Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g00491.P1
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: 5170
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Found at i:304 original size:14 final size:14
Alignment explanation
Indices: 285--312 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
275 TAACTACTAT
285 ATGAACATGAGAAA
1 ATGAACATGAGAAA
299 ATGAACATGAGAAA
1 ATGAACATGAGAAA
313 TCAAAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
ATGAACATGAGAAA
Found at i:2263 original size:17 final size:17
Alignment explanation
Indices: 2241--2273 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2231 CAGACTGATA
2241 CAAAATCCAAACAGATG
1 CAAAATCCAAACAGATG
*
2258 CAAAATCCAAATAGAT
1 CAAAATCCAAACAGAT
2274 TCTTCAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.15
Consensus pattern (17 bp):
CAAAATCCAAACAGATG
Found at i:5114 original size:30 final size:30
Alignment explanation
Indices: 5080--5140 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
5070 TTAGCATTCG
5080 TTTCGATTTATCCAAGTACCCTTATTTAAT
1 TTTCGATTTATCCAAGTACCCTTATTTAAT
5110 TTTCGATTTATCCAAGTACCCTTATTTAAT
1 TTTCGATTTATCCAAGTACCCTTATTTAAT
5140 T
1 T
5141 AACATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTCGATTTATCCAAGTACCCTTATTTAAT
Done.