BLASTP 2.2.22 [Sep-27-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= batch____ (102 letters) Database: uniref50.fasta 3,077,464 sequences; 1,040,396,356 total letters Searching..................................................done Results from round 1 Score E Sequences producing significant alignments: (bits) Value UniRef50_A4W5R3 Protein hfq n=443 Tax=Bacteria RepID=HFQ_ENT38 193 1e-48 UniRef50_A5EVF4 Protein hfq n=1 Tax=Dichelobacter nodosus VCS170... 124 6e-28 UniRef50_Q5F9R5 Protein hfq n=26 Tax=Neisseria RepID=HFQ_NEIG1 122 4e-27 UniRef50_Q14IJ3 Protein hfq n=18 Tax=Francisella RepID=HFQ_FRAT1 114 8e-25 UniRef50_D0ZAP0 RNA-binding protein Hfq n=3 Tax=Gammaproteobacte... 113 2e-24 UniRef50_Q31GP2 Protein hfq n=46 Tax=Proteobacteria RepID=HFQ_THICR 106 2e-22 UniRef50_Q3SIN9 Protein hfq n=19 Tax=cellular organisms RepID=HF... 97 2e-19 UniRef50_C1F408 Protein hfq n=1 Tax=Acidobacterium capsulatum AT... 83 3e-15 UniRef50_B0SBH9 Protein hfq n=17 Tax=Bacteria RepID=HFQ_LEPBA 82 5e-15 UniRef50_Q43971 Protein hfq n=2 Tax=Xanthobacteraceae RepID=HFQ_... 81 8e-15 UniRef50_A9HLS1 Protein hfq n=74 Tax=Proteobacteria RepID=HFQ_GLUDA 80 1e-14 UniRef50_B3PYU7 Protein hfq n=115 Tax=Bacteria RepID=HFQ_RHIE6 80 3e-14 UniRef50_B2V6C4 RNA chaperone Hfq n=4 Tax=Aquificales RepID=B2V6... 79 4e-14 UniRef50_A4XL44 Protein hfq n=6 Tax=Clostridia RepID=HFQ_CALS8 79 4e-14 UniRef50_Q0AYA9 Protein hfq n=6 Tax=Clostridiales RepID=HFQ_SYNWW 79 4e-14 UniRef50_O66512 Protein hfq n=4 Tax=Aquificales RepID=HFQ_AQUAE 79 6e-14 UniRef50_Q67NL2 Protein hfq n=3 Tax=Clostridiales RepID=HFQ_SYMTH 77 2e-13 UniRef50_C9KPY2 RNA chaperone Hfq n=1 Tax=Mitsuokella multacida ... 75 7e-13 UniRef50_Q187T2 Protein hfq n=21 Tax=Clostridia RepID=HFQ_CLOD6 74 2e-12 UniRef50_Q9KAC4 Protein hfq n=3 Tax=Firmicutes RepID=HFQ_BACHD 73 3e-12 UniRef50_B2JKR6 RNA chaperone Hfq n=1 Tax=Burkholderia phymatum ... 72 4e-12 UniRef50_Q140R2 Conserved nucleoprotein, Hfg, host factor I like... 72 7e-12 UniRef50_Q029X0 RNA-binding protein Hfq n=2 Tax=Acidobacteria Re... 71 9e-12 UniRef50_Q5WFY7 Protein hfq n=4 Tax=Firmicutes RepID=HFQ_BACSK 71 9e-12 UniRef50_A8F5B4 Protein hfq n=11 Tax=Thermotogaceae RepID=HFQ_THELT 69 5e-11 UniRef50_A9AK18 RNA chaperone Hfq n=68 Tax=Burkholderia RepID=A9... 69 5e-11 UniRef50_B9KBC4 Protein hfq n=1 Tax=Thermotoga neapolitana DSM 4... 68 1e-10 UniRef50_C5D9J0 Protein hfq n=7 Tax=Bacteria RepID=HFQ_GEOSW 65 6e-10 UniRef50_D2RKG7 RNA chaperone Hfq n=2 Tax=Clostridiales RepID=D2... 62 7e-09 UniRef50_Q3A502 RNA-binding protein Hfq n=11 Tax=Desulfuromonada... 60 3e-08 UniRef50_A0KPP4 Hfq protein n=3 Tax=Aeromonadaceae RepID=A0KPP4_... 59 7e-08 UniRef50_C8W3I4 RNA chaperone Hfq n=1 Tax=Desulfotomaculum aceto... 56 4e-07 UniRef50_B6IY17 Host factor protein n=1 Tax=Rhodospirillum cente... 