# STOCKHOLM 1.0
#=GF ID BcKCsr7
#=GF AC RF02884
#=GF DE Burkholderia sRNA 7
#=GF AU Argasinska J; 0000-0003-2678-2824
#=GF GA 59.0
#=GF NC 46.2
#=GF TC 59.1
#=GF SE Argasinska J
#=GF SS Predicted; R-scape;
#=GF TP Gene; sRNA;
#=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 RN [1]
#=GF RM 29099689
#=GF RT Identification of novel small RNAs in Burkholderia cenocepacia KC-01
#=GF RT expressed under iron limitation and oxidative stress conditions.
#=GF RA Ghosh S, Dureja C, Khatri I, Subramanian S, Raychaudhuri S, Ghosh S
#=GF RL Microbiology. 2017; [Epub ahead of print]
#=GF CC Did not show any change in expression in iron-depletion and hydrogen
#=GF CC peroxide (oxidative stress) treatment. Constitutively expressed. Possibly
#=GF CC targets the GTPase, ObgE. 
#=GF WK Burkholderia_cenocepacia
#=GF SQ 5

AM747720.1/2967627-2967793         UUAUGCUUGCGCACAUGAACCGCUUCCUGUCCGCUCUCCGACGUCGCCGCUCGCCGCUCCGCCC-GGAUGCCGCCGGC-UCGUCACGGACUCGCGCGUAA-CCCUCCUCCGCUUCA-UCGG-U--UACGC----ACAAGCUGUUCGACCCAC--CAGCCACGGCCUUCCGUGGCUUUUUU
#=GR AM747720.1/2967627-2967793 PP ***************************************************************9.99***********.*******************98.633222111111111.2222.2..35789....9*****************..**************************
CP000614.1/2842482-2842648         UUAUGCUUGCGCACAUGAACCGCUUCCUGUCCGCUCUCCGACGUCGCCGCUCGCCGCUCCUCCC-GGAUGCCGCCGGC-UCGUCACGGACUCGCGCGUAA-CCCACCUCCGCUUCA-CCGG-U--UACGC----ACAAGCUGUUCGAUCCAC--CAGCCACGGCCUUCCGUGGCUUUUUU
#=GR CP000614.1/2842482-2842648 PP ***************************************************************9.99***********.*******************99.633322111111112.2222.2..35799....9*****************..**************************
BX571965.1/1080004-1079845         UUAUGCUUGCGCACAUGAACCGCUUCCAGUCCGCUCUCCGACGUCGCCGCUCGCCGCUCCGCAC-GGAUGCCGCCGGC-UCGUCACGGACUCGCGCGUAACCGCUUC---------C----CCGUUACGC----AAAAGCUGUUCGAACCAU-CAAGCCACGGCGCCCCGUGGCUUUUUU
#=GR BX571965.1/1080004-1079845 PP *************************************************************999.99***********.*********************9877766.........5....433457899....******************.9**************************
CP001503.2/3240439-3240593         GUAUGCUUGCGC-CAUGAACCGCUUCCUGUCCGCCCUCCGACGCC---GCUCGCCGCUCCUCAU-GGAUGCCGCAGGC-UCGUCACGGACGCACGCGUAACCCCCUC---------C----U-----CGUUACGCCAAGCUGUUCGGACCAC-CAAGCCACGGCAUUCCGUGGCUUUUUU
#=GR CP001503.2/3240439-3240593 PP ************.8***************************9999...667************9.99***********.*********************7533333.........3....3.....43311124799**************.9**************************
CP010026.1/2573029-2572877         GUAUUCUUUCGCGCAUGAACCGCAUUCAAUCCGAACUUCGACGUCGCCGCUCGCCGCUCCCUUAGGGACGCCGCCGGCUUCGUCACGGAUUCGCGCC-----GCACA---------A----G-----GGC----GCAAGCAGUUCGAAUCAUGAAAGCCACGGCAUGCCGUGGCUUUUUU
#=GR CP010026.1/2573029-2572877 PP ******************************************************************************77*****************.....999**.........*....*.....***....**********************************************
#=GC SS_cons                       ::::<<<<-<<<<<----<<----------<<<-----<<<-<<<<<-<<---<__________.>--->>->>->>>.>>>--->>>-->>>>>>>---.------.........-....--..-----....----------->>>>:::.<<<<<<<<<<____>>>>>>>>>>:::
#=GC RF                            uUAUgcuugCGCgCAUGAacCGCuUcCugUCCGcuCUcCGaCGcCGCCGCUCGCCGCUCCucac.GGAuGCCGCcGgC.uCGUCACGGAcgcGcGCGUAA.CcCuuc.........a....uu..UAcGc....acAAGCuGUUCgagcCAu.aaaGCCaCGGCaUuCCGuGGCuuuUUU
//
