Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004259.1 Kokia drynarioides strain JFW-HI SEQ_117544, 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: 2181
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Found at i:981 original size:216 final size:213
Alignment explanation
Indices: 2--2180 Score: 2211
Period size: 216 Copynumber: 10.2 Consensus size: 213
1 A
* * * *
2 AGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGT-TTTAATTCAAAGAACAAAA-CTTTTTACAAAATGACA
* * *
67 AACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCA-AAAATTGCTCGAAGGAAT
* ** * *
132 GGATAGTCTTGAATACTAGAAGGAACC-AAGTTATATAAGAACTCGTAAAAGTTTGAAAAG-TTC
128 GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTG
195 AGAAGTTCGTCCAA-AAGCC-A-
193 A-AAGTTCGTCCAAGAA-CCAAG
* * * ** * * * * * *
215 AGA-AAA-AATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAACTCATTTACAAAATTAAA
1 AGAGAAACAATTCTCACGTAAATAAGTT-TTAATTCAAAGAACAAAACT-TTTTACAAAATGACA
* * * *
278 AACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTCAAAAATT-CTTCAAAGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAATTGC-TCGAAGGAAT
*
342 GGATCGTCTTGAATACTTTAAGGAACCGAAATTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTG
128 GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTG
* * *
407 GAAGTTCATCCAA-AAGCAAAGAG
193 AAAGTTCGTCCAAGAA-C-CA-AG
*
430 AGAGAAACAATTCTCACGTAAATAAGTTTTAAATTTAAAG-ACAAAAACTTGTTTACAAAATGAC
1 AGAGAAACAATTCTCACGTAAATAAGTTTT-AATTCAAAGAAC-AAAACTT-TTTACAAAATGAC
* * * ** * *
494 AAACAATTTAGA-AAAATGATGTGATTTTTCGAGCATAGAATGTT-AAGAAAGTTGCTAGAAGGA
63 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAA-AAA-TTGCTCGAAGGA
* * * * *
557 ATGTATCGTCTTGAATACTGTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTGTGACAAGTT
126 ATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTT
* *
622 CGGAAGTTCGTCCAAGAACC-A-
191 TGAAAGTTCGTCCAAGAACCAAG
* * * *
643 AGAGAAACAATTCTCACGTAAATAAGTTTCTGATTCATAGACCAAAACTTGTTTTCAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTT-TAATTCAAAGAACAAAACTT-TTTACAAAATGACA
* * * * * * * *
708 AACTCTTTAGACCAAATGCTGCTATTTCTCAAGAATCGAGTGTTCAAAAAATTGCTCGAAGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-AAAAATTGCTCGAAGGAAT
* ** * * **
773 GGATCGGCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTCACTAGTTTG
128 GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTG
**
838 AAAGTTCAACCAAGAACCAAG
193 AAAGTTCGTCCAAGAACCAAG
* * * *
859 AGAGAAACAATTCTCACATGAATAAGTTTTAAATTCAAACAACAAAACCTTTTTACCAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTT-AATTCAAAGAACAAAA-CTTTTTACAAAATGACA
* *
924 AATTATTTAGACCAAATGATGCGATTTTCCGAGCATGGAATGTTCAAAAATTTGCTCGAAGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAA-TTGCTCGAAGGAAT
989 GGATCGTCTTGAATACTTTAAGGAACC-AGAGTTATAAAAGAACTCGTAAAAGTTT-----G---
