Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga11g00623.F1
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: 4241
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Found at i:2574 original size:210 final size:210
Alignment explanation
Indices: 2195--2600 Score: 582
Period size: 210 Copynumber: 1.9 Consensus size: 210
2185 AGGCTTAAGC
* * **
2195 TTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGCAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCTT
* *
2260 GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGGA
** * * * *
2325 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGATACCT-TCTTCAATGGGAAAT
131 ATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTAT-TTCAATGGGAAAT
2389 CTTGGAAGACTTAAAG
195 CTTGGAAGACTTAAAG
* *
2405 TTTTGAATTTAAAAGACTGCAAAAGTCTTG-GGAGTCATCCAATCAAAATTGGAATGGAATCTCT
1 TTTTGAATTTAAAAGACTGCAAAAGTC-TGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCT
* *
2469 TGAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGCTTTCCAGAGATTGATGGCAAAATGG
65 TGAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGG
* *** * *
2534 AATGCCTGCTAGAGCTTTATTTAGATGGGTCGGGCATTAAAGAGCTACCTATTTCAATTGGAAAT
130 AATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTATTTCAATGGGAAAT
2599 CT
195 CT
2601 GAGTAGTCTT
Statistics
Matches: 172, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
210 169 0.98
211 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (210 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCTT
GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGGA
ATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTATTTCAATGGGAAATC
TTGGAAGACTTAAAG
Done.