Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001821.1 Kokia drynarioides strain JFW-HI SEQ_113563, 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: 7078
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.40
Warning! 94 characters in sequence are not A, C, G, or T
Found at i:691 original size:216 final size:217
Alignment explanation
Indices: 1--1801 Score: 1612
Period size: 216 Copynumber: 8.3 Consensus size: 217
* * * * *
1 CTTAAATTATTCAAGCCGATCC-TATCCTTCGACCAGTTTTTCGAACATTCAATGCTCGAAAAAT
1 CTTAAAGTATTCAAGACGATCCAT-TCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAAT
* * * * * *
65 CG-CATTATTTGGTCTAAATAATTTGTCAATTCGTAAACAACTTTTGCTCTTTCAATTAAAAACT
65 CGACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACT
* * * * *
129 TATTTACGTGAGAACTGTTTCTCTCTTTGTTCTTGG-CTGAACTTTCGAACTTGTC-AACCTTTT
130 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC-GAACTTCCGAACTTGTCAAACATTTA
**
192 ATGAGTTCTTTTATAACTTCAGTTC
194 AT-AGTTCTTTTATAACTTTGGTTC
* * * * * * *
217 CTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTCCGAACATTCTACGCTAGGGAAATC
1 CTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAATC
* * * *
282 G-CATCGTTTGGTCTAAATAGTTTTTCATTTTGTAATCAACTTTTTGTCTTTGAATTAAAAA--T
66 GACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTT
* * * * ** * *
344 ATTTACATTACAATTGTTTCCCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAACTTTTTAT
131 ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAAT
* *
409 CAGTTCCTTTATAACTTAGGTTC
196 -AGTTCTTTTATAACTTTGGTTC
* * ** * ** *
432 CTTAAACTATTAAAGGTGATCCATTCCTTTGTGCAATTTTTCGAGCATTCCATGCTCGAGAAAT-
1 CTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAATC
* * * * *
496 GACATCATTTGGTCTAAATAGGTTATCATTCTCTAAACAATTTTTGGTCTTTGAATTAAAAACTT
66 GACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTT
* ** *
561 ATTTACGTGAGAATTGTTTCTCTCATGGTGT-TTGGACGAACTTCCGTTCTTG-CGGAACATTTA
131 ATTTACGTGAGAATTGTTTCTCTCTTGGT-TCTTGGACGAACTTCCGAACTTGTC-AAACATTTA
* * **
624 ATAGCTCTTTTGTAACTTAAGTTC
194 ATAGTTCTTTTATAACTTTGGTTC
* * * * *
648 CTGAGAGTACTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACTTTCCATGCTCG-GGAATC
1 CTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAATC
* * * * * * * * * *
712 -ATATCATTCGGTTTAAAAATTTTGCCATTATGTAAACAACTTTTAGTCTTCGAATTAAAAACCT
66 GACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTT
* * * * * * * **
776 ATTTACGTGAGAATTGTTTCTCTTTTGGTTCTAGGACGAACTTACAAACTAGTCGAACTTTTACG
131 ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAAT
841 AGTTCTTTTATAACTTTGGTTC
196 AGTTCTTTTATAACTTTGGTTC
* * ** * * *
863 CTCAAAGTATTCAAGACTATCCATTCCTTTAAGCC-A-TTTTCTGAACATTACGTGCTTCG-GGA
1 CTTAAAGTATTCAAGACGATCCATTCCTTCGA-CCAATTTTTC-GAACATTCCATGC-TCGAGAA
* * * * *
925 ATCGA-AT-ATTTTGGTCTAAATAGTTTGTGATTTTGTAAACAAATTTTTGTCTTTCAATGAAAA
63 ATCGACATCA-TTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * *
988 ACTTATTTACGTGAGAATTGTTTCACTCTTGGTTCTCGGACGAACTTACGAACTAGTCAAACTTT
127 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATT
** * * *
1053 TACGAGTTATTTTACAAATTTGGTTC
192 TAATAGTTCTTTTATAACTTTGGTTC
* * * *
1079 CTTAAAGTATTCAAGACTATCCATTCATTTGAGCC-ATTTTTCGAACATTCCATGCTCAAGAAAT
1 CTTAAAGTATTCAAGACGATCCATTCCTTCGA-CCAATTTTTCGAACATTCCATGCTCGAGAAAT
* * *
1143 CGA-ATCATTAGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTCGGTCTTTAAATTAAAAACT
65 CGACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACT
* ** * * * *
1207 TTTTTACGTGAGAATTGTTTCTCTCTCAGTTCTTGGATGAACTTCTGAACTTTTCAAAAATTT-A
130 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAA
1271 TAAGTTCTTTTATAACTTTGGTTC
195 T-AGTTCTTTTATAACTTTGGTTC
* * * * * * * *
1295 C-TAATAGTATTTAAGAAGATGCATTCCTTCAACCAATTTTTCGAACATTTCAT-TTAGAAAAAT
1 CTTAA-AGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAAT
* * * * * * *
1358 TG-CATCATTTGGTCAAAATAGTTTGTCATATCGTAAACAACTTTTGGTGTTTGAATTTAAAATT
65 CGACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACT
* * ** * * *
1422 TATTTGCATGAGAATAT-TTTCTCTCTTGGTTCTTGGATTAACTTTC-ATACTTTTCAAAAATTT
130 TATTTACGTGAGAAT-TGTTTCTCTCTTGGTTCTTGGACGAACTTCCGA-ACTTGTCAAACATTT
1485 ACA-AGTTCTTTTATTATAACTTTGGTT-
193 A-ATAGTTC--TT-TTATAACTTTGGTTC
* * * * * *** * * *
1512 CTTCAGAGAATTAAAGGCGATCCATTCCTTTGTGAAAATTTTCAAACATTCCATGCTCGGGAAAT
1 CTT-AAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAAT
*
1577 CG-CATCATTTGGTCTAAATAGTTTATCATTTTGTAAA-AACCTTTTGGTCTTTGAATTAAAAAC
65 CGACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAAAAAC
* * * * * *
1640 TTATTTACATGA-AGATTATTTCTCTGTTGGTTCTTGGACGAACTTCAGAACTTGCCAAATATTT
129 TTATTTACGTGAGA-ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTT
** * *
1704 ACCAGTTCTTTTATAACTTCGGTTT
193 AATAGTTCTTTTATAACTTTGGTTC
* * * * ** * * * * *
1729 CTGAGAGCATTAAAGTTGACCCATTCTTTCGACTAATTTTTCGAGCATTCCATGCTCGGGAAATC
1 CTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAATC
1794 -ACATCATT
66 GACATCATT
1802 CATTCTAAAT
Statistics
Matches: 1290, Mismatches: 255, Indels: 80
0.79 0.16 0.05
Matches are distributed among these distances:
214 52 0.04
215 414 0.32
216 588 0.46
217 66 0.05
218 55 0.04
219 114 0.09
220 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (217 bp):
CTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGAGAAATC
GACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTT
ATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACATTTAAT
AGTTCTTTTATAACTTTGGTTC
Found at i:853 original size:431 final size:430
Alignment explanation
Indices: 37--6247 Score: 3581
Period size: 431 Copynumber: 14.5 Consensus size: 430
27 CTTCGACCAG
* * * *
37 TTTTTCGAACATTCAATGCTCGAAAAATCG-CATTATTTGGTCTAAATAATTTGTCAATTCGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTC-ATTCGTAA
* * *
101 ACAACTTTTGCTCTTTCAATTAAAAACTTATTTACGTGAGAACTGTTTCTCTCTTTGTTCTTGG-
64 ACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * *
165 CTGAACTTTCGAACTTGTC-AACCTTTTATGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTC
129 C-GAACTTTCGAACTTGTCAAACATTTAAT-AGCTCTTTTATAACTTTAGTTCCTTAAAGTATTC
* * * * * * * *
229 AAGACGATTCATTCCTTCGAGCAATTTTCCGAACATTCTACGCTAGGGAAATCGCATCGTTTGGT
192 AAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGT
* * * * * *
294 CTAAATAGTTTTTCATTTTGTAATCAACTTTTTGTCTTTGAATTAAAAA--TATTTACATTACAA
257 CTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAA
* * *
357 TTGTTTCCCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAACTTTTTATCAGTTCCTTTATA
322 TTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAA-ATTTTA-CAGTTCTTTTATA
* * **
422 ACTTAGGTTCCTTAAACTATTAAAGGTGATCCATTCCTTTGTGCAA
385 ACTTTGGTTCCTTAAACTATTAAAGATGATCCATTCCTTTAAGCAA
* * * *
468 TTTTTCGAGCATTCCATGCTCGAGAAATGACATCATTTGGTCTAAATAGGTTATCATTCTCTAAA
1 TTTTTCGAACATTCCATGCTCGAGAAATGACATCATTTGGTCTAAATAGTTTGTCATTC-GTAAA
* * *
533 CAATTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTGT-TTGGA
65 CAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT-TCTTGGA
* ** * * * * * *
597 CGAACTTCCGTTCTTG-CGGAACATTTAATAGCTCTTTTGTAACTTAAGTTCCTGAGAGTACTCA
129 CGAACTTTCGAACTTGTC-AAACATTTAATAGCTCTTTTATAACTTTAGTTCCTTAAAGTATTCA
* * * *
661 AGACGATCCATTCCTTCGACCAATTTTTCGAACTTTCCATGCTCGGG-AATCATATCATTCGGTT
193 AGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTC
* * * * * * *
725 TAAAAATTTTGCCATTATGTAAACAACTTTTAGTCTTCGAATTAAAAACCTATTTACGTGAGAAT
258 TAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAAT
* * * * *
790 TGTTTCTCTTTTGGTTCTAGGACGAACTTAC-AAACTAGTCGAACTTTTACGAGTTCTTTTATAA
323 TGTTTCTCTCTTGGTTCTTGGACGAACTT-CTAAACTTGTCAAAATTTTAC-AGTTCTTTTATAA
* * * *
854 CTTTGGTTCCTCAAAGTATTCAAGACT-ATCCATTCCTTTAAGCCA
386 CTTTGGTTCCTTAAACTATTAAAGA-TGATCCATTCCTTTAAGCAA
* * * * *
899 -TTTTCTGAACATTACGTGCTTCG-GGAATCGA-AT-ATTTTGGTCTAAATAGTTTGTGATTTTG
1 TTTTTC-GAACATTCCATGC-TCGAGAAAT-GACATCA-TTTGGTCTAAATAGTTTGTCA-TTCG
* * * * *
960 TAAACAAATTTTTGTCTTTCAATGAAAAACTTATTTACGTGAGAATTGTTTCACTCTTGGTTCTC
61 TAAACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT
* * * ** * * * * *
1025 GGACGAACTTACGAACTAGTCAAACTTTTACGAGTTATTTTACAAATTTGGTTCCTTAAAGTATT
126 GGACGAACTTTCGAACTTGTCAAACATTTAATAGCTCTTTTATAACTTTAGTTCCTTAAAGTATT
* * * ** *
1090 CAAGACTATCCATTCATTTGAGCC-ATTTTTCGAACATTCCATGCTCAAGAAATCGA-ATCATTA
191 CAAGACGATCCATTCCTTCGA-CCAATTTTTCGAACATTCCATGCTCGGGAAATC-ACATCATTT
* * * * *
1153 GGTCTAAATAGTTTGTCATTTTGTAAACAACTTTCGGTCTTTAAATTAAAAACTTTTTTACGTGA
254 GGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
** * * *
1218 GAATTGTTTCTCTCTCAGTTCTTGGATGAACTTCTGAACTTTTCAAAAATTTATA-AGTTCTTTT
319 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTC-AAAATTT-TACAGTTCTTTT
* * * * * *
1282 ATAACTTTGGTTCC-TAATAGTATTTAAGAAGATGCATTCCTTCAACCAA
382 ATAACTTTGGTTCCTTAA-ACTATTAAAGATGATCCATTCCTTTAAGCAA
* * * * *
1331 TTTTTCGAACATTTCAT-TTAGAAAAATTG-CATCATTTGGTCAAAATAGTTTGTCATATCGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAA-TGACATCATTTGGTCTAAATAGTTTGTCAT-TCGTAA
* * * * * *
1394 ACAACTTTTGGTGTTTGAATTTAAAATTTATTTGCATGAGAATAT-TTTCTCTCTTGGTTCTTGG
64 ACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAAT-TGTTTCTCTCTTGGTTCTTGG
** * * * * *
1458 ATTAACTTTC-ATACTTTTCAAAAATTTACA-AGTTCTTTTATTATAACTTTGGTT-CTTCAGAG
128 ACGAACTTTCGA-ACTTGTCAAACATTTA-ATAG--CTCTT-TTATAACTTTAGTTCCTT-AAAG
* * * * *** * * *
1520 AATTAAAGGCGATCCATTCCTTTGTGAAAATTTTCAAACATTCCATGCTCGGGAAATCGCATCAT
187 TATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCAT
* *
1585 TTGGTCTAAATAGTTTATCATTTTGTAAA-AACCTTTTGGTCTTTGAATTAAAAACTTATTTACA
252 TTGGTCTAAAAAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAAAAACTTATTTACA
* * *
1649 TGA-AGATTATTTCTCTGTTGGTTCTTGGACGAACTTC-AGAACTTG-CCAAATATTTACCAGTT
316 TGAGA-ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTA-AACTTGTCAAAAT-TTTA-CAGTT
* * * * * * *
1711 CTTTTATAACTTCGGTTTCTGAGAGC-ATTAAAGTTGACCCATT-CTTT-CGACTAA
377 CTTTTATAACTTTGGTTCCTTA-AACTATTAAAGATGATCCATTCCTTTAAG-C-AA
* * * *** ** *
1765 TTTTTCGAGCATTCCATGCTCGGGAAATCACATCATTCATTCTAAAT-GTTTGGGAAATCGT---
1 TTTTTCGAACATTCCATGCTCGAGAAATGACATCATTTGGTCTAAATAGTTT-GTCATTCGTAAA
* * * *
1826 -ATCGTTTGG----TC---T----A---A---A--T----A--GTTT-T-TCAT-G-T-TTGGGC
65 CAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * * ** * * * *
1860 GAACTTCT-AAACTTGTCAAACTTTTTATCAATTCATTTCTAACTTCT-GTTCCTAAAACTA-TC
130 GAACTT-TCGAACTTGTCAAACATTTAAT-AGCTCTTTTATAACTT-TAGTTCCTTAAAGTATTC
** * * ** * *
1922 AGAGGTGATCCATCCCTTTGTGCAATTTTTC-AAGCATTCCATGCTCGAGAAATCGCATCATTTG
192 A-AGACGATCCATTCCTTCGACCAATTTTTCGAA-CATTCCATGCTCGGGAAATCACATCATTTG
* *
1986 GTCTAAATAA-TTTGTCAGTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGA
255 GTCTAAA-AAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
**** * ** *
2050 GAATTGTTTCTCTCCCAATTCTTGGATGAACTTC--AAC----CAATTTTTTGA-A---C---CA
319 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAAATTTT-ACAGTTCTTTTA
** * * * * *
2102 -ATTTTTGGTTCC-TAATAGTATTTAAGAAGATGCC-TTCCTTCAACCAA
383 TAACTTTGGTTCCTTAA-ACTATTAAAGATGAT-CCATTCCTTTAAGCAA
* * * * * * *
2149 TTTTTTGAACAGTCCATCCTCGAAAAATTG-CTTCATTTGGTCAAAATAGTTTGTCATATGGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAA-TGACATCATTTGGTCTAAATAGTTTGTCAT-TCGTAA
* * * * * *
2213 ACAACTTTTGGTGTTTGAATTTAAAATTTATTTGCATGAGAATAT-TTTCTC-CTTTGGTTCTTG
64 ACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAAT-TGTTTCTCTC-TTGGTTCTTG
** ** * * *
2276 GATTAACTTTAAAACTTTTCCAAA-ATTTACA-A-CTTCTTTTATTATAACTTTGGTT-CTTGAG
127 GACGAACTTTCGAACTTGT-CAAACATTTA-ATAGC-TC--TT-TTATAACTTTAGTTCCTT-AA
* * * *
2337 AGTATTAAAGATGATCCATTCCTTTGTA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGCAT
185 AGTATTCAAGACGATCCATTCCTTCG-ACCAATTTTTCGAACATTCCATGCTCGGGAAATCACAT
* *
2401 CATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AACCTATTGGTCTTTGAATTAAAAACTTATTT
249 CATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAAAAACTTATTT
* * *
2465 ACATGAGGATTGTTTCTCTC-TGGTTCTTGGACGAACTTC-AGAACTTGTC-AACTATTTACCTG
313 ACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTA-AACTTGTCAAAAT-TTTA-CAG
** * * * * * *
2527 TTCTTTTATTTCTTCGATTTC-TAAGAGCT-TTAAAGGTGACCCATTCCTTTGA-CAAA
375 TTCTTTTATAACTTTGGTTCCTTAA-A-CTATTAAAGATGATCCATTCCTTTAAGC-AA
* *** * * *
2583 TTTTTC-AAGCATTCCATGCTCTG-GAAATTG-CATTATTCATTCTAAAT-GTTTTTTAATTTTG
1 TTTTTCGAA-CATTCCATGCTC-GAGAAA-TGACATCATTTGGTCTAAATAG-TTTGTCA-TTCG
* * * * *
2644 TAAACAACTTTTGGTCTTTGAATT-GAAA---A-TTACGTGAAAATTGTTTCTCTCTTTGTTTTT
61 TAAACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT
* * * ** ** * * ** *
2704 GGATGAACTTCCGAGCTTGTCAAATTTTTACGAG-TTTTTTTTAAACTTCGGTTCCTTAAATTAT
126 GGACGAACTTTCGAACTTGTCAAACATTTAATAGCTCTTTTAT-AACTTTAGTTCCTTAAAGTAT
* * *
2768 TCAAGCCGATCC-TATCCTTCGACTAGA-TTTTCGAACATTCAATGCTCAGAAAATCGCATTATT
190 TCAAGACGATCCAT-TCCTTCGACCA-ATTTTTCGAACATTCCATG--C------TCG-------
* * * * *
2831 TGGTCTAAATCGCATTATTTGGTCTAAATAGTTTGTCATTTCGTAAACAACTTTTGCTCTTTGAA
238 -GG---AAATCACATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAA
* * * * * *
2896 TAAAAAACTTATTTACGTCAGAACTGTTTCTCTCTTTGTTCTTGG-CTGAACTT-TCGAACTTGT
299 TTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGAC-GAACTTCT-AAACTTGT
** * ** * * ** **
2959 CAAGCTTTTATGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGGCGATCCATTCCTTCG
362 CAAAATTTTA-CAGTTCTTTTATAACTTTGGTTCCTTAAACTATTAAAGATGATCCATTCCTTTA
3024 AGCAA
426 AGCAA
* * * * * * * *
3029 TTTTTTGAACATTCTACGCAT-GGGAAATCG-GATCGTTTGGTCTAAATAGTTTTTCATTTTGTA
1 TTTTTCGAACATTCCATGC-TCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTCA-TTCGTA
* * * * * *
3092 ATCAACTTTTCGTCTTTGAATTAAAAA--TATTTACATGACAATTGTTTCTCTCTTGGTGCTTGG
63 AACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * * * * * * *
3155 GCGAAC-ATCTAAACTTCTCAAA-ATTTTTATCAGTTCCTTTATAAC-TTCGATTCCTTAAACTA
128 ACGAACTTTC-GAACTTGTCAAACA-TTTAAT-AGCTCTTTTATAACTTTAG-TTCCTTAAAGTA
* ** * * ** * *
3217 TTAAAGGTGATTCATTCCTTTGTGC-ATATTTTC-AAGCATTCCATGCTCGAGAAATGACATCAT
189 TTCAAGACGATCCATTCCTTCGACCAAT-TTTTCGAA-CATTCCATGCTCGGGAAATCACATCAT
* * * ** * *
3280 TTGGTCTAAATAGGTTATCATTTTCAAAACAATTTTTGGTCTTTGAATT-AAAACTTATTTACGT
252 TTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACAT
** * * *** * * * *
3344 GAGAATTGTTTCTCTAATGGTTTTTGGATGAACTTCCGTACTTG-CGGAACATTTAATAGCTCTT
317 GAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTC--AAAATTTTACAGTTCTT
* ** * * * * * * * *
3408 TTGTAACTTAAGTTCCTGAGAGTACTCAAGACGATCCATT-CTTTCGACCAA
380 TTATAACTTTGGTTCCTTAAACTATTAAAGATGATCCATTCCTTT-AAGCAA
* * * * * * * *
3459 TTTTTTGAACTTTCCACGCTCGAG-AATCG-TATCATTCGGTCTGAAA-ACTTTGTTATTATGTA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCT-AAATAGTTTGTCATT-CGTA
* * * * * *
3521 AACAAATTTTAGT-GTTCGAACTAAAAACCTATTTACGTGAGAATTGTTTCTCT-TGTGGTTCTA
63 AACAACTTTTGGTCTTTC-AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTT
* * * * ** * * *
3584 GGACGAACTTACGAACTAGTCGAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTCAAAGTATT
126 GGACGAACTTTCGAACTTGTCAAACATTTAATAGCTCTTTTATAACTTTAGTTCCTTAAAGTATT
* * * * * * * *
3649 CAAGACTAT-CAATCATTTGAGCC-ATTTTTTGAATATTCCATGCTTC-GAAAATCGCATC-TTC
191 CAAGACGATCCATTCCTTCGA-CCAATTTTTCGAACATTCCATGC-TCGGGAAATCACATCATT-
* * * * * *
3710 TGGTCTAAATAGTTTGTGATTTTGTAAACAAATTTTGGTCTTTAAATTAAATACTTATTTACGTG
253 TGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATG
* * * * *
3775 AGAATTGTTTCTCTCTTGGTTCTCGGACGAACTTAC-GAACTAGCCAAACTTTTACGAGTTCTTT
318 AGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CTAAACTTGTCAAAATTTTAC-AGTTCTTT
* * * * *
3839 TA-ATACTTTGGTTCCTTAAAGTATTCAAGACTG-TCCATTCATTTGAGCTA
381 TATA-ACTTTGGTTCCTTAAACTATTAAAGA-TGATCCATTCCTTTAAGCAA
* * * *
3889 TTTTACGAGCATTCCATGCTCGAGAAATCG-CATCATTTGGTCTAAATAATTTGTCATTTTGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTCA-TTCGTAA
* ***
3953 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCCCAGTTCTTGGA
64 ACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * * * *
4018 TGAACTTCCGAACTTTTCAAAAAATTTACA-AGTTCTTTTATAACTTTGGTTCC-TAATAGTATT
129 CGAACTTTCGAACTTGTC-AAACATTTA-ATAGCTCTTTTATAACTTTAGTTCCTTAA-AGTATT
* * * * * * ** *
4081 TAATTA-GATGCC-TTCCATCAACCAATTTTTCGAACATTCCATTCTCGGAAAATTGCATCGTTT
191 CAA-GACGAT-CCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTT
* * * * * *
4144 GGTC-AAAATAGTTTGTCATATGGTAAACAACTTTTGGTGTTTGAATTTAAAATTTATTTGCATG
254 GGTCTAAAA-AGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATG
** * *
4208 AGAATAT-TTTCTCTCTTGGTTCTTGGATTAACTT-TCAAACTTTTCAAAAATTTACAAGTTCTT
318 AGAAT-TGTTTCTCTCTTGGTTCTTGGACGAACTTCT-AAACTTGTCAAAATTTTAC-AGTTC--
* * * * **
4271 TTATTATAACTTTGGTT-CTTGAGAGTATTAATGACGATCCATTCCTTTGTGCAA
378 TT-TTATAACTTTGGTTCCTT-AAACTATTAAAGATGATCCATTCCTTTAAGCAA
* *
4325 TTTTTCAAACATTCCATGCTC-ATGAAATCG-CATCATTTGGTCTAAATAGTTTGTCATTTTGTA
1 TTTTTCGAACATTCCATGCTCGA-GAAAT-GACATCATTTGGTCTAAATAGTTTGTCA-TTCGTA
* * *
4388 AA-AACCTATTGGTCTTTGAATTAAAAACTTATTTACGTGAGGATTGTTTCTCTCTTGGTTCTTG
63 AACAA-CTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
* ** * * * * * *
4452 GACGAAC-TTCAAAACTTGTCAAACATTTACCAGTTCTTTTATAAC-TTCGATTTCTGAGAGCAT
127 GACGAACTTTC-GAACTTGTCAAACATTTAATAGCTCTTTTATAACTTTAG-TTCCTTAAAGTAT
* * * * * * **
4515 TAAAGATGACCCATTCCTTCGACTAATTTTTCGATCATTCCATGCTCGGGAAATCGCATCATTCA
190 TCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTG
* * * * ** * ** *
4580 TTCT-AAATGTTTTTTAATTTTGTAAATGACTTTTCGTCTTTGAATTGTAAACTTATTTACGTGA
255 GTCTAAAAAG-TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
* * * * *
4644 GAATTGTTTCTCT-TATGGTTTTTGGACGAACTTGCGT--ACTTG-CGAACATTTAATAGCTCTT
319 GAATTGTTTCTCTCT-TGGTTCTTGGACGAACTT-C-TAAACTTGTC-AAAATTTTACAGTTCTT
* ** * * * * * * ** *
4705 TTGTAACTTAAGTTCCTGATAGTACTCAAGACGATCCATTCCTTCGACCAA
380 TTATAACTTTGGTTCCTTAAACTATTAAAGATGATCCATTCCTTTAAGCAA
* * * * * * * * *
4756 TTTTTCAAACTTTCCATGCTCG-GGAATCG-TATCATTCGATCTAAAAACTTTGTCATTATGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTCATT-CGTAA
* * *
4819 ACAACTTCTAGTC-TTCGAATTAAAAACCTATTTACGTGAGAATTGTTTCTCT-TGTGGTTC-T-
64 ACAACTTTTGGTCTTTC-AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTTG
* ** * *
4880 -A-G-TC-TTCG-A---G------------T---TCTTTTATAGTTTTGGTTCCTCAAAGTATTC
127 GACGAACTTTCGAACTTGTCAAACATTTAATAGCTCTTTTATAACTTTAGTTCCTTAAAGTATTC
* * * * * * *
4922 AAGACTATCCATTCCTTTGAGCCAATTTCT-AAACATTCCATGCTCCGGAAATCGCATCTTTTGG
192 AAGACGATCCATTCCTTCGA-CCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGG
* * * * * *
4986 TCTAAATAGTTTGTGATTTTGTAAACAAATTTTGGTCTTTAAATTAAATACTTATTTACGTGAGA
256 TCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGA
* * * *
5051 ATTGTTTCTCTCTTGGTTCTCGGACGAACTTAC-GAACTAT-TTAAACTTTTACAAGTTCTTTTA
321 ATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CTAAACT-TGTCAAAATTTTAC-AGTTCTTTTA
* * * * * *
5114 CAACTTTGGTTCCTTAAAGTATTCAAGACT-ATCCATTCATTTGAGCCA
383 TAACTTTGGTTCCTTAAACTATTAAAGA-TGATCCATTCCTTTAAGCAA
* * * *
5162 TTTTCCGAGCATTCAATGCTTGAGAAATCG-CATCATTTGGTCTAAATAGTTTGTCATTTCGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTCA-TTCGTAA
*
5226 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
64 ACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * * * * ** * * *
5291 CGAAC-TTCTAAACTTGTAAAACTTTTTATCAGTTCCTTTATAACTTCGGTTCCTTAAACTACTA
129 CGAACTTTC-GAACTTGTCAAACATTTAAT-AGCTCTTTTATAACTTTAGTTCCTTAAAGTATTC
** * * ** * * *
5355 AAGGTGACCCATTCCTTTGTGCAATTTTTC-AAGCATTCCATGCTCGAGAAATGATATCATTTGG
192 AAGACGATCCATTCCTTCGACCAATTTTTCGAA-CATTCCATGCTCGGGAAATCACATCATTTGG
* * * * * * *
5419 TGTAAATAGGTTATCATTTTCTAAACAATTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
256 TCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGA
* * * * *** * * * * * *
5484 ATTATTTCTCTCATGGTTTTTGGATGAACTTCCGTACTTG-CGGGACATTTAATAGCTCTTTTGT
321 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTC--AAAATTTTACAGTTCTTTTAT
** * * * * * ** *
5548 AACTTAAGTTCCTGAGAGTACTCAAA-ACGATCCATTCCTTCGACCAA
384 AACTTTGGTTCCTTAAACTA-TTAAAGATGATCCATTCCTTTAAGCAA
* * * * * * *
5595 TTTTTCGAGCTTTCCATGCTCG-GGAATCG-TATCATTTGGTCTAAAAACTTTGTCATTATGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTCATT-CGTAA
* * *
5658 ACAACTTTTAGTC-TTCGAATTAAAAACCTATTTACGTGAGAATTGTTTCTCT-TGTGGTTCTAG
64 ACAACTTTTGGTCTTTC-AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTTG
** * * * ** * * * *
5721 GACGAACTCACGAACTAGTCGAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTCAAAGTGTTC
127 GACGAACTTTCGAACTTGTCAAACATTTAATAGCTCTTTTATAACTTTAGTTCCTTAAAGTATTC
* * * ** * * *
5786 AAGACTATCCATTCCTTTGAGCC-ATTTTGT-GAACCTTCCATGCTCCAGAAATCGCGTCTTTTG
192 AAGACGATCCATTCCTTCGA-CCAATTTT-TCGAACATTCCATGCTCGGGAAATCACATCATTTG
* * * ** * * *
5849 GTCTAAATAGTTTGTGATTTTGTAAAAAAAATTTGGTCTTTAAATTAAAAACTTATTTACTTGAC
255 GTCTAAAAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAG
* * * *
5914 AATTGTTTCTCTCTTGGTTCTCGGACGAACTTAC-GAACTAGTCAAACTTTTACGAGTTCTTTTA
320 AATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CTAAACTTGTCAAAATTTTAC-AGTTCTTTTA
* * * * * *
5978 CAACTTTGGTTCCTTAAAGTATTCAAGACT-ATCCATTCATTTGAGCCA
383 TAACTTTGGTTCCTTAAACTATTAAAGA-TGATCCATTCCTTTAAGCAA
* * *
6026 TTTTTCGAGCATTCCATGCTCGAGAAATCG-CATCAGTTGGTCTAAATAGTATGTCATTTCGTAA
1 TTTTTCGAACATTCCATGCTCGAGAAAT-GACATCATTTGGTCTAAATAGTTTGTCA-TTCGTAA
* * * ****
