#FILE	./MSups_5ul.prot.xml
#PROTEIN	Number	Name	Probability	Total peptide counts	Unique peptides	No. indistinguishable proteins	Peptides	Degenerate Proteins	Annotation
# DATABASE	/project/marcotte/marcotte/ms/database/ms_ups2_sp_CON_shuff.fasta
# CUTOFF	PROBABILITY	0.00	FPR	0.129
# CUTOFF	PROBABILITY	0.10	FPR	0.050
# CUTOFF	PROBABILITY	0.20	FPR	0.050
# CUTOFF	PROBABILITY	0.30	FPR	0.050
# CUTOFF	PROBABILITY	0.40	FPR	0.050
# CUTOFF	PROBABILITY	0.50	FPR	0.050
# CUTOFF	PROBABILITY	0.60	FPR	0.038
# CUTOFF	PROBABILITY	0.70	FPR	0.038
# CUTOFF	PROBABILITY	0.80	FPR	0.025
# CUTOFF	PROBABILITY	0.90	FPR	0.008
# CUTOFF	PROBABILITY	0.95	FPR	0.004
# CUTOFF	PROBABILITY	0.96	FPR	0.002
# CUTOFF	PROBABILITY	0.97	FPR	0.002
# CUTOFF	PROBABILITY	0.98	FPR	0.002
# CUTOFF	PROBABILITY	0.99	FPR	0.001
# CUTOFF	PROBABILITY	1.00	FPR	0.000
# UPPER PROB, LOWER PROB, UPPER FPR, LOWER FPR	0.60	0.50	0.050	0.038
# PROBABILITY CUT (0.05 FDR)	0.50
# UPPER PROB, LOWER PROB, UPPER FPR, LOWER FPR	0.60	0.50	0.050	0.038
# PROBABILITY CUT (0.05 FDR)	0.50
# TOTAL NUMBER OF (CONTRIBUTING) PEPTIDE COUNTS	1333
# TOTAL NUMBER OF (CONTRIBUTING) PEPTIDE COUNTS	161
# PROTEIN	Number	Name	Probability	Contributing_spectral_counts	All_unique_peptides	No._indistinguishable_proteins	Peptides	Degenerate Proteins	Annotation
#	PEPTIDE	Protein_Name	PeptideSequence_Charge	Degenerate?	Spectral counts	Contributing?	Adjusted NPS prob	Weight_(degeneracy)
# DATA
PROTEIN	1	RETBP_HUMAN_UPS	0.9313	8	2	1	DPNGLPPEAQK FSGTWYAMAK	RETBP_HUMAN_UPS	P02753ups
PROTEIN	2	CO5_HUMAN_UPS	1.0000	39	2	1	AFTECCVVASQLR CIKAFTECCVVASQLR	CO5_HUMAN_UPS	P01031ups
PROTEIN	3	MYG_HUMAN_UPS	1.0000	18	3	1	DMASNYKELGFQG HGATVLTALGGILK HGATVLTALGGILKK	MYG_HUMAN_UPS	P02144ups
PROTEIN	4	EGF_HUMAN_UPS	0.9357	10	1	1	DLKWWELR	EGF_HUMAN_UPS	P01133ups
PROTEIN	5	HBA_HUMAN_UPS	0.9996	21	3	1	FLASVSTVLTSK MFLSFPTTK VGAHAGEYGAEALER	HBA_HUMAN_UPS	P69905ups
PROTEIN	6	TRFE_HUMAN_UPS	0.8453	1	1	1	PVVAEFYGSKEDPQTFYYAVAVVKK	TRFE_HUMAN_UPS	P02787ups
PROTEIN	7	UBE2C_HUMAN_UPS	0.9517	2	1	1	KYLQETYSKQVTSQEP	UBE2C_HUMAN_UPS	O00762ups