55 7e-07 UniRef50_D1ZW62 Whole genome shotgun sequence assembly, contig_8... 54 1e-06 UniRef50_C1SNE1 RNA chaperone Hfq n=1 Tax=Denitrovibrio acetiphi... 53 2e-06 UniRef50_Q5HPN7 Host factor-I protein, putative n=64 Tax=Staphyl... 53 3e-06 UniRef50_B4U9V4 RNA chaperone Hfq n=5 Tax=Aquificales RepID=B4U9... 48 1e-04 UniRef50_Q73AM9 Host factor-I protein n=136 Tax=Bacillus RepID=Q... 42 0.007 UniRef50_C3HSH3 Host factor-I protein n=3 Tax=Bacillus cereus gr... 42 0.008 >UniRef50_A4W5R3 Protein hfq n=443 Tax=Bacteria RepID=HFQ_ENT38 Length = 103 Score = 193 bits (491), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 95/103 (92%), Positives = 99/103 (96%), Gaps = 1/103 (0%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS Sbjct: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSA-QQDSEETE 102 TVVPSRPVSHHSNNAGGGT SN+HHGS+AQ +SA QDS+ETE Sbjct: 61 TVVPSRPVSHHSNNAGGGTGSNFHHGSNAQGSSAPAQDSDETE 103 >UniRef50_A5EVF4 Protein hfq n=1 Tax=Dichelobacter nodosus VCS1703A RepID=HFQ_DICNV Length = 106 Score = 124 bits (312), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 56/66 (84%), Positives = 63/66 (95%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 M+K QSLQDP+LNALR+ERVPVSIYLVNGIKLQGQIESFD FVILL+N +SQMVYKHA+S Sbjct: 1 MSKSQSLQDPYLNALRKERVPVSIYLVNGIKLQGQIESFDAFVILLRNNISQMVYKHAVS 60 Query: 61 TVVPSR 66 T+VPSR Sbjct: 61 TIVPSR 66 >UniRef50_Q5F9R5 Protein hfq n=26 Tax=Neisseria RepID=HFQ_NEIG1 Length = 97 Score = 122 bits (305), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 63/100 (63%), Positives = 75/100 (75%), Gaps = 7/100 (7%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT-VSQMVYKHAIS 60 AKGQ LQDPFLNALR+E VPVSIYLVNGIKLQGQ+ESFDQ+V+LL+NT V+QMVYKHAIS Sbjct: 3 AKGQMLQDPFLNALRKEHVPVSIYLVNGIKLQGQVESFDQYVVLLRNTSVTQMVYKHAIS 62 Query: 61 TVVPSRPVS-HHSNNAGGGTSSNYHHGSSAQNTSAQQDSE 99 T+VP+R V+ H N +S Q + QQ +E Sbjct: 63 TIVPARSVNLQHENKPQAAPASTL-----VQVETVQQPAE 97 >UniRef50_Q14IJ3 Protein hfq n=18 Tax=Francisella RepID=HFQ_FRAT1 Length = 109 Score = 114 bits (286), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 58/97 (59%), Positives = 75/97 (77%), Gaps = 10/97 (10%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 M++ SLQDPFLNALR+E+V VS+YLVNGIKLQGQ+E+FDQF I+L+NTV+QMVYKHAIS Sbjct: 1 MSRISSLQDPFLNALRKEKVSVSVYLVNGIKLQGQVEAFDQFCIVLRNTVNQMVYKHAIS 60 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQD 97 T+VP++ V N S N +H QN++ +QD Sbjct: 61 TIVPAKSVRMIYN------SFNPYH----QNSNDEQD 87 >UniRef50_D0ZAP0 RNA-binding protein Hfq n=3 Tax=Gammaproteobacteria RepID=D0ZAP0_EDWTE Length = 76 Score = 113 bits (283), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 59/76 (77%), Positives = 64/76 (84%), Gaps = 3/76 (3%) Query: 27 VNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSNNAGGGTS-SNYHH 85 +NGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHS NAG G++ S+YHH Sbjct: 1 MNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSGNAGTGSAGSSYHH 60 Query: 86 GSSA--QNTSAQQDSE 99 G A Q T D+E Sbjct: 61 GGQAASQPTQGSDDAE 76 >UniRef50_Q31GP2 Protein hfq n=46 Tax=Proteobacteria RepID=HFQ_THICR Length = 89 Score = 106 bits (265), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 44/66 (66%), Positives = 61/66 (92%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 +AK +QDP+LNALR+E++ V+IYLVNG+KLQG+++SFDQFV+LL++ V+QMVYKHAIS Sbjct: 6 VAKALPIQDPYLNALRKEKINVAIYLVNGVKLQGRVDSFDQFVVLLRSNVTQMVYKHAIS 65 Query: 61 TVVPSR 66 T+VP+R Sbjct: 66 TIVPAR 71 >UniRef50_Q3SIN9 Protein hfq n=19 Tax=cellular organisms RepID=HFQ_THIDA Length = 80 Score = 96.7 bits (239), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 47/71 (66%), Positives = 59/71 (83%), Gaps = 3/71 (4%) Query: 1 MAKGQS-LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK--NTVSQMVYKH 57 MAK + LQD FLN LR+ER+PVS++LVNGIKL G+IESFDQFV+LLK + +QM++KH Sbjct: 1 MAKEHNHLQDVFLNTLRKERIPVSVFLVNGIKLMGRIESFDQFVVLLKGQDQAAQMIFKH 60 Query: 58 AISTVVPSRPV 68 AIST+ PSR V Sbjct: 61 AISTISPSREV 71 >UniRef50_C1F408 Protein hfq n=1 Tax=Acidobacterium capsulatum ATCC 51196 RepID=HFQ_ACIC5 Length = 106 Score = 82.8 bits (203), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 37/73 (50%), Positives = 57/73 (78%), Gaps = 1/73 (1%) Query: 5 QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVV 63 Q++QD FLN +R+++ P++IYLV+G+KL G+I SFD++ +LL+ N+ Q+++KHAISTVV Sbjct: 7 QNIQDTFLNTVRKDKTPITIYLVSGVKLTGKIRSFDKYSVLLENNSQEQLIFKHAISTVV 66 Query: 64 PSRPVSHHSNNAG 76 SR V H + G Sbjct: 67 SSRSVLHGDHRPG 79 >UniRef50_B0SBH9 Protein hfq n=17 Tax=Bacteria RepID=HFQ_LEPBA Length = 83 Score = 82.0 bits (201), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 37/82 (45%), Positives = 58/82 (70%), Gaps = 5/82 (6%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M+ ++QD LN R+E++ ++IYL+NG+ L+G++ SFD F I+L+N Q +VYKHAI Sbjct: 1 MSAKNNIQDQLLNTARKEKIDLTIYLLNGVPLKGKVVSFDNFTIILENENKQNLVYKHAI 60 Query: 60 STVVPSRPVSHHS----NNAGG 77 ST++P++P+ HS AGG Sbjct: 61 STIIPAKPIKLHSEETPKEAGG 82 >UniRef50_Q43971 Protein hfq n=2 Tax=Xanthobacteraceae RepID=HFQ_AZOC5 Length = 85 Score = 81.3 bits (199), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 36/67 (53%), Positives = 52/67 (77%), Gaps = 1/67 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIST 61 + Q+LQD FLN +R+ + P++I+LVNG+KLQG + FD F +LL ++ SQ+VYKHAIST Sbjct: 5 RTQNLQDTFLNHVRKSKTPLTIFLVNGVKLQGVVTWFDNFCVLLRRDGHSQLVYKHAIST 64 Query: 62 VVPSRPV 68 ++P PV Sbjct: 65 IMPGHPV 71 >UniRef50_A9HLS1 Protein hfq n=74 Tax=Proteobacteria RepID=HFQ_GLUDA Length = 98 Score = 80.5 bits (197), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 40/71 (56%), Positives = 55/71 (77%), Gaps = 3/71 (4%) Query: 1 MAK--GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKH 57 MAK Q++QD FLN +RR + PV+++LVNG+KLQG I FD F +LL ++ +Q+VYKH Sbjct: 1 MAKEPTQNVQDVFLNHVRRSKTPVTVFLVNGVKLQGIITWFDNFSVLLRRDGHTQLVYKH 60 Query: 58 AISTVVPSRPV 68 AISTV+P+ PV Sbjct: 61 AISTVMPATPV 71 >UniRef50_B3PYU7 Protein hfq n=115 Tax=Bacteria RepID=HFQ_RHIE6 Length = 80 Score = 79.7 bits (195), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 33/67 (49%), Positives = 54/67 (80%), Gaps = 1/67 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIST 61 + Q+LQD FLN +R++++ ++I+L+NG+KL G + SFD F +LL ++ SQ+VYKHAIST Sbjct: 4 RSQNLQDLFLNTVRKQKISLTIFLINGVKLTGVVTSFDNFCVLLRRDGHSQLVYKHAIST 63 Query: 62 VVPSRPV 68 ++P +P+ Sbjct: 64 IMPGQPM 70 >UniRef50_B2V6C4 RNA chaperone Hfq n=4 Tax=Aquificales RepID=B2V6C4_SULSY Length = 85 Score = 79.3 bits (194), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 37/76 (48%), Positives = 53/76 (69%), Gaps = 3/76 (3%) Query: 1 MAKGQS--LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKH 57 MAK + LQ+ FLN +R+E+V +YLVNG+KL+G+I+ FD FVILLK Q +VYKH Sbjct: 1 MAKEKKGRLQEKFLNTIRKEKVRCDVYLVNGVKLEGKIKYFDNFVILLKEGPRQVLVYKH 60 Query: 58 AISTVVPSRPVSHHSN 73 AI+T+ P + + + Sbjct: 61 AITTISPKKEIEFEYD 76 >UniRef50_A4XL44 Protein hfq n=6 Tax=Clostridia RepID=HFQ_CALS8 Length = 99 Score = 79.0 bits (193), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 35/75 (46%), Positives = 59/75 (78%), Gaps = 3/75 (4%) Query: 1 MAKGQ-SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL--KNTVSQMVYKH 57 MAKG +LQD FLN LR+E+V V+I+L++G +L+G I+ FD F +++ +N Q++YKH Sbjct: 1 MAKGNLNLQDLFLNQLRKEKVNVTIFLLSGFQLKGVIKGFDNFTLVVETENNKQQLIYKH 60 Query: 58 AISTVVPSRPVSHHS 72 AIS+++PS+P+++ + Sbjct: 61 AISSILPSKPINYMA 75 >UniRef50_Q0AYA9 Protein hfq n=6 Tax=Clostridiales RepID=HFQ_SYNWW Length = 82 Score = 79.0 bits (193), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 34/71 (47%), Positives = 55/71 (77%), Gaps = 2/71 (2%) Query: 1 MAKGQ-SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHA 58 M+K Q +LQD FLN +R++++PV+++LVNG +++G + FD F ++++ + Q+VYKHA Sbjct: 1 MSKSQINLQDAFLNQVRKDKIPVTVFLVNGFQIKGMVRGFDNFTVIIEVDQKQQLVYKHA 60 Query: 59 ISTVVPSRPVS 69 ISTV P RP+S Sbjct: 61 ISTVAPLRPIS 71 >UniRef50_O66512 Protein hfq n=4 Tax=Aquificales RepID=HFQ_AQUAE Length = 80 Score = 78.6 bits (192), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 38/72 (52%), Positives = 51/72 (70%), Gaps = 1/72 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVP 64 LQ+ FLN R++RV VS+YLVNG++LQG+I SFD F ILL++ Q +VYKHAI+T+VP Sbjct: 4 KLQESFLNTARKKRVKVSVYLVNGVRLQGRIRSFDLFTILLEDGKQQTLVYKHAITTIVP 63 Query: 65 SRPVSHHSNNAG 76 + AG Sbjct: 64 HERLEIEFEEAG 75 >UniRef50_Q67NL2 Protein hfq n=3 Tax=Clostridiales RepID=HFQ_SYMTH Length = 90 Score = 77.0 bits (188), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 