#FILE	./MSups_10ul.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	0.211
# CUTOFF	PROBABILITY	0.10	FPR	0.048
# CUTOFF	PROBABILITY	0.20	FPR	0.048
# CUTOFF	PROBABILITY	0.30	FPR	0.048
# CUTOFF	PROBABILITY	0.40	FPR	0.029
# CUTOFF	PROBABILITY	0.50	FPR	0.029
# CUTOFF	PROBABILITY	0.60	FPR	0.029
# CUTOFF	PROBABILITY	0.70	FPR	0.018
# CUTOFF	PROBABILITY	0.80	FPR	0.011
# CUTOFF	PROBABILITY	0.90	FPR	0.011
# CUTOFF	PROBABILITY	0.95	FPR	0.005
# CUTOFF	PROBABILITY	0.96	FPR	0.004
# CUTOFF	PROBABILITY	0.97	FPR	0.004
# CUTOFF	PROBABILITY	0.98	FPR	0.002
# CUTOFF	PROBABILITY	0.99	FPR	0.002
# CUTOFF	PROBABILITY	1.00	FPR	0.000
# UPPER PROB, LOWER PROB, UPPER FPR, LOWER FPR	0.10	0.00	0.211	0.048
# PROBABILITY CUT (0.05 FDR)	0.0987
# UPPER PROB, LOWER PROB, UPPER FPR, LOWER FPR	0.10	0.00	0.211	0.048
# PROBABILITY CUT (0.05 FDR)	0.0987
# TOTAL NUMBER OF (CONTRIBUTING) PEPTIDE COUNTS	1871
# TOTAL NUMBER OF (CONTRIBUTING) PEPTIDE COUNTS	179
# 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	0.9016	17	1	1	FSGTWYAMAK	RETBP_HUMAN_UPS	P02753ups
PROTEIN	2	CO5_HUMAN_UPS	1.0000	41	2	1	AFTECCVVASQLR CIKAFTECCVVASQLR	CO5_HUMAN_UPS	P01031ups
PROTEIN	3	MYG_HUMAN_UPS	1.0000	21	3	1	DMASNYKELGFQG HGATVLTALGGILK HGATVLTALGGILKK	MYG_HUMAN_UPS	P02144ups
PROTEIN	4	EGF_HUMAN_UPS	0.9751	10	1	1	DLKWWELR	EGF_HUMAN_UPS	P01133ups
PROTEIN	5	HBA_HUMAN_UPS	1.0000	18	4	1	FLASVSTVLTSK MFLSFPTTK VADALTNAVAHVDDMPNALSALSDLHAHK VGAHAGEYGAEALER	HBA_HUMAN_UPS	P69905ups
PROTEIN	6	TRFE_HUMAN_UPS	1.0000	3	3	1	MDAKMYLGYEYVTAIRNLR PVVAEFYGSKEDPQTFYYAVAVVK PVVAEFYGSKEDPQTFYYAVAVVKK	TRFE_HUMAN_UPS	P02787ups
PROTEIN	7	UBE2C_HUMAN_UPS	0.9962	1	1	1	KYLQETYSKQVTSQEP	UBE2C_HUMAN_UPS	O00762ups
PROTEIN	8	NQO1_HUMAN_UPS	0.9713	4	2	1	IQILEGWK IQILEGWKK	NQO1_HUMAN_UPS	P15559ups
PROTEIN	9	PPIA_HUMAN_UPS	1.0000	40	9	1	EGMNIVEAMER FEDENFILK IIPGFMCQGGDFTR ITIADCGQLE KITIADCGQLE TEWLDGKHVVFGK VKEGMNIVEAMER VSFELFADK VSFELFADKVPK	PPIA_HUMAN_UPS	P62937ups
PROTEIN	10	shuff1_CATA_HUMAN_UPS	0.9962	2	2	1	AHTDVIFSSVNYSAVLDLGNDAGRE TEHHSNTTYAFKNRR	shuff1_CATA_HUMAN_UPS	P04040ups
