Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga08g01773.F2
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: 3697
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Found at i:651 original size:189 final size:189
Alignment explanation
Indices: 329--710 Score: 633
Period size: 189 Copynumber: 2.0 Consensus size: 189
319 GGCAGGGTGA
*
329 CTGCACCAATCACTAGACCAAGTGAGCAAGCACAAGGACAGGTAGTATCCGAGTCTGAAAACCCA
1 CTGCACCAATCACTAGACCAAGTGAGCAAGCACAAGGACAGGCAGTATCCGAGTCTGAAAACCCA
* * *
394 GCATCATTGCCTGATTCTGTAGAGAGAGTTCAGTGTGAAACGAAGGTTTCAGGAGAATCTGAAAT
66 GCATCATTGCCTGATTCTGTAGAAAGAGTTCAGTGTGAAACAAAGGTTTCAGGAGAATCAGAAAT
459 TGCGACGAGTTCAGTAAATGAAGTTTCTGGTTCGCAGAAGGATTTGCCTGAGGAGAATG
131 TGCGACGAGTTCAGTAAATGAAGTTTCTGGTTCGCAGAAGGATTTGCCTGAGGAGAATG
* *
518 CTGCACCAATCACTAGACCAAGTGAGCAAGCACAAGGGCAGGCAGTATCTGAGTCTGAAAACCCA
1 CTGCACCAATCACTAGACCAAGTGAGCAAGCACAAGGACAGGCAGTATCCGAGTCTGAAAACCCA
* *
583 GCATCATTGCCTGATTGTGTAGATAAG-GTTCAGTGTGAAACAAAGTTTTCAGGAGAATCCAG-A
66 GCATCATTGCCTGATTCTGTAGA-AAGAGTTCAGTGTGAAACAAAGGTTTCAGGAGAAT-CAGAA
* * *
646 ATTGCGACGAGTTCGGTAAATGAAGTTTCTGGTTCGGAGAGGGATTTGCCTGAGGAGAATG
129 ATTGCGACGAGTTCAGTAAATGAAGTTTCTGGTTCGCAGAAGGATTTGCCTGAGGAGAATG
707 CTGC
1 CTGC
711 TATTTGTGAA
Statistics
Matches: 180, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
189 176 0.98
190 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (189 bp):
CTGCACCAATCACTAGACCAAGTGAGCAAGCACAAGGACAGGCAGTATCCGAGTCTGAAAACCCA
GCATCATTGCCTGATTCTGTAGAAAGAGTTCAGTGTGAAACAAAGGTTTCAGGAGAATCAGAAAT
TGCGACGAGTTCAGTAAATGAAGTTTCTGGTTCGCAGAAGGATTTGCCTGAGGAGAATG
Done.