Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013613.1 Kokia drynarioides strain JFW-HI SEQ_128641, 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: 3302
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Found at i:666 original size:216 final size:216
Alignment explanation
Indices: 1--3119 Score: 3123
Period size: 216 Copynumber: 14.6 Consensus size: 216
* * * * *
1 AAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTGACAAGTTCGAAAGTTGGTCCAAAAACTA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* ** * * *
66 GGATTGATACAATTCTCACATAAATAAGCTTTCAATTCAATA-ACCAAAAGTTGTTTACAAAATG
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAA-AGACCAAAAGTTGTTTACAAAATG
* * * * *
130 ACAAACTATTTGGACCAAATGATGC-AATTCTTCGAGCATGGAATGTTCGGGAAATGTCTCGAAG
130 ACAAACTATTTGGACCAAAAGATTCGATTTC-CCGAGCATGGAATGTTCGAGAAATGTCTCGAAG
* *
194 GAAAGGATCATGTTGAATACTTT
194 GAAAGGATCGTCTTGAATACTTT
217 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTG---A---C--AAGTTCGTCCAAGAACCA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * * * *
274 TGAGAGATAAAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAGAAGTTGTCTAAAAAATGA
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* * * **
339 AAAACTATTTGGACC-AAATATTGTGATTT-TTGAGCATGGAATGTTCGAGAAAT-TGCTCGAAG
131 CAAACTATTTGGACCAAAAGATT-CGATTTCCCGAGCATGGAATGTTCGAGAAATGT-CTCGAAG
*
401 GAAAGGATCGTGTTGAATACTTT
194 GAAAGGATCGTCTTGAATACTTT
* * * * * *
424 AAGGAACAGAGGTTATAAAAGAACTCGTAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * *
489 AGAGAGATACAATTCTCACGTAAATAAGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGA
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* *
554 CAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGA
131 CAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATGTTCGAGAAATGTCTCGAAGGA
* *
619 AAGCATCGACTTGAATACTTT
196 AAGGATCGTCTTGAATACTTT
* * * * *
640 AAGGAACCAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGATCGGAAGTTCGT-CAAGGAACT
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAA-GAACC
* * * *
704 AGGAGAGATA-ATATTCTCACATAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAAT
65 AAGAGAGATACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT
* * * * *
768 GAAAAACAATTTGGACCAAAAGATGT-GACTT-CCAATGCATGGAATGCTC-AGGAAATGTCTCG
129 GACAAACTATTTGGACCAAAAGAT-TCGATTTCCCGA-GCATGGAATGTTCGA-GAAATGTCTCG
830 AAGGAAAGGATCGTCTTGAATACTTT
191 AAGGAAAGGATCGTCTTGAATACTTT
* * * ** *
856 AAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTG---A---C--AAGTTCGTCCAAGAACCA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * *
913 AGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCGAAGGTTGTTTACAAAATGA
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* * ** * * * *
978 CAAACTATTTGGACCAAATG-TTGTGATTTCTTGAGCATGAAATGTTCAAAAAATAG-CTTGAAG
131 CAAACTATTTGGACCAAAAGATT-CGATTTCCCGAGCATGGAATGTTCGAGAAAT-GTCTCGAAG
* * * * *
1041 GAATGAATCATCCTAAATACTTT
194 GAAAGGATCGTCTTGAATACTTT
* * * *
1064 AACGAACTGAAGTTATAAACGAACTCATAAAAGTTTGACAAGTT-GGAAAGTTCGTCCAAGAACC
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGG-AAGTTCGTCCAAGAACC
* * * * * *
1128 AAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTCTAAAAAATG
65 AAGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * * *
1193 AAAAACTATTTGGACC-AGATATTGTGATTT-CCGAGCATGGAATGTTAGAGAAAT-TGCTCAAA
130 ACAAACTATTTGGACCAAAAGATT-CGATTTCCCGAGCATGGAATGTTCGAGAAATGT-CTCGAA
*
1255 GGAAAGGATCGTGTTGAATACTTT
193 GGAAAGGATCGTCTTGAATACTTT
* * * * * *
