Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga14g00536.F4
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: 3420
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Found at i:882 original size:69 final size:69
Alignment explanation
Indices: 771--901 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
761 CCAGTGGTCA
* * * *
771 GGAGACTGAAGTTGAACCTCCTCCGGGGTTTCCAGATAAGCGGCGAGGGAG-TGAAAGAAATGAT
1 GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGG-GCTCAAAGAAATGAT
835 GGACG
65 GGACG
* *
840 GGAGAGTGAAGTTAAAGCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATG
1 GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATG
902 GAGGTACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.31, C:0.18, G:0.35, T:0.17
Consensus pattern (69 bp):
GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATGATG
GACG
Found at i:2277 original size:21 final size:22
Alignment explanation
Indices: 2253--2295 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2243 TTGAGACTAA
2253 AATATCAATACCTTT-TTGTTT
1 AATATCAATACCTTTGTTGTTT
* *
2274 AATATCGATACTTTTGTTGTTT
1 AATATCAATACCTTTGTTGTTT
2296 TTCAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (22 bp):
AATATCAATACCTTTGTTGTTT
Done.