Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga05g04028.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: 3980
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Found at i:536 original size:136 final size:135
Alignment explanation
Indices: 287--562 Score: 473
Period size: 136 Copynumber: 2.0 Consensus size: 135
277 CTGTTATAGC
* * *
287 AGCTAGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGGTCTTCTCTAGTGATTATCA
1 AGCTAGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATCTTCCCTACTGATTATCA
352 ACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATACG
66 ACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATACG
417 AAAAG
131 AAAAG
*
422 AGCTATGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGAT-TTCCCCTACTGATTTT
1 AGCTA-GCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATCTT-CCCTACTGATTAT
*
486 CAACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAGTCTACTATAGATACAAATTAATA
64 CAACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATA
*
551 CGCAAAG
129 CGAAAAG
558 AGCTA
1 AGCTA
563 CCCAGAAGCA
Statistics
Matches: 133, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
135 7 0.05
136 126 0.95
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (135 bp):
AGCTAGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATCTTCCCTACTGATTATCA
ACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATACG
AAAAG
Done.