Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2272
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: 48182
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:908 original size:474 final size:473
Alignment explanation
Indices: 1--3326 Score: 3602
Period size: 474 Copynumber: 7.1 Consensus size: 473
* * * *
1 TCCCAATCTTGAAATAAAT-GAAACTATTACAAGAATCGATGC-TGTCTTATTTAAGGGA-ATGA
1 TCCCAATCTTGAAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGAGA--A
* * * * * * **
63 CATTGATTTTTAAGTAAAATAGGACAAAGAAATGAATTCCACGCAACCAAAAATCATCAATATCA
64 CTTTGA-TTTTAAGGAAAATAGGGCAAAGAAAAG-ATTTCAAGCAAAAAAAAATCATCAATATCA
* ** * *
128 TTTCTTTTAATGAGGAGAATGTGCTTATAGTGCCT-CTGCAC-AAATGAATGAAGATCATTACTA
127 TTTATCCTAATGAAGAGAATGTGCTTATAGTGCCTAAT-CACAAAATGAATGAAGATCATTACTA
* * * *
191 TAATCCATATTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGCTAGGAAAAATGCC
191 GAATCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCC
** * ** * *
256 TTTCTTACGAAACTAAAACATCAATATCGCATATCGTAATGAGAGGACTATGTTTATGGTGCCTA
256 TTTCTTGTGAAACCAAAACATCAATAT-GTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTA
* * *
321 ATC-CTAAGAAGAATGGGGATTAGTATGAGTACTT-ATGTGTGCCTTATTTAAGAGACAAACTTT
320 ATCTCGAA-AAGAATGGGGATTAGTATGAGTA-TTCATGTTTGTCTTATTTAAGAGACAAACTTT
* **
384 GATTCTATC-AAAACAGTGGAAAGAAAAGCTTTTCTTATGACACCAAAGCATCAATGTCATGTAT
383 GATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTAT
* *
448 CCTAAGAAAGTGAATGTGTTTTTTGGT
448 CCTAAGAAAGGGAATGTG-TTTTAGGT
* * * * *
475 TCCCAATCTTGAAATGATTGGAGACTATTAAAAGAATCAATGCTTGT-TTTTTTAAGGGACAAAC
1 TCCCAATCTTGAAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGA-GAAC
* *
539 TTTGATTTTAAGGAAAATAGGGCAAAGAAAGGATTTCATAGCAAAAAAAAATAATCAATATCATT
65 TTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCA-AGCAAAAAAAAATCATCAATATCATT
* * * * * *
604 TATCCTAAAGAAAAGAATGTGTTTA-AGTGCCCAATCACAAAATGAATGAAGATCAATACTAGAT
129 TATCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAA
* ** * *
668 TCTATGTTTGGCTCATTTGAGGCTCGAACTTAGACTTTAAAAAAATTGGTGGGGAAAAA-GCCTT
194 TCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGT-GGGAAAAATGCCTT
** * * * *
732 TCTTGTGAAACCAAGGCATCAAGATGTGTATTCAAACGAGAAGACTATGTTTATGGTGCCTAATC
258 TCTTGTGAAACCAAAACATCAATATGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATC
* * * *
797 TCGAAAAGAATGGTGACTAGTATGTGTATTCATGTTTCTCTTATTTAAGAGACAAACTTTGATTC
323 TCGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTC
* *
862 TATCAAAAACGGTGGAAAGAAAAGCATTTCTTGCAAC-CCGAAAGCATCAATGTCATGTATCCTA
388 TATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACC-AAAGCATCAATGTCATGTATCCTA
*
926 ATG-AAGGGAATGTTTTTTAGGT
452 A-GAAAGGGAATGTGTTTTAGGT
* * * * * * * **
948 TCCCAATCTCTAAAAT-AAAGGGGTCTGTTACAACAATCGATGCTTGTCTTATTTAAGGAATGTG
1 TCCCAATCT-TGAAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGA-GAA
* * *
1012 CTTTGATTTTAAGGAAACTAGGGCAAAGAAAAGATTTTCAAGCAAAAGAAAATCATCAATACCAT
64 CTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGA-TTTCAAGCAAAAAAAAATCATCAATATCAT
* * *
1077 TTAT--T-ATGAAGAGAACGTGCTTATAGTGCCTAATCCCAAAATGAATGAAGATCATTAGTAGA
128 TTATCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGA
* * * * * * *
1139 ATCAATGTTTGTTTTATTTGAGACACAAACTTAGGCTTTAC-AAAATTAGTGAGAAAAATGCCTT
193 ATCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTT
* * * * * *
1203 TCTTGCGAGACCAAAACATCAATAT-TGCACATCCTAGTGAGAAAACTATGTTTATGGTACCTAA
258 TCTTGTGAAACCAAAACATCAATATGTG--TATCCTAATGAGAAGACTATGTTTATGGTGCCTAA
* *
1267 TACTC-AAAAGAACGGGGATTAGCATGAGTATTCATGTTTGTCTTATTTAAGAG--AAACTTTGA
321 T-CTCGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGA
* * * *
1329 TTCTAT-AAAAACAGAGGAAAGAAAAGCTTTTCTT-CTGACACCAAAGAATCAATGTCAAGTATC
385 TTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGC-GACACCAAAGCATCAATGTCATGTATC
* *
1392 CTAA-AGAATGAAATGTGTTTTAGGT
449 CTAAGA-AAGGGAATGTGTTTTAGGT
* * * *
1417 TCCCAATCCTGAAAAT-AATGGAGACTGTTACGAGAATCAATGCTTATCTTATTTAAGAGATG-A
1 TCCCAATCTTG-AAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGA-GAA
* * * * *
1480 TTTATGATTTTAAGGCAAATAGGG--AAGAAAAGATTTCCATGCAAAAGAAAATCATTAATATCA
64 CTT-TGATTTTAAGGAAAATAGGGCAAAGAAAAGATTT-CAAGCAAAAAAAAATCATCAATATCA
* *
1543 TTTCTCCTAATGAAGAGAATATGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG
127 TTTATCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG
* * *
1608 AATCCATGTTTGTCTCATTTGCA-GCATGAACTTAGACTTTACAAAAATTGGTGGGAAAAAAGCC
192 AATCCATGTTTGTTTCATTTG-AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCC
* * * * *
1672 TTTCTTGTCAAACCAAAGC-GCGAATATCATGTATCCCAATGAGAAGACTATGTTTATGGTGCCT
256 TTTCTTGTGAAACCAAAACATC-AATAT-GTGTATCCTAATGAGAAGACTATGTTTATGGTGCCT
* * *
1736 AATC-CTGAAAAGTATGGAGAATAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTT
319 AATCTC-GAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTT
** * *
1800 GATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGATACTAAAGCATCAATGTCATGTAT
383 GATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTAT
* *
1865 CCTAA-AGAAGGGAATGTGTTTTGGGC
448 CCTAAGA-AAGGGAATGTGTTTTAGGT
** * *
1891 TCATAATCTTGAAAAGATTGGAGACTGTTACAAG----AAT-C--G----A--T------GAACT
1 TCCCAATCTTGAAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGAGAACT
* * * *
1937 TTGATTTTAAGGAAAATAGGAG-AAA-AAACGATTTTAATGTAAAAGAAAATCATCAATATCATT
66 TTGATTTTAAGGAAAATAGG-GCAAAGAAAAGATTTCAA-GCAAAAAAAAATCATCAATATCATT
* * *
2000 TATCCTAATGAGGAGAATGTGCTTATAGTGCTTAATCACAAAATGAATGAAGATCATTCCTAGAA
129 TATCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAA
* * * * *
2065 TCCATGTTTGTTTCGTTCGAGGCACGAACATAGACTTTACAATAATTGGTGGGAAAATTGCCTTT
194 TCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTT
* * * * *
2130 CTTGTGAAACCAAAACATCAATATCGTGTATCCTAATAAAAAGACTATGCTTACGATGCCTAATC
259 CTTGTGAAACCAAAACATCAATAT-GTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATC
* * * * *
2195 TTGAAAAGAGTGGGGATTAGTATGAGTATTCTTATTTGTCTTATTTAAGAGACAAACTTTAATTC
323 TCGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTC
* * * *
2260 TATCAAAAATGGTAGAAAG-AAA-CTATTTCTTGC-ATCACCAAAGCATCGATGTCATATATCCT
388 TATCAAAAACGGTGGAAAGAAAAGCT-TTTCTTGCGA-CACCAAAGCATCAATGTCATGTATCCT
2322 AATG-AAGGGAATGTGTTTTAGGT
451 AA-GAAAGGGAATGTGTTTTAGGT
* * * ** * * * * * * *
2345 TCCTAATCCTAAAAGTGAA-GGAGTTTGTTGCGACAATCGATGCTTGTCTTATTGAAGGAATGTA
1 TCCCAATCTTGAAA-TGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGA-GAA
* * * * *
2409 CTTTGATTCTAAGGCAAATAGGGCAAAAAAAAGATTTACATGCAAAAAAAAAATCATCAATACCA
64 CTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTT-CAAGC-AAAAAAAAATCATCAATATCA
** ** * *
2474 TTTATTTTAATGAAGAGAATGCACTTATAGTGCCTAATCCCAAAATGAATGAAGATCATAACTAG
127 TTTATCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG
*
2539 AATCCATATTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCT
192 AATCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCT
* *
2604 TTCTTGTGAAACCGAAACATCAATATCGTGTATCCTAACGAGAAGACTATGTTTATGGTGCCTAA
257 TTCTTGTGAAACCAAAACATCAATAT-GTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAA
* * * * * * *
2669 TC-CTAAAAAGAATAGGGAATAGTATGAGTATTCTTTTTTGTCTTATTTAACAGACAAACTTTAA
321 TCTC-GAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGA
* * * * *
2733 TTCTATCAAAAATGGTGGAAAAAAAAGCTTTTCTTGCGAAACCAAAGCATCAATGTCATATATGC
385 TTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCC
** * *
2798 TATTAAAGGGAATGTGTTTTTGGC
450 TAAGAAAGGGAATGTGTTTTAGGT
* * * * **
2822 TCCTAATCTTGTAAA-GAATGGAAACTGTTACGAGAATCAATGCTGGTCTT-TTTAAAAGATGAA
1 TCCCAATCTTG-AAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGA-GAA
*
2885 CTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCAAGCAATAAAAAATCATCAAT-TCCA
64 CTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTT-CAAGCAAAAAAAAATCATCAATAT-CA
* * * *
2949 TTTATTCTAATGAAGAGAATGTGCCTATAGTGCCTAATCCCAAAATGAATGAAAATCATTACTAG
127 TTTATCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG
* * * ** * *
3014 AATCAATGTTGGTTTCATTTGAGACACGAACTTAGACCATAAAAAAATTGGTGGGAAAAATGCTT
192 AATCCATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCT
* * ** *
3079 TTCTTGTGAAACCAAAACTTCAATATG-GCATATCCTAGTGAGAAGACTATGCATATGGTGTCTA
257 TTCTTGTGAAACCAAAACATCAATATGTG--TATCCTAATGAGAAGACTATGTTTATGGTGCCTA
*
3143 ATCCTC-AAAAGAATGGGGATTAGTATGAGTATTCATGTTTTCTCTTATTTAAGAG--AAACTTT
320 AT-CTCGAAAAGAATGGGGATTAGTATGAGTATTCATG-TTTGTCTTATTTAAGAGACAAACTTT
* * *
3205 AATTCTATCAAAAACGGTAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCGTCAATGTCATGTAT
383 GATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTAT
* *
3270 CCTAATG-AAGAGAATGTGTTTTTGGT
448 CCTAA-GAAAGGGAATGTGTTTTAGGT
*
3296 TCCCAATCTTGAAAAGAATGGAGACTTGTTA
1 TCCCAATCTTGAAATGAATGGAGAC-TGTTA
3327 GGATCTTGGT
Statistics
Matches: 2396, Mismatches: 361, Indels: 189
0.81 0.12 0.06
Matches are distributed among these distances:
453 3 0.00
454 95 0.04
455 278 0.12
456 3 0.00
458 2 0.00
459 1 0.00
461 2 0.00
463 1 0.00
465 1 0.00
466 3 0.00
467 36 0.02
468 4 0.00
469 136 0.06
470 116 0.05
471 160 0.07
472 139 0.06
473 171 0.07
474 533 0.22
475 281 0.12
476 337 0.14
477 88 0.04
478 6 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (473 bp):
TCCCAATCTTGAAATGAATGGAGACTGTTACAAGAATCAATGCTTGTCTTATTTAAGGGAGAACT
TTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCAAGCAAAAAAAAATCATCAATATCATTTA
TCCTAATGAAGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATC
CATGTTTGTTTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCT
TGTGAAACCAAAACATCAATATGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCTCG
AAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTAT
CAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAAGAA
AGGGAATGTGTTTTAGGT
Found at i:1885 original size:159 final size:159
Alignment explanation
Indices: 306--1914 Score: 550
Period size: 159 Copynumber: 10.2 Consensus size: 159
296 GAGAGGACTA
* * * *
306 TGTTTATGGTGCCTAATCCT-AAGAAGAATGGGGATTAGTATGAGTACTT--ATGTGTGCCTTAT
1 TGTTTATGGTGCCTAATCCTGAA-AAGAATGGAGAATAGTATGAG-A-TTCAATGTTTGTCTTAT
* ** *
368 TTAAGAGACAAACTTTGATTCTATC-AAAACAGTGGAAAGAAAAGCTTTTCTTATGACACCAAAG
63 TTAAGAGACAAACTTTGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAG
* *
432 CATCAATGTCATGTATCCT-AAGAAAGTGAATG
128 CATCAATATCATGTATCCTAAAG-AAGAGAATG
* * * * * * * * ** * * *
464 TGTTTTTTGGTTCCCAATCTTGAAATGATTGGAGACTATTAAAAGAATCAATGCTTGT-TTTTTT
1 TG-TTTATGGTGCCTAATCCTGAAAAGAATGGAGAATAGTATGAGATTCAATGTTTGTCTTATTT
* * *** ** * * ** *
528 AAGGGACAAACTTTGATTTTAAGGAAAATAG-GGCAAAG-AAAGGATTTCATAGCAAAAAAAAAT
65 AAGAGACAAACTTTGATTCTATCAAAAATAGTGG-AAAGAAAAGCTTTTC-TTGCGAAACCAAAG
* * *
591 AATCAATATCATTTATCCTAAAGAAAAGAATG
128 CATCAATATCATGTATCCTAAAGAAGAGAATG
* * * * * * *
623 TGTTTA-AGTGCCCAATCAC--AAAATGAATGAAG-ATCAATACT-AGATTCTATGTTTGGCTCA
1 TGTTTATGGTGCCTAATC-CTGAAAA-GAATGGAGAAT-AGTA-TGAGATTCAATGTTTGTCTTA
* * * * * * ** * *
683 TTTGAG-GCTCGAACTTAGACTT-TA-AAAAAATTGGTGGGGA-AAAAGCCTTTCTTGTGAAACC
62 TTTAAGAG-ACAAACTTTGA-TTCTATCAAAAA-TAGTGGAAAGAAAAGCTTTTCTTGCGAAACC
* * * * * *
744 AAGGCATCAAGAT-GTGTATTC-AAACG-AGAAGACTA
124 AAAGCATCAATATCATGTATCCTAAA-GAAG-AGAATG
* * * *
779 TGTTTATGGTGCCTAAT-CTCGAAAAGAATGGTGACTAGTATGTGTATTC-ATGTTTCTCTTATT
1 TGTTTATGGTGCCTAATCCT-GAAAAGAATGGAGAATAGTATGAG-ATTCAATGTTTGTCTTATT
** * *
842 TAAGAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCATTTCTTGC-AACCCGAAAG
64 TAAGAGACAAACTTTGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGAAACC-AAAG
* * *
906 CATCAATGTCATGTATCCTAATGAAGGGAATG