128 GGATCGTCTTGAATACTTTAAGGAACCGA-AGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTT
*
1045 G-AAGTTCGTCCAAGAACAAAG
192 GAAAGTTCGTCCAAGAACCAAG
* *
1066 AGAGATAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAG-ACAAAACTTGTCTACAAAATGA
1 AGAG--AAACAATTCTCACGTAAATAAG-TTTTAATTCAAAGAACAAAACTT-TTTACAAAATGA
* * ** *
1130 CAAACAATTTAGA-AAAATGATGCGATTTTTCGAGCATAGAATGTT-AAGAAAGTTGCTCGAAGG
62 CAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAA-AAA-TTGCTCGAAGG
* * * * * *
1193 AATGTATCGTCTTGAATGCTGTAAGGAACTGAGGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
125 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGT
*
1258 TCTG-AAGTTTGTCCAAGAACC-A-
190 T-TGAAAGTTCGTCCAAGAACCAAG
* * * * **
1280 AGAGAAACAATTCTCACATAAATAAGTTTTTGATTGAAAGACCAAAACTTGTTTTTAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAG-TTTTAATTCAAAGAACAAAACTT-TTTACAAAATGACA
* * * * * * *
1345 AACTCTTTAGACCAAATGCTGCCATTTCTCAAGAATTGAATGTTCAGAAAATTGCTCGAAGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCA-AAAATTGCTCGAAGGAAT
* ** * ** ** *
1410 GGATTGTCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTATTAAAAGTTTGACTAGTTCG
128 GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTG
*
1475 AGAGTTCGTCCAAGAACCAAG
193 AAAGTTCGTCCAAGAACCAAG
* * * * * *
1496 AGATAAAAAATTCACACGTAAATAAGTTTTTAGTTCAAACAACAAAACCTTTTAACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAG-TTTTAATTCAAAGAACAAAA-CTTTTTACAAAATGACA
* *
1561 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAATTTGCTCGAAGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-AAAAATTGCTCGAAGGAAT
* * * * * * * *
1626 GGATTGCCTTGAATACTTTATGGAACTGAAATTATAAAAGAACTTGTAAAAGTTTGATAAGTTCC
128 GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTT-T
*
1691 G-AAGTTCGTCCAAGAACCAAA
192 GAAAGTTCGTCCAAGAACCAAG
* * * *
1712 AGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGT-TTTAATTCAAAGAACAAAA-CTTTTTACAAAATGACA
* * *
1777 AACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAAT
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCA-AAAATTGCTCGAAGGAAT
* * *
1842 GGATCGTCTTGAATACTGTAAGGAACC-AAGTTATATAAGAACTCGTAAAAGTTTGAAAAG-TTC
128 GGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTG
* *
1905 AGAAGTTCGTCCAATAGCC-A-
193 A-AAGTTCGTCCAAGAACCAAG
* * * ** * * * * * *
1925 AGA-AAA-AATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAACTCATTTACAAAATTAAA
1 AGAGAAACAATTCTCACGTAAATAAGTT-TTAATTCAAAGAACAAAACT-TTTTACAAAATGACA
* * * * * *
1988 AACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTCAGAAATTCCTCAAAGGAATG
64 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAATTGCTCGAAGGAATG
* *
2053 GATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAATTCGTAAAAGTTTGAAAAGTTTGG
129 GATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTGA
* *
2118 AAGTTCATCCAA-AAGCAAAGAG
194 AAGTTCGTCCAAGAA-C-CA-AG
*
2140 AGAGAAACAATTCTCACGTAAATAAGTTTTAAATTTAAAGA
1 AGAGAAACAATTCTCACGTAAATAAGTTTT-AATTCAAAGA
2181 C
Statistics
Matches: 1633, Mismatches: 263, Indels: 136
0.80 0.13 0.07
Matches are distributed among these distances:
206 2 0.00
207 118 0.07
208 29 0.02
209 28 0.02
210 85 0.05
211 252 0.15
212 44 0.03
213 101 0.06
214 221 0.14
215 70 0.04
216 516 0.32
217 164 0.10
218 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (213 bp):
AGAGAAACAATTCTCACGTAAATAAGTTTTAATTCAAAGAACAAAACTTTTTACAAAATGACAAA
CTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAATTGCTCGAAGGAATGGA
TCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTTGAAA
GTTCGTCCAAGAACCAAG
Found at i:1220 original size:637 final size:637
Alignment explanation
Indices: 1--2174 Score: 2557
Period size: 637 Copynumber: 3.4 Consensus size: 637
* * * *
1 AAGAGAAACAATTCTCACGTAAATGAGTATT-TAATTCAAAGACCAAAAGTT-TTTTAGAAAATG
1 AAGAGAAACAATTCTCACGTAAATAAGT-TTCTGATTCAAAGACCAAAACTTGTTTT-CAAAATG
* * * * * * *
64 ACAAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGG
64 ACAAACTATTTAGACCAAATGATGCTATTTCCCAAGAATGGAATGTTCAAAAAATTGCTCGAAGG
* ** **
129 AATGGATAGTCTTGAATACTAGAAGGAACC-AAGTTAT-ATAAGAACTCGTAAAAGTTTGAAAAG
129 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGGAATGA-AAGAACTCGTAAAAGTTTGAAAAG
* * * * ** *
192 -TTCAGAAGTTCGTCCAAAAGCC-A-AGA-AAA-AATTCTCAGGA-AAATATGTTCTT-GTTTTA
193 TTTGA-AAGTTCATCCAAAAGCCAAGAGAGAAACAATTCTCA-CATAAATAAGTT-TTAAATTCA
** * * * * * * *
250 ATGATCAAAA-CTCATTTACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAAT
255 AACAACAAAACCT-TTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAT
*
314 GGAATGTTCAAAAA-TT-CTTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAATTAT
319 GGAATGTTCAAAAATTTGC-TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAATTAT
* *
377 AAAAGAACTCGTAAAAGTTTGAAAAGTTTGGAAGTTCATCCAA-AAGCAAAGAGAGAGAAACAAT
383 AAAAGAACTC------G--T-AAAAGTTTGGAAGTTCGTCCAAGAACCAAAGAGAGA-AAACAAT
*
441 TCTCACGTAAATAAGTTTTAAATTTAAAGACAAAAACTTGTTTACAAAATGACAAACAATTTAGA
438 TCTCACGTAAATAAGTTTTTAATTTAAAGAC-AAAACTTGTTTACAAAATGACAAACAATTTAGA
*
506 AAAATGATGTGATTTTTCGAGCATAGAATGTTAAGAAAGTTGCTAGAAGGAATGTATCGTCTTGA
502 AAAATGATGCGATTTTTCGAGCATAGAATGTTAAGAAAGTTGCTAGAAGGAATGTATCGTCTTGA
* * *
571 ATACTGTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTGTGACAAGTTCGGAAGTTCGTCCA
567 ATACTGTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCA
636 AGAACC
632 AGAACC
*
642 AAGAGAAACAATTCTCACGTAAATAAGTTTCTGATTCATAGACCAAAACTTGTTTTCAAAATGAC
1 AAGAGAAACAATTCTCACGTAAATAAGTTTCTGATTCAAAGACCAAAACTTGTTTTCAAAATGAC
* * * * *
707 AAACTCTTTAGACCAAATGCTGCTATTTCTCAAGAATCGAGTGTTCAAAAAATTGCTCGAAGGAA
66 AAACTATTTAGACCAAATGATGCTATTTCCCAAGAATGGAATGTTCAAAAAATTGCTCGAAGGAA