35/64 (54%), Positives = 48/64 (75%), Gaps = 1/64 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVP 64 SLQD FLN LRRE +P +IYLVNG +L+G I FD F + ++ + Q+VYKHA+ST+ P Sbjct: 7 SLQDGFLNLLRRENIPATIYLVNGYQLKGYIRGFDNFTVAVEVDGRVQLVYKHALSTITP 66 Query: 65 SRPV 68 +RP+ Sbjct: 67 ARPL 70 >UniRef50_C9KPY2 RNA chaperone Hfq n=1 Tax=Mitsuokella multacida DSM 20544 RepID=C9KPY2_9FIRM Length = 86 Score = 75.1 bits (183), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 33/65 (50%), Positives = 48/65 (73%), Gaps = 1/65 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT-VSQMVYKHAISTVVP 64 +LQD FLN +R+E VPV+I+LVNG +++G + FD F ++L QMVYKHAIST+ P Sbjct: 7 NLQDSFLNQVRKENVPVTIHLVNGFQIKGSVRGFDNFTVVLDVMGKQQMVYKHAISTITP 66 Query: 65 SRPVS 69 + P++ Sbjct: 67 AHPIA 71 >UniRef50_Q187T2 Protein hfq n=21 Tax=Clostridia RepID=HFQ_CLOD6 Length = 86 Score = 73.6 bits (179), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 31/66 (46%), Positives = 51/66 (77%), Gaps = 2/66 (3%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK--NTVSQMVYKHAISTVV 63 +LQD FLN R+ER+PV+IYLVNG++++G ++ FD ++IL++ N M+YKHA+ST+ Sbjct: 7 NLQDLFLNNARKERIPVTIYLVNGVQVKGLVKGFDSYIILIEGDNRQQNMIYKHAVSTIQ 66 Query: 64 PSRPVS 69 P + ++ Sbjct: 67 PGKYIN 72 >UniRef50_Q9KAC4 Protein hfq n=3 Tax=Firmicutes RepID=HFQ_BACHD Length = 78 Score = 73.2 bits (178), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 33/75 (44%), Positives = 50/75 (66%), Gaps = 1/75 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT-VSQMVYKHAI 59 M ++QD FLN LR+E +PV+++L+NG +L+G ++ FD F ++L+ Q+VYKHAI Sbjct: 1 MKSSVNIQDHFLNQLRKENIPVTVFLLNGFQLRGLVKGFDNFTVILETEGKQQLVYKHAI 60 Query: 60 STVVPSRPVSHHSNN 74 ST P R V + N Sbjct: 61 STFAPQRNVQMKTEN 75 >UniRef50_B2JKR6 RNA chaperone Hfq n=1 Tax=Burkholderia phymatum STM815 RepID=B2JKR6_BURP8 Length = 150 Score = 72.4 bits (176), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 40/84 (47%), Positives = 53/84 (63%), Gaps = 4/84 (4%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAISTV---V 63 Q+ F+NA R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIST+ Sbjct: 9 QNDFMNAARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAISTIQLDT 68 Query: 64 PSRPVSHHSNNAGGGTSSNYHHGS 87 SRP + G S+ HGS Sbjct: 69 GSRPAPRAGRPSHGDHSARGPHGS 92 >UniRef50_Q140R2 Conserved nucleoprotein, Hfg, host factor I like protein n=4 Tax=Burkholderia RepID=Q140R2_BURXL Length = 186 Score = 71.6 bits (174), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 41/92 (44%), Positives = 57/92 (61%), Gaps = 5/92 (5%) Query: 1 MAKGQS-LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHA 58 MA +S Q+ F+NA R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK A Sbjct: 1 MASAESHPQNDFMNAARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRA 60 Query: 59 ISTV---VPSRPVSHHSNNAGGGTSSNYHHGS 