128 CATCAATATCATGTATCCTAAAGAAGAGAATG
* * * * * * ** ** * * * *
938 T-TTTTTAGGTTCCCAATCTCT-AAAATAAAGGGGTCT-GTTACAACAATCGATGCTTGTCTTAT
1 TGTTTAT-GGTGCCTAATC-CTGAAAAGAATGGAGAATAG-TATGAGATTCAATGTTTGTCTTAT
** * *** * * ** * **
1000 TTAAG-GA-ATGTGCTTTGATTTTAAGGAAACTAG-GGCAAAGAAAAGATTTTCAAGCAAAAGAA
63 TTAAGAGACA--AACTTTGATTCTATCAAAAATAGTGG-AAAGAAAAGCTTTTCTTGCGAAACCA
* * * * *
1062 AATCATCAATACCATTTAT--T-ATGAAGAGAACG
125 AAGCATCAATATCATGTATCCTAAAGAAGAGAATG
* * * * *
1094 TGCTTATAGTGCCTAATCC-CAAAATGAATGAAGATCATTAGTA-GA-A-TCAATGTTTGTTTTA
1 TGTTTATGGTGCCTAATCCTGAAAA-GAATGGAGA--A-TAGTATGAGATTCAATGTTTGTCTTA
* * * * * * * *
1155 TTTGAGACACAAACTTAGGCTT-TA-CAAAATTAGT-GAGAA-AAATGCCTTTCTTGCGAGACCA
62 TTTAAGAGACAAACTT-TGATTCTATCAAAAATAGTGGA-AAGAAAAGCTTTTCTTGCGAAACCA
* * ** * *
1216 AAACATCAATAT--TGCACATCCTAGTG-AGAAAACTA
125 AAGCATCAATATCATG--TATCCTAAAGAAGAGAA-TG
* * * * * * *
1251 TGTTTATGGTACCTAATACTCAAAAGAACGGGGATTAGCATGAGTATTC-ATGTTTGTCTTATTT
1 TGTTTATGGTGCCTAATCCTGAAAAGAATGGAGAATAGTATGAG-ATTCAATGTTTGTCTTATTT
* * * *
1315 AAGAG--AAACTTTGATTCTAT-AAAAACAGAGGAAAGAAAAGCTTTTCTT-CTGACACCAAAGA
65 AAGAGACAAACTTTGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGC-GAAACCAAAGC
* *
1376 ATCAATGTCAAGTATCCTAAAGAATGA-AATG
129 ATCAATATCATGTATCCTAAAGAA-GAGAATG
* * * * * * * *
1407 TGTTT-TAGGTTCCCAATCCTGAAAATAATGGAGACT-GTTACGAGAATCAATGCTTATCTTATT
1 TGTTTAT-GGTGCCTAATCCTGAAAAGAATGGAGAATAG-TATGAGATTCAATGTTTGTCTTATT
** * * **** * * * * ** *
1470 TAAGAGA-TGATTTATGATTTTAAGGCAAATAG-GG-AAGAAAAGATTTCCATGCAAAAGAAAAT
64 TAAGAGACAAACTT-TGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAG
* * * * *
1532 CATTAATATCATTTCTCCTAATGAAGAGAATA
128 CATCAATATCATGTATCCTAAAGAAGAGAATG
* * * * * * *
1564 TGCTTATAGTGCCTAATCAC--AAAATGAATGAAG-ATCATTACT-AGAATCCATGTTTGTCTCA
1 TGTTTATGGTGCCTAATC-CTGAAAA-GAATGGAGAAT-AGTA-TGAGATTCAATGTTTGTCTTA
* * * *
1625 TTT--GCAG-CATGAACTTAGACTT-TA-CAAAAATTGGTGGGAA-AAAAGCCTTTCTTGTC-AA
62 TTTAAG-AGACA--AACTTTGA-TTCTATCAAAAA-TAGTGGAAAGAAAAGCTTTTCTTG-CGAA
* * * * *
1683 ACCAAAGC-GCGAATATCATGTATCCCAATG-AGAAGACTA
121 ACCAAAGCATC-AATATCATGTATCCTAAAGAAG-AGAATG
*
1722 TGTTTATGGTGCCTAATCCTGAAAAGTATGGAGAATAGTATGAGTATTC-ATGTTTGTCTTATTT
1 TGTTTATGGTGCCTAATCCTGAAAAGAATGGAGAATAGTATGAG-ATTCAATGTTTGTCTTATTT
* *
1786 AAGAGACAAACTTTGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGATACTAAAGCA
65 AAGAGACAAACTTTGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCA
* *
1851 TCAATGTCATGTATCCTAAAGAAGGGAATG
130 TCAATATCATGTATCCTAAAGAAGAGAATG
* *
1881 TGTTT-TGG-GCTCATAATCTTGAAAAGATTGGAGA
1 TGTTTATGGTGC-C-TAATCCTGAAAAGAATGGAGA
1915 CTGTTACAAG
Statistics
Matches: 1027, Mismatches: 307, Indels: 233
0.66 0.20 0.15
Matches are distributed among these distances:
152 1 0.00
154 33 0.03
155 44 0.04
156 170 0.17
157 249 0.24
158 248 0.24
159 262 0.26
160 18 0.02
161 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (159 bp):
TGTTTATGGTGCCTAATCCTGAAAAGAATGGAGAATAGTATGAGATTCAATGTTTGTCTTATTTA
AGAGACAAACTTTGATTCTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGAAACCAAAGCAT
CAATATCATGTATCCTAAAGAAGAGAATG
Found at i:3633 original size:20 final size:19
Alignment explanation
Indices: 3610--3683 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3600 CACACCCAGA
*
3610 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
3630 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
3649 TGTATCGATACATGAACAAT
1 TGTATCGATACATGTTC-AT
3669 TGTATCGATACATGT
1 TGTATCGATACATGT
3684 AACTGGCAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:11746 original size:21 final size:23
Alignment explanation
Indices: 11706--11749 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
11696 TTTTAACCAA
*
11706 TTATCAAGGGGGAGAAATTTTTT
1 TTATCAAGAGGGAGAAATTTTTT
11729 TTATCAA-AGGGA-AAATTTTTT
1 TTATCAAGAGGGAGAAATTTTTT
11750 AACGAGAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (23 bp):
TTATCAAGAGGGAGAAATTTTTT
Found at i:12366 original size:20 final size:19
Alignment explanation
Indices: 12327--12376 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
12317 TATGCTTTGC
**
12327 ATCGATACATGTTCATTGT
1 ATCGATACATGGACATTGT
12346 ATCGATACATGGACAATTGT
1 ATCGATACATGGAC-ATTGT
12366 ATCGATACATG
1 ATCGATACATG
12377 TAACTGGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (19 bp):
ATCGATACATGGACATTGT
Found at i:14268 original size:473 final size:473
Alignment explanation
Indices: 13212--14744 Score: 1978
Period size: 474 Copynumber: 3.2 Consensus size: 473
13202 TGAGCTTTCA
* * *
13212 AGATTGTTATGAAAATTGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGG
1 AGATTATTATGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGG
* *
13277 GCAAAGAAAAGATTTCTATGCAAAAGAAAATCGTCAATATCATTGATCATAATATGGAGAATGTG
66 GCAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCATTTATCATAATA-GGAGAATGTG
* * * * * * *
13342 TTTATAGTGCCAAATCTCAAAATTAAAGAAGAACATTACTACAA-CGCAAGTTT-GTCTCATTTG
130 TTTATAGTGCCTAATCACAAAATGAAAGAAGATCAATACTAGAATC-CATGTTTGGT-TCATTTG
*
13405 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAAGCCTTTCTTGCAAAACCAAAGCATC
193 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCAAAACCAAAGCATC
** * * * *
13470 AATATCGTCAATCCTTATGAGAAGACTACGTTTATGGTACCTAATCCCGAAAAGAATAGGGATTA
258 AATATCGTGTATCCTTATGAGAAGA-TATGTTTATGGTGCCTAATCCTGAAAAGAATAGGAATTA
* * * * * * *
13535 GTATGACTGTTCATGTTTATCTTATTTACGAGGTAAACTTTGATTCTATAAAAAACGGTGGAAAG
322 GTATGAGTATTCATGCTTGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAG
* * * * * * * * *
13600 AAAATCTTTTCCTGTGACATCAAAACATTAATATCGTGTATCCTAATGAAGGAAATGTGTTTTTG
387 AAAAGCTTTTCATGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGTGTTTTTG
* *
13665 CTTCCCAATCTTGAAAAGAATG
452 GTTCCCAATCTTGAAAATAATG
* * * *
13687 AGATTGTTACGAGAATCGATGCTTGTC--ACTTTAAAGGATGAACTTTGATCTTAAGGAAAATAG
1 AGATTATTATGAGAATCGATGCTTGTCTTA-TTTAAGGGATGAACTTTGATTTTAAGGAAAATAG
* *
13750 GGAAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCATTTATCTTAATGAGGAGAATGT
65 GGCAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCATTTATCATAAT-AGGAGAATGT
*
13815 GTTTATAGTGCCTAATCACAAAATGAAAGAAGATCAACACTAGAATCCATGTTTGGTTCATTTGA
129 GTTTATAGTGCCTAATCACAAAATGAAAGAAGATCAATACTAGAATCCATGTTTGGTTCATTTGA
* *
13880 GGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCGAAACCAAAGCTTCA
194 GGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCAAAACCAAAGCATCA
* * *
13945 ATATCGTGTATCCTAATGAGAAGATGATGTTTATGGTGCCTAATCCTAAAAATAAT-GGCAATTA
259 ATATCGTGTATCCTTATGAGAAGAT-ATGTTTATGGTGCCTAATCCTGAAAAGAATAGG-AATTA
* *
14009 GTATGAGTATTCATG-TTGTCTTATTTAAGAGGCAAACATTGATTCCATCAAAAACGGTGGAAAG
322 GTATGAGTATTCATGCTTGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAG
* * *
14073 AAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTG
387 AAAAGCTTTTCATGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGTGTTTTTG
14138 GTTCCCAATCTTGAAAATAATG
452 GTTCCCAATCTTGAAAATAATG
* *
14160 AGATTATTATGAGAATCGATACTTGTCTT-TTTAAGGGATGAACTTTGATTTTAAGGAAAATGGG
1 AGATTATTATGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGG
* * * * *
14224 GCAAAGAAAAGATTTTTGTGCAAAAAAAAATCTTCAATATCATTTATCCA-AATAAGGAGAACGT
66 GCAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCATTTAT-CATAAT-AGGAGAATGT
* * * * * *
14288 GTTTATGGTGCCTAATAACAAATTGAAAGAAGATCAATACTAGAATCTATGTTTGGCTCATCTGA
129 GTTTATAGTGCCTAATCACAAAATGAAAGAAGATCAATACTAGAATCCATGTTTGGTTCATTTGA
* * * *
14353 GGCATGAACTTACACTTTACAAAAATTGGTGGGAAGAAAGCCTTTTTTGTAAAACCAAAGCATCA
194 GGCACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCAAAACCAAAGCATCA
* * *
14418 ATATTGTGTATCCTTATGAGAAGAATATGTTTATGGCGCCTAATCCTGAAAAGAATGGGGAA-TA
259 ATATCGTGTATCCTTATGAGAAG-ATATGTTTATGGTGCCTAATCCTGAAAAGAAT-AGGAATTA
* * * **
14482 GCATAAGTATTCATGCTTGTCTTATTTAGGAAACAAACTTTGACTT-TATCAAAAACGGTGGAAA
322 GTATGAGTATTCATGCTTGTCTTATTTAAGAGGCAAACTTTGA-TTCTATCAAAAACGGTGGAAA
* * * *
14546 GAAAAGCTTTTAATGCGACACCAAAGGATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTA
386 GAAAAGCTTTTCATGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGTGTTTTT
* * *
14611 GGTACCCAATCCTGAAAATAAAG
451 GGTTCCCAATCTTGAAAATAATG
* * * *
14634 -GAGTCTATGATGAGAATTGATGCTTGTCTTATTTAAGGGATGTACTTTGATTTTAAGAAAAATA
1 AGA-T-TATTATGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATA
* * * *
14698 GGGCAAAG--AATATTTCCATGGC-AAAGAAAATCATCAACATCACTTAT
64 GGGCAAAGAAAAGATTTCTAT-GCAAAAGAAAATCATCAATATCATTTAT
14745 GCTATTGATA
Statistics
Matches: 927, Mismatches: 113, Indels: 37
0.86 0.10 0.03
Matches are distributed among these distances:
473 413 0.45
474 420 0.45
475 56 0.06
476 38 0.04
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (473 bp):
AGATTATTATGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGG
GCAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCATTTATCATAATAGGAGAATGTGT
TTATAGTGCCTAATCACAAAATGAAAGAAGATCAATACTAGAATCCATGTTTGGTTCATTTGAGG
CACGAACTTAGACTTTACAAAAATTGGTGGGAAGAAAGCCTTTCTTGCAAAACCAAAGCATCAAT
ATCGTGTATCCTTATGAGAAGATATGTTTATGGTGCCTAATCCTGAAAAGAATAGGAATTAGTAT
GAGTATTCATGCTTGTCTTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAA
GCTTTTCATGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTC
CCAATCTTGAAAATAATG
Found at i:14272 original size:157 final size:156
Alignment explanation
Indices: 13212--14696 Score: 450
Period size: 158 Copynumber: 9.4 Consensus size: 156
13202 TGAGCTTTCA
* * *
13212 AGATTGTTATGAAAATTGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGG
1 AGATTATTATGAGAATCGATGCTTGTCTT-TTTAAGGGATGAACTTTGATTTTAAGGAAAAT-GG
* * * * * *
13277 -GCAAAGAAAAGATTTCTATGCAAAAGAAAATCGTCAATATCAT-TGATCATAAT-ATGGAGAAT
64 TGGAAAGAAAAGATTTCT-TGCAAAACAAAAGCATCAATATCATGT-ATCCTAATGAAGG-GAAT
* * * *
13339 GTGTTTATAGTGCCAAATC-TCAAAATTAAAG
126 GTGTTTATGGTGCCCAATCTTGAAAA-TAATG
** * * * * * * * * *
13370 AAGAACATTACT-ACAA-CGCAAGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACA--AAAA
1 -AGATTATTA-TGAGAATCG-ATGCTTGTCT-TTTTAAGGGATGAACTTTGATTTTA-AGGAAAA
* * * * ** * *
13431 TTGGTGGGAA-AAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCGTCAATCCTTATG-AGAAG
61 -TGGTGGAAAGAAAAG-ATTTCTTGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAG-GG
* ** * * ** *
13494 ACTACGTTTATGGTACCTAATCCCGAAAAGAATAG
123 AATGTGTTTATGGTGCCCAATCTTGAAAATAAT-G
* * * * * * *
13529 GGATTAGTATGACTG-TTC-ATGTTTATCTTATTTACGAGG-TAAACTTTGATTCTATAA--AAA
1 AGATTATTATGA--GAATCGATGCTTGTCTT-TTTAAG-GGATGAACTTTGATT-T-TAAGGAAA
* ** * * * *
13589 ACGGTGGAAAGAAAATCTTTTCCTGTG-ACATCAAAA-CATTAATATCGTGTATCCTAATGAAGG
60 ATGGTGGAAAGAAAA-GATTT-CT-TGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGG
* * * * *
13652 AAATGTGTTTTTGCTTCCCAATCTTGAAAAGAATG
122 GAATGTGTTTATGGTGCCCAATCTTGAAAATAATG
* * ** * *
13687 AGATTGTTACGAGAATCGATGCTTGTCACTTTAAAGGATGAACTTTGATCTTAAGGAAAATAGG-
1 AGATTATTATGAGAATCGATGCTTGTCTTTTTAAGGGATGAACTTTGATTTTAAGGAAAAT-GGT
* * * * *
13751 GAAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCATTTATCTTAATG-AGGAGAATGT
65 GGAAAGAAAAGATTTCT-TGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGG-GAATGT
* * ** *
13815 GTTTATAGTGCCTAATC-ACAAAATGAAAG
128 GTTTATGGTGCCCAATCTTGAAAAT-AATG
* ** * * * * * * * *
13844 AAGATCAACACT-AGAATCCATGTTTGGT-TCATTTGAGGCACGAACTTAGACTTTACA--AAAA
1 -AGATTATTA-TGAGAATCGATGCTT-GTCT-TTTTAAGGGATGAACTTTGATTTTA-AGGAAAA
* * * * * * *
13905 TTGGTGGGAAG-AAAGCCTTTCTTGCGAAACCAAAGCTTCAATATCGTGTATCCTAATG-A-GAA
61 -TGGTGGAAAGAAAAG-ATTTCTTGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGGGA
* * *