* * **
772 TGGATCGGCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTCACTAGTTT
131 TGGATCGTCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTGAAAAGTTT
* *
837 GAAAGTTCAACCAAGAA-CCAAGAGAGAAACAATTCTCACATGAATAAGTTTTAAATTCAAACAA
196 GAAAGTTCATCCAA-AAGCCAAGAGAGAAACAATTCTCACATAAATAAGTTTTAAATTCAAACAA
* * *
901 CAAAACCTTTTTACCAAATGACAAATTATTTAGACCAAATGATGCGATTTTCCGAGCATGGAATG
260 CAAAACCTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
966 TTCAAAAATTTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-AGAGTTATAAAAGA
325 TTCAAAAATTTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGA-AATTATAAAAGA
1030 ACTCGTAAAAGTTTGGAAGTTCGTCCAAGAA-CAAAGAGAGATAAACAATTCTCACGTAAATAAG
389 ACTCGTAAAAGTTTGGAAGTTCGTCCAAGAACCAAAGAGAGA-AAACAATTCTCACGTAAATAAG
*
1094 TTTTTAATTTAAAGACAAAACTTGTCTACAAAATGACAAACAATTTAGAAAAATGATGCGATTTT
453 TTTTTAATTTAAAGACAAAACTTGTTTACAAAATGACAAACAATTTAGAAAAATGATGCGATTTT
* * *
1159 TCGAGCATAGAATGTTAAGAAAGTTGCTCGAAGGAATGTATCGTCTTGAATGCTGTAAGGAACTG
518 TCGAGCATAGAATGTTAAGAAAGTTGCTAGAAGGAATGTATCGTCTTGAATACTGTAAGGAACCG
* * *
1224 AGGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCTGAAGTTTGTCCAAGAACC
583 AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACC
* * * *
1279 AAGAGAAACAATTCTCACATAAATAAGTTTTTGATTGAAAGACCAAAACTTGTTTTTAAAATGAC
1 AAGAGAAACAATTCTCACGTAAATAAGTTTCTGATTCAAAGACCAAAACTTGTTTTCAAAATGAC
* * * * * *
1344 AAACTCTTTAGACCAAATGCTGCCATTTCTCAAGAATTGAATGTTCAGAAAATTGCTCGAAGGAA
66 AAACTATTTAGACCAAATGATGCTATTTCCCAAGAATGGAATGTTCAAAAAATTGCTCGAAGGAA
* ** ** *
1409 TGGATTGTCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTATTAAAAGTTTGACTAGTTC
131 TGGATCGTCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTGAAAAGTTT
* * * * * * * *
1474 GAGAGTTCGTCCAAGAA-CCAAGAGATAAAAAATTCACACGTAAATAAGTTTTTAGTTCAAACAA
196 GAAAGTTCATCCAA-AAGCCAAGAGAGAAACAATTCTCACATAAATAAGTTTTAAATTCAAACAA
*
1538 CAAAACCTTTTAACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
260 CAAAACCTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
** * * * *
1603 TTCGGAAATTTGCTCGAAGGAATGGATTGCCTTGAATACTTTATGGAACTGAAATTATAAAAGAA
325 TTCAAAAATTTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAATTATAAAAGAA
*
1668 CTTGTAAAAGTTTGATAAGTTCCGAAGTTCGTCCAAGAACCAAA-AGAG-AAACAATTCTCACGT
390 CTCGTAAAAG-TT--T--G----GAAGTTCGTCCAAGAACCAAAGAGAGAAAACAATTCTCACGT
* * * * * * * *
1731 AAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGACAAACTATTTAGACCAAATGA
446 AAATAAGTTTTTAATTTAAAGA-CAAAACTTGTTTACAAAATGACAAACAATTTAGA-AAAATGA
* ** * * * * * *
1796 TGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAATGGATCGTCTTGAATACTGT
509 TGCGATTTTTCGAGCATAGAATGTTAAGAAAGTTGCTAGAAGGAATGTATCGTCTTGAATACTGT
* * * *
1861 AAGGAACC-AAGTTATATAAGAACTCGTAAAAGTTTGAAAAGTTCAGAAGTTCGTCCAATAGCC