PROTEIN	11	shuff1_NQO2_HUMAN_UPS	0.9887	1	2	1	CDSTLEPTVVSNAYGRSPAGAHSPR HWADAAQEDFTKKEDIENFQITAK	shuff1_NQO2_HUMAN_UPS	P16083ups
PROTEIN	12	CRP_HUMAN_UPS	0.9951	1	1	1	GYSIFSYATKRQDNEILIFWSK	CRP_HUMAN_UPS	P02741ups
PROTEIN	13	UBC9_HUMAN_UPS	0.9539	3	2	1	GTPWEGGLFK KDHPFGFVAVPTK	UBC9_HUMAN_UPS	P63279ups
PROTEIN	14	KCRM_HUMAN_UPS	1.0000	17	8	1	ELFDPIISDR LNYKPEEEYPDLSK LSVEALNSLTGEFK LSVEALNSLTGEFKGK RGTGGVDTAAVGSVFDVSNADR SFLVWVNEEDHLR TDLNHENLKGGDDLDPNYVLSSR VLTLELYK	KCRM_HUMAN_UPS	P06732ups
PROTEIN	15	CAH2_HUMAN_UPS	1.0000	224	12	1	AVQQPDGLAVLGIFLK EPISVSSEQVLK GGPLDGTYR HNGPEHWHKDFPIAKGER KLNFNGEGEPEELMVDNWRPAQPLK LIQFHFHWGSLDGQGSEHTVDKK QSPVDIDTHTAK QSPVDIDTHTAKYDPSLKPLSVSYDQATSLR SADFTNFDPR YAAELHLVHWNTK YAAELHLVHWNTKYGDFGK YDPSLKPLSVSYDQATSLR	CAH2_HUMAN_UPS	P00918ups
PROTEIN	16	LEP_HUMAN_UPS	1.0000	153	3	1	DLLHVLAFSK NVIQISNDLENLR QKVTGLDFIPGLHPILTLSK	LEP_HUMAN_UPS	P41159ups
PROTEIN	17	SUMO1_HUMAN_UPS	1.0000	31	10	1	AEISMLEGAVLDIR DFETLKVDFLSK ERAEISMLEGAVLDIR FLFEGQR IAYSKDFETLKVDFLSK IEAIPQIDKYLK LLLEYLEEK LLLEYLEEKYEEHLYER MSPILGYWK RIEAIPQIDKYLK	SUMO1_HUMAN_UPS	P63165ups
PROTEIN	18	shuff1_HBA_HUMAN_UPS	0.9940	1	1	1	DSYVCDKFDLGLHVENALFVTAALGSK	shuff1_HBA_HUMAN_UPS	P69905ups
PROTEIN	19	BID_HUMAN_UPS	0.9962	9	2	1	DECITNLLVFGFLQSCSDNSFRR NRDLATALEQLLQAYPRDMEK	BID_HUMAN_UPS	P55957ups
PROTEIN	20	HBB_HUMAN_UPS	1.0000	41	8	1	EFTPPVQAAYQK GTFATLSELHCDK KVLGAFSDGLAHLDNLK LLGNVLVCVLAHHFGK LLVVYPWTQR SAVTALWGK VHLTPEEKSAVTALWGK VNVDEVGGEALGR	HBB_HUMAN_UPS	P68871ups
PROTEIN	21	UB2E1_HUMAN_UPS	0.9195	1	1	1	ASTSSSSSSSSNQQTEKETNTPKK	UB2E1_HUMAN_UPS	P51965ups
PROTEIN	22	LALBA_HUMAN_UPS	0.7509	2	1	1	ALCTEKLEQWLCEK	LALBA_HUMAN_UPS	P00709ups
PROTEIN	23	shuff1_SYUG_HUMAN_UPS	0.9962	1	1	1	TKMAVGVPPEKSVGDEAFTHGR	shuff1_SYUG_HUMAN_UPS	O76070ups
PROTEIN	24	shuff1_KCRM_HUMAN_UPS	0.9951	1	1	1	IWPRIASSGKEAYELHGSPNVSEGTK	shuff1_KCRM_HUMAN_UPS	P06732ups
