Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga13g01101.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: 3536
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Found at i:88 original size:18 final size:18
Alignment explanation
Indices: 62--96 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52 CACTTTCTGC
*
62 TTTTCCTTTTTTTTTTCT
1 TTTTCCTTTTTTCTTTCT
*
80 TTTTTCTTTTTTCTTTC
1 TTTTCCTTTTTTCTTTC
97 GCATTGTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCCTTTTTTCTTTCT
Found at i:3009 original size:51 final size:51
Alignment explanation
Indices: 2926--3068 Score: 180
Period size: 51 Copynumber: 2.8 Consensus size: 51
2916 TCAACGATGG
* * * *
2926 TTTCAGGGTGGGAT-TCATGCTTTCACTCCGGGGACTCAACCACTTGGCCAA
1 TTTCACGGTGGGATCT-ATGCTTCCACACCGGGGACTCAACCACTAGGCCAA
* * *
2977 TTTCACGGTGGGATCTATGCTTCCACAGCGGGGACTCAACCACTAGGGCAG
1 TTTCACGGTGGGATCTATGCTTCCACACCGGGGACTCAACCACTAGGCCAA
* * *
3028 CTTCACGGTGGGATCTTTGCTTCCACACCGGGGGCTCAACC
1 TTTCACGGTGGGATCTATGCTTCCACACCGGGGACTCAACC
3069 GCAAGAGCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 79 0.99
52 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.24
Consensus pattern (51 bp):
TTTCACGGTGGGATCTATGCTTCCACACCGGGGACTCAACCACTAGGCCAA
Done.