#idx target name accession query name accession clan name mdl mdl from mdl to seq from seq to strand trunc pass gc bias score E-value inc olp anyidx afrct1 afrct2 winidx wfrct1 wfrct2 description of target #--- -------------------- --------- -------------------- --------- --------- --- -------- -------- -------- -------- ------ ----- ---- ---- ----- ------ --------- --- --- ------ ------ ------ ------ ------ ------ --------------------- 1 Sarbecovirus-3UTR RF03125 NC_045512.2 - CL00117 cm 1 335 29536 29870 + no 1 0.40 0.0 415.9 2.1e-124 ! ^ - - - - - - Sarbecovirus 3'UTR 2 Sarbecovirus-5UTR RF03120 NC_045512.2 - CL00116 cm 1 298 1 299 + no 1 0.45 0.0 342.8 6.2e-103 ! ^ - - - - - - Sarbecovirus 5'UTR 3 bCoV-3UTR RF03122 NC_045512.2 - CL00117 cm 1 327 29518 29870 + no 1 0.41 0.0 189.4 1.7e-48 ! = 1 0.949 1.000 " " " Betacoronavirus 3'UTR 4 bCoV-5UTR RF03117 NC_045512.2 - CL00116 cm 1 310 1 299 + no 1 0.45 0.0 158.8 6.1e-40 ! = 2 1.000 1.000 " " " Betacoronavirus 5'UTR 5 Corona_FSE RF00507 NC_045512.2 - - cm 1 82 13469 13550 + no 1 0.54 0.0 80.9 1.6e-16 ! * - - - - - - Coronavirus frameshifting stimulation element 6 s2m RF00164 NC_045512.2 - CL00117 cm 1 43 29727 29769 + no 1 0.56 0.0 55.7 9.1e-11 ! = 1 1.000 0.128 " " " Coronavirus 3' stem-loop II-like motif (s2m) 7 Corona_pk3 RF00165 NC_045512.2 - CL00117 cm 1 61 29603 29662 + no 1 0.35 0.0 55.1 4e-08 ! = 1 1.000 0.179 " " " Coronavirus 3' UTR pseudoknot # # Program: cmscan # Version: 1.1.4 (Dec 2020) # Pipeline mode: SCAN # Query file: virus.fasta # Target file: Rfam.cm # Option settings: cmscan -o data/output-no-oskip.txt --tblout data/table-no-oskip.txt --fmt 2 --cut_ga --rfam --nohmmonly --clanin Rfam.clanin Rfam.cm virus.fasta # Current dir: /home/rfam-user # Date: Mon Apr 19 12:32:51 2021 # [ok]