Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga13g01791.P2
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: 5606
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Found at i:1204 original size:27 final size:27
Alignment explanation
Indices: 1165--1230 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
1155 GAGAACCCAA
1165 CATGTTTGATAGTTTCTAATTATGCTAC
1 CATG-TTGATAGTTTCTAATTATGCTAC
1193 CATGTTGATAGTTTCTAATTATGCTAC
1 CATGTTGATAGTTTCTAATTATGCTAC
1220 CATGTT-ATAGT
1 CATGTTGATAGT
1231 CTGATAAGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 5 0.13
27 29 0.76
28 4 0.11
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (27 bp):
CATGTTGATAGTTTCTAATTATGCTAC
Found at i:3027 original size:21 final size:21
Alignment explanation
Indices: 3003--3045 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2993 ATTTTCAAAT
3003 TAATTGCACATTGACTTGTAA
1 TAATTGCACATTGACTTGTAA
* *
3024 TAATTGCATATTGATTTGTAA
1 TAATTGCACATTGACTTGTAA
3045 T
1 T
3046 TTTTTGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (21 bp):
TAATTGCACATTGACTTGTAA
Found at i:4514 original size:32 final size:31
Alignment explanation
Indices: 4463--4542 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
4453 GAAATTAGTT
* *
4463 TGTTGGATTTTAAAATTATTATGTTTTCAATG-
1 TGTTGGATATTGAAATTATTATGTTTT-AA-GC
*
4495 TGTTGGATATTGAATTTATTATGTTTTAAGC
1 TGTTGGATATTGAAATTATTATGTTTTAAGC
4526 TTGTTGGATATTGAAAT
1 -TGTTGGATATTGAAAT
4543 GATTGACAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 1 0.02
31 2 0.05
32 39 0.93
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.51
Consensus pattern (31 bp):
TGTTGGATATTGAAATTATTATGTTTTAAGC
Done.