Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012668.1 Corchorus olitorius cultivar O-4 contig12701, 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: 6317
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Found at i:1570 original size:331 final size:328
Alignment explanation
Indices: 15--2572 Score: 2164
Period size: 331 Copynumber: 7.8 Consensus size: 328
5 TTTCTCAATT
* *
15 TTTTTTGTTCACAATACTCAGAAAAAATATATAATTCAA-CGCAAAAAGATTGAAA-GGTTTTTC
1 TTTTTTG-CCACAATACTCAGAAAAAATATATAATTCAACCCCAAAAA-ATT-AAAGGGTTTTTC
* * * * *
78 GCACTTCTAATATTTGTTTTAT-CATTCTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGA
63 ACGCTTCTAATA-TCGTTTT-TCCA-T-TTTTTCCGAATTTATTTCTAATTAAATCGAAAAAAGA
* * * * *
142 TTAAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGGGATTTGGTTCGATGTATATAG
124 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAG
* * * * * * *
207 ATATTT-AATGAAATCATTACGCCAAAAATCTTGCAAAACTGAGTTGAGGCCCCGGAACGCATTT
189 ATATTTCAA-GGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCG-GGGCCCGAAACGCATTT
* * *
271 TTAGCAAAAAACC----------G--CACGAATTTGGCTAAAATTTTACAAAAATTGACCCGAAA
252 TTAGCCAAAAACCGTGATGATTAGTACACG-ATTTGGCTAAAATTTTGCAAAAACTGACCCGAAA
*
324 AGTTTTTCATCAA
316 AGTTTTTCCTCAA
* * ** *
337 -TTTTTGCCACAATACTCAGAAAAAATATATAAGTCAACACCAAAGAAATGGAAGGGCTTTTCAC
1 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAA-AAATTAAAGGGTTTTTCAC
* * * *
401 CCTTCTAATATCGTTTTTCCATCTTTTCCGAATTTATTTCTAATTGAATTGAAACAAA-ATTCAG
65 GCTTCTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAA-AAAGATTCAG
* * *
465 ATGCTCGTCAAAACAAAACCTTAAATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATT
129 ATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATT
* * ** * * *
530 TAAAAGAGTCTTTACGATAAAAATCATGCAAAACTCAGCCGGGGCCTCGAAACGCGTTTTTAGCC
194 TCAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGGGGCC-CGAAACGCATTTTTAGCC
* *** *
595 GAAAACCGTGAT-AGTTAGTACACGATTT--C----A----GCTAAAAACTGATATGAGAAGTTT
258 AAAAACCGTGATGA-TTAGTACACGATTTGGCTAAAATTTTGC-AAAAACTGACCCGAAAAGTTT
* **
649 TTTCTCCTT
321 TTCCT-CAA
* * * * * * * *** *
658 TTTTTTGCAACAATATTCAGAAAAATTATATAATTC-AGCGCATAAAAGATTGACGTCCTTTCCA
1 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCA-AAAA-ATTAAAGGGTTTTTCA
* ** * * * * *
722 CGCCTCTAATATCGTTTTTCC-TTTTTTCCTTACTAAATTCTAATTATATC-AAAACAAGTTTCA
64 CGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAAA-AAGATTCA
* * * * * * * *
785 TATGCTTGTAAAAACAAATCATTATATCCAATGTGCCTGAGATTTGGTTCGATGAATATTGATCT
128 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATAT
* * * * ** * * *
850 TTTAAAGCGCCTTTGTGCCAAAAATCACGC-AAA-TGGAGTCGAGGCTCCGGAAA-GCGTTTTTA
193 TTCAAGGAGTCTTTACGCCAAAAATCATGCAAAACT-GAGTCGGGGC-CC-GAAACGCATTTTTA
* * *
912 GCCAAAAATCGTGATGATTAGTACACGATTTTGGCTAAAATTTTGAAAAAACTGACTCGAAAAGT
255 GCCAAAAACCGTGATGATTAGTACACGA-TTTGGCTAAAATTTTGCAAAAACTGACCCGAAAAGT
977 TTTTCCTCAA
319 TTTTCCTCAA
* ** *
987 TTTTTTGTCACAAT-CAT-AGAAAAAATATATAATTCAACGTCAATAAAATTGAAGGGTTTTTCA
1 TTTTTTGCCACAATAC-TCAGAAAAAATATATAATTCAACCCCAA-AAAATTAAAGGGTTTTTCA
* * * *
1050 CGCTTCTAATATCATTTTTTCATTTTTTACCGAATTTATTTTTAATTAAATCGAAACAAGATTC-
64 CGCTTCTAATATCGTTTTTCCATTTTTT-CCGAATTTATTTCTAATTAAATCGAAAAAAGATTCA
*
1114 GTATGCTCGTAAAAA-AAAT-CTTAAATCCAATGTGGCTGACATTTGGTTAGATGAATATAGATA
128 G-ATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATA
* * * * * * * *
1177 TTTCAAGGAGTTTTTGCACCAAAAATCAAGCAAAATTGAGTCGGGGCTCCGGAACACGTTTTTAG
192 TTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGGGGC-CCGAAACGCATTTTTAG
* * * * * * *
1242 CAAAAAACCGTGATGATTAATACACAATTTCCGCCAAATTTTTGCAAAAACTGACCCAAAAAGTT
256 CCAAAAACCGTGATGATTAGTACACGATTT-GGCTAAAATTTTGCAAAAACTGACCCGAAAAGTT
1307 TTTCCTCAA
320 TTTCCTCAA
* * * *
1316 TTTTTTGCCACAATACTCAGAAAAACTATATTATTCAACCCCGAAAAATTAAAATGGTTTTTCAC
1 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAAAAATT-AAAGGGTTTTTCAC
* * * *
1381 GCTTCCAATATCGTTTTTCCATTTTTTTCAAATTTATTTTTAATTAAATCGAAAAAAGATTCAGA
65 GCTTCTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAAAAAGATTCAGA
* * * *
1446 TGCTCATAAAAACAAATCCTTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAAATATTT
130 TGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
** * * * * *
1511 CAAGGAGTCTTTGTGCCAAAAATCATGCAAAATTGAGTTGGGGCTCCTAAACGCGTTTTTAGCTA
195 CAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGGGGC-CCGAAACGCATTTTTAGCCA
* * * * * *
1576 AAAACCGTGATGGTTAATAAACGATTTCGGCTAAAATTTTGCAAAAACTTACCCGAATAGTTCTT
259 AAAACCGTGATGATTAGTACACGATTT-GGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTTTT
*
1641 CCTAAA
323 CCTCAA
* * *
1647 TTTTTTGCCACAATACTCAGAAAAACTATATTATTCAATCCCAAAAAATTAAAAGGGTTTTTCAC
1 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAAAAATT-AAAGGGTTTTTCAC
* * * * * * *
1712 GCATCCAATATTGTTTTCCCATTTTTTTCAAATTTATTTCTAATTAAATCGAAACAAGATTCAGA
65 GCTTCTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAAAAAGATTCAGA
* * * *
1777 TGCTCGTAAAAACAAATCGTTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGAAATTT
130 TGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
* * * * * *
1842 TAAGGACTCTTT-CTTCCAAAAGTCATTCAAAACTGAGTCGGGGCCCTAAAAGGGCTGAAACACA
195 CAAGGAGTCTTTAC-GCCAAAAATCATGCAAAACTGAGTCGGGG-CC--------C-GAAACGCA
** * * *
1906 TTTTTAGTTAAAAATCATGATGGTTAGTACACGATTTCGGC--------T--AAAAACTGACCCG
249 TTTTTAGCCAAAAACCGTGATGATTAGTACACGATTT-GGCTAAAATTTTGCAAAAACTGACCCG
*
1961 AGAAGATTTTT-CTCAA
313 AAAAG-TTTTTCCTCAA
* * * * * *
1977 TTTTTTGCCA-AATATTCAGAAAAAATATATAATTCAACGCCAAAACGATTGACGGGCTTTTCAC
1 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAAA-AATTAAAGGGTTTTTCAC
* *
2041 GCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAAGATTCAGA
65 GCTTCTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAAAAAGATTCAGA
* * * * *
2106 TGCTCGT-AAAACTAAATCGTTAAATCCAATGAGACTGGGATTTGGTTCGATGAATATAGATATT
130 TGCTCGTAAAAAC-AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATT
* * * * * * * * *
2170 TCTAGGAGTCATCACGTCACAAATCATGCAAAATTTAGTCGGAGCCCCGGAAA-ACATTTTTAGC
194 TCAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGG-GGCCC-GAAACGCATTTTTAGC
* * * * * * * *
2234 CGAAAACCGTAATGAGT-G-A-ACAATTTTGACTAAAATTTTGCAAAAATTGACCCCAAAATTTT
257 CAAAAACCGTGATGATTAGTACACGA-TTTGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTT
*
2296 TTCCTTAA
321 TTCCTCAA
** * * ** * * * *
2304 TTCCTTGCCATAATACTCGGAAAAAATATATAATTCTTCGACAAAAAAATTGAA-GGTTTTTCAT
1 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC-CCCAAAAAATTAAAGGGTTTTTCAC
* * * * *
2368 GCTTCCT-ATATTGTTTTTCCATTTATACTGAATTTATTTCTAATTAAATC-AAAACGAGATTCA
65 GCTT-CTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAAA-AAGATTCA
* * * * * *
2431 GATGCTCGTAAAAAGAAATTCTTAAATCCATTGTGGTTGAGATTTGGTTAGATGAGTAGAGATAT
128 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATAT
* * * *
2496 TTCAAGGAGTC-TTCCTTCCAAAAATCATGCAAAACTGAG-CTGGGGCCCTGAAACGTATTTTCA
193 TTCAAGGAGTCTTTAC-GCCAAAAATCATGCAAAACTGAGTC-GGGGCCC-GAAACGCATTTTTA
*
2559 GTCAAAAACCGTGA
255 GCCAAAAACCGTGA
2573 AGGGTTAGTA
Statistics
Matches: 1817, Mismatches: 325, Indels: 183
0.78 0.14 0.08
Matches are distributed among these distances:
317 9 0.00
318 146 0.08
319 10 0.01
320 127 0.07
321 151 0.08
322 65 0.04
323 2 0.00
325 1 0.00
326 19 0.01
327 181 0.10
328 154 0.08
329 366 0.20
330 157 0.09
331 385 0.21
332 2 0.00
339 1 0.00
340 41 0.02
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (328 bp):
TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAAAAATTAAAGGGTTTTTCACG
CTTCTAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGAAAAAAGATTCAGAT
GCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTC
AAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGGGGCCCGAAACGCATTTTTAGCCAAA
AACCGTGATGATTAGTACACGATTTGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCT
CAA
Found at i:1758 original size:660 final size:645
Alignment explanation
Indices: 3--2648 Score: 2472
Period size: 660 Copynumber: 4.1 Consensus size: 645
1 TT
* * *
3 TTTTTCTCAATTTTTTTTGTTCACAATACTCAGAAAAAATATATAATTCAACGCAAAAAGATTGA
1 TTTTTCTCAA--TTTTTTG-CCACAATACTCAGAAAAAATATATAATTCAACCCCAAAAGATTGA
* * * *
68 AA-GGTTTTTCGCACTTCTAATATTTGTTTTAT-CATTCTTTTTCCGAATTAATTTCTAATTAAA
63 AATGGCTTTTCACGCTTCTAATA-TCGTTTT-TCCA-T-TTTTTCCGAATTAATTTCTAATTAAA
* * *
131 TCGAAACAAGATTAAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGGGATTTGGTTC
124 TCGAAAAAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTC
* * * * * *
196 GATGTATATAGATATTT-AATGAAATCATTACGCCAAAAATCTTGCAAAACTGAGTTGAGGCCCC
189 GATGAATATAGATATTTCAA-GGAGTCATTACGCCAAAAATCATGCAAAATTGAGTCGAGGCCCC
* * * * *
260 GGAACGCATTTTTAGCAAAAAACC--------G--CACGAATTTGGCTAAAATTTTACAAAAATT
253 GGAAAGCATTTTTAGCCAAAAACCGTGATGGAGTAAACGATTTTGGCTAAAATTTTGCAAAAATT
* *
315 GACCCGAAAAGTTTTTCATCAA-TTTTTGCCACAATACTCAGAAAAAATATATAAGTCAACACCA
318 GACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCA
* * * * *
379 AAGAAATGGAAGGGCTTTTCACCCTTCTAATATCGTTTTTCCATCTTTTCCGAATTTATTTCTAA
383 AA-AAATTGAAGGGTTTTTCACGCTTCCAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAA
* * * * *
