Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga08g00458.N2
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: 2074
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Found at i:365 original size:26 final size:26
Alignment explanation
Indices: 329--464 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
319 TGATACAAAT
329 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
355 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
381 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
407 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
433 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
459 TGATAA
1 TGATAA
465 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:1520 original size:136 final size:136
Alignment explanation
Indices: 1276--1696 Score: 752
Period size: 136 Copynumber: 3.1 Consensus size: 136
1266 GAGTAGTCTC
* * *
1276 CCCAAATGGGCTTGCATATGTTATTTATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATATT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
1341 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
1406 CTGTTA
131 CTGTTA
1412 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1477 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
*
1542 CTATTA
131 CTGTTA
1548 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
1613 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCCGAAAAGGGCTCTGGCCCAATACCA
66 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
1678 CTGTTA
131 CTGTTA
**
1684 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1697 AGGCCCAATG
Statistics
Matches: 274, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 274 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
CTGTTA
Done.