Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013381.1 Kokia drynarioides strain JFW-HI SEQ_128404, 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: 8264
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Found at i:990 original size:216 final size:217
Alignment explanation
Indices: 1--3054 Score: 2467
Period size: 216 Copynumber: 14.0 Consensus size: 217
* *
1 TCTAAATATTTTGTCATTCTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * *
66 ATTGTTTCTCTCTTAGTTCTTGGATGAACTTCC-AGAGTTGTCAAACGTTTACGAGTTCTTTTAC
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGA-ACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * *
130 AACTTAGGTTCCTTAAAGCATTCTATG-CGATCCATTCCTTCTA-CAAATTTTTCGAACATTCAA
130 AACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGC-AATTTTTCGAACATTCCA
**
193 TGTTCGAAAAATCGCATCATTTTA
194 TGTTCGAAAAATCGCATCATTTGG
* ** * * *
217 TCTAAATAGTTTTTCATTTTGCGAACAACTTTTCGTCTTTGAATTAAAAACTTATTGACGTGGGA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * * *
282 TTTGTTTCTCTCTTGGTTCTTGGACGAACCTCCGGACTTGTCAAACTTTTACAACTTCTTTTAAA
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* ** * * ** *
347 ACTTCGGTTCCTTGAAGTGTATTAGATGTAAACGATCAACTCAATCGAGCAA-TTTTCGAGCATT
131 ACTTCGGTTCCTT-AA-AGTATTCTATG---ACGATCCATTCCTTCGAGCAATTTTTCGAACATT
* * *
411 CCAT-TCTCCG-GAAATC-AAGT-TTTTGG
191 CCATGT-T-CGAAAAATCGCA-TCATTTGG
* * *
437 AT-TAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTGAC
1 -TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
* * * * *
501 AATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTAT
65 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * * * * *
566 AACTTCGGTTCCTTAAAGTATTC-AAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCAT
130 AACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCAT
* * * * **
630 GCTCGAGAAATTGTATGTTTTGG
195 GTTCGAAAAATCGCATCATTTGG
* * * * *
653 TCTAAATAGTTTTTCATTTTGAAAACCAAGTTTTGGTCTTGGTCTTCAAACTAAAAACTTATTTA
1 TCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGGTC----T-TT-GAATTAAAAACTTATTTA
* * *
718 CGTGAGAATTGTTTCTCTCTTAGTTCTTGGATGAACTTCC-AGAGTTGTCAAACTTTTACGAGTT
59 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGA-ACTTGTCAAACTTTTACGAGTT
* * * * *
782 CTTTTACAACTTAGGTTCCTTAAAGCATTCTATG-CGATGCATTCCTTCTA-CAAATTTTTCGAA
123 CTTTTATAACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGC-AATTTTTCGAA
* * *
845 CATTCAATGTTCGAAAAAACGCATCATTTGA
187 CATTCCATGTTCGAAAAATCGCATCATTTGG
* * * *
876 TCTAAATAGTTTTTCATTTTGTGAACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGGGA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * *
941 TTTGTTTCTCTCTTGGTTCTTGGACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAA
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * ** * **
1006 ACTTCGGTTCCTTGAAGTGTATTATAAGTAAACGGTGAACTCAATCGAGCAA-TTTTCGAACATT
131 ACTTCGGTTCCTT-AA-AGTATTCT-A-T-GACGATCCATTCCTTCGAGCAATTTTTCGAACATT
* *
1070 CCAT-TCTCCG-GAAATCG-AGTCTTTTGG
191 CCATGT-T-CGAAAAATCGCA-TCATTTGG
* * * *
1097 TTTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTGACA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * *
1162 ATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATA
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * * * *
1227 ACTTCGGTTCCTTAAAGTATTC-AAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCATG
131 ACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATG
* * **
1291 CTT-GAGAAATTC-TATGTTTTGG
196 -TTCGA-AAAATCGCATCATTTGG
** * * *
1313 TCTAAATAGTTTGTCATTTTCAAAACCAAGTTTTGGTCTTGCTCTTCAAACTAAAAACTTATTTA
1 TCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGG---T-CT-TT-GAATTAAAAACTTATTTA
* ** *
1378 CGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTGTGAACTAT-TCAAGCTTTTTACGAGT
59 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT-TGTCAAAC-TTTTACGAGT
**** * * * * *
1442 TCTTTTATAACTTTAACTCCTTAAAGTATTCCA-GACGATCCATTCCTTCGATCAATATTCCGAG
122 TCTTTTATAACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAA
* ** *
1506 CATTCCATGCTCGGGAAA-CAGCATCATTCGG
187 CATTCCATGTTCGAAAAATC-GCATCATTTGG
* * *
1537 TCTAAATAGTTTGTCATTTTGCAAACAACTTTTTGGTGTTTGAATTAAAAA-TATATTTATGTGA
1 TCTAAATAGTTTGTCATTTTGTAAACAAC-TTTTGGTCTTTGAATTAAAAACT-TATTTACGTGA
* * * * * * * *
1601 GAATTATTTCTCTTTTGATTCTTGGACAAACTTCTGAACTTGTCAAGCTTTTACTATTTCTTCTA
64 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTT-T-
* * * * * *
1666 TAATAACTTCGGTTCCTTAAACTATTC-AAGATGATCCAATCCTTCGAGCAATATTCCGAACATT
127 T-ATAACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATT
* * * * *
1730 CCATGCTCTG-GAAATTGCATTATTCGG
191 CCATGTTC-GAAAAATCGCATCATTTGG
* * ** * ** * *
1757 TCAAAATAGTTTGCCATTTCTCAAAAAAACTTTTGGTCACTGAATTAAATACTTATTTATGTGTA
1 TCTAAATAGTTTGTCATTT-TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTG-A
* * * ** ** *** *
1822 -AATAGTTTCT-TCCTGGTTCTTGGACGAACTTTCGAACGAGGAAAACTTTTACTCTTTCTATTA
64 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTA
* * ** * * **
1885 TAACTTTGGTTCCTTAAAGTATTC-AAGTTGATCCATTTCTTCGAGAAATTTTGAGAACATTCCA
129 TAACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCA
* * * *
1949 T-TCTCGAGAAATTGCATCACTTGA
194 TGT-TCGAAAAATCGCATCATTTGG
*
1973 TCTAAATAGTTTATCATTTTGTAAACAACTTTTGGTCTTTGAATT-AAAACTTATTTACGTGAGA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * *
2037 ATTGTTTCTCTCTTGGTTCTTAGATGAACTTCTGAACTTTTCAAGCTTTTACGAGTTCTTTTATA
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * * * * *
2102 GCATT-GGTTCCTTAAAGTATTC-AAGGCGATCCATTCTTTCAAGCAATATTCCAAACATTCCAT
131 AC-TTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCAT
* * *
2165 GCTCGAGAAATCGCATCATTCGG
195 GTTCGAAAAATCGCATCATTTGG
* * *
2188 TCTAAATATTTTGTCATTCTGTAAACAACTTTTGGTCTTTGAATTAAAAACCTATTTACGTGAGA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * * * *
2253 ATTGTTTCCCTCGTAGTTCTTGGATGAACTTCCGCATTTGTCAAACTTTTAC-AGGTTCTTTTAC
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA-GTTCTTTTAT
* * * * * *
2317 AACTTAC-GTTCCTTAAAGCATTATATG-CAATCCATTCCTTCTA-CAAATTTTTCGAATATTCA