13967 GATGATGTTTATGGTGCCTAATCCTAAAAATAATG
124 -ATG-TGTTTATGGTGCCCAATCTTGAAAATAATG
* * * ** ***
14002 -GCAATTAGTATGAGTATTC-ATG-TTGTCTTATTTAAGAGGCA--AACATTGATTCCATCAAAA
1 AG--ATTATTATGAG-AATCGATGCTTGTCTT-TTTAAG-GG-ATGAACTTTGATTTTAAGGAAA
* * * * * *
14062 ACGGTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGA
60 ATGGTGGAAAGAAAAG-ATTTCTTGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGGGA
* *
14127 ATGTGTTTTTGGTTCCCAATCTTGAAAATAATG
124 ATGTGTTTATGGTGCCCAATCTTGAAAATAATG
*
14160 AGATTATTATGAGAATCGATACTTGTCTTTTTAAGGGATGAACTTTGATTTTAAGGAAAATGG-G
1 AGATTATTATGAGAATCGATGCTTGTCTTTTTAAGGGATGAACTTTGATTTTAAGGAAAATGGTG
* * * * * * *
14224 GCAAAGAAAAGATTTTTGTGCAAAAAAAAATCTTCAATATCATTTATCCAAAT-AAGGAGAACGT
66 G-AAAGAAAAGATTTCT-TGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGG-GAATGT
* *** * *
14288 GTTTATGGTGCCTAAT-AACAAATTGAAAG
128 GTTTATGGTGCCCAATCTTGAAAAT-AATG
* * * * * * * * * ** *
14317 AAGATCAATACT-AGAATCTATGTTTGGCTCATCTGAGGCATGAACTTACACTTTACA--AAAAT
1 -AGATTATTA-TGAGAATCGATGCTTGTCT-TTTTAAGGGATGAACTTTGATTTTA-AGGAAAA-
* * * * * ** * *
14379 TGGTGGGAAG-AAAGCCTTTTTTGTAAAACCAAAGCATCAATATTGTGTATCCTTATG-AGAAGA
61 TGGTGGAAAGAAAAG-ATTTCTTGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAG-GGA
* * * * *
14442 ATATGTTTATGGCGCCTAATCCTGAAAAGAATGG
124 ATGTGTTTATGGTGCCCAATCTTGAAAATAAT-G
* * ** * * * ** * *** *
14476 GGAATAGCATAAGTATTC-ATGCTTGTCTTATTT-AGGAAACAAACTTTGACTTTATCAAAAACG
1 AGATTATTATGAG-AATCGATGCTTGTCTT-TTTAAGG-GATGAACTTTGATTTTAAGGAAAATG
* * * * * * *
14539 GTGGAAAGAAAAGCTTT-TAATGCGACACCAAAGGATCAATGTCATGTATCCTAATGAAAGGAAT
63 GTGGAAAGAAAAGATTTCT--TGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGGGAAT
* * *
14603 GTGTTT-TAGGTACCCAATCCTGAAAATAAAG
126 GTGTTTAT-GGTGCCCAATCTTGAAAATAATG
* * * *
14634 -GAGTCTATGATGAGAATTGATGCTTGTCTTATTTAAGGGATGTACTTTGATTTTAAGAAAAAT
1 AGA-T-TATTATGAGAATCGATGCTTGTCTT-TTTAAGGGATGAACTTTGATTTTAAGGAAAAT
14697 AGGGCAAAGA
Statistics
Matches: 950, Mismatches: 282, Indels: 188
0.67 0.20 0.13
Matches are distributed among these distances:
155 8 0.01
156 43 0.05
157 195 0.21
158 390 0.41
159 287 0.30
160 25 0.03
161 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (156 bp):
AGATTATTATGAGAATCGATGCTTGTCTTTTTAAGGGATGAACTTTGATTTTAAGGAAAATGGTG
GAAAGAAAAGATTTCTTGCAAAACAAAAGCATCAATATCATGTATCCTAATGAAGGGAATGTGTT
TATGGTGCCCAATCTTGAAAATAATG
Found at i:16770 original size:944 final size:941
Alignment explanation
Indices: 14776--17273 Score: 3172
Period size: 944 Copynumber: 2.6 Consensus size: 941
14766 ATCATGCCTA
* *
14776 AGGCACGAACTTAGACTTTACAGAAATTGGTAGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATC
1 AGGCACGAACTTAGACTTTACAAAAATTGGT-GGGAAAAAGCCTTTCTTGCGAAACCAAAGCATC
* * * **
14841 AATATCATGTACCCTAATGAGAAGACCTTGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTA
65 TATATCATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTA
* * * * * *
14906 GTATGAGTATTCTTGTTTGTCTTATTTAGGAGACAAACTTTGATTCTAACAAAAATGGTGGAGAG
130 GTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTTATTCTATCAAAAA-CGTGGAAAG
* * * *
14971 AAAAGCTTTTCTTGTGACACTAAAGCATCAATGTCATGTATCCTAATGAAAAGAATGTGTTTTAG
194 AAAAGCTTTTCTTGCGACACCAAAGCGTCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTAG
* * * *
15036 GTTCCCAATCA-CAAAA-ATAAAAGAGTCTGTTATGAGAATCAATGCTTGTCTTATTTAAGGAAT
259 GTTCCCAATCATGAAAAGATTAAAGA--CTGTTACGAGAATCAATGCTTGTCTTATTTAAGGGAT
* * * * * *
15099 -ATGCTTGGATTTTAAGGAAAATAGGGTCAAA-AAAATATTTCCAA-GTAAAAAAAAATCATCAA
322 GA-ACTTTGATTTTAAGGAAAATA-GGACAAAGAAAAGATTT-CAATGCAAAAGAAAATCATCAA
* * * * * *
15161 TACCA-TTATTCTAATAGGGAGAATGTGCTTATAGTGCCTAATCCCAAAATGAATAAACATTATT
384 TATCATTTATCCTAAT-GGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATT
* * *
15225 ACTAGAATCAATGTTGGTTTCATTTGAGGC-CCAAACTTAGACTTTACAAAAATTGGTGGGCAAA
448 ACTAGAATCAATGTTTGTTTCATTTGAGGCACGAAA-TTAGACTTTAC-AAAATTGGTGGGAAAA
* * * * *
15289 TGCCTTTCTTATGAAACCAAAACATCAATATCGCATATCCTATTGAGAAGACTATGTTTATGGTG
511 TGCCTTTCTTACGAAACCAAAACATCAATATCGCGTATCCTAATAAGAAGACTATATTTATGGTG
* * * * * *
15354 CCTAATCCT-AAAAAAATAGGGATTAGTATGAGTATTTATGTTTGTTTTATTTAAGAGAACTTTG
576 CCTAATCCTGAAAAGAATGGGGATTAG--T-A-TATCTATGATTGTCTTATTTAAAAGAACTTTG
* *
15418 ATTCTATCAAAAACGGTGGAAAGAAAAACTTTTCTTACGACACCAAAGCATCAATGTCAAGTATC
637 ATTCTATCAAAAACGATGGAAAGAAAAACATTTCTTACGACACCAAAGCATCAATGTCAAGTATC
* * * * * *
15483 CTAAAGAATAGAATGTGTTTTAGGTTCCCAATCTTGAAAATAATGGAGACTATCATGAGAATCGT
702 CTAAAGAAGAGAATGTGCTTTAGGTTCCCAATCCTGAAAATAAAGGAGACTATCACGAGAATCGA
*
15548 TGCTTATCTTATTTAAGAGATGATCTATGATTTTAAGAAAAATACGACAAAGAAAAGATTTCCAT
767 TGCTTATCTCATTTAAGAGATGATCTATGATTTTAAGAAAAATACGACAAAGAAAAGATTTCCAT
* ** *
15613 GCAAAAAAAAAATCATCAATATTATTTATCTTAAAGAGGAGAATGTGTTTACAGTGCCTAATCAC
832 ACAAAAAAAAAATCATCAATACCATTTATCTTAAAGAGGAGAATGTGCTTACAGTGCCTAATCAC
15678 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTG
897 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTG
* * *
15723 AGGCAGGAACCTAGACTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCACCT
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCT
* * * * * * * * * *
15788 ATGTCGTGTATCCCAATA-AGAAGACTATGTTTATGGTGCCAAATCTTGAAAACAATGGGGAATA
66 ATATCATGTATCCTAA-AGAGAAGACAATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTA
* *
15852 GTATAAGTATTCATGTTTGTCTGATTTAAGAGACAAACTTTTATTCTATCAAAAACAGTGGAAAG
130 GTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTTATTCTATCAAAAAC-GTGGAAAG
* *
15917 AAAAGCTTTTCTTACGACACCAAAGCGTCAATGTTATGTATCCTAATGAAAGGAATGTGCTTTT-
194 AAAAGCTTTTCTTGCGACACCAAAGCGTCAATGTCATGTATCCTAATGAAAGGAATGTG-TTTTA
** * * *
15981 GGTTCCTGATCATGAAAAGATTACAGACTGTTACAAGAATCAATGCTTGTCTT-TTTAGGGGATG
258 GGTTCCCAATCATGAAAAGATTAAAGACTGTTACGAGAATCAATGCTTGTCTTATTTAAGGGATG
16045 AACTTTGATTTTAAGGAAAATAGG-CAAAGAAAAGATTTCAATGCAAAAGAAAATCATCAATATC
323 AACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGATTTCAATGCAAAAGAAAATCATCAATATC
*
16109 ATTTATCCTAATGCGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGGTCATTACTA
388 ATTTATCCTAATG-GGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTA
* *
16174 GAATCCATGTTTGTTTCATTTGAGGCACGAAATTAGACTTTACAATAATTTGTGGGAAAATTGCC
452 GAATCAATGTTTGTTTCATTTGAGGCACGAAATTAGACTTTACAA-AATTGGTGGGAAAA-TGCC
*
16239 TTTCTTACGAAACCAAAACATCAATATCGCGTATCCTAATAAGAAGACTACATTTATGGTGCCTA
515 TTTCTTACGAAACCAAAACATCAATATCGCGTATCCTAATAAGAAGACTATATTTATGGTGCCTA
*
16304 ATCCTGAAAAGAATGGGGATTAGTAT-TCT-TGATTGTCTTATTTATGAAACGAACTTTGATTTT
580 ATCCTGAAAAGAATGGGGATTAGTATATCTATGATTGTCTTATTTA--AAA-GAACTTTGATTCT
* * * * * * *
16367 ATCAAAAACGATGGAAAGAAAAGCATTTCTTGCGACACCAAAGCTTTAATGTTATGTATCCTAAT
642 ATCAAAAACGATGGAAAGAAAAACATTTCTTACGACACCAAAGCATCAATGTCAAGTATCCTAAA
* * * *
16432 GAAGGGAATGTGCTTTAGGTTTCCAATCCTGAAAATAAAGGA-ATCTGTTACGAGAATCGATGCT
707 GAAGAGAATGTGCTTTAGGTTCCCAATCCTGAAAATAAAGGAGA-CTATCACGAGAATCGATGCT
* * * *
16496 TATCTCATTTAAG-GAATG-TACTTTGATTTTAAGGAAAATATGGCAAAGAAAAGATTTCCATAC
771 TATCTCATTTAAGAG-ATGAT-CTATGATTTTAAGAAAAATACGACAAAGAAAAGATTTCCATAC
* * *
16559 -AAAAGAAAATCATCAATACCATTTAT-TCTAATGAGGAGAATGTGCTTATAGTGCCTAATTC-C
834 AAAAAAAAAATCATCAATACCATTTATCT-TAAAGAGGAGAATGTGCTTACAGTGCCTAA-TCAC
* *
16621 AAAATGAATGAAGATTATTACTAGAATCCATGTTTGTTTCATTTG
897 AAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTG
* *
16666 ATGCACGAACTTAGACTTTTCAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCCAAA-CAT
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAA-GCCTTTCTTGCGAAA-CCAAAGCAT
* * * *
16730 CTATATCATATATCCTAAAGAGAAGGCAAAGTTTATGGTGCCTAATCCTCAAAAGAATAGGGATT
64 CTATATCATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATT
*
16795 AGTATGAGTATTCATGTTTATCTTATTTAAGAG--AAACTTTTATTCTATCAAAAACGATGGAAA
129 AGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTTATTCTATCAAAAACG-TGGAAA
* * * * * *
16858 GAAAAGCTTTTTTTGCAACACCAAAGCGTAAATGTCATATATCCTAATGAAGGGAATGTGTTTTG
193 GAAAAGCTTTTCTTGCGACACCAAAGCGTCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTA
* * ** ** *
16923 GGTTCCCAATCTTGAAAAGAATGGAGACTGTTACGAGAATTGATGCTTATCTTATTTAAGGGATG
258 GGTTCCCAATCATGAAAAGATTAAAGACTGTTACGAGAATCAATGCTTGTCTTATTTAAGGGATG
* *
16988 AACTTTGGTTTTAAGGAAAATAGGACAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATC
323 AACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGATTTCAATGCAAAAGAAAATCATCAATATC
* * * * *
17053 ATTTATCCTATTGAGGAGAATGTGTTTATAGTACCTAATCACAAAATGAAAGAAGATCAATACTA
388 ATTTATCCTAATG-GGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTA
* * * * *
17118 GAATCTATGTTTGGCTT-ATTTGAGGCACGAACTTAGACTTTACCAAAATTGGTAGGAAGAAAGC
452 GAATCAATGTTT-GTTTCATTTGAGGCACGAAATTAGACTTTA-CAAAATTGGTGGGAA-AATGC
* * *** * * * *
17182 CTTTCTTGCGAAACCAAAGCATCAATATTTTGTATGCTTATAAGAAGATTATATTTCTGGTGCCT
514 CTTTCTTACGAAACCAAAACATCAATATCGCGTATCCTAATAAGAAGACTATATTTATGGTGCCT
*
17247 AATCCTGAAAAGAATGGGGAATAGTAT
579 AATCCTGAAAAGAATGGGGATTAGTAT
17274 GAGTATCATG
Statistics
Matches: 1349, Mismatches: 170, Indels: 67
0.85 0.11 0.04
Matches are distributed among these distances:
941 18 0.01
942 127 0.09
943 176 0.13
944 531 0.39
945 143 0.11
946 297 0.22
947 51 0.04
948 6 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (941 bp):
AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCT
ATATCATGTATCCTAAAGAGAAGACAATGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAG
TATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTTATTCTATCAAAAACGTGGAAAGAA
AAGCTTTTCTTGCGACACCAAAGCGTCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTAGGT
TCCCAATCATGAAAAGATTAAAGACTGTTACGAGAATCAATGCTTGTCTTATTTAAGGGATGAAC
TTTGATTTTAAGGAAAATAGGACAAAGAAAAGATTTCAATGCAAAAGAAAATCATCAATATCATT
TATCCTAATGGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAAT
CAATGTTTGTTTCATTTGAGGCACGAAATTAGACTTTACAAAATTGGTGGGAAAATGCCTTTCTT
ACGAAACCAAAACATCAATATCGCGTATCCTAATAAGAAGACTATATTTATGGTGCCTAATCCTG
AAAAGAATGGGGATTAGTATATCTATGATTGTCTTATTTAAAAGAACTTTGATTCTATCAAAAAC
GATGGAAAGAAAAACATTTCTTACGACACCAAAGCATCAATGTCAAGTATCCTAAAGAAGAGAAT
GTGCTTTAGGTTCCCAATCCTGAAAATAAAGGAGACTATCACGAGAATCGATGCTTATCTCATTT
AAGAGATGATCTATGATTTTAAGAAAAATACGACAAAGAAAAGATTTCCATACAAAAAAAAAATC
ATCAATACCATTTATCTTAAAGAGGAGAATGTGCTTACAGTGCCTAATCACAAAATGAATGAAGA
TCATTACTAGAATCCATGTTTGTCTCATTTG
Found at i:17084 original size:474 final size:472
Alignment explanation
Indices: 14776--17287 Score: 2952
Period size: 474 Copynumber: 5.3 Consensus size: 472
14766 ATCATGCCTA
* * *
14776 AGGCACGAACTTAGACTTTACAGAAATTGGTAGGAAAAAAGCCTTTCTTGCGAAACCAAAGCATC
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATC
* * * *** *
14841 AATATCATGTACCCTAATGAGAAGACCTTGTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTA
66 AATATCGTGTATCCTAA-AAGAAGACAAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATTA
* * * * * *
14906 GTATGAGTATTCTTGTTTGTCTTATTTAGGAGACAAACTTTGATTCTAACAAAAATGGTGGAGAG
130 GTATGAGTATTCATGTTTGTCTTATTTA--AGAGAAACTTTGATTCTATCAAAAACGATGGAAAG
* * *
14971 AAAAGCTTTTCTTGTGACACTAAAGCATCAATGTCATGTATCCTAATGAAAAGAATGTGTTTTAG
193 AAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTAG
** ** * * * * *
15036 GTTCCCAATCACAAAAATAAAAGAGTCTGTTATGAGAATCAATGCTTGTCTTATTTAAGGAAT-A
258 GTTCCCAATCATGAAAATAATGGAGACTGTTACGAGAATCGATGCTTATCTTATTTAAGGGATGA
* * * * * * *
15100 TGCTTGGATTTTAAGGAAAATAGGGTCAAA-AAAATATTTCCAAGTAAAAAAAAATCATCAATAC
323 -ACTTTGATTTTAAGGAAAATA-GG-CAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATAT
* * * * *
15164 CA-TTATTCTAAT-AGGGAGAATGTGCTTATAGTGCCTAATCCCAAAATGAATAAACATTATTAC
