Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: evm.model.Scaffold8.42
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, 511
Length: 852
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Found at i:333 original size:195 final size:195
Alignment explanation
Indices: 1--364 Score: 658
Period size: 195 Copynumber: 1.9 Consensus size: 195
* *
1 ATGGATCCTCTCTCAGAGATCTTTCATCAATCAAACTCCAAATCCACATTGCCTTCGTTCCTAGA
1 ATGGATCCTCTCTCAGAGATCTTTCATCAACCAAACTCCAAATCCACATTGCCTTCGTCCCTAGA
*
66 TTTTCCGGAGTACCACCAGTATGATCAAGATACGCCATCCCCAAGTCTTCTCCAACGTGATAAGC
66 TTTTCCAGAGTACCACCAGTATGATCAAGATACGCCATCCCCAAGTCTTCTCCAACGTGATAAGC
* *
131 AACACCTTAGGCGAAACACCGAATGTTCAGGTTT-TCCTAGCGGTTGGGAAGAAAAGGAGTTGCT
131 AACACCTTACGCAAAACACCGAATGTTCA-GTTTGTCCTAGCGGTTGGGAAGAAAAGGAGTTGCT
195 G
195 G
*
196 ATGGATCCTCTCTCAGAGATCTTTCATCAACCAAACTCCATATCCACATTGCCTTCGTCCCTAGA
1 ATGGATCCTCTCTCAGAGATCTTTCATCAACCAAACTCCAAATCCACATTGCCTTCGTCCCTAGA
261 TTTTCCAGAGTACCACCAGTATGATCAAGATACGCCATCCCCAAGTCTTCTCCAACGTGATAAGC
66 TTTTCCAGAGTACCACCAGTATGATCAAGATACGCCATCCCCAAGTCTTCTCCAACGTGATAAGC
326 AACACCTTACGCAAAACACCGAATGTTCAGTTTGTCCTA
131 AACACCTTACGCAAAACACCGAATGTTCAGTTTGTCCTA
365 CTATTTGGGA
Statistics
Matches: 162, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
194 4 0.02
195 158 0.98
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (195 bp):
ATGGATCCTCTCTCAGAGATCTTTCATCAACCAAACTCCAAATCCACATTGCCTTCGTCCCTAGA
TTTTCCAGAGTACCACCAGTATGATCAAGATACGCCATCCCCAAGTCTTCTCCAACGTGATAAGC
AACACCTTACGCAAAACACCGAATGTTCAGTTTGTCCTAGCGGTTGGGAAGAAAAGGAGTTGCTG
Done.