Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga04g01307.F5
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: 4978
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Found at i:1456 original size:234 final size:234
Alignment explanation
Indices: 1077--1511 Score: 611
Period size: 234 Copynumber: 1.9 Consensus size: 234
1067 ATCGACTGGC
* * * * * *
1077 GATGAAACCATGAAAGAAAGCACAGAGGAAAATGAAAGCATCCCATTGAAGTTAACAGAAAATGC
1 GATGAAACCATGAAAGAAAGCAAAAAGGAAAATCAAAGCACCCCATTGAAGGTAACAGAAAAGGC
* *
1142 AAGCCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAGAACCTTAGTAGAAGGAA
66 AAGCCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAAA
* *
1207 GTATTGATACTGCTGACCGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAG
131 GTATCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAG
1272 GAAGCTCCTATATCTGACATCTTGAGCTCAATGATTAGT
196 GAAGCTCCTATATCTGACATCTTGAGCTCAATGATTAGT
** * *
1311 GATGAAACTTTGAAGGAAAGCAAAAAGGAAGATCAAAGCACCCCATTGAAGGTAACAGAAAAGGC
1 GATGAAACCATGAAAGAAAGCAAAAAGGAAAATCAAAGCACCCCATTGAAGGTAACAGAAAAGGC
* * ** * * *
1376 AATCTCTTCATCT-GAGCTTGAGGACTCAAACAAGGATGCTGAAGAGAAAACCTTAGTAGAAGAA
66 AAGCCCTTCAT-TAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAA
* * ***
1440 AGTATCGATGCTGCTGACAGGGAATCTGCACCGGCTGCAGTGGAACCAGAAGAGACAAAGCTAAA
130 AGTATCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAA
*
1505 GGCAGCT
195 GGAAGCT
1512 GAAGCAGATG
Statistics
Matches: 173, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
234 172 0.99
235 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.17
Consensus pattern (234 bp):
GATGAAACCATGAAAGAAAGCAAAAAGGAAAATCAAAGCACCCCATTGAAGGTAACAGAAAAGGC
AAGCCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAAA
GTATCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAG
GAAGCTCCTATATCTGACATCTTGAGCTCAATGATTAGT
Done.