Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga04g00563.N3
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: 2113
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Found at i:409 original size:82 final size:82
Alignment explanation
Indices: 272--436 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
262 GTTCATTACA
*
272 GTATAAAAGAAAATTAGTTCTCTGGTGACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
*
337 TAAATCTTGTAAATCAT
66 TAAATCTTATAAATCAT
*
354 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
419 TAAATCTTATAAATCAT
66 TAAATCTTATAAATCAT
436 G
1 G
437 GTAAGTGTCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (82 bp):
GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
TAAATCTTATAAATCAT
Found at i:1478 original size:18 final size:19
Alignment explanation
Indices: 1455--1490 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1445 ATTGTTTTCA
1455 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
1473 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
1491 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Done.