130 AACTT-CGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGC-AATTTTTCGAACATTCC
* * * *
2379 AAGTTC-AGAAAATCGCTTAATTTGA
193 ATGTTCGA-AAAATCGCATCATTTGG
* * * * *
2404 TCTAAATAGTTTGTCATTTTGTGAACATCTTTTGGTCTTTGAATTAAAAATTTATTGACGTGGGA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * *
2469 TTTGTTTCTCTCTTGGTTCTTGGACGAACCTCC-AGACTTGTCAAACTTTTACAAGTCCTTTTAA
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGA-ACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * * * * * *
2533 AACTTCGGTTCCTTGAAGTGTATTATATATAAATGATCCACTACATCGAG-AA-ATTTCGAACAT
130 AACTTCGGTTCCTT-AA-AGTA-T-TCTAT-GACGATCCATTCCTTCGAGCAATTTTTCGAACAT
* *
2596 TCCACTGTCCG-AAAATCGAAT-ATTTTGG
190 TCCA-TGTTCGAAAAATCGCATCA-TTTGG
* * * * * * *
2624 TTTATACAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTTATGTGAAA
1 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * * *
2689 ATTGTCTCTCTCTTGGTTATTGGACGAGCTACCGAACTTGTAAAACTTTTACGAGTTATTTTATA
66 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * * * * *
2754 ACTTCGGTTCCTTAAAGTATTC-AAGACTG-TCCGTTTCTACGAGCGATATTCCAAACATTCCAT
131 ACTTCGGTTCCTTAAAGTATTCTATGAC-GATCCATTCCTTCGAGCAATTTTTCGAACATTCCAT
* * * * *
2817 GCTCGAGAAATTGCAGCTTTTGG
195 GTTCGAAAAATCGCATCATTTGG
* * *** * *
2840 TCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAACTAAAAACTTATTTACGTTAG
1 TCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
* * ** ** * * *
2905 AGTTGTATCTC-CTTTGGTTCTCAGACGAACTTCTAAACTAGCCAAGCTTTTTACGAGTTCTTTT
65 AATTGTTTCTCTC-TTGGTTCTTGGACGAACTTCCGAACTTGTCAAAC-TTTTACGAGTTCTTTT
* * * * * * * ** *
2969 ATAATTTTGGTTCCTTAAAGTATTC-AAGAAGATCCATTCCTCCGATCAATATCCCGAACATGCC
128 ATAACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCC
* ** *
3033 ATGCTCGGGAAATAGCATCATT
193 ATGTTCGAAAAATCGCATCATT
3055 CCGATCCATT
Statistics
Matches: 2259, Mismatches: 473, Indels: 210
0.77 0.16 0.07
Matches are distributed among these distances:
213 1 0.00
214 48 0.02
215 216 0.10
216 666 0.29
217 121 0.05
218 168 0.07
219 53 0.02
220 405 0.18
221 194 0.09
222 57 0.03
223 222 0.10
224 107 0.05
225 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (217 bp):
TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
ATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
ACTTCGGTTCCTTAAAGTATTCTATGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATG
TTCGAAAAATCGCATCATTTGG
Found at i:1728 original size:660 final size:656
Alignment explanation
Indices: 45--2551 Score: 2740
Period size: 660 Copynumber: 3.8 Consensus size: 656
35 GTCTTTGAAT
* *
45 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTGGATGAACTTCCAGAGTTGTCAA
1 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTAGATGAACTTCCAGACTTGTCAA
*
110 ACGTTTACGAGTTCTTTTACAACTTAGGTTCCTTAAAGCATTCTATGCGATCCATTCCTTCTACA
66 ACTTTTACGAGTTCTTTTACAACTTAGGTTCCTTAAAGCATTCTATGCGATCCATTCCTTCTACA
* * * ** * *
175 AATTTTTCGAACATTCAATGTTCGAAAAATCGCATCATTTTATCTAAATAGTTTTTCATTTTGCG
131 AATATTCCGAACATTCAATGCTCGAAAAATCGCATCATTCGATCTAAATAGTTTGTCATTTTGCA
* * * *
240 AACAACTTTTCGTCTTTGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTTGGTTCTTGG
196 AACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGAGAATTGTTTCTCTCTTGATTCTTGG
* **
305 ACGAACCTCCGGACTTGTCAAACTTTTACAACTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATT
261 ACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGACTATT
* *
370 AGATGTAAACGATCAACTCAATCGAGCAATTTTCGAGCATTCCATTCTCCGGAAATCAAGTTTTT
326 AGATG-AAACG--CAACTCAATCGAGCAATTTTCGAACATTCCATTCTCCGGAAATCGAGTTTTT
435 GGAT-TAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTG
388 GG-TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTG
499 ACAATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTT
452 ACAATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTT
564 ATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCA
517 ATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCA
* *
629 TGCTCGAGAAATTGTATGTTTTGGTCTAAATAGTTTTTCATTTTGAAAACCAAGTTTTGGTCTTG
582 TGCTCGAGAAATTCTATGTTTTGGTCTAAATAGTTTATCATTTTGAAAACCAAGTTTTGGTCTTG
*
694 GTCTTCAAAC
647 CTCTTCAAAC
* *
704 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTGGATGAACTTCCAGAGTTGTCAA
1 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTAGATGAACTTCCAGACTTGTCAA
*
769 ACTTTTACGAGTTCTTTTACAACTTAGGTTCCTTAAAGCATTCTATGCGATGCATTCCTTCTACA
66 ACTTTTACGAGTTCTTTTACAACTTAGGTTCCTTAAAGCATTCTATGCGATCCATTCCTTCTACA
* * * * * * **
834 AATTTTTCGAACATTCAATGTTCGAAAAAACGCATCATTTGATCTAAATAGTTTTTCATTTTGTG
131 AATATTCCGAACATTCAATGCTCGAAAAATCGCATCATTCGATCTAAATAGTTTGTCATTTTGCA
* * *
899 AACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTTGGTTCTTGG
196 AACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGAGAATTGTTTCTCTCTTGATTCTTGG
**
964 ACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATT
261 ACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGACTATT
* * *
1029 ATAAGTAAACGGTGAACTCAATCGAGCAATTTTCGAACATTCCATTCTCCGGAAATCGAGTCTTT
326 AGATG-AAAC-G-CAACTCAATCGAGCAATTTTCGAACATTCCATTCTCCGGAAATCGAGT-TTT
*
1094 TGGTTTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTG
387 TGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTG
1159 ACAATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTT
452 ACAATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTT
1224 ATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCA
517 ATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCA
* * *
1289 TGCTTGAGAAATTCTATGTTTTGGTCTAAATAGTTTGTCATTTTCAAAACCAAGTTTTGGTCTTG
582 TGCTCGAGAAATTCTATGTTTTGGTCTAAATAGTTTATCATTTTGAAAACCAAGTTTTGGTCTTG
1354 CTCTTCAAAC
647 CTCTTCAAAC
* * **
1364 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTT-GTGAACTAT-TC
1 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTAGATGAACTTCCAG-ACT-TGTC
* * ** * *
1427 AAGCTTTTTACGAGTTCTTTTATAACTTTA-ACTCCTTAAAGTATTCCA-GACGATCCATTCCTT
64 AAAC-TTTTACGAGTTCTTTTACAAC-TTAGGTTCCTTAAAGCATTCTATG-CGATCCATTCCTT
* * * ** *
1490 CGATC-AATATTCCGAGCATTCCATGCTCGGGAAA-CAGCATCATTCGGTCTAAATAGTTTGTCA
126 CTA-CAAATATTCCGAACATTCAATGCTCGAAAAATC-GCATCATTCGATCTAAATAGTTTGTCA
