Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016463.1 Corchorus olitorius cultivar O-4 contig16496, 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: 73367
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1284 original size:333 final size:332
Alignment explanation
Indices: 1--3148 Score: 4253
Period size: 333 Copynumber: 9.6 Consensus size: 332
* *
1 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAGACAAGATTGAGATGCTCGTAAA
1 GTTTTTCTTTTT-TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* * * * * *
66 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCGCTAAATGAATAAAGATATTTCGATGAGTCT
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
* *
131 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGATTTTAGTAAAAAACCGTGA
130 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
*
196 TGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTT
195 TGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTT
* * *
261 TGGCCACAATACTCATAAGGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCTT
260 TGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTT
*
326 TTAATATC
325 CTAATATC
** ** *
334 G------TTTTTTTT----AGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAA
1 GTTTTTCTTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAA
* * * * *
389 ACAGATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTT
66 ACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTT
* ** * * *
454 GACGCCAAAAATCATGCAAAACTAAGCCGGGGCCGTGGAATGCGTTTTTAGCCAAAAATCGTGAT
131 GACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGAT
* *
519 GGTTAGTACATAATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTT
196 GGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTT
* * * *
584 GGCTACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACCT
261 GGCCACAATACTCATAAAGAATACT-TAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTT
648 CTAATATC
325 CTAATATC
* *
656 GTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAA
1 GTTTTT-CTTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
** * * *
721 AA-AAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGTTGAATATAGATATTTCAATCAATCT
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
* * ** * *
785 TGACACGAAAAATCATGCAAAAAGGAGTCGGGACCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
130 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
* *
850 TGGTTAGTACATGACTTCGGCTAACATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTT
195 TGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTT
* * *
915 TGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAGGATTGAAGGACTTCTCACGCTT
260 TGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTT
980 CTAATATC
325 CTAATATC
*
988 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
1 GTTTTTCTTTTT-TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* * * *
1053 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCT
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
1118 TGACGCCAAAAATCATGCAAAACTGAGCC-GGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
130 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
* * *
1182 T-GTTAACGTACATGATTTCGACTAAAATTTTCCAAAAATTGACCTGAAACATTTCTCCTCAATT
195 TGGTT-A-GTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATT
* * *
1246 TTTGGCCATAATACTCATAAAGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGC
258 TTTGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGC
*
1311 TTTTAATATC
323 TTCTAATATC
** ** *
1321 G-------TTTTTTT----AGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAA
1 GTTTTTCTTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAA
* * * * *
1375 ACAGATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTT
66 ACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTT
* * * *
1440 GACGCCAAAAATCATGCAAAACTAAGCCGGGGCCGCGGAATGCGTTTTTAGCCAAAAACCGTGAT
131 GACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGAT
*
1505 GGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTT
196 GGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTT
* * *
1570 GGCTACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTT
261 GGCCACAATACTCATAAAGAATACT-TAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTT
1634 CTAATATC
325 CTAATATC
* *
1642 GTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAA
1 GTTTTT-CTTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
** ** ** *
1707 AACAAATCCTTAAAGACAATGTGTCTGAGCTTTCATTAGATGAATATAGATATTTTGATGAGTCT
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
* * * * * *
1772 TGACGACAAAAATCATGCAAAACTGAGACGGGGCCCCGAAACTCGTTTTTAGTCACAAATCGTGA
130 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
* *
1837 TGGTTAGTACATGATTTCGGCTAAAATTTTACAAAAATTGACCTGAAACATTTCT-CTACAATTT
195 TGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCT-CAATTT
* * *
1901 TTGGCCACATTACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGAAGGGCTTCTCACGCT
259 TTGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCT
*
1966 TTTAATATC
324 TCTAATATC
* * * * *
1975 ATTATTCTTGTTTTTT-TCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATACTCGTAAA
1 GTTTTTCTT-TTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
** * * *
2039 AGTAAATTCTTAAATCCAATTTGTCTGAGCTTTCACTAGATGAATATAGATATTTCAATCAGTCT
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
* * * * * *
2104 TGACGCCAAAAATCATGCGAAACTGAGCTGAGGCCCCGGAATGCGTTTTTTTGTC-ATAA-----
130 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCG-TTTTTAGTCAAAAACCGTG
* * * * *
2163 ATCG-T-G--CATGATTTCGGCTAAGATTTTGGAAAAATTAACTTGAAACATTTCTCCTCATTTT
194 ATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTT
* * * *
2224 TTTGCCACAATATTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACAC
259 TTGGCCACAATACTCATAAAGAATACT-TAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGC
2288 TTCTAATATC
323 TTCTAATATC
* *
2298 GTTTTTCCTTATTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGTTTGAGATGCTCGT-
1 GTTTTT-C-T-TTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTA
** * * *
2362 AAAACAAATCCTTAAAGGCAATATGTCTGAGCTTTCGCTAGCTGAATATAGATATTTCAATCAAT
63 AAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGT
* * ** * * * *
2427 CTTGACACGAAAAATCATGCAAAAAGGAGTCGGGACCGCGGAACGCGTTTTTAGTTAAAAACCGT
128 CTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGT
* *
2492 GATGGTTAGTACATGACTTCGGCTAACATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATT
193 GATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATT
* *
2557 TTTGACCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAGGATTGAAGGACTTCTCACGC
258 TTTGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGC
2622 TTCTAATATC
323 TTCTAATATC
*
2632 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
1 GTTTTTCTTTTT-TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* *
2697 AACAAATCCTGAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCT
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
* * * *
2762 TGATGCCAAAAATCATGCAAAACTGAGCCGGGGCCCTGGAATGCATTTTTAGTCAAAAACCGTGA
130 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
*
2827 TGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCGCAATTTT
195 TGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTT
* * * *
2892 TGGCCACAACACTAATAAAGAATACATAAATCAACGCC-AAAAGTATTGAAGGACTTCTCACGCT
260 TGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAG-ATTGAAGGACTTCTCACGCT
2956 TCTAATATC
324 TCTAATATC
* * *
2965 GTTTTTCTTTTTCTTTCCCAAATTAATTTCTTATTAAATCGAAACAAGATTGGGATGCTCGTAAA
1 GTTTTTCTTTTT-TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* ** * * *
3030 AACAAATCTTTAAATCCAATGTGTCTGAGCTTTTACTA-ATTGAATAAAGATATTTCGATGAGTC
65 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGA-TGAATATAGATATTTCAATCAGTC
* *
3094 TTGACGGCAAAAATCATGC-AAA--GAGCCGGGGCCCCAGAACGCGTTTTTAGTCAAA
129 TTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAA
3149 TATTGAGGAA
Statistics
Matches: 2458, Mismatches: 300, Indels: 117
0.85 0.10 0.04
Matches are distributed among these distances:
320 1 0.00
321 244 0.10
322 310 0.13
323 117 0.05
324 10 0.00
325 106 0.04
326 51 0.02
327 8 0.00
329 13 0.01
330 32 0.01
331 13 0.01
332 526 0.21
333 904 0.37
334 122 0.05
335 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (332 bp):
GTTTTTCTTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAA
ACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTT
GACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGAT
GGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTT
GGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTC
TAATATC
Found at i:1385 original size:654 final size:653
Alignment explanation
Indices: 21--3148 Score: 4113
Period size: 654 Copynumber: 4.8 Consensus size: 653
11 TTCTTTCCCG
* * * *
21 AATTAATTTCTTATTAAATCGAGACAAGATTGAGATGCTCGTAAAAACAAATCCTGAAATCCAAC
1 AATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * * *
86 GTGTCTGAGCTTTCGCTAAATGAATAAAGATATTTCGATGAGTCTTGACGCCAAAAATCATGCAA
66 GTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAA
* * *