1279 AAGGAACAGAGGTTATAAAAGAACTCGTAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * *
1344 AGAGAGATACAATTCTCACGTAAATAAGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGA
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* *
1409 CAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGA
131 CAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATGTTCGAGAAATGTCTCGAAGGA
* *
1474 AAGCATCGACTTGAATACTTT
196 AAGGATCGTCTTGAATACTTT
* * * * * *
1495 AAGGAACCAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGTTCGGAAGTTCGTCGAGGAACTA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * * *
1560 GGAGAGATA-ATATTCTCACATAAATAGGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATG
66 AGAGAGATACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * * ** * *
1624 AAAAACAATTTGAACCAAAAGATGCGACTTCCAAAGCATGGAATGCTCGGGAAATGTCTCGAAGG
130 ACAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATGTTCGAGAAATGTCTCGAAGG
*
1689 AAAGGATCGTCGTGAATACTTT
195 AAAGGATCGTCTTGAATACTTT
* * * ** *
1711 AAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGAC-A-----G--GTTCGTCCAAGAACCA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * *
1768 AGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCGAAGGTTGTTTACAAAATGA
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
** * * * * *
1833 CAAACTATTTGGACCAAGTGATGT-GATTTCTCGAGCATGAAATGTTCAAAAAATAGCCTC-AAG
131 CAAACTATTTGGACCAAAAGAT-TCGATTTCCCGAGCATGGAATGTTCGAGAAAT-GTCTCGAAG
* * * * *
1896 GAATGAATCATCCTAAATACTTT
194 GAAAGGATCGTCTTGAATACTTT
* * *
1919 AACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTT-GGAAAGTTCGTCCAAGAACC
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGG-AAGTTCGTCCAAGAACC
* * * * * *
1983 AAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTCTAAAAAATG
65 AAGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * *
2048 ATAAAC----TGTACCAAATA-ATGT-GATTTCTCGAGCATGGAATGTTCGAGAAATTTCTCAAA
130 ACAAACTATTTGGACCAAA-AGAT-TCGATTTCCCGAGCATGGAATGTTCGAGAAATGTCTCGAA
2107 GGAAAGGATCGTCTTGAATACTTT
193 GGAAAGGATCGTCTTGAATACTTT
* * * * * *
2131 AAGGAACAGAGGTTATAAAAGAACTCGTAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * * *
2196 AGAGAGATACAATTCTCATGTAAATAAGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGA
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* *
2261 CAAACTATTTGGACCAAAAGATTTGATTTCCCGAGCATGGAATTTTCGAGAAATGTCTCGAAGGA
131 CAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATGTTCGAGAAATGTCTCGAAGGA
* * *
2326 AAGCATCGACTTGTATACTTT
196 AAGGATCGTCTTGAATACTTT
* * *
2347 AAGGAACCAAAGTTATAAAAGAACTCGTCAAAGTTTG----G--C--AAGTTCATCCAAGAACCA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * * * * * *
2404 AGAGAGATAAAATTCCCACGTAAATAATTTTTTAATTCAAAGACAAAAATTTGTTT-CCAAGT-A
66 AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* ** * **
2467 AAAACTATTCAGACCAAATA-ATGT-GATTTCCCGAGCATAGAATGTTCGTCAAAT-TGCTCGAA
131 CAAACTATTTGGACCAAA-AGAT-TCGATTTCCCGAGCATGGAATGTTCGAGAAATGT-CTCGAA
* *
2529 GGAATGGAT-TTCCTTGAATACTTT
193 GGAAAGGATCGT-CTTGAATACTTT
* * * *
2553 GAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAGAAGTTCAGAAGTTCGTCCAGGAACCA
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
* * *
2618 GGAGAGATA-ATATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAATTTGTTTAC--AA-G
66 AGAGAGATACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * ** * * **
2679 ACAATCTATTTGGACCAAATA-ATGCGATTTATCGAGCGTGGAATGATCTTGAAAT-TGCTCGAA
130 ACAAACTATTTGGACCAAA-AGATTCGATTTCCCGAGCATGGAATGTTCGAGAAATGT-CTCGAA
*
2742 GGAATGGATCGTCTTGAATACTTT
193 GGAAAGGATCGTCTTGAATACTTT
