Hello
I am trying to run the prop program with the test file (./prop -g -s test/GDNF_HUMAN.fsa) but my output file is not the same as the output file of the test. It seems that even though I linked the Signalp program to prop the program is not using it. In the same way when I run secretomep the output files (NN score) comes out different compared to the test output file and I do not know if the same error is linked. What I can do. It goes both output files:
programas_secretoma/prop-1.0c$./prop -s test/GDNF_HUMAN.fsa
ProP v.1.0b ProPeptide Cleavage Site Prediction #####
Furin-type cleavage site prediction (Arginine/Lysine residues) #####
211 GDNF_HUMAN
MKLWDVVAVCLVLLHTASAFPLPAGKRPPEAPAEDRSLGRRRAPFALSSDSNMPEDYPDQFDDVMDFIQATIKRLKRSPD 80
KQMAVLPRRERNRQAAAANPENSRGKGRRGQRGKNRGCVLTAIHLNVTDLGLGYETKEELIFRYCSGSCDAAETTYDKIL 160
KNLSRNRRLVSDKVGQACCRPIAFDDDLSFLDDNLVYHILRKHSAKRCGCI 240
............................................................................P... 80
................................................................................ 160
.......P........................................... 240
Signal peptide cleavage site predicted: none
Propeptide cleavage sites predicted: Arg(R)/Lys(K): 2
programas_secretoma/prop-1.0c$ less test/four.out
211 GDNF_HUMAN
MKLWDVVAVCLVLLHTASAFPLPAGKRPPEAPAEDRSLGRRRAPFALSSDSNMPEDYPDQFDDVMDFIQATIKRLKRSPD 80
KQMAVLPRRERNRQAAAANPENSRGKGRRGQRGKNRGCVLTAIHLNVTDLGLGYETKEELIFRYCSGSCDAAETTYDKIL 160
KNLSRNRRLVSDKVGQACCRPIAFDDDLSFLDDNLVYHILRKHSAKRCGCI 240
sssssssssssssssssss.........................................................P... 80
................................................................................ 160
.......P........................................... 240
Signal peptide cleavage site predicted: between pos. 19 and 20: ASA-FP
Propeptide cleavage sites predicted: Arg(R)/Lys(K): 2