574 AAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACC
* * * * * * * ** * *
1924 AAGA-AAA-AATTCTCAGGAAAATATG-TTCTTGTTTTAATGATCAAAACTCATTTACAAAATTA
1 AAGAGAAACAATTCTCACGTAAATAAGTTTC-TGATTCAAAGACCAAAACTTGTTTTCAAAATGA
* * * * * *
1986 AAAACTATTTAGACTAAATGATG-TGATTTCCCGAGAATGGAATGTTC-AGAAATTCCTCAAAGG
65 CAAACTATTTAGACCAAATGATGCT-ATTTCCCAAGAATGGAATGTTCAAAAAATTGCTCGAAGG
** * *
2049 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAATTCGTAAAAGTTTGAAAAGT
129 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTGAAAAGT
* * *
2114 TTGGAAGTTCATCCAAAAGCAAAGAGAGAGAAACAATTCTCACGTAAATAAGTTTTAAATT
194 TTGAAAGTTCATCCAAAAGC-CA-AGAGAGAAACAATTCTCACATAAATAAGTTTTAAATT
2175 TAAAGAC
Statistics
Matches: 1327, Mismatches: 171, Indels: 67
0.85 0.11 0.04
Matches are distributed among these distances:
637 519 0.39
638 71 0.05
639 3 0.00
640 3 0.00
641 132 0.10
642 126 0.09
643 84 0.06
644 72 0.05
645 87 0.07
646 170 0.13
647 59 0.04
648 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (637 bp):
AAGAGAAACAATTCTCACGTAAATAAGTTTCTGATTCAAAGACCAAAACTTGTTTTCAAAATGAC
AAACTATTTAGACCAAATGATGCTATTTCCCAAGAATGGAATGTTCAAAAAATTGCTCGAAGGAA
TGGATCGTCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTGAAAAGTTT
GAAAGTTCATCCAAAAGCCAAGAGAGAAACAATTCTCACATAAATAAGTTTTAAATTCAAACAAC
AAAACCTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
TCAAAAATTTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAATTATAAAAGAAC
TCGTAAAAGTTTGGAAGTTCGTCCAAGAACCAAAGAGAGAAAACAATTCTCACGTAAATAAGTTT
TTAATTTAAAGACAAAACTTGTTTACAAAATGACAAACAATTTAGAAAAATGATGCGATTTTTCG
AGCATAGAATGTTAAGAAAGTTGCTAGAAGGAATGTATCGTCTTGAATACTGTAAGGAACCGAAG
TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACC
Found at i:1678 original size:853 final size:850
Alignment explanation
Indices: 1--2181 Score: 2843
Period size: 853 Copynumber: 2.5 Consensus size: 850
1 AAGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGAC
1 AAGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGAC
66 AAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAA
66 AAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAA
* *
131 TGGATAGTCTTGAATACTAGAAGGAACCAAGTTATATAAGAACTCGTAAAAGTTTGAAAAGTTCA
131 TGGATCGTCTTGAATACTATAAGGAACCAAGTTATATAAGAACTCGTAAAAGTTTGAAAAGTTC-
196 GAAGTTCGTCCAAA-AGCCAAGAAAAAATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAA
195 --AGTTCGTCCAAAGAG---AGAAAAAATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAA
260 CTCATTTACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTCAA
255 CTCATTTACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTT-AA
*
325 -AAATTCTTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAATTATAAAAGAACTCGT
319 GAAATTC-TCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGT
389 AAAAGTTTGAAAAGTTTGGAAGTTCATCCAAAAGCAAAGAGAGAGAAACAATTCTCACGTAAATA
