Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga11g00623.C1
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: 5490
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Found at i:3823 original size:210 final size:210
Alignment explanation
Indices: 3444--3849 Score: 582
Period size: 210 Copynumber: 1.9 Consensus size: 210
3434 AGGCTTAAGC
* * **
3444 TTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGCAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCTT
* *
3509 GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGGA
** * * * *
3574 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGATACCT-TCTTCAATGGGAAAT
131 ATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTAT-TTCAATGGGAAAT
3638 CTTGGAAGACTTAAAG
195 CTTGGAAGACTTAAAG
* *
3654 TTTTGAATTTAAAAGACTGCAAAAGTCTTG-GGAGTCATCCAATCAAAATTGGAATGGAATCTCT
1 TTTTGAATTTAAAAGACTGCAAAAGTC-TGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCT
* *
3718 TGAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGCTTTCCAGAGATTGATGGCAAAATGG
65 TGAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGG
* *** * *
3783 AATGCCTGCTAGAGCTTTATTTAGATGGGTCGGGCATTAAAGAGCTACCTATTTCAATTGGAAAT
130 AATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTATTTCAATGGGAAAT
3848 CT
195 CT
3850 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.