444 TTGAATTGAAACAAAATTCAGATGCTCGTCAAAACAAAACCTTAAATCCAATGTGGCTGAGATTT
447 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC-AAATCTTAAATCCAATGTGGCTGAGATTT
* * * * * * *
509 GGTTCGATGAATATAGATATTTAAAAGAGTCTTTACGA-TAAAAATCATGCAAAACTCAGCCGGG
511 GGTTAGATGAATATAGATATTTCAAGGAGTCTTT-CTACCAAAAATCATGCAAAACTGAGTCGGG
* * * *
573 GCCTCGAAACGCGTTTTTAGCCGAAAACCGTGAT-AGTTAGTACACGATTTCAGCTAAAAACTGA
575 GCC-CGGAACACGTTTTTAG-CAAAAACCGTGATGA-TTAGTACACGATTTCCGCTAAAAACTGA
***
637 TATGAGAAG
637 CCCGAGAAG
** * * * * **
646 TTTTTTCTCCTTTTTTTTGCAACAATATTCAGAAAAATTATATAATTCAGCGCATAAAAGATTGA
1 -TTTTTCT-CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC-CCCAAAAGATTGA
** * * * ** * * *
711 CGT-CCTTTCCACGCCTCTAATATCGTTTTTCC-TTTTTTCCTTACTAAATTCTAATTATATC-A
63 AATGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGA
* * ** * * *
773 AAACAAGTTTCATATGCTTGTAAAAACAAATCATTATATCCAATGTGCCTGAGATTTGGTTCGAT
128 AAA-AAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTCGAT
* * * * * * * ** * * *
838 GAATATTGATCTTTTAAAGCGCCTTTGTGCCAAAAATCACGC-AAATGGAGTCGAGGCTCCGGAA
192 GAATATAGATATTTCAAGGAGTCATTACGCCAAAAATCATGCAAAATTGAGTCGAGGCCCCGGAA
* * * * * *
902 AGCGTTTTTAGCCAAAAATCGTGATGATTAGTACACGATTTTGGCTAAAATTTTGAAAAAACTGA
257 AGCATTTTTAGCCAAAAACCGTGATG--GAGTAAACGATTTTGGCTAAAATTTTGCAAAAATTGA
* * **
967 CTCGAAAAGTTTTTCCTCAATTTTTTGTCACAAT-CAT-AGAAAAAATATATAATTCAACGTCAA
320 CCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATAC-TCAGAAAAAATATATAATTCAACACCAA
* * * *
1030 TAAAATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTTCATTTTTTACCGAATTTATTTTTAA
384 -AAAATTGAAGGGTTTTTCACGCTTCCAATATCGTTTTTCCATTTTTT-CCGAATTTATTTCTAA
*
1095 TTAAATCGAAACAAGATTC-GTATGCTCGTAAAAA-AAATCTTAAATCCAATGTGGCTGACATTT
447 TTAAATCGAAACAAGATTCAG-ATGCTCGTAAAAACAAATCTTAAATCCAATGTGGCTGAGATTT
* * *
1158 GGTTAGATGAATATAGATATTTCAAGGAGTTTTTGC-ACCAAAAATCAAGCAAAATTGAGTCGGG
511 GGTTAGATGAATATAGATATTTCAAGGAGTCTTT-CTACCAAAAATCATGCAAAACTGAGTCGGG
* *
1222 GCTCCGGAACACGTTTTTAGCAAAAAACCGTGATGATTAATACACAATTTCCGCCAAATTTTTGC
575 GC-CCGGAACACGTTTTTAGC-AAAAACCGTGATGATTAGTACACGATTTCCG-C-------T--
* *
1287 AAAAACTGACCCAAAAAG
628 AAAAACTGACCCGAGAAG
* * *
1305 TTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAACTATATTATTCAACCCCGAAAA-ATTAAA
1 TTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCC-AAAAGATTGAA
* * * * * *
1369 ATGGTTTTTCACGCTTCCAATATCGTTTTTCCATTTTTTTCAAATTTATTTTTAATTAAATCGAA
64 ATGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * *
1434 AAAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCATTGTGGCTAAGATTTGGTTAGATGA
129 AAAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTCGATGA
* * ** * * * *
1499 ATATAAATATTTCAAGGAGTCTTTGTGCCAAAAATCATGCAAAATTGAGTTGGGGCTCC-TAAAC
194 ATATAGATATTTCAAGGAGTCATTACGCCAAAAATCATGCAAAATTGAGTCGAGGCCCCGGAAA-
* * * *
1563 GCGTTTTTAGCTAAAAACCGTGATGGTTAATAAACGATTTCGGCTAAAATTTTGCAAAAACTT-A
258 GCATTTTTAGCCAAAAACCGTGATGG--AGTAAACGATTTTGGCTAAAATTTTGCAAAAA-TTGA
* * * * *
1627 CCCGAATAGTTCTTCCTAAATTTTTTGCCACAATACTCAGAAAAACTATATTATTCAATC-CCAA
320 CCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA-CACCAA
* * * * * *
1691 AAAATTAAAAGGGTTTTTCACGCATCCAATATTGTTTTCCCATTTTTTTCAAATTTATTTCTAAT
384 AAAATT-GAAGGGTTTTTCACGCTTCCAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAAT
* *
1756 TAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCGTTAAATCCATTGTGGCTAAGATTTG
448 TAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC-TTAAATCCAATGTGGCTGAGATTTG
* * * * * *
1821 GTTAGATGAATATAGAAATTTTAAGGACTCTTTCTTCCAAAAGTCATTCAAAACTGAGTCGGGGC
512 GTTAGATGAATATAGATATTTCAAGGAGTCTTTCTACCAAAAATCATGCAAAACTGAGTCGGGGC
* * * * * *
1886 CCTAAAAGGGCTGAAACACATTTTTAGTTAAAAATCATGATGGTTAGTACACGATTTCGGCTAAA
577 CC-------G--G-AACACGTTTTTAG-CAAAAACCGTGATGATTAGTACACGATTTCCGCTAAA
1951 AACTGACCCGAGAAG
631 AACTGACCCGAGAAG
* *
1966 ATTTTTCTCAATTTTTTGCCA-AATATTCAGAAAAAATATATAATTCAACGCCAAAACGATTG-A
1 -TTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAAA-GATTGAA
**
2029 CGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAA
64 ATGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * * * * *
2094 ATAAGATTCAGATGCTCGT-AAAACTAAATCGTTAAATCCAATGAGACTGGGATTTGGTTCGATG
129 AAAAGATTCAGATGCTCATAAAAAC-AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTCGATG
* * * * *
2158 AATATAGATATTTCTAGGAGTCATCACGTCACAAATCATGCAAAATTTAGTCG-GAGCCCCGGAA
193 AATATAGATATTTCAAGGAGTCATTACGCCAAAAATCATGCAAAATTGAGTCGAG-GCCCCGGAA
* * * * * *
2222 AACATTTTTAGCCGAAAACCGTAAT-GAGTGAACAATTTTGACTAAAATTTTGCAAAAATTGACC
257 AGCATTTTTAGCCAAAAACCGTGATGGAGTAAACGATTTTGGCTAAAATTTTGCAAAAATTGACC