385 CATTTATCCTAATGA-GGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTAC
* *
15227 TAGAATCAATGTTGGTTTCATTTG
449 TAGAATCCATGTTTGTTTCATTTG
* * * ** *
15251 AGGCCCAAACTTAGACTTTACAAAAATTGGTGGG-CAAATGCCTTTCTTATGAAACCAAAACATC
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATC
** ** * * *
15315 AATATCGCATATCCTATTGAGAAGACTATGTTTATGGTGCCTAATCCT-AAAAAAATAGGGATTA
66 AATATCGTGTATCCTA-AAAGAAGACAAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATTA
* * *
15379 GTATGAGTATTTATGTTTGTTTTATTTAAGAG-AACTTTGATTCTATCAAAAACGGTGGAAAGAA
130 GTATGAGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGATGGAAAGAA
* * * *
15443 AAACTTTTCTTACGACACCAAAGCATCAATGTCAAGTATCCTAAAGAATA-GAATGTGTTTTAGG
195 AAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAA-AGGAATGTGTTTTAGG
* * * * * * *
15507 TTCCCAATCTTGAAAATAATGGAGACTATCATGAGAATCGTTGCTTATCTTATTTAAGAGATGAT
259 TTCCCAATCATGAAAATAATGGAGACTGTTACGAGAATCGATGCTTATCTTATTTAAGGGATGAA
* * * * *
15572 CTATGATTTTAAGAAAAATACGACAAAGAAAAGATTTCCATGCAAAAAAAAAATCATCAATATTA
324 CTTTGATTTTAAGGAAAATA-GGCAAAGAAAAGATTTCCATGC-AAAAGAAAATCATCAATATCA
* * * *
15637 TTTATCTTAAAGAGGAGAATGTGTTTACAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG
387 TTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAG
*
15702 AATCCATGTTTGTCTCATTTG
452 AATCCATGTTTGTTTCATTTG
* * *
15723 AGGCAGGAACCTAGACTTTACAAAAATTGGTGGGAAAAA-GCCTTTCTTGCGAAACCAAAGCACC
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATC
* * * * * * * * * *
15787 TATGTCGTGTATCCCAATAAGAAGACTATGTTTATGGTGCCAAATCTTGAAAACAATGGGGAATA
66 AATATCGTGTATCCTAA-AAGAAGACAAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATTA
* * *
15852 GTATAAGTATTCATGTTTGTCTGATTTAAGAGACAAACTTTTATTCTATCAAAAAC-AGTGGAAA
130 GTATGAGTATTCATGTTTGTCTTATTTAAGAG--AAACTTTGATTCTATCAAAAACGA-TGGAAA
* * *
15916 GAAAAGCTTTTCTTACGACACCAAAGCGTCAATGTTATGTATCCTAATGAAAGGAATGTGCTTTT
192 GAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTG-TTTT
** * * ** * * * *
15981 -GGTTCCTGATCATGAAAAGATTACAGACTGTTACAAGAATCAATGCTTGTCTT-TTTAGGGGAT
256 AGGTTCCCAATCATGAAAATAATGGAGACTGTTACGAGAATCGATGCTTATCTTATTTAAGGGAT
*
16044 GAACTTTGATTTTAAGGAAAATAGGCAAAGAAAAGATTTCAATGCAAAAGAAAATCATCAATATC
321 GAACTTTGATTTTAAGGAAAATAGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATC
* *
16109 ATTTATCCTAATGCGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGGTCATTACTA
386 ATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTA
16174 GAATCCATGTTTGTTTCATTTG
451 GAATCCATGTTTGTTTCATTTG
* * * * * *
16196 AGGCACGAAATTAGACTTTACAATAATTTGTGGGAAAATTGCCTTTCTTACGAAACCAAAACATC
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATC
* *
16261 AATATCGCGTATCCTAATAAGAAGACTACA-TTTATGGTGCCTAATCCTGAAAAGAAT-GGG---
66 AATATCGTGTATCCTAA-AAGAAGAC-AAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATT
* * * * * *
16321 -G-ATTAGTATTCTTGATTGTCTTATTTATGAAACGAACTTTGATTTTATCAAAAACGATGGAAA
129 AGTATGAGTATTCATGTTTGTCTTATTTAAGAGA--AACTTTGATTCTATCAAAAACGATGGAAA
* * * * * *
16384 GAAAAGCATTTCTTGCGACACCAAAGCTTTAATGTTATGTATCCTAATGAAGGGAATGTGCTTTA
192 GAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTA
* * * * *
16449 GGTTTCCAATCCTGAAAATAAAGGA-ATCTGTTACGAGAATCGATGCTTATCTCATTTAAGGAAT
257 GGTTCCCAATCATGAAAATAATGGAGA-CTGTTACGAGAATCGATGCTTATCTTATTTAAGGGAT
* * *
16513 GTACTTTGATTTTAAGGAAAATATGGCAAAGAAAAGATTTCCATACAAAAGAAAATCATCAATAC
321 GAACTTTGATTTTAAGGAAAATA-GGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATAT
* *
16578 CATTTATTCTAATGAGGAGAATGTGCTTATAGTGCCTAATTC-CAAAATGAATGAAGATTATTAC
385 CATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAA-TCACAAAATGAATGAAGATCATTAC
16642 TAGAATCCATGTTTGTTTCATTTG
449 TAGAATCCATGTTTGTTTCATTTG
* *
16666 ATGCACGAACTTAGACTTTTCAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCCAAA-CAT
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAA-CCAAAGCAT
* * * * *
16730 CTATATCATATATCCTAAAGAGAAGGCAAAGTTTATGGTGCCTAATCCTCAAAAGAATAGGGATT
65 CAATATCGTGTATCCTAAA-AGAAGACAAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATT
* *
16795 AGTATGAGTATTCATGTTTATCTTATTTAAGAGAAACTTTTATTCTATCAAAAACGATGGAAAGA
129 AGTATGAGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGATGGAAAGA
* * * * * * *
16860 AAAGCTTTTTTTGCAACACCAAAGCGTAAATGTCATATATCCTAATGAAGGGAATGTGTTTTGGG
194 AAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTAGG
* * *
16925 TTCCCAATCTTGAAAAGAATGGAGACTGTTACGAGAATTGATGCTTATCTTATTTAAGGGATGAA
259 TTCCCAATCATGAAAATAATGGAGACTGTTACGAGAATCGATGCTTATCTTATTTAAGGGATGAA
* *
16990 CTTTGGTTTTAAGGAAAATAGGACAAAGAAAAGATTTCTATGCAAAAGAAAATCATCAATATCAT
324 CTTTGATTTTAAGGAAAATAGG-CAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCAT
* * * * *
17055 TTATCCTATTGAGGAGAATGTGTTTATAGTACCTAATCACAAAATGAAAGAAGATCAATACTAGA
388 TTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGA
* *
17120 ATCTATGTTTGGCTT-ATTTG
453 ATCCATGTTT-GTTTCATTTG
* *
17140 AGGCACGAACTTAGACTTTACCAAAATTGGTAGGAAGAAA-GCCTTTCTTGCGAAACCAAAGCAT
1 AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAA-AAATGCCTTTCTTGCGAAACCAAAGCAT
** * * * * * * *
17204 CAATATTTTGTATGCTTATAAGAAGATTATA-TTTCTGGTGCCTAATCCTGAAAAGAATGGGGAA
65 CAATATCGTGTAT-CCTAAAAGAAGA-CAAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGAT
17268 TAGTATGAGTA-TCATGTTTG
128 TAGTATGAGTATTCATGTTTG
17288 AAAGGAATAA
Statistics
Matches: 1740, Mismatches: 254, Indels: 88
0.84 0.12 0.04
Matches are distributed among these distances:
466 1 0.00
467 4 0.00
468 142 0.08
469 39 0.02
470 380 0.22
471 34 0.02
472 160 0.09
473 236 0.14
474 524 0.30
475 73 0.04
476 143 0.08
477 4 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (472 bp):
AGGCACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATC
AATATCGTGTATCCTAAAAGAAGACAAAGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATTAG
TATGAGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGATGGAAAGAAA
AGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAAGGAATGTGTTTTAGGTT
CCCAATCATGAAAATAATGGAGACTGTTACGAGAATCGATGCTTATCTTATTTAAGGGATGAACT
TTGATTTTAAGGAAAATAGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTA
TCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATC
CATGTTTGTTTCATTTG
Found at i:18031 original size:20 final size:20
Alignment explanation
Indices: 18006--18058 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
17996 GTTACAAGCA
*
18006 ATGTATCGATACATT-TCATC
1 ATGTATCGATACATTGT-ACC
18026 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
18046 ATGTATCGATACA
1 ATGTATCGATACA
18059 AATATTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:18113 original size:20 final size:20
Alignment explanation
Indices: 18088--18141 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
18078 CTGCCAGTTT
* **
18088 CATGTATCGATACAATTGTC
1 CATGTATCGATACAAGTGAA
*
18108 CATGTATCAATAC-AGTGAA
1 CATGTATCGATACAAGTGAA
18127 CATGTATCGATACAA
1 CATGTATCGATACAA
18142 AGCATAATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAA
Found at i:18773 original size:19 final size:19
Alignment explanation
Indices: 18717--18775 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
18707 CCCCCTATAT
18717 AAAAAATTTCTCCCTC-TA
1 AAAAAATTTCTCCCTCTTA
* * *
18735 GATAAATTT-TCTCATGCTTA
1 AAAAAATTTCTC-CCT-CTTA
18755 AAAAAATTTCTCCCTCTTA
1 AAAAAATTTCTCCCTCTTA
18774 AA
1 AA
18776 CGGTTATCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
17 2 0.06
18 9 0.29
19 7 0.23
20 11 0.35
21 2 0.06
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAAATTTCTCCCTCTTA
Found at i:20841 original size:19 final size:19
Alignment explanation
Indices: 20806--20847 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
20796 CTTTAGACCC
20806 TAATTCATATCAAACAAGCA
1 TAATTCATATCAAACAA-CA
*
20826 TAATTCA-ATCATACAACA
1 TAATTCATATCAAACAACA
20844 TAAT
1 TAAT
20848 AAACATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (19 bp):
TAATTCATATCAAACAACA
Found at i:26858 original size:20 final size:20
Alignment explanation
Indices: 26833--26885 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
26823 GTTACAAGCA
*
26833 ATGTATCGATACATT-TCATC
1 ATGTATCGATACATTGT-ACC
26853 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
26873 ATGTATCGATACA
1 ATGTATCGATACA
26886 AATAGTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:26959 original size:19 final size:20
Alignment explanation
Indices: 26916--26967 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
26906 TAGTAGTTTA
**
26916 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
26936 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
26955 ATGTATCGATACA
1 ATGTATCGATACA
26968 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:28359 original size:32 final size:30
Alignment explanation
Indices: 28323--28381 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
28313 GAAATCAAAT
28323 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
28355 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
28382 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:28680 original size:13 final size:13
Alignment explanation
Indices: 28662--28719 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
28652 AATTTTTTTG
28662 TGTATCGATACAT
1 TGTATCGATACAT
28675 TGTATCGATACATACTTT
1 TGTATCGATAC--A---T
28693 GTGTATCGATACAT
1 -TGTATCGATACAT
28707 TGTATCGATACAT
1 TGTATCGATACAT
28720 ACTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:28699 original size:19 final size:19
Alignment explanation
Indices: 28675--28737 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
28665 ATCGATACAT
28675 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
28694 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
28707 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
28726 TGTATCGATACA
1 TGTATCGATACA
28738 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:28699 original size:32 final size:32
Alignment explanation
Indices: 28658--28737 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
28648 ATACAATTTT
28658 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
28690 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
28722 TTTGTGTATCGATACA
1 TTTGTGTATCGATACA
28738 AGTTTGGCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTGTGTATCGATACATTGTATCGATACATAC
Found at i:30832 original size:21 final size:20
Alignment explanation
Indices: 30803--30845 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
30793 GGCTAGTATG
30803 GGGACTGCCCGGT-TGCGACCT
1 GGGACTG-CCGGTCT-CGACCT
*
30824 GGGAGTGCCGGTCTCGACCT
1 GGGACTGCCGGTCTCGACCT
30844 GG
1 GG
30846 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.09, C:0.30, G:0.42, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCTCGACCT
Found at i:33767 original size:21 final size:21
Alignment explanation
Indices: 33738--33782 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33728 AAGTTTTTAT
*
33738 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
33758 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
33780 TTT
1 TTT
33783 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:35699 original size:32 final size:30
Alignment explanation
Indices: 35663--35721 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
35653 GAAATCAAAT
35663 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
35695 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
35722 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:35937 original size:20 final size:21
Alignment explanation