6090 ACAATTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTACTCTCCCAATTCTTGGA
64 ACAACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * *
6155 TGAAC-TTCTGAACTTTTCAAAAATTTACA-A-CTTCTTTTATAACTTTGGTTCC-TAATAGTAT
129 CGAACTTTC-GAACTTGTCAAACATTTA-ATAGC-TCTTTTATAACTTTAGTTCCTTAA-AGTAT
* * * *
6216 TTAAGAAGATGCATTCCTTCAACCAATTTTTC
190 TCAAGACGATCCATTCCTTCGACCAATTTTTC
6248 NNNNNNNNNN
Statistics
Matches: 4480, Mismatches: 955, Indels: 689
0.73 0.16 0.11
Matches are distributed among these distances:
382 1 0.00
383 1 0.00
384 55 0.01
385 15 0.00
388 1 0.00
389 7 0.00
391 1 0.00
392 3 0.00
393 5 0.00
396 4 0.00
397 4 0.00
398 148 0.03
399 10 0.00
400 22 0.00
401 4 0.00
402 1 0.00
403 4 0.00
404 1 0.00
405 151 0.03
406 75 0.02
407 83 0.02
408 7 0.00
410 1 0.00
411 2 0.00
412 5 0.00
414 4 0.00
415 2 0.00
416 2 0.00
417 2 0.00
418 5 0.00
419 20 0.00
420 28 0.01
421 137 0.03
422 7 0.00
423 2 0.00
425 12 0.00
426 54 0.01
427 5 0.00
428 13 0.00
429 173 0.04
430 429 0.10
431 1009 0.23
432 556 0.12
433 379 0.08
434 335 0.07
435 193 0.04
436 164 0.04
437 1 0.00
438 1 0.00
442 5 0.00
445 85 0.02
446 130 0.03
447 14 0.00
448 4 0.00
449 48 0.01
450 44 0.01
451 6 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (430 bp):
TTTTTCGAACATTCCATGCTCGAGAAATGACATCATTTGGTCTAAATAGTTTGTCATTCGTAAAC
AACTTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG
AACTTTCGAACTTGTCAAACATTTAATAGCTCTTTTATAACTTTAGTTCCTTAAAGTATTCAAGA
CGATCCATTCCTTCGACCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAA
AAAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGT
TTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTCAAAATTTTACAGTTCTTTTATAACTTTG
GTTCCTTAAACTATTAAAGATGATCCATTCCTTTAAGCAA
Found at i:2842 original size:19 final size:19
Alignment explanation
Indices: 2818--2859 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
2808 AATGCTCAGA
2818 AAATCGCATTATTTGGTCT
1 AAATCGCATTATTTGGTCT
2837 AAATCGCATTATTTGGTCT
1 AAATCGCATTATTTGGTCT
2856 AAAT
1 AAAT
2860 AGTTTGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (19 bp):
AAATCGCATTATTTGGTCT
Found at i:4587 original size:216 final size:215
Alignment explanation
Indices: 2118--4879 Score: 2029
Period size: 215 Copynumber: 12.7 Consensus size: 215
2108 GGTTCCTAAT
* * * * * * ** * *
2118 AGTATTTAAGAAGATGCC-TTCCTTCAACCAATTTTTTGAACAGTCCATCCTCGAAAAATTGCTT
1 AGTATTAAAGATGAT-CCATTCCTTCGA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGCAT
* * * * * * *
2182 CATTTGGTCAAAATAGTTTGTCATATGGTAAACAACTTTTGGTGTTTGAATTTAAAATTTATTTG
64 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* ** * * * * *
2247 CATGAGAATAT-TTTCTC-CTTTGGTTCTTGGATTAACTTTAAAACTTTTCCAAA-ATTTACAAC
129 CGTGAGAAT-TGTTTCTCTC-TTGGTTCTTGGACGAACTTCAGAACTTGT-CAAACATTTACGAG
* * *
2309 TTCTTTTATTATAACTTTGGTTCTTGAG
191 TTC--TT-TTATAACTTCGATTCCTGAG
*
2337 AGTATTAAAGATGATCCATTCCTTTGTACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
1 AGTATTAAAGATGATCCATTCCTTCG-ACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
*
2402 ATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AACCTATTGGTCTTTGAATTAAAAACTTATTTA
65 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAAAAACTTATTTA
* * **
2466 CATGAGGATTGTTTCTCTC-TGGTTCTTGGACGAACTTCAGAACTTGTC-AACTATTTACCTGTT
129 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAGAACTTGTCAAAC-ATTTACGAGTT
** * *
2529 CTTTTATTTCTTCGATTTCTAAG
193 CTTTTATAACTTCGATTCCTGAG
* * * * *
2552 AGCT-TTAAAGGTGACCCATTCCTTTGACAAATTTTTC-AAGCATTCCATGCTCTGGAAATTGCA
1 AG-TATTAAAGATGATCCATTCCTTCGAC-AATTTTTCGAA-CATTCCATGCTCGGGAAATCGCA
* *** * * *
2615 TTATTCATTCTAAAT-GTTTTTTAATTTTGTAAACAACTTTTGGTCTTTGAATT-GAAA---A-T
63 TCATTTGGTCTAAATAG-TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* * * * * * **
2674 TACGTGAAAATTGTTTCTCTCTTTGTTTTTGGATGAACTTCCGAGCTTGTCAAATTTTTACGAGT
127 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAGAACTTGTCAAACATTTACGAGT
* * * *
2739 T-TTTTTTAAACTTCGGTTCCTTAA
192 TCTTTTAT-AACTTCGATTCCTGAG
* * ** *
2763 ATTATTCAAGCCGATCC-TATCCTTCGACTAGA-TTTTCGAACATTCAATGCTCAGAAAATCGCA
1 AGTATTAAAGATGATCCAT-TCCTTCGAC-A-ATTTTTCGAACATTCCATG--C------TCG--
* * *
2826 TTATTTGGTCTAAATCGCATTATTTGGTCTAAATAGTTTGTCATTTCGTAAACAACTTTTGCTCT
53 ------GG---AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * * *
2891 TTGAATAAAAAACTTATTTACGTCAGAACTGTTTCTCTCTTTGTTCTTGG-CTGAACTTTC-GAA
109 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC-GAAC-TTCAGAA
* * * * *
2954 CTTGTCAAGCTTTTATGAGTTCTTTTATAACTTC-AGTTCCTTAA
172 CTTGTCAAACATTTACGAGTTCTTTTATAACTTCGA-TTCCTGAG
* ** * * * *
2998 AGTATTCAAGGCGATCCATTCCTTCGAGCAATTTTTTGAACATTCTACGCAT-GGGAAATCGGAT
1 AGTATTAAAGATGATCCATTCCTTCGA-CAATTTTTCGAACATTCCATGC-TCGGGAAATCGCAT
* * * *
3062 CGTTTGGTCTAAATAGTTTTTCATTTTGTAATCAACTTTTCGTCTTTGAATTAAAAA--TATTTA
64 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * *
3125 CATGACAATTGTTTCTCTCTTGGTGCTTGGGCGAACATCTA-AACTTCTCAAA-ATTTTTATC-A
129 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC-AGAACTTGTCAAACA--TTTA-CGA
* * *
3187 GTTCCTTTATAACTTCGATTCCTTAA
190 GTTCTTTTATAACTTCGATTCCTGAG
* * * * * *
3213 ACTATTAAAGGTGATTCATTCCTTTGTGC-ATATTTTC-AAGCATTCCATGCTCGAGAAAT-GAC
1 AGTATTAAAGATGATCCATTCCTTCG-ACAAT-TTTTCGAA-CATTCCATGCTCGGGAAATCG-C
* * ** *
