Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga09g00997.P1
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: 4449
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Found at i:4379 original size:202 final size:204
Alignment explanation
Indices: 4011--4449 Score: 688
Period size: 202 Copynumber: 2.2 Consensus size: 204
4001 CTGAGTAATA
*
4011 GTGTGAATGAAACGTGTAATCAAAATTTTCATTGAGAATCTCTATTCATTAATTACACCACACCA
1 GTGTGAATGAAACG-GTAATCAAAATTTTCATTGAGAATCTCCATTCATTAATTACACCACACCA
* * *
4076 AGCATTATTATATTGTAATTCAAATTTTAAAATTATTTTTTTTTTCAATATCAGATGGAAATAGG
65 AGCATTATTATATTGTAATTCAAATTTCAAAATTATTTTTTTGTTCAATATCAGAAGGAAATAGG
* * * *
4141 AGACTAGTTTCGATGTACCTGGCTTTGGTTTCGACTCTCACTGAGTGACAGTTTCATAAGTGATG
130 AGACTAGTTTCAATGTACCTGACTTTGGTTTCGACTCTCACTGAGTGACAGTTTCAGAAGTAATG
4206 T-TTCATTTGT
195 TATT-ATTTGT
* **
4216 GTGTGAATGAAAC-GTAATC-AAATTTTCATTGGGAATCTCCATTCATTAATTACACTGCACCAA
1 GTGTGAATGAAACGGTAATCAAAATTTTCATTGAGAATCTCCATTCATTAATTACACCACACCAA
*
4279 GCATTATTATATTGTAATTCAAATTTCCAAATTATTTTTTTGTTCAATATC-GAAGTGAAATAGG
66 GCATTATTATATTGTAATTCAAATTTCAAAATTATTTTTTTGTTCAATATCAGAAG-GAAATAGG
* *
4343 AGATTAGTTTCAATGTACTTGACTTTGGTTTCGACTCTCACTGAGTGACAGTTTCAGAAGTAATG
130 AGACTAGTTTCAATGTACCTGACTTTGGTTTCGACTCTCACTGAGTGACAGTTTCAGAAGTAATG
4408 TATTATTTGT
195 TATTATTTGT
4418 GTGTGAATGAAACGTGTAATCAAAATTTTCAT
1 GTGTGAATGAAACG-GTAATCAAAATTTTCAT
Statistics
Matches: 215, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
201 3 0.01
202 175 0.81
203 8 0.04
204 6 0.03
205 23 0.11
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (204 bp):
GTGTGAATGAAACGGTAATCAAAATTTTCATTGAGAATCTCCATTCATTAATTACACCACACCAA
GCATTATTATATTGTAATTCAAATTTCAAAATTATTTTTTTGTTCAATATCAGAAGGAAATAGGA
GACTAGTTTCAATGTACCTGACTTTGGTTTCGACTCTCACTGAGTGACAGTTTCAGAAGTAATGT
ATTATTTGT
Done.