Mercurial > repos > bioinformatics_lab_ufsc > epibuilder
view test-data/online-epifinder.txt @ 5:37946f736ac9 draft
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| author | bioinformatics_lab_ufsc |
|---|---|
| date | Thu, 25 Nov 2021 04:25:33 +0000 |
| parents | ef26009cd70a |
| children |
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---- Running Parameters ---- BepiPred-2.0 Threshold : 0.6 Min epitope length : 10 Max epitope length : 30 ---- Softwares Threshold ---- Emini : 0.8 Parker : 0.8 Chou Fosman : 0.8 Karplus Schulz : 0.8 Kolaskar : 0.8 ---- Proteomes ---- Alias File test_proteom /usr/local/bioinfo/stingrayGalaxy/tools/stingray/epifinder/test-data/proteom.fasta ---- Blast ---- Identity : 90.0 Cover : 90.0 Word size : 4 Task blastp-short: blastp-short ---- Stats ---- Processed proteins : 6 NGlycosylated proteins : 0 Identified epitopes : 2 N-glycosylated epitopes: 0 ---- Protein Summary ---- Id Epitopes N-Glyc 4WFF_B 1 0 5BVP_A 0 0 4XAK_A 0 0 4WFF_A 1 0 5C0N_A 0 0 4Z5R_A 0 0 ---- Epitopes list ---- N Id Epitope Start End N-Glyc N-Glyc-Count N-Glyc-Motifs Length MW(kDa) I.P Hydropathy All Matches Cover Avg Cover BepiPred2 Emini Parker Chou Fosman Karplus Schulz Kolaskar test_proteom_count test_proteom_acc test_proteom_count test_proteom_id 1 4WFF_A FLKWHVPPELVRVLSA 149 165 N 0 - 16 1.89 8.75 0.54 0.06 0.58 0.64 0.78 -1.78 0.83 0.96 1.11 2 4WFF_A Chain A of Human TRAAK K+ channel in a K+ bound nonconductive conformation,4WFF_B Chain B of Human TRAAK K+ channel in a K+ bound nonconductive conformation 2 4WFF_B(100.00,100.00),4WFF_A(100.00,100.00) 2 4WFF_B AIFLKWHVPPELVRVLSAML 149 169 N 0 - 20 2.32 8.80 1.03 0.05 0.54 0.64 0.67 -2.18 0.80 0.95 1.11 2 4WFF_A Chain A of Human TRAAK K+ channel in a K+ bound nonconductive conformation,4WFF_B Chain B of Human TRAAK K+ channel in a K+ bound nonconductive conformation 2 4WFF_B(100.00,100.00),4WFF_A(100.00,100.00) ---- Epitopes topology ---- N Id Method Threshold Avg Score Cover Epitope Start End N-Glyc N-Glyc-Count N-Glyc-Motifs Length kDa I.P Avg Hydropathy Avg Cover 1 4WFF_A BepiPred-2.0 0.60 0.64 - FLKWHVPPELVRVLSA 149 165 N 0 - 16 1.89 8.75 0.54 0.58 Emini 0.80 0.78 0.38 ...EEEE.EE...... Parker 0.80 -1.78 0.06 .....E.......... Chou Fosman 0.80 0.83 0.44 ...EEEEEEE...... Karplus Schulz 0.80 0.96 1.00 EEEEEEEEEEEEEEEE Kolaskar 0.80 1.11 1.00 EEEEEEEEEEEEEEEE All matches - - 0.06 .....E.......... N-Glyc - - - ................ Hydropathy - 0.54 - ++---+---++-++-+ 2 4WFF_B BepiPred-2.0 0.60 0.64 - AIFLKWHVPPELVRVLSAML 149 169 N 0 - 20 2.32 8.80 1.03 0.54 Emini 0.80 0.67 0.30 .....EEEE.EE........ Parker 0.80 -2.18 0.05 .......E............ Chou Fosman 0.80 0.80 0.35 .....EEEEEEE........ Karplus Schulz 0.80 0.95 1.00 EEEEEEEEEEEEEEEEEEEE Kolaskar 0.80 1.11 1.00 EEEEEEEEEEEEEEEEEEEE All matches - - 0.05 .......E............ N-Glyc - - - .................... Hydropathy - 1.03 - ++++---+---++-++-+++ Generated files: ./online-epifinder-parameters.txt ./online-epifinder-protein-summary.tsv ./online-epifinder-topology.tsv ./online-epifinder-epitope-detail.tsv ./online-epifinder-scores.tsv ./online-epifinder-epitopes-fasta.fasta