Indices: 35908--35946 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35898 TTCCCGTGTG
35908 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
*
35928 AATGTTTCGATACATATTT
1 AATGTATCGATACATATTT
35947 GAAAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:37285 original size:474 final size:473
Alignment explanation
Indices: 36391--37362 Score: 1328
Period size: 474 Copynumber: 2.1 Consensus size: 473
36381 CTAACATTAC
* *** * *
36391 TTAAGGGATGTACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTTTTGTGGAAAAGAAAAT
1 TTAAGGAATGTACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAAC
* * ** *
36456 CATCAATATCACTTATCCTAAATATAAGAATGTTTTTATAGTGCCTAATCACAAAATGAATGAAG
66 CATCAATACCACTTATCCTAAATATAAGAATATGCTTATAGTCCCTAATCACAAAATGAATGAAG
* * *
36521 ATCATTACTAGAATCTATGTTTGTCCCATTTGAGGCACGAACTTAGACTTTACAGAAATTGGTAG
131 ATCATTACTAGAATCTATGTTGGTCCCATTTGAGGCACGAACTTAGACTTTACAAAAATTAGTAG
* * ** *
36586 GGAAAAAACCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGACCATGTTT
196 GCAAAAAACCTTTCTTGCGAAACCAAAACATCAATATCACATATCCTAATGAGAAAACCATGTTT
* *
36651 ATGGTGCCTAATCCTGAAAAGAATAGGGATTAGTATGAGTATTCTTGCTTGTCTTATTTATGAGA
261 ATGGTGCCTAATCCTGAAAAGAATAGGGATTAGTATGAGTATCCATGCTTGTCTTATTTA-GAGA
*
36716 CAAACTTTGATTCTAACAAAATGATGGAAAGAAAGCTTTTCTTGCGACACCAAAGCATCAATGTC
325 CAAACTTTCATTCTAACAAAATGATGGAAAGAAAGCTTTTCTTGCGACACCAAAGCATCAATGTC
** * **
36781 TTGTATCCTAATGAAAAGAATGTGTTTTAGGTTCCCAATCTTGAAAATTAAGGAGTCTGTTACGA
390 AAGTATCCTAATGAAAAGAATGTGTTTTAGGTTCCCAATCCTGAAAAGAAAGGAGTCTGTTACGA
36846 GAATCAATACTTGTCTTAT
455 GAATCAATACTTGTCTTAT
* *
36865 TTAAGGAATGTACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAAC
1 TTAAGGAATGTACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAAC
* * * *
36930 CATCAATGCCATTTATTCT-AATGA-AGAGAATATGCTTATAGTCCCTAATCCCAAAATGAATGA
66 CATCAATACCACTTATCCTAAAT-ATA-AGAATATGCTTATAGTCCCTAATCACAAAATGAATGA
* ** *
36993 AGATCATTAGTAGAATC-AGTGTTGGTTTCATTTGAGGCATGAACTTAGACTTTACAAAAATTAG
129 AGATCATTACTAGAATCTA-TGTTGGTCCCATTTGAGGCACGAACTTAGACTTTACAAAAATTAG
** * * * *
37057 T-GGCCAAAATGCCTTTCTTGAC-AAACGAAAACATTAATATCGCATATCCTAATGAGAAAACTA
193 TAGG-CAAAAAACCTTTCTTG-CGAAACCAAAACATCAATATCACATATCCTAATGAGAAAACCA
* *
37120 TGTTTATGGTGCCTAATCCTGAAAGGAATAGGGATTAGTATGAGTATCCATGTTTGTCTTATTTA
256 TGTTTATGGTGCCTAATCCTGAAAAGAATAGGGATTAGTATGAGTATCCATGCTTGTCTTATTTA
* * *
37185 -AGAGAAACTTTCATTCTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
321 GAGACAAACTTTCATTCTAAC-AAAATGATGGAAAG-AAAGCTTTTCTTGCGACACCAAAGCATC
* *
37249 AATGTCAAGTATCCTAATG-AAGGCAATGTGTTTTAGGTTCCCAATCCTGAAAAGAAAGGAGTTT
384 AATGTCAAGTATCCTAATGAAAAG-AATGTGTTTTAGGTTCCCAATCCTGAAAAGAAAGGAGTCT
* *
37313 GTTACGAGAATCGATGCTTGTCTTAT
448 GTTACGAGAATCAATACTTGTCTTAT
* *
37339 TTAAGGAATGTGCTTTGACTTTAA
1 TTAAGGAATGTACTTTGATTTTAA
37363 TTACGAACTT
Statistics
Matches: 436, Mismatches: 54, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
472 17 0.04
473 23 0.05
474 395 0.91
475 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (473 bp):
TTAAGGAATGTACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTTCCATGCAAAAGAAAAC
CATCAATACCACTTATCCTAAATATAAGAATATGCTTATAGTCCCTAATCACAAAATGAATGAAG
ATCATTACTAGAATCTATGTTGGTCCCATTTGAGGCACGAACTTAGACTTTACAAAAATTAGTAG
GCAAAAAACCTTTCTTGCGAAACCAAAACATCAATATCACATATCCTAATGAGAAAACCATGTTT
ATGGTGCCTAATCCTGAAAAGAATAGGGATTAGTATGAGTATCCATGCTTGTCTTATTTAGAGAC
AAACTTTCATTCTAACAAAATGATGGAAAGAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCA
AGTATCCTAATGAAAAGAATGTGTTTTAGGTTCCCAATCCTGAAAAGAAAGGAGTCTGTTACGAG
AATCAATACTTGTCTTAT
Found at i:38620 original size:474 final size:471
Alignment explanation
Indices: 37365--39444 Score: 2178
Period size: 474 Copynumber: 4.4 Consensus size: 471
37355 GACTTTAATT
* * * * *
37365 ACGAACTTAAACTTTGCAAAAATTGTTGGGAAGAAAGCTTTTCTTGCGAAACCAAAGCATCAATA
1 ACGAACTTAGACTTTACAAAAATTGGTGGGAA-AAAGCCTTTCTTGCGAAACCAAAACATCAATA
* *
37430 --GTGTATCCTTATGAAAAGACTATGTTTATGGTGCCTAATCC-CAAAAAGAATGGGGATTAGTA
65 TCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTCAAAAA-AATGGGGATTAGTA
* * **
37492 TGACTATTCATGTTTGTCTTATTAAAGAGGCAAACTTTGATTCTATCAAAAACGGCAGAAAGAAA
129 TGAGTATTCATGTTTGTCTTATTTAAGA-G-AAACTTTGATTCTATCAAAAACGGTGGAAAGAAA
* * ** ** * * * *
37557 AGCTATTCTTGTGACTTCAAAGCGTCAATGTCATGTATCGTAATGAAGGGAAAGTGCTTTTGGTT
192 AGCTTTTCTTGCGACACCAAAGTATCAATGTCATGTATCCTAATGAAGCGAATGTGTTTTTGGTT
* * * * *
37622 CCCAAT-CTCGAAAAGAAT-GAGATTGTTGCGAGAATCGATGCTTGTCTT-TTTAAGGGATGAAT
257 CCTAATCCT-GAAAAGAATGGAGATTGTTACAAGAATCGATACTTGTCTTATTTAAGGGATGACT
* * * * *
37684 TTGATTTTAAGAAAAATAGGGCAAAGAAAAGATTTCTATGCAAACGAAAATTATCAATATCAATT
321 TTGATTTTAAGAAAAATAGAGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTT
* * * * ** *
37749 ATCCTAATGAGGAGTATGTGTTTGTAGTGCCTAATCAAAAAATGAAAGATGTTCAATAC-AAGAA
386 ATCCTAATGAAGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAAGA-AATCATTACTAA-AA
37813 TCCA----TGT-TTATTTAAGGC
449 TCCATGTTTGTCTTATTTAAGGC
* * *
37831 ACGAACTTAGACATTACAAAAATTGGTGGGAAGAAAGCCTTTCTTACGAAACCAAAGCATCAATA
1 ACGAACTTAGACTTTACAAAAATTGGTGGGAA-AAAGCCTTTCTTGCGAAACCAAAACATCAATA
* * * * * * *
37896 TTGTGTATCCTTATGAGAATACTATGTTTATAGTGCCTAATCCTGAAAAGAATGGGGAATAGTAT
65 TCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTAT
* * * * * * *
37961 GAATATTAATATTTATCTTATTTAGGAGACGAACTTTGACTCTATCAAAAACGGTAGAAAGAAAA
130 GAGTATTCATGTTTGTCTTATTTAAGAGA--AACTTTGATTCTATCAAAAACGGTGGAAAGAAAA
* ** * * ** *
38026 GCTTTTCTTGTGACACCAAAAAATCAATGTCATGTATGCTAATGAAGGGAGGGTATTTTTGGTTC
193 GCTTTTCTTGCGACACCAAAGTATCAATGTCATGTATCCTAATGAAGCGAATGTGTTTTTGGTTC
* * * * *
38091 CTAATCCTGAAAATAAAGGA-ATCTATTATAAGAATCGATGCTTGTCTTATTTAAGGGATGTACT
258 CTAATCCTGAAAAGAATGGAGAT-TGTTACAAGAATCGATACTTGTCTTATTTAAGGGATG-ACT
* * *
38155 TTGATTTTACGAAAAATAGAGTAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAACATCATTT
321 TTGATTTTAAGAAAAATAGAGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTT
** * * *
38220 GCCCTAATGAAGAGAATGTGCTAATAGTGCCTAATCACAGAATGACTAA-AAATCATTACTAAAA
386 ATCCTAATGAAGAGAATGTGTTTATAGTGCCTAATCACAAAATGA--AAGAAATCATTACTAAAA
* *
38284 TCAATGTTTGTCTCATTTAAGGC
449 TCCATGTTTGTCTTATTTAAGGC
* * ** * *
38307 ACAAACTTAGACTTTATAAAAATTGCAGGGAAAAATGCCTTTCTTGCAAAACTAAAACATCAATA
1 ACGAACTTAGACTTTACAAAAATTGGTGGGAAAAA-GCCTTTCTTGCGAAACCAAAACATCAATA
* * *
38372 TCGTGTAACCTAATGACAAGACTATGTTTATAGTGCCTAATCCTCAAAAAAATGGGGATTAGTAT
65 TCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTAT
* * *
38437 GAGTATCCCTGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAATGGTGGAAAGAAAAGC
130 GAGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGC
* *
38502 TTTTCTTGCGTCACCAAAGTAT-AATTGTCACGTATCCTAATGAAGCGAATGTGTTTTTGGTTCC
195 TTTTCTTGCGACACCAAAGTATCAA-TGTCATGTATCCTAATGAAGCGAATGTGTTTTTGGTTCC
* * *
38566 TAATCTTGAAAAGAATGGAGATTGTTACGAGAATCGATACTTGTCTTATTTAAGGGATAAACTTT
259 TAATCCTGAAAAGAATGGAGATTGTTACAAGAATCGATACTTGTCTTATTTAAGGGAT-GACTTT
* * * * *
38631 GGTTTTAAGGAAAATAGGGCAAAGAAAAGATTTCTATGCAAATGAAAATCATCAATATCATTTAT
323 GATTTTAAGAAAAATAGAGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTAT
* *
38696 CCTAA-GAAGGAGAATGTGTTTATAGTGCATAATCCCAAAATGAAAGAAGATCATTACTAGAAA-
388 CCTAATGAA-GAGAATGTGTTTATAGTGCCTAATCACAAAATGAAAGAA-ATCATTACTA-AAAT
* * * *
38759 GCATGTTTGTCTTAATTGAGGT
450 CCATGTTTGTCTTATTTAAGGC
* * *
38781 ACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAAACCTTTCTTG-TAAA-CAAAAGCACCAAT
1 ACGAACTTAGACTTTACAAAAATTGGTGGG-AAAAAGCCTTTCTTGCGAAACCAAAA-CATCAAT
* * * *
38844 ATCGTGTATCCTAAAGGGAAGA-TGATGTTTATGGTGCCTAAT-C-AAAACAAGAATGGGGATTT
64 ATCGTGTATCCTAATGAGAAGACT-ATGTTTATGGTGCCTAATCCTCAAA-AA-AATGGGGATTA
* * * * * * *
38906 GTATAAGTATTCTTGTTTGTCTTATTTAAGAGACAAACTTTGTTTCCATAAAAAATGGTGAAAAG
126 GTATGAGTATTCATGTTTGTCTTATTTAAGAG--AAACTTTGATTCTATCAAAAACGGTGGAAAG
* ** * * * **
38971 AAAAACTTTTCTTGCGACACCAAAGCGTTAATGTCAAGTATCCTAATGAAACGAATGTGTTTTAC
189 AAAAGCTTTTCTTGCGACACCAAAGTATCAATGTCATGTATCCTAATGAAGCGAATGTGTTTTTG
* * * * * **
39036 GTTCC-AATCCTGAAAATAATGGAGGTTGTTATAAGAATC-A-ACGTTTATCATATTTAATAGAT
254 GTTCCTAATCCTGAAAAGAATGGAGATTGTTACAAGAATCGATAC--TTGTCTTATTTAAGGGAT
* * * * * * * *
39098 GATCTATGATTATAAGGAAAATAGAGTAAAGAAAAGATTTTCGTGCCAAAGAAAGTCATCAATAT
317 GA-CTTTGATTTTAAGAAAAATAGAGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATAT
* * * * * * * *
39163 CATTTGTCCTAAAGAGGAGAATGTATTTATATTGCCTAATCACAGAATGAATGAAGATCACTACT
381 CATTTATCCTAATGAAGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAAGAA-ATCATTACT
* * * * *
39228 AGAATCCACGTTTATCTTATTTGAGAC
445 AAAATCCATGTTTGTCTTATTTAAGGC
* * * * * * *
39255 ACGAGCCTAGACTTTATAAAAATTGGTGGGAAAAATGCCTTTCTTACTAAACCAAAATATTAATA
1 ACGAACTTAGACTTTACAAAAATTGGTGGGAAAAA-GCCTTTCTTGCGAAACCAAAACATCAATA
* * *
39320 TTGTGTATCCTAATGAGAAGACTACGTTTATGGTGCCTAATCCTC-AAAAAATGTGGATTAGTAT
65 TCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTAT
* *
39384 AAGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATAAAAAACGGTGGAAAGAA
130 GAGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGGTGGAAAGAA
39445 GAGAATGGAG
Statistics
Matches: 1354, Mismatches: 215, Indels: 84
0.82 0.13 0.05
Matches are distributed among these distances:
466 60 0.04
467 1 0.00
468 171 0.13
469 29 0.02
470 11 0.01
471 109 0.08
472 44 0.03
473 101 0.07
474 526 0.39
475 150 0.11
476 152 0.11
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (471 bp):
ACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAGCCTTTCTTGCGAAACCAAAACATCAATAT
CGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTATG
AGTATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCT
TTTCTTGCGACACCAAAGTATCAATGTCATGTATCCTAATGAAGCGAATGTGTTTTTGGTTCCTA
ATCCTGAAAAGAATGGAGATTGTTACAAGAATCGATACTTGTCTTATTTAAGGGATGACTTTGAT
TTTAAGAAAAATAGAGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCT
AATGAAGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAAGAAATCATTACTAAAATCCATGT
TTGTCTTATTTAAGGC
Found at i:39209 original size:948 final size:940
Alignment explanation
Indices: 37368--39444 Score: 2526
Period size: 948 Copynumber: 2.2 Consensus size: 940
37358 TTTAATTACG
* ** * * * *
37368 AACTTAAACTTTGCAAAAATTGTTGGGAAGAAA-GCTTTTCTTGCGAAACCAAAGCATCAATA-G
1 AACTTAGACTTTATAAAAATTGCTGGGAA-AAATGCCTTTCTTGCAAAACCAAAACATCAATATG
*
37431 TGTATCCTTATGAAAAGACTATGTTTATGGTGCCTAATCC-CAAAAAGAATGGGGATTAGTATGA
65 TGTATCCTAATGAAAAGACTATGTTTATGGTGCCTAATCCTCAAAAA-AATGGGGATTAGTATGA
* * **
37495 CTATTCATGTTTGTCTTATTAAAGAGGCAAACTTTGATTCTATCAAAAACGGCAGAAAGAAAAGC
129 GTATTCATGTTTGTCTTATTTAAGA-G-AAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGC
* ** * * * *
37560 TATTCTTGTGACTTCAAAGCGTCAATGTCATGTATCGTAATGAAGGGAAAGTGCTTTTGGTTCCC
192 TATTCTTGCGACACCAAAGCATCAATGTCACGTATCCTAATGAAGCGAAAGTGCTTTTGGTTCCC
* * *
37625 AATCTCGAAAAGAATGAGATTGTTGCGAGAATCGATGCTTGTCTTTTTAAGGGATGAATTTGATT
257 AATCTCGAAAAGAATGAGATTGTTACGAGAATCGATACTTGTCTTTTTAAGGGATAAATTTGATT
*
37690 TTAAGAAAAATAGGGCAAAGAAAAGATTTCTATGCAAACGAAAATTATCAATATCAATTATCCTA
322 TTAAGAAAAATAGGGCAAAGAAAAGATTTCTATGCAAACGAAAATCATCAATATCAATTATCCTA
* * * * * *
37755 ATGAGGAGTATGTGTTTGTAGTGCCTAATCAAAAAATGAAAGATGTTCAATACAAGAATCCATGT
387 ATGAGGAGAATGTGTTTATAGTGCATAATCAAAAAATGAAAGAAGATCAATACAAGAAACCATGT
* * *
37820 TTATTTAAGGCACGAACTTAGACATTACAAAAATTGGTGGGAAGAAAGCCTTTCTTACGAAACCA
452 TTATTTAAGGCACGAACTTAGACATTACAAAAATTGGTGGGAAAAAAACCTTTCTTA-GAAACAA
* * * * * **
37885 AAGCATCAATATTGTGTATCCTTATGAGAATACTATGTTTATAGTGCCTAATCCTGAAAAGAATG
516 AAGCACCAATATCGTGTATCCTAAAGAGAAGACTATGTTTATAGTGCCTAATCCAAAAAAGAATG
