Mercurial > repos > iuc > icescreen

comparison test-data/NC_004668_137848_164286_detected_ME.tsv @ 3:2bb38197ff75 draft

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planemo upload for repository https://forgemia.inra.fr/ices_imes_analysis/icescreen commit 29cbe5a71212ff13e8d63e9ea57243fd0aeacbf9
author iuc
date Tue, 06 Dec 2022 10:40:53 +0000
parents 7c77b2896ac2
children d45c95f382d3
comparison
equal deleted inserted replaced
2:f08181349fc4 3:2bb38197ff75
1 ICE IME Number segment number category of element category of integrase host ICE / IME guest ICE / IME other ICE / IME colocalized ICEline format ICE SuperFamily From Blast Of SP Conj Module ICE Family From Blast Of SP Conj Module IME Family From Blast Of SP Conj Module family SP conj module HMM integrase upstream integrase downstream relaxase coupling protein VirB4 list ordered SPs SPs conj module to manually review Integrase to manually review comment 1 ICE_IME_id Segment_number Genome_accession Category_of_element Category_of_integrase Host_ICE_IME_ids Guest_ICE_IME_ids Colocalized_ICE_IME_ids ICEline_format ICE_consensus_superfamily_SP_conj_module ICE_consensus_family_SP_conj_module IME_relaxase_family_domains_blast HMM_family_SP_conj_module Integrase_upstream Integrase_downstream Relaxase Coupling_protein VirB4 List_SP_ordered_genomic_position Other_potential_SP_conj_module_need_manual_curation_and_review Other_potential_integrase_need_manual_curation_and_review Comments_regarding_structure
2 2 1 Complete ICE (4 types of SP) one integrase - Tyr C3.R1:V7.I Tn916 ICESt3 C:TcpA, R:MOBT, V:VirB4 WP_002392915.1-25273 WP_002359299.1-3098 WP_002359295.1-1 WP_002359320.1-17920 WP_002359295.1-1, WP_002359299.1-3098, WP_002359320.1-17920, WP_002392915.1-25273 Integrase WP_002392915.1-25273 has been associated to the structure 2 because they are adjacent, this integrase has already be seen rattached to this conjugaison module family, and there is no upstream/downstream ambiguity. 2 ID_1 1 NC_004668.1 Complete ICE (C+R+V+I) one integrase Tyr - - - C3.R1:V7.I Tn916 ICESt3 - C:TcpA, R:MOBT, V:VirB4 - EF_RS00760 EF_RS00650 EF_RS00630 EF_RS00720 EF_RS00630, EF_RS00650, EF_RS00720, EF_RS00760 - - Downstream integrase EF_RS00760 has been associated to the structure ID_1 pre-merging because it is adjacent to the conj module and there is no upstream/downstream ambiguity.