* * * * *
1553 TTTTGCAAACAACTTTTTGGTGTTTGAATTAAAAA-TATATTTATGTGAGAATTATTTCTCTTTT
189 TTTTGCAAACAAC-TTTTGGTCTTTGAATTAAAAACT-TATTGACGTGAGAATTGTTTCTCTCTT
* * * * * * *
1617 GATTCTTGGACAAACTTCTGAACTTGTCAAGCTTTTACTATTTCTTCTATAATAACTTCGGTTCC
252 GATTCTTGGACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTT-T-TAA-AACTTCGGTTCC
* ** * * *
1682 TT-AA-ACTATTCAAGATG-ATC-CAA-TCCTTCGAGCAATATTCCGAACATTCCATGCTCTGGA
314 TTGAAGACTATT--AGATGAAACGCAACTCAATCGAGCAAT-TTTCGAACATTCCATTCTCCGGA
* * * * ** * **
1742 AATTGCA-TTATTCGGTCAAAATAGTTTGCCATTTCTCAAAAAAACTTTTGGTCACTGAA-TTAA
376 AATCG-AGTT-TTTGGTCTAAATAGTTTGTCATTT-TGTAAACAACTTTTGGTCTTTGAATTTAA
* * ** ** *
1805 ATACTTATTTATGTGTA-AA-TAGTTTCT-TCCTGGTTCTTGGACGAACTTTCGAACGAGGAAAA
438 A-ACTTATTTATGTG-ACAATTA-TCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAA
*** * * * *** * * *
1867 CTTTTACTCTTTCTATTATAACTTTGGTTCCTTAAAGTATTCAAGTTGATCCATTTCTTCGAGAA
500 CTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCA
* * *** * *
1932 ATTTT-GAGAACATTCCATTCTCGAGAAATTGC-ATCACTTGATCTAAATAGTTTATCATTTTGT
565 ATTTTCCA-AACATTCCATGCTCGAGAAATT-CTATGTTTTGGTCTAAATAGTTTATCATTTTGA
* *
1995 AAA-CAACTTTTGG---T-CT-TT-GAA-
628 AAACCAAGTTTTGGTCTTGCTCTTCAAAC
* * * *
2016 TTAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTAGATGAACTT-CTGAACTTTTCA
1 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTAGATGAACTTCCAG-ACTTGTCA
* * * * * * * *
2080 AGCTTTTACGAGTTCTTTTATAGCATT-GGTTCCTTAAAGTATTCAAGGCGATCCATTCTTTCAA
65 AACTTTTACGAGTTCTTTTACAAC-TTAGGTTCCTTAAAGCATTCTATGCGATCCATTCCTTCTA
* * * * * *
2144 GC-AATATTCCAAACATTCCATGCTCGAGAAATCGCATCATTCGGTCTAAATATTTTGTCATTCT
129 -CAAATATTCCGAACATTCAATGCTCGAAAAATCGCATCATTCGATCTAAATAGTTTGTCATTTT
* * * * *
2208 GTAAACAACTTTTGGTCTTTGAATTAAAAACCTATTTACGTGAGAATTGTTTCCCTCGT-AGTTC
193 GCAAACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGAGAATTGTTTCTCTCTTGA-TTC
* * * * * * *
2272 TTGGATGAACTTCCGCATTTGTCAAACTTTTACAGGTTCTTTTACAACTTAC-GTTCCTTAAAG-
257 TTGGACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTT-CGGTTCCTTGAAGA
* * * ** * * * * * *
2335 C-ATTATATGCAATC-C-ATTCCTTCTA-CAAATTTTTCGAATATTCAAAGT-TCAGAAAATCG-
321 CTATTAGATG-AAACGCAACTCAATCGAGC-AA-TTTTCGAACATTC-CATTCTCCGGAAATCGA
* * * * * *
2394 CTTAATTTGATCTAAATAGTTTGTCATTTTGTGAACATCTTTTGGTCTTTGAATTAAAAATTTAT
382 GTT--TTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTAT
* * ** * * * * *
2459 TGACGTGGGATTTGTTTCTCTCTTGGTTCTTGGACGAACCT-CC-AGACTTGTCAAACTTTTACA
445 TTATGTGACAATTATCTCTCTCTTGGTTCTTGGACGAA-CTACCGA-ACTTGTAAAACTTTTACG
** * *
2522 AGTCCTTTTAAAACTTCGGTTCCTTGAAGT
508 AGTTATTTTATAACTTCGGTTCCTTAAAGT
2552 GTATTATATA
Statistics
Matches: 1613, Mismatches: 186, Indels: 110
0.84 0.10 0.06
Matches are distributed among these distances:
645 4 0.00
646 38 0.02
647 126 0.08
648 10 0.01
649 2 0.00
650 77 0.05
651 116 0.07
652 64 0.04
653 2 0.00
654 2 0.00
655 2 0.00
656 1 0.00
659 396 0.25
660 513 0.32
661 147 0.09
662 84 0.05
663 7 0.00
664 5 0.00
665 17 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (656 bp):
TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTAGATGAACTTCCAGACTTGTCAA
ACTTTTACGAGTTCTTTTACAACTTAGGTTCCTTAAAGCATTCTATGCGATCCATTCCTTCTACA
AATATTCCGAACATTCAATGCTCGAAAAATCGCATCATTCGATCTAAATAGTTTGTCATTTTGCA
AACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGAGAATTGTTTCTCTCTTGATTCTTGG
ACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGACTATT
AGATGAAACGCAACTCAATCGAGCAATTTTCGAACATTCCATTCTCCGGAAATCGAGTTTTTGGT
CTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTGACAA
TTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
CTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCAATTTTCCAAACATTCCATGCT
CGAGAAATTCTATGTTTTGGTCTAAATAGTTTATCATTTTGAAAACCAAGTTTTGGTCTTGCTCT
TCAAAC
Found at i:2001 original size:436 final size:431
Alignment explanation
Indices: 23--3055 Score: 2288
Period size: 436 Copynumber: 6.9 Consensus size: 431
13 GTCATTCTGT
* * *
23 AAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTG
1 AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
* * * * * * * *
88 GATGAACTTCC-AGAGTTGTCAAACGTTTACGAGTTCTTTTACAACTTAGGTTCCTTAAAGCATT
66 GACGAACTTCCGA-ACTAGTAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATT
* * * * * * * *
152 CTA-TGCGATCCATTCCTTCTACAAATTTTTC-GAACATTCAATGTTCGAAAAATCGCATCATTT
130 CAAGT-TGATCCATTCCTTCGAGAAA-TTTTCAGAACATTCCATGCTCGAGAAATTGCATCATTT
* * ** * * *
215 TATCTAAATAGTTTTTCATTTTGCGAACAACTTTTCGTCTTTGAATTAAAAACTTATTGACGTGG
193 GATCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA-TTATTTACGTGA
* * * * * * *
280 GATTTGTTTCTCTCTTGGTTCTTGGACGAACCTCCGGACTTGTCAAACTTTTACAACTTCTTTTA
257 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAGCTTTTACGAGTTCTTTTA
* * * * ** * *
345 AAACTTCGGTTCCTTGAAGTGTATT-AGATGTAAACGATCAACTCAATCGAGCAAT-TTTCGAGC
322 TAACTTCGGTTCCTT-AA-AGTATTCA-A-G---ACGATCCATTCCTTCGAGCAATATTCCGAAC
* * * * * **
408 ATTCCATTCTCCGGAAATC-AAGTT-TTTGGAT-TAAATAGTTTGTCATTTTGT
380 ATTCCATGCTCTGGAAATCGCA-TTATTCGG-TCTAAATAGTTTGCCATTTTCA
* * * * * * *
459 AAACAACTTTTGGTCTTTGAATTTAAAACTTATTTATGTGACAATTATCTCTCTCTTGGTTCTTG
1 AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
* * * *
524 GACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTATTC
66 GACGAACTTCCGAACTAGTAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTC
*** * * * * * ** *
589 AAGACCATCCGTTTCTGCGAGCAATTTTCCA-AACATTCCATGCTCGAGAAATTGTATGTTTTGG
131 AAGTTGATCCATTCCTTCGAGAAATTTT-CAGAACATTCCATGCTCGAGAAATTGCATCATTTGA
* * * * *
653 TCTAAATAGTTTTTCATTTTGAAAACCAAGTTTTGGTCTTGGTCTTCAAACTAAAAACTTATTTA
195 TCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGGTC----T-TT-GAATTAAAAA-TTATTTA
* * * * *
718 CGTGAGAATTGTTTCTCTCTTAGTTCTTGGATGAACTTC-CAGAGTTGTCAAACTTTTACGAGTT
252 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGA-ACTTGTCAAGCTTTTACGAGTT
* * * * * * * *
782 CTTTTACAACTTAGGTTCCTTAAAGCATTCTATG-CGATGCATTCCTTCTA-CAAATTTTTCGAA
316 CTTTTATAACTTCGGTTCCTTAAAGTATTC-AAGACGATCCATTCCTTCGAGC-AATATTCCGAA
* * * * * * * ** **