** * * * * *
2766 AAGGAAACAAAAG-TACAAAACAACTCGTAAAAGTTTGACTAGTTCAGAAGTTCTTCCAAGAACC
1 AAGG-AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACC
** * * * *
2830 AAGAGAGATACAATTCTCATTTAAATAAGCTTTTAATTCAAAGACCTAAATTTGGTTAC-AAATG
65 AAGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
** * * ** *** * *
2894 ACAAACTATTTGGACCAAGCGATACGATTTCTCGAGCACAGAATACCCGAAAAATAG-CTC-AAA
130 ACAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATGTTCGAGAAAT-GTCTCGAAG
*
2957 GAAATTGATCGTCTTGAATACTTT
194 GAAA-GGATCGTCTTGAATACTTT
* * * *
2981 AAGGAACCGAAGTTATAAAAGAACTCG-AAATAGTTTGACAAGTTCGAAAGTTGGTCCAAAAACT
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTTCGGAAGTTCGTCCAAGAACC
* ** * *
3045 AGGATTGATACAATTCTCACGTAAATAAGTTTTCAATTCAATA-ACCAAAAGTTGTTTACGAAAT
65 AAGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAA-AGACCAAAAGTTGTTTACAAAAT
**
3109 GATGAACTATT
129 GACAAACTATT
3120 ATCGTGTTGA
Statistics
Matches: 2399, Mismatches: 411, Indels: 186
0.80 0.14 0.06
Matches are distributed among these distances:
205 1 0.00
206 104 0.04
207 97 0.04
208 466 0.19
209 16 0.01
210 5 0.00
211 4 0.00
212 174 0.07
213 177 0.07
214 89 0.04
215 423 0.18
216 840 0.35
217 3 0.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (216 bp):
AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCA
AGAGAGATACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
CAAACTATTTGGACCAAAAGATTCGATTTCCCGAGCATGGAATGTTCGAGAAATGTCTCGAAGGA
AAGGATCGTCTTGAATACTTT
Found at i:1229 original size:639 final size:637
Alignment explanation
Indices: 1--3119 Score: 3140
Period size: 639 Copynumber: 4.9 Consensus size: 637
* * * * *
1 AAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTGACAAGTTCGAAAGTTGGTCCAA-AAACT
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGGAACC
** * *
65 AGGATTGATACAATTCTCACATAAATAAGCTTTCAATTCAATA-ACCAAAAGTTGTTTACAAAAT
66 AGGAGAGATA-AATTCTCACATAAATAAGTTTTTAATTCAA-AGACCAAAAGTTGTTTACAAAAT
* ** *
129 GACAAACTATTTGGACCAAATGATGCAATTCTTCGAGCATGGAATGTTCGGGAAATGTCTCGAAG
129 GACAAACTATTTGGACCAAAAGATGTGATT-TCCGAGCATGGAATGTTC-GGAAATGTCTCGAAG
* * *
194 GAAAGGATCATGTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC-AA
192 GAAAGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTTGACGAA
* * * *
258 GTTCGTCCAAGAACCATGAGAGATAAAATTCTCACGTAAATAAGTTTTTAATTCAAAAACC-AGA
257 GTTCGTCCAAGAACCAAGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCGA-A
* * * *
322 AGTTGTCTAAAAAATGAAAAACTATTTGGACCAAATA-TTGTGATTT-TTGAGCATGGAATGTTC
321 AGTTGTTTACAAAATGACAAACTATTTGGACCAAA-AGTTGTGATTTCTCGAGCATGGAATGTTC
* * *
385 GAGAAATTGCTCGAAGGAAAGGATCGTGTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTC
385 GAGAAA-TGCTCGAAGGAAAGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTC
* * * *
450 GTAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATA
449 ATAAAAGTTTGACAAG-TTGGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCACGTAAATA
* * * * * * * *
515 AGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATT-CG
513 AGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATTTGGACC-AAATATTGTG
* *
579 ATTTCCCGAGCATGGAATTTTCGACAAA-TGTCTCGAAGGAAAGCATCGACTTGAATACTTT
577 ATTTCCCGAGCATGGAATGTTCGACAAATTG-CTCGAAGGAAAGGATCGACTTGAATACTTT
* * * * *
640 AAGGAACCAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGATCGGAAGTTCGT-CAAGGAACT
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGGAACC
* *
704 AGGAGAGATAATATTCTCACATAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATG
66 AGGAGAGATAA-ATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * *
769 AAAAACAATTTGGACCAAAAGATGTGACTTCCAATGCATGGAATGCTCAGGAAATGTCTCGAAGG
130 ACAAACTATTTGGACCAAAAGATGTGATTTCCGA-GCATGGAATGTTC-GGAAATGTCTCGAAGG
* * * ** *
834 AAAGGATCGTCTTGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGAC-AAG
193 AAAGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTTGACGAAG
* *
898 TTCGTCCAAGAACCAAGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCGAAGG
258 TTCGTCCAAGAACCAAGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCGAAAG
* * * * *
963 TTGTTTACAAAATGACAAACTATTTGGACCAAATGTTGTGATTTCTTGAGCATGAAATGTTCAAA
323 TTGTTTACAAAATGACAAACTATTTGGACCAAAAGTTGTGATTTCTCGAGCATGGAATGTTCGAG
* * * * * * * * *
1028 AAATAGCTTGAAGGAATGAATCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCATA
388 AAAT-GCTCGAAGGAAAGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATA
* * *
1093 AAAGTTTGACAAGTTGGAAAGTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGT
452 AAAGTTTGACAAGTTGG-AAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCACGTAAATAAGT
* * *
1158 TTTTAATTCAAAAACCAAAAGTTGTCTAAAAAATGAAAAACTATTTGGACCAGATATTGTGATTT
516 TTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATTTGGACCAAATATTGTGATTT
* * * **
1223 -CCGAGCATGGAATGTTAGAGAAATTGCTCAAAGGAAAGGATCGTGTTGAATACTTT
581 CCCGAGCATGGAATGTTCGACAAATTGCTCGAAGGAAAGGATCGACTTGAATACTTT
* * * * * *
1279 AAGGAACAGAGGTTATAAAAGAACTCGTAAATGTTTGACAAGTTTGGAAGTTCATCCAA-GAAAC
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGGAACC
* * * * * *
1343 AAGAGAGATACAATTCTCACGTAAATAAGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATG
66 AGGAGAGATA-AATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* *
1408 ACAAACTATTTGGACCAAAAGAT-TCGATTTCCCGAGCATGGAATTTTCGACAAATGTCTCGAAG
130 ACAAACTATTTGGACCAAAAGATGT-GATTT-CCGAGCATGGAATGTTCG-GAAATGTCTCGAAG
* * *
1472 GAAAGCATCGACTTGAATACTTTAAGGAACCA-AAGTTATAAAAGAACTCGTCAAAGTTTGACTA
192 GAAAGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGTTTG---A
* * * * *
1536 GTTCGGAAGTTCGTCGAGGAACTAGGAGAGATA-ATATTCTCACATAAATAGGTTTTTAATTCAA
253 ---C-GAAGTTCGTCCAAGAACCAAGAGAGATACA-ATTCTCACATAAATAAGTTTTTAATTCAA
* * * * * * * * * *
1600 AGAGCAAAAGTTGTTTACGAAATGAAAAACAATTTGAACCAAAAGATGCGACTTC-CAAAGCATG
313 AGACCGAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAAAGTTGTGATTTCTC-GAGCATG
* * * * *
1664 GAATGCTCGGGAAATGTCTCGAAGGAAAGGATCGTCGTGAATACTTTAAGGAACTGAAGTTAGAA
377 GAATGTTCGAGAAATG-CTCGAAGGAAAGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAA
* ** *
1729 AAGAAGTTTTAAATGTTTGAC-A----G--GTTCGTCCAAGAACCAAGAGAGATACAATTCTCAC
441 AAGAACTCATAAAAGTTTGACAAGTTGGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCAC
* * * * * *
1787 ATAAATAAGTTTTTAATTCAAATACCGAAGGTTGTTTACAAAATGACAAACTATTTGGACCAAGT
506 GTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATTTGGACCAAAT
* * * * * * * * *
1852 GA-TGTGATTTCTCGAGCATGAAATGTTCAAAAAATAGCCTC-AAGGAATGAATC-ATCCTAAAT
571 -ATTGTGATTTCCCGAGCATGGAATGTTCGACAAATTG-CTCGAAGGAAAGGATCGA-CTTGAAT
1914 ACTTT
633 ACTTT
* * *
1919 AACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTT-GGAAAGTTCGTCCAA-GAAC
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGG-AAGTTCGTCCAAGGAAC
* * * * * * *
1982 CAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTCTAAAAAAT
65 CAGGAGAGA-TAAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT
* * * *
2047 GATAAAC----TGTACCAAATA-ATGTGATTTCTCGAGCATGGAATGTTCGAGAAATTTCTCAAA
129 GACAAACTATTTGGACCAAA-AGATGTGATTTC-CGAGCATGGAATGTTCG-GAAATGTCTCGAA
* *
2107 GGAAAGGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTCGTAAATGTTTGACAA
191 GGAAAGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTTGAC--
* * ** * *
2172 GTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCATGTAAATAAGGTTTTAATTCGAA
254 -----GAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAA
* *
2237 GACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATT-TGATTTCCCGAGCATGG
314 GACCGAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAAAG-TTGTGATTTCTCGAGCATGG
* * * * *
2301 AATTTTCGAGAAATGTCTCGAAGGAAAGCATCGACTTGTATACTTTAAGGAACCAAAGTTATAAA
378 AATGTTCGAGAAATG-CTCGAAGGAAAGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAA
* * * * * *
2366 AGAACTCGTCAAAGTTT-----G--GCAAGTTCATCCAAGAACCAAGAGAGATAAAATTCCCACG
442 AGAACTCATAAAAGTTTGACAAGTTGGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCACG
* * * * * * **
2424 TAAATAATTTTTTAATTCAAAGACAAAAATTTGTTT-CCAAGT-AAAAACTATTCAGACCAAATA
507 TAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATTTGGACCAAATA
* * * * ***
2487 ATGTGATTTCCCGAGCATAGAATGTTCGTCAAATTGCTCGAAGGAATGGATTTCCTTGAATACTT
572 TTGTGATTTCCCGAGCATGGAATGTTCGACAAATTGCTCGAAGGAAAGGATCGACTTGAATACTT
2552 T
637 T
* * *
2553 GAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAGAAGTTCAGAAGTTCGTCC-AGGAACC
1 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGGAACC
*
2617 AGGAGAGATAATATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAATTTGTTTAC--AA-G
66 AGGAGAGATAA-ATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * * * *
2679 ACAATCTATTTGGACCAAATA-ATGCGATTTATCGAGCGTGGAATGATCTTGAAAT-TGCTCGAA
130 ACAAACTATTTGGACCAAA-AGATGTGATTT-CCGAGCATGGAATGTTC-GGAAATGT-CTCGAA
* * * *
2742 GGAATGGATCGTCTTGAATACTTTAAGGAAACAAAAG-TACAAAACAACTCGTAAAAGTTTGACT
191 GGAAAGGATCGTCTTGAATACTTTAAGG-AACAGAAGTTATAAAAGAACTCGTAAAAGTTTG---
* ** *
2806 AGTTCAGAAGTTCTTCCAAGAACCAAGAGAGATACAATTCTCATTTAAATAAGCTTTTAATTCAA
252 A---C-GAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAA
* * * ** * ** **
2871 AGACCTAAATTTGGTTAC-AAATGACAAACTATTTGGACCAAGCGATACGATTTCTCGAGCACAG
313 AGACCGAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAAAGTTGTGATTTCTCGAGCATGG
*** * * *
2935 AATACCCGAAAAATAGCTC-AAAGAAATTGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAA
378 AATGTTCGAGAAAT-GCTCGAAGGAAA-GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAA
* * * * * * **
2999 AAGAACTCGA-AATAGTTTGACAAGTTCGAAAGTTGGTCCAAAAACTAGGATTGATACAATTCTC
441 AAGAACTC-ATAAAAGTTTGACAAGTT-GGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTC
* * * **
3063 ACGTAAATAAGTTTTCAATTCAATAACCAAAAGTTGTTTACGAAATGATGAACTATT
504 ACGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATT
3120 ATCGTGTTGA
Statistics
Matches: 2047, Mismatches: 348, Indels: 165
0.80 0.14 0.06
Matches are distributed among these distances:
630 1 0.00
631 5 0.00
632 2 0.00
633 15 0.01
634 263 0.13
635 167 0.08
636 327 0.16
637 5 0.00
638 11 0.01
639 668 0.33
640 334 0.16
641 5 0.00
642 62 0.03
643 4 0.00
644 8 0.00
645 1 0.00
646 3 0.00
647 166 0.08
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (637 bp):
AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGGAACC
AGGAGAGATAAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
CAAACTATTTGGACCAAAAGATGTGATTTCCGAGCATGGAATGTTCGGAAATGTCTCGAAGGAAA
GGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTTGACGAAGTTC
GTCCAAGAACCAAGAGAGATACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCGAAAGTTG
TTTACAAAATGACAAACTATTTGGACCAAAAGTTGTGATTTCTCGAGCATGGAATGTTCGAGAAA
TGCTCGAAGGAAAGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAG
TTTGACAAGTTGGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCTCACGTAAATAAGTTTTTA
ATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATTTGGACCAAATATTGTGATTTCCCGA
GCATGGAATGTTCGACAAATTGCTCGAAGGAAAGGATCGACTTGAATACTTT
Found at i:1655 original size:855 final size:852
Alignment explanation
Indices: 71--3119 Score: 4176
Period size: 855 Copynumber: 3.6 Consensus size: 852
61 AACTAGGATT
* *
71 GATACAATTCTCACATAAATAAGCTTTCAATTC-AATAACCAAAAGTTGTTTACAAAATGACAAA
1 GATACAATTCTCACATAAATAAGTTTTTAATTCAAAT-ACCAAAAGTTGTTTACAAAATGACAAA
* * * *** *
135 CTATTTGGACCAAATGATG-CAATTCTTCGAGCATGGAATGTTCGGGAAAT-GTCTCGAAGGAAA
65 CTATTTGGACCAAATGATGTGATTTC-TCGAGCATGAAATGTTCAAAAAATAG-CTCGAAGGAAT
* ** * * * *
198 GGATCATGTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC-------
128 GAATCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTTGA
* * * *
256 AAGTTCGTCCAAGAACCATGAGAGATAAAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCAG
193 AAGTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAA
*
321 AAGTTGTCTAAAAAATGAAAAACTATTTGGACCAAATATTGTGATTT-TTGAGCATGGAATGTTC
258 AAGTTGTCTAAAAAATGAAAAACTATTTGGACCAAATATTGTGATTTCTCGAGCATGGAATGTTC
* *
385 GAGAAATTGCTCGAAGGAAAGGATCGTGTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTC
323 GAGAAATTGCTCAAAGGAAAGGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTC
450 GTAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATA
388 GTAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATA
515 AGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTCGA
453 AGGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTCGA
580 TTTCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGAAAGCATCGACTTGAATACTTTAAGGA
518 TTTCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGAAAGCATCGACTTGAATACTTTAAGGA
645 ACCAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGATCGGAAGTTCGTCAAGGAACTAGGAGA
583 ACCAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAG-TCGGAAGTTCGTCAAGGAACTAGGAGA
710 GATAATATTCTCACATAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGAAAAAC
647 GATAATATTCTCACATAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGAAAAAC
*
775 AATTTGGACCAAAAGATGTGACTTCCAATGCATGGAATGCTCAGGAAATGTCTCGAAGGAAAGGA
712 AATTTGAACCAAAAGATGTGACTTCCAA-GCATGGAATGCTC-GGAAATGTCTCGAAGGAAAGGA
840 TCGTCTTGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGACAAGTTCGTCC
775 TCGTCTTGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGACAAGTTCGTCC
905 AAGAACCAAGAGA
840 AAGAACCAAGAGA
* *
918 GATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCGAAGGTTGTTTACAAAATGACAAAC
1 GATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGACAAAC
* * *
983 TATTTGGACCAAATGTTGTGATTTCTTGAGCATGAAATGTTCAAAAAATAGCTTGAAGGAATGAA
66 TATTTGGACCAAATGATGTGATTTCTCGAGCATGAAATGTTCAAAAAATAGCTCGAAGGAATGAA
*
1048 TCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCATAAAAGTTTGACAAGTTGGAAA
131 TCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTT-GAAA
1113 GTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAAA
195 GTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAAA
* *
1178 GTTGTCTAAAAAATGAAAAACTATTTGGACCAGATATTGTGATTTC-CGAGCATGGAATGTTAGA
260 GTTGTCTAAAAAATGAAAAACTATTTGGACCAAATATTGTGATTTCTCGAGCATGGAATGTTCGA
*
1242 GAAATTGCTCAAAGGAAAGGATCGTGTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTCGT
325 GAAATTGCTCAAAGGAAAGGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTCGT
1307 AAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATAAG
390 AAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATAAG
1372 GTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTCGATT
455 GTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTCGATT
1437 TCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGAAAGCATCGACTTGAATACTTTAAGGAAC
520 TCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGAAAGCATCGACTTGAATACTTTAAGGAAC
*
1502 CAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGTTCGGAAGTTCGTCGAGGAACTAGGAGAGA
585 CAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAG-TCGGAAGTTCGTCAAGGAACTAGGAGAGA
*
1567 TAATATTCTCACATAAATAGGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGAAAAACAA
649 TAATATTCTCACATAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGAAAAACAA
*
1632 TTTGAACCAAAAGATGCGACTTCCAAAGCATGGAATGCTCGGGAAATGTCTCGAAGGAAAGGATC
714 TTTGAACCAAAAGATGTGACTTCC-AAGCATGGAATGCTC-GGAAATGTCTCGAAGGAAAGGATC
* *
1697 GTCGTGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGACAGGTTCGTCCAA
777 GTCTTGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGACAAGTTCGTCCAA
1762 GAACCAAGAGA
842 GAACCAAGAGA
* *
1773 GATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCGAAGGTTGTTTACAAAATGACAAAC
1 GATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGACAAAC
*
1838 TATTTGGACCAAGTGATGTGATTTCTCGAGCATGAAATGTTCAAAAAATAGCCTC-AAGGAATGA
66 TATTTGGACCAAATGATGTGATTTCTCGAGCATGAAATGTTCAAAAAATAG-CTCGAAGGAATGA
1902 ATCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTTGGAA
130 ATCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTT-GAA
1967 AGTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAA
194 AGTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAA
* * *
2032 AGTTGTCTAAAAAATGATAAAC----TGTACCAAATAATGTGATTTCTCGAGCATGGAATGTTCG
259 AGTTGTCTAAAAAATGAAAAACTATTTGGACCAAATATTGTGATTTCTCGAGCATGGAATGTTCG
*
2093 AGAAATTTCTCAAAGGAAAGGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTCG
324 AGAAATTGCTCAAAGGAAAGGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTCG
*
2158 TAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCATGTAAATAA
389 TAAATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATAA
*
2223 GGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTTGAT
454 GGTTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTCGAT
* *
2288 TTCCCGAGCATGGAATTTTCGAGAAATGTCTCGAAGGAAAGCATCGACTTGTATACTTTAAGGAA
519 TTCCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGAAAGCATCGACTTGAATACTTTAAGGAA
* * *
2353 CCAAAGTTATAAAAGAACTCGTCAAAGTTTG----G-C--AAGTTCATCCAA-GAACCAAGAGAG
584 CCAAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGTCGGAAGTTCGT-CAAGGAACTAGGAGAG
* * * * * * *
2410 ATAAAATTCCCACGTAAATAATTTTTTAATTCAAAGA-CAAAAATTTGTTT-CCAAGT-AAAAAC
648 ATAATATTCTCACATAAATAAGTTTTTAATTCAAAGAGC-AAAAGTTGTTTACGAAATGAAAAAC
* * * * * * * *
2472 TA-TTCAGACCAAATA-ATGTGATTTCCCGAGCATAGAATGTTCGTCAAAT-TGCTCGAAGGAAT
712 AATTTGA-ACCAAA-AGATGTGACTT-CCAAGCATGGAATGCTCG-GAAATGT-CTCGAAGGAAA
* * * * * ** *
2534 GGAT-TTCCTTGAATACTTTGAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAGAAGTTC
772 GGATCGT-CTTGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTT--G-A---C
* *
2598 AGAAGTTCGTCCAGGAACCAGGAGA
830 --AAGTTCGTCCAAGAACCAAGAGA
* * *
2623 GATA-ATATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAATTTGTTTAC--AA-GACAAT
1 GATACA-ATTCTCACATAAATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGACAAA
* * * * * * *** * *
2684 CTATTTGGACCAAATAATGCGATTTATCGAGCGTGGAATGATCTTGAAATTGCTCGAAGGAATGG
65 CTATTTGGACCAAATGATGTGATTTCTCGAGCATGAAATGTTCAAAAAATAGCTCGAAGGAATGA
* * * * ** * * *
