Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006481.1 Kokia drynarioides strain JFW-HI SEQ_121064, 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: 7812
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:1988 original size:7 final size:7
Alignment explanation
Indices: 1976--2023 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
1966 TTAGCGGAAA
1976 GTCAATG
1 GTCAATG
1983 GTCAATG
1 GTCAATG
*
1990 GTCAATA
1 GTCAATG
1997 GTCAA--
1 GTCAATG
2002 GTCAATG
1 GTCAATG
*
2009 GTCAACG
1 GTCAATG
*
2016 ATCAATG
1 GTCAATG
2023 G
1 G
2024 CTCAGTTCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
5 5 0.15
7 29 0.85
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (7 bp):
GTCAATG
Found at i:2101 original size:23 final size:23
Alignment explanation
Indices: 2029--2095 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
2019 AATGGCTCAG
* *
2029 TTCGATCAAAGTTAACAATTCGA
1 TTCGATCAAAGTCAACGATTCGA
2052 TTCGATCAAAGTCAACGATTCGA
1 TTCGATCAAAGTCAACGATTCGA
2075 TTCGATCAAAGTCAACGATTC
1 TTCGATCAAAGTCAACGATTC
2096 AGTTCGTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (23 bp):
TTCGATCAAAGTCAACGATTCGA
Done.