGTTTGCCTTAGTTAAGAGACGAATTTTGATTCTATAAATAACGATGGAAAGA
385 TATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGA
* * * * * * *
230842 CAGGCTTC-CTTTGCGATAGCAAAGCAACATTGTCATGTATCCTAATGAAGGGAATGTGTTTTTG
450 CAAGCTTCTC-TTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTG
* * * * * *
230906 GGTCCAAATCTTAAAAAGAATGGAGACTTTTACAAGAATGAATGCATGTCGCATTTAAAGTACAA
514 GTTCCTAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAA
* *
230971 ACTTTGATTTTAAGG-AATTAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATATCA
579 ACTTTGATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCA
* * *
231035 TGTATCCTGATGAGGAGAATGTGTTTATCGTGCCTAATCACGAAATGAATGAAGATCCTTACTAG
644 TTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAG
* * * * *
231100 AATCCATGTTTGTCTCATTTGAGGCACGAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGTGT
709 AATCCATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAGCGT
* *
231165 ATCTTGCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACCATGTTTATGGTGCCTAA
774 TTCTTGCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAA
* * ** * *
231230 TCCTGAAAATATTGGGGATTAGTATGGGTGTTCATGTTTGTCTTATTTAAGAGGCAAACTTTGAT
839 TCCTGAAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGAT
* * *
231295 TTTATCAATATCGTTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
904 TCTATCAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* *
231345 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTG
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
* * * * * ** *
231410 GTACTAGAAACAATGTAGGTCTCATTTAAAGTGGAAACTTTGATTTTATGGAAAATAAGGCAAAG
66 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* *
231475 AAAAGA-TTTCGATGCAAAAGAAAACCATCAATACCATTTATCCTAATGAGGAGAATGTGTTTAT
131 AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* * * * * *
231539 AGTGCCTAATCACGAAATGAATGAAGATCGTTAGTAGAATCCATATTTGTCTAATTTGATG-AAT
196 AGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAA-
** * * * * * * *
231603 GGGCTTATACTTTACAAAAATTAGAGGAAAGAAAGCATTTCTTGCAAAACCAAAGCATCAAATAT
260 GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATC-AATAT
** * *** * * *
231668 CATGT-TTTGTTTTGAGAAGACTATGTTTATGGTGCCTAATATGGAAAAGAATGGGTATTTGTGT
324 CATGTATCCG-TATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTAT
* * ** * *
231732 GAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATCGATATTGGTGGAAAAAAAA
388 GAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAA
*
231797 GCTTCTCTTGTG--A-C--A-C--C-A----A-G-------------GGAATGTGTTTTTGGTT-
453 GCTTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTC
* * * * * * * *
231834 CTCAATTTTGAAAAGAAGGGAGACTGTTT-CAAGAATCAATG-TTG-CCCTATTGAAGGGACAAA
518 CT-AATCTTGAAAAGAATGGAGACT-TTTACGAGAATCAATGCATGTCTC-ATTTAAAGTACAAA
* * * * * * * *
231896 CTTTGATTTTAAGGAAAAT-AGGGAGAAGAAAAGATTTTCGTGCGAATGAAAATCGTCAATATCA
580 CTTTGATTTTAAGGAAAATAAGGCA-AAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCA
* * * * *
231960 TTTATGCTAATAAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATGAAGATCATTTTGCT
644 TTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATC--CTTACT
* * ** * *
232025 AGAATCCCA-GTTTGTCTCATTTGAGGCACAAACTTAGACTTTACAAAAATTGGTGGGAAGAAAG
707 AGAAT-CCATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAG
* *
232089 CATTTCTTGCGAAACCAAAGCATCAATATCATTTATCCTTATGAGAAGACTATGTTTATGGTGCC
771 CGTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCC
** ** * * *
232154 TAAT-CTGGAAATTAATGTCGATTAGTATGAGTATTTAGGTTTGTCTTATTTAAGAGACAAACTT
836 TAATCCT-GAAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTT
* * * * * * *
232218 TGATTCTAT-AAAAACGATGGAAAGACAGGCTTCTTTTGCGACAACAAAGCATC
900 TGATTCTATCAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * *
232271 ATTGTCATGTATCCTAATGAAGGGAATGCGCTTTTGGTTCCCAATCTT-AAAGAGAATGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAA-AGAATGGAGACT
* * * ** *
232335 TTTACAAGAATGAATGCATGTCGCATTTAACGTACAAACTTTGATTTTTTGGAAAATAAGGTAAA
65 TTTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
* ** * * *
232400 GAAAAGA-TTTCCATGCAAAATAAAACCATCAATATCATGCATCTTGATGAGGAGAATGTGGTTA
130 GAAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTA
*
232464 TAGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAC
195 TAGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAA
* *
232529 GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGTGTATCTTGCGAAACCAAAGCATCAATA-C
260 GAACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATATC
* * * *
232593 ATGTATCCATATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAACGGGGATTAGTTTGA
325 ATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGA
*
232658 GTATTCATGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAATAACGGTGGAAAGAAAAGC
390 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAAGC
*
232722 TTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTTGGTTCAC
455 TTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTC-C
* * **
232787 -AATCTTGAAAAGAATGGAGACTTTCACGAGAATCAATGCAGGTCTCATTTAAAG-GGAAACTTT
519 TAATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTT
* * * * *
232850 GATTTTAAGGAAAATAAGACAAAGAAAAGATTTCCACGTAAAAGAAAACCATCAACATCATTTAT
584 GATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCATTTAT
* * * * * * *
232915 CCTAAAGCGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATAAAGATCCCTACAAGAATGC
649 CCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCC
* * * * * * * * * * *
232980 ATGTTTGTCTCATTTGAGCAATGAACTCATACTTTACACAAATCGGGGGGAAAAAAGCGTATCCT
714 ATGTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAGCGTTTCTT
* * * *
233045 GCGAGACCAAAGCATCAATATCATGTATCCTTATAAGAATACTATGTTTATGGTGCCTAATCCAG
779 GCGAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTG
* * *
233110 AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTGAGAGAC-AACTTTTATTCTAT
844 AAAAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
* * * *
233174 CAATAACGATGGAAAGACAAGCTTCTCTTACGACACCAAAGCATC
909 CAATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
* * * *
