Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga10g02306.F3
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: 4026
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Found at i:315 original size:6 final size:6
Alignment explanation
Indices: 304--330 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
294 TCTCCCTAAA
304 CCCCAC CCCCAC CCCCAC CCCCAC CCC
1 CCCCAC CCCCAC CCCCAC CCCCAC CCC
331 TACTCCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCAC
Found at i:2165 original size:54 final size:53
Alignment explanation
Indices: 2079--2248 Score: 186
Period size: 51 Copynumber: 3.2 Consensus size: 53
2069 TTTTTTCCTT
*
2079 GTTGAAACAAAAAATAGTGGACTTTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
1 GTTGAAA-AAAAAA-GGTGGA--TTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
* * *
2136 ATTGAAAAAAAAAGGTGGAATTTTTGCACAAATAATTGGACAACTTGCTCTCAA
1 GTTGAAAAAAAAAGGTGG-ATTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
* * *
2190 GTTG---AAAAAAGGTGGATTCTTTGCTCAAATAAAT-GAATATCATGCTCTCAA
1 GTTGAAAAAAAAAGGTGGATT-TTTGCACAAATAAATGGAA-AACTTGCTCTCAA
2241 GTTGAAAA
1 GTTGAAAA
2249 TATTGTATCC
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
50 5 0.05
51 39 0.40
54 36 0.37
55 4 0.04
56 7 0.07
57 6 0.06
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (53 bp):
GTTGAAAAAAAAAGGTGGATTTTTGCACAAATAAATGGAAAACTTGCTCTCAA
Done.