87 IST+ +RP + G ++ HGS Sbjct: 61 ISTIQLDTGTRPAPRAGRPSHGEHTTRGPHGS 92 >UniRef50_Q029X0 RNA-binding protein Hfq n=2 Tax=Acidobacteria RepID=Q029X0_SOLUE Length = 101 Score = 71.2 bits (173), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 31/73 (42%), Positives = 56/73 (76%), Gaps = 1/73 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTV 62 Q++QD FLN R++++ ++IYL++G+KL G+I+SFD++ ++L+ N Q+++KHAISTV Sbjct: 5 AQNIQDSFLNNARKDKIVLTIYLMSGVKLSGRIKSFDKYSLVLETNNQEQLIFKHAISTV 64 Query: 63 VPSRPVSHHSNNA 75 V + +S+N+ Sbjct: 65 VTQKTAHSYSSNS 77 >UniRef50_Q5WFY7 Protein hfq n=4 Tax=Firmicutes RepID=HFQ_BACSK Length = 77 Score = 71.2 bits (173), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 30/64 (46%), Positives = 48/64 (75%), Gaps = 1/64 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT-VSQMVYKHAISTVVP 64 ++QD FLN LR+E +PV+++L+NG +L+GQ++ FD F ++++ Q+VYKHAIST P Sbjct: 6 NIQDQFLNQLRKESIPVTVFLLNGFQLRGQVKGFDNFTVIVETEGRQQLVYKHAISTFAP 65 Query: 65 SRPV 68 + V Sbjct: 66 QKNV 69 >UniRef50_A8F5B4 Protein hfq n=11 Tax=Thermotogaceae RepID=HFQ_THELT Length = 91 Score = 68.9 bits (167), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 34/69 (49%), Positives = 48/69 (69%), Gaps = 1/69 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M + +LQD FLN LR ++ V +YLVNG + +G I SFD + ILL++ Q ++YKHAI Sbjct: 1 MTEKFNLQDRFLNMLRTGKIEVKVYLVNGFQTKGIIRSFDSYTILLESENQQNLIYKHAI 60 Query: 60 STVVPSRPV 68 ST++PS V Sbjct: 61 STIMPSSFV 69 >UniRef50_A9AK18 RNA chaperone Hfq n=68 Tax=Burkholderia RepID=A9AK18_BURM1 Length = 243 Score = 68.9 bits (167), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 31/56 (55%), Positives = 43/56 (76%), Gaps = 1/56 (1%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAISTV 62 Q+ F+N+ R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIST+ Sbjct: 61 QNDFINSARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAISTI 116 >UniRef50_B9KBC4 Protein hfq n=1 Tax=Thermotoga neapolitana DSM 4359 RepID=B9KBC4_THENN Length = 100 Score = 67.8 bits (164), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 32/66 (48%), Positives = 48/66 (72%), Gaps = 1/66 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 +A+ +LQD FLN LR ++ V +YLVNG + +G I SFD + +LL++ Q ++YKHAI Sbjct: 11 LAEKFNLQDRFLNHLRVNKIEVKVYLVNGFQTKGFIRSFDSYTVLLESGNQQSLIYKHAI 70 Query: 60 STVVPS 65 ST++PS Sbjct: 71 STIIPS 76 >UniRef50_C5D9J0 Protein hfq n=7 Tax=Bacteria RepID=HFQ_GEOSW Length = 74 Score = 65.5 bits (158), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 30/73 (41%), Positives = 47/73 (64%), Gaps = 1/73 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR++ V+++L+NG +L+G I+ FD F +LL+ Q++YKHAI Sbjct: 1 MKNSINIQDQFLNQLRKDGTQVTVFLLNGYQLKGYIKGFDNFTVLLEVQGKQQLIYKHAI 60 Query: 60 STVVPSRPVSHHS 72 ST P + V + Sbjct: 61 STFAPEKNVRFET 73 >UniRef50_D2RKG7 