Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012992.1 Kokia drynarioides strain JFW-HI SEQ_128010, 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: 444825
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Warning! 271 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:438226 original size:45 final size:47
Alignment explanation
Indices: 438165--438259 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 47
438155 AAATCTTGAG
**
438165 ATACTAAATATTTAACTAAATTATGTAGCATTTATTATAAAATATTT
1 ATACTAAATATTTAACTAAATTACATAGCATTTATTATAAAATATTT
* * *
438212 ATACT-AAT-TTTAACTAAATTACATAGTATTTATTATTAATTATTT
1 ATACTAAATATTTAACTAAATTACATAGCATTTATTATAAAATATTT
438257 ATA
1 ATA
438260 TTTAGCCAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 35 0.81
46 3 0.07
47 5 0.12
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (47 bp):
ATACTAAATATTTAACTAAATTACATAGCATTTATTATAAAATATTT
Found at i:438289 original size:38 final size:38
Alignment explanation
Indices: 438238--438314 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
438228 AATTACATAG
*
438238 TATTTATTATTAATTATTTATATTTAGCCAAGAACCAA
1 TATTTATTATTAATTATTTATACTTAGCCAAGAACCAA
*
438276 TATTTATTATTAATTATTTATACTTATCCAAGAACCAA
1 TATTTATTATTAATTATTTATACTTAGCCAAGAACCAA
438314 T
1 T
438315 TGGTGATATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (38 bp):
TATTTATTATTAATTATTTATACTTAGCCAAGAACCAA
Done.