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0
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1
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2 ---- Running Parameters ----
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3 BepiPred-2.0 Threshold : 0.6
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4 Min epitope length : 10
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5 Max epitope length : 30
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6
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7 ---- Softwares Threshold ----
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8 Emini : 0.8
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9 Parker : 0.8
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10 Chou Fosman : 0.8
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11 Karplus Schulz : 0.8
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12 Kolaskar : 0.8
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13
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14 ---- Proteomes ----
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15 Alias File
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16 test_proteom /usr/local/bioinfo/stingrayGalaxy/tools/stingray/epifinder/test-data/proteom.fasta
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17
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18 ---- Blast ----
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19 Identity : 90.0
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20 Cover : 90.0
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21 Word size : 4
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22 Task blastp-short: blastp-short
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23
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24 ---- Stats ----
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25 Processed proteins : 6
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26 NGlycosylated proteins : 0
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27 Identified epitopes : 2
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28 N-glycosylated epitopes: 0
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29
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30 ---- Protein Summary ----
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31 Id Epitopes N-Glyc
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32 4WFF_B 1 0
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33 5BVP_A 0 0
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34 4XAK_A 0 0
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35 4WFF_A 1 0
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36 5C0N_A 0 0
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37 4Z5R_A 0 0
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38
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39 ---- Epitopes list ----
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40 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
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41 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)
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42 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)
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43
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44 ---- Epitopes topology ----
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45 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
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46 1 4WFF_A BepiPred-2.0 0.60 0.64 - FLKWHVPPELVRVLSA 149 165 N 0 - 16 1.89 8.75 0.54 0.58
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47 Emini 0.80 0.78 0.38 ...EEEE.EE......
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48 Parker 0.80 -1.78 0.06 .....E..........
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49 Chou Fosman 0.80 0.83 0.44 ...EEEEEEE......
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|
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50 Karplus Schulz 0.80 0.96 1.00 EEEEEEEEEEEEEEEE
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51 Kolaskar 0.80 1.11 1.00 EEEEEEEEEEEEEEEE
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|
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52 All matches - - 0.06 .....E..........
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|
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53 N-Glyc - - - ................
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|
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54 Hydropathy - 0.54 - ++---+---++-++-+
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55 2 4WFF_B BepiPred-2.0 0.60 0.64 - AIFLKWHVPPELVRVLSAML 149 169 N 0 - 20 2.32 8.80 1.03 0.54
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56 Emini 0.80 0.67 0.30 .....EEEE.EE........
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57 Parker 0.80 -2.18 0.05 .......E............
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58 Chou Fosman 0.80 0.80 0.35 .....EEEEEEE........
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59 Karplus Schulz 0.80 0.95 1.00 EEEEEEEEEEEEEEEEEEEE
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60 Kolaskar 0.80 1.11 1.00 EEEEEEEEEEEEEEEEEEEE
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|
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61 All matches - - 0.05 .......E............
|
|
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62 N-Glyc - - - ....................
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63 Hydropathy - 1.03 - ++++---+---++-++-+++
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64 Generated files:
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65 ./online-epifinder-parameters.txt
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66 ./online-epifinder-protein-summary.tsv
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67 ./online-epifinder-topology.tsv
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68 ./online-epifinder-epitope-detail.tsv
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69 ./online-epifinder-scores.tsv
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70 ./online-epifinder-epitopes-fasta.fasta |
