Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga09g02121.F3
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: 3425
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Found at i:944 original size:95 final size:95
Alignment explanation
Indices: 739--998 Score: 454
Period size: 95 Copynumber: 2.8 Consensus size: 95
729 ATTGTTGAAG
* *
739 TAGCTTGGAATAAGAAAACAGTAGG-TTCCCTAAGTTTCTGAGCTAGAATTATTGATCAAAAGAG
1 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCC-AAGTTTCTGAGCTAGAATTATTGATCAAAAGAG
*
803 -A-TTCGTTATCTTCCTATTCGGGGAATTGT
65 CATTTCTTTATCTTCCTATTCGGGGAATTGT
832 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC
1 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC
897 ATTTCTTTATCTTCCTATTCGGGGAATTGT
66 ATTTCTTTATCTTCCTATTCGGGGAATTGT
*
927 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTGTTGATCAAAAGAGC
1 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC
992 ATTTCTT
66 ATTTCTT
999 GAAATTATCT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
93 56 0.35
94 6 0.04
95 98 0.61
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (95 bp):
TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC
ATTTCTTTATCTTCCTATTCGGGGAATTGT
Found at i:1463 original size:9 final size:9
Alignment explanation
Indices: 1428--1476 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
1418 CTAAAAAAGG
1428 AGAAGGA-A
1 AGAAGGAGA
1436 A-AA-GAGA
1 AGAAGGAGA
* *
1443 AGAAGCATA
1 AGAAGGAGA
1452 AGAAGGAGA
1 AGAAGGAGA
1461 AGAAGGAGA
1 AGAAGGAGA
1470 AGAAGGA
1 AGAAGGA
1477 CAAAGACAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
8 3 0.09
9 25 0.74
ACGTcount: A:0.59, C:0.02, G:0.37, T:0.02
Consensus pattern (9 bp):
AGAAGGAGA
Done.