Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011445.1 Kokia drynarioides strain JFW-HI SEQ_126429, 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: 6238
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Found at i:2041 original size:41 final size:41
Alignment explanation
Indices: 1984--2062 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
1974 GTGTTGGAAA
*
1984 AAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAAATT
1 AAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAAATT
2025 AAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAA
1 AAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAA
2063 TTTTTTTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (41 bp):
AAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAAATT
Found at i:3282 original size:50 final size:50
Alignment explanation
Indices: 3202--3317 Score: 214
Period size: 50 Copynumber: 2.3 Consensus size: 50
3192 TATTTTTATC
* *
3202 AACATTACCAATTAAATATTCAATCATCCAAATAGCCAAACAAATAACCT
1 AACACTACCAATTAAAAATTCAATCATCCAAATAGCCAAACAAATAACCT
3252 AACACTACCAATTAAAAATTCAATCATCCAAATAGCCAAACAAATAACCT
1 AACACTACCAATTAAAAATTCAATCATCCAAATAGCCAAACAAATAACCT
3302 AACACTACCAATTAAA
1 AACACTACCAATTAAA
3318 TATTTTCGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.22
Consensus pattern (50 bp):
AACACTACCAATTAAAAATTCAATCATCCAAATAGCCAAACAAATAACCT
Done.