# /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/bin/netMHCpan -f /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file/peptide_19-05-09-09-14-59-34965900.txt -p -a HLA-A01:01 # Thu May 9 17:14:59 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/file/peptide_19-05-09-09-14-59-34965900.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/file/peptide_19-05-09-09-14-59-34965900.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/netMHCpanJwjVA4 # 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 ACEDDKLMIY ACDDKLMIY 0 2 1 0 0 ACEDDKLMIY PEPLIST 0.5188310 0.4714 <= SB 1 HLA-A*01:01 ALDLTTSAGY ALDLTTSAY 0 8 1 0 0 ALDLTTSAGY PEPLIST 0.8795670 0.1183 <= SB 1 HLA-A*01:01 YLEKESIYY YLEKESIYY 0 0 0 0 0 YLEKESIYY PEPLIST 0.9848920 0.0187 <= SB 1 HLA-A*01:01 EADPTGHSY EADPTGHSY 0 0 0 0 0 EADPTGHSY PEPLIST 0.9845500 0.0191 <= SB 1 HLA-A*01:01 CTELKLSDY CTELKLSDY 0 0 0 0 0 CTELKLSDY PEPLIST 0.8478190 0.1435 <= SB 1 HLA-A*01:01 AMEKSSKYY AMEKSSKYY 0 0 0 0 0 AMEKSSKYY PEPLIST 0.6693420 0.2947 <= SB ----------------------------------------------------------------------------------- Protein PEPLIST. Allele HLA-A*01:01. Number of high binders 6. Number of weak binders 0. Number of peptides 6 -----------------------------------------------------------------------------------