151 AACTGAGCCGGGGCCCCGGAACGCGATTTTAGTAAAAAACCGTGATGGTTAGTACATGATTTCGG
131 AACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGG
* *
216 CTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAGG
196 CTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAG
* * * *
281 AGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCTTTTAATATCG------TTTTT
261 AATACATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTTCTTTTT
** ** * *
340 TTT----AGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAACAGATCCTTAA
326 TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAA
* * * * * *
401 ATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTGACGCCAAAAAT
391 ATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCTTGACGCCAAAAAT
* ** * * * *
466 CATGCAAAACTAAGCCGGGGCCGTGGAATGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACATA
456 CATGCAAAACTGAGCC-GGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATG
* * *
531 ATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTGGCTACAATACT
520 ATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACT
* * *
596 CATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACCTCTAATATCGTTT
585 CATAAAGAATACT-TAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCG---
660 TTCCTTATTTTTCCC
646 ----TT-TTTTT--C
* **
675 GAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAA-AAATCCTTAAAGACAA
1 -AATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAA
* * * * *
739 TATGTCTGAGCTTTCGCTAGTTGAATATAGATATTTCAATCAATCTTGACACGAAAAATCATGCA
65 TGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCA
** * * * *
804 AAAAGGAGTCGGGACCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGACTTCG
130 AAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCG
*
869 GCTAACATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAA
195 GCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAA
* *
934 GAATACATAAATCAACGCCAAAAGGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTTCTTTT
260 GAATACATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTTCTTTT
* *
999 TCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTG
325 T-TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTT
*
1064 AAATCCAACGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCTTGACGCCAAAA
389 AAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCTTGACGCCAAAA
1129 ATCATGCAAAACTGAGCCGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGAT-GTTAACGTAC
454 ATCATGCAAAACTGAGCCGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTT-A-GTAC
* * *
1193 ATGATTTCGACTAAAATTTTCCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCATAAT
517 ATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAAT
* * *
1258 ACTCATAAAGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCTTTTAATATCGT
582 ACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGT
1323 TTTTTT-
647 TTTTTTC
** ** * * *
1329 AGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAACAGATCCTTAAATCTAAT
1 AATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * *
1394 GTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTGACGCCAAAAATCATGCAA
66 GTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAA
* * *
1459 AACTAAGCCGGGGCCGCGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGG
131 AACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGG
* * *
1524 CTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTGGCTACAATACTCATAAAA
196 CTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAG
* * *
1589 AATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTAT
261 AATACATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTT-CTTTT
*
1654 TTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTA
325 TTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTA
** ** * *
1719 AAGACAATGTGTCTGAGCTTTCATTAGATGAATATAGATATTTTGATGAGTCTTGACGACAAAAA
390 AATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCTTGACGCCAAAAA
* * * * *
1784 TCATGCAAAACTGAGACGGGGCCCCGAAACTCGTTTTTAGTCACAAATCGTGATGGTTAGTACAT
455 TCATGCAAAACTGAG-CCGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACAT
* *
1849 GATTTCGGCTAAAATTTTACAAAAATTGACCTGAAACATTTCT-CTACAATTTTTGGCCACATTA
519 GATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCT-CAATTTTTGGCCACAATA
* * *
1913 CTCATAAAGAATACTTAACTCAACACCAAAAAGATTGAAGGGCTTCTCACGCTTTTAATATCATT
583 CTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGC--TT-CTA--A-T
1978 ATTCTTGTTTTTTTC
642 A-TC--GTTTTTTTC
* * ** *
1993 GAATTAATTTCTAATTAAATCGAAACCAGATTGAGATACTCGTAAAAGTAAATTCTTAAATCCAA
1 -AATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAA
* * *
2058 TTTGTCTGAGCTTTCACTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCG
65 TGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCA
* * * * *
2123 AAACTGAGCTGAGGCCCCGGAATGCGTTTTTTTGTC-ATAA-----ATCG-T-G--CATGATTTC
130 AAACTGAGCCGGGGCCCCGGAATGCG-TTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTC
* * * * * *
2178 GGCTAAGATTTTGGAAAAATTAACTTGAAACATTTCTCCTCATTTTTTTGCCACAATATTCATAA
194 GGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAA
* * *
2243 AAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTT
259 AGAATACATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTT-C-T
* *
2308 ATTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGTTTGAGATGCTCGT-AAAACAAATC
322 -TTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATC
** * * * * * * *
2372 CTTAAAGGCAATATGTCTGAGCTTTCGCTAGCTGAATATAGATATTTCAATCAATCTTGACACGA
386 CTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCTTGACGCCA
** * * *
2437 AAAATCATGCAAAAAGGAGTCGGGACCGCGGAACGCGTTTTTAGTTAAAAACCGTGATGGTTAGT
451 AAAATCATGCAAAACTGAGCCGGG-CCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGT
* * *
2502 ACATGACTTCGGCTAACATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGACCACA
515 ACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACA
*
2567 ATACTCATAAAGAATACTTAACTCAACGCCAAAAGGATTGAAGGACTTCTCACGCTTCTAATATC
580 ATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATC
2632 GTTTTTCTTTTTCTTTCCC
645 G-------TTTT-TTT--C
* *
2651 GAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTGAAATCCAA
1 -AATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAA
* *
2716 TGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGATGCCAAAAATCATGCA
65 TGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCA
* *
2781 AAACTGAGCCGGGGCCCTGGAATGCATTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCG
130 AAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCG
* * *
2846 GCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCGCAATTTTTGGCCACAACACTAATAAA
195 GCTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAA
*
2911 GAATACATAAATCAACGCC-AAAAGTATTGAAGGACTTCTCACGCTTCTAATATCGTTTTTCTTT
260 GAATACATAACTCAACGCCAAAAAG-ATTGAAGGACTTCTCACGCTTCTAATATCGTTTTTCTTT
* * * *
2975 TTCTTTCCCAAATTAATTTCTTATTAAATCGAAACAAGATTGGGATGCTCGTAAAAACAAATCTT
324 TT-TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCT
** * *
3040 TAAATCCAATGTGTCTGAGCTTTTACTA-ATTGAATAAAGATATTTCGATGAGTCTTGACGGCAA
388 TAAATCCAATGTGTCTGAGCTTTCGCTAGA-TGAATATAGATATTTCGATGAGTCTTGACGCCAA
*
3104 AAATCATGC-AAA--GAGCCGGGGCCCCAGAACGCGTTTTTAGTCAAA
452 AAATCATGCAAAACTGAGCC-GGGCCCCGGAACGCGTTTTTAGTCAAA
3149 TATTGAGGAA
Statistics
Matches: 2170, Mismatches: 243, Indels: 112
0.86 0.10 0.04
Matches are distributed among these distances:
648 1 0.00
650 2 0.00
651 2 0.00
652 1 0.00
653 44 0.02
654 729 0.34
655 89 0.04
656 140 0.06
657 239 0.11
658 200 0.09
659 2 0.00
660 10 0.00
661 5 0.00
663 39 0.02
664 40 0.02
665 427 0.20
666 84 0.04
667 116 0.05
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (653 bp):
AATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
GTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAA
AACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGG
CTAAGATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAG
AATACATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTTCTTTTT
TTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAA
ATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCTTGACGCCAAAAAT
CATGCAAAACTGAGCCGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGA
TTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTC
ATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTTT
TTC
Found at i:2018 original size:986 final size:986
Alignment explanation
Indices: 1--3148 Score: 4676
Period size: 987 Copynumber: 3.2 Consensus size: 986
*
1 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAGACAAGATTGAGATGCTCGTAAA
1 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* *
66 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCGCTAAATGAATAAAGATATTTCGATGAGTCT
66 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCACTAGATGAATAAAGATATTTCGATGAGTCT
* *
131 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGATTTTAGTAAAAAACCGTGA
131 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
196 TGGTTA-GTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTT
196 T-GTTACGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTT
*
260 TTGGCCACAATACTCATAAGGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCT
260 TTGGCCACAATACTCATAAAGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCT
325 TTTAATATCGTTTTTTTTAGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAA
325 TTTAATATCG-TTTTTTTAGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAA
390 CAGATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTG
389 CAGATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTG
* *
455 ACGCCAAAAATCATGCAAAACTAAGCCGGGGCCGTGGAATGCGTTTTTAGCCAAAAATCGTGATG
454 ACGCCAAAAATCATGCAAAACTAAGCCGGGGCCGCGGAATGCGTTTTTAGCCAAAAACCGTGATG
*
520 GTTAGTACATAATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTG
519 GTTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTG
*
585 GCTACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACCTCT
584 GCTACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTTCT
650 AATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCT
649 AATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCT
* *
715 CGTAAAAA-AAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGTTGAATATAGATATTTCAAT
714 CGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAAT
* * ** * * *
779 CAATCTTGAC-ACGAAAAATCATGCAAAAAGGAGTCGGGACCCCGGAACGCGTTTTTAGTCAAAA
779 GAGTCTTGACGAC-AAAAATCATGCAAAACTGAGACGGGGCCCCGGAACTCGTTTTTAGTCAAAA
* *
843 ACCGTGATGGTTAGTACATGACTTCGGCTAACATTTTGCAAAAATTGACCTGAAACATTTCTCCT
843 ACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCT-CT
*
908 CAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAGGATTGAAGGACTTCT
907 CAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTGAAGGACTTCT
973 CACGCTTCTAATATC
972 CACGCTTCTAATATC
988 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
1 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* *
1053 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCGATGAGTCT
66 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCACTAGATGAATAAAGATATTTCGATGAGTCT
1118 TGACGCCAAAAATCATGCAAAACTGAGCC-GGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
131 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
* *
1182 TGTTAACGTACATGATTTCGACTAAAATTTTCCAAAAATTGACCTGAAACATTTCTCCTCAATTT
196 TGTT-ACGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTT
*
1247 TTGGCCATAATACTCATAAAGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCT
260 TTGGCCACAATACTCATAAAGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCT
1312 TTTAATATCGTTTTTTTAGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAAC
325 TTTAATATCGTTTTTTTAGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAAC
1377 AGATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTGA
390 AGATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTGA
1442 CGCCAAAAATCATGCAAAACTAAGCCGGGGCCGCGGAATGCGTTTTTAGCCAAAAACCGTGATGG
455 CGCCAAAAATCATGCAAAACTAAGCCGGGGCCGCGGAATGCGTTTTTAGCCAAAAACCGTGATGG
1507 TTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTGG
520 TTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTGG
1572 CTACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTTCTA
585 CTACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTTCTA
1637 ATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTC
650 ATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTC
** **
1702 GTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCATTAGATGAATATAGATATTTTGATG
715 GTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATG
* * *
1767 AGTCTTGACGACAAAAATCATGCAAAACTGAGACGGGGCCCCGAAACTCGTTTTTAGTCACAAAT
780 AGTCTTGACGACAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACTCGTTTTTAGTCAAAAAC
*
1832 CGTGATGGTTAGTACATGATTTCGGCTAAAATTTTACAAAAATTGACCTGAAACATTTCTCTACA
845 CGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCT-CA
* * * * *
1897 ATTTTTGGCCACATTACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGAAGGGCTTCTCA
909 ATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTGAAGGACTTCTCA
*
1962 CGCTTTTAATATC
974 CGCTTCTAATATC
* * * * * *
1975 ATTATTCTTGTTT-TTT-TCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATACTCGTAA
1 GTTTTTCTT-TTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAA
** * * ** * * *
2038 AAGTAAATTCTTAAATCCAATTTGTCTGAGCTTTCACTAGATGAATATAGATATTTCAATCAGTC
65 AAACAAATCCTGAAATCCAACGTGTCTGAGCTTTCACTAGATGAATAAAGATATTTCGATGAGTC
* * * * * *
2103 TTGACGCCAAAAATCATGCGAAACTGAGCTGAGGCCCCGGAATGCGTTTTTTTGTC-ATAA----
130 TTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCG-TTTTTAGTCAAAAACCGT
* * * * * *
2163 -A---T-CGTGCATGATTTCGGCTAAGATTTTGGAAAAATTAACTTGAAACATTTCTCCTCATTT
194 GATGTTACGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATT
* * * * * *
2223 TTTTGCCACAATATTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACA
259 TTTGGCCACAATACTCATAAAGAGTACT-TAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACG
* * ** * *
2287 CTTCTAATATCGTTTTTCCTTATTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGTTTG
323 CTTTTAATATCGTTTTT--TTA----------G--CTAATTTCTAATTAAATCGAAACTGGATTA
* * * * * *
2352 AGATGCTCGT-AAAACAAATCCTTAAAGGC-AATATGTCTGAGCTTTCGCTAGCTGAATATAGAT
374 AGATGCTCGTAAAAACAGATCCTTAAA-TCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGAT
* * * * *** * * *
2415 ATTTCAATCAATCTTGACACGAAAAATCATGCAAAAAGGAGTCGGGACCGCGGAACGCGTTTTTA
438 ATTACAATCAGTCTTGACGCCAAAAATCATGCAAAACTAAGCCGGGGCCGCGGAATGCGTTTTTA
** * * *
2480 GTTAAAAACCGTGATGGTTAGTACATGACTTCGGCTAACATTTTGCAAAAATTGACCTGAAACAT
503 GCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACAT
* * * *
2545 TTCTCCTCAATTTTTGACCACAATACTCATAAAGAATACT-TAACTCAACGCCAAAAGGATTGAA
568 TTCTCCTCAATTTTTGGCTACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAA
* * *
2609 GGACTTCTCACGCTTCTAATATCGTTTTT-CTTTTTCTTTCCCGAATTAATTTCTTATTAAATCG
632 GGACTTCTCACACTTCTAATATCGTTTTTCCTTATT-TTTCCCGAATTAATTTCTAATTAAATCG
* * **
2673 AAACAAGATTGAGATGCTCGTAAAAACAAATCCTGAAATCCAATGTGTCTGAGCTTTCGCTAGAT
696 AAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGAT
* * * *
2738 GAATATAGATATTTCAATGAGTCTTGATGCCAAAAATCATGCAAAACTGAGCCGGGGCCCTGGAA
761 GAATATAGATATTTCAATGAGTCTTGACGACAAAAATCATGCAAAACTGAGACGGGGCCCCGGAA
* *
2803 -TGCATTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTG
826 CT-CGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTG
* * *
2867 ACCTGAAACATTTCTCCGCAATTTTTGGCCACAACACTAATAAAGAATACATAAATCAACGCC-A
890 ACCTGAAACATTTCT-CTCAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAA
2931 AAAGTATTGAAGGACTTCTCACGCTTCTAATATC
954 AAAG-ATTGAAGGACTTCTCACGCTTCTAATATC
* *
2965 GTTTTTCTTTTTCTTTCCCAAATTAATTTCTTATTAAATCGAAACAAGATTGGGATGCTCGTAAA
1 GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
* * * *
3030 AACAAATCTTTAAATCCAATGTGTCTGAGCTTTTACTA-ATTGAATAAAGATATTTCGATGAGTC
66 AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCACTAGA-TGAATAAAGATATTTCGATGAGTC
* *
3094 TTGACGGCAAAAATCATGC-AAA--GAGCCGGGGCCCCAGAACGCGTTTTTAGTCAAA
130 TTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAA
3149 TATTGAGGAA
Statistics
Matches: 1968, Mismatches: 160, Indels: 65
0.90 0.07 0.03
Matches are distributed among these distances:
976 1 0.00
977 121 0.06
979 4 0.00
982 1 0.00
985 3 0.00
986 547 0.28
987 552 0.28
988 31 0.02
989 15 0.01
990 542 0.28
991 151 0.08
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (986 bp):
GTTTTTCTTTTTCTTTCCCGAATTAATTTCTTATTAAATCGAAACAAGATTGAGATGCTCGTAAA
AACAAATCCTGAAATCCAACGTGTCTGAGCTTTCACTAGATGAATAAAGATATTTCGATGAGTCT
TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGA
TGTTACGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTT
TGGCCACAATACTCATAAAGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCTT
TTAATATCGTTTTTTTAGCTAATTTCTAATTAAATCGAAACTGGATTAAGATGCTCGTAAAAACA
GATCCTTAAATCTAATGTGTTTGAGCTTTCGCTAGATGAATATGGATATTACAATCAGTCTTGAC
GCCAAAAATCATGCAAAACTAAGCCGGGGCCGCGGAATGCGTTTTTAGCCAAAAACCGTGATGGT
TAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTTCTCCTCAATTTTTGGC
TACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACACTTCTAA
TATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCG
TAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGA
GTCTTGACGACAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACTCGTTTTTAGTCAAAAACC
GTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCTCAAT
TTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTGAAGGACTTCTCACG
CTTCTAATATC
Found at i:6251 original size:30 final size:30
Alignment explanation
Indices: 6201--6326 Score: 148
Period size: 30 Copynumber: 4.2 Consensus size: 30
6191 GGTCATTTAA
*
6201 ATGCCATGTGAAC-A-AGACCTAAAGCTAT
1 ATGCCATGTTAACGATAGACCTAAAGCTAT
* *
6229 ATGCCATGTTAACGATAGACCTAAATCAAT
1 ATGCCATGTTAACGATAGACCTAAAGCTAT
* *
6259 ATGCTATGTTAACGATAGACCTAAATCTAT
1 ATGCCATGTTAACGATAGACCTAAAGCTAT
* * * *
6289 ATGCAATCTAAAACTATAGACCTAAAGCTAT
1 ATGCCATGT-TAACGATAGACCTAAAGCTAT
6320 ATGCCAT
1 ATGCCAT
6327 CTTTTTGGCT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.14
29 1 0.01
30 47 0.56
31 24 0.29
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (30 bp):
ATGCCATGTTAACGATAGACCTAAAGCTAT
Found at i:10263 original size:330 final size:328
Alignment explanation