* * * ** * * ** *
2286 CCAAAATTTTTTCCTTAATTCCTTGCCATAATACTCGGAAAAAATATATAATTCTTCGACAAAAA
322 CGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC-ACCAAAA
* * * * * *
2351 AATTGAA-GGTTTTTCATGCTTCCTATATTGTTTTTCCATTTATACTGAATTTATTTCTAATTAA
386 AATTGAAGGGTTTTTCACGCTTCCAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAA
* * * * *
2415 ATCAAAACGAGATTCAGATGCTCGTAAAAAGAAATTCTTAAATCCATTGTGGTTGAGATTTGGTT
451 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAA-TCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * *
2480 AGATGAGTAGAGATATTTCAAGGAGTCTTCCTTCCAAAAATCATGCAAAACTGAG-CTGGGGCCC
515 AGATGAATATAGATATTTCAAGGAGTCTTTCTACCAAAAATCATGCAAAACTGAGTC-GGGGCCC
* * * * * * * *
2544 TGAA-ACGTATTTTCAGTCAAAAACCGTGAAGGGTTAGTAAACGATTACGGCTACAAACAGACCC
579 GGAACACGT-TTTT-AG-CAAAAACCGTG-ATGATTAGTACACGATTTCCGCTAAAAACTGACCC
*
2608 GA-AAA
640 GAGAAG
* * *
2613 TTTTTTTCTATATTTTTTG-CAAAATATTCAGAAAAA
1 TTTTTCTC-A-ATTTTTTGCCACAATACTCAGAAAAA
2649 CTCGTCTAAT
Statistics
Matches: 1632, Mismatches: 287, Indels: 162
0.78 0.14 0.08
Matches are distributed among these distances:
638 37 0.02
639 101 0.06
640 3 0.00
641 1 0.00
642 34 0.02
643 30 0.02
644 7 0.00
645 4 0.00
646 13 0.01
647 17 0.01
648 57 0.03
649 120 0.07
650 114 0.07
651 57 0.03
655 1 0.00
656 162 0.10
657 84 0.05
658 77 0.05
659 135 0.08
660 352 0.22
661 103 0.06
662 82 0.05
663 1 0.00
668 1 0.00
670 2 0.00
671 37 0.02
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (645 bp):
TTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACCCCAAAAGATTGAAAT
GGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAAA
AAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTCGATGAAT
ATAGATATTTCAAGGAGTCATTACGCCAAAAATCATGCAAAATTGAGTCGAGGCCCCGGAAAGCA
TTTTTAGCCAAAAACCGTGATGGAGTAAACGATTTTGGCTAAAATTTTGCAAAAATTGACCCGAA
AAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAATTG
AAGGGTTTTTCACGCTTCCAATATCGTTTTTCCATTTTTTCCGAATTTATTTCTAATTAAATCGA
AACAAGATTCAGATGCTCGTAAAAACAAATCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGA
ATATAGATATTTCAAGGAGTCTTTCTACCAAAAATCATGCAAAACTGAGTCGGGGCCCGGAACAC
GTTTTTAGCAAAAACCGTGATGATTAGTACACGATTTCCGCTAAAAACTGACCCGAGAAG
Found at i:3154 original size:14 final size:13
Alignment explanation
Indices: 3135--3176 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3125 GGTTTCCATG
3135 TTTCCAATTTCATT
1 TTTCCAATTT-ATT
*
3149 TTTCC-ATTTTTT
1 TTTCCAATTTATT
*
3161 TTTCGAATTTATT
1 TTTCCAATTTATT
3174 TTT
1 TTT
3177 AGTTAATTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
14 5 0.21
ACGTcount: A:0.17, C:0.14, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTCCAATTTATT
Found at i:4521 original size:661 final size:662
Alignment explanation
Indices: 2742--6309 Score: 5362
Period size: 660 Copynumber: 5.4 Consensus size: 662
2732 CCTTATATCT
* * * * * **
2742 AATTTTTTTCCGCAATACTCAGAAGA-ACTAAATTATTCAACCCCAAAAAATTAAAATGGTTTTT
1 AATTTTTTGCCACAATACTCTGAA-ATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCC
*** * * * * *
2806 AAACTTCCAATATCGTTTGTCCATTTTTTTTGAATTTATTTTTAGTTAAATCAAAACAAGATTCA
65 ACGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCA
* * *
2871 GATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTAATATTTGGCTAGATGAATATAGATAT
130 GATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATAT
*
2936 TTCAAGGAGTTTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTTG
195 TTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG-TTTTTTG
3001 CCAAAAACCGTGA-----AATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCC-GAAAAGT
259 CCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAAAAGT
* * **
3060 TTTTCCTCAATTTTTTGCCACAATACTCATAAAAACTATATTATTCAACCCCAAAAAATTAAAA-
324 TTTTCCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAAT
* * * * * * *
3124 GGGTTTCCATGTTTCCAATTTC-ATTTTTCCATTTTTTTTTCGAATTTATTTTTAGTTAATTCGA
389 GGTTTTTCATGCTTCCAATATCGTTTTTTGCA--TTTTTTTCGAATTTATTTTTAGTTAAATCGA
* ** *
3188 AACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCATTGTGGCTAAGATTTGGTTAGATG
452 AACAAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATG
* *
3253 AATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCAAGCAAAATTGACCCGGGGCTCCGGAAC
517 AATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAAC
* * * *
3318 GCGTTTTTTGCCAAAAACCGTGATGGTAACATACACGATTTCGG-TAAAATTTTACAAAAACTGA
582 GCGTTTTTTACC-AAAACCGTGATGGTTA-ATACACGATTTTGGCTAAAATTTTGCAAAAACTGA
*
3382 CCCGAAAAGTTTTTCCTC
645 CCAGAAAAGTTTTTCCTC
* * * *
3400 AATTTTTTGCCACAATAATCAGATGA-ACTATATTATTCAACCCC-AAAAATTAAAAGGGTTTTC
