Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g01453.C1
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: 3576
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Found at i:1511 original size:17 final size:17
Alignment explanation
Indices: 1485--1517 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1475 TGCTATTTCG
1485 TCTTTCTCAGGCAAAGC
1 TCTTTCTCAGGCAAAGC
*
1502 TCTTTTTCAGGCAAAG
1 TCTTTCTCAGGCAAAG
1518 AAGAACCTTT
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:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (17 bp):
TCTTTCTCAGGCAAAGC
Found at i:2775 original size:93 final size:93
Alignment explanation
Indices: 2618--2803 Score: 284
Period size: 93 Copynumber: 2.0 Consensus size: 93
2608 AGCAATCCTT
* * *
2618 TTCTTAGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGACTAGATATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGACTAGAGATTTTGTTTTGGGTTTAAT
2683 TATTGATTCATCCTTTTTTCTATTATTTC
66 TATTGATTCAT-CTTTTTTCTATTATTTC
* * *
2712 TTCTTCGCCTTTATTTAC-TTTATTAGGATTGAACTTTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGACTAGAGATTTTGTTTTGGGTTTAAT
* *
2776 TGTTTATTCATCTTTTTTCTATTATTTC
66 TATTGATTCATCTTTTTTCTATTATTTC
2804 CTGGCAGCTC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 17 0.20
93 50 0.60
94 17 0.20
ACGTcount: A:0.18, C:0.12, G:0.13, T:0.56
Consensus pattern (93 bp):
TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGACTAGAGATTTTGTTTTGGGTTTAAT
TATTGATTCATCTTTTTTCTATTATTTC
Done.