# /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/bin/netMHCpan -f /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file/peptide_19-05-10-05-21-30-87232200.txt -p -a HLA-A01:01 # Fri May 10 13:21:30 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_19-05-10-05-21-30-87232200.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_19-05-10-05-21-30-87232200.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/netMHCpanElGZmN # 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 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 VSDGGPNLY VSDGGPNLY 0 0 0 0 0 VSDGGPNLY PEPLIST 0.9965190 0.0036 <= SB 1 HLA-A*01:01 ISNQEPLKL ISNQEPLKL 0 0 0 0 0 ISNQEPLKL PEPLIST 0.0969770 2.3025 1 HLA-A*01:01 CMLTEFLHY CMLTEFLHY 0 0 0 0 0 CMLTEFLHY PEPLIST 0.1219500 1.9545 <= WB 1 HLA-A*01:01 VSVNNVCHMY VSVNNVHMY 0 6 1 0 0 VSVNNVCHMY PEPLIST 0.4643250 0.5593 <= WB 1 HLA-A*01:01 FTIDFKLKY FTIDFKLKY 0 0 0 0 0 FTIDFKLKY PEPLIST 0.9493210 0.0542 <= SB 1 HLA-A*01:01 DMCDIYLLY DMCDIYLLY 0 0 0 0 0 DMCDIYLLY PEPLIST 0.5797330 0.3900 <= SB 1 HLA-A*01:01 FGDSKEPVPY FGDSEPVPY 0 4 1 0 0 FGDSKEPVPY PEPLIST 0.5761320 0.3939 <= SB 1 HLA-A*01:01 FLSMLNLTKY FSMLNLTKY 0 1 1 0 0 FLSMLNLTKY PEPLIST 0.3591050 0.7571 <= WB 1 HLA-A*01:01 SQSDTVFDY SQSDTVFDY 0 0 0 0 0 SQSDTVFDY PEPLIST 0.3956270 0.6810 <= WB 1 HLA-A*01:01 QSDTVFDYY QSDTVFDYY 0 0 0 0 0 QSDTVFDYY PEPLIST 0.9968480 0.0032 <= SB 1 HLA-A*01:01 QSITRSLIY QSITRSLIY 0 0 0 0 0 QSITRSLIY PEPLIST 0.6370960 0.3281 <= SB 1 HLA-A*01:01 VTDTNKFDNY VTDTNFDNY 0 5 1 0 0 VTDTNKFDNY PEPLIST 0.9872620 0.0163 <= SB 1 HLA-A*01:01 GTHVLLPFY GTHVLLPFY 0 0 0 0 0 GTHVLLPFY PEPLIST 0.4438310 0.5952 <= WB 1 HLA-A*01:01 ITDFNIDTY ITDFNIDTY 0 0 0 0 0 ITDFNIDTY PEPLIST 0.9961200 0.0040 <= SB 1 HLA-A*01:01 ATDALMTGF ATDALMTGF 0 0 0 0 0 ATDALMTGF PEPLIST 0.8328340 0.1540 <= SB ----------------------------------------------------------------------------------- Protein PEPLIST. Allele HLA-A*01:01. Number of high binders 12. Number of weak binders 5. Number of peptides 18 -----------------------------------------------------------------------------------