383 AAAAGTTTGAAAAGTTTGGAAGTTCATCC-AAAGCAAAGAGAGAGAAACAATTCTCACGTAAATA
* **
454 AGTTTTAAATTTAAAGACAAAAACTTGTTTACAAAATGACAAACAATTTAGAAAAATGATGTGAT
447 AGTTTTAAATTGAAAGACAAAAACTTGTTTACAAAATGACAAACAATTTAGAAAAATGATGCCAT
* * * * *
519 TTTTCGAGCATAGAATGTTAAGAAAGTTGCTAGAAGGAATGTATCGTCTTGAATACTGTAAGGAA
512 TTCTCAAGAATAGAATGTTAAGAAAATTGCTAGAAGGAATGGATCGTCTTGAATACTGTAAGGAA
**
584 CCGAAGTTATAAAAGAACTCATAAAAGTGTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAA
577 CCGAAGGAATAAAAGAACTCATAAAAGTGTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAA
* * * * * ** *
649 ACAATTCTCACGTAAATAAGTTTCTGATTCATAGACCAAAACTTGTTTTCAAAATGACAAACTCT
642 AAAATTCACACGTAAATAAGTTTCTGATTCAAACAACAAAACTTGTTAACAAAATGACAAACTAT
* * * *
714 TTAGACCAAATGCTGCTATTTCTCAAGAATCGAGTGTTCAAAAAATTGCTCGAAGGAATGGATCG
707 TTAGACCAAATGATGCGATTTCCCAAGAATCGAATGTTCAAAAAATTGCTCGAAGGAATGGATCG
* * * *
779 GCTTGAATACTTTAAGGAACCGAAGGAATGAAAGAACTCGTAAAAGTTTCACT-AGTT-TGAAAG
772 CCTTGAATACTTTAAGGAACCGAAAGAATAAAAGAACTCGTAAAAGTTTCA-TAAGTTCCG-AAG
842 TTCAACCAAGAACCAA
835 TTCAACCAAGAACCAA
* * * * * * ** **
858 GAGAGAAACAATTCTCACATGAATAAGT-TTTAAATTCAAACAACAAAACCTTTTTACCAAATGA
1 AAGAGAAACAATTCTCACGTAAATGAGTATTT-AATTCAAAGACCAAAAGTTTTTTAGAAAATGA
* * * * *
922 CAAATTATTTAGACCAAATGATGCGATTTTCCGAGCATGGAATGTTCA-AAAATTTGCTCGAAGG
65 CAAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAA-TTGCTTGATGG
* * *
986 AATGGATCGTCTTGAATACTTTAAGGAACCAGAGTTATAAAAGAACTCGTAAAAGTTTG-GAAGT
129 AATGGATCGTCTTGAATACTATAAGGAACCA-AGTTATATAAGAACTCGTAAAAGTTTGAAAAGT
* ** * * * * ** *
1050 TC-GTCCAAGAACAAAGAGAGATAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGA-CAAA
193 TCAGTTC--GTCCAAAGAGAGA-AAA-AATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAA
** * * * * * * ** * *
1113 ACTTGTCTACAAAATGACAAACAATTTAGA-AAAATGATGCGATTTTTCGAGCATAGAATGTTAA
254 ACTCATTTACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTAA
* * * * * *
1177 GAAAGTTGCTCGAAGGAATGTATCGTCTTGAATGCTGTAAGGAACTGAGGTTATAAAAGAACTCG
319 GAAA-TT-CTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG
* ** ** *
1242 TAAAAGTTTGACAAGTTCT-GAAGTTTGTCC-AAG-AACCA-AGAGAAACAATTCTCACATAAAT
382 TAAAAGTTTGAAAAGTT-TGGAAGTTCATCCAAAGCAAAGAGAGAGAAACAATTCTCACGTAAAT
** * ** ** * *
1303 AAGTTTTTGATTGAAAGACCAAAACTTGTTTTTAAAATGACAAACTCTTTAGACCAAATGCTGCC
446 AAGTTTTAAATTGAAAGACAAAAACTTGTTTACAAAATGACAAACAATTTAGA-AAAATGATGCC
* * * * *
1368 ATTTCTCAAGAATTGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGG
510 ATTTCTCAAGAATAGAATGTTAAGAAAATTGCTAGAAGGAATGGATCGTCTTGAATACTGTAAGG
* * *
1433 AACCGAAGGAATGAAAGAACT-ATTAAAAGTTTGACTAGTTC-GAGAGTTCGTCCAAGAACCAAG
575 AACCGAAGGAATAAAAGAACTCA-TAAAAGTGTGACAAGTTCGGA-AGTTCGTCCAAGAACCAAG
*
1496 AGATAAAAAATTCACACGTAAATAAGTTT-TTAGTTCAAACAACAAAACCTT-TTAACAAAATGA
