Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga12g00847.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, 666
Length: 1110
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Found at i:288 original size:28 final size:28
Alignment explanation
Indices: 248--303 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
238 TTACAAAGAG
*
248 AAAATTAGAATTGAAAGCAATAAGCCTT
1 AAAATTAGAATTGAAAGAAATAAGCCTT
276 AAAATTAGAATTGAAAGAAATAAGCCTT
1 AAAATTAGAATTGAAAGAAATAAGCCTT
304 TCATTACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (28 bp):
AAAATTAGAATTGAAAGAAATAAGCCTT
Found at i:796 original size:207 final size:207
Alignment explanation
Indices: 441--853 Score: 709
Period size: 207 Copynumber: 2.0 Consensus size: 207
431 CAATATAGTG
*
441 AACACTGCTCCTAGGCCAGACGGGGAAATGGTAGGAGCACAAGCGGTTGCTTTGAGAGTCTCCGG
1 AACACTGCTCCTAGGCCAGACGGGAAAATGGTAGGAGCACAAGCGGTTGCTTTGAGAGTCTCCGG
**
506 CGACAAGTCAGCTTTCTATAACTGCAAGATCATCGGCTTCCAGGACACTTTGTGTGATGACAGGG
66 CGACAAGTCAGCTTTCTATAACTGCAAGATCATCAACTTCCAGGACACTTTGTGTGATGACAGGG
* * * * * *
571 GCAACTATTTTTTTAAGGATTTCCATATTCGTGGCACTATTGATTTTATTTTCGGGAGCGGGACA
131 GCAACCATTTCTTTAAGGATTGCCATATTCATGGCACTATTGATTTCATTTTCGGAAGCGGGACA
636 TCTTTATATCTA
196 TCTTTATATCTA
*
648 AACACTGCTCCTAGGCCAGACGGGAAAATGGTAGGAGCACAAGCTGTTGCTTTGAGAGTCTCCGG
1 AACACTGCTCCTAGGCCAGACGGGAAAATGGTAGGAGCACAAGCGGTTGCTTTGAGAGTCTCCGG
* *
713 CGACAGGTCTGCTTTCTATAACTGCAAGATCATCAACTTCCAGGACACTTTGTGTGATGACAGGG
66 CGACAAGTCAGCTTTCTATAACTGCAAGATCATCAACTTCCAGGACACTTTGTGTGATGACAGGG
*
778 GCAACCATTTCTTTAAGGATTGCCATATTCATGGCACTGTTGATTTCATTTTCGGAAGCGGGACA
131 GCAACCATTTCTTTAAGGATTGCCATATTCATGGCACTATTGATTTCATTTTCGGAAGCGGGACA
843 TCTTTATATCT
196 TCTTTATATCT
854 GAACTCAGAA
Statistics
Matches: 193, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 193 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (207 bp):
AACACTGCTCCTAGGCCAGACGGGAAAATGGTAGGAGCACAAGCGGTTGCTTTGAGAGTCTCCGG
CGACAAGTCAGCTTTCTATAACTGCAAGATCATCAACTTCCAGGACACTTTGTGTGATGACAGGG
GCAACCATTTCTTTAAGGATTGCCATATTCATGGCACTATTGATTTCATTTTCGGAAGCGGGACA
TCTTTATATCTA
Done.