845 CATTCAATGTTC-GAAAAAACGCATCATTTGATCTAAATAGTTTTTCATTTTGT
379 CATTCCATGCTCTG-GAAATCGCATTATTCGGTCTAAATAGTTTGCCATTTTCA
* * * * * *
898 GAACAACTTTTGGTCTTTGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTTGGTTCTTG
1 AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
* * * * * * * *
963 GACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTAT
66 GACGAACTTCCGAACTAGTAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTT-AA-AGTAT
* * * ** * ** * * *
1028 TATAAGTAAACGGTGAACTCAATCGAGCAATTTTC-GAACATTCCATTCTCCG-GAAATCG-AGT
129 T-CAAGT---TGATCCATTCCTTCGAGAAATTTTCAGAACATTCCATGCT-CGAGAAATTGCA-T
* * * *
1090 CTTTTGGTTTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTA
188 CATTTGATCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAA-TTAAAAATTATTTA
* * * * * * * * *
1155 TGTGACAATTATCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTA
252 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAGCTTTTACGAGTTC
* * * * * *
1220 TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCGTTTCTGCGAGCAATTTTCCAAACAT
317 TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTCCGAACAT
* * *
1285 TCCATGCT-TGAGAAATTC-TATGT-TTTGGTCTAAATAGTTTGTCATTTTCA
382 TCCATGCTCTG-GAAA-TCGCAT-TATTCGGTCTAAATAGTTTGCCATTTTCA
* *
1335 AAACCAAGTTTTGGTCTTGCTCTTCAAACTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
1 AAA-CAACTTTTGG---T-CTC-T-AAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* ** * * * ***
1400 GTTCTTAGACGAACTTGTGAACTATTCAAGCTTTTTACGAGTTCTTTTATAACTTTAACTCCTTA
59 GTTCTTGGACGAACTTCCGAACTAGTAAAAC-TTTTACGAGTTCTTTTATAACTTTGGTTCCTTA
* ** ** * * * * **
1465 AAGTATTCCAGACGATCCATTCCTTCGATCAATATTCCGAGCATTCCATGCTCGGGAAACAGCAT
123 AAGTATTCAAGTTGATCCATTCCTTCGAGAAATTTTCAGAACATTCCATGCTCGAGAAATTGCAT
* * * *
1530 CATTCGGTCTAAATAGTTTGTCATTTTGCAAACAACTTTTTGGTGTTTGAATTAAAAATATATTT
188 CATTTGATCTAAATAGTTTGTCATTTTGTAAACAAC-TTTTGGTCTTTGAATTAAAAAT-TATTT
* * * * * * *
1595 ATGTGAGAATTATTTCTCTTTTGATTCTTGGACAAACTTCTGAACTTGTCAAGCTTTTACTATTT
251 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAGCTTTTACGAGTT
* * *
1660 CTTCTATAATAACTTCGGTTCCTTAAACTATTCAAGATGATCCAATCCTTCGAGCAATATTCCGA
316 CTT-T-T-ATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTCCGA
* *
1725 ACATTCCATGCTCTGGAAATTGCATTATTCGGTCAAAATAGTTTGCCATTTCTCA
378 ACATTCCATGCTCTGGAAATCGCATTATTCGGTCTAAATAGTTTGCCATTT-TCA
* * * * * * *
1780 AAAAAACTTTTGGTCACTGAATTAAATACTTATTTATGTGTA-AATAGTTTCT-TCCTGGTTCTT
1 AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTG-AGAATTGTTTCTCTCTTGGTTCTT
* * * *** *
1843 GGACGAACTTTCGAACGAGGAAAACTTTTACTCTTTCTATTATAACTTTGGTTCCTTAAAGTATT
65 GGACGAACTTCCGAACTAGTAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATT
* * * *
1908 CAAGTTGATCCATTTCTTCGAGAAATTTTGAGAACATTCCATTCTCGAGAAATTGCATCACTTGA
130 CAAGTTGATCCATTCCTTCGAGAAATTTTCAGAACATTCCATGCTCGAGAAATTGCATCATTTGA
* *
1973 TCTAAATAGTTTATCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAACTTATTTACGTGAGAA
195 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAATTATTTACGTGAGAA
* * * *
2038 TTGTTTCTCTCTTGGTTCTTAGATGAACTTCTGAACTTTTCAAGCTTTTACGAGTTCTTTTATAG
260 TTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAGCTTTTACGAGTTCTTTTATAA
* * * *
2103 CATT-GGTTCCTTAAAGTATTCAAGGCGATCCATTCTTTCAAGCAATATTCCAAACATTCCATGC
325 C-TTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTCCGAACATTCCATGC
* * * * **
2167 TC-GAGAAATCGCATCATTCGGTCTAAATATTTTGTCATTCTGT
389 TCTG-GAAATCGCATTATTCGGTCTAAATAGTTTGCCATTTTCA
* * * * * *
2210 AAACAACTTTTGGTCTTTGAATTAAAAACCTATTTACGTGAGAATTGTTTCCCTCGTAGTTCTTG
1 AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
* * * * * * ** *
2275 GATGAACTTCCGCATTTGTCAAACTTTTAC-AGGTTCTTTTACAACTTACGTTCCTTAAAGCATT
66 GACGAACTTCCGAACTAGTAAAACTTTTACGA-GTTCTTTTATAACTTTGGTTCCTTAAAGTATT
* * * * * * * * *
2339 --A-TATGCAATCCATTCCTTCTACAAATTTTTC-GAATATTCAAAGTTC-AGAAAATCGCTTAA
130 CAAGT-TG--ATCCATTCCTTCGAGAAA-TTTTCAGAACATTCCATGCTCGAG-AAATTGCATCA
* * *
2399 TTTGATCTAAATAGTTTGTCATTTTGTGAACATCTTTTGGTCTTTGAATTAAAAATTTATTGACG
190 TTTGATCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA-TTATTTACG
* * * * * * *
2464 TGGGATTTGTTTCTCTCTTGGTTCTTGGACGAACCTC-CAGACTTGTCAAACTTTTACAAGTCCT
254 TGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGA-ACTTGTCAAGCTTTTACGAGTTCT
* * * * * * * * *
2528 TTTAAAACTTCGGTTCCTTGAAGTGTATTATATATAAATGATCCACTACATCGAG-AA-ATTTCG
318 TTTATAACTTCGGTTCCTT-AA-AGTA-T-T-CA-AGACGATCCATTCCTTCGAGCAATATTCCG
* * * * * * * **
2591 AACATTCCACTG-TCCGAAAATCG-AATATTTTGGTTTATACAGTTTGCCATTTTGT
377 AACATTCCA-TGCTCTGGAAATCGCATTA-TTCGGTCTAAATAGTTTGCCATTTTCA
* * * * *
2646 AAACAACTTTTGGTCTTTAAATTAAAAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTATTG
1 AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
* * * * *
2711 GACGAGCTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTATTC
66 GACGAACTTCCGAACTAGTAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTC
* * * * ** * * *
2776 AAGACTG-TCCGTTTCTACGAGCGATATTCCA-AACATTCCATGCTCGAGAAATTGCAGCTTTTG
131 AAG-TTGATCCATTCCTTCGAGAAAT-TTTCAGAACATTCCATGCTCGAGAAATTGCATCATTTG
* * * *** * *
2839 GTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAACTAAAAACTTATTTACGTTA
194 ATCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGGTCTTTGAATTAAAAA-TTATTTACGTGA
* * ** * * *
2904 GAGTTGTATCTC-CTTTGGTTCTCAGACGAACTTCTAAACTAGCCAAGCTTTTTACGAGTTCTTT
257 GAATTGTTTCTCTC-TTGGTTCTTGGACGAACTTCTGAACTTGTCAAGC-TTTTACGAGTTCTTT
* * * * * * *
2968 TATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTCCGATCAATATCCCGAACATGCC
320 TATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTCCGAACATTCC
* * *
3033 ATGCTCGGGAAATAGCATCATTC
385 ATGCTCTGGAAATCGCATTATTC
3056 CGATCCATTC
Statistics
Matches: 2058, Mismatches: 444, Indels: 192
0.76 0.16 0.07
Matches are distributed among these distances:
428 1 0.00
429 4 0.00
430 46 0.02
431 233 0.11
432 94 0.05
433 8 0.00
434 89 0.04
435 31 0.02
436 495 0.24
437 273 0.13
438 108 0.05
439 153 0.07
440 61 0.03
441 88 0.04
442 12 0.01
443 109 0.05
444 203 0.10
