# /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/bin/netMHCpan -f /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file1/pep1_19-06-02-03-24-21-71385100.txt -p -a HLA-A01:01 # Sun Jun 2 23:24:22 2019 # User: root # PWD : /usr/local/apache/htdocs/gz/prediction/cubic-horizontal # Host: Linux iZbp17uatlyfuye40s01ymZ 3.10.0-693.21.1.el7.x86_64 x86_64 # -f /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file1/pep1_19-06-02-03-24-21-71385100.txt File name with input # -p 1 Use peptide input # -a HLA-A01:01 HLA allele # Command line parameters set to: # [-rdir filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64 Home directory for NetMHpan # [-syn filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/synlist.bin Synaps file # [-v] 0 Verbose mode # [-dirty] 0 Dirty mode, leave tmp dir+files # [-tdir filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/tmp/netMHCpanXXXXXX Temporary directory (made with mkdtemp) # [-hlapseudo filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences # [-hlaseq filename] File with full length HLA sequences # [-a line] HLA-A01:01 HLA allele # [-f filename] /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file1/pep1_19-06-02-03-24-21-71385100.txt File name with input # [-w] 0 w option for webface # [-s] 0 Sort output on descending affinity # [-p] 1 Use peptide input # [-rth float] 0.500000 Rank Threshold for high binding peptides # [-rlt float] 2.000000 Rank Threshold for low binding peptides # [-l string] 8,9,10,11 Peptide length [8-11] (multiple length with ,) # [-xls] 0 Save output to xls file # [-xlsfile filename] NetMHCpan_out.xls Filename for xls dump # [-t float] -99.900002 Threshold for output # [-thrfmt filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/threshold/%s.thr.%s Format for threshold filenames # [-expfix] 0 Exclude prefix from synlist # [-version filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/version File with version information # [-inptype int] 0 Input type [0] FASTA [1] Peptide # [-listMHC] 0 Print list of alleles included in netMHCpan # [-allname filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/allelenames File with print names for alleles # [-BA] 0 Make Binding affinity prediction # NetMHCpan version 4.0 # Tmpdir made /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/tmp/netMHCpanxutqVr # Input is in PEPTIDE format # Make Eluted ligand likelihood predictions HLA-A01:01 : Distance to training data 0.000 (using nearest neighbor HLA-A01:01) # Rank Threshold for Strong binding peptides 0.500 # Rank Threshold for Weak binding peptides 2.000 ----------------------------------------------------------------------------------- Pos HLA Peptide Core Of Gp Gl Ip Il Icore Identity Score %Rank BindLevel ----------------------------------------------------------------------------------- 1 HLA-A*01:01 AAFHGVFEKY AAFHGVFEY 0 8 1 0 0 AAFHGVFEKY PEPLIST 0.2720620 1.0059 <= WB 1 HLA-A*01:01 AAGVVTEIK AAGVVTEIK 0 0 0 0 0 AAGVVTEIK PEPLIST 0.0030340 18.4898 1 HLA-A*01:01 AALSQVTLLL ALSQVTLLL 0 1 1 0 0 AALSQVTLLL PEPLIST 0.0054400 13.1840 1 HLA-A*01:01 AALMELLREK AALMELLRK 0 8 1 0 0 AALMELLREK PEPLIST 0.0011490 31.2571 1 HLA-A*01:01 PALNPLVYGVK PALNPLVYK 0 8 2 0 0 PALNPLVYGVK PEPLIST 0.0002830 57.1127 ----------------------------------------------------------------------------------- Protein PEPLIST. Allele HLA-A*01:01. Number of high binders 0. Number of weak binders 1. Number of peptides 5 -----------------------------------------------------------------------------------