3275 ATCATTTGGTCTAAATAGGTTATCATTTTCAAAACAATTTTTGGTCTTTGAATT-AAAACTTATT
62 ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
** * * * * * **
3339 TACGTGAGAATTGTTTCTCTAATGGTTTTTGGATGAACTTCCGTACTTG-CGGAACATTTAATAG
127 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAGAACTTGTC-AAACATTTACGAG
* * *
3403 CTCTTTTGTAACTT-AAGTTCCTGAG
191 TTCTTTTATAACTTCGA-TTCCTGAG
* * * * * * * * *
3428 AGTACTCAAGACGATCCATTCTTTCGACCAATTTTTTGAACTTTCCACGCTCGAG-AATCGTATC
1 AGTATTAAAGATGATCCATTCCTTCGA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
* * * * * * * * * *
3492 ATTCGGTCTGAAA-ACTTTGTTATTATGTAAACAAATTTTAGTGTTCGAACTAAAAACCTATTTA
65 ATTTGGTCT-AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * *
3556 CGTGAGAATTGTTTCTCT-TGTGGTTCTAGGACGAACTT-ACGAACTAGTCGAACTTTTACGAGT
129 CGTGAGAATTGTTTCTCTCT-TGGTTCTTGGACGAACTTCA-GAACTTGTCAAACATTTACGAGT
* * * *
3619 TCTTTTATAACTTTGGTTCCTCAA
192 TCTTTTATAACTTCGATTCCTGAG
* * * * * * * *
3643 AGTATTCAAGACT-AT-CAATCATTTGAGCCATTTTTTGAATATTCCATGCTTC-GAAAATCGCA
1 AGTATTAAAGA-TGATCCATTCCTTCGA-CAATTTTTCGAACATTCCATGC-TCGGGAAATCGCA
* * * *
3705 TC-TTCTGGTCTAAATAGTTTGTGATTTTGTAAACAAATTTTGGTCTTTAAATTAAATACTTATT
63 TCATT-TGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* * * *
3769 TACGTGAGAATTGTTTCTCTCTTGGTTCTCGGACGAACTT-ACGAACTAGCCAAACTTTTACGAG
127 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCA-GAACTTGTCAAACATTTACGAG
* * * *
3833 TTCTTTTA-ATACTTTGGTTCCTTAA
191 TTCTTTTATA-ACTTCGATTCCTGAG
* * * * * * *
3858 AGTATTCAAGACTG-TCCATTCATTTGAGCTATTTTACGAGCATTCCATGCTCGAGAAATCGCAT
1 AGTATTAAAGA-TGATCCATTCCTTCGA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGCAT
*
3922 CATTTGGTCTAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
64 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
*** * * * * *
3987 CGTGAGAATTGTTTCTCTCCCAGTTCTTGGATGAACTTCCGAACTTTTCAAAAAATTTACAAGTT
129 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAGAACTTGTC-AAACATTTACGAGTT
* * * *
4052 CTTTTATAACTTTGGTTCCTAAT
193 CTTTTATAACTTCGATTCCTGAG
* * * * *
4075 AGTATTTAATTAGATG--CC-TTCCATCAACCAATTTTTCGAACATTCCATTCTCGGAAAATTGC
1 AGTA-TTAA--AGATGATCCATTCCTTCGA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGC
* * * * * * *
4137 ATCGTTTGGTCAAAATAGTTTGTCATATGGTAAACAACTTTTGGTGTTTGAATTTAAAATTTATT
62 ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* * ** * * *
4202 TGCATGAGAATAT-TTTCTCTCTTGGTTCTTGGATTAACTTTCA-AACTTTTCAAAAATTTACAA
127 TACGTGAGAAT-TGTTTCTCTCTTGGTTCTTGGACGAAC-TTCAGAACTTGTCAAACATTTACGA
* * *
4265 GTTCTTTTATTATAACTTTGGTTCTTGAG
190 GTTC--TT-TTATAACTTCGATTCCTGAG
* * * * * **
4294 AGTATTAATGACGATCCATTCCTTTGTGCAATTTTTCAAACATTCCATGCTCATGAAATCGCATC
1 AGTATTAAAGATGATCCATTCCTTCG-ACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
*
4359 ATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AACCTATTGGTCTTTGAATTAAAAACTTATTTA
65 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAAAAACTTATTTA
* * *
4423 CGTGAGGATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAAAACTTGTCAAACATTTACCAGTTC
129 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAGAACTTGTCAAACATTTACGAGTTC
*
4488 TTTTATAACTTCGATTTCTGAG
194 TTTTATAACTTCGATTCCTGAG
* * *
4510 AGCATTAAAGATGACCCATTCCTTCGACTAATTTTTCGATCATTCCATGCTCGGGAAATCGCATC
1 AGTATTAAAGATGATCCATTCCTTCGAC-AATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
*** * * ** * **
4575 ATTCATTCTAAAT-GTTTTTTAATTTTGTAAATGACTTTTCGTCTTTGAATTGTAAACTTATTTA
65 ATTTGGTCTAAATAG-TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * ** *
4639 CGTGAGAATTGTTTCTCT-TATGGTTTTTGGACGAACTTGC-GTACTTG-CGAACATTTAATAGC
129 CGTGAGAATTGTTTCTCTCT-TGGTTCTTGGACGAACTT-CAGAACTTGTCAAACATTTACGAGT
* * *
4701 TCTTTTGTAACTT-AAGTTCCTGAT
192 TCTTTTATAACTTCGA-TTCCTGAG
* * * * * *
4725 AGTACTCAAGACGATCCATTCCTTCGACCAATTTTTCAAACTTTCCATGCTCGGG-AATCGTATC
1 AGTATTAAAGATGATCCATTCCTTCGA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGCATC
* * * * * * * * *
4789 ATTCGATCTAAAAACTTTGTCATTATGTAAACAACTTCTAGTCTTCGAATTAAAAACCTATTTAC
65 ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
4854 GTGAGAATTGTTTCTCT-TGTGGTTCT
130 GTGAGAATTGTTTCTCTCT-TGGTTCT
4880 AGTCTTCGAG
Statistics
Matches: 2046, Mismatches: 380, Indels: 239
0.77 0.14 0.09
Matches are distributed among these distances:
210 26 0.01
211 75 0.04
212 5 0.00
213 3 0.00
214 216 0.11
215 601 0.29
216 424 0.21
217 170 0.08
218 62 0.03
219 282 0.14
220 5 0.00
227 3 0.00
228 2 0.00
230 50 0.02
231 4 0.00
233 1 0.00
234 2 0.00
235 105 0.05
236 10 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (215 bp):
AGTATTAAAGATGATCCATTCCTTCGACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCA
TTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACG
TGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCAGAACTTGTCAAACATTTACGAGTTCTT
TTATAACTTCGATTCCTGAG
Found at i:5053 original size:191 final size:199
Alignment explanation
Indices: 4716--6142 Score: 853
Period size: 216 Copynumber: 6.8 Consensus size: 199
4706 TGTAACTTAA
* * * * * * * *
4716 GTTCCTGATAGTACTCAAGACGATCCATTCCTTCGA-CCAATTTTTCAAACTTTCCATGCTCGGG
1 GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCT-AAACATTCCATGCTCGGA
* * * * * * * * *
4780 AATCGTATCATTCGATCTAAAAACTTTGTCATTATGTAAACAACTTCTAGTCTTCGAATTAAAAA
65 AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA
* * *
4845 CCTATTTACGTGAGAATTGTTTCTCT-TGTGGTTCT-A-G-TCTT-CG-AGTT-CTTTTA-TAG-
130 CTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTGACGAACTTACGAAGTTACTTTTACAAGT
4901 T-TTTG
194 TATTTG
4906 GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCTAAACATTCCATGCTCCGGA
1 GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCTAAACATTCCATGCT-CGGA
* * * * *
4971 AATCGCATCTTTTGGTCTAAATAGTTTGTGATTTTGTAAACAAATTTTGGTCTTTAAATTAAATA
65 AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA
*
5036 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTCGGACGAACTTACGAACTATTTAAACTTTT
130 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT--GACGAACTTACG-A--AGTT--ACTTTT
5101 ACAAGTTCTTTTACAACTTTG
188 ACAAG-----TT---A-TTTG
* * * ** * * *
5122 GTTCCTTAAAGTATTCAAGACTATCCATTCATTTGAGCCATTTTCCGAGCATTCAATGCTTGAGA
1 GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCTAAACATTCCATGCTCG-GA
*
5187 AATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAACTTTTGGTCTTTGAATTAAAAA
65 AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA
* *
5252 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CTAAACTTGTAAAACTTT
130 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC-T-GACGAACTTAC-GAA---GT--TAC-TT
5316 TTATC-AGTTCCTTTATAACTTCG
186 TTA-CAAG-----TTAT---TT-G
* * * * * * * * *
5339 GTTCCTTAAACTACTAAAG-GTGACCCATTCCTTTGTG-CAATTTTTCAAGCATTCCATGCTCGA
1 GTTCCTCAAAGTATTCAAGACT-ATCCATTCCTTTGAGCCAATTTCT-AAACATTCCATGCTCG-
* * * * * *
5402 GAAAT-GATATCATTTGGTGTAAATAGGTTATCATTTTCTAAACAATTTTTGGTCTTTGAATTAA
63 GAAATCG-CATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
* * * * * * * *
5466 AAACTTATTTACGTGAGAATTATTTCTCTCATGGTTTTTGGATGAACTTCCGTACTTGCGGGACA
127 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGG-TTCT-GACGAACTTACGAAGTT-----ACT
5531 TTTA-ATAGCTCT-TTTG
185 TTTACA-AG-T-TATTTG
* * * * * * * * * *
5547 TAACTTAAGTTCCTGAGAGTACTCAAAACGATCCATTCCTTCGA-CCAATTTTTCGAGCTTTCCA
1 --------GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCT-AAACATTCCA
* * * * * * *
5611 TGCTCGGGAATCGTATCATTTGGTCTAAAAACTTTGTCATTATGTAAACAACTTTTAGTCTTCGA
57 TGCTCGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGA
* *
5676 ATTAAAAACCTATTTACGTGAGAATTGTTTCTCT-TGTGGTTCTAGGACGAACTCACGAACTAGT
122 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCT--GACGAACTTACG-A--AGT
* *
5740 CGAACTTTTACGAGTTCTTTTATAACTTTG
181 --TACTTTTACAAG------T-T-A-TTTG
* * * * * *
5770 GTTCCTCAAAGTGTTCAAGACTATCCATTCCTTTGAGCCATTTTGTGAACCTTCCATGCTCCAGA
1 GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCTAAACATTCCATGCT-CGGA
* * * * ** *
5835 AATCGCGTCTTTTGGTCTAAATAGTTTGTGATTTTGTAAAAAAAATTTGGTCTTTAAATTAAAAA
65 AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA
* * *
5900 CTTATTTACTTGACAATTGTTTCTCTCTTGGTTCTCGGACGAACTTACGAACTAGTCAAACTTTT
130 CTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT--GACGAACTTACG-A--AGT--TACTTTT
*
5965 ACGAGTTCTTTTACAACTTTG
188 ACAAG-----TT---A-TTTG
* * * * *
5986 GTTCCTTAAAGTATTCAAGACTATCCATTCATTTGAGCC-ATTTTTCGAGCATTCCATGCTCGAG
1 GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCT-AAACATTCCATGCTCG-G
* * * *
6050 AAATCGCATCAGTTGGTCTAAATAGTATGTCATTTCGTAAACAATTTTTGGTCTTTGAATTAAAA
64 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
*
6115 ACTTATTTACGTGAGAATTGTTACTCTC
129 ACTTATTTACGTGAGAATTGTTTCTCTC
6143 CCAATTCTTG
Statistics
Matches: 982, Mismatches: 166, Indels: 152
0.76 0.13 0.12
Matches are distributed among these distances:
190 44 0.04
191 94 0.10
192 1 0.00
194 1 0.00
195 1 0.00
196 3 0.00
197 2 0.00
201 3 0.00
204 6 0.01
205 2 0.00
208 1 0.00
209 2 0.00
211 1 0.00
212 2 0.00
213 3 0.00
214 6 0.01
215 152 0.15
216 488 0.50
217 158 0.16
218 6 0.01
220 2 0.00
223 4 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (199 bp):
GTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCAATTTCTAAACATTCCATGCTCGGAA
ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAC
TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTGACGAACTTACGAAGTTACTTTTACAAGTTA
TTTG
Found at i:5262 original size:216 final size:215
Alignment explanation
Indices: 4888--6221 Score: 1456
Period size: 216 Copynumber: 6.2 Consensus size: 215
4878 CTAGTCTTCG
** * *
4888 AGTTCTTTTATAGTTTTGGTTCCTCAAAGTATTCAAGACTATCCATTCCTTTGAGCCA-ATTTCT
1 AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTTGAGCCATTTTTC-
* * * * *
4952 AAACATTCCATGCTCCG-GAAATCGCATCTTTTGGTCTAAATAGTTTGTGATTTTGTAAACAAAT
65 GAGCATTCCATGCT-CGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAAAT
* * *
5016 TTTGGTCTTTAAATTAAATACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTCGGACGAACT
129 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
*
5081 TACGAACTATTTAAACTTTTACA
194 TACGAACT-TTCAAACTTTTACA
* * *
5104 AGTTCTTTTACAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCATTTGAGCCATTTTCCG
1 AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTTGAGCCATTTTTCG
* * *
5169 AGCATTCAATGCTTGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAACTTT
66 AGCATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAAATTT
5234 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-
131 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTA
* *
5298 CTAAACTTGTAAAACTTTTTATC-
196 C-GAACTT-TCAAAC-TTTTA-CA
