Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g02238.N1
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, 751
Length: 1252
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Found at i:38 original size:26 final size:26
Alignment explanation
Indices: 1--68 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
* *
1 AAATGTTCCATGATAATTGGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
27 AAATGTTTCATGATAATGGGTTAGGT
1 AAATGTTTCATGATAATGGGTTAGGT
53 AAATGTTTCATGATAA
1 AAATGTTTCATGATAA
69 GAATTTCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
AAATGTTTCATGATAATGGGTTAGGT
Found at i:1183 original size:137 final size:137
Alignment explanation
Indices: 937--1223 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
927 GAGTAGTCTC
*
937 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1002 TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1067 ACTGTTA
131 ACTGTTA
1074 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
*
1139 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1204 ACTGTTA
131 ACTGTTA
**
1211 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1224 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.