1 AATTTTTTGCCACAATACTCTGA-AATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCC
* * * * * *
3463 ACGCTTCCAATATCGTTTTTCCATTTTTTTAGGATTAATTTTTAGTTAAATCGAAACAAGATTCA
65 ACGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCA
3528 GATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATAT
130 GATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATAT
* * * * *
3593 TTCAAGGAGACTTTGTGCCAAAAATCAAGCAAAATTGAGTCGGGGCTCCGAAACACGTTTTTTGC
195 TTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTGC
*
3658 CAGAAACCGTGATGG-TAATACACGATTTCGGCTAAAATTTTGCAAAAACTGA-CCAGAAAAGTT
260 CAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAAAAGTT
*
3721 TTACCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATG
325 TTTCCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATG
* *
3786 GTATTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAAC
390 GTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
* *
3851 AAGATTCAGATGCTCGTAAAAACAAATCTCAAAAACCATTGTGGCTAATATTTGGTTAGATGAAT
455 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAAT
* * *
3916 ATAGATTTTTCAAGGAGTCTTTGCGCCAAAAATGAAGCAAAATTGAGACGGGGCTCCGGAACGCG
520 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG
*
3981 TTTTTTACCAGAAACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGTAAAAACTGACCAG
585 TTTTTTACCA-AAACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGCAAAAACTGACCAG
*
4046 AAAAGTATTTCCTC
649 AAAAGTTTTTCCTC
* * *
4060 AATTTTTTGACACAATACTCCGAAATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCAA
1 AATTTTTTGCCACAATACTCTGAAATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCCA
*
4125 CGTTTCCAATTTCATTTTTCCATTTTTTTTGAATTTATTTTTAGTTAAATCGAAACAAGATTCAG
66 CGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCAG
* * *
4190 ATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTAGGTTAGATGAATATAGATATT
131 ATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATATT
* * * *
4255 ACAAGGATTCTTTGCGCCAAAAATCAAACAAAATTGAGCCAGGGCTCCGGAACGCGTATTTTTGC
196 TCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGT-TTTTTGC
*
4320 CAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAG-AAAGTT
260 CAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAAAAGTT
* *
4384 TTTCCTCAATTTTTTGCCGCAATACTCAGATGATCTATATTATTCAACCCCAAAAAATTAAAATA
325 TTTCCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATG
4449 GTTTTTCATGCTTCCAATATCG-TTTTTGCA-TTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
390 GTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
*
4512 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATTTTTGGTTAGATGAAT
455 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAAT
* * * * * *
4577 ATAGATATTTCAATGAGTCTTTGCGCCATAAATCAAGAAAAAATGAGCCGGGGTTCCGGAACTC-
520 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG
* * * * * *
4641 TTTTTTGCCAAATACCGTGATGATTAATACACAATTTTAGCTAAAACTTTGCAAATACTGACCCA
585 TTTTTTACCAAA-ACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGCAAAAACTGA-CCA
* *
4706 -AATAGTTTTCCCTC
648 GAAAAGTTTTTCCTC
* * *
4720 AATTTTTTGCCACAATACTCTGAAAGACTATATTATTTAACCCCAAAAAAATGAAAAGGGTTTCC
1 AATTTTTTGCCACAATACTCTGAAATACTATATTATTCAACCCC-AAAAAATTAAAAGGGTTTCC
* * * *
4785 ACGTTTCCAATTTCATTATTCCA-TTTTTTCGTATCTATTTTTAGTTAAACCGAAACAAGATTCA
65 ACGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCA
* *
4849 GATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGATAT
130 GATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATAT
* * *
4914 TTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGTCGGTGCTCGGGAACGCGTTTTTTGC
195 TTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTGC
* *
4979 CATAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCC-GAAAAGTA
260 CAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAAAAGTT
*
5043 TTTCCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAAATAAAATG
325 TTTCCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATG
*
5108 GTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGCTAAATCGAAAC
390 GTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
** *
5173 AAGATTCAGATGCTCGTAAAAACAAATTTCAAAATCCATTGTGGCTAATATTTGGTTAAATGAAT
455 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAAT
* *
5238 ATAGATATTTCAAGGAGTCTTTGCGTCAAAAATCAAGCAAATTTGAGCCGGGGCTCCGGAACGCG
520 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG
* ** * *
5303 TTTTTTGCCCAAAACCGTGAAAGTTAATACACGATTTCGGCTAAAATTTTGTAAAAACTGACCCA
585 TTTTTT-ACCAAAACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGCAAAAACTGA-CCA
*
