# STOCKHOLM 1.0
#=GF ID AS-traI
#=GF AC RF02873
#=GF DE Antisense to traI
#=GF AU Argasinska J; 0000-0003-2678-2824
#=GF GA 99.0
#=GF NC 36.2
#=GF TC 99.9
#=GF SE Argasinska J
#=GF SS Predicted; RNAfold
#=GF TP Gene; antisense;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 2958934 CM SEQDB
#=GF DR SO; 0000370; small_regulatory_ncRNA;
#=GF DR SO; 0000644; antisense_RNA;
#=GF RN [1]
#=GF RM 28854680
#=GF RT The CTX-M-14 plasmid pHK01 encodes novel small RNAs and influences host
#=GF RT growth and motility.
#=GF RA Jiang X, Liu X, Law COK, Wang Y, Lo WU, Weng X, Chan TF, Ho PL, Lau TCK
#=GF RL FEMS Microbiol Ecol. 2017; [Epub ahead of print]
#=GF CC The pHK01 produces plasmid-encoded small RNAs and mediates expression of
#=GF CC host sRNAs. These sRNAs are antisense to genes involved in replication,
#=GF CC conjugate transfer and plasmid stabilisation: AS-repA3 (CopA), AS-traI,
#=GF CC AS-finO, AS-traG, AS-pc02. The overexpression of AS-traI shortened the log
#=GF CC phase of host growth.
#=GF WK Plasmid-mediated_resistance
#=GF SQ 3

CP013026.1/10478-10554   CGGCACGCUGUCCCGACGUUAACAUCUCCAUGAGUUCGCCGGGUACCCUCUCCAUCAGCGGCGUGACCGCCUCCUUA
CP000037.1/105859-105783 CGGCGCGCUGUCCUGAUGUCAGUUUCUCCAUGAGUUCGCCAGGUACUCUCUCCAUCAGCGGCGUGACCGCCUCCUUA
AE006471.2/90198-90122   CGGCACGCUGUCCGGAUGUCAGAGUCUCCAUGAGUUCGCCGGGUACCCUCUCCAUCAGUGGCGUGACCGCCUCCUUG
#=GC SS_cons             <<<<<<<<<<<<<<<-<<--<<<-<<_____>>>>>>>->>>>-------------->>>>>>>>->>>::::::::
#=GC RF                  CGGCaCGCuGuCCcGAcGUcaacauCUCCAUGaguuCgCCgGGUACcCUCUCCAUCAgCgGCGuGACCGCCUCCUUa
//