* * * *
37950 GGGAATAGTATGAATATTAATATTTATCTTATTTAGGAGACGAACTTTGACTCTATCAAAAACGG
581 GGGAATAGTATGAATATTAATATTTATCTTATTTAAGAGACAAACTTTGACTCCATAAAAAACGG
* * * * ** *
38015 TAGAAAGAAAAGCTTTTCTTGTGACACCAAAAAATCAATGTCATGTATGCTAATGAAGGGAGGGT
646 TAGAAAGAAAAACTTTTCTTGCGACACCAAAAAATCAATGTCAAGTATCCTAATGAAACGAAGGT
** * * * *
38080 ATTTTTGGTTCCTAATCCTGAAAATAAAGGAATCTATTATAAGAATCGATGCTTGTCTTATTTAA
711 ATTTTACGTTCCTAATCCTGAAAATAAAGGAATCTATTATAAGAATCAACGCTTATCATATTTAA
* * * *
38145 GGGATGTACTTTGATTTTACGAAAAATAGAGTAAAGAAAAGATTTCCATGCAAAAGAAAATCATC
776 GAGATGTACTATGATTATAAGAAAAATAGAGTAAAGAAAAGATTTCCATGCAAAAGAAAATCATC
* * *
38210 AACATCATTTGCCCTAATGAAGAGAATGTGCTAATAGTGCCTAATCACAGAATGACTAAAAATCA
841 AACATCATTTGCCCTAAAGAAGAGAATGTACTAATAGTGCCTAATCACAGAATGAATAAAAATCA
* * * *
38275 TTACTAAAATCAATGTTTGTCTCATTTAAGGCACA
906 CTACTAAAATCAACGTTTATCTCATTTAAGACACA
* *
38310 AACTTAGACTTTATAAAAATTGCAGGGAAAAATGCCTTTCTTGCAAAACTAAAACATCAATATCG
1 AACTTAGACTTTATAAAAATTGCTGGGAAAAATGCCTTTCTTGCAAAACCAAAACATCAATAT-G
* * *
38375 TGTAACCTAATGACAAGACTATGTTTATAGTGCCTAATCCTCAAAAAAATGGGGATTAGTATGAG
65 TGTATCCTAATGAAAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTATGAG
* * * *
38440 TATCCCTGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAATGGTGGAAAGAAAAGCTTT
130 TATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTAT
* * * * *
38505 TCTTGCGTCACCAAAGTAT-AATTGTCACGTATCCTAATGAAGCGAATGTGTTTTTGGTTCCTAA
195 TCTTGCGACACCAAAGCATCAA-TGTCACGTATCCTAATGAAGCGAAAGTGCTTTTGGTTCCCAA
* *
38569 TCTTGAAAAGAATGGAGATTGTTACGAGAATCGATACTTGTCTTATTTAAGGGATAAACTTTGGT
259 TCTCGAAAAGAAT-GAGATTGTTACGAGAATCGATACTTGTCTT-TTTAAGGGATAAA-TTTGAT
* * *
38634 TTTAAGGAAAATAGGGCAAAGAAAAGATTTCTATGCAAATGAAAATCATCAATATCATTTATCCT
321 TTTAAGAAAAATAGGGCAAAGAAAAGATTTCTATGCAAACGAAAATCATCAATATCAATTATCCT
** * * *
38699 AA-GAAGGAGAATGTGTTTATAGTGCATAATCCCAAAATGAAAGAAGATCATTACTAGAAAGCAT
386 AATG-AGGAGAATGTGTTTATAGTGCATAATCAAAAAATGAAAGAAGATCAATACAAGAAACCAT
* * *
38763 GTTTGTCTTAATTGAGGTACGAACTTAGACTTTACAAAAATTGGTGGGAAAAAAACCTTTCTT-G
450 GTTTAT-TT-A---AGGCACGAACTTAGACATTACAAAAATTGGTGGGAAAAAAACCTTTCTTAG
* *
38827 TAAACAAAAGCACCAATATCGTGTATCCTAAAGGGAAGA-TGATGTTTATGGTGCCTAAT-CAAA
510 -AAACAAAAGCACCAATATCGTGTATCCTAAAGAGAAGACT-ATGTTTATAGTGCCTAATCCAAA
* * ** * * **
38890 ACAAGAATGGGGATTTGTAT-AAGTATTCTTGTTTGTCTTATTTAAGAGACAAACTTTGTTTCCA
573 A-AAGAATGGGGAATAGTATGAA-TATTAATATTTATCTTATTTAAGAGACAAACTTTGACTCCA
* *** *
38954 TAAAAAATGGT-GAAAAGAAAAACTTTTCTTGCGACACCAAAGCGTTAATGTCAAGTATCCTAAT
636 TAAAAAACGGTAG-AAAGAAAAACTTTTCTTGCGACACCAAAAAATCAATGTCAAGTATCCTAAT
* * * * * *
39018 GAAACGAATGTGTTTTACGTTCC-AATCCTGAAAATAATGGAGGT-TGTTATAAGAATCAACGTT
700 GAAACGAAGGTATTTTACGTTCCTAATCCTGAAAATAAAGGA-ATCTATTATAAGAATCAACGCT
* * * * *
39081 TATCATATTTAATAGATG-ATCTATGATTATAAGGAAAATAGAGTAAAGAAAAGATTTTCGTGCC
764 TATCATATTTAAGAGATGTA-CTATGATTATAAGAAAAATAGAGTAAAGAAAAGATTTCCATGCA
* * * * * * *
39145 AAAGAAAGTCATCAATATCATTTGTCCTAAAGAGGAGAATGTATTTATATTGCCTAATCACAGAA
828 AAAGAAAATCATCAACATCATTTGCCCTAAAGAAGAGAATGTACTAATAGTGCCTAATCACAGAA
* * * * * * *
39210 TGAATGAAGATCACTACTAGAATCCACGTTTATCTTATTTGAGACACG
893 TGAATAAAAATCACTACTAAAATCAACGTTTATCTCATTTAAGACACA
* * * * * * *
39258 AGCCTAGACTTTATAAAAATTGGTGGGAAAAATGCCTTTCTTACTAAACCAAAATATTAATATTG
1 AACTTAGACTTTATAAAAATTGCTGGGAAAAATGCCTTTCTTGCAAAACCAAAACATCAATA-TG
* * * *
39323 TGTATCCTAATGAGAAGACTACGTTTATGGTGCCTAATCCTC-AAAAAATGTGGATTAGTATAAG
65 TGTATCCTAATGAAAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTATGAG
*
39387 TATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATAAAAAACGGTGGAAAGAA
130 TATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGGTGGAAAGAA
39445 GAGAATGGAG
Statistics
Matches: 960, Mismatches: 153, Indels: 39
0.83 0.13 0.03
Matches are distributed among these distances:
941 5 0.01
942 146 0.15
943 29 0.03
944 88 0.09
945 128 0.13
946 2 0.00
947 76 0.08
948 275 0.29
949 166 0.17
950 45 0.05
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (940 bp):
AACTTAGACTTTATAAAAATTGCTGGGAAAAATGCCTTTCTTGCAAAACCAAAACATCAATATGT
GTATCCTAATGAAAAGACTATGTTTATGGTGCCTAATCCTCAAAAAAATGGGGATTAGTATGAGT
ATTCATGTTTGTCTTATTTAAGAGAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTATT
CTTGCGACACCAAAGCATCAATGTCACGTATCCTAATGAAGCGAAAGTGCTTTTGGTTCCCAATC
TCGAAAAGAATGAGATTGTTACGAGAATCGATACTTGTCTTTTTAAGGGATAAATTTGATTTTAA
GAAAAATAGGGCAAAGAAAAGATTTCTATGCAAACGAAAATCATCAATATCAATTATCCTAATGA
GGAGAATGTGTTTATAGTGCATAATCAAAAAATGAAAGAAGATCAATACAAGAAACCATGTTTAT
TTAAGGCACGAACTTAGACATTACAAAAATTGGTGGGAAAAAAACCTTTCTTAGAAACAAAAGCA
CCAATATCGTGTATCCTAAAGAGAAGACTATGTTTATAGTGCCTAATCCAAAAAAGAATGGGGAA
TAGTATGAATATTAATATTTATCTTATTTAAGAGACAAACTTTGACTCCATAAAAAACGGTAGAA
AGAAAAACTTTTCTTGCGACACCAAAAAATCAATGTCAAGTATCCTAATGAAACGAAGGTATTTT
ACGTTCCTAATCCTGAAAATAAAGGAATCTATTATAAGAATCAACGCTTATCATATTTAAGAGAT
GTACTATGATTATAAGAAAAATAGAGTAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAACAT
CATTTGCCCTAAAGAAGAGAATGTACTAATAGTGCCTAATCACAGAATGAATAAAAATCACTACT
AAAATCAACGTTTATCTCATTTAAGACACA
Found at i:41904 original size:951 final size:947
Alignment explanation
Indices: 39446--42686 Score: 3939
Period size: 951 Copynumber: 3.4 Consensus size: 947
39436 TGGAAAGAAG
*
39446 AGAATGGAGATTGTTACGAGAATCAATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
1 AGAATGGAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
* * * *
39511 AAATAGGGCAAAGAAAAGATTTCCAAGCAAAAGAAAATCATCAAAATCATTTAGCCGAATGAGGA
66 AAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
* * ** *
39576 GAATGTGTTTATAGTTCCTAATTGCAAAATGAAAGAAGATCGA-TACTAGAATCCATGTTTGGCT
131 GAATGTGCTTATAGTGCCTAATCACAAAATGAAAGAAGATC-ATTACTAGAATCCATGTTTGTCT
* * * *
39640 CATTTGAGGCACGAATTTAGACTTTACAAAAATTGGTGGGAAGAAA-GCCTTTCTTACAAAATCA
195 CATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAA-AAATGCCTTTCTTGCAAAACCA
** ** * *
39704 AAGCATCAATATTGTGTATCCTTATGAGAAGAA-TACATTTATCCTGCCTAATCCCGAAAAAAAT
259 AAGCATCAATATTGTGTATCCTTATGAGAA-AACTATGTTTATGGTGCCTAATCTCGAAAAGAAT
** * * * * * * * **
39768 GGATATCAGTATGACTATTCATGTTTTTCTTATGTAAGAGGCAAACTTTGATTCTATTAAAAACG
323 GGGGATTAGTATAACTATTCATGTTTGTCTTATTTCAGAGACAAACTTTGATTCTATCAAAAATA
* * * ** * * *
39833 GAGTAAAAAAAAACTTTTCTTG-TTCACCAAAGCATCAATGTCAAGTATCCTAATGAAAGGAATG
388 GAGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATTTCATGTATCCTAATGAAGGGAATG
* * * * *
39897 TGTTGTATGTTCACAATCCTAAAAATAATGGAGACTGTTACAAGAATCGATGCTTATCTTATTTA
453 TGTTTTAGGTTCACAATTCTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTTATTT-
* * * * * *
39962 AAAGG-TGATCTATAATTTTAAGGAAAAAAGGGCAAAA-AAAAGATTTTCGTGCAAAAGAAAATC
517 AAGGGATGA-CTTTGATTTTAAGGAAAATAGGG-AAAAGAAAAGATTTCCATGCAAAAGAAAATC
*
40025 ATCAATATCATTTATCCT--T-AAAAGGAGAATGTATTTATAGTGCCTAATCACAAAATGAATGA
580 ATCAATAACATTTATCCTAATGAAAA-GA-AA-GTATTTATAGTGCCTAATCACAAAATGAATGA
40087 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGTACGAACCTAGACTTTACAAAAATTG-G
642 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGTACGAACCTAGACTTTACAAAAATTGAG
* ** * * **
40151 TGGGAAAAATGCCTTTCTTGCAAAACAAAAATATTAATATCGTGTATCCTAATGAGAAGACTACA
707 -GGGAAAAA-ACCTTTCTTGCAAAACAAAAGCATCAATATCGTGTATCCTAATGAGAAGACCATG
* * * * ** *
40216 TTTATGGTGCCTAATCTTCAAAAGAAAAGGGATTAGTATGAGTATTCATGTTTGTCTTACATAAT
770 TTTATGGTGCCTAATCCTGAAAAGAATAGGGATTAGTATGAGTATTCTTGTTTGTCTTATTTAAG
*
40281 AGAAACTTTGATTTTATA-AAAAATCGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAA
835 AGAAACTTTGATTCTA-ACAAAAAT-GTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAA
* * *
40345 TATCATGTATCCTAAGGAAGGAAATGTGTTTTTGGTTCCCAATCTTGAAA
898 TGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAA
**
40395 AGAATGGAGATTGTTGTGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
1 AGAATGGAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
*
40460 AAAT-----------AAG--------GC-AAAGAAAATCATCAATATCATTTCTCCTAATGA-G-
66 AAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
* * *
40503 GAATCTGCTTATAGTGCCTAATCGCAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTC
131 GAATGTGCTTATAGTGCCTAATCACAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCTC
* * * *
40568 ATTTGAGGCAAGAACTTAGAATTTACAAAAATTGGTGGGAAGAATGCCTTTCTTGCAAAACCAAA
196 ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAAAAATGCCTTTCTTGCAAAACCAAA
* *
40633 TCATCAATATTGTGTATCCTTATGAGAAGACTACT-TTTATGGTGCCTAATCTCGAAAA-AACTG
261 GCATCAATATTGTGTATCCTTATGAGAAAACTA-TGTTTATGGTGCCTAATCTCGAAAAGAA-TG
* * * * *
40696 GGGATTAGTATAACTATTCATGTTTATCTTATTTGAGAGGCAAACTTTAATTCTATTAAAAATAG
324 GGGATTAGTATAACTATTCATGTTTGTCTTATTTCAGAGACAAACTTTGATTCTATCAAAAATAG
* * * *
40761 AGGGAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTT-GTGTATCCTAAAGAAGGAAATG
389 AGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAAT-TTCATGTATCCTAATGAAGGGAATG
* * * * * *
40825 TGTTTTTGGTTCTCAATAT-TGAAAAGAATGGAGACTGTTACGAGAATCGAAGCTTGTCTTTTTT
453 TGTTTTAGGTTCACAAT-TCTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTTATTT
* *
40889 AAGGGATGAATTTTGATTTTAAGGAACATAGGGAAAAGAAAAGATTTCCATGCAAAAGAAAATCA
517 AAGGGATG-ACTTTGATTTTAAGGAAAATAGGGAAAAGAAAAGATTTCCATGCAAAAGAAAATCA
* * *
40954 TCAATAACACTTATCCTAATGAAAAGAAAGCATTTATAGTGCCTAATCACAAAATGAATGAAAAT
581 TCAATAACATTTATCCTAATGAAAAGAAAGTATTTATAGTGCCTAATCACAAAATGAATGAAGAT
* * * *
41019 CATTACTAGAATCTATGTTTGTCTCATTTGAGGTATGAACTTAGACTCTACAAAAAAAATTGAGG
646 CATTACTAGAATCCATGTTTGTCTCATTTGAGGTACGAACCTAGACTTTAC---AAAAATTGAGG
*
41084 GGAAAAAACCTTTCTTG-AGAAACTAAAGCATCAATATCGTGTATCCTAATGAGAAGACCATGTT
708 GGAAAAAACCTTTCTTGCA-AAACAAAAGCATCAATATCGTGTATCCTAATGAGAAGACCATGTT
* * * *
41148 TGTGGTGCCTAATCCAGAAAAGAATAGGAATTAGTCTGAGTATTCTTGTTTGTCTTATTTAAGAG
772 TATGGTGCCTAATCCTGAAAAGAATAGGGATTAGTATGAGTATTCTTGTTTGTCTTATTTAAGAG
* ** *
41213 AAACTTTGATTCTAACAAAAACTATGGAAAAAAAAAGCTTTTCACGCGACACCAAAGCCTCAATG
837 AAACTTTGATTCTAACAAAAA-TGTGG-AAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATG
* **
41278 TCATGTATCCTAATGAAGGGAATATGTTTTTAGGTTCCCAATC-CCAAA
900 TCATGTATCCTAATGAAGGGAATGTGTTTTT-GGTTCCCAATCTTGAAA
* *** * * * *
41326 ATAAAACAG-TCTGTTATGAGAGTCGATGCTTGTCTTATTTAAGGGCTGTACTTTGATTTTAAGG
1 AGAATGGAGAT-TGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGG
* * *
41390 AAAATAGGGCAAAGAAAATATTTCCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGCGG
65 AAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGG
* * *
41455 AGAATGTGCGTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAACCCATGTTTGTCT
130 AGAATGTGCTTATAGTGCCTAATCACAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCT
* * *
41520 CATTTGAGGCACGAACCTAGACTATACAAAAATTGGTGAGAAAAATGCCTTTCTTGCGAAACCAA
195 CATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAAAAATGCCTTTCTTGCAAAACCAA
*
41585 AACATCAATATTGTGTAT-CTTAATGAGAAAACTATGTTTATGGTGCCTAATCCTC-AAAAGAAT
260 AGCATCAATATTGTGTATCCTT-ATGAGAAAACTATGTTTATGGTGCCTAAT-CTCGAAAAGAAT
* * * *
41648 GGGGATTAGTATAAGTATTCATGTTTGTCTTGTTT-A-AGACAAACTTTGATTTTATCAAAAATG
323 GGGGATTAGTATAACTATTCATGTTTGTCTTATTTCAGAGACAAACTTTGATTCTATCAAAAATA
* * *
41711 GTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCGTCAATTTCATGTATCCTAATGAAGGGAATA
388 GAGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATTTCATGTATCCTAATGAAGGGAATG
* * ** * * *
41776 TGTTTTAGGTTCCCAATTCTAAAAATAAAGGAGTTTATTACGAGAATTGATGCTTGTCTTATATA
453 TGTTTTAGGTTCACAATTCTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTTATTTA
* *
41841 AGGGATGTACTTTGATTTTAAGGAAAATAGGGAAAAGGAAAGATTTCCATGCAAAAAAAAATCAT