RNA chaperone Hfq n=2 Tax=Clostridiales RepID=D2RKG7_ACIFE Length = 89 Score = 61.6 bits (148), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 43/60 (71%), Gaps = 1/60 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVP 64 +LQD FLN +R E+ + +YL+NG +++G++ FD F ++++ Q++YKHAIST+ P Sbjct: 10 NLQDSFLNRVRSEKKTIVVYLLNGFQVRGRVWGFDNFTVIMECEGKQQLIYKHAISTIAP 69 >UniRef50_Q3A502 RNA-binding protein Hfq n=11 Tax=Desulfuromonadales RepID=Q3A502_PELCD Length = 77 Score = 59.7 bits (143), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 26/59 (44%), Positives = 43/59 (72%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPS 65 +QD +LN R+ERV V+I +++G KL G I+SFD F +L+++ ++YKHAIS++ + Sbjct: 8 IQDQYLNQARKERVRVNIIMMSGEKLDGFIKSFDSFCVLIESKGDLLLYKHAISSITSA 66 >UniRef50_A0KPP4 Hfq protein n=3 Tax=Aeromonadaceae RepID=A0KPP4_AERHH Length = 120 Score = 58.5 bits (140), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 29/58 (50%), Positives = 39/58 (67%), Gaps = 2/58 (3%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT--VSQMVYKHAISTVV 63 QD LN LR+ R V+I+LV+GIKL+G I FDQ+ +LL + Q+VYK IST+ Sbjct: 21 QDSALNWLRKNRSQVAIFLVSGIKLEGTISGFDQYSVLLTDAHGNQQLVYKAKISTIA 78 >UniRef50_C8W3I4 RNA chaperone Hfq n=1 Tax=Desulfotomaculum acetoxidans DSM 771 RepID=C8W3I4_DESAS Length = 85 Score = 55.8 bits (133), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 24/62 (38%), Positives = 44/62 (70%), Gaps = 1/62 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVP 64 S+Q+ L L+ ++ + +YL+NG +L G+++ FD F ++L+ +Q +VYKHAIST++P Sbjct: 19 SVQNKILVQLKEQQASIIVYLINGYRLGGKLKDFDTFTVILEEKETQYIVYKHAISTIIP 78 Query: 65 SR 66 + Sbjct: 79 EK 80 >UniRef50_B6IY17 Host factor protein n=1 Tax=Rhodospirillum centenum SW RepID=B6IY17_RHOCS Length = 117 Score = 55.1 bits (131), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 27/73 (36%), Positives = 46/73 (63%), Gaps = 2/73 (2%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS--QMVYKHA 58 MA ++LQ L+ LR V+++LV G++L G+I + D + + L Q++YKHA Sbjct: 1 MAFSEALQSKVLDVLRTGGTEVTVFLVTGVRLVGRIVAHDAYSLALTGHGGGLQLIYKHA 60 Query: 59 ISTVVPSRPVSHH 71 ++T+VPS P+S + Sbjct: 61 VTTLVPSSPLSLY 73 >UniRef50_D1ZW62 Whole genome shotgun sequence assembly, contig_801 n=1 Tax=Sordaria macrospora RepID=D1ZW62_SORMA Length = 121 Score = 53.9 bits (128), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 24/50 (48%), Positives = 36/50 (72%), Gaps = 1/50 (2%) Query: 24 IYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVPSRPVSHHS 72 ++LV G+KLQG + FD F +LL+ + SQ++YKHAIST++P+ P S Sbjct: 1 MFLVKGVKLQGIVTWFDNFSVLLRRDGQSQLIYKHAISTIMPAGPADLSS 50 Score = 47.4 bits (111), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 20/78 (25%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIS 60 +K LQ+ FLNA GQI +FD F +LL + +SQ+VYKHA+S Sbjct: 60 SKNAPLQEIