Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_1088 ID=scaffold_1088-JGI_221_v2.0
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, 625
Length: 1042
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Found at i:238 original size:133 final size:133
Alignment explanation
Indices: 1--315 Score: 560
Period size: 133 Copynumber: 2.4 Consensus size: 133
* *
1 TTCGATCTGCTTCGCTGTC-ATGCAGGAAGGCAAGATCTGCTAACTTTAATCTATTCCATTGCTG
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTG
*
65 CCCAGAGAAGTAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
66 CCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
130 ATC
131 ATC
133 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTG
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTG
*
198 CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
66 CCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
263 ATC
131 ATC
* * *
266 TTTGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAA
316 CCTGCTCTAC
Statistics
Matches: 175, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
132 19 0.11
133 156 0.89
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (133 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTG
CCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
ATC
Done.