638 AG--AAAAAATTCACACGTAAATAAGTTTCTGA-TTCAAACAACAAAA-CTTGTTAACAAAATGA
* * * ** *
1559 CAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGGAAATTTGCTCGAAGGA
699 CAAACTATTTAGACCAAATGATGCGATTTCCCAAGAATCGAATGTTCAAAAAATTGCTCGAAGGA
* * * ** * *
1624 ATGGATTGCCTTGAATACTTTATGGAACTGAAATTATAAAAGAACTTGTAAAAGTTTGATAAGTT
764 ATGGATCGCCTTGAATACTTTAAGGAACCGAAAGAATAAAAGAACTCGTAAAAGTTTCATAAGTT
**
1689 CCGAAGTTCGTCCAAGAACCAA
829 CCGAAGTTCAACCAAGAACCAA
1711 AAGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGAC
1 AAGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGAC
1776 AAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAA
66 AAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAA
*
1841 TGGATCGTCTTGAATACTGTAAGGAACCAAGTTATATAAGAACTCGTAAAAGTTTGAAAAGTTCA
131 TGGATCGTCTTGAATACTATAAGGAACCAAGTTATATAAGAACTCGTAAAAGTTTGAAAAGTTC-
1906 GAAGTTCGTCCAATAGCCA-AGAAAAAATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAA
195 --AGTTCGTCCAA-AG--AGAGAAAAAATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAA
*
1970 CTCATTTACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTCAG
255 CTCATTTACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTAAG
*
2035 AAATTCCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAATTCGTA
320 AAATT-CTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTA
2100 AAAGTTTGAAAAGTTTGGAAGTTCATCCAAAAGCAAAGAGAGAGAAACAATTCTCACGTAAATAA
384 AAAGTTTGAAAAGTTTGGAAGTTCATCC-AAAGCAAAGAGAGAGAAACAATTCTCACGTAAATAA
*
2165 GTTTTAAATTTAAAGAC
448 GTTTTAAATTGAAAGAC
Statistics
Matches: 1114, Mismatches: 172, Indels: 73
0.82 0.13 0.05
Matches are distributed among these distances:
850 70 0.06
851 120 0.11
852 34 0.03
853 343 0.31
854 118 0.11
855 64 0.06
856 119 0.11
857 175 0.16
858 30 0.03
859 3 0.00
860 38 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (850 bp):
AAGAGAAACAATTCTCACGTAAATGAGTATTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGAC
AAACTATTTAGACCAAATGATGCGACTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGATGGAA
TGGATCGTCTTGAATACTATAAGGAACCAAGTTATATAAGAACTCGTAAAAGTTTGAAAAGTTCA
GTTCGTCCAAAGAGAGAAAAAATTCTCAGGAAAATATGTTCTTGTTTTAATGATCAAAACTCATT
TACAAAATTAAAAACTATTTAGACTAAATGATGTGATTTCCCGAGAATGGAATGTTAAGAAATTC
TCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTT
GAAAAGTTTGGAAGTTCATCCAAAGCAAAGAGAGAGAAACAATTCTCACGTAAATAAGTTTTAAA
TTGAAAGACAAAAACTTGTTTACAAAATGACAAACAATTTAGAAAAATGATGCCATTTCTCAAGA
ATAGAATGTTAAGAAAATTGCTAGAAGGAATGGATCGTCTTGAATACTGTAAGGAACCGAAGGAA
TAAAAGAACTCATAAAAGTGTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAAAAAATTCAC
ACGTAAATAAGTTTCTGATTCAAACAACAAAACTTGTTAACAAAATGACAAACTATTTAGACCAA
ATGATGCGATTTCCCAAGAATCGAATGTTCAAAAAATTGCTCGAAGGAATGGATCGCCTTGAATA
CTTTAAGGAACCGAAAGAATAAAAGAACTCGTAAAAGTTTCATAAGTTCCGAAGTTCAACCAAGA
ACCAA
Done.