Indices: 9659--10272 Score: 930
Period size: 330 Copynumber: 1.9 Consensus size: 328
9649 TGGTCTGATC
* * *
9659 ATTTCTCCTCAATTTTTGGCCACAATAATCATAAAGAATACTTAACTCAACACCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATAATCATAAAGAATACATAAATCAACACCAAAAAGATTCA
* * ** **
9724 AGAGTTTCTCACGCTTTTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTTTAATTAAATCGAA
66 AGAGCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCCCGAATTAATTTCCAATTAAATCGAA
* * * *
9789 ACCAGATTGAGATGCTCGTAAAAAGAAATCCTTAAATCCAATGTGTATGAGCTTTCGCTAGATGA
131 ACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGTATGAGCTTTCGCTAAATGA
* * *
9854 ATATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGCAAAACTGAACCGGGGCCCTGGAATG
196 ATAAAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAACCGGGGCCCTGGAACG
9919 GATTTTTAGTCAAAAACCGTGATGTTTACATGATTTCGGATAAGATTTTGCAAAAATTGACCTGA
261 GATTTTTAGTCAAAAACCGTGATGTTTACATGATTTCGGATAAGATTTTGCAAAAATTGACCTGA
9984 AAA
326 AAA
* * *
9987 ATTTTTCCTCAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTCA
1 ATTTCTCCTCAATTTTTGGCCACAATAATCATAAAGAATACATAAATCAACACCAAAAAGATTCA
10052 AG-GACTTCTCACGCTTCTAATATCGTTTTTCATTTTCTTTCCCGAATTAATTTCCAATTAAATC
66 AGAG-CTTCTCACGCTTCTAATATCGTTTTTC-TTTT-TTTCCCGAATTAATTTCCAATTAAATC
*
10116 GAAACAAGATTGAGATG-TCCGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGCTTTCGCTAA
128 GAAACAAGATTGAGATGCT-CGTAAAAACAAATCCTTAAATCCAACGTGTATGAGCTTTCGCTAA
* * * *
10180 ATGAATAAAGATATTTCGATGAGTCTTGACGTCAAAAATCATGCAAAACTGAGCCGGGGTCCC-G
192 ATGAATAAAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAACCGGGG-CCCTG
10244 GAACGCG-TTTTTAGTCAAAAACCGTGATG
256 GAACG-GATTTTTAGTCAAAAACCGTGATG
10273 GTTATTTCAC
Statistics
Matches: 256, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
327 1 0.00
328 86 0.34
329 5 0.02
330 160 0.62
331 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (328 bp):
ATTTCTCCTCAATTTTTGGCCACAATAATCATAAAGAATACATAAATCAACACCAAAAAGATTCA
AGAGCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCCCGAATTAATTTCCAATTAAATCGAA
ACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGTATGAGCTTTCGCTAAATGA
ATAAAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAACCGGGGCCCTGGAACG
GATTTTTAGTCAAAAACCGTGATGTTTACATGATTTCGGATAAGATTTTGCAAAAATTGACCTGA
AAA
Found at i:10511 original size:287 final size:289
Alignment explanation
Indices: 9993--10561 Score: 786
Period size: 287 Copynumber: 2.0 Consensus size: 289
9983 AAAAATTTTT
9993 CCTCAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTCAAGGACT
1 CCTCAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTCAAGGACT
** *
10058 TCTCACGCTTCTAATATCGTTTTTCATTTTCTTTCCCGAATTAATTTCCAATTAAATCGAAACAA
66 TCTCACGCTTCTAATATCAATTTTCATTTTCTTTCCCGAACTAATTTCCAATTAAATCGAAACAA
10123 GATTGAGATGTCCGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGCTTTCGCTAAATGAATAA
131 GATTGAGATGTCCGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGCTTTCGCTAAATGAATAA
* * * * * ** *
10188 AGATATTTCGATGAGTCTTGACGTCAAAAATCATGCAAAACTGAGCCGGGGTCCCGGAACGCGTT
196 AGATATTACAATCAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGTCCCAAAAAGCGTT
10253 TTTAGTCAAAAACCGTGATGGTTATTTCA
261 TTTAGTCAAAAACCGTGATGGTTATTTCA
* * * * * *
10282 CCTCAATTTTTGGCCACAATACTCATAAGGAGTACTTAACTCAACGCCAAAAAGATTGAAGGGCT
1 CCTCAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTCAAGGACT
* * ** * * **
10347 TCTCAGGCTTTTAATATCAATTTTC-TTTT-TTTTTCGAGCTAATTTCTAATTAAATCGAAACCG
66 TCTCACGCTTCTAATATCAATTTTCATTTTCTTTCCCGAACTAATTTCCAATTAAATCGAAACAA
* * * * *
10410 GATTGAGATG-CTCGTAAGAACAGATCCTTAAATCTAATGTGTTTGAGCTTTCGC-ATAATGAAT
131 GATTGAGATGTC-CGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGCTTTCGCTA-AATGAAT
** *
10473 ATGGATATTACAATCAGTCTTAACGCCAAAAGTCATGCAAAACTGAGCCGGGGTCCCAAAAAGCG
194 AAAGATATTACAATCAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGTCCCAAAAAGCG
*
10538 TTTTTAGTCAAAAACTGTGATGGT
259 TTTTTAGTCAAAAACCGTGATGGT
10562 ACATGATTTC
Statistics
Matches: 244, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
286 2 0.01
287 158 0.65
288 4 0.02
289 80 0.33
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (289 bp):
CCTCAATTTTTGGCCACAATACTCATAAAGAATACATAAATCAACGCCAAAAAGATTCAAGGACT
TCTCACGCTTCTAATATCAATTTTCATTTTCTTTCCCGAACTAATTTCCAATTAAATCGAAACAA
GATTGAGATGTCCGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGCTTTCGCTAAATGAATAA
AGATATTACAATCAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGTCCCAAAAAGCGTT
TTTAGTCAAAAACCGTGATGGTTATTTCA
Found at i:11944 original size:332 final size:331
Alignment explanation
Indices: 10276--15489 Score: 6684
Period size: 333 Copynumber: 15.8 Consensus size: 331
10266 CGTGATGGTT
* ** *
10276 ATTTCACCTCAATTTTTGGCCACAATACTCATAAGGAGTACT-TAACTCAACGCCAAAAAGATTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
** * ** **
10340 AAGGGCTTCTCAGGCTTTTAATATCAATTTTCTTTTTTTTTCGAGCTAATTTCTAATTAAATCGA
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGA
* * * * *
10405 AACCGGATTGAGATGCTCGTAAGAACAGATCCTTAAA-TCTAATGTGTTTGAGCTTTCGCATA-A
130 AACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGAC-AATGTGTCTGAGCTTTCGC-TAGA
* * * * * **
10468 TGAATATGGATATTACAATCAGTCTTAACGCCAAAAGTCATGCAAAACTGAGCCGGGGTCCCAAA
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* * * *
10533 AAGCGTTTTTAGTCAAAAACTGTGAT-G---GTACATGATTTCGGCTAAGATTTTACAAAAACTG
258 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTG
*
10594 ACTTGAAAC
323 ACCTGAAAC
*
10603 ATTTCTGCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
*
10668 AGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTTTTTCCGAATTAATTTCTAATTAAA
66 AGGGCTTCTCACACTTCTAATATCGTTTTT-C---TTTTTTTTT-CGAATTAATTTCTAATTAAA
* *
10733 TCGAAATCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCACTA
126 TCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTA
* * * * * *
10798 GATGAATATAGATATTTCGATGAGTCTTGACGACAAAAATCATGCAGAACTGAGACGGAGCCCCG
191 GATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCG
* * *
10863 GAACGCGTTTTTAGTAAAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTACAAAAA
256 GAACGCGTTTTTAGT-CAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAA
10928 TTGACCTGAAAC
320 TTGACCTGAAAC
* * * * * *
10940 ATTTCTCCACTATTTTTTGCCACAATACACAAAAAAAATATATAACTCAATGCCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
* *
11005 AGGACTTCTCACACTTGTAATATCGTTTTTCCTTATTTTTTCTCGAATTAATTTCTAATTAAATC
66 AGGGCTTCTCACACTTCTAATATCGTTTTT-CTT-TTTTTT-TCGAATTAATTTCTAATTAAATC
* *
11070 GAAACTAGATTGAGATGCTCGTAAAAACAAATCCTTATAGACAATGTGTCTGAGCTTTCGCTAGA
128 GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
* **
11135 TGAATATAGATATTTCAATCAGTCTTGACTCCAAAAATCATGCAAAACTGAGCCGGGGCCTAGGA
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* * *
11200 ATGCGTTTTTTTGTC-AAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAACT
258 ACGCG-TTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATT
11264 GACCTGAAAC
322 GACCTGAAAC
11274 ATTTCTCCTCAATTTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTG
1 ATTTCTCCTCAA-TTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTG
* **
11339 AAGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATC
65 AAGGGCTTCTCACACTTCTAATATCGTTTTT-CTT-TTTTTTTCGAATTAATTTCTAATTAAATC
* *
11404 GAAACCAGATTGAGATGCTCGT-AAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGT
128 GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
* * *
11468 TGAATATAGTTATTTCAATCAGTCTTGACGCGAAAAATCAACTG-AAAA-TGAGTCGGGG-CCC-
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATC-A-TGCAAAACTGAGCCGGGGCCCCG
* *
11529 --A--TGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAACATTTTGCAAAAAT
256 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAAT
11590 TGACCTGAAAC
321 TGACCTGAAAC
* *
11601 ATTTCTCCTCAATTTTTGGCCACAATAATCATAAAGAATACT-TAACTCAACGCCAAAAAGATTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
* ** * *
11665 AAGGGTTTCTCATGCTTTTAATATTGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGA
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGA
* * * ** *
11730 AACCGGATTGAGATTCTCGTAAAAAGAAATCCTTAAATCCAATGTGTCTGAGTTTTCGCTAGATG
130 AACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATG
* *
11795 AATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGACCCCGGAAT
195 AATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAAC
* * *
11860 GCGTTTTTTTGTCAAAAACCGTGATGGTTAGTACATGACTTCGGCTAAGATTTTGCAAAAACTGA
260 GCG-TTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGA
11925 CCTGAAAC
324 CCTGAAAC
* * * *
11933 ATTTGTCCTCAA-TTTTGGCCACAACACTCATAAAAAATATATAGCTCACCGCCAAAAAGATTGG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATT-G
* * * *
11997 AAGAG-TTCTCACGCTTCTAATATTGTATTTCTTTTTTTTTCCTGAATTAATTTCTAATTAAATC
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTT-C-GAATTAATTTCTAATTAAATC
* * * *
12061 GAAACCGGATTAAGATGCTCGTAAAAACAAATCCTTATAGAGAATGTGTCTGAGCTTTCAG-TAG
128 GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTC-GCTAG
* * * *
12125 ATGAATATAGATATTTCGATTAGTCTTGACGCCAAAAATCATGAAAAACTGAGTCGGGGCCCCGG
192 ATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGG
*
12190 AACGCGTTTTTAGTCAAAAACCGTGATGATTAGTACATGATTTCGGCTTAA-ATTTTGCAAAAAT
257 AACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGC-TAAGATTTTGCAAAAAT
12254 TGACCTGAAAC
321 TGACCTGAAAC
* * * *
12265 ATTTCTCCTCAATTTTTAGCCACAATACTCATAAAGAATACT-TAACTCAACACCAAAAAG-GTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
* ** ** * *
12328 GAGGGCTTCTCATGCTTCTAATATAATTATTC-TTTTTTTTCGAATTAATTTCAAATTAAATCGA
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGA
* * *
12392 AA-CAGGATTGAGATGCTCGT-AAAACAAATCCTTAAAGACAATATGTTTGAGCTTTCGCTAGTT
130 AACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGAT
* * * * *
12455 GAATATAGATATTTCGATAAGTCTTGATGCCAATAATCATGCAACACTGAGCCGGGGCCCCGGAA
194 GAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAA
* * * * * *
12520 CGCGTTTTTAGTCCAAAACGGTGATGGTTAGTACTTGATTTCGACTAACATTTTGCAAAAATTGG
259 CGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGA
*
12585 CTTGAAAC
324 CCTGAAAC
* * * *
12593 ATTTCTCCACAATTTTTTGCCACAATAATCATAAAGAATACT-TAACTCAACGCCAAAAAGATTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
* * *
12657 AAGGGTTTCTCACGCTTTTAATATCGTTTTTCTTTTTGTTTTCGAATTAATTTCTAATTAAATCG
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTT-TTTTCGAATTAATTTCTAATTAAATCG
** * **
12722 AAACTGGATTGAGATGCTCGTAAAAAGAAATCCTTAAATCCAATGTGT-TAGAGCTTTCGCTAGA
129 AAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCT-GAGCTTTCGCTAGA
* * * * * *
12786 TGAATATAGATATTTCAATTAGTCTTGACGCCAAAAGTCGTGCAAAACTGAGTCGTGGCCCCGTA
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* * * *
12851 ATGTGTTTTTAGTCAAAAACTGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAA-TA
258 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTG
*
12915 ACTTGAAAC
323 ACCTGAAAC
*
12924 ATTTCTCCTCAATTTTTTGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
* * *
12989 AGGACTTCTCACACTTCTAATATTGTTTTTCCTTATTTTTTCCCGAATTAATTTCTAATTAAATC
66 AGGGCTTCTCACACTTCTAATATCGTTTTT-CTT-TTTTTT-TCGAATTAATTTCTAATTAAATC
* * *
13054 GAAACCAGATTGAGATGCTCGT-AAAACAAATCATTAAAGACAATATGTCTGAGCTTTCGCTAGT
128 GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
* * * * * * * * * *
13118 TGAATATATATATTGCAATCAGTATTGACACGAAAAAACATGCAAAAATGAGTCGGAGCCCCGGG
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* * * *
13183 ACGCGTTTTTAGTCAAAAACCGTAATGGTTAGTACATGATTTCGGCTAACATTTTCCAAAAATAG
258 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTG
*
13248 ACCTGATAC
323 ACCTGAAAC
* * *
13257 ATTTCTCCTAAATTTTTGGCCACAATACTCATAAAGAATACT-TAACTCAACGCCAAAAAGGTTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
* * * * * *
13321 AAGGGTTTCTCACGCTTTTAATATCGTTTTT-ATTTTTTTTCGAGTTAATATCTAATTAAATCGA
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGA
* * **
13385 AACCGGATTGAGATGCTCGTAAAAAGAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATG
130 AACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATG
* * * *
13450 AATATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGCAAATCTAAGCCGGGGCCCCGGAAT
195 AATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAAC
*
13515 GCGTTTTTAGT-AAATAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAAGTGA
260 GCGTTTTTAGTCAAA-AACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGA
13579 CCTGAAAC
324 CCTGAAAC
13587 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
* **
13652 AGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAATCG
66 AGGGCTTCTCACACTTCTAATATCGTTTTT-CTT-TTTTTTTCGAATTAATTTCTAATTAAATCG
* ** *
13717 AAACCAAATTGAGATAATCGTAAAATA-AAATCCTTAAAGACAATGTGTCTGATCTTTCGCTAGA
129 AAACCAGATTGAGATGCTCGTAAAA-ACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
* * *
13781 TGAATATTGATATTTCAATCAGTCTTGACTCCAAAAATCATGCAAAACTAAGCCGGGGCCCCGGA
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* **
13846 ACGCATTTTTAGTC-AAAACCGTGATGGTTAGTACATGATTTCAACTTAA-ATTTTGCAAAAATT
258 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGC-TAAGATTTTGCAAAAATT
* *
13909 TACC-CAAATC
322 GACCTGAAA-C
** **
13919 A-TT-T-CTCAATTTTTGGCCATCAATACTCATAAAAAATATATATTTCAATACCAAAAAGATTG
1 ATTTCTCCTCAATTTTTGGCCA-CAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTG
* * ** *
13981 AAGGACTTCTCACGCTTCTAATATCAATTTTCTTTTTCTTTCCGAATTAATTTCTAATTAAATCG
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTT-TTTTCGAATTAATTTCTAATTAAATCG
* * * ** *
14046 AAACCAGAATAAGATGCTCGTAAAAATAAATCCTTAAATCCAACGTGTCTGAGCTTTCGCTAGAT
129 AAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGAT
* * * * *
14111 GAATAAAGATATTTCGATGAGTCTTGACGCCAACAATCATGC-AAACTGAGCCGGGGCCCCTGAA
194 GAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAA
* * *
14175 CGCGTTTTTAGTCAAATATCGTGATGGTTAGTACATGATTTCGGCTAAGATTTCGCAAAAATTGA
259 CGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGA
14240 CCTGAAAC
324 CCTGAAAC
* * * * *
14248 ATTTCTCCTCAATTTTGGGCCACAATACAT-TTAAAGAATACT-TAACTCAACACCAAAAATATT
1 ATTTCTCCTCAATTTTTGGCCACAATAC-TCATAAAAAATA-TATAACTCAACGCCAAAAAGATT
* *
14311 GAAGGGCTTCTCACACTTCTAATATCATTATTC--TTTTTTTCGAATTAATTTCTAATTAAATCG
64 GAAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCG
* * ** *
14374 AAACC-GAATTGAGATGATCGTAAAAATAAATCCTTAAATCCAATTTGTCTGAGCTTTCGCTAGA
129 AAACCAG-ATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
* ** * * * *
14438 TGAATACAGATATTTCAATCAGTCTTGACTTCAAAAATCATGTAAAACTTAGCTGGGGCCCCGTA
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* ** *
14503 AGGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTTAGCTAAGATTTTGCAAAAATTA
258 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTG
14568 ACCTGAAAC
323 ACCTGAAAC
*
14577 ATTTCTCCTCAATTTTT-GCCACAATACACAT-AAAAATATATAACTCAACGCCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
* ** *
14640 AGGACTTCTCACACTTCTAATATCGTTTTTTCCTTATTTTTCCCAAATTAATTTCTAATTAAATC
66 AGGGCTTCTCACACTTCTAATATCG-TTTTT-CTT-TTTTTTTCGAATTAATTTCTAATTAAATC
* * *
14705 GAAACCAGATTGAGATGCTCGT-AAAACAAATCCTCAAAGATAATATGTCTGAGCTTTCGCTAGA
128 GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
* * * * * *
14769 TGAATATATATATTTCAATTAATCTTGACGCGAAAAATCATGCAAAACTGAGCCGGGACCCCGAA
193 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGA
* *
14834 ATGCGTTTTTAGT-AAATAACCGTGATGGTTAGTACATGATTTCGGCTAACATTTTGCAAAAATT
258 ACGCGTTTTTAGTCAAA-AACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATT
14898 GACCTGAAAC
322 GACCTGAAAC
* * *
14908 ATTTCTACTCAATTTTTGGCCACAATACTCATAAAGAATACT-TAACTCAACGCCGAAAAGATTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
* *
14972 AAGGGCTTCTCACGCTTCTAATATCGTTTTTCTTTATTTTTCCCGAATTAATTTCTAATTAAATC
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTT-TTTTT-TCGAATTAATTTCTAATTAAATC
* ** * *
15037 GAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGCTTTCACTAGA
128 GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
** * * **
15102 TGAATATAGATATTTCAATCAGT-TTAGACATCAAAAATCATGCAACACTAAGCCGGGGCGTCGG
193 TGAATATAGATATTTCAATCAGTCTT-GACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGG
* * *
15166 AACGCGTTTTTAGTCAAAAACCGTGATGGTTACTCCATGATTTCGGCTAAAATTTTGCAAAAATT
257 AACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATT
*
15231 GACCTGAAGC
322 GACCTGAAAC
* *
15241 ATTTCTCGTCAATTTTTGGCCACAATACTCATAAAAAATAGT-TAACTCAACACCAAAAAGATTG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTG
*
15305 AAGGGCTTCTCACACTTCTAATATCATTTTTC-TTTTTTTTCGAATTAA--TC--------T-G-
65 AAGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGA
* * ** *
15357 -----GATTGAGAGGCTCGTAAAACCAAATCCTTAAATCCAATGTGTCTGAGCTTTCGTTAGATG
130 AACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATG
* * * * * * ** * *
15417 ATTATGGATATTTCAATGAGTCTTGATGCAAAAAATAATGTGAAACTTAGTCGGGGCCCCGGAAC
195 AATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAAC
15482 GCGTTTTT
260 GCGTTTTT
15490 CTAATTAATT
Statistics
Matches: 4294, Mismatches: 496, Indels: 208
0.86 0.10 0.04
Matches are distributed among these distances:
313 110 0.03
314 2 0.00
319 1 0.00
320 1 0.00
323 2 0.00
324 52 0.01
325 84 0.02
326 86 0.02
327 208 0.05
328 390 0.09
329 395 0.09
330 334 0.08
331 487 0.11
332 778 0.18
333 863 0.20
334 125 0.03
335 239 0.06
336 8 0.00
337 129 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (331 bp):
ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
AGGGCTTCTCACACTTCTAATATCGTTTTTCTTTTTTTTTCGAATTAATTTCTAATTAAATCGAA
ACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATGA
ATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACG
CGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACC
TGAAAC
Found at i:12883 original size:992 final size:991
Alignment explanation
Indices: 10276--15489 Score: 6830
Period size: 992 Copynumber: 5.3 Consensus size: 991
10266 CGTGATGGTT
* * * *
10276 ATTTCACCTCAATTTTTGGCCACAATACTCATAAGGAGTACTTAACTCAACGCCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGA
** * * **
10341 AGGGCTTCTCAGGCTTTTAATATCAATTTTCTTTTTTTTTCGAGCTAATTTCTAATTAAATCGAA
66 AGGGCTTCTCACACTTCTAATATCATTTTTC-TTTTTTTTCGAATTAATTTCTAATTAAATCGAA
* * * *
10406 ACCGGATTGAGATGCTCGTAAGAACAGATCCTTAAA-TCTAATGTGTTTGAGCTTTCGCATA-AT
