Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014760.1 Kokia drynarioides strain JFW-HI SEQ_129799, 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: 8125
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Found at i:1702 original size:54 final size:54
Alignment explanation
Indices: 1620--1727 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
1610 TCACCCACAT
1620 ACCTAGGGTTTGAGTTCTAGTGTGGGAAGGTTGAGCTAAAGGGAGAAGAAAGAA
1 ACCTAGGGTTTGAGTTCTAGTGTGGGAAGGTTGAGCTAAAGGGAGAAGAAAGAA
1674 ACCTAGGGTTTGAGTTCTAGTGTGGGAAGGTTGAGCTAAAGGGAGAAGAAAGAA
1 ACCTAGGGTTTGAGTTCTAGTGTGGGAAGGTTGAGCTAAAGGGAGAAGAAAGAA
1728 CTTTTGGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.22
Consensus pattern (54 bp):
ACCTAGGGTTTGAGTTCTAGTGTGGGAAGGTTGAGCTAAAGGGAGAAGAAAGAA
Found at i:4211 original size:12 final size:11
Alignment explanation
Indices: 4190--4224 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4180 TTTGAAGTAT
4190 TATTTTAAAAA
1 TATTTTAAAAA
4201 TATTTTAAAAA
1 TATTTTAAAAA
* *
4212 TGTTTTTAAAA
1 TATTTTAAAAA
4223 TA
1 TA
4225 ACAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TATTTTAAAAA
Done.