233219 AATGTCATGTATCCTAATGAAAGGAATGTGTTTTTGGTTCACAATCTAGAAAAAAATGGAGACTT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
* * ** *
233284 TTACGAGAATCAATGCAGGTCTCATTTAAAGGGCAAACTTTGATTTTAATGAAAATAAGGCAAAG
66 TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* * * *
233349 AAAAGA-TTTCCACGCAAAAGAAAACCATCAACATCATTTATCATAAAGCA-GAGAATGTGTTTA
131 AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATG-AGGAGAATGTGTTTA
* * * * *
233412 TAGTGCCTAATCACGAAATTAATGAAGATCCCTACAAGAATGCATGTTTGTCTCATTTGA-GCAT
195 TAGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCA-
* * * * *
233476 TGAACTCA-AACTTTACACAAATTGGTGGGAAGAAAACGTATCTTGCGAAACCAAAGCATCAATA
259 AGAACTTAGAA-TTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATA
* *
233540 TCATGTATCCGTATAAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTAT
323 TCATGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTAT
233605 GAGTATTCATGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAA
388 GAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAA
233652 CAACAGTTTG
Statistics
Matches: 6487, Mismatches: 1251, Indels: 761
0.76 0.15 0.09
Matches are distributed among these distances:
923 42 0.01
924 114 0.02
925 142 0.02
926 310 0.05
927 183 0.03
928 4 0.00
929 1 0.00
931 1 0.00
932 1 0.00
936 1 0.00
937 1 0.00
938 1 0.00
939 1 0.00
944 1 0.00
946 1 0.00
947 21 0.00
948 471 0.07
949 308 0.05
950 467 0.07
951 1490 0.23
952 1307 0.20
953 543 0.08
954 51 0.01
955 22 0.00
956 14 0.00
957 14 0.00
958 17 0.00
959 18 0.00
960 8 0.00
961 13 0.00
962 3 0.00
963 1 0.00
964 2 0.00
966 12 0.00
968 17 0.00
969 9 0.00
970 3 0.00
971 22 0.00
972 21 0.00
973 11 0.00
974 15 0.00
975 12 0.00
976 10 0.00
977 21 0.00
978 7 0.00
979 13 0.00
980 5 0.00
981 21 0.00
982 8 0.00
983 1 0.00
984 8 0.00
985 7 0.00
986 7 0.00
987 23 0.00
988 4 0.00
989 4 0.00
991 2 0.00
992 2 0.00
993 4 0.00
994 1 0.00
995 7 0.00
996 5 0.00
997 16 0.00
998 10 0.00
999 6 0.00
1000 10 0.00
1001 15 0.00
1002 16 0.00
1003 18 0.00
1004 13 0.00
1005 11 0.00
1006 5 0.00
1007 10 0.00
1008 15 0.00
1009 5 0.00
1010 7 0.00
1011 1 0.00
1012 4 0.00
1013 3 0.00
1014 2 0.00
1015 1 0.00
1016 4 0.00
1017 6 0.00
1018 21 0.00
1019 5 0.00
1020 7 0.00
1021 11 0.00
1022 1 0.00
1023 10 0.00
1024 22 0.00
1025 3 0.00
1026 24 0.00
1027 14 0.00
1028 11 0.00
1029 5 0.00
1030 7 0.00
1031 15 0.00
1032 27 0.00
1033 9 0.00
1034 8 0.00
1035 14 0.00
1036 1 0.00
1037 16 0.00
1039 1 0.00
1040 1 0.00
1041 5 0.00
1042 6 0.00
1043 7 0.00
1044 14 0.00
1045 17 0.00
1046 15 0.00
1047 13 0.00
1048 23 0.00
1049 41 0.01
1050 27 0.00
1051 13 0.00
1052 9 0.00
1053 3 0.00
1054 25 0.00
1055 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (953 bp):
AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTT
TTACAAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
AAAAGATTTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
AGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAAG
AACTTAGAATTTACAAAAATTGGTGGGAAGAAAGCGTTTCTTGCGAAACCAAAGCATCAATATCA
TGTATCCGTATGAGAAGACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGAG
TATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGGTGGAAAGACAAGCT
TCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTCCTA
ATCTTGAAAAGAATGGAGACTTTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGA
TTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAACCATCAATACCATTTATCC
TAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCAT
GTTTGTCTAATTTGAGGAATGAACTTAGAATTTACAAAAATTGGAGGGAAGAAAGCGTTTCTTGC
GAAACCAAAGCATCAATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCCTGAA
AAGAATGGGGATTAGTATAAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCA
ATAACGGTGGAAGGAAAAGCTTCTCTTGCGACACCAAAGCATC
Found at i:229454 original size:159 final size:155
Alignment explanation
Indices: 229264--230025 Score: 414
Period size: 158 Copynumber: 4.8 Consensus size: 155
229254 AGAAAGCATT
* * *
229264 TCTTGTGAAACCAAAGCATCAACATCATGTATCCGT-ATGAGAAATCTATGTTTATGGTGCCTAA
1 TCTTGCGAAACCAAAGCAAC-ATATCATGTATCC-TAATGAGAAA--TATGTTTATGGTGCCTAA
* *
229328 TCCAGAAAAGAATGTGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGGCAAACTTTCAT
62 TCCAGAAAAGAATG-GGATTAGTATGAGTATTCATGTTTGTCTCATTTAAGAGGCAAACTTTGAT
229393 TCCATCAATAACGGT-GGAAAGACAAGCTTC
126 TCCATCAA-AACGGTAGGAAAGACAAGCTTC
* * * * *
229423 TCTTGCGACACCAAAGCAACATTGTCATGTATCCTAATGTAAGAAATGTGTTTTTGGTTCCTAAT
1 TCTTGCGAAACCAAAGCAACA-TATCATGTATCCTAATG--AGAAATATGTTTATGGTGCCTAAT
** * * * * **
229488 CTTGAAATGAATGGAGACTT-TTACGAG-AATCAATGCATGTCTCATTTAA-AGTGCAAACTTTG
63 CCAGAAAAGAATGG-GA-TTAGTATGAGTATTC-ATGTTTGTCTCATTTAAGAG-GCAAACTTTG
** * * * * *
229550 ATTTTATGGAAAA--TTAGGCAAAGAAAAGATTT
124 ATTCCAT-CAAAACGGTAGG-AAAGACAAGCTTC
* * ** * * * *
229582 TCATGCAAAAGAAAACCATA-ATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAAT
1 TCTTGCGAAACCAAAGCA-ACATATCATGTATCCTAATGA-GA-AATATGTTTATGGTGCCTAAT
* * ** * * *
229646 -CATGAAATGAATGAAGATCCGTACT-AGAATCCATGTTTGTCTCATTT--GAGGCAGGAACTTA
63 CCA-GAAAAGAATG-GGATTAGTA-TGAGTATTCATGTTTGTCTCATTTAAGAGGCA--AACTTT
* ** * * * *
229707 GAATTTACA-CAAATTGGTGGGACA-A-AAGCGTA
123 G-A-TTCCATCAAAACGGTAGGAAAGACAAGCTTC
* *
229739 TCTTGCGAAACCAAAGCATCAATATCATGTATCCGT-ATAAGAAGACTATGTTTATGGTGCCTAA
1 TCTTGCGAAACCAAAGCAAC-ATATCATGTATCC-TAATGAGAA-A-TATGTTTATGGTGCCTAA
* * * * *
229803 TCTAGAAAA-AATGGGGATTAGTATGAGTATTCCTATTTGTCTTATTTAAGAGAC-AACTTTGAT
62 TCCAGAAAAGAAT-GGGATTAGTATGAGTATTCATGTTTGTCTCATTTAAGAGGCAAACTTTGAT
*
229866 TCTATCAATAACGGT-GGAAAGACAAGCTTC
126 TCCATCAA-AACGGTAGGAAAGACAAGCTTC
* * * * * * * *
229896 TCTTGCGACACCAAAGCATCGACATCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTCCTAAT
1 TCTTGCGAAACCAAAGCAAC-ATATCATGTATCCTAAT--GAGAAATATGTTTATGGTGCCTAAT
** * * ** *
229961 CTTGAAAAGAATGGAGATTGGTATGAG-AATCAATGCCTGTCTCATTTAA-AGTGGAAACTTTGA
63 CCAGAAAAGAATGG-GATTAGTATGAGTATTC-ATGTTTGTCTCATTTAAGAG-GCAAACTTTGA
230024 TT
125 TT
230026 TTATGGAAAA
Statistics
Matches: 452, Mismatches: 103, Indels: 96
0.69 0.16 0.15
Matches are distributed among these distances:
154 3 0.01
155 8 0.02
156 18 0.04
157 120 0.27
158 146 0.32
159 141 0.31
160 11 0.02
161 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (155 bp):
TCTTGCGAAACCAAAGCAACATATCATGTATCCTAATGAGAAATATGTTTATGGTGCCTAATCCA
GAAAAGAATGGGATTAGTATGAGTATTCATGTTTGTCTCATTTAAGAGGCAAACTTTGATTCCAT
CAAAACGGTAGGAAAGACAAGCTTC
Found at i:229675 original size:158 final size:157
Alignment explanation
Indices: 228972--231567 Score: 521
Period size: 159 Copynumber: 16.4 Consensus size: 157
228962 AACGCTAATG
* * * * *
228972 TCATGTATCCTAATGAAGG-GAAAGTGTTTTTGGAT-CCTAATCTTGGAAACG-ATGGAGA-CTT
1 TCATGTATCCTAATG-AGGAGAATGTGTTTATGG-TGCCTAATCAT-GAAATGAATGGAGATC-C
* * * * * * * * *
229033 TTACGAGAATCAATGCATGTCTCATTTAAAGTACAG-ACTTTTATTTAGAGCAAAATAAGGTAAA
62 GTACTAGAATCAATGCTTGTCTCATTT-AAGTGCAGAACTTTGATTT-TATCAAAAT-TGGCAAA
* *
229097 GAAAAGA-TTTCGATGCAAAAGAAAACAATCAATA
124 GAAAAGATTTTC-ATGCAAAACAAAACCATCAATA
* * * * * *
229131 CCATTTATCCTAAAGAGGAGAATGTGTTTATAGTGCCTAATCA-CAAATGAATGAAGAT-CGTTA
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATCCG-TA
* ** * * * * * **
229194 CTAGAATCCATATTTGTCTAATTTGAG-GAATGAACATAT-ACTTTA-CAAAAATTGAAGGGAAG
65 CTAGAATCAATGCTTGTCTCATTTAAGTGCA-GAAC-TTTGATTTTATC-AAAATTG--GCAAAG
* ** * * *
229256 -AAAGCA-TTTCTTGTGAAACCAAAGCATCAACA
125 AAAAG-ATTTTCATGCAAAACAAAACCATCAATA
* * *
229288 TCATGTATCCGT-ATGA-GA-AATCTATGTTTATGGTGCCTAATCCA-GAAAAGAATGTG-GATT
1 TCATGTATCC-TAATGAGGAGAA--TGTGTTTATGGTGCCTAAT-CATGAAATGAATG-GAGATC
* * * * * * ** *
229348 AGTA-TGAGTATTC-ATGTTTGTCTTATTTAAGAGGCA-AACTTTCATTCCATCAATAACGGTGG
61 CGTACT-AG-AATCAATGCTTGTCTCATTTAAG-TGCAGAACTTTGATTTTATCAA-AA--TTGG
* * * * * * * * * * *
229410 -AAAGACAAGCTTCTCTTGCGACACCAAAGCAACATTG
120 CAAAGAAAAGATTTTCATGCAAAACAAAACCATCAATA
* * * * **
229447 TCATGTATCCTAATGTAAGA-AATGTGTTTTTGGTTCCTAATCTTGAAATGAATGGAGA-CTTTT
1 TCATGTATCCTAATG-AGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATC-CGT
* * *
229510 ACGAGAATCAATGCATGTCTCATTTAAAGTGCA-AACTTTGATTTTATGGAAAATTAGGCAAAGA
64 ACTAGAATCAATGCTTGTCTCATTT-AAGTGCAGAACTTTGATTTTAT-CAAAATT-GGCAAAGA
*
229574 AAAGATTTTCATGCAAAAGAAAACCAT-AATA
126 AAAGATTTTCATGCAAAACAAAACCATCAATA
* * *
229605 TCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATGAAATGAATGAAGATCCGTAC
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATCCGTAC
* * * * * *** *
229670 TAGAATCCATGTTTGTCTCATTTGAG-GCAGGAACTTAGAATTTA-CACAAATTGGTGGGACAAA
66 TAGAATCAATGCTTGTCTCATTTAAGTGCA-GAACTTTGATTTTATCA-AAATTGG-CAAAGAAA
** * * * * *
229733 AGCGTATCTTGCGAAACCAAAGCATCAATA
128 AGATTTTCATGCAAAACAAAACCATCAATA
* * * * * * **
229763 TCATGTATCCGT-ATAAGAAGACTATGTTTATGGTGCCTAATC-TAGAAA-AAATGGGGATTAGT
1 TCATGTATCC-TAATGAGGAGAATGTGTTTATGGTGCCTAATCAT-GAAATGAATGGAGATCCGT
* * * * * * *
229825 A-TGAGTATTCCTAT--TTGTCTTATTTAAGAG-ACAACTTTGATTCTATCAATAACGGTGG-AA
64 ACT-AG-AAT-CAATGCTTGTCTCATTTAAGTGCAGAACTTTGATTTTATCAA-AA--TTGGCAA
* * * * * * * * * *
229885 AGACAAGCTTCTCTTGCGACACCAAAGCATCGACA
123 AGAAAAGATTTTCATGCAAAACAAAACCATCAATA
** * * * * **
229920 TCATGTATCCTAAT-AAAAGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGATTGGTA
1 TCATGTATCCTAATGAGGA-GAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATCCGTA
* * * *
229984 -TGAGAATCAATGCCTGTCTCATTTAAAGTGGA-AACTTTGATTTTATGGAAAATAAGGCAAAGA
65 CT-AGAATCAATGCTTGTCTCATTT-AAGTGCAGAACTTTGATTTTAT-CAAAAT-TGGCAAAGA
* * *
230047 AAAGATTTCCATGAAAAAAAAAACCATCAATA
126 AAAGATTTTCATGCAAAACAAAACCATCAATA
* * * * * *
230079 TCATGCATCCTGATGAGGAGAATGTGCTTATAGTGCCTAATCACGAAATGAATGAAGAT-CGTTA
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATCCG-TA
* * * * * * * *
230143 CTAGAATCCATGTTTGTCTAATTTGAG-GAACGGACTTAGACTTTA-CAAAAATTGG-AGGGAAG
65 CTAGAATCAATGCTTGTCTCATTTAAGTGCA-GAACTTTGATTTTATC-AAAATTGGCA---AAG
** * * * * *
230205 -AAAGCGTTTCTTACGAAACCAAAGCATCAATA
125 AAAAGATTTTCATGCAAAACAAAACCATCAATA
** ** * * * * * * * * **
230237 TCATGTATTGTTTTGAGAAGACTATGTCTGTGGTGCCTAA-AACGGAAAAGAATGG-GAATTTGT
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCA-TGAAATGAATGGAG-ATCCGT
* * * * * * *
230300 -GTGAGTATTC-ATGTTTGTCTTATTTAAGAGACA-AACTTTAATTTTATCAATATCGGTGG-AA
64 ACT-AG-AATCAATGCTTGTCTCATTTAAGTG-CAGAACTTTGATTTTATCAAAAT---TGGCAA
* * * ** * * ** *
230361 AGAAAAGCTTCTCTTGTGACACCAAGGCATCAATG
123 AGAAAAGATTTTCATGCAAAACAAAACCATCAATA
* * ** ** *
230396 TCATGTATCCTAATGAAGG-GAATGTGTTTTTGGT-TCTCAATTTTGAAAAAAATGGAGA-CTGT
1 TCATGTATCCTAATG-AGGAGAATGTGTTTATGGTGCCT-AATCATGAAATGAATGGAGATCCG-
* * * * * * * *
230458 TTCAAGAATCAATGCTT-TCCCTATTGAAGGGACA-AACATTGATTTTAAGT-AAAATAGGGAAA
63 TACTAGAATCAATGCTTGTCTC-ATTTAAGTG-CAGAACTTTGATTTT-A-TCAAAAT-TGGCAA
* * * ** *
230520 AGAAAAGATTTCCATACGAATGAAAACCGTCAATA
123 AGAAAAGATTTTCATGCAAAACAAAACCATCAATA
* * * * * ** * **
230555 TCATTTATGCTAATAAGAAGAATGTGTTTATAGTGCCTAATCACAAAACGAAT-GATGATCATTT
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGA-GATC--CG
* ** * * * * **
230619 TGCTAGAATCTCTGTTTGTCTCATTTGAG-GAACA-AACTTAGACTTTA-CAAAAATTGGTGGGA
63 TACTAGAATCAATGCTTGTCTCATTTAAGTG--CAGAACTTTGATTTTATC-AAAATT-G-GCAA
* * * *
230681 AG-AAAGCA-TTTCTTGGGAAACCAAAA-CATCAATT
123 AGAAAAG-ATTTTCAT-GCAAAACAAAACCATCAATA
* * * * * * * * * ** **
230715 TCATTTATCCTTATGAGAAGACTATGTTTACGGTGCCAAATC-TAAAAAAGAATGTCGATTAGTA
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCAT-GAAATGAATGGAGATCCGTA
* ** * * * * * * * * * *
230779 -TGAGTATTTAGGTTTGCCTTAGTTAAGAG-ACGAATTTTGATTCTATAAATAACGATGG-AAAG
65 CT-AGAATCAATGCTTGTCTCATTTAAGTGCA-GAACTTTGATTTTATCAA-AA--TTGGCAAAG
* * * * * * * * *
230841 ACAGGCTTCCTT--TGCGATAGC-AAAGCAACATTG
125 AAAAGATT--TTCATGC-AAAACAAAACCATCAATA
* * * * * **
230874 TCATGTATCCTAATGAAGG-GAATGTGTTTTTGG-GTCCAAATCTTAAAAAGAATGGAGA-CTTT
1 TCATGTATCCTAATG-AGGAGAATGTGTTTATGGTG-CCTAATCATGAAATGAATGGAGATC-CG
* * * * * *
230936 TACAAGAATGAATGCATGTCGCATTTAAAGTACA-AACTTTGATTTTA--AGGAATTAAGGCAAA
63 TACTAGAATCAATGCTTGTCTCATTT-AAGTGCAGAACTTTGATTTTATCA-AAATT--GGCAAA
* *
230998 GAAAAGATTTCCATGCAAAAGAAAACCATCAATA
124 GAAAAGATTTTCATGCAAAACAAAACCATCAATA
* * * * *
231032 TCATGTATCCTGATGAGGAGAATGTGTTTATCGTGCCTAATCACGAAATGAATGAAGATCCTTAC