2749 ATCGTCTTGAATACTTTAAGGAAACAAAAG-TACAAAAC-AACTCGTAAAAGTTTGACTAGTTCA
130 ATCATCCTAAATACTTTAACG-AACTGAAGTTA-TAAACGAACTCGTAAAAGTTTGACAAGTTGA
* * * * ** * * *
2812 GAAGTTCTTCCAAGAACCAAGAGAGATACAATTCTCATTTAAATAAGCTTTTAATTCAAAGACCT
193 -AAGTTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCA
* * * ** ** ** *
2877 AAATTTGGT-T-ACAAATGACAAACTATTTGGACCAAGCGA-TACGATTTCTCGAGCACAGAATA
257 AAAGTT-GTCTAAAAAATGAAAAACTATTTGGACCAA-ATATTGTGATTTCTCGAGCATGGAATG
** * * * * *
2939 CCCGAAAAATAGCTCAAA-GAAATTGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGA
320 TTCGAGAAATTGCTCAAAGGAAA-GGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGA
* * ** *
3003 ACTCG-AAATAGTTTGACAAGTTCGAAAGTTGGTCCAA-AAACTAG-GATTGATACAATTCTCAC
384 ACTCGTAAAT-GTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGA--GATACAATTCTCAC
* * * * **
3065 GTAAATAA-GTTTTCAATTC-AATAACCAAAAGTTGTTTACGAAATGATGAACTATT
446 GTAAATAAGGTTTT-AATTCGAA-GACCGAAAGTTGTTTTCAAAATGACAAACTATT
3120 ATCGTGTTGA
Statistics
Matches: 2001, Mismatches: 153, Indels: 93
0.89 0.07 0.04
Matches are distributed among these distances:
841 6 0.00
842 90 0.04
843 8 0.00
844 60 0.03
845 3 0.00
846 16 0.01
847 308 0.15
848 26 0.01
849 22 0.01
850 224 0.11
851 19 0.01
852 301 0.15
855 914 0.46
856 4 0.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (852 bp):
GATACAATTCTCACATAAATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGACAAAC
TATTTGGACCAAATGATGTGATTTCTCGAGCATGAAATGTTCAAAAAATAGCTCGAAGGAATGAA
TCATCCTAAATACTTTAACGAACTGAAGTTATAAACGAACTCGTAAAAGTTTGACAAGTTGAAAG
TTCGTCCAAGAACCAAGAGAGACAAAATTCCCACGTAAATAAGTTTTTAATTCAAAAACCAAAAG
TTGTCTAAAAAATGAAAAACTATTTGGACCAAATATTGTGATTTCTCGAGCATGGAATGTTCGAG
AAATTGCTCAAAGGAAAGGATCGTCTTGAATACTTTAAGGAACAGAGGTTATAAAAGAACTCGTA
AATGTTTGACAAGTTTGGAAGTTCATCCAAGAAACAAGAGAGATACAATTCTCACGTAAATAAGG
TTTTAATTCGAAGACCGAAAGTTGTTTTCAAAATGACAAACTATTTGGACCAAAAGATTCGATTT
CCCGAGCATGGAATTTTCGACAAATGTCTCGAAGGAAAGCATCGACTTGAATACTTTAAGGAACC
AAAGTTATAAAAGAACTCGTCAAAGTTTGACTAGTCGGAAGTTCGTCAAGGAACTAGGAGAGATA
ATATTCTCACATAAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTACGAAATGAAAAACAATT
TGAACCAAAAGATGTGACTTCCAAGCATGGAATGCTCGGAAATGTCTCGAAGGAAAGGATCGTCT
TGAATACTTTAAGGAACTGAAGTTAGAAAAGAAGTTTTAAATGTTTGACAAGTTCGTCCAAGAAC
CAAGAGA
Found at i:3247 original size:148 final size:150
Alignment explanation
Indices: 2964--3267 Score: 407
Period size: 148 Copynumber: 2.0 Consensus size: 150
2954 AAAGAAATTG
2964 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAATAGTTTGACAAGTTCGAA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAATAGTTTGACAAGTTC--A
* * *
3029 AGTTGGTCCAAAAACTAGGATTGATACAATTCTCACGTAAATAAGTTTTCAATTCAATAACCAAA
64 A----GTCCAAAAACCAGGAGTGATACAATTCTCACGTAAATAAGTTTTCAATTCAAAAACCAAA
* * *
3094 AGTTGTTTACGAAATGATGAACTATT
125 AGTTGTCTACAAAATGATAAACTATT
* *
3120 ATCGTGTTGAATACTTTAAGGTACCGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTTC-A
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG-AAATAGTTTGACAAGTTCAA
* * * * *
3183 -TCCAAGAACCATGAGTGATACAATTTTCACGTAAATAAGTTTTTAATTCAAAAACCAGAAGTTG
65 GTCCAAAAACCAGGAGTGATACAATTCTCACGTAAATAAGTTTTCAATTCAAAAACCAAAAGTTG
3247 TCTACAAAATGATAAACTATT
130 TCTACAAAATGATAAACTATT
3268 TGGACCAAAT
Statistics
Matches: 134, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
148 74 0.55
153 1 0.01
156 56 0.42
157 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (150 bp):
ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAATAGTTTGACAAGTTCAAG
TCCAAAAACCAGGAGTGATACAATTCTCACGTAAATAAGTTTTCAATTCAAAAACCAAAAGTTGT
CTACAAAATGATAAACTATT
Done.