445 50 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (431 bp):
AAACAACTTTTGGTCTCTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG
GACGAACTTCCGAACTAGTAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTC
AAGTTGATCCATTCCTTCGAGAAATTTTCAGAACATTCCATGCTCGAGAAATTGCATCATTTGAT
CTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAATTATTTACGTGAGAAT
TGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAGCTTTTACGAGTTCTTTTATAAC
TTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTCCGAACATTCCATGCTC
TGGAAATCGCATTATTCGGTCTAAATAGTTTGCCATTTTCA
Found at i:3710 original size:713 final size:712
Alignment explanation
Indices: 2346--3767 Score: 2425
Period size: 713 Copynumber: 2.0 Consensus size: 712
2336 ATTATATGCA
* * *
2346 ATCCATTCCTTCTACAAATTTTTCGAATATTCAAAGTTCAGAAAATCGCTTAATTTGATCTAAAT
1 ATCCATTCCTTCTACAAATTTTTCGAACATTCAAAGTTCAAAAAATCGCATAATTTGATCTAAAT
* * * *
2411 AGTTTGTCATTTTGTGAACATCTTTTGGTCTTTGAATTAAAAATTTATTGACGTGGGATTTGTTT
66 AGTTTGTCATTTTGTGAACAACTTTTGGTCTTCGAATTAAAAACTTATTGACGTGAGATTTGTTT
*
2476 CTCTCTTGGTTCTTGGACGAACCTCCAGACTTGTCAAACTTTTACAAGTCCTTTTAAAACTTCGG
131 CTCTCTTGGTTCTTGAACGAACCTCCAGACTTGTCAAACTTTTACAAGTCCTTTTAAAACTTCGG
* *
2541 TTCCTTGAAGTGTATTATATATAAATGATCCACTACATCGAGAAATTTCGAACATTCCACTGTCC
196 TTCCTTGAAGTGTATTATATATAAATGATCCACTACATCGACAAATTTCGAACATTCCACTCTCC
2606 GAAAATCGAATATTTTGGTTTATACAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTAAATTAA
261 GAAAATCGAATATTTTGGTTTATACAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTAAATTAA
* * * *
2671 AAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTATTGGACGAGCTACCGAACTTGTAAAACT
326 AAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTATTGGACGAACTACCAAACCTGTAAAACA
* * **
2736 TTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTATTCAAGACTGTCCGTTTCTACGAGCGAT
391 TTTACGAGTTATTTTATAACTTCGATCCCTTAAAGTATTCAAGACCATCCGTTTCTACGAGCGAT
*
2801 ATTCCAAACATTCCATGCTCGAGAAATTGCAGCTTTTGGTCTAAATAGTTTGTCATTTTGAAAAC
456 ATTCCAAACATTCCATGCTCGAGAAATTACAGCTTTTGGTCTAAATAGTTTGTCATTTTGAAAAC
* * * *
2866 CAAGTTTTGGTCTCCAAACTAAAAACTTATTTACGTTAGAGTTGTATCTCCTTTGGTTCTCAGAC
521 CAAGTTTTCGTCTCCAAACTAAAAACTTATATACGTGAGAGTTGTATCTCCTTTGGTTCCCAGAC
2931 GAACTTCTAAACTAGCCAAGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAA
586 GAACTTCTAAACTAGCCAAGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAA
*
2996 GAAGATCCATTCCTCCGATCAATATCCCGAACATGCCATGCTCGGGAAATAGCATCATTCCG
651 GAAGATCCATTCCTCCGATCAATATCCCGAACATGCCACGCTCGGGAAATAGCATCATTCCG
*
3058 ATCCATTCCTTCTACAAATTTTTCGAACATTCAATGTTCAAAAAATCGCATAATTTGATCTAAAT
1 ATCCATTCCTTCTACAAATTTTTCGAACATTCAAAGTTCAAAAAATCGCATAATTTGATCTAAAT
3123 AGTTTGTCATTTTGTGAACAACTTTTGGTCTTCGAATTAAAAACTTATTGACGTGAGATTTGTTT
66 AGTTTGTCATTTTGTGAACAACTTTTGGTCTTCGAATTAAAAACTTATTGACGTGAGATTTGTTT
* *
3188 CTCTCTTGGTTCTTGAACGAACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGG
131 CTCTCTTGGTTCTTGAACGAACCTCCAGACTTGTCAAACTTTTACAAGTCCTTTTAAAACTTCGG
*
3253 TTCCTTGAAGTGTATTATATATAAATGATCCACTTCATCGAACAAATTTCGAACATTCCACTCTC
196 TTCCTTGAAGTGTATTATATATAAATGATCCACTACATCG-ACAAATTTCGAACATTCCACTCTC
* * *
3318 C-AGAAATTGAATCA-TTTGGTTTATACAGTTTTCCATTTTGTAAACAACTTTTGGTCTTTGAAT
260 CGA-AAATCGAAT-ATTTTGGTTTATACAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTAAAT
*
3381 TAAAAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTCTTGGACGAACTACCAAACCTGTAAA
323 TAAAAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTATTGGACGAACTACCAAACCTGTAAA
3446 ACATTTACGAGTTATTTTATAACTTCGATCCCTTAAAGTATTCAAGACCATCCGTTTCTACGAGC
388 ACATTTACGAGTTATTTTATAACTTCGATCCCTTAAAGTATTCAAGACCATCCGTTTCTACGAGC
* * * *
3511 GATTTTCCAAACATTCCATTCTCGAGAAATTACATCTTTTGGTCTAAATGGTTTGTCATTTTGAA
453 GATATTCCAAACATTCCATGCTCGAGAAATTACAGCTTTTGGTCTAAATAGTTTGTCATTTTGAA
3576 AACCAAGTTTTCGTCTCCAAACTAAAAACTTATATACGTGAGAGTTGTATCTCCTTTGGTTCCCA
518 AACCAAGTTTTCGTCTCCAAACTAAAAACTTATATACGTGAGAGTTGTATCTCCTTTGGTTCCCA
*
3641 GACGAACTTCTGAACTAGCCAAGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATT
583 GACGAACTTCTAAACTAGCCAAGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATT
* *** *
3706 CAAGAAGATCCATTCCTTCGATCAATATTTTGAACATTCCACGCTCGGGAAATAGCATCATT
648 CAAGAAGATCCATTCCTCCGATCAATATCCCGAACATGCCACGCTCGGGAAATAGCATCATT
3768 GGGTGCAAAT
Statistics
Matches: 665, Mismatches: 42, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
712 224 0.34
713 440 0.66
714 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (712 bp):
ATCCATTCCTTCTACAAATTTTTCGAACATTCAAAGTTCAAAAAATCGCATAATTTGATCTAAAT
AGTTTGTCATTTTGTGAACAACTTTTGGTCTTCGAATTAAAAACTTATTGACGTGAGATTTGTTT
CTCTCTTGGTTCTTGAACGAACCTCCAGACTTGTCAAACTTTTACAAGTCCTTTTAAAACTTCGG
TTCCTTGAAGTGTATTATATATAAATGATCCACTACATCGACAAATTTCGAACATTCCACTCTCC
GAAAATCGAATATTTTGGTTTATACAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTAAATTAA
AAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTATTGGACGAACTACCAAACCTGTAAAACA
TTTACGAGTTATTTTATAACTTCGATCCCTTAAAGTATTCAAGACCATCCGTTTCTACGAGCGAT
ATTCCAAACATTCCATGCTCGAGAAATTACAGCTTTTGGTCTAAATAGTTTGTCATTTTGAAAAC
CAAGTTTTCGTCTCCAAACTAAAAACTTATATACGTGAGAGTTGTATCTCCTTTGGTTCCCAGAC
GAACTTCTAAACTAGCCAAGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAA
GAAGATCCATTCCTCCGATCAATATCCCGAACATGCCACGCTCGGGAAATAGCATCATTCCG
Found at i:4459 original size:216 final size:216
Alignment explanation
Indices: 3081--4570 Score: 1290
Period size: 216 Copynumber: 6.8 Consensus size: 216
3071 ACAAATTTTT
* * * * * *
3081 CGAACATTCAATGTTCAAAAAATCGCATAATTTGATCTAAATAGTTTGTCATTTTGTGAACAACT
1 CGAACATTCCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
* * * *
3146 TTTGGTCTTCGAATTAAAAACTTATTGACGTGAGATTTGTTTCTCTCTTGGTTCTT-GAACGAAC
66 TTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAG-ACGAAC
* * * * * *
3210 CTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATAT
130 TTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT-AA-AGTATT-CA-A-
* * * *
3275 AAATGATCCACTTC-ATCGAACAA-ATTT
190 GAA-GATCCA-TTCTTTCGAGCAATATTC
* * * * * *
3302 CGAACATTCCACT-CTCCAGAAATTGAATCATTTGGTTTATACAGTTT-TCCATTTTGTAAACAA
