Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007535.1 Kokia drynarioides strain JFW-HI SEQ_122160, 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: 4257
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Found at i:249 original size:21 final size:21
Alignment explanation
Indices: 223--274 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
213 GTTCATAGTA
223 GTATCAGTAGTCTGAGTACTT
1 GTATCAGTAGTCTGAGTACTT
244 GTATCAGTAGTCTGAGTACTT
1 GTATCAGTAGTCTGAGTACTT
265 GTATCAGTAG
1 GTATCAGTAG
275 AAGTTGTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (21 bp):
GTATCAGTAGTCTGAGTACTT
Found at i:810 original size:53 final size:53
Alignment explanation
Indices: 730--835 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
720 AATGATTTAG
730 AAGTACATGCCATATGAACCTGTAATAGTGTGATATAGATGGATTCGATCTAA
1 AAGTACATGCCATATGAACCTGTAATAGTGTGATATAGATGGATTCGATCTAA
*
783 AAGTACATGCCATATGAACTTGTAATAGTGTGATATAGATGGATTCGATCTAA
1 AAGTACATGCCATATGAACCTGTAATAGTGTGATATAGATGGATTCGATCTAA
836 CTATTGTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (53 bp):
AAGTACATGCCATATGAACCTGTAATAGTGTGATATAGATGGATTCGATCTAA
Done.