PROTEIN	8	NQO1_HUMAN_UPS	0.9930	4	2	1	IQILEGWK IQILEGWKK	NQO1_HUMAN_UPS	P15559ups
PROTEIN	9	PPIA_HUMAN_UPS	1.0000	25	8	1	FEDENFILK IIPGFMCQGGDFTR ITIADCGQLE KITIADCGQLE TEWLDGKHVVFGK VKEGMNIVEAMER VSFELFADK VSFELFADKVPK	PPIA_HUMAN_UPS	P62937ups
PROTEIN	10	NEDD8_HUMAN_UPS	0.8339	2	1	1	EIEIDIEPTDKVER	NEDD8_HUMAN_UPS	Q15843ups
PROTEIN	11	shuff1_CATA_HUMAN_UPS	1.0000	2	3	1	AHTDVIFSSVNYSAVLDLGNDAGRE AIVGNGETAPHMHLNGINPR VINPGKIIFTDAEEATR	shuff1_CATA_HUMAN_UPS	P04040ups
PROTEIN	12	LYSC_HUMAN_UPS	0.7700	1	1	1	GISLANWMCLAK	LYSC_HUMAN_UPS	P61626ups
PROTEIN	13	shuff1_NQO2_HUMAN_UPS	0.9808	1	1	1	HWADAAQEDFTKKEDIENFQITAK	shuff1_NQO2_HUMAN_UPS	P16083ups
PROTEIN	14	UBC9_HUMAN_UPS	0.7576	3	2	1	GTPWEGGLFK MLFKDDYPSSPPK	UBC9_HUMAN_UPS	P63279ups
PROTEIN	15	KCRM_HUMAN_UPS	1.0000	16	6	1	ELFDPIISDR LNYKPEEEYPDLSK LSVEALNSLTGEFK LSVEALNSLTGEFKGK SFLVWVNEEDHLR TDLNHENLKGGDDLDPNYVLSSR	KCRM_HUMAN_UPS	P06732ups
PROTEIN	16	CAH2_HUMAN_UPS	1.0000	134	9	1	AVQQPDGLAVLGIFLK ILNNGHAFNVEFDDSQDKAVLK LIQFHFHWGSLDGQGSEHTVDK LIQFHFHWGSLDGQGSEHTVDKK QSPVDIDTHTAK SADFTNFDPR YAAELHLVHWNTK YAAELHLVHWNTKYGDFGK YDPSLKPLSVSYDQATSLR	CAH2_HUMAN_UPS	P00918ups
PROTEIN	17	LEP_HUMAN_UPS	1.0000	114	2	1	DLLHVLAFSK NVIQISNDLENLR	LEP_HUMAN_UPS	P41159ups
PROTEIN	18	SUMO1_HUMAN_UPS	1.0000	22	10	1	AEISMLEGAVLDIR DFETLKVDFLSK ERAEISMLEGAVLDIR FLFEGQR IAYSKDFETLKVDFLSK IEAIPQIDKYLK LLLEYLEEK LTQSMAIIR MSPILGYWK RIEAIPQIDKYLK	SUMO1_HUMAN_UPS	P63165ups
PROTEIN	19	BID_HUMAN_UPS	0.9960	5	1	1	NRDLATALEQLLQAYPRDMEK	BID_HUMAN_UPS	P55957ups
PROTEIN	20	HBB_HUMAN_UPS	1.0000	47	7	1	EFTPPVQAAYQK GTFATLSELHCDK KVLGAFSDGLAHLDNLK LLVVYPWTQR SAVTALWGK VNVDEVGGEALGR VVAGVANALAHKYH	HBB_HUMAN_UPS	P68871ups
PROTEIN	21	shuff1_ANT3_HUMAN_UPS	0.8070	4	2	1	TCNSEEVISKK YLPAEFVHVPMYMVR	shuff1_ANT3_HUMAN_UPS	P01008ups
PROTEIN	22	shuff1_KCRM_HUMAN_UPS	0.5743	2	1	1	RLQHTSHNKICK	shuff1_KCRM_HUMAN_UPS	P06732ups
