Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga09g00648.R1
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, 642
Length: 1071
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Found at i:476 original size:72 final size:72
Alignment explanation
Indices: 359--508 Score: 273
Period size: 72 Copynumber: 2.1 Consensus size: 72
349 TTCAGCATCA
* *
359 GTTACTGCTTCTTGCTCCTCCTGCAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATT
1 GTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATT
424 AATATTT
66 AATATTT
431 GTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATT
1 GTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATT
496 AATATTT
66 AATATTT
*
503 GGTACT
1 GTTACT
509 ATCGAGCACC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (72 bp):
GTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATT
AATATTT
Found at i:887 original size:21 final size:21
Alignment explanation
Indices: 861--905 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
851 ACTTAGAGCA
* *
861 GAGGCAGCAGCGCGGGAGGTG
1 GAGGCAGCAGCGAGGGAGGAG
882 GAGGCAGCAGCGAGGGAGGAG
1 GAGGCAGCAGCGAGGGAGGAG
903 GAG
1 GAG
906 TAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.58, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGAG
Done.