5368 AAAAAGTTTTTCCTC
648 GAAAAGTTTTTCCTC
5383 AATTTTTTGCCACAATACTCTGAAATACTATATTATTCAACCCC-AAAAATTAAAAGGGTTTCCA
1 AATTTTTTGCCACAATACTCTGAAATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCCA
** * *
5447 CAATTCCAATTTCATTTTT-CATTTTTTTCGAATTTATTTCTAGTTAATTCGAAACAAGATTCAG
66 CGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCAG
* * * *
5511 ATGCTCGTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGATAAATAAAGATATT
131 ATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATATT
* * * *
5576 TCAAGGAGTCTTTGCGCCAAAAATCAAGAAAAATTAAGCCGGGGCTTCGGAACGCGATTTTTGCC
196 TCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTGCC
* * * *
5641 AGAAACCGTGAT-GTTAATACAAGATTTCGGCTAAAATTTTTCAAAAACTGA-CCAGAGAAGTTT
261 AAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAAAAGTTT
* *
5704 TTCCTCAATTTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCC-AAAAATTAAATTT
326 TTCCTCAA-TTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATG
* *
5768 GTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCTAATTTATTTTTAGTTAAACCGAAAC
390 GTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
5833 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAAT
455 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAAT
*
5898 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGAAACGCG
520 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG
5963 TTTTTTACCAAAAACCGTGATGGTT-ATACACGA-TTTGGCTAAAATTTTGCAAAAACTGACCAG
585 TTTTTTACC-AAAACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGCAAAAACTGACCAG
6026 AAAAGTTTTTCCTC
649 AAAAGTTTTTCCTC
* * *
6040 AATTTTTTGCCACAAAACTCTGAAATACTATATTATTCAAACCCAAAAAATTAAAAGGTTTTCCA
1 AATTTTTTGCCACAATACTCTGAAATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCCA
* *
6105 CATTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAATTCGAAACAAGATTCAG
66 CGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCAG
* * * *
6170 ATGCTCGTAAAAACAATTCCTTAAATCTATTGTGGCTAAGAGTTGGTTAGATGAATATAGATATT
131 ATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATATT
* * * *
6235 TTAATGAGACTTTGCCCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAA--CG-TTTTTGCC
196 TCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTGCC
6297 AAAAACCGTGATG
261 AAAAACCGTGATG
6310 ATACACGA
Statistics
Matches: 2654, Mismatches: 225, Indels: 63
0.90 0.08 0.02
Matches are distributed among these distances:
656 38 0.01
657 249 0.09
658 100 0.04
659 329 0.12
660 878 0.33
661 787 0.30
662 85 0.03
663 184 0.07
664 4 0.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (662 bp):
AATTTTTTGCCACAATACTCTGAAATACTATATTATTCAACCCCAAAAAATTAAAAGGGTTTCCA
CGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAGATTCAG
ATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATAGATATT
TCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTGCC
AAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAAAAGTTT
TTCCTCAATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATGG
TTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACA
AGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATA
TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGT
TTTTTACCAAAACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGCAAAAACTGACCAGAA
AAGTTTTTCCTC
Found at i:4553 original size:992 final size:988
Alignment explanation
Indices: 2742--6309 Score: 5310
Period size: 992 Copynumber: 3.6 Consensus size: 988
2732 CCTTATATCT
* * * *
2742 AATTTTTTTCCGCAATACTCAGAAGAACTAAATTATTCAACCCCAAAAAATTAAAATGGTTTTTA
1 AATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATGGTTTTCA
** * * * *
2807 AACTTCCAATATCG-TTTGTCCATTTTTTTTGAATTTATTTTTAGTTAAATCAAAACAAGATTCA
66 TGCTTCCAATATCGTTTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAACAAGATTCA
** *
2871 GATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTAATATTTGGCTAGATGAATATAGATAT
131 GATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGATAT
* *
2936 TTCAAGGAGTTTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTTG
196 TTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG-TTTTTTA
* *
3001 CCAAAAACCGTGA-----AATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTT
260 CCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCAGAAAAGTA
* *
3061 TTTCCTCAATTTTTTGCCACAATACTCATAAAAACTATATTATTCAACCCCAAAAAATTAAAAGG
325 TTTCCTCAATTTTTTGCCACAATACTCAGAAATACTATATTATTCAACCCCAAAAAATTAAAAGG
* *
3126 GTTTCCATGTTTCCAATTTCATTTTTCCATTTTTTTTTCGAATTTATTTTTAGTTAATTCGAAAC
390 GTTTCCACGTTTCCAATTTCATTTTTCCA--TTTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
