Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003582.1 Kokia drynarioides strain JFW-HI SEQ_116455, 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, 913
Length: 1522
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Found at i:620 original size:20 final size:20
Alignment explanation
Indices: 595--653 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
585 TTGGGTTTGT
595 AATTGGGCTAAGGCTTGGTC
1 AATTGGGCTAAGGCTTGGTC
615 AATTGGG-T-----TT-GT-
1 AATTGGGCTAAGGCTTGGTC
627 AATTGGGCTAAGGCTTGGTC
1 AATTGGGCTAAGGCTTGGTC
647 AATTGGG
1 AATTGGG
654 TTTGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 16
0.66 0.00 0.34
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 2 0.06
18 2 0.06
19 3 0.10
20 14 0.45
ACGTcount: A:0.20, C:0.10, G:0.36, T:0.34
Consensus pattern (20 bp):
AATTGGGCTAAGGCTTGGTC
Found at i:625 original size:32 final size:32
Alignment explanation
Indices: 584--662 Score: 158
Period size: 32 Copynumber: 2.5 Consensus size: 32
574 AGGGTTTATT
584 ATTGGGTTTGTAATTGGGCTAAGGCTTGGTCA
1 ATTGGGTTTGTAATTGGGCTAAGGCTTGGTCA
616 ATTGGGTTTGTAATTGGGCTAAGGCTTGGTCA
1 ATTGGGTTTGTAATTGGGCTAAGGCTTGGTCA
648 ATTGGGTTTGTAATT
1 ATTGGGTTTGTAATT
663 TAAAATTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.19, C:0.08, G:0.33, T:0.41
Consensus pattern (32 bp):
ATTGGGTTTGTAATTGGGCTAAGGCTTGGTCA
Done.