PROTEIN	25	CAH1_HUMAN_UPS	1.0000	312	15	1	ADGLAVIGVLMK ADGLAVIGVLMKVGEANPK EIINVGHSFHVNFEDNDNR EIINVGHSFHVNFEDNDNRSVLK ESISVSSEQLAQFR GGPFSDSYR HDTSLKPISVSYNPATAK LFQFHFHWGSTNEHGSEHTVDGVK LYPIANGNNQSPVDIK LYPIANGNNQSPVDIKTSETK SLLSNVEGDNAVPMQHNNR SLLSNVEGDNAVPMQHNNRPTQPLK SLLSNVEGDNAVPMQHNNRPTQPLKGR TSETKHDTSLKPISVSYNPATAK YSAELHVAHWNSAK	CAH1_HUMAN_UPS	P00915ups
PROTEIN	26	SYHC_HUMAN_UPS	1.0000	11	5	1	HGAEVIDTPVFELK IFSIVEQR ILDGMFAICGVSDSK VPCVGLSIGVER YDLTVPFAR	SYHC_HUMAN_UPS	P12081ups
PROTEIN	27	CYB5_HUMAN_UPS	0.3081	1	1	1	YYTLEEIQK	CYB5_HUMAN_UPS	P00167ups
PROTEIN	28	shuff1_LYSC_HUMAN_UPS	0.6337	1	1	1	VVHEWVKANRQQILNVK	shuff1_LYSC_HUMAN_UPS	P61626ups
PROTEIN	29	shuff1_B2MG_HUMAN_UPS	0.9962	1	1	1	VLPNTAYSVLGHYDCSKK	shuff1_B2MG_HUMAN_UPS	P61769ups
PROTEIN	30	NQO2_HUMAN_UPS	0.9962	2	1	1	VLAPQISFAPEIASEEER	NQO2_HUMAN_UPS	P16083ups
PROTEIN	31	PRDX1_HUMAN_UPS	1.0000	46	13	1	ATAVMPDGQFK ATAVMPDGQFKDISLSDYKGK GLFIIDDK KLNCQVIGASVDSHFCHLAWVNTPK KLNCQVIGASVDSHFCHLAWVNTPKK KQGGLGPMNIPLVSDPK KQGGLGPMNIPLVSDPKR LNCQVIGASVDSHFCHLAWVNTPKK LVQAFQFTDK QGGLGPMNIPLVSDPK QGGLGPMNIPLVSDPKR QITVNDLPVGR TIAQDYGVLKADEGISFR	PRDX1_HUMAN_UPS	Q06830ups
PROTEIN	32	CATA_HUMAN_UPS	1.0000	67	17	1	AAQKADVLTTGAGNPVGDKLNVITVGPR ADVLTTGAGNPVGDKLNVITVGPR AFYVNVLNEEQR AFYVNVLNEEQRK DPILFPSFIHSQK DPILFPSFIHSQKR FNTANDDNVTQVR GAGAFGYFEVTHDITK GPLLVQDVVFTDEMAHFDRER LCENIAGHLKDAQIFIQK LCENIAGHLKDAQIFIQKK LFAYPDTHR LGPNYLHIPVNCPYR LSQEDPDYGIR NAIHTFVQSGSHLAAR NFTEVHPDYGSHIQALLDK NFTEVHPDYGSHIQALLDKYNAEKPK	CATA_HUMAN_UPS	P04040ups
PROTEIN	33	UBIQ_HUMAN_UPS	1.0000	15	5	1	QLEDGRTLSDYNIQK QLEDGRTLSDYNIQKESTLHLVLR TITLEVEPSDTIENVKAK TLSDYNIQK TLSDYNIQKESTLHLVLR	UBIQ_HUMAN_UPS	P62988ups
PROTEIN	34	ALBU_HUMAN_UPS	1.0000	772	32	1	AACLLPK ADDKETCFAEEGKK AEFAEVSKLVTDLTK ATKEQLKAVMDDFAAFVEK AVMDDFAAFVEK CCTESLVNR CCTESLVNRRPCFSALEVDETYVPK EQLKAVMDDFAAFVEK HPDYSVVLLLR HPYFYAPELLFFAK HPYFYAPELLFFAKR KLVAASQAALGL LCTVATLR LKECCEKPLLEK LVAASQAALGL LVNEVTEFAK LVRPEVDVMCTAFHDNEETFLK LVRPEVDVMCTAFHDNEETFLKK PCFSALEVDETYVPK PLVEEPQNLIK QNCELFEQLGEYK QTALVELVK RHPDYSVVLLLR RHPYFYAPELLFFAK RPCFSALEVDETYVPK SLHTLFGDKLCTVATLR VFDEFKPLVEEPQNLIK VPQVSTPTLVEVSR YKAAFTECCQAADK YKAAFTECCQAADKAACLLPK YLYEIAR YTKKVPQVSTPTLVEVSR	ALBU_HUMAN_UPS	P02768ups