Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010930.1 Kokia drynarioides strain JFW-HI SEQ_125898, 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: 1987
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Found at i:1910 original size:288 final size:288
Alignment explanation
Indices: 1380--1987 Score: 1065
Period size: 288 Copynumber: 2.1 Consensus size: 288
1370 AGTCTAAATG
* * *
1380 AGTGAGTTGCAAGAGGTTTCCCAGTGATCTTGGAATTGGTCCTGATAAGTTGGAATTGGAGAGAT
1 AGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCTGATAAGATGGAATTGGAGAGAT
1445 CCAAAGACTTCAAGGACACAAGATTCCCCATCGACTCAGGCAATCCTCCACAAAAAGTTGCCCCT
66 CCAAAGACTTCAAGGACACAAGATTCCCCATCGACTCAGGCAATCCTCCACAAAAAGTTGCCCCT
1510 CGAATATTCAAGTACTCCAAAGATGATAAATTTGTGATTGAGACAGACAATCCTTGAAAGAAACA
131 CGAATATTCAAGTACTCCAAAGATGATAAATTTGTGATTGAGACAGACAATCCTTGAAAGAAACA
* * * * *
1575 ATTTATTGATAGATCTAAGTAATTCAAGGCCCGTAGATTATCAACTGAATCAATCAATTCTGTAG
196 ATTTACTGATAGATCTAAGTAATTCAACGCCAGCAGATTACCAACTGAATCAATCAATTCTGTAG
1640 AGACGGACATCCACGACAGATCTAAAAA
261 AGACGGACATCCACGACAGATCTAAAAA
1668 AGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCTGATAAGATGGAATTGGAGAGAT
1 AGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCTGATAAGATGGAATTGGAGAGAT
*
1733 CCAAA-AGCTTCAAGGACACAAGATTCCCCATCGACTCAGGCAATCCTCCCCAAAAAGTTGCCCC
66 CCAAAGA-CTTCAAGGACACAAGATTCCCCATCGACTCAGGCAATCCTCCACAAAAAGTTGCCCC
* * * *
1797 TCGAATATTCAAGTACTCCAAAGATGATAAATTTGTGATTGAGACAGGCAATCTTTGAAGGAAAG
130 TCGAATATTCAAGTACTCCAAAGATGATAAATTTGTGATTGAGACAGACAATCCTTGAAAGAAAC
* *
1862 AATTTCCTGATAGATCTAAGTACTTCAACGCCAGCAGATTACCAACTGAATCAATCAATTCTGTA
195 AATTTACTGATAGATCTAAGTAATTCAACGCCAGCAGATTACCAACTGAATCAATCAATTCTGTA
1927 GAGACGGACATCCACGACAGATCTAAAAA
260 GAGACGGACATCCACGACAGATCTAAAAA
1956 AGTGAGTTGCAAGAGGTTCCCCAATGATCTTG
1 AGTGAGTTGCAAGAGGTTCCCCAATGATCTTG
Statistics
Matches: 304, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
287 1 0.00
288 303 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (288 bp):
AGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCTGATAAGATGGAATTGGAGAGAT
CCAAAGACTTCAAGGACACAAGATTCCCCATCGACTCAGGCAATCCTCCACAAAAAGTTGCCCCT
CGAATATTCAAGTACTCCAAAGATGATAAATTTGTGATTGAGACAGACAATCCTTGAAAGAAACA
ATTTACTGATAGATCTAAGTAATTCAACGCCAGCAGATTACCAACTGAATCAATCAATTCTGTAG
AGACGGACATCCACGACAGATCTAAAAA
Done.