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATCCGTAC
* * * * * **
231097 TAGAATCCATGTTTGTCTCATTTGAG-GCACGAACTTAGAATTTA-CAAAAATTGGTGGGAAG-A
66 TAGAATCAATGCTTGTCTCATTTAAGTGCA-GAACTTTGATTTTATC-AAAATT-G-GCAAAGAA
* * * * *
231159 AAG-TGTATCTTGCGAAACCAAAGCATCAATA
127 AAGAT-TTTCATGCAAAACAAAACCATCAATA
* * *** * * * **
231190 TCATGTATCCTTATGAGAAGACCATGTTTATGGTGCCTAATCCTGAAAAT-ATTGGGGATTAGTA
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATG-AAATGAATGGAGATCCGTA
* ** * * * * *
231254 -TGGGTGTTC-ATGTTTGTCTTATTTAAGAGGCA-AACTTTGATTTTATCAATATCGTTGG-AAG
65 CT-AG-AATCAATGCTTGTCTCATTTAAG-TGCAGAACTTTGATTTTATCAA-A--ATTGGCAAA
* * * * * * * *
231315 GAAAAGCTTCTCTTGCGACACCAAAGCATCAATG
124 GAAAAGATTTTCATGCAAAACAAAACCATCAATA
* * * * *
231349 TCATGTATCCTAATGAAGG-GAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGA-CTGGT
1 TCATGTATCCTAATG-AGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATC-CGT
* * * * *
231412 ACTAGAAACAATG-TAGGTCTCATTTAAAGTGGA-AACTTTGATTTTATGGAAAATAAGGCAAAG
64 ACTAGAATCAATGCT-TGTCTCATTT-AAGTGCAGAACTTTGATTTTAT-CAAAAT-TGGCAAAG
*
231475 AAAAGA-TTTCGATGCAAAAGAAAACCATCAATA
125 AAAAGATTTTC-ATGCAAAACAAAACCATCAATA
* * * * *
231508 CCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACGAAATGAATGAAGATC
1 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATC
231568 GTTAGTAGAA
Statistics
Matches: 1748, Mismatches: 511, Indels: 355
0.67 0.20 0.14
Matches are distributed among these distances:
155 3 0.00
156 35 0.02
157 212 0.12
158 616 0.35
159 706 0.40
160 115 0.07
161 57 0.03
162 4 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (157 bp):
TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCTAATCATGAAATGAATGGAGATCCGTAC
TAGAATCAATGCTTGTCTCATTTAAGTGCAGAACTTTGATTTTATCAAAATTGGCAAAGAAAAGA
TTTTCATGCAAAACAAAACCATCAATA
Found at i:231219 original size:475 final size:476
Alignment explanation
Indices: 228968--233651 Score: 5795
Period size: 475 Copynumber: 9.9 Consensus size: 476
228958 AAGAAACGCT
* * *
228968 AATGTCATGTATCCTAATGAAGGGAAAGTGTTTTTGGATCCTAATCTTGGAAACG-ATGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTT-GAAAAGAATGGAGACT
* * * *
229032 TTTACGAGAATCAATGCATGTCTCATTTAAAGTACAGACTTTTA-TTTAGAGCAAAATAAGGTAA
65 TTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTA-AGGAAAATAAGGCAA
* * * *
229096 AGAAAAGATTTCGATGCAAAAGAAAACAATCAATACCATTTATCCTAAAGAGGAGAATGTGTTTA
129 AGAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTA
* * * * *
229161 TAGTGCCTAATCAC-AAATGAATGAAGATCGTTACTAGAATCCATATTTGTCTAATTTGAGGAAT
194 TAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCAC
* * ** * * * *
229225 GAACATATACTTTACAAAAATTGAAGGGAAGAAAGCATTTCTTGTGAAACCAAAGCATCAACATC
259 GAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATATC
* * *
229290 ATGTATCCGTATGAGAA-ATCTATGTTTATGGTGCCTAATCCAGAAAAGAATGTGGATTAGTATG
324 ATGTATCCTTATGAGAAGA-CTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATG
* * * *
229354 AGTATTCATGTTTGTCTTATTTAAGAGGCAAACTTTCATTCCATCAATAACGGTGGAAAGACAAG
388 AGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAG
*
229419 CTTCTCTTGCGACACCAAAGCAAC
453 CTTCTCTTGCGACACCAAAGCATC
* * *
229443 ATTGTCATGTATCCTAATGTAA-GAAATGTGTTTTTGGTTCCTAATCTTGAAATGAATGGAGACT
1 AATGTCATGTATCCTAATG-AAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACT
* * *
229507 TTTACGAGAATCAATGCATGTCTCATTTAAAGTGCAAACTTTGATTTTATGGAAAATTAGGCAAA
65 TTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
*
229572 GAAAAGATTTTCATGCAAAAGAAAACCAT-AATATCATTTATCCTAATGAGGAGAATGTGTTTAT
130 GAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* * *
229636 AGTGCCTAATCATGAAATGAATGAAGATCCGTACTAGAATCCATGTTTGTCTCATTTGAGGCAGG
195 AGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACG
* *
229701 AACTTAGAATTTACACAAATTGGTGGGACA-AAAGCGTATCTTGCGAAACCAAAGCATCAATATC
260 AACTTAGACTTTACAAAAATTGGTGGGA-AGAAAGCGTATCTTGCGAAACCAAAGCATCAATATC
* *
229765 ATGTATCCGTATAAGAAGACTATGTTTATGGTGCCTAATCTAGAAAA-AATGGGGATTAGTATGA
324 ATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATGA
* * *
229829 GTATTCCTATTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAATAACGGTGGAAAGACAAGC
389 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGC
229893 TTCTCTTGCGACACCAAAGCATC
454 TTCTCTTGCGACACCAAAGCATC
* ** * *
229916 GACATCATGTATCCTAATAAAAGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGA-TT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTT
* * * ** *
229980 GGTATGAGAATCAATGCCTGTCTCATTTAAAGTGGAAACTTTGATTTTATGGAAAATAAGGCAAA
66 -TTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
* * ** * *
230045 GAAAAGATTTCCATGAAAAAAAAAACCATCAATATCATGCATCCTGATGAGGAGAATGTGCTTAT
130 GAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* * *
230110 AGTGCCTAATCACGAAATGAATGAAGATCGTTACTAGAATCCATGTTTGTCTAATTTGAGGAACG
195 AGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACG
* * * *
230175 GACTTAGACTTTACAAAAATTGGAGGGAAGAAAGCGTTTCTTACGAAACCAAAGCATCAATATCA
260 AACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATATCA
** * * * * * * * *
230240 TGTATTGTTTTGAGAAGACTATGTCTGTGGTGCCTAAAAC-GGAAAAGAATGGGAATTTGTGTGA
325 TGTATCCTTATGAGAAGACTATGTTTATGGTGCCT-AATCTAGAAAAGAATGGGGATTAGTATGA
* * * * *
230304 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTAATTTTATCAATATCGGTGGAAAGAAAAGC
389 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGC
* *
230369 TTCTCTTGTGACACCAAGGCATC
454 TTCTCTTGCGACACCAAAGCATC
* *
230392 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTT-CTCAATTTTGAAAAAAATGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCT-AATCTTGAAAAGAATGGAGACT
* * * * * * * * * *
230456 GTTT-CAAGAATCAATGC-TTTCCCTATTGAAGGGACAAACATTGATTTTAAGTAAAATAGGGAA
65 -TTTACGAGAATCAATGCATGTCTC-ATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCA
* * * * * * *
230519 AAGAAAAGATTTCCATACGAATGAAAACCGTCAATATCATTTATGCTAATAAGAAGAATGTGTTT
128 AAGAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTT
* * * * *
230584 ATAGTGCCTAATCACAAAACGAATGATGATCATTTTGCTAGAATCTC-TGTTTGTCTCATTTGAG
193 ATAGTGCCTAATCACGAAATGAATGAAGATC--CTTACTAGAATC-CATGTTTGTCTCATTTGAG
* * * * * *
230648 GAACAAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCATTTCTTGGGAAACCAAAACATCAA
255 GCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAA
* * * * * **
230713 TTTCATTTATCCTTATGAGAAGACTATGTTTACGGTGCCAAATCTAAAAAAGAATGTCGATTAGT
320 TATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGT
* * * * * * *
230778 ATGAGTATTTAGGTTTGCCTTAGTTAAGAGACGAATTTTGATTCTATAAATAACGATGGAAAGAC
385 ATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGAC
* * * *
230843 AGGCTTC-CTTTGCGATAGCAAAGCAAC
450 AAGCTTCTC-TTGCGACACCAAAGCATC
* * * *
230870 ATTGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGGTCCAAATCTTAAAAAGAATGGAGACTT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTT
* * * *
230935 TTACAAGAATGAATGCATGTCGCATTTAAAGTACAAACTTTGATTTTAAGG-AATTAAGGCAAAG
66 TTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* * *
230999 AAAAGATTTCCATGCAAAAGAAAACCATCAATATCATGTATCCTGATGAGGAGAATGTGTTTATC
131 AAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATA
231064 GTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACGA
196 GTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACGA
* *
231129 ACTTAGAATTTACAAAAATTGGTGGGAAGAAAGTGTATCTTGCGAAACCAAAGCATCAATATCAT
261 ACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATATCAT
* * * *
231194 GTATCCTTATGAGAAGACCATGTTTATGGTGCCTAATCCT-GAAAATATTGGGGATTAGTATGGG
326 GTATCCTTATGAGAAGACTATGTTTATGGTGCCTAAT-CTAGAAAAGAATGGGGATTAGTATGAG
* * * * * * *
231258 TGTTCATGTTTGTCTTATTTAAGAGGCAAACTTTGATTTTATCAATATCGTTGGAAGGAAAAGCT
390 TATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGCT
231323 TCTCTTGCGACACCAAAGCATC
455 TCTCTTGCGACACCAAAGCATC
*
231345 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTG
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTT
* * * * * ** *
231410 GTACTAGAAACAATGTAGGTCTCATTTAAAGTGGAAACTTTGATTTTATGGAAAATAAGGCAAAG
66 TTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
* *
231475 AAAAGATTTCGATGCAAAAGAAAACCATCAATACCATTTATCCTAATGAGGAGAATGTGTTTATA
131 AAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATA
* * * * * * * *
231540 GTGCCTAATCACGAAATGAATGAAGATCGTTAGTAGAATCCATATTTGTCTAATTTGATGAATGG
196 GTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACGA
* * * * * * * *
231605 GCTTATACTTTACAAAAATTAGAGGAAAGAAAGCATTTCTTGCAAAACCAAAGCATCAAATATCA
261 ACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATC-AATATCA
* ** * * * * * *
231670 TGTTTTGTTTTGAGAAGACTATGTTTATGGTGCCTAATATGGAAAAGAATGGGTATTTGTGTGAG
325 TGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATGAG
* * ** * * *
231735 TATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTTTATCGATATTGGTGGAAAAAAAAGCT
390 TATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGCT
231800 TCTCTT-----------G----
455 TCTCTTGCGACACCAAAGCATC
* * *
231807 --TG--A--CA-CC-----AAGGGAATGTGTTTTTGGTT-CTCAATTTTGAAAAGAAGGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCT-AATCTTGAAAAGAATGGAGACT
* * * * * * *
231859 GTTT-CAAGAATCAATGT-TG-CCCTATTGAAGGGACAAACTTTGATTTTAAGGAAAAT-AGGGA
65 -TTTACGAGAATCAATGCATGTCTC-ATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCA
* * * * * * * *
231920 GAAGAAAAGATTTTCGTGCGAATGAAAATCGTCAATATCATTTATGCTAATAAGGAGAATGTGTT
128 -AAGAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTT
* * *
231985 TATAGTGCCTAATCACAAAATGAATGAAGATCATTTTGCTAGAATCCCA-GTTTGTCTCATTTGA
192 TATAGTGCCTAATCACGAAATGAATGAAGATC--CTTACTAGAAT-CCATGTTTGTCTCATTTGA
* * *
232049 GGCACAAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCATTTCTTGCGAAACCAAAGCATCA
254 GGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCA
* * ** **
232114 ATATCATTTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTGGAAATTAATGTCGATTAG
319 ATATCATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAG
* * *
232179 TATGAGTATTTAGGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT-AAAAACGATGGAAAGA
384 TATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGA
* * *
232243 CAGGCTTCTTTTGCGACAACAAAGCATC
449 CAAGCTTCTCTTGCGACACCAAAGCATC
* * * *
232271 ATTGTCATGTATCCTAATGAAGGGAATGCGCTTTTGGTTCCCAATCTT-AAAGAGAATGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAA-AGAATGGAGACT
* * * * ** *
232335 TTTACAAGAATGAATGCATGTCGCATTTAACGTACAAACTTTGATTTTTTGGAAAATAAGGTAAA
65 TTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
* ** * * *
232400 GAAAAGATTTCCATGCAAAATAAAACCATCAATATCATGCATCTTGATGAGGAGAATGTGGTTAT
130 GAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
*
232465 AGTGCCTAATCATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACG
195 AGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACG
* *
232530 AACTTAGAATTTACAAAAATTGGTGGGAAGAAAGTGTATCTTGCGAAACCAAAGCATCAATA-CA
260 AACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATATCA
* * *
232594 TGTATCCATATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAACGGGGATTAGTTTGAG
325 TGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATGAG
* *
232659 TATTCATGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAATAACGGTGGAAAGAAAAGCT
390 TATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGCT
232723 TCTCTTGCGACACCAAAGCATC
455 TCTCTTGCGACACCAAAGCATC
*
232745 AATGTCATGTATCCTAATGAAAGGAATGTGTTTTTGGTTCAC-AATCTTGAAAAGAATGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTC-CTAATCTTGAAAAGAATGGAGACT
* * ** *
232809 TTCACGAGAATCAATGCAGGTCTCATTTAAAG-GGAAACTTTGATTTTAAGGAAAATAAGACAAA
65 TTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
* * * * *
232873 GAAAAGATTTCCACGTAAAAGAAAACCATCAACATCATTTATCCTAAAGCGGAGAATGTGTTTAT
130 GAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTAT
* * * * * *
232938 AGTGCCTAATCACAAAATGAATAAAGATCCCTACAAGAATGCATGTTTGTCTCATTTGA-GCAAT
195 AGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGC-AC
* * * * * * * *
233002 GAACTCATACTTTACACAAATCGGGGGGAAAAAAGCGTATCCTGCGAGACCAAAGCATCAATATC
259 GAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATATC
* * *
233067 ATGTATCCTTATAAGAATACTATGTTTATGGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGA
324 ATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATGA
* *
233132 GTATTCATGTTTGTCTTATTTGAGAGAC-AACTTTTATTCTATCAATAACGATGGAAAGACAAGC
389 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGC
*
233196 TTCTCTTACGACACCAAAGCATC
454 TTCTCTTGCGACACCAAAGCATC
* * *
233219 AATGTCATGTATCCTAATGAAAGGAATGTGTTTTTGGTTCAC-AATCTAGAAAAAAATGGAGACT
1 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTC-CTAATCTTGAAAAGAATGGAGACT
* ** *
233283 TTTACGAGAATCAATGCAGGTCTCATTTAAAGGGCAAACTTTGATTTTAATGAAAATAAGGCAAA
65 TTTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAA
* * * *
233348 GAAAAGATTTCCACGCAAAAGAAAACCATCAACATCATTTATCATAAAGCA-GAGAATGTGTTTA
130 GAAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATG-AGGAGAATGTGTTTA
* * * *
233412 TAGTGCCTAATCACGAAATTAATGAAGATCCCTACAAGAATGCATGTTTGTCTCATTTGA-GCAT
194 TAGTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCA-
* * * * *
233476 TGAACTCAAACTTTACACAAATTGGTGGGAAGAAAACGTATCTTGCGAAACCAAAGCATCAATAT
258 CGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATAT
* *
233541 CATGTATCCGTATAAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATG
323 CATGTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATG
233606 AGTATTCATGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAA
388 AGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAA
233652 CAACAGTTTG
Statistics
Matches: 3623, Mismatches: 506, Indels: 160
0.84 0.12 0.04
Matches are distributed among these distances:
448 6 0.00
449 134 0.04
450 149 0.04
451 75 0.02
452 3 0.00
455 2 0.00
456 1 0.00
458 1 0.00
460 3 0.00
466 3 0.00
468 1 0.00
470 1 0.00
471 2 0.00
472 6 0.00
473 395 0.11
474 712 0.20
475 1035 0.29
476 458 0.13
477 332 0.09
478 298 0.08
479 6 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (476 bp):
AATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTT
TTACGAGAATCAATGCATGTCTCATTTAAAGTACAAACTTTGATTTTAAGGAAAATAAGGCAAAG
AAAAGATTTCCATGCAAAAGAAAACCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATA
GTGCCTAATCACGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACGA
ACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCGTATCTTGCGAAACCAAAGCATCAATATCAT
GTATCCTTATGAGAAGACTATGTTTATGGTGCCTAATCTAGAAAAGAATGGGGATTAGTATGAGT
ATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAATAACGATGGAAAGACAAGCTT
CTCTTGCGACACCAAAGCATC
Found at i:233251 original size:158 final size:158
Alignment explanation
Indices: 232085--233651 Score: 528
Period size: 158 Copynumber: 9.9 Consensus size: 158
232075 TGGTGGGAAG
* * * *
232085 AAAGCATT-TCTTGCGAAACCAAAGCATCAATATCATTTATCCTTATGAGAA-GACTATGTTTAT
1 AAAGC-TTCTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGA-AAGGAATGTGTTTAT
** ** ** * * * *
232148 GGTGCCTAATCTGGAAATTAATGTCGATTAGTATGAGTATTTAGGTTTGTCTTATTTAAGAGACA
64 GGTGCCTAATCCAGAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAGAGAC-
*
232213 AACTTTGATTCTAT-AAAAACGATGGAAAGA
128 AACTTTGATTCTATCAATAACGATGGAAAGA
* * * * * * *
232243 CAGGCTTCTTTTGCGACAA-CAAAGCATCATTGTCATGTATCCTAATGAAGGGAATGCGCTTT-T
1 AAAGCTTCTCTTGCGA-AACCAAAGCATCAATATCATGTATCCTAATGAAAGGAATGTG-TTTAT
* * * * * * * ** ** * *
232306 GGTTCCCAATCTTA-AAGAGAATGGAGACTT-TTACAAGAATGAATGCATGTCGCATTTAACG-T
64 GGTGCCTAATC-CAGAAAAGAATGGAGA-TTAGTACGAGTATTCATGTTTGTCTCATTTAA-GAG
* * * * *
232368 ACAAACTTTGATTTTTTGGAA-AA-TAAGGTAAAGA
126 AC-AACTTTGATTCTAT-CAATAACGATGG-AAAGA
* * * ** * * * * * *
232402 AAAGATT-TCCATGCAAAATAAAACCATCAATATCATGCATCTTGATG-AGGAGAATGTGGTTAT
1 AAAGCTTCT-CTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAAAG-GAATGTGTTTAT
* * * *** * * * *
232465 AGTGCCTAAT-CATGAAATGAATGAAGATCCTTACTAGAATCCATGTTTGTCTCATTTGAG-GCA
64 GGTGCCTAATCCA-GAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAGAG-A
* * * * *
232528 CGAACTTAGAATT-TA-CAAAAATTGGTGGGAAG-
127 C-AACTTTG-ATTCTATCAATAA-CGATGGAAAGA
* * *
232560 AAAG-TGTATCTTGCGAAACCAAAGCATCAATA-CATGTATCC-ATATGAGAA-GACTATGTTTA
1 AAAGCT-TCTCTTGCGAAACCAAAGCATCAATATCATGTATCCTA-ATGA-AAGGAATGTGTTTA
* * * ** *
232621 TGGTGCCTAATCTAGAAAAGAACGGGGATTAGTTTGAGTATTCATGTTTGTCTTATTTAAGAGAC
63 TGGTGCCTAATCCAGAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAGAGAC
*
232686 AACTTTGATTCTATCAATAACGGTGGAAAGA
128 AACTTTGATTCTATCAATAACGATGGAAAGA
* * *
232717 AAAGCTTCTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTTGG
1 AAAGCTTCTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAAAGGAATGTGTTTATGG
* ** * *** *
232782 TTCAC-AATCTTGAAAAGAATGGAGACTT--TCACGAG-AATCAATGCAGGTCTCATTTAAAGGG
66 TGC-CTAATCCAGAAAAGAATGGAGA-TTAGT-ACGAGTATTC-ATGTTTGTCTCATTT-AAGAG
* ** *
232843 A-AACTTTGATTTTAAGGAAAATAA-GA--CAAAGA
126 ACAACTTTGATTCT-A--TCAATAACGATGGAAAGA
* ** ** * * * * **
232875 AAAGATT-TC-CACGTAAAAGAAAACCATCAACATCATTTATCCTAAAG-CGGAGAATGTGTTTA
1 AAAGCTTCTCTTGCG--AAACCAAAGCATCAATATCATGTATCCTAATGAAAG-GAATGTGTTTA
* * ** *** * * * *
232937 TAGTGCCTAATCACA-AAATGAATAAAGATCCCTACAAGAATGCATGTTTGTCTCATTTGAGCA-
63 TGGTGCCTAATC-CAGAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAG-AG
* * ** *
233000 ATGAACTCAT-ACTT-TA-CACA-AATCGGGGGGAA-A
126 A-CAACT-TTGA-TTCTATCA-ATAA-CGATGGAAAGA
* * * * * * *
233033 AAAGCGTATCCTGCGAGACCAAAGCATCAATATCATGTATCCTTAT--AAGAATACTATGTTTAT
1 AAAGCTTCTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAAAGGA-A-TGTGTTTAT
* * * *
233096 GGTGCCTAATCCAGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTGAGAGACA
64 GGTGCCTAATCCAGAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAGAGACA
*
233161 ACTTTTATTCTATCAATAACGATGGAAAGA
129 ACTTTGATTCTATCAATAACGATGGAAAGA
* * * * *
233191 CAAGCTTCTCTTACGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTTGG
1 AAAGCTTCTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAAAGGAATGTGTTTATGG
* * * * * *** *
233256 TTCAC-AATCTAGAAAAAAATGGAGACTT-TTACGAG-AATCAATGCAGGTCTCATTTAA-AGGG
66 TGC-CTAATCCAGAAAAGAATGGAGA-TTAGTACGAGTATTC-ATGTTTGTCTCATTTAAGA-GA
* * * *
233317 CAAACTTTGATTTTAATGAA-AA-TAAGGCAAAGA
127 C-AACTTTGATTCT-ATCAATAACGATGG-AAAGA
* ** * ** * * * * * *
233350 AAAGATT-TCCACGCAAAAGAAAACCATCAACATCATTTATCATAAAG-CAGAGAATGTGTTTAT