* * * * * * * * *
5321 AGTTCCTTTATAACTTCGGTTCCTTAAACTACTAAAG-GTGACCCATTCCTTTGTGCAATTTTTC
1 AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACT-ATCCATTCCTTTGAGCCATTTTTC
* * * * * *
5385 AAGCATTCCATGCTCGAGAAAT-GATATCATTTGGTGTAAATAGGTTATCATTTTC-TAAACAAT
65 GAGCATTCCATGCTCGAGAAATCG-CATCATTTGGTCTAAATAGTTTGTCA-TTTCGTAAACAAA
* * * *
5448 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCATGGTTTTTGGATGAAC
128 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
* * * ** *
5513 TTCCGTACTTGCGGGACATTTA-A
193 TTACGAACTTTC-AAACTTTTACA
* * ** * * * * * *
5536 TAGCTCTTTTGTAACTTAAGTTCCTGAGAGTACTCAAAACGATCCATTCCTTCGA-CCAATTTTT
1 -AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTTGAGCC-ATTTTT
* * * * * *
5600 CGAGCTTTCCATGCTCG-GGAATCGTATCATTTGGTCTAAAAACTTTGTCATTAT-GTAAACAAC
64 CGAGCATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT-TCGTAAACAAA
* * * *
5663 TTTTAGTCTTCGAATTAAAAACCTATTTACGTGAGAATTGTTTCTCT-TGTGGTTCTAGGACGAA
128 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTCTTGGACGAA
* * * *
5727 CTCACGAACTAGTCGAACTTTTACG
192 CTTACGAACT-TTCAAACTTTTACA
* *
5752 AGTTCTTTTATAACTTTGGTTCCTCAAAGTGTTCAAGACTATCCATTCCTTTGAGCCATTTTGT-
1 AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTTGAGCCATTTT-TC
* * * * * * * * *
5816 GAACCTTCCATGCTCCAGAAATCGCGTCTTTTGGTCTAAATAGTTTGTGATTTTGTAAAAAAAAT
65 GAGCATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAAATT
* * * *
5881 TTGGTCTTTAAATTAAAAACTTATTTACTTGACAATTGTTTCTCTCTTGGTTCTCGGACGAACTT
130 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT
* *
5946 ACGAACTAGTCAAACTTTTACG
195 ACGAACT-TTCAAACTTTTACA
* *
5968 AGTTCTTTTACAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCATTTGAGCCATTTTTCG
1 AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTTGAGCCATTTTTCG
* * *
6033 AGCATTCCATGCTCGAGAAATCGCATCAGTTGGTCTAAATAGTATGTCATTTCGTAAACAATTTT
66 AGCATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAAATTT
* **** *
6098 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTACTCTCCCAATTCTTGGATGAACTT-
131 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTA
**
6162 CTGAACTTTTCAAAAATTTACA
196 C-GAAC-TTTCAAACTTTTACA
* *
6184 ACTTCTTTTATAACTTTGGTTCC-TAATAGTATTTAAGA
1 AGTTCTTTTATAACTTTGGTTCCTTAA-AGTATTCAAGA
6222 AGATGCATTC
Statistics
Matches: 930, Mismatches: 158, Indels: 60
0.81 0.14 0.05
Matches are distributed among these distances:
214 2 0.00
215 173 0.19
216 572 0.62
217 177 0.19
218 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (215 bp):
AGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACTATCCATTCCTTTGAGCCATTTTTCG
AGCATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCGTAAACAAATTT
TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTA
CGAACTTTCAAACTTTTACA
Found at i:6728 original size:216 final size:215
Alignment explanation
Indices: 6351--7077 Score: 766
Period size: 216 Copynumber: 3.4 Consensus size: 215
6341 NTGAGAATAT
* * * * ** *
6351 TTTCTCTCTTGGTTCTTGGATTAACTTTCAAACTTTTCAAAAATTTACAAGTTCTTTTATTATAA
1 TTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC--TT-TTATAA
* * * ** * *
6416 CTTTGGTT-CTTAACAGTATTAAAGACGATCCACTCCTAT-GTGCAATTTTTCAAACATTCCATG
63 CTTCGGTTCCTTAA-AGTATTCAAGACGATCCATTCCT-TCGACCAATTTTTCGAACATTCAATG
*
6479 CTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAACCTTCTGGTCTTTGAA
126 CTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAA-CTTTTGGTCTTTGAA
* * *
6544 TTGAAAACTTATTTACGTTAGAATTG
190 TTAAAAACTTATTTACATCAGAATTG
* *
6570 TTTCTCTCTTGGTTTTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACCT
1 TTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* * * *
6635 CGGTTCCTTAAATTATTCAAGCCGATCCTATT-CTTCGACCAGTTTTTCGAACATTCAATGATCG
66 CGGTTCCTTAAAGTATTCAAGACGATCC-ATTCCTTCGACCAATTTTTCGAACATTCAATGCTCG
** * * * *
6699 AAAAATCGCATTATTTGGTCTAAATAGTTTGTCATTTCGTAAACAACTTTTGCTCTTTGAATAAA
130 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AACTTTTGGTCTTTGAATTAA
*
6764 AAACTTATTTACATCAGAACTG
194 AAACTTATTTACATCAGAATTG
** * * * * *
6786 TTTCTCTCTTTCTTCTTGGCTGAACTTTCGAACTTGTCTAGCTTTTATGAGTTCTTTTATAACTT
1 TTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* * * * * *
6851 CAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAACTTTCCGAACATTCTACT-CTTG
66 CGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTC-AATGCTCG
* * ** * * * *
6915 GGAAATCGCATCGTTTGGTCTAAATAGTTTTTCATTTTGTATTCAACTTTTCGCCTTTTAATTTA
130 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AAAACTTTTGGTCTTTGAATTAA
* *
6980 AAA--TATTTACATGACAATTG
194 AAACTTATTTACATCAGAATTG
* ** * *
7000 TTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTTGTAAAACTTTTTATC-AGTTCCTTTATAAC
1 TTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAAC-TTTTA-CGAGTTCTTTTATAAC
7064 TTCGGTTCCTTAAA
64 TTCGGTTCCTTAAA
7078 C
Statistics
Matches: 419, Mismatches: 80, Indels: 22
0.80 0.15 0.04
Matches are distributed among these distances:
214 46 0.11
215 35 0.08
216 279 0.67
217 13 0.03
219 46 0.11
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (215 bp):
TTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
CGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACATTCAATGCTCGG
GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAACTTTTGGTCTTTGAATTAAAA
ACTTATTTACATCAGAATTG
Done.