1 CGAACATTCCA-TGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGT-CATTTTGTAAACAA
* * *
3365 CTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAAAATTGTCTCTCTCTTGGTTCTTGGACGAA
64 CTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAA
* * * * * * * * **
3430 CTACCAAACCTGTAAAACATTTACGAGTTATTTTATAACTTCGATCCCTTAAAGTATTCAAGACC
129 CTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGAAG
* * * *
3495 ATCCGTT-TCTACGAGCGATTTTC
194 ATCCATTCT-TTCGAGCAATATTC
* * * ** * * * *
3518 CAAACATTCCATTCTCGAGAAATTACATCTTTTGGTCTAAATGGTTTGTCATTTTGAAAACCAAG
1 CGAACATTCCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-CAAC
* *** * * * * * **
3583 TTTTCGTCTCCAAACTAAAAACTTATATACGTGAGAGTTGTATCTC-CTTTGGTTCCCAGACGAA
65 TTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTC-TTGGTTCTTAGACGAA
* * * * * *
3647 CTTCTGAACTAGCCAAGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAA
129 CTTCCGAACTTGTCAAAC-TTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGAA
* * *
3712 GATCCATTCCTTCGATCAATATTT
193 GATCCATTCTTTCGAGCAATATTC
* * ** * * * *
3736 TGAACATTCCACGCTCGGGAAATAGCATCATTGGGTGC-AAATAGTTTGTCCTTTTGCAAACAAC
1 CGAACATTCCATGCTCAAGAAATCGCATCATTTGGT-CTAAATAGTTTGTCATTTTGTAAACAAC
* ** * *
3800 TTTTTGGTCTTTGAATTAAAAA-TATATTTATGTGAAAATTACTTCTCTTTTGATTCTTAGACGA
65 -TTTTGGTCTTTGAATTAAAAACT-TATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGA
* * * * * *
3864 ACTTCGGAACTTGTCAAGCTTTTACTATTTCTTCTATAATAACTTCGCTTCCTTAAACTATTCAA
128 ACTTCCGAACTTGTCAAACTTTTACGAGTTCTT-T-T-ATAACTTCGGTTCCTTAAAGTATTCAA
* *
3929 GATGATCCAATGC-TTCGAGCAATATTC
190 GAAGATCC-ATTCTTTCGAGCAATATTC
* * ** * * * *
3956 TGAGCATTCCATGCTCGGGAAATCGAATCATTCT-GTCAAAATAGTTTGCCATTTCT-TAAAAAA
1 CGAACATTCCATGCTCAAGAAATCGCATCATT-TGGTCTAAATAGTTTGTCATTT-TGT-AAACA
** * * *
4019 ACTTTTGGTCACTGAATTAAATACTTATTTATGTGTA-AATTATTTCTCTCTTGGTTCTTGGACG
63 ACTTTTGGTCTTTGAATTAAAAACTTATTTATGTG-AGAATTGTTTCTCTCTTGGTTCTTAGACG
* * * *
4083 AACCTT-CGAACTATG-AAAACTTTTACTATTTCTGTTATAACTTCGGTTCCTTAAAGTATTCAA
127 AA-CTTCCGAACT-TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * *
4146 G-ATATCCATT-TCTTCGAGCAATTTTG
190 GAAGATCCATTCT-TTCGAGCAATATTC
* *
4172 CGAACATTCCATGCTCAAGAAATTGCATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
1 CGAACATTCCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
* * * **
4237 TTTGGTCTTTGACTTAAAAACTTATTTACGTGAGAACTGTTTCTCTCTCCGTTCTTAGACGAACT
66 TTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACT
** * * **
4302 TTTGAACTTTTCAAGCTTTTACGAGTTCTTTTATAACATT-GGTTCCTTAAAGTATTCAAGGCGA
131 TCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC-TTCGGTTCCTTAAAGTATTCAAGAAGA
* *
4366 ACCATTCTTTCAAGCAATATTC
195 TCCATTCTTTCGAGCAATATTC
* * *
4388 CAAACATTCCATGCTCAAGAAATCGCATCATTCGGTCTAAATATTTTGTCATTTTGTAAACAACT
1 CGAACATTCCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
* * * * * * *
4453 TTTGGTCTTTGAATTAAAAACCTATTTATGTGACAATTGTTTCCCTCGTAGTTCTTGGATGAACT
66 TTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACT
* * * *
4518 TCCGCACTTGTCTAACTTTTTAC-AGGTTCTTTTACAACTTAGGTTCCTTAAAG
131 TCCGAACTTGTCAAAC-TTTTACGA-GTTCTTTTATAACTTCGGTTCCTTAAAG
4571 CACTTGTCTC
Statistics
Matches: 1014, Mismatches: 214, Indels: 86
0.77 0.16 0.07
Matches are distributed among these distances:
214 7 0.01
215 118 0.12
216 256 0.25
217 137 0.14
218 163 0.16
219 9 0.01
220 163 0.16
221 159 0.16
222 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (216 bp):
CGAACATTCCATGCTCAAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
TTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACT
TCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGAAGAT
CCATTCTTTCGAGCAATATTC
Found at i:6076 original size:221 final size:216
Alignment explanation
Indices: 5697--6206 Score: 566
Period size: 221 Copynumber: 2.3 Consensus size: 216
5687 AATGTCCAAA
* * *
5697 AAATCGCATCCTTTGATCTAAATAGTTTGTCATTTTGTGAACAACTTTTGGTCTTCAAATTAAAA
1 AAATCGCATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCAAATTAAAA
*** * * * *
5762 ACTTATTGACATGGGATTTGTTTCTCTCTTGGTTCTTGAACGAACCTCCGGACTTGTCAAACTTT
66 ACTTATTGACATCAAAATTGTCTCTCTCTTGGTTCTTGAACGAACCTCCGAACTTGTAAAACTTT
* * **
5827 TACAAGTTCTTTTAAAACTTCAGTTCCTTGAAGTTTATTATATATAAATGATCCACTTC-ATCGA
131 TACAAGTTATTTTAAAACTTCAGTTCCTTAAAG--TA-T-TA-A-AAACCATCCACTTCTA-CGA
5891 GCAAATTT-CAAACATTCCACT-CTCCG-G
189 GCAAATTTCCAAACATTCCA-TGCT-CGAG
* * **
5918 AAATCGAATCTTTTGGTTTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
1 AAATCGCATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCAAATTAAAA
**
5983 ACTTAATT-ATGTCAAAATTGTCTCTCTCTTGGTTCTTTG-ACGAA-CTACCGAACTTGTAAAAC
66 ACTT-ATTGACATCAAAATTGTCTCTCTCTTGGTTC-TTGAACGAACCT-CCGAACTTGTAAAAC
* * * * * *
6045 TTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTATTAAAGACCATCCATTTCTACGAGCGA
128 TTTTACAAGTTATTTTAAAACTTCAGTTCCTTAAAGTATTAAAAACCATCCACTTCTACGAGCAA
*
6110 TTTTCCAAACATTCCATGCTCGAG
193 ATTTCCAAACATTCCATGCTCGAG
* * * * *
6134 AAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAACTAAA
1 AAATCGCATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGGTCTTCAAATTAAA
6199 AACTTATT
65 AACTTATT
6207 TACGTGAGAG
Statistics
Matches: 245, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
215 22 0.09
216 56 0.23
217 25 0.10
218 1 0.00
219 2 0.01
220 2 0.01
221 131 0.53
222 6 0.02
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (216 bp):
AAATCGCATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCAAATTAAAA
ACTTATTGACATCAAAATTGTCTCTCTCTTGGTTCTTGAACGAACCTCCGAACTTGTAAAACTTT
TACAAGTTATTTTAAAACTTCAGTTCCTTAAAGTATTAAAAACCATCCACTTCTACGAGCAAATT
TCCAAACATTCCATGCTCGAG
Found at i:7192 original size:712 final size:712
Alignment explanation
Indices: 4574--7789 Score: 5294
Period size: 713 Copynumber: 4.5 Consensus size: 712
4564 CTTAAAGCAC
** * *
4574 TTGTCTCTCTCTTGGTTCTTGGACGTGCTACCGAACTTGTTAAACTTTTACGTGTTATTTTATAA
1 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
* *
4639 CTTCGATTCCTTAAAGTATTCAAGACCATCCGTTTCTACGAGCGATATTCCAAACATTCCATGCT
66 CTTCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTTCCAAACATTCCATGCT
*
4704 CGAGAAATTGAATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
131 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
*
4769 TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCAAA
196 TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCAA
* * *
4834 GCTTTTTACAAGTTCTTTTATATTTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCTGAT
261 GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGAT
* * * *
4899 CAATATCCCG-ATATTCCATGCTCGAGAAATAGCATCATTCTGATCCACTCCTTCTACAAATTTT
326 CAATATCCCGAACATTCCATGCTCGGGAAATAGCATCATTCCGATCCATTCCTTCTA-AAATTTT
*
4963 TT-GAACATTCAATGTTCTGAAAATCGCATCATTTGATCTAAATAGTTTATCATTTTGTGAACAA
390 TTCGAACATTCAATGTTCTGAAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTGAACAA
* * *
5027 CTTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTTGGTTCTTGGATGAA
455 CTTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACGAA
*
5092 CCGCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATA
520 CCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATA
5157 TAAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTCCGAAAATCGAATCTTTTGGTT
585 TAAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTCCG-AAATCGAATCTTTTGGTT
* * *
5222 TAAATAGTTTGCCATTTTGTAAAAAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAAAA
649 TAAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACATATTTATGTGAAAA
* *
5286 TTGTCTCTCTCTTGGTTCTTGGACGAAGTACCGAACTTGTAAAACTTTTAGGAGTTATTTTATAA
1 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
* * *
5351 CTTCGGTTCCCTAAAGTTTTCAAGACCATCTGTTTCTACGAGCGATTTTCCAAACATTTCCATGC
66 CTTCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTTCCAAACA-TTCCATGC
*
5416 TCGAGAAATTGCATCTTTTTGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAA
130 TCGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAA
5481 CTAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCA
195 CTAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCA
*
5546 AGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTTCGA
260 AGCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGA
* * *
5611 TCAATATCCAGAACATTCCATGCTCGAGAAATAGCATCATTCCGATCCATTCCTTCTCCAAA-TT
325 TCAATATCCCGAACATTCCATGCTCGGGAAATAGCATCATTCCGATCCATTCCTTCT-AAAATTT
* ** *
5675 TTTCGAACATTCAATGTCCAAAAAATCGCATCCTTTGATCTAAATAGTTTGTCATTTTGTGAACA
389 TTTCGAACATTCAATGTTCTGAAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTGAACA
* * *
5740 ACTTTTGGTCTTCAAATTAAAAACTTATTGACATGGGATTTGTTTCTCTCTTGGTTCTTGAACGA
454 ACTTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACGA
* *
5805 ACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCAGTTCCTTGAAGTTTATTATAT
519 ACCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATAT
5870 ATAAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTCCGGAAATCGAATCTTTTGGT
584 ATAAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTCC-GAAATCGAATCTTTTGGT
* * * *
5935 TTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTAATTATGTCAAAA
648 TTAAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACATATTTATGTGAAAA
*
6000 TTGTCTCTCTCTTGGTTCTTTGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
1 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
* * * *
6065 CTTCGGTTCCTTAAAGTATTAAAGACCATCCATTTCTACGAGCGATTTTCCAAACATTCCATGCT
66 CTTCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTTCCAAACATTCCATGCT
6130 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
131 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
* * * **
6195 TAAAAACTTATTTACGTGAGAGCTGTATCTCCTTTGGTTCTCAAACGAACTTCTCTACTAGCCAA
196 TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCAA
** *
6260 GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTCCTAT
261 GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGAT
* *
6325 CAATATCCCGAACATTCCATGCTTGGGAAATAGCATCATTCCGATCCATTCCTTCTAAAAATTTT
326 CAATATCCCGAACATTCCATGCTCGGGAAATAGCATCATTCCGATCCATTCCTTCTAAAATTTTT
* * *
6390 TCGAACATTCAATGTTCGGCAAAAT-GTATAATTTGATCTAAATAGTTTGTCATTTTGTGAACAA
391 TCGAACATTCAATGTTCTG-AAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTGAACAA
* *
6454 CATTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACAAA
455 CTTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACGAA
6519 CCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATA
520 CCTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATA
*
6584 TAAATGATCCACTTCATCGAGCAAATTTCGAACATTCCACTCTCTCGAAATCGAATCTTTTGGTT
585 TAAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTC-CGAAATCGAATCTTTTGGTT
* *
6649 TAAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTGAAAACATCTTTATGTGAAAA
649 TAAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACATATTTATGTGAAAA
*
6713 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTAACGAGTTATTTTATAA
1 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
* * *
6778 CATCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTT-CAAACATTTCATTCT
66 CTTCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTTCCAAACATTCCATGCT
*
6842 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGGTTTGGTCTCCAAAC
131 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
*
6907 TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACCAGCCAA
196 TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCAA
6972 GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGAT
261 GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGAT
* *
7037 CAGTATCCCGAACATTCCATGCTCGGGAAATACCATCATTCCGATCCATTCCTTCTAAAATTTTT
326 CAATATCCCGAACATTCCATGCTCGGGAAATAGCATCATTCCGATCCATTCCTTCTAAAATTTTT
* *
7102 TCGAACATTCAATGTTCTGAAAATCTCATTATTTGATCTAAATAGTTTGTCATTTTGTGAACAAC
391 TCGAACATTCAATGTTCTGAAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTGAACAAC
7167 TTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACGAAC
456 TTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACGAAC
* *
7232 CTCCGGACTTGTCAAACTTTTAAAAGTTCTTTTAAAACTTTGGTTCCTTGAAGTGTATTATATAT
521 CTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATAT
* *
