Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000284.1 Kokia drynarioides strain JFW-HI SEQ_111036, 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: 2291
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Found at i:1019 original size:26 final size:26
Alignment explanation
Indices: 990--1044 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
980 CACCCAAGAA
990 TGTCGCTGCATGAACATGTCCAAAAT
1 TGTCGCTGCATGAACATGTCCAAAAT
*
1016 TGTCGCTGCATGAACGTGTCCAAAAT
1 TGTCGCTGCATGAACATGTCCAAAAT
1042 TGT
1 TGT
1045 GCCCAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTCCAAAAT
Found at i:2093 original size:26 final size:26
Alignment explanation
Indices: 2049--2145 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
2039 GACTAGGGCG
*
2049 CAATTCTTGACATGCTCATGCAGTGA
1 CAATTCTGGACATGCTCATGCAGTGA
* *
2075 CAACTCTGGACATGTTCATGCAGTGA
1 CAATTCTGGACATGCTCATGCAGTGA
* * * * *
2101 TAATTCTAGACAAGTTTC-TACAGTGA
1 CAATTCTGGACATG-CTCATGCAGTGA
2127 CAATTCTGGACATGCTCAT
1 CAATTCTGGACATGCTCAT
2146 TCAACGACAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
25 2 0.04
26 52 0.91
27 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (26 bp):
CAATTCTGGACATGCTCATGCAGTGA
Done.