130 ACCGGATTGAGATGCTCGTAA-AACAAATCCTTAAAGAC-AATATGTCTGAGCTTTCGC-TAGAT
* * * * * ***
10469 GAATATGGATATTACAATCAGTCTTAACGCCAAAAGTCATGCAAAACTGAGCCGGGGTCCCAAAA
192 GAATATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGC-AAACTGAGCCGGGG-CCCCGGA
* * *
10534 AGCGTTTTTAGTCAAAAACTGTGAT-G---GTACATGATTTCGGCTAAGATTTTACAAAAACTGA
255 AGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGA
* * *
10595 CTTGAAACATTTCTGCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAA
320 CCTGAAACATTTCTCCTCAATTTTTGGCCACAATAATCATAAAAAATATATAACTCAACGCCAAA
10660 AAGATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTTTTTCCGAATTAATTTC
385 AAGATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCC---TTTTTTTTT-CGAATTAATTTC
*
10725 TAATTAAATCGAAATCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGC
446 TAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGC
* * * * * *
10790 TTTCACTAGATGAATATAGATATTTCGATGAGTCTTGACGACAAAAATCATGCAGAACTGAGACG
511 TTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCG
* * *
10855 GAGCCCCGGAACGCGTTTTTAGTAAAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTT
576 G-GCCCCGGAATGCGTTTTTAGT-CAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTT
* * * * * *
10920 TACAAAAATTGACCTGAAACATTTCTCCACTATTTTTTGCCACAATACACAAAAAAAATATATAA
639 TGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * * * *
10985 CTCAATGCCAAAAAGATTGAAGGACTTCTCACACTTGTAATATCGTTTTTCCTTATTTTTTCTCG
704 CTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATTGTTTTT-CTTTTTTTTTCCCG
* *
11050 AATTAATTTCTAATTAAATCGAAACTAGATTGAGATGCTCGTAAAAACAAATCCTTATAGACAAT
768 AATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAAT
* *
11115 GTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACTCCAAAAATCATGCAA
833 GTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACACCAAAAATCATGAAA
** * *
11180 AACTGAGCCGGGGCCTAGGAATGCGTTTTTTTGTC-AAAACCGTGATGGTTAGTACATGATTTCG
898 AACTGAGCCGGGGCCCCGGAACGCG-TTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCG
*
11244 GCTAAGATTTTGCAAAAACTGACCTGAAAC
962 GCTAAGATTTTGCAAAAATTGACCTGAAAC
* *
11274 ATTTCTCCTCAATTTTTTGGCCACAATACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATT
1 ATTTCTCCTCAA-TTTTTGGCCACAATACTCATAAAGAATACT-TAACTCAACACCAAAAAGATT
* * *
11338 GAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATTAAAT
64 GAAGGGCTTCTCACACTTCTAATATCATTTTT-CTT-TTTTT-TCGAATTAATTTCTAATTAAAT
* *
11403 CGAAACCAGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGT
126 CGAAACCGGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGA
* * * * *
11468 TGAATATAGTTATTTCAATCAGTCTTGACGCGAAAAATCAACTG-AAAATGAGTCGGGG-CCC--
191 TGAATATAGATATTTCAATCAGTCTTGATGCCAAAAATC-A-TGCAAACTGAGCCGGGGCCCCGG
* *
11529 -A-TGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAACATTTTGCAAAAATTG
254 AAGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTG
*
11592 ACCTGAAACATTTCTCCTCAATTTTTGGCCACAATAATCATAAAGAATACT-TAACTCAACGCCA
319 ACCTGAAACATTTCTCCTCAATTTTTGGCCACAATAATCATAAAAAATA-TATAACTCAACGCCA
** ** * *
11656 AAAAGATTGAAGGGTTTCTCATGCTTTTAATATTGTTTTT-CTTTTTTTTTCGAATTAATTTCTA
383 AAAAGATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTTTTTTTTCGAATTAATTTCTA
* * * ** *
11720 ATTAAATCGAAACCGGATTGAGATTCTCGTAAAAAGAAATCCTTAAATCCAATGTGTCTGAGTTT
448 ATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTT
11785 TCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGG
513 TCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGG
* *
11850 ACCCCGGAATGCGTTTTTTTGTCAAAAACCGTGATGGTTAGTACATGACTTCGGCTAAGATTTTG
578 -CCCCGGAATGCG-TTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTG
* * * *
11915 CAAAAACTGACCTGAAACATTTGTCCTCAA-TTTTGGCCACAACACTCATAAAAAATATATAGCT
641 CAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACT
* * * *
11979 CACCGCCAAAAAGATTGGAA-GAGTTCTCACGCTTCTAATATTGTATTTCTTTTTTTTTCCTGAA
706 CAACGCCAAAAAGATT-GAAGGACTTCTCACGCTTCTAATATTGTTTTTCTTTTTTTTTCCCGAA
* * * *
12043 TTAATTTCTAATTAAATCGAAACCGGATTAAGATGCTCGTAAAAACAAATCCTTATAGAGAATGT
770 TTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGT
* * *
12108 GTCTGAGCTTTCAG-TAGATGAATATAGATATTTCGATTAGTCTTGACGCCAAAAATCATGAAAA
835 GTCTGAGCTTTC-GCTAGATGAATATAGATATTTCAATCAGTCTTGACACCAAAAATCATGAAAA
* *
12172 ACTGAGTCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGATTAGTACATGATTTCGGC
899 ACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGC
12237 TTAA-ATTTTGCAAAAATTGACCTGAAAC
964 -TAAGATTTTGCAAAAATTGACCTGAAAC
* * *
12265 ATTTCTCCTCAATTTTTAGCCACAATACTCATAAAGAATACTTAACTCAACACCAAAAAG-GTGG
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGA
** * * *
12329 AGGGCTTCTCATGCTTCTAATATAATTATTCTTTTTTTTCGAATTAATTTCAAATTAAATCGAAA
66 AGGGCTTCTCACACTTCTAATATCATTTTTCTTTTTTTTCGAATTAATTTCTAATTAAATCGAAA
* * *
12394 CAGGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATATGTTTGAGCTTTCGCTAGTTGAAT
131 CCGGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGATGAAT
* * *
12459 ATAGATATTTCGATAAGTCTTGATGCCAATAATCATGCAACACTGAGCCGGGGCCCCGGAACGCG
196 ATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGCAA-ACTGAGCCGGGGCCCCGGAA-GCG
* * * * * * *
12524 TTTTTAGTCCAAAACGGTGATGGTTAGTACTTGATTTCGACTAACATTTTGCAAAAATTGGCTTG
259 TTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTG
* * *
12589 AAACATTTCTCCACAATTTTTTGCCACAATAATCATAAAGAATACT-TAACTCAACGCCAAAAAG
324 AAACATTTCTCCTCAATTTTTGGCCACAATAATCATAAAAAATA-TATAACTCAACGCCAAAAAG
** * *
12653 ATTGAAGGGTTTCTCACGCTTTTAATATCGTTTTT-CTTTTTGTTTTCGAATTAATTTCTAATTA
388 ATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTTTT-TTTTCGAATTAATTTCTAATTA
** * **
12717 AATCGAAACTGGATTGAGATGCTCGTAAAAAGAAATCCTTAAATCCAATGTGT-TAGAGCTTTCG
452 AATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCT-GAGCTTTCG
* * * *
12781 CTAGATGAATATAGATATTTCAATTAGTCTTGACGCCAAAAGTCGTGCAAAACTGAGTCGTGGCC
516 CTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCG-GGCC
* * *
12846 CCGTAATGTGTTTTTAGTCAAAAACTGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAA
580 CCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAA
* * *
12911 AA-TAACTTGAAACATTTCTCCTCAATTTTTTGCCACAATACTCATAAAAAATATATAACTCAAC
645 AATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAAC
* *
12975 GCCAAAAAGATTGAAGGACTTCTCACACTTCTAATATTGTTTTTCCTTATTTTTTCCCGAATTAA
710 GCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATTGTTTTT-CTTTTTTTTTCCCGAATTAA
* *
13040 TTTCTAATTAAATCGAAACCAGATTGAGATGCTCGT-AAAACAAATCATTAAAGACAATATGTCT
774 TTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCT
* * * * * *
13104 GAGCTTTCGCTAGTTGAATATATATATTGCAATCAGTATTGACACGAAAAAACATGCAAAAA-TG
839 GAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACACCAAAAATCATG-AAAAACTG
* * * * *
13168 AGTCGGAGCCCCGGGACGCGTTTTTAGTCAAAAACCGTAATGGTTAGTACATGATTTCGGCTAAC
903 AGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAG
* * *
13233 ATTTTCCAAAAATAGACCTGATAC
968 ATTTTGCAAAAATTGACCTGAAAC
* * *
13257 ATTTCTCCTAAATTTTTGGCCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGGTTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGA
* * * * * * *
13322 AGGGTTTCTCACGCTTTTAATATCGTTTTTATTTTTTTTCGAGTTAATATCTAATTAAATCGAAA
66 AGGGCTTCTCACACTTCTAATATCATTTTTCTTTTTTTTCGAATTAATTTCTAATTAAATCGAAA
* ** *
13387 CCGGATTGAGATGCTCGTAAAAAGAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAA
131 CCGGATTGAGATGCTCGT-AAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGATGAA
*
13452 TATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGCAAATCTAAGCCGGGGCCCCGGAATGC
195 TATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGCAAA-CTGAGCCGGGGCCCCGGAA-GC
*
13517 GTTTTTAGT-AAATAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAAGTGACC
258 GTTTTTAGTCAAA-AACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACC
*
13581 TGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAA
322 TGAAACATTTCTCCTCAATTTTTGGCCACAATAATCATAAAAAATATATAACTCAACGCCAAAAA
**
13646 GATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCGAATTAATTTCTAATT
387 GATTGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTT-TTTTTTTCGAATTAATTTCTAATT
* ** *
13711 AAATCGAAACCAAATTGAGATAATCGTAAAATA-AAATCCTTAAAGACAATGTGTCTGATCTTTC
451 AAATCGAAACCAGATTGAGATGCTCGTAAAA-ACAAATCCTTAAAGACAATGTGTCTGAGCTTTC
* * *
13775 GCTAGATGAATATTGATATTTCAATCAGTCTTGACTCCAAAAATCATGCAAAACTAAGCCGGGGC
515 GCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCC-GGGC
* * **
13840 CCCGGAACGCATTTTTAGTC-AAAACCGTGATGGTTAGTACATGATTTCAACTTAA-ATTTTGCA
579 CCCGGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGC-TAAGATTTTGCA
* * **
13903 AAAATTTACC-CAAATCA-TT-T-CTCAATTTTTGGCCATCAATACTCATAAAAAATATATATTT
643 AAAATTGACCTGAAA-CATTTCTCCTCAATTTTTGGCCA-CAATACTCATAAAAAATATATAACT
** *** *
13964 CAATACCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCAATTTTCTTTTTCTTT-CCGAAT
706 CAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATTGTTTTTCTTTTTTTTTCCCGAAT
* * * ** *
14028 TAATTTCTAATTAAATCGAAACCAGAATAAGATGCTCGTAAAAATAAATCCTTAAATCCAACGTG
771 TAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTG
* * * * * *
14093 TCTGAGCTTTCGCTAGATGAATAAAGATATTTCGATGAGTCTTGACGCCAACAATCATG-CAAAC
836 TCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACACCAAAAATCATGAAAAAC
* * *
14157 TGAGCCGGGGCCCCTGAACGCGTTTTTAGTCAAATATCGTGATGGTTAGTACATGATTTCGGCTA
901 TGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTA
*
14222 AGATTTCGCAAAAATTGACCTGAAAC
966 AGATTTTGCAAAAATTGACCTGAAAC
* * *
14248 ATTTCTCCTCAATTTTGGGCCACAATACAT-TTAAAGAATACTTAACTCAACACCAAAAATATTG
1 ATTTCTCCTCAATTTTTGGCCACAATAC-TCATAAAGAATACTTAACTCAACACCAAAAAGATTG
*
14312 AAGGGCTTCTCACACTTCTAATATCATTATTC-TTTTTTTCGAATTAATTTCTAATTAAATCGAA
65 AAGGGCTTCTCACACTTCTAATATCATTTTTCTTTTTTTTCGAATTAATTTCTAATTAAATCGAA
* * * ** *
14376 ACCGAATTGAGATGATCGTAAAAATAAATCCTTAAATCCAATTTGTCTGAGCTTTCGCTAGATGA
130 ACCGGATTGAGATGCTCGT-AAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGATGA
* * * * * *
14441 ATACAGATATTTCAATCAGTCTTGACT-TCAAAAATCATGTAAAACTTAGCTGGGGCCCCGTAAG
194 ATATAGATATTTCAATCAGTCTTGA-TGCCAAAAATCATG-CAAACTGAGCCGGGGCCCCGGAA-
** *
14505 GCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTTAGCTAAGATTTTGCAAAAATTAAC
256 GCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGAC
14570 CTGAAACATTTCTCCTCAATTTTT-GCCACAATACA-CAT-AAAAATATATAACTCAACGCCAAA
321 CTGAAACATTTCTCCTCAATTTTTGGCCACAATA-ATCATAAAAAATATATAACTCAACGCCAAA
** *
14632 AAGATTGAAGGACTTCTCACACTTCTAATATCGTTTTTTCCTTATTTTTCCCAAATTAATTTCTA
385 AAGATTGAAGGACTTCTCACACTTCTAATATCG-TTTTTCCTT-TTTTTTTCGAATTAATTTCTA
* * *
14697 ATTAAATCGAAACCAGATTGAGATGCTCGT-AAAACAAATCCTCAAAGATAATATGTCTGAGCTT
448 ATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTT
* * * *
14761 TCGCTAGATGAATATATATATTTCAATTAATCTTGACGCGAAAAATCATGCAAAACTGAGCCGGG
513 TCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGG
* *
14826 ACCCCGAAATGCGTTTTTAGT-AAATAACCGTGATGGTTAGTACATGATTTCGGCTAACATTTTG
578 -CCCCGGAATGCGTTTTTAGTCAAA-AACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTG
* *
14890 CAAAAATTGACCTGAAACATTTCTACTCAATTTTTGGCCACAATACTCATAAAGAATACT-TAAC
641 CAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATA-TATAAC
* * * *
14954 TCAACGCCGAAAAGATTGAAGGGCTTCTCACGCTTCTAATATCGTTTTTCTTTATTTTTCCCGAA
705 TCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATTGTTTTTCTTTTTTTTTCCCGAA
* ** *
15019 TTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAACGT
770 TTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGT
* * * *
15084 GTCTGAGCTTTCACTAGATGAATATAGATATTTCAATCAGT-TTAGACATCAAAAATCATGCAAC
835 GTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTT-GACACCAAAAATCATGAAAA
* ** * *
15148 ACTAAGCCGGGGCGTCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTACTCCATGATTTCGGC
899 ACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGC
* *
15213 TAAAATTTTGCAAAAATTGACCTGAAGC
964 TAAGATTTTGCAAAAATTGACCTGAAAC
* * *
15241 ATTTCTCGTCAATTTTTGGCCACAATACTCATAAAAAATAGTTAACTCAACACCAAAAAGATTGA
1 ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGA
15306 AGGGCTTCTCACACTTCTAATATCATTTTTCTTTTTTTTCGAATTAA--TC--------T-----
66 AGGGCTTCTCACACTTCTAATATCATTTTTCTTTTTTTTCGAATTAATTTCTAATTAAATCGAAA
* ** * * *
15356 --GGATTGAGAGGCTCGTAAAACCAAATCCTTAAATCCAATGTGTCTGAGCTTTCGTTAGATGAT
131 CCGGATTGAGATGCTCGTAAAA-CAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGATGAA
* * * * * * *
15419 TATGGATATTTCAATGAGTCTTGATGCAAAAAATAATGTGAAACTTAGTCGGGGCCCCGGAACGC
195 TATAGATATTTCAATCAGTCTTGATGCCAAAAATCATG-CAAACTGAGCCGGGGCCCCGGAA-GC
15484 GTTTTT
258 GTTTTT
15490 CTAATTAATT
Statistics
Matches: 3737, Mismatches: 402, Indels: 175
0.87 0.09 0.04
Matches are distributed among these distances:
976 5 0.00
977 109 0.03
984 3 0.00
985 3 0.00
986 125 0.03
987 12 0.00
988 165 0.04
989 141 0.04
990 283 0.08
991 529 0.14
992 789 0.21
993 727 0.19
994 341 0.09
995 156 0.04
996 6 0.00
997 1 0.00
998 137 0.04
999 77 0.02
1000 81 0.02
1001 45 0.01
1002 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (991 bp):
ATTTCTCCTCAATTTTTGGCCACAATACTCATAAAGAATACTTAACTCAACACCAAAAAGATTGA
AGGGCTTCTCACACTTCTAATATCATTTTTCTTTTTTTTCGAATTAATTTCTAATTAAATCGAAA
CCGGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATATGTCTGAGCTTTCGCTAGATGAAT
ATAGATATTTCAATCAGTCTTGATGCCAAAAATCATGCAAACTGAGCCGGGGCCCCGGAAGCGTT
TTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAA
ACATTTCTCCTCAATTTTTGGCCACAATAATCATAAAAAATATATAACTCAACGCCAAAAAGATT
GAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTTTTTTTTCGAATTAATTTCTAATTAAATC
GAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGA
TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAA
TGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGA
CCTGAAACATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAA
AAGATTGAAGGACTTCTCACGCTTCTAATATTGTTTTTCTTTTTTTTTCCCGAATTAATTTCTAA
TTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTT
CGCTAGATGAATATAGATATTTCAATCAGTCTTGACACCAAAAATCATGAAAAACTGAGCCGGGG
CCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCA
AAAATTGACCTGAAAC
Found at i:15639 original size:162 final size:162
Alignment explanation
Indices: 15357--15651 Score: 432
Period size: 162 Copynumber: 1.8 Consensus size: 162
15347 AATTAATCTG
* * * * *
15357 GATTGAGAGGCTCGTAAAACCAAATCCTTAAATCCAATGTGTCTGAGCTTTCGTTAGATGATTAT
1 GATTGAGAGGCTCGTAAAACCAAATCATGAAATCCAATGTGTCTGAGCGTACGTTAGATGAATAT
* * * * *
15422 GGATATTTCAATGAGTCTTGATGCAAAAAATAATGTGAAACTTAGTCGGGGCCCCGGAACGCGTT
66 AGATATTTCAATGAGTCTTAATGCAAAAAATAATGTAAAACTGAGTCGAGGCCCCGGAACGCGTT
15487 TTTCTAATTAATTTCTAATTAAATCAAAATCA
131 TTTCTAATTAATTTCTAATTAAATCAAAATCA
* *
15519 GATTGAGATGCTCGTAAATA-CAAATCATGAAATCCAATGTGGT-TGAGCGTACTTTAGATGAAT
1 GATTGAGAGGCTCGTAAA-ACCAAATCATGAAATCCAATGT-GTCTGAGCGTACGTTAGATGAAT
* *
15582 ATAGATATTTCAATGAGTCTTAATGCCAAAAATCATGTAAAACTGAGTCGAGGCCCCGGAACGCG
64 ATAGATATTTCAATGAGTCTTAATGCAAAAAATAATGTAAAACTGAGTCGAGGCCCCGGAACGCG
15647 TTTTT
129 TTTTT
15652 AGTCAAAAAC
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
162 114 0.97
163 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (162 bp):
GATTGAGAGGCTCGTAAAACCAAATCATGAAATCCAATGTGTCTGAGCGTACGTTAGATGAATAT
AGATATTTCAATGAGTCTTAATGCAAAAAATAATGTAAAACTGAGTCGAGGCCCCGGAACGCGTT
TTTCTAATTAATTTCTAATTAAATCAAAATCA
Found at i:16905 original size:330 final size:330
Alignment explanation
Indices: 15485--17947 Score: 2944
Period size: 331 Copynumber: 7.5 Consensus size: 330
15475 CCGGAACGCG
* * * * * *
15485 TTTTTCTAATTAATTTCTAATTAAATCAAAATCAGATTGAGATGCTCGTAAATACAAATCATGAA
1 TTTTTCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAA
* * ** * *
15550 ATCCAATGTGGT-TGAGCGTACTTTAGATGAATATAGATATTTCAATGAGTCTTAATGCCAAAAA
66 ATCCAATGT-GTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAA
* * *
15614 TCATGTAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACAT
130 TCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTA-TACAT
15679 GATTTCGGCTAAAATTTTGCAACAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAAT
194 GATTTCGGCTAAAATTTTGCAA-AAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAAT
*
15744 ATTCATAAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCG
258 ACTCAT-AAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCG
*
15809 TTTTCACTTT
322 TTTT-TCTTT
** * *
15819 TTTCCCGAATTAATTTCTAATTAAATCGAAA-CATGACTGAGATGCTCGTAAAAACAACTCCTTA
1 TTTTTCGAATTAATTTCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTA
** * * *
15883 AAGACAATGTGTCTGAGATTTCGCCAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAA
65 AATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAA
* * *
15948 TCATGCAAAACTAAGCCGGGGCCCCGGAACGCATTTTTAGTCCAAAA-C------------CATG
130 TCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTATACATG
* * *
16000 ATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAGCATTTCTCCTCTATTTTTGGCCA-AAATAC
195 ATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAATAC
* * * *
16064 TCATAAAAAATATATAATTCAACGCCAAAAAAATTGAAGGACTTCTCATGCTTCTTATATCGTTT
260 TCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTT
16129 TTCTTT
325 TTCTTT
* * * *
16135 TTCTTTCTAGAATTAATTTCTAATTAAATCGAAACCAGATTAAGATGCTTGCAAAAACAAATGCT
1 TT-TTTC--GAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCT
* * *
16200 TAAATCTAATGTGTCTGAGCTTTCGCTAGATTATTATAGATATTTCAATGAGTCTTGACGCCAAA
63 TAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAA
* * * * * * * **
16265 AATCATACAAAACTGAGTCGGGGCCTCGAAATGCGTTTTTAGTC-AAAACTGGGATAATTAGTAC
128 AATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTA-TAC
* * * * * *
16329 ATGATTTCGGCTAAAATTTTACAAAAATTGACCTGAAGCATTTCACCTCAGTTTTTGGTCA-AAA
192 ATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAA
* * * * *
16393 TACTCATAAAAAATACT-TAACTTAACGCCAAAAATATTAAAGGGCTTCTCACGCATCTAATATC
257 TACTCATAAAAAATA-TATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATC
*
16457 -ATTTTC---
321 GTTTTTCTTT
* * * *
16463 TTTTACGAAATAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAATACAAATCATTAA
1 TTTTTCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAA
* * * *
16528 ATCCAATGTAG-ATGAGCTTACGTTAGATGAATATAGATATTTCAATGAGTCTTAACGCCAAAAA
66 ATCCAATGT-GTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAA
* * *
16592 TCATGTAAAATTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAAACTGTGATGG-T-TACAT
130 TCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTC-AAAAACCGTGATGGTTATACA-
* *
16655 TGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCACATTTTTTGGCCATCAAT
193 TGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAAT
* * * * ** * *
16720 ACTCATAAAAACTTTTTAACTCAAAGCCAAAAAGATTGAAGGGTTTCTCACACTTCTAATATCAT
258 ACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGT
16785 TTTTCTTT
323 TTTTCTTT
* * * *
16793 TTTTTCGAATTATTTTCTAATTAAATCGAAACCGGATTGAGAGGCTCGTAAAAACAAATCCCTAA
1 TTTTTCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAA
**
16858 ATCCAATGTGTCTGAGCTTTCATTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAAT
66 ATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAAT
* * * *
16923 CATGCAAAACTGAGCTGGGGCCCGGGAAAGCTTTTTTAGTCAAAAA-C-TGATGGTTAGTACATG
131 CATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTA-TACATG
* * * *
16986 ATTTTGGCTAAAATTTTACAAAAATTAACCCGAAGCATTTCTCCTCAATTTTTGGCCATGAATAC
195 ATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAATAC
* * * *
17051 TCA-AAAAAATATATAACTCAAGGCCAAAAAGAATGATGGACTTCTCACGCTTCTAATATCATTT
260 TCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTT
17115 TTCCTTT
325 TT-CTTT
* *
17122 TTTTCCCCGAATTAATTTTTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTT
1 TTTT--TCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTT
** * * * * *
17187 AAAGACAATGTGTTTAATCTTTCACTAGATGAATATAGATATTTCAAT-ATGTCTTGATGCCAAA
64 AAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGA-GTCTTGACGCCAAA
* * * *
17251 AATCATGCAAAACTGAGCCGGGGACCCGGAACACATTTTTAGTCAAAAACCGTGATGG--AGCAC
128 AATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTA-TAC
* * *
17314 ATGATTT-GACTAAAATTTTACAAAAATTGATCCGAAGCATTTCTCCTCAATTTTTGGCCATCAA
192 ATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAA
*
17378 TACTCATAAAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGTTTCTAATAT
257 TACTCAT--AAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATAT
17443 CGTTTTTCCTTT
320 CGTTTTT-CTTT
** * * *
17455 TTTCCCGAATTAATTTCTAATTAAATCGAAACCGGATTGAGATTCTCGTAAAAACGAATCCTTAA
1 TTTTTCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAA
* ** * *
17520 ATCCAATGTTTCTG-GTCTTTCTTTAGATGAATATAGATCTTTCAATGAATCTTGACGCCAAAAA
66 ATCCAATGTGTCTGAG-CTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAA
* * *
17584 TCATGCAAAACTGAGTCGGGGCCCCGGAAAGCGTTTTTAGTAAAAAAAAAACCGTGATGGTTAGT
130 TCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGT----CAAAAACCGTGATGGTTA-T
* * * * * *
17649 ACATGATTCCGGCTAAAATTTTGCAAAAATTGACCCAAAGTATATGTCCTCAATTTTTGTCCATC
190 ACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATC
* *
17714 AATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGACTTCTCACACTTCTAAATT
255 AATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCT--CAC-GC----TT
17778 CTAATATCGTTTTTCCTTT
313 CTAATATCGTTTTT-CTTT
** * * * * *
17797 TCTTTTCCGAATTAATTTCCGATTAAATCGAGACCGGATTGAGATACTCATAAAAACAAGTCCTT
1 T-TTTT-CGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTT
** * * *
17862 AAAGACAATGTGTCTCAGCTTTCGCTAGATTAATATAGATATTTCAATCAGTCTTGACGCCAAAA
64 AAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAA
*
17927 ATCATGCAAAACTGTGCCGGG
129 ATCATGCAAAACTGAGCCGGG
17948 TTCGGCTAAA
Statistics
Matches: 1830, Mismatches: 236, Indels: 116
0.84 0.11 0.05
Matches are distributed among these distances:
316 6 0.00
317 60 0.03
318 12 0.01
319 176 0.10
320 27 0.01
324 4 0.00
325 197 0.11
326 57 0.03
327 24 0.01
328 57 0.03
329 78 0.04
330 215 0.12
331 310 0.17
332 114 0.06
333 78 0.04
334 144 0.08
335 41 0.02
336 13 0.01
337 13 0.01
338 56 0.03
342 22 0.01
343 2 0.00
344 123 0.07
345 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (330 bp):
TTTTTCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAA
ATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATGAGTCTTGACGCCAAAAAT
CATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTTATACATGA
TTTCGGCTAAAATTTTGCAAAAATTGACCCGAAGCATTTCTCCTCAATTTTTGGCCATCAATACT
CATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTAATATCGTTTT
TCTTT
Found at i:21458 original size:22 final size:24
Alignment explanation
Indices: 21419--21466 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 24
21409 CCTGTTTTTT
21419 TGCTCTGTTTCTTCTCTGTTTCAA
1 TGCTCTGTTTCTTCTCTGTTTCAA
21443 TGCTCTG-TT-TTCTCTGTTTCAA
1 TGCTCTGTTTCTTCTCTGTTTCAA
21465 TG
1 TG
21467 GCTTGCTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.62
23 2 0.08
24 7 0.29
ACGTcount: A:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (24 bp):
TGCTCTGTTTCTTCTCTGTTTCAA
Found at i:24747 original size:38 final size:39
Alignment explanation
Indices: 24684--24758 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 39
24674 ATATTTATAT
* * *
24684 AAAATATAATTATATATATTTTAATAT-TTATATAAATA
1 AAAATATAATTATATATAATATAATATATAATATAAATA
24722 AAAATATAATTAT-TATACATATAATATATAATATAAA
1 AAAATATAATTATATATA-ATATAATATATAATATAAA
24759 CGAACATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 4 0.12
38 20 0.62
39 8 0.25
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (39 bp):
AAAATATAATTATATATAATATAATATATAATATAAATA
Found at i:24803 original size:11 final size:11
Alignment explanation
Indices: 24753--24796 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
24743 TAATATATAA
24753 TATAAACGAAC
1 TATAAACGAAC
*
24764 -ATAAACGAGC
1 TATAAACGAAC
*
24774 TATAAACGATC
1 TATAAACGAAC
24785 TATTAAACGAAC
1 TA-TAAACGAAC
24797 ACTAAACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.32
11 11 0.39
12 8 0.29
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.20
Consensus pattern (11 bp):
TATAAACGAAC
Found at i:26581 original size:20 final size:20
Alignment explanation
Indices: 26556--26594 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26546 CTACGCAGAA
26556 TATCTT-TTTTTCCCTTTTTT
1 TATCTTATTTTT-CCTTTTTT
26576 TATCTTAATTTTTCCTTTT
1 TATCTT-ATTTTTCCTTTT
26595 GATGATCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (20 bp):
TATCTTATTTTTCCTTTTTT
Found at i:29283 original size:30 final size:32
Alignment explanation
Indices: 29247--29312 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
29237 CCCAATAAAC
*
29247 TTCAAA-TCATGACAAATTG-CCTCTTGAA-TT
1 TTCAAATTCAAGACAAATTGTCCTC-TGAACTT
29277 TTCAAATTCAAGACAAATTGTCCTCTGAACTT
1 TTCAAATTCAAGACAAATTGTCCTCTGAACTT
29309 TTCA
1 TTCA
29313 GATTGAGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 6 0.19
31 16 0.50
32 10 0.31
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (32 bp):
TTCAAATTCAAGACAAATTGTCCTCTGAACTT
Found at i:31575 original size:2 final size:2
Alignment explanation
Indices: 31568--31594 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31558 AACAATAAGG
31568 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31595 GGATCGATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38902 original size:19 final size:20
Alignment explanation
Indices: 38878--38916 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
38868 GAGCCAATCA
*
38878 AAAGAATTCGATAT-ATGTG
1 AAAGAAATCGATATGATGTG
38897 AAAGAAATCGATATGATGTG
1 AAAGAAATCGATATGATGTG
38917 TAGATTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
AAAGAAATCGATATGATGTG
Found at i:45061 original size:30 final size:30
Alignment explanation
Indices: 45027--45088 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
45017 ATTTTTATCT
**
45027 TGACTTTCCTCTTATATTCTCAAATTTTAA
1 TGACTTTCCTCTTATACCCTCAAATTTTAA
*
45057 TGACTTTTCTCTTATACCCTCAAATTTTAA
1 TGACTTTCCTCTTATACCCTCAAATTTTAA
45087 TG
1 TG
45089 GCTTATTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (30 bp):
TGACTTTCCTCTTATACCCTCAAATTTTAA
Found at i:49113 original size:21 final size:21
Alignment explanation
Indices: 49089--49128 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
49079 CTAAAATAAT
49089 TAAGTTATTCACGTTACCTAA
1 TAAGTTATTCACGTTACCTAA
49110 TAAGTTATTCACGTTACCT
1 TAAGTTATTCACGTTACCT
49129 TAAAAAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (21 bp):
TAAGTTATTCACGTTACCTAA
Found at i:68722 original size:21 final size:21
Alignment explanation
Indices: 68696--68738 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
68686 CTGGAAGAGC
*
68696 TAGGCATAGTGATAGCAGCAT
1 TAGGCATAGTAATAGCAGCAT
68717 TAGGCATAGTAATAGCAGCAT
1 TAGGCATAGTAATAGCAGCAT
68738 T
1 T
68739 GACTTGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (21 bp):
TAGGCATAGTAATAGCAGCAT
Found at i:72534 original size:31 final size:31
Alignment explanation
Indices: 72434--72537 Score: 84
Period size: 31 Copynumber: 3.4 Consensus size: 31
72424 AAGTACCTAA
* * * *
72434 TTAGTCCATGTACTATTGAAAAAATATCAAT
1 TTAGTCCCTCTACTATAGAAAAAAGATCAAT
* * * *** *
72465 TTAATCCCTCTATTATGGAAATCTG-TTAAT
1 TTAGTCCCTCTACTATAGAAAAAAGATCAAT
* *
72495 TTATTCCCTCTACTATAGAAAAGAGATCAAT
1 TTAGTCCCTCTACTATAGAAAAAAGATCAAT
72526 TTAGTCCCTCTA
1 TTAGTCCCTCTA
72538 TCAAACGGGA
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
30 23 0.43
31 31 0.57
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (31 bp):
TTAGTCCCTCTACTATAGAAAAAAGATCAAT
Done.