1 AAAGCTTCT-CTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAAAG-GAATGTGTTTAT
* ** * *** * * * * **
233413 AGTGCCTAAT-CACGAAATTAATGAAGATCCCTACAAGAATGCATGTTTGTCTCATTTGAGCATT
64 GGTGCCTAATCCA-GAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAG-AGA
* *** * * *
233477 GAACTCAAACTT-TA-CACA-AATTGGTGGGAAGA
127 CAACTTTGA-TTCTATCA-ATAA-CGATGGAAAGA
* * * * *
233509 AAA-CGTATCTTGCGAAACCAAAGCATCAATATCATGTATCCGT-AT-AAGAAGACTATGTTTAT
1 AAAGCTTCTCTTGCGAAACCAAAGCATCAATATCATGTATCC-TAATGAA-AGGAATGTGTTTAT
* * * *
233571 GGTGCCTAATCTAGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACA
64 GGTGCCTAATCCAGAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAGAGACA
233636 ACTTTGATTCTATCAA
129 ACTTTGATTCTATCAA
233652 CAACAGTTTG
Statistics
Matches: 1001, Mismatches: 307, Indels: 203
0.66 0.20 0.13
Matches are distributed among these distances:
155 6 0.01
156 25 0.02
157 150 0.15
158 545 0.54
159 242 0.24
160 27 0.03
161 6 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (158 bp):
AAAGCTTCTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAAAGGAATGTGTTTATGG
TGCCTAATCCAGAAAAGAATGGAGATTAGTACGAGTATTCATGTTTGTCTCATTTAAGAGACAAC
TTTGATTCTATCAATAACGATGGAAAGA
Found at i:234071 original size:13 final size:13
Alignment explanation
Indices: 234053--234078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
234043 TACACAAAGT
234053 ATGTATCGATACA
1 ATGTATCGATACA
234066 ATGTATCGATACA
1 ATGTATCGATACA
234079 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:234076 original size:32 final size:33
Alignment explanation
Indices: 234035--234098 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
234025 TAGCCAAACT
*
234035 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
234067 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
234099 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:236334 original size:22 final size:21
Alignment explanation
Indices: 236307--236358 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
236297 TTGCAAGTTG
236307 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
236329 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
236350 AAATAAAAA
1 AAATAAAAA
236359 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:238936 original size:159 final size:158
Alignment explanation
Indices: 238333--239413 Score: 416
Period size: 159 Copynumber: 6.8 Consensus size: 158
238323 AAGTTTGGCA
** * * * *
238333 CTTAAAT-AGACATGCATTGATTCGC-TAATAGTCTCCAATGCTTGTCAAGATTAGGAACCAAAA
1 CTTAAATGAGACAAACATTGATTCTCATAACAGTCTCC-ATTCTTTTCAAGATTAGGAACCAAAA
* ** * * *
238396 ACA-ATTCCTTTCATT-GGATACTTGGAACATGGGATTGGCTTTGGTGTCGCAAGAGAAGCTTGT
65 ACACATTCTTTTCATTAGGATAAAT-G-ACAT-TGA-T-GCTTTGGTTTCGCAAGAGAAGCTTTT
* * * *
238459 CTTT-CTCACCGTTAT-GATAGAATCAAA-TTGT-T
125 CTTTCCT-ACCATT-TCCATAAAATCAAAGTTTTCT
* * * * * * * *
238491 CTTAAATAAGACAAACA-GGAATACTCAT-ACTAATCCCCAATTCTTTTCTAGATTAGGCACCAT
1 CTTAAATGAGACAAACATTG-ATTCTCATAAC-AGTCTCC-ATTCTTTTCAAGATTAGGAACCAA
* * * * * * *
238554 AAATATAGTCTTCTT-A-TACGGATACATGATATTGATGCTTTGGTTTCGCAAGATACGC-TTTC
63 AAACACATTCTT-TTCATTA-GGATAAATGACATTGATGCTTTGGTTTCGCAAGAGAAGCTTTTC
* *** * * *
238616 -TTCCCACCAATTTGTGTAAATTCTAAGTTCATGC-
126 TTTCCTACC-ATTTCCATAAAATCAAAGTT--TTCT
* * ** * * * * * * *
238650 CTCAAATGAGACAAACATGGATTCT-AGT-ATGGATCTTCATTCATTTCATGTTTAGGCACTATA
1 CTTAAATGAGACAAACATTGATTCTCA-TAACAG-TCTCCATTCTTTTCAAGATTAGGAACCAAA
** * ** * * ** * *
238713 AACACATTCTCCTCATCAGGATGCATGATATTGATGGTTTTCCTTT-GCATG-GAAATCTTTTCT
64 AACACATTCTTTTCATTAGGATAAATGACATTGAT-GCTTTGGTTTCGCAAGAG-AAGCTTTTCT
**
238776 TTGCCTTGC-TTTCCATAAAATCAAAGTTTTCT
127 TT-CCTACCATTTCCATAAAATCAAAGTTTTCT
** * *
238808 CTTTAAATGAGACATGCATTGATTCTCATAACAGTCACCATTCTTTTTAAGATTAGGAACCAAAA
1 C-TTAAATGAGACAAACATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAA
* * *
238873 ACACATTCTTTTCATTAGGATACATGACATTGATGCTTTGGTTTCGTAAGAGAAGCTTGTCTTTC
65 ACACATTCTTTTCATTAGGATAAATGACATTGATGCTTTGGTTTCGCAAGAGAAGCTTTTCTTTC
* ** * *
238938 C-ACCGTTATTGATAGAATCAAAGTTGTCT
130 CTACCATT-TCCATAAAATCAAAGTTTTCT
* * * ** * *
238967 CTTAAATAAGACAAACA-TGAATACTCA-AACTAATCTCCATTCTTTTCTGGATTAGGCACCATA
1 CTTAAATGAGACAAACATTG-ATTCTCATAAC-AGTCTCCATTCTTTTCAAGATTAGGAACCAAA
** * * * *
239030 AACTTAGTCTTCTT-A-TATGGATAAATGATATTGATGCTTTGGTTTCGTAAGATACA-C-TTTC
64 AACACATTCTT-TTCATTA-GGATAAATGACATTGATGCTTTGGTTTCGCAAGAGA-AGCTTTTC
* *** * *
239091 -TTCCAACCAATTTGTGTAAAGT-ATGAGTTCATTGCT
126 TTTCCTACC-ATTTCCATAAAATCA-AAGTT--TT-CT
* ** ** * * ** ** *
239127 C--AAATGAGACAAACATGGATTCTTGT-AGGGATCTTCATTCATTTCGTGATTAGGAAGTATAA
1 CTTAAATGAGACAAACATTGATTCTCATAACAG-TCTCCATTCTTTTCAAGATTAGGAACCAAAA
*** * * * * ** * * *
239189 ACACATTCTCCGCTTTAGGGTAAATGATATTGATGGTTTTCTTTTGCATG-GAAATCTTTTCTTT
65 ACACATTCTTTTCATTAGGATAAATGACATTGATGCTTTGGTTTCGCAAGAG-AAGCTTTTCTTT
* *
239253 GCCTTA--TTTTCCTTAAAATCAAAGTTTATGCT
129 -CC-TACCATTTCCATAAAATCAAAGTTT-T-CT
** * * *
239285 -TTAAATGAGACATGCTTTGATTCTCGTAACAGTCTCAATTCTTTTCAAGATTAGGAACCAAAAA
1 CTTAAATGAGACAAACATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAA
* * *
239349 CACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCTTTCC
66 CACATTCTTTTCATTAGGATAAATGACATTGATGCTTTGGTTTCGCAAGAGAAGCTTTTCTTTCC
239414 ACTGTGAAAG
Statistics
Matches: 668, Mismatches: 194, Indels: 122
0.68 0.20 0.12
Matches are distributed among these distances:
155 6 0.01
156 18 0.03
157 49 0.07
158 243 0.36
159 280 0.42
160 51 0.08
161 11 0.02
162 10 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (158 bp):
CTTAAATGAGACAAACATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAA
CACATTCTTTTCATTAGGATAAATGACATTGATGCTTTGGTTTCGCAAGAGAAGCTTTTCTTTCC
TACCATTTCCATAAAATCAAAGTTTTCT
Found at i:239052 original size:158 final size:158
Alignment explanation
Indices: 238433--239081 Score: 465
Period size: 158 Copynumber: 4.1 Consensus size: 158
238423 CATGGGATTG
* *
238433 GCTTTGGTGTCGCAAGAGAAGCTTGTCTTTCTCACCGTTATGATAGAATCAAA-TTGT-TCTTAA
1 GCTTTGGTTTCGCAAGAGAAGCTTGTCTTTC-CACCGTTTTGATAGAATCAAAGTTGTCTCTTAA
* * * * *