* **
3191 AAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCATTGTGGCTAAGATTTGGTTAGATGAAT
453 AAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAAGATTTGGTTAGATGAAT
* *
3256 ATAGATATTTCAAGGAGTCATTGCGCCAAAAATCAAGCAAAATTGACCCGGGGCTCCGGAACGCG
518 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCG
* *
3321 TTTTTTGCCAAAAACCGTGATGGTAACATACACGATTTCGG-TAAAATTTTACAAAAACTGACCC
583 TTTTTTGCCAAAAACCGTGATGGTTA-ATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCC
* *
3385 -GAAAAGTTTTTCCTCAATTTTTTGCCACAATAATCAGATGAACTATATTATTCAACCCCAAAAA
647 AG-AAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGATGATCTATATTATTCAACCCCAAAAA
* * *
3449 TTAAAAGGGTTTTCACGCTTCCAATATCGTTTTTCCATTTTTTTAGGATTAATTTTTAGTTAAAT
711 TTAAAAGGGTTTTCACGCTTCCAATATCGTTTTT-CATTTTTTTCGAATTTATTTTTAGTTAAAT
3514 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAG
775 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAG
* * * * *
3579 ATGAATATAGATATTTCAAGGAGACTTTGTGCCAAAAATCAAGCAAAATTGAGTCGGGGCTCCGA
840 ATGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGAAAAATTGAGCCGGGGCTCCGG
*
3644 AACACGTTTTTTGCCAGAAACCGTGATGGTAATACACGATTTCGGCTAAAATTTTGCAAAAACTG
905 AACACGTTTTTTGCCAGAAACCGTGATGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTG
3709 ACCAGAAAAGTTTTACCTC
970 ACCAGAAAAGTTTTACCTC
3728 AATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATGGTATTTC
1 AATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATGGT-TTTC
*
3793 ATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAACAAGATTC
65 ATGCTTCCAATATCGTTTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAACAAGATTC
* * *
3858 AGATGCTCGTAAAAACAAATCTCAAAAACCATTGTGGCTAATATTTGGTTAGATGAATATAGATT
130 AGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGATA
* *
3923 TTTCAAGGAGTCTTTGCGCCAAAAATGAAGCAAAATTGAGACGGGGCTCCGGAACGCGTTTTTTA
195 TTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTA
* * *
3988 CCAGAAACCGTGATGGTTAATACACGATTTTGGCTAAAATTTTGTAAAAACTGACCAGAAAAGTA
260 CCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCAGAAAAGTA
* *
4053 TTTCCTCAATTTTTTGACACAATACTCCGAAATACTATATTATTCAACCCCAAAAAATTAAAAGG
325 TTTCCTCAATTTTTTGCCACAATACTCAGAAATACTATATTATTCAACCCCAAAAAATTAAAAGG
* *
4118 GTTTCAACGTTTCCAATTTCATTTTTCCATTTTTTTTGAATTTATTTTTAGTTAAATCGAAACAA
390 GTTTCCACGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAA
* *
4183 GATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTAGGTTAGATGAATAT
455 GATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAAGATTTGGTTAGATGAATAT
* * * *
4248 AGATATTACAAGGATTCTTTGCGCCAAAAATCAAACAAAATTGAGCCAGGGCTCCGGAACGCGTA
520 AGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGT-
*
4313 TTTTTGCCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAG
584 TTTTTGCCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAG
*
4378 AAAGTTTTTCCTCAATTTTTTGCCGCAATACTCAGATGATCTATATTATTCAACCCCAAAAAATT
649 AAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGATGATCTATATTATTCAACCCC-AAAAATT
* * *
4443 AAAATAGTTTTTCATGCTTCCAATATCGTTTTTGCA-TTTTTTCGAATTTATTTTTAGTTAAATC
713 AAAA-GGGTTTTCACGCTTCCAATATCGTTTTT-CATTTTTTTCGAATTTATTTTTAGTTAAATC
* **
4507 GAAACAAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATTTTTGGTTAGA
776 GAAACAAGATTCAGATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGA
* * * *
4572 TGAATATAGATATTTCAATGAGTCTTTGCGCCATAAATCAAGAAAAAATGAGCCGGGGTTCCGGA
841 TGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGAAAAATTGAGCCGGGGCTCCGGA
* * ** * *
4637 ACTC-TTTTTTGCCA-AATACCGTGATGATTAATACACAATTTTAGCTAAAACTTTGCAAATACT
906 ACACGTTTTTTGCCAGAA-ACCGTGATG-TTAATACACGATTTCGGCTAAAATTTTGCAAAAACT
* *
4700 GACCCA-AATAGTTTTCCCTC
969 GA-CCAGAAAAGTTTTACCTC
* * * * * * *
4720 AATTTTTTGCCACAATACTCTGA-AAGACTATATTATTTAACCCCAAAAAAATGAAAAGGGTTTC
1 AATTTTTTGCCGCAATACTCAGATGA-ACTATATTATTCAACCCC-AAAAAATTAAAATGGTTTT
* * * * * * *
4784 CACGTTTCCAATTTC-ATTATTCCA-TTTTTTCGTATCTATTTTTAGTTAAACCGAAACAAGATT
64 CATGCTTCCAATATCGTTTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAACAAGATT
4847 CAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGAT
129 CAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGAT
* * *
4912 ATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGTCGGTGCTCGGGAACGCGTTTTTT
194 ATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTT
* * *
4977 GCCATAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAGT
259 ACCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCAGAAAAGT
* * *
5042 ATTTCCTCAATTTTTTGCCGCAATACTCAGATGA-ACTATATTATTCAACCCCAAAAAAATAAAA