PROTEIN	23	CAH1_HUMAN_UPS	1.0000	258	13	1	ADGLAVIGVLMK EIINVGHSFHVNFEDNDNR EIINVGHSFHVNFEDNDNRSVLK ESISVSSEQLAQFR GGPFSDSYR HDTSLKPISVSYNPATAK LFQFHFHWGSTNEHGSEHTVDGVK LYPIANGNNQSPVDIK LYPIANGNNQSPVDIKTSETK SLLSNVEGDNAVPMQHNNRPTQPLK SLLSNVEGDNAVPMQHNNRPTQPLKGR TSETKHDTSLKPISVSYNPATAK YSAELHVAHWNSAK	CAH1_HUMAN_UPS	P00915ups
PROTEIN	24	SYHC_HUMAN_UPS	1.0000	15	10	1	ASAELIEEEVAK EEVDVRREDLVEEIK HGAEVIDTPVFELK IFSIVEQR ILDGMFAICGVSDSK ISFDLSLAR LVSELWDAGIK RHGAEVIDTPVFELK VFDVIIR VPCVGLSIGVER	SYHC_HUMAN_UPS	P12081ups
PROTEIN	25	CYB5_HUMAN_UPS	1.0000	6	3	1	TFIIGELHPDDR TFIIGELHPDDRPK YYTLEEIQK	CYB5_HUMAN_UPS	P00167ups
PROTEIN	26	shuff1_GELS_HUMAN_UPS	0.9960	1	1	1	IEKDRALELLHGEEPSAEEDLASR	shuff1_GELS_HUMAN_UPS	P06396ups
PROTEIN	27	CATG_HUMAN_UPS	0.9960	1	1	1	AAFKGDSGGPLLCNNVAHGIVSYGK	CATG_HUMAN_UPS	P08311ups
PROTEIN	28	NQO2_HUMAN_UPS	0.9960	1	1	1	VLAPQISFAPEIASEEER	NQO2_HUMAN_UPS	P16083ups
PROTEIN	29	PRDX1_HUMAN_UPS	1.0000	48	12	1	ATAVMPDGQFK ATAVMPDGQFKDISLSDYKGK GLFIIDDK GLFIIDDKGILR KQGGLGPMNIPLVSDPK KQGGLGPMNIPLVSDPKR LVQAFQFTDK QGGLGPMNIPLVSDPK QGGLGPMNIPLVSDPKR QITVNDLPVGR TIAQDYGVLK TIAQDYGVLKADEGISFR	PRDX1_HUMAN_UPS	Q06830ups
PROTEIN	30	CATA_HUMAN_UPS	1.0000	66	17	1	AAQKADVLTTGAGNPVGDKLNVITVGPR ADVLTTGAGNPVGDKLNVITVGPR AFYVNVLNEEQR AFYVNVLNEEQRK DPILFPSFIHSQK DPILFPSFIHSQKR FNTANDDNVTQVR FSTVAGESGSADTVRDPR GAGAFGYFEVTHDITK GAGAFGYFEVTHDITKYSK LCENIAGHLKDAQIFIQK LCENIAGHLKDAQIFIQKK LFAYPDTHR LGPNYLHIPVNCPYR LSQEDPDYGIR NAIHTFVQSGSHLAAR NFTEVHPDYGSHIQALLDK	CATA_HUMAN_UPS	P04040ups
PROTEIN	31	UBIQ_HUMAN_UPS	1.0000	12	3	1	TITLEVEPSDTIENVKAK TLSDYNIQK TLSDYNIQKESTLHLVLR	UBIQ_HUMAN_UPS	P62988ups
PROTEIN	32	GELS_HUMAN_UPS	0.9960	1	1	1	DPDQTDGLGLSYLSSHIANVER	GELS_HUMAN_UPS	P06396ups
PROTEIN	33	ALBU_HUMAN_UPS	1.0000	443	26	1	AACLLPK AEFAEVSKLVTDLTK ATKEQLKAVMDDFAAFVEK AVMDDFAAFVEK CCTESLVNR FKDLGEENFK HPDYSVVLLLR KLVAASQAALGL LKECCEKPLLEK LVAASQAALGL LVNEVTEFAK LVRPEVDVMCTAFHDNEETFLK LVRPEVDVMCTAFHDNEETFLKK PCFSALEVDETYVPK PLVEEPQNLIK QNCELFEQLGEYK QTALVELVK RHPDYSVVLLLR RPCFSALEVDETYVPK SLHTLFGDKLCTVATLR VFDEFKPLVEEPQNLIK VPQVSTPTLVEVSR YKAAFTECCQAADK YKAAFTECCQAADKAACLLPK YLYEIAR YTKKVPQVSTPTLVEVSR	ALBU_HUMAN_UPS	P02768ups