518 AGGGATG-ACTTTGATTTTAAGGAAAATAGGGAAAAGAAAAGATTTCCATGCAAAAGAAAATCAT
** * **
41906 CAA-AATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAGAT
582 CAATAA-CATTTATCCTAATGAAAAGAAAGTATTTATAGTGCCTAATCACAAAATGAATGAAGAT
* * * *
41970 CATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAATATTGATGGGA
646 CATTACTAGAATCCATGTTTGTCTCATTTGAGGTACGAACCTAGACTTTACAAAAATTGAGGGGA
* **
42035 AAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCACGTATCCTAATGAGAAGACCATGTTTAT
711 AAAAA-CCTTTCTTGCAAAACAAAAGCATCAATATCGTGTATCCTAATGAGAAGACCATGTTTAT
* * *
42100 GGTGCCTAATCCTGAAAAAGAATAGGGATTAGTATGAGTGTACTTGTTTGTCTTATTTGAGAGGC
775 GGTGCCTAATCCTG-AAAAGAATAGGGATTAGTATGAGTATTCTTGTTTGTCTTATTTAAGA-G-
* * *
42165 AAACTTTGATTCTAACAAAAATGGGGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGT
837 AAACTTTGATTCTAACAAAAAT-GTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGT
* ** *
42230 CATGTATCTTAATGAAGGGAATGTGTTTTTGGTTCTTAATCTTGGAA
901 CATGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAA
* * * * * *
42277 AGAATGGAGATTGTTGCAAGAATTGGTGCTTGCCTTGTTTAAGGGATGAACTTTGATTTTAAGGA
1 AGAATGGAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
* **
42342 AAATAGGGCAAAGAAAAGATTTTCATAG-AAAAGAAAATCATCAGCATCATTTATCCTAATGAGG
66 AAATAGGGCAAAGAAAAGATTTCCAT-GCAAAAGAAAATCATCAATATCATTTATCCTAATGAGG
* * *
42406 AGAATGTGTTTATAGTGCCTAATCACAAAATGAAAGAAGATCCTTACTAGAATGCATGTTTGTCT
130 AGAATGTGCTTATAGTGCCTAATCACAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCT
* * * **
42471 CATTTGAGGCACGAATTTTGACTTTACAAAAATTGGCGAGAAAAAAACCTTTCTTGCAAAAACCA
195 CATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAAAAATGCCTTTCTTGC-AAAACCA
* * * * * ** * * * *
42536 AAGCACCAATATCGCGTATCCTAATGGGAACCCTATGTTTAGGGTGCCTAATTTGGAAAAGAAAG
259 AAGCATCAATATTGTGTATCCTTATGAGAAAACTATGTTTATGGTGCCTAATCTCGAAAAGAATG
* *** *
42601 GGGATTGGTATGGGTATTCATGTTTGTGTTATTTCAGAGACAAACTTTGATTCTATCAAAAATA-
324 GGGATTAGTATAACTATTCATGTTTGTCTTATTTCAGAGACAAACTTTGATTCTATCAAAAATAG
* *
42665 ATGAAAAGAAATGCTTTTCTTG
389 A-GGAAAGAAAAGCTTTTCTTG
42687 TGACCACAAA
Statistics
Matches: 1969, Mismatches: 255, Indels: 131
0.84 0.11 0.06
Matches are distributed among these distances:
926 6 0.00
927 244 0.12
928 226 0.11
929 35 0.02
930 128 0.07
931 144 0.07
932 12 0.01
938 3 0.00
942 2 0.00
948 17 0.01
949 132 0.07
950 59 0.03
951 598 0.30
952 114 0.06
953 201 0.10
954 48 0.02
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (947 bp):
AGAATGGAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
AAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
GAATGTGCTTATAGTGCCTAATCACAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCTC
ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAAAAATGCCTTTCTTGCAAAACCAAA
GCATCAATATTGTGTATCCTTATGAGAAAACTATGTTTATGGTGCCTAATCTCGAAAAGAATGGG
GATTAGTATAACTATTCATGTTTGTCTTATTTCAGAGACAAACTTTGATTCTATCAAAAATAGAG
GAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATTTCATGTATCCTAATGAAGGGAATGTGT
TTTAGGTTCACAATTCTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTTATTTAAGG
GATGACTTTGATTTTAAGGAAAATAGGGAAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAAT
AACATTTATCCTAATGAAAAGAAAGTATTTATAGTGCCTAATCACAAAATGAATGAAGATCATTA
CTAGAATCCATGTTTGTCTCATTTGAGGTACGAACCTAGACTTTACAAAAATTGAGGGGAAAAAA
CCTTTCTTGCAAAACAAAAGCATCAATATCGTGTATCCTAATGAGAAGACCATGTTTATGGTGCC
TAATCCTGAAAAGAATAGGGATTAGTATGAGTATTCTTGTTTGTCTTATTTAAGAGAAACTTTGA
TTCTAACAAAAATGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCT
AATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAA
Found at i:41981 original size:159 final size:160
Alignment explanation
Indices: 40876--42496 Score: 562
Period size: 159 Copynumber: 10.2 Consensus size: 160
40866 GAGAATCGAA
* * * *
40876 GCTTGTCTTTTTTAAGGGATGAATTTTGATTTTAAGGAACATAGG-GAAAAGAAAAGATTTCCAT
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCAT
* * **
40940 GCAAAAGAAAATCATCAATAACACT-TATCCTAATGAAAAGAA-A-GCATTTATAGTGCCTAATC
66 GCAAAACAAAATCATCAATATCA-TGTATCCTAATGAGGAGAATATGC--TTATAGTGCCTAATC
*
41002 ACAAAATGAATGAAAATCATTACTAGAA-TCTAT
128 ACAAAATGAATGAAGATCATTACTAGAATTC-AT
* * * * * * ** ** * **
41035 GTTTGTCTCATTTGAGGTATGAACTTAGACTCTACAAAAAAAATTGAGG-G-GAA-AAAACCTTT
1 GCTTGTCTTATTTAAGGGACGAACTTTGA-T-TTTAAGGAAAA-T-AGGTGAAAAGAAAAGATTT
* * * * * ** * * *
41097 -CTTG-AGAAACTAAAGCATCAATATCGTGTATCCTAATGAGAAGACCATGTTTGTGGTGCCTAA
62 CCATGCA-AAACAAAATCATCAATATCATGTATCCTAATGAGGAGAATATGCTTATAGTGCCTAA
* * * *
41160 TC-CAGAAAAGAAT-AGGA--ATTAGTCTGAGTATTCTT
126 TCACA-AAATGAATGAAGATCATTA--CT-AGAATTCAT
* * * ** * * * *
41195 GTTTGTCTTATTTAAGAGA--AACTTTGATTCTAACAAAAACTATG-GAAAAAAAAAGCTTTTCA
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAA-TAGGTGAAAAGAAAAGATTTCCA
* * * * * * * * * * *
41257 CGCGACACCAAAGCCTCAATGTCATGTATCCTAATGAAGG-GAATATGTTTTTAGGTTCCCAATC
65 TGCAAAACAAAATCATCAATATCATGTATCCTAATG-AGGAGAATATGCTTATA-GTGCCTAATC
* * * *
41321 CCAAAAT-AA--AACAGTCTGTTA-T-GAGAGTCGAT
128 ACAAAATGAATGAAGA-TC-ATTACTAGA-ATTC-AT
* * *
41353 GCTTGTCTTATTTAAGGG-CTGTACTTTGATTTTAAGGAAAATAGG-GCAAAGAAAATATTTCCA
1 GCTTGTCTTATTTAAGGGAC-GAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCA
* * * * * *
41416 TGCAAAAGAAAATCATCAGTATCATTTATCCTAATGCGGAGAATGTGCGTATAGTGCCTAATCAC
65 TGCAAAACAAAATCATCAATATCATGTATCCTAATGAGGAGAATATGCTTATAGTGCCTAATCAC
**
41481 AAAATGAATGAAGATCATTACTAGAACCCAT
130 AAAATGAATGAAGATCATTACTAGAATTCAT
* * * * * * * * * * * *
41512 GTTTGTCTCATTTGAGGCACGAACCTAGACTATACA--AAAATTGGTGAGAA-AAATGCCTTT-C
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTA-AGGAAAATAGGTGAAAAGAAAAG-ATTTCC
* * ** * * * *
41573 TTGCGAAACCAAAA-CATCAATATTGTGTATCTTAATGA-GAAAACTATGTTTATGGTGCCTAAT
64 ATGC-AAAACAAAATCATCAATATCATGTATCCTAATGAGGAGAA-TATGCTTATAGTGCCTAAT
* ** * * *
41636 CCTCAAAA-GAATGGGGATTAGTA-TAAGTATTCAT
127 -CACAAAATGAATGAAGATCATTACT-AGAATTCAT
* * * *** * * * *
41670 GTTTGTCTTGTTTAA--GACAAACTTTGATTTTATCAAAAAT-GGTGGAAAGAAAAGCTTTTCTT
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCAT
* * * * * * * *
41732 GCAACACCAAAGCGTCAATTTCATGTATCCTAATGAAGG-GAATATG-TTTTAGGTTCCCAATTC
66 GCAAAACAAAATCATCAATATCATGTATCCTAATG-AGGAGAATATGCTTATA-GTGCCTAA-TC
* * * * * *
41795 TA-AAAAT-AAAGGAGTTTATTACGAGAATTGAT
128 -ACAAAATGAATGAAGATCATTACTAGAATTCAT
* * * *
41827 GCTTGTCTTATATAAGGGATGTACTTTGATTTTAAGGAAAATAGG-GAAAAGGAAAGATTTCCAT
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCAT
* * * *
41891 GCAAAAAAAAATCATCAAAATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACA
66 GCAAAACAAAATCATCAATATCATGTATCCTAATGAGGAGAATATGCTTATAGTGCCTAATCACA
*
41956 AAATGAATGAAGATCATTACTAGAATCCAT
131 AAATGAATGAAGATCATTACTAGAATTCAT
* * * * * * * * * * * ** *
41986 GTTTGTCTCATTTGAGGCACAAACCTAGACTTTACA--AATATTGATGGGAA-AAAAGCCTTT-C
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTA-AGGAAAATAGGTGAAAAGAAAAG-ATTTCC
* * * * * ** * *
42047 TTGCAAAACCAAAGCATCAATATCACGTATCCTAATGAGAAGACCATGTTTATGGTGCCTAATC-
64 ATGCAAAACAAAATCATCAATATCATGTATCCTAATGAGGAGAATATGCTTATAGTGCCTAATCA
* ** * * *
42111 CTGAAAAAGAAT--AG-GGATTAGTATGAGTGTACTT
129 C--AAAATGAATGAAGATCATTACTA-GAAT-T-CAT
* * * * ** * * * * *
42145 GTTTGTCTTATTTGAGAGG-CAAACTTTGATTCTAACAAAAAT-GGGGGAAAGAAAAGCTTTTCT
1 GCTTGTCTTATTTAAG-GGACGAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCA
** * * * * * * * * * * *
42208 TGTGACACCAAAGCATCAATGTCATGTATCTTAATGAAGG-GAATGTGTTTTTGGTTCTTAATCT
65 TGCAAAACAAAATCATCAATATCATGTATCCTAATG-AGGAGAATATGCTTATAGTGCCTAATC-
*** * ** * * **
42272 TGGAAA-GAATGGAGATTGTTGCAAGAATTGGT
128 ACAAAATGAATGAAGATCATTACTAGAATTCAT
* * * * *
42304 GCTTGCCTTGTTTAAGGGATGAACTTTGATTTTAAGGAAAATAGG-GCAAAGAAAAGATTTTCAT
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCAT
* ** * * *
42368 AG-AAAAGAAAATCATCAGCATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCAC
66 -GCAAAACAAAATCATCAATATCATGTATCCTAATGAGGAGAATATGCTTATAGTGCCTAATCAC
* * *
42432 AAAATGAAAGAAGATCCTTACTAGAATGCAT
130 AAAATGAATGAAGATCATTACTAGAATTCAT
* * * * * *
42463 GTTTGTCTCATTTGAGGCACGAATTTTGACTTTA
1 GCTTGTCTTATTTAAGGGACGAACTTTGATTTTA
42497 CAAAAATTGG
Statistics
Matches: 1054, Mismatches: 322, Indels: 172
0.68 0.21 0.11
Matches are distributed among these distances:
155 3 0.00
156 48 0.05
157 106 0.10
158 241 0.23
159 443 0.42
160 171 0.16
161 31 0.03
162 7 0.01
163 4 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (160 bp):
GCTTGTCTTATTTAAGGGACGAACTTTGATTTTAAGGAAAATAGGTGAAAAGAAAAGATTTCCAT
GCAAAACAAAATCATCAATATCATGTATCCTAATGAGGAGAATATGCTTATAGTGCCTAATCACA
AAATGAATGAAGATCATTACTAGAATTCAT
Found at i:42082 original size:158 final size:156
Alignment explanation
Indices: 40478--42561 Score: 468
Period size: 159 Copynumber: 13.1 Consensus size: 156
40468 CAAAGAAAAT
* * * *
40478 CATCAATATCATTTCTCCTAATGA-G-GAATCTGCTTATAGTGCCTAATCGCAAAATGAATGAAG
1 CATCAATATCATGTATCCTAATGAGGAGAATGTG-TTATAGTGCCTAATCACAAAATGAATGAAG
* * *
40541 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCA-AGAACTTAGAATTTACAAAAATTGGTG
65 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACA-AACCTAGACTTTACAAAAA-TGATG
* * *
40605 GGAAGAATGCCTTTCTTGCAAAACCAAAT
128 GGAAAAAAGCCTTTCTTGCAAAACCAAAG
** * * * * * * * *
40634 CATCAATATTGTGTATCCTTATGAGAAGACTACTTTTATGGTGCCTAATCTCGAAAA--AACTGG
1 CATCAATATCATGTATCCTAATGAGGAGAAT-GTGTTATAGTGCCTAATCAC-AAAATGAA-TGA
* * * * * * * * *
40697 GGATTAGTA-TA-ACTATTCATGTTTATCTTATTTGAGAG-GCAAACTTTA-A-TTCTATTAAAA
63 AGATCATTACTAGA--ATCCATGTTTGTCTCATTTGAG-GCACAAAC-CTAGACTT-TA-CAAAA
* *
40757 ATAGA-GGGAAGAAAAGCTTTTCTTGCAACACCAAAG
122 AT-GATGGGAA-AAAAGCCTTTCTTGCAAAACCAAAG
* ** * * * * *
40793 CATCAATGTTGTGTATCCTAAAGAAGGA-AATGTGTTTTTG-GTTCTCAAT-ATTGAAAA-GAAT
1 CATCAATATCATGTATCCTAATG-AGGAGAATGTGTTATAGTG-CCT-AATCA--CAAAATGAAT
* * * * * * ** * * ** ** * * *
40854 GGAGA-CTGTTACGAGAATCGAAGCTTGTCTTTTTTAAGGGATGAATTTTGATTTTA-AGGAACA
61 GAAGATC-ATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACA--AAAA
* * ** *
40917 T-A-GGGAAAAGAAAAG-ATTTCCATGCAAAAGAAAAT
123 TGATGGG--AA-AAAAGCCTTT-CTTGCAAAACCAAAG
* ** *
40952 CATCAATAACACT-TATCCTAATGAAAAGAAAGCAT-TTATAGTGCCTAATCACAAAATGAATGA
1 CATCAATATCA-TGTATCCTAATGAGGAGAATG--TGTTATAGTGCCTAATCACAAAATGAATGA
* * * ** * *
41015 AAATCATTACTAGAATCTATGTTTGTCTCATTTGAGGTATGAACTTAGACTCTACAAAAAAAATT
63 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTAC---AAAAA-T
* *
41080 GAGGGGAAAAAA-CCTTTCTTG-AGAAACTAAAG
124 GATGGGAAAAAAGCCTTTCTTGCA-AAACCAAAG
* * * * *
41112 CATCAATATCGTGTATCCTAATGAGAAGACCATGT-TTGTGGTGCCTAATC-CAGAAAAGAAT-A
1 CATCAATATCATGTATCCTAATGAGGAGA--ATGTGTTATAGTGCCTAATCACA-AAATGAATGA
* * * * * * * * *
41174 GGA--ATTAGTCTGAGTATTCTTGTTTGTCTTATTT-AAG-AGAAACTTTGA-TTCTAACAAAAA
63 AGATCATTA--CT-AGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTT-T-ACAAAAA
* * ** * *
41234 CT-ATGGAAAAAAAAAGCTTTTCACGCGACACCAAAG
123 -TGATGG--GAAAAAAGCCTTTCTTGCAAAACCAAAG
* * * * * * *
41270 CCTCAATGTCATGTATCCTAATGAAGG-GAATATGTTTTTAGGTTCCCAATCCCAAAAT-AA--A
1 CATCAATATCATGTATCCTAATG-AGGAGAATGTG-TTATA-GTGCCTAATCACAAAATGAATGA
* * * * * * * *** * * *
41331 ACAGTCTGTTA-TGAGAGTCGATGCTTGTCTTATTTAAGGGC-TGTACTTTGATTTTA-AGGAAA
63 AGA-TC-ATTACT-AGAATCCATGTTTGTCTCATTTGA-GGCACAAACCTAGACTTTACA--AAA
*** * ** *
41393 AT-A-GGGCAAAGAAAATATTTCCATGCAAAAGAAAAT
122 ATGATGGG-AAA-AAAGCCTTT-CTTGCAAAACCAAAG
* * * *
41429 CATCAGTATCATTTATCCTAATGCGGAGAATGTGCGTATAGTGCCTAATCACAAAATGAATGAAG
1 CATCAATATCATGTATCCTAATGAGGAGAATGTG-TTATAGTGCCTAATCACAAAATGAATGAAG
* * * * *
41494 ATCATTACTAGAACCCATGTTTGTCTCATTTGAGGCACGAACCTAGACTATACAAAAATTGGTGA