7297 AAATGATCCACTTCATCGAGCAAATTTCGAACATTCCACTCTCTAGAAATCGAATCTTTTGGTTT
586 AAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTC-CGAAATCGAATCTTTTGGTTT
* *
7362 AAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTGAAAACATCTTTATGTGAAAA
650 AAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACATATTTATGTGAAAA
*
7425 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTAACGAGTTATTTTATAA
1 TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
* ** *
7490 CATCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGTAATTTTCCAAACATTCCAAGCT
66 CTTCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTTCCAAACATTCCATGCT
** * *
7555 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAAATAAGTTTTGTTCTTCAAAC
131 CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
* * * * * * * * *
7620 TAAAAACATATTTACGTGAAAATTGTTTCTCCTTCGGTTCTTAGACGAACTTCTGAACTAGTCAA
196 TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCAA
* * * * ** * *
7685 GCTTTTTACGAGTCCTTTTATAACTTTGGTTCCTTAGAGTATTCAAGACGATCCATTCCTTCAAT
261 GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGAT
*
7750 CAAT-TTCCGAACATT-CAGTGCTCGGGAAATAGCATCATTC
326 CAATATCCCGAACATTCCA-TGCTCGGGAAATAGCATCATTC
7790 GGTCTAAATA
Statistics
Matches: 2348, Mismatches: 145, Indels: 22
0.93 0.06 0.01
Matches are distributed among these distances:
711 7 0.00
712 823 0.35
713 1051 0.45
714 466 0.20
715 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (712 bp):
TTGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAGTTATTTTATAA
CTTCGATTCCTTAAAGTTTTCAAGACCATCCGTTTCTACGAGCGATTTTCCAAACATTCCATGCT
CGAGAAATTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTCTCCAAAC
TAAAAACTTATTTACGTGAGAGTTGTATCTCCTTTGGTACTCAGACGAACTTCTGGACTAGCCAA
GCTTTTTACGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGAAGATCTGTTCCTCCGAT
CAATATCCCGAACATTCCATGCTCGGGAAATAGCATCATTCCGATCCATTCCTTCTAAAATTTTT
TCGAACATTCAATGTTCTGAAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTGAACAAC
TTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTCGGTTCTTGAACGAAC
CTCCGGACTTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATATAT
AAATGATCCACTTCATCGAGCAAATTTCAAACATTCCACTCTCCGAAATCGAATCTTTTGGTTTA
AATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACATATTTATGTGAAAA
Found at i:7765 original size:217 final size:215
Alignment explanation
Indices: 7078--8261 Score: 819
Period size: 217 Copynumber: 5.5 Consensus size: 215
7068 ACCATCATTC
* * * * * * *
7078 CGATCCATTCCTTCTAA-AATTTTTTCGAACATTCAATGTTCTGA-AAATCTCATTATTTGATCT
1 CGATCCATTCCTTCGAATAA--TTTCCGAACATTCCATGCTC-GAGAAATCGCATCATTTGGTCT
** * * * * ** *
7141 AAATAGTTTGTCATTTTGTGAACAACTTTTGGTCTTCGAATTAAAAACTTATTGACGTGGGATTT
63 AAATAGTTTGTCATTTTGAAAAAAACTTTTGGTCTTCGAATTAAAAACATATTTATGTGAAAATT
* * * * * ** * *
7206 GTTTCTCTCTCGGTTCTT-GAACGAACCTCCGGACTTGTCAAA-CTTTTAAAAGTTCTTTTAAAA
128 GTTTCTCTCTTGGTTCTTAG-ACGAACTTCTGAACTAGT-AAAGCTTTTACGAGTCCTTTTATAA
* * * *
7269 CTTTGGTTCCTTGAAGTGTATTATATATAAA
191 CTTCGGTTCCTT-AA-AGTA-T-T-CA-AGA
* * * * * *
7300 TGATCCACTT-CATCGAGCA-AATTT-CGAACATTCCACT-CTCTAGAAATCGAATCTTTTGGTT
1 CGATCCA-TTCCTTCGA--ATAATTTCCGAACATTCCA-TGCTCGAGAAATCGCATCATTTGGTC
* * * * * *
7361 TAAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTGAAAACATCTTTATGTGAAAAT
62 TAAATAGTTTGTCATTTTGAAAAAAACTTTTGGTCTTCGAATTAAAAACATATTTATGTGAAAAT
* * * * * * * **
7426 TGTCTCTCTCTTGGTTCTTGGACGAACTACCGAACTTGTAAAACTTTAACGAGTTATTTTATAAC
127 TGTTTCTCTCTTGGTTCTTAGACGAACTTCTGAACTAGTAAAGCTTTTACGAGTCCTTTTATAAC
* * *
7491 ATCGATTCCTTAAAGTTTTCAAGA
192 TTCGGTTCCTTAAAGTATTCAAGA
* * * * * * * * *
7515 CCATCCGTTTCTACGAGTAATTTTCCAAACATTCCAAGCTCGAGAAATTGCATCTTTTGGTCTAA
1 CGATCCATTCCTTCGAATAA-TTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
* * * * *
7580 ATAGTTTGTCATTTTGAAAAATAAGTTTTGTTCTTCAAACTAAAAACATATTTACGTGAAAATTG
65 ATAGTTTGTCATTTTGAAAAA-AACTTTTGGTCTTCGAATTAAAAACATATTTATGTGAAAATTG
*
7645 TTTCTC-CTTCGGTTCTTAGACGAACTTCTGAACTAGTCAAGCTTTTTACGAGTCCTTTTATAAC
129 TTTCTCTCTT-GGTTCTTAGACGAACTTCTGAACTAGTAAAGC-TTTTACGAGTCCTTTTATAAC
* *
7709 TTTGGTTCCTTAGAGTATTCAAGA
192 TTCGGTTCCTTAAAGTATTCAAGA
* * *
7733 CGATCCATTCCTTC-AATCAATTTCCGAACATT-CAGTGCTCGGGAAATAGCATCATTCGGTCTA
1 CGATCCATTCCTTCGAAT-AATTTCCGAACATTCCA-TGCTCGAGAAATCGCATCATTTGGTCTA
* * * * *
7796 AATAGTTTGTCATTTTGCAAACAACTTTTTAGTCCTT-GAATTAAAAATATATTTATGTGAGAAT
64 AATAGTTTGTCATTTTGAAAAAAAC-TTTTGGT-CTTCGAATTAAAAACATATTTATGTGAAAAT
* * ** * * * * * * *
7860 TATTTCTCTTTTCATTCTTAGACAAACTTCTGAACTTGTCAAGCTTTTACTATTTCATCTGTAAT
127 TGTTTCTCTCTTGGTTCTTAGACGAACTTCTGAACTAGTAAAGCTTTTACGA-GTC--CTTTTAT
* *
7925 AACTTCGGTTCCTTGAACTATTCAAGA
189 AACTTCGGTTCCTTAAAGTATTCAAGA
* * ** ** **
7952 TGATCCAATCCTTCGAGCAATATTCCGAACATTCCATGCTCG-GAAATCGCATCATTCAGTGAAA
1 CGATCCATTCCTTCGAATAAT-TTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
* * * * * *
8016 ATAGTTTGCCATTTCTTAAAAAAACTTTTGGTC-ACTGAATTAAATACGTATTTATGTGTAAATT
65 ATAGTTTGTCATTT-TGAAAAAAACTTTTGGTCTTC-GAATTAAAAACATATTTATGTGAAAATT
* * * * *
8080 GTTTCTCTCTTGGTTCTTGGATGAACTT-TCGAACTAGGAAAACCTATTT-C---T--GTTT-TA
128 GTTTCTCTCTTGGTTCTTAGACGAACTTCT-GAACTA-GTAAAGCT-TTTACGAGTCCTTTTATA
**
8137 ACTTCGGTTCCAAAAAGTATTCAAGA
190 ACTTCGGTTCCTTAAAGTATTCAAGA
* * * * * * *
8163 TGATCCGTTTCTTCGAGTAATTTTGCGAACATTCCATGCTCGAGAATTCGCATCACTTGGTCTAA
1 CGATCCATTCCTTCGAATAA-TTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
** *
8228 ATAGTTTGTCATTTTGTTAACAACTTTTGGTCTT
65 ATAGTTTGTCATTTTGAAAAAAACTTTTGGTCTT
8262 TGA
Statistics
Matches: 760, Mismatches: 167, Indels: 80
0.75 0.17 0.08
Matches are distributed among these distances:
211 73 0.10
212 31 0.04
214 4 0.01
215 13 0.02
216 67 0.09
217 187 0.25
218 57 0.08
219 131 0.17
220 37 0.05
221 140 0.18
222 15 0.02
223 2 0.00
224 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (215 bp):
CGATCCATTCCTTCGAATAATTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAA
TAGTTTGTCATTTTGAAAAAAACTTTTGGTCTTCGAATTAAAAACATATTTATGTGAAAATTGTT
TCTCTCTTGGTTCTTAGACGAACTTCTGAACTAGTAAAGCTTTTACGAGTCCTTTTATAACTTCG
GTTCCTTAAAGTATTCAAGA
Done.