324 ATTTCCTCAATTTTTTGCCACAATACTCAGA-AATACTATATTATTCAACCCCAAAAAATTAAAA
* * * * * * * *
5106 TGGTTTTTCATGCTTCCAATATCGTTTTTTGCATTTTTTTCGAATTTATTTTTAGCTAAATCGAA
388 -GGGTTTCCACGTTTCCAATTTC-ATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAA
** * *
5171 ACAAGATTCAGATGCTCGTAAAAACAAATTTCAAAATCCATTGTGGCTAATATTTGGTTAAATGA
451 ACAAGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAAGATTTGGTTAGATGA
* *
5236 ATATAGATATTTCAAGGAGTCTTTGCGTCAAAAATCAAGCAAATTTGAGCCGGGGCTCCGGAACG
516 ATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACG
* ** *
5301 CGTTTTTTGCCCAAAACCGTGAAAGTTAATACACGATTTCGGCTAAAATTTTGTAAAAACTGACC
581 CGTTTTTTGCCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACC
* * *
5366 CAAAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCTGA-AATACTATATTATTCAACCCCAAA
646 C-AGAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGATGAT-CTATATTATTCAACCCCAAA
* ** * * * *
5430 AATTAAAAGGGTTTCCACAATTCCAATTTCATTTTTCATTTTTTTCGAATTTATTTCTAGTTAAT
709 AATTAAAAGGGTTTTCACGCTTCCAATATCGTTTTTCATTTTTTTCGAATTTATTTTTAGTTAAA
* *
5495 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTA
774 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTA
* * * *
5560 GATAAATAAAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGAAAAATTAAGCCGGGGCTTCG
839 GATGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGAAAAATTGAGCCGGGGCTCCG
* * * *
5625 GAACGCGATTTTTGCCAGAAACCGTGATGTTAATACAAGATTTCGGCTAAAATTTTTCAAAAACT
904 GAACACGTTTTTTGCCAGAAACCGTGATGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACT
* *
5690 GACCAGAGAAGTTTTTCCTC
969 GACCAGAAAAGTTTTACCTC
* *
5710 AATTTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCC-AAAAATTAAATTTGTTTTT
1 AA-TTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAA-ATGGTTTT
* *
5774 CATGCTTCCAATATCGTTTTTTGCATTTTTTTCTAATTTATTTTTAGTTAAACCGAAACAAGATT
64 CATGCTTCCAATATCGTTTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAACAAGATT
5839 CAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGAT
129 CAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGAT
*
5904 ATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGAAACGCGTTTTTT
194 ATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTT
5969 ACCAAAAACCGTGATGGTT-ATACACGATTT-GGCTAAAATTTTGCAAAAACTGACCAGAAAAGT
259 ACCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCAGAAAAGT
* * * *
6032 TTTTCCTCAATTTTTTGCCACAAAACTCTGAAATACTATATTATTCAAACCCAAAAAATTAAAAG
324 ATTTCCTCAATTTTTTGCCACAATACTCAGAAATACTATATTATTCAACCCCAAAAAATTAAAAG
* * *
6097 GTTTTCCACATTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAATTCGAAACA
389 GGTTTCCACGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACA
* ** * *
6162 AGATTCAGATGCTCGTAAAAACAATTCCTTAAATCTATTGTGGCTAAGAGTTGGTTAGATGAATA
454 AGATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAAGATTTGGTTAGATGAATA
* * * *
6227 TAGATATTTTAATGAGACTTTGCCCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAA--CG-
519 TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGT
6289 TTTTTGCCAAAAACCGTGATG
584 TTTTTGCCAAAAACCGTGATG
6310 ATACACGA
Statistics
Matches: 2316, Mismatches: 234, Indels: 65
0.89 0.09 0.02
Matches are distributed among these distances:
985 18 0.01
986 59 0.03
987 34 0.01
988 308 0.13
989 32 0.01
990 758 0.33
991 284 0.12
992 779 0.34
993 44 0.02
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (988 bp):
AATTTTTTGCCGCAATACTCAGATGAACTATATTATTCAACCCCAAAAAATTAAAATGGTTTTCA
TGCTTCCAATATCGTTTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAACCGAAACAAGATTCA
GATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAATATTTGGTTAGATGAATATAGATAT
TTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTTTTTAC
CAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCAGAAAAGTAT
TTCCTCAATTTTTTGCCACAATACTCAGAAATACTATATTATTCAACCCCAAAAAATTAAAAGGG
TTTCCACGTTTCCAATTTCATTTTTCCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAACAAG
ATTCAGATGCTCGTAAAAACAAATCCCAAAATCCATTGTGGCTAAGATTTGGTTAGATGAATATA
GATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGCAAAATTGAGCCGGGGCTCCGGAACGCGTTT
TTTGCCAAAAACCGTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCAGAA
AGTTTTTCCTCAATTTTTTGCCACAATACTCAGATGATCTATATTATTCAACCCCAAAAATTAAA
AGGGTTTTCACGCTTCCAATATCGTTTTTCATTTTTTTCGAATTTATTTTTAGTTAAATCGAAAC
AAGATTCAGATGCTCGTAAAAACAAATCCCTAAATCCATTGTGGCTAAGATTTGGTTAGATGAAT
ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCAAGAAAAATTGAGCCGGGGCTCCGGAACACG
TTTTTTGCCAGAAACCGTGATGTTAATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCAGA
AAAGTTTTACCTC
Done.