Mercurial > repos > iuc > icescreen
diff test-data/NC_004668_137848_164286_detected_ME.summary @ 3:2bb38197ff75 draft
planemo upload for repository https://forgemia.inra.fr/ices_imes_analysis/icescreen commit 29cbe5a71212ff13e8d63e9ea57243fd0aeacbf9
author | iuc |
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date | Tue, 06 Dec 2022 10:40:53 +0000 |
parents | 7c77b2896ac2 |
children | 28e82853c217 |
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--- a/test-data/NC_004668_137848_164286_detected_ME.summary Sat Apr 02 21:05:10 2022 +0000 +++ b/test-data/NC_004668_137848_164286_detected_ME.summary Tue Dec 06 10:40:53 2022 +0000 @@ -1,44 +1,44 @@ -##################### Mobile elements detection statistics ##################### -# Number of complete elements -Complete ICE (4 types of SP): 1 -Complete IME (R+I, R+C+I): 0 - -# Number of complete modules -Conjugation module (R+C+V): 0 -Mobilizable element (R+C with size <= 10 CDS): 0 -# Number of partial elements -Partial ICE (at least V): 0 -Other partial element (R+C, R+V, V+C with size > 10 CDS): 0 +##################### Main parameters of the ICEscreen analysis ##################### +Maximum distance in CDS between consecutive SPs within a segments: 100 +Maximum distance in CDS between consecutive SPs within an IME element: 14 -# Composite elements -Total nested elements (partial or complete): 0 -Host element: 0 -Guest element: 0 -Element that are both host and guest: 0 + +##################### ICEscreen statistics for genome accession NC_004668.1 ##################### -################### Signature proteins detection statistics #################### -# Total SP detected -Total SP: 4 -Total Integrase: 1 -Total Relaxase: 1 -Total Coupling protein: 1 -Total VirB4: 1 +##### Mobile elements ##### +## Number of complete elements +Complete ICE (4 types of SP): 1 +Complete IME (R+I, R+C+I with distance between consecutive SPs <= 14 CDSs): 0 +## Number of complete modules +Conjugation module (R+C+V): 0 +Mobilizable element (R+C with distance between consecutive SPs <= 14 CDS): 0 +## Number of partial elements +Partial ICE (at least V): 0 +Other partial element (R+C, R+V, V+C with distance between consecutive SPs > 14 CDS): 0 +## Composite elements +Total nested elements (partial or complete): 0 +Host element: 0 +Guest element: 0 +Element that are both host and guest: 0 -# Unassigned SP -Unassigned SP: 0 -Unassigned Integrase: 0 -Unassigned Relaxase: 0 -Unassigned Coupling protein: 0 -Unassigned VirB4: 0 +##### Signature proteins ##### +## Total SPs detected +Total SPs: 4 +Total Integrase: 1 +Total Relaxase: 1 +Total Coupling protein: 1 +Total VirB4: 1 +## Unassigned SPs +Unassigned SPs: 0 +Unassigned Integrase: 0 +Unassigned Relaxase: 0 +Unassigned Coupling protein: 0 +Unassigned VirB4: 0 -############################# Segments statistics ############################## -Number of segments: 1 -Segment with one element: 1 -Segment with several elements: 0 -Segment with nested elements: 0 -Segment with no element: 0 +##### Segments ##### +Number of segments with one element: 1 +Number of segments with several elements: 0 +Number of segments with nested elements: 0 +Number of segments with exclusively isolated SPs to manually verify: 0 -############################### Parameters used ################################ -Maximum CDS numbers in initial segments: 100 -Maximum CDS numbers in an IME element: 10