238496 ATAAGACAAACAGGAATACTCA-TACTAATCCCCAATTCTTTTCTAGATTAGGCACCATAAATAT
65 ATAAGACAAACATGAATACTCAGAACTAATCTCC-ATTCTTTTCTAGATTAGGCACCATAAACAC
*
238560 AGTCTTCTTATACGGATACATGATATTGAT
129 AGTCTTCTTATATGGATACATGATATTGAT
* * * * * *
238590 GCTTTGGTTTCGCAAGATACGCTT-TCTTCCCACCAATTTGTG-TA-AATTCTAAGTTCATGC-C
1 GCTTTGGTTTCGCAAGAGAAGCTTGTCTTTCCACC-GTTT-TGATAGAA-TCAAAGTT-GT-CTC
* * * * * * * * * *
238651 TCAAATGAGACAAACATGGATTCT-AGTA-TGGATCTTCATTCATTTC-ATGTTTAGGCACTATA
61 TTAAATAAGACAAACATGAATACTCAGAACT-AATCTCCATTCTTTTCTA-GATTAGGCACCATA
* * * *
238713 AACACATTCTCCTCATCA-GGATGCATGATATTGAT
124 AACACAGTCTTCTTAT-ATGGATACATGATATTGAT
* ** * * * ** ** * *
238748 GGTTTTCCTTT-GCATG-GAAATCTTTTCTTTGCC-TTGCTTTCCATAAAATCAAAGTTTTCTCT
1 -GCTTTGGTTTCGCAAGAG-AAGCTTGTCTTT-CCACCG-TTTTGATAGAATCAAAGTTGTCTC-
* ** * * * * * *
238810 TTAAATGAGACATGCATTG-ATTCTCATAAC-AGTCACCATTCTTTT-TAAGATTAGGAACCAAA
61 TTAAATAAGACAAACA-TGAATACTCAGAACTAATCTCCATTCTTTTCT-AGATTAGGCACCATA
* *
238872 AACACATTCTT-TTCAT-TAGGATACATGACATTGAT
124 AACACAGTCTTCTT-ATAT-GGATACATGATATTGAT
*
238907 GCTTTGGTTTCGTAAGAGAAGCTTGTCTTTCCACCGTTATTGATAGAATCAAAGTTGTCTCTTAA
1 GCTTTGGTTTCGCAAGAGAAGCTTGTCTTTCCACCGTT-TTGATAGAATCAAAGTTGTCTCTTAA
* **
238972 ATAAGACAAACATGAATACTCA-AACTAATCTCCATTCTTTTCTGGATTAGGCACCATAAACTTA
65 ATAAGACAAACATGAATACTCAGAACTAATCTCCATTCTTTTCTAGATTAGGCACCATAAACACA
*
239036 GTCTTCTTATATGGATAAATGATATTGAT
130 GTCTTCTTATATGGATACATGATATTGAT
*
239065 GCTTTGGTTTCGTAAGA
1 GCTTTGGTTTCGCAAGA
239082 TACACTTTCT
Statistics
Matches: 370, Mismatches: 85, Indels: 73
0.70 0.16 0.14
Matches are distributed among these distances:
155 6 0.02
156 13 0.04
157 32 0.09
158 158 0.43
159 151 0.41
160 10 0.03
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (158 bp):
GCTTTGGTTTCGCAAGAGAAGCTTGTCTTTCCACCGTTTTGATAGAATCAAAGTTGTCTCTTAAA
TAAGACAAACATGAATACTCAGAACTAATCTCCATTCTTTTCTAGATTAGGCACCATAAACACAG
TCTTCTTATATGGATACATGATATTGAT
Found at i:239190 original size:475 final size:472
Alignment explanation
Indices: 238291--239415 Score: 1620
Period size: 475 Copynumber: 2.4 Consensus size: 472
238281 TGGCATCGAC
* **
238291 ATCTTTTCTTTGCCTTATTTTCCTAAAAATGAAAGTTTGGCAC-TTAAAT-AGACATGCATTGAT
1 ATCTTTTCTTTGCCTTATTTTCCT-AAAATCAAAGTTTATCACTTTAAATGAGACATGCATTGAT
* * * *
238354 TCGCTAATAGTCTCCAATGCTTGTCAAGATTAGGAACCAAAAACA-ATTCCTTTCATT-GGATAC
65 TCTCTAACAGTCTCC-ATTCTTTTCAAGATTAGGAACCAAAAACACATTCCTTTCATTAGGATAC
* *
238417 TTGGAACATGGGATTGGCTTTGGTGTCGCAAGAGAAGCTTGTCTTTCTCACCGTTATGATAGAAT
129 AT-G-ACAT-TGA-T-GCTTTGGTGTCGCAAGAGAAGCTTGTCTTTC-CACCGTTATGATAGAAT
*
238482 CAAATTGTTCTTAAATAAGACAAACAGGAATACTCATACTAATCCCCAATTCTTTTCTAGATTAG
188 CAAATTGTTCTTAAATAAGACAAACAGGAATACTCAAACTAATCCCCAATTCTTTTCTAGATTAG
* *
238547 GCACCATAAATATAGTCTTCTTATACGGATACATGATATTGATGCTTTGGTTTCGCAAGATACGC
253 GCACCATAAATATAGTCTTCTTATACGGATAAATGATATTGATGCTTTGGTTTCGCAAGATACAC
* * *
238612 TTTCTTCCCACCAATTTGTGTAAATTCTAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAG
318 TTTCTTCCAACCAATTTGTGTAAAGTATAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAG
* * * * **
238677 TATGGATCTTCATTCATTTCATGTTTAGGCACTATAAACACATTCTCCTCATCAGGATGCATGAT
383 TAGGGATCTTCATTCATTTCATGATTAGGAACTATAAACACATTCTCCGCATCAGGATAAATGAT
238742 ATTGATGGTTTTCCTTTGCATGGAA
448 ATTGATGGTTTTCCTTTGCATGGAA
** *
238767 ATCTTTTCTTTGCCTTGCTTTCCATAAAATCAAAGTTT-TCTCTTTAAATGAGACATGCATTGAT
1 ATCTTTTCTTTGCCTTATTTTCC-TAAAATCAAAGTTTATCACTTTAAATGAGACATGCATTGAT
* * *
238831 TCTCATAACAGTCACCATTCTTTTTAAGATTAGGAACCAAAAACACATTCTTTTCATTAGGATAC
65 TCTC-TAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCTTTCATTAGGATAC
* *
238896 ATGACATTGATGCTTTGGTTTCGTAAGAGAAGCTTGTCTTTCCACCGTTATTGATAGAATCAAAG
129 ATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTGTCTTTCCACCGTTA-TGATAGAATCAAA-
* * *
238961 TTGTCTCTTAAATAAGACAAACATGAATACTCAAACTAATCTCC-ATTCTTTTCTGGATTAGGCA
192 TTGT-TCTTAAATAAGACAAACAGGAATACTCAAACTAATCCCCAATTCTTTTCTAGATTAGGCA
* *
239025 CCATAAACT-TAGTCTTCTTATATGGATAAATGATATTGATGCTTTGGTTTCGTAAGATACACTT
256 CCATAAA-TATAGTCTTCTTATACGGATAAATGATATTGATGCTTTGGTTTCGCAAGATACACTT
* *
239089 TCTTCCAACCAATTTGTGTAAAGTATGAGTTCATTG-CTCAAATGAGACAAACATGGATTCTTGT
320 TCTTCCAACCAATTTGTGTAAAGTATAAGTTCA-TGCCTCAAATGAGACAAACATGGATTCTAGT
* * * * *
239153 AGGGATCTTCATTCATTTCGTGATTAGGAAGTATAAACACATTCTCCGCTTTAGGGTAAATGATA
384 AGGGATCTTCATTCATTTCATGATTAGGAACTATAAACACATTCTCCGCATCAGGATAAATGATA
*
239218 TTGATGGTTTTCTTTTGCATGGAA
449 TTGATGGTTTTCCTTTGCATGGAA
* *
239242 ATCTTTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTTAT-GCTTTAAATGAGACATGCTTTGAT
1 ATCTTTTCTTTGCCTTATTTTCC-TAAAATCAAAGTTTATCACTTTAAATGAGACATGCATTGAT
*
239306 TCTCGTAACAGTCTCAATTCTTTTCAAGATTAGGAACCAAAAACACATTCCTTTCATTAGGATAC
65 TCTC-TAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCTTTCATTAGGATAC
*
239371 ATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCTTTCCAC
129 ATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTGTCTTTCCAC
239416 TGTGAAAGCT
Statistics
Matches: 583, Mismatches: 54, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
473 8 0.01
474 42 0.07
475 376 0.64
476 81 0.14
477 48 0.08
478 21 0.04
479 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (472 bp):
ATCTTTTCTTTGCCTTATTTTCCTAAAATCAAAGTTTATCACTTTAAATGAGACATGCATTGATT
CTCTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCCTTTCATTAGGATACAT
GACATTGATGCTTTGGTGTCGCAAGAGAAGCTTGTCTTTCCACCGTTATGATAGAATCAAATTGT
TCTTAAATAAGACAAACAGGAATACTCAAACTAATCCCCAATTCTTTTCTAGATTAGGCACCATA
AATATAGTCTTCTTATACGGATAAATGATATTGATGCTTTGGTTTCGCAAGATACACTTTCTTCC
AACCAATTTGTGTAAAGTATAAGTTCATGCCTCAAATGAGACAAACATGGATTCTAGTAGGGATC
TTCATTCATTTCATGATTAGGAACTATAAACACATTCTCCGCATCAGGATAAATGATATTGATGG
TTTTCCTTTGCATGGAA
Found at i:242783 original size:13 final size:13
Alignment explanation
Indices: 242765--242803 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
242755 ATAATCCCCC
*
242765 TGTATCGATACAG
1 TGTATCGATACAA
*
242778 TGTATCGCTACAA
1 TGTATCGATACAA
242791 TGTATCGATACAA
1 TGTATCGATACAA
242804 AGAAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Done.