Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005697.1 Kokia drynarioides strain JFW-HI SEQ_119907, 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, 678
Length: 1130
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Found at i:652 original size:41 final size:41
Alignment explanation
Indices: 559--654 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
549 TTGTTCGTAG
* *
559 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTAAGAATTGGGTGACT
600 AGAATTCTTGTTAAGGTGGAGATTGTAAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTAAGAATTGGGTGACT
641 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
655 AATAAAATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTAAGAATTGGGTGACT
Found at i:772 original size:33 final size:33
Alignment explanation
Indices: 730--796 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
720 TTTAATGGCA
730 TAAGTTCAAAATTAGTCCCTAACATTTGGTGGT
1 TAAGTTCAAAATTAGTCCCTAACATTTGGTGGT
763 TAAGTTCAAAATTAGTCCCTAACATTTGGTGGT
1 TAAGTTCAAAATTAGTCCCTAACATTTGGTGGT
796 T
1 T
797 TTGTCACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (33 bp):
TAAGTTCAAAATTAGTCCCTAACATTTGGTGGT
Done.