65 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAAAA-TGATGG
* * *
41559 GAAAAATGCCTTTCTTGCGAAACCAAAA
129 GAAAAAAGCCTTTCTTGCAAAACCAAAG
** * * * * * *
41587 CATCAATATTGTGTATCTTAATGA-GAAAACTATGTTTATGGTGCCTAATCCTCAAAA-GAATGG
1 CATCAATATCATGTATCCTAATGAGGAGAA-TGTG-TTATAGTGCCTAAT-CACAAAATGAATGA
* * * * * ** * * * * *
41650 GGATTAGTA-TAAGTATTCATGTTTGTCTTGTTT-AAG-ACAAACTTTGATTTTATCAAAAATGG
63 AGATCATTACT-AGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTA-CAAAAATGA
* * *
41712 TGGAAAGAAAAGCTTTTCTTGCAACACCAAAG
126 TGGGAA-AAAAGCCTTTCTTGCAAAACCAAAG
* * * * * * *
41744 CGTCAATTTCATGTATCCTAATGAAGG-GAATATGTTTTAGGTTCCCAATTCTA-AAAAT-AAAG
1 CATCAATATCATGTATCCTAATG-AGGAGAATGTGTTATA-GTGCCTAA-TC-ACAAAATGAATG
* * * * ** * * * * * *** * * *
41806 GAGTTTATTACGAGAATTGATGCTTGTCTTATATAAGGGATGTACTTTGATTTTA-AGGAAAAT-
62 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACA--AAAATG
* * ** *
41869 A-GGGAAAAGGAAAG-ATTTCCATGCAAAAAAAAAT
125 ATGGG-AAA--AAAGCCTTT-CTTGCAAAACCAAAG
* *
41903 CATCAAAATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAATGAATGAAG
1 CATCAATATCATGTATCCTAATGAGGAGAATGTG-TTATAGTGCCTAATCACAAAATGAATGAAG
*
41968 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAATATTGATGG
65 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAA-AATGATGG
42033 GAAAAAAGCCTTTCTTGCAAAACCAAAG
129 GAAAAAAGCCTTTCTTGCAAAACCAAAG
* * * *
42061 CATCAATATCACGTATCCTAATGAGAAGACCATGT-TTATGGTGCCTAATC-CTGAAAAAGAAT-
1 CATCAATATCATGTATCCTAATGAGGAGA--ATGTGTTATAGTGCCTAATCAC--AAAATGAATG
* * * ** * * * * * *
42123 AGGGATTAGTA-TGAGTGTACTTGTTTGTCTTATTTGAGAG-GCAAACTTTGA-TTCTAACAAAA
62 A-AGATCATTACT-AGAATCCATGTTTGTCTCATTTGAG-GCACAAACCTAGACTT-T-ACAAAA
* * ** *
42185 ATG-GGGGAAAGAAAAGCTTTTCTTGTGACACCAAAG
122 ATGATGGG-AA-AAAAGCCTTTCTTGCAAAACCAAAG
* * * * * * *** *
42221 CATCAATGTCATGTATCTTAATGAAGG-GAATGTGTTTTTGGTTCTTAATCTTGGAAA-GAATGG
1 CATCAATATCATGTATCCTAATG-AGGAGAATGTG-TTATAGTGCCTAATC-ACAAAATGAATGA
** * * *** * * ** * * ** * * *
42284 AGATTGTTGCAAGAATTGGTGCTTGCCTTGTTTAAGGGATGAACTTTGATTTTA-AGGAAAAT-A
63 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACA--AAAATGA
** * ** *
42347 -GGGCAAAGAAAAGATTTTCATAG-AAAAGAAAAT
126 TGGG--AA-AAAAGCCTTTC-TTGCAAAACCAAAG
** * *
42380 CATCAGCATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAAAGAAG
1 CATCAATATCATGTATCCTAATGAGGAGAATGTG-TTATAGTGCCTAATCACAAAATGAATGAAG
* * * ** * ** *
42445 ATCCTTACTAGAATGCATGTTTGTCTCATTTGAGGCACGAATTTTGACTTTACAAAAATTGGCGA
65 ATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAAAA-TGATGG
*
42510 GAAAAAAACCTTTCTTGCAAAAACCAAAG
129 GAAAAAAGCCTTTCTTGC-AAAACCAAAG
* **
42539 CACCAATATCGCGTATCCTAATG
1 CATCAATATCATGTATCCTAATG
42562 GGAACCCTAT
Statistics
Matches: 1384, Mismatches: 393, Indels: 299
0.67 0.19 0.14
Matches are distributed among these distances:
155 3 0.00
156 50 0.04
157 130 0.09
158 357 0.26
159 612 0.44
160 192 0.14
161 30 0.02
162 5 0.00
163 2 0.00
164 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (156 bp):
CATCAATATCATGTATCCTAATGAGGAGAATGTGTTATAGTGCCTAATCACAAAATGAATGAAGA
TCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAAAATGATGGGA
AAAAAGCCTTTCTTGCAAAACCAAAG
Found at i:42687 original size:477 final size:476
Alignment explanation
Indices: 40469--42704 Score: 2668
Period size: 477 Copynumber: 4.7 Consensus size: 476
40459 AAAATAAGGC
* * *
40469 AAAGAAAATCATCAATATCATTTCTCCTAATGA-G-GAATCTGCTTATAGTGCCTAATCGCAAAA
1 AAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
* *
40532 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCAAGAACTTAGAATTTACAAA
66 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAA
* * * * * *
40597 AATTGGTGGGAAGAATGCCTTTCTTGCAAAACCAAATCATCAATATTGTGTATCCTTATGAGAAG
131 AATTGGTGAGAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCGTGTATCCTAATGAGAA-
* * * *
40662 A-CTACT-TTTATGGTGCCTAATCTCGAAAA-AACT-GGGGATTAGTATAACTATTCATGTTTAT
195 ACCTA-TGTTTATGGTGCCTAATCTGGAAAAGAA-TAGGGGATTAGTATGAGTATTCATGTTTGT
* * * * *
40723 CTTATTTGAGAGGCAAACTTTAATTCTATTAAAAATAGA-GGGAAGAAAAGCTTTTCTTGCAACA
258 CTTATTT-AGAGACAAACTTTGATTCTATCAAAAATA-ATGGAAAGAAAAGCTTTTCTTGCGACA
** * * * * *
40787 CCAAAGCATCAATGTTGTGTATCCTAAAGAAGGAAATGTGTTTTTGGTTCTCAATATTGAAAAGA
321 CCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAATCTTGAAAAGA
* * * * * *
40852 ATGGAGACTGTTACGAGAATCGAAGCTTGTCTTTTTTAAGGGATGAATTTTGATTTTAAGGAACA
386 AAGGAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAA
40917 TAGGGAAAAGAAAAGATTTCCATGCA
451 TAGGGAAAAGAAAAGATTTCCATGCA
* * ** * ***
40943 AAAGAAAATCATCAATAACACTTATCCTAATGAAAAGAAAGCATTTATAGTGCCTAATCACAAAA
1 AAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
* * * * *
41008 TGAATGAAAATCATTACTAGAATCTATGTTTGTCTCATTTGAGGTATGAACTTAGACTCTACAAA
66 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTAC---
* *
41073 AAAAATTGAG-GGGAAAAAA-CCTTTCTTG-AGAAACTAAAGCATCAATATCGTGTATCCTAATG
128 AAAAATTG-GTGAGAAAAAAGCCTTTCTTGCA-AAACCAAAGCATCAATATCGTGTATCCTAATG
* ** * * *
41135 AGAAGACC-ATGTTTGTGGTGCCTAATCCAGAAAAGAATA-GGAATTAGTCTGAGTATTCTTGTT
191 AGAA-ACCTATGTTTATGGTGCCTAATCTGGAAAAGAATAGGGGATTAGTATGAGTATTCATGTT
* * * **
41198 TGTCTTATTTA-AGAGAAACTTTGATTCTAACAAAAACT-ATGGAAAAAAAAAGCTTTTCACGCG
255 TGTCTTATTTAGAGACAAACTTTGATTCTATCAAAAA-TAATGG-AAAGAAAAGCTTTTCTTGCG
* **
41261 ACACCAAAGCCTCAATGTCATGTATCCTAATGAAGGGAATATGTTTTTAGGTTCCCAATC-CCAA
318 ACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATATGTTTTT-GGTTCCCAATCTTGAA
* ** * * * *
41325 AATAAAACAG-TCTGTTATGAGAGTCGATGCTTGTCTTATTTAAGGGCTGTACTTTGATTTTAAG
382 AAGAAAGGAGAT-TGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAG
* *
41389 GAAAATAGGGCAAAGAAAATATTTCCATGCA
446 GAAAATAGGGAAAAGAAAAGATTTCCATGCA
* * *
41420 AAAGAAAATCATCAGTATCATTTATCCTAATGCGGAGAATGTGCGTATAGTGCCTAATCACAAAA
1 AAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
* * *
41485 TGAATGAAGATCATTACTAGAACCCATGTTTGTCTCATTTGAGGCACGAACCTAGACTATACAAA
66 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAA
* * * * *
41550 AATTGGTGAGAAAAATGCCTTTCTTGCGAAACCAAAACATCAATATTGTGTATCTTAATGAGAAA
131 AATTGGTGAGAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAA
* * *
41615 ACTATGTTTATGGTGCCTAATCCT-CAAAAGAAT-GGGGATTAGTATAAGTATTCATGTTTGTCT
196 CCTATGTTTATGGTGCCTAAT-CTGGAAAAGAATAGGGGATTAGTATGAGTATTCATGTTTGTCT
* * ** *
41678 TGTTTA-AGACAAACTTTGATTTTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCAACACCAA
260 TATTTAGAGACAAACTTTGATTCTATCAAAAATAATGGAAAGAAAAGCTTTTCTTGCGACACCAA
* * * * *
41742 AGCGTCAATTTCATGTATCCTAATGAAGGGAATATGTTTTAGGTTCCCAAT-TCTAAAAATAAAG
325 AGCATCAATGTCATGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAATCT-TGAAAAGAAAG
* * * * *
41806 GAGTTTATTACGAGAATTGATGCTTGTCTTATATAAGGGATGTACTTTGATTTTAAGGAAAATAG
389 GAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAG
*
41871 GGAAAAGGAAAGATTTCCATGCA
454 GGAAAAGAAAAGATTTCCATGCA
* *
41894 AAAAAAAATCATCAAAATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
1 AAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
* *
41959 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACAAACCTAGACTTTACAAA
66 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAA
* * * **
42024 TATTGATGGGAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCACGTATCCTAATGAGAAG
131 AATTGGTGAGAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCGTGTATCCTAATGAGAA-
* * * *
42089 ACC-ATGTTTATGGTGCCTAATCCTGAAAAAGAATA-GGGATTAGTATGAGTGTACTTGTTTGTC
195 ACCTATGTTTATGGTGCCTAAT-CTGGAAAAGAATAGGGGATTAGTATGAGTATTCATGTTTGTC
* * *** *
42152 TTATTTGAGAGGCAAACTTTGATTCTAACAAAAATGGGGGAAAGAAAAGCTTTTCTTGTGACACC
259 TTATTT-AGAGACAAACTTTGATTCTATCAAAAATAATGGAAAGAAAAGCTTTTCTTGCGACACC
* * ** * *
42217 AAAGCATCAATGTCATGTATCTTAATGAAGGGAATGTGTTTTTGGTTCTTAATCTTGGAAAGAAT
323 AAAGCATCAATGTCATGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAATCTTGAAAAGAAA
* * * * * *
42282 GGAGATTGTTGCAAGAATTGGTGCTTGCCTTGTTTAAGGGATGAACTTTGATTTTAAGGAAAATA
388 GGAGATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATA
* *
42347 GGGCAAAGAAAAGATTTTCATAG-A
453 GGGAAAAGAAAAGATTTCCAT-GCA
** *
42371 AAAGAAAATCATCAGCATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAA
1 AAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
* * * * *
42436 TGAAAGAAGATCCTTACTAGAATGCATGTTTGTCTCATTTGAGGCACGAATTTTGACTTTACAAA
66 TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAA
* * * * *
42501 AATTGGCGAGAAAAAAACCTTTCTTGCAAAAACCAAAGCACCAATATCGCGTATCCTAATGGGAA
131 AATTGGTGAGAAAAAAGCCTTTCTTGC-AAAACCAAAGCATCAATATCGTGTATCCTAATGAGAA
* * * * * *
42566 CCCTATGTTTAGGGTGCCTAATTTGGAAAAGAA-AGGGGATTGGTATGGGTATTCATGTTTGTGT
195 ACCTATGTTTATGGTGCCTAATCTGGAAAAGAATAGGGGATTAGTATGAGTATTCATGTTTGTCT
* * *
42630 TATTTCAGAGACAAACTTTGATTCTATCAAAAATAATGAAAAGAAATGCTTTTCTTGTGAC-CAC
260 TATTT-AGAGACAAACTTTGATTCTATCAAAAATAATGGAAAGAAAAGCTTTTCTTGCGACAC-C
*
42694 AAATCATCAAT
323 AAAGCATCAAT
42705 ATTGAAAGCT
Statistics
Matches: 1509, Mismatches: 216, Indels: 71
0.84 0.12 0.04
Matches are distributed among these distances:
473 11 0.01
474 390 0.26
475 162 0.11
476 105 0.07
477 667 0.44
478 155 0.10
479 18 0.01
480 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (476 bp):
AAAGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCTAATCACAAAA
TGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAA
AATTGGTGAGAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAA
CCTATGTTTATGGTGCCTAATCTGGAAAAGAATAGGGGATTAGTATGAGTATTCATGTTTGTCTT
ATTTAGAGACAAACTTTGATTCTATCAAAAATAATGGAAAGAAAAGCTTTTCTTGCGACACCAAA
GCATCAATGTCATGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAATCTTGAAAAGAAAGGA
GATTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGG
AAAAGAAAAGATTTCCATGCA
Found at i:43554 original size:20 final size:21
Alignment explanation
Indices: 43529--43567 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
43519 GCCAGTTTCG
43529 TGTATCGATACAAT-TATCCA
1 TGTATCGATACAATGTATCCA
43549 TGTATCGATACAATGTATC
1 TGTATCGATACAATGTATC
43568 GATACATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
TGTATCGATACAATGTATCCA
Found at i:43566 original size:13 final size:13
Alignment explanation
Indices: 43548--43573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43538 ACAATTATCC
43548 ATGTATCGATACA
1 ATGTATCGATACA
43561 ATGTATCGATACA
1 ATGTATCGATACA
43574 TCTAGGTGTG
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:45565 original size:13 final size:13
Alignment explanation
Indices: 45547--45574 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45537 ATACAATGAA
45547 AATGTATCGATAC
1 AATGTATCGATAC
45560 AATGTATCGATAC
1 AATGTATCGATAC
45573 AA
1 AA
45575 AGCATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:45589 original size:33 final size:32
Alignment explanation
Indices: 45529--45593 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
45519 ACAATTTAGT
* *
45529 ATGTATTGATACAATGAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAATGTATCGATACA
*
45561 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-AAAATGTATCGATACA
45594 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGAAAATGTATCGATACA
Found at i:48159 original size:13 final size:13
Alignment explanation
Indices: 48119--48159 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
48109 CATAGAACCC
*
48119 TGTATCGATACAG
1 TGTATCGATACAA
*
48132 TATATCGATACAA
1 TGTATCGATACAA
*
48145 TGTATCGATATAA
1 TGTATCGATACAA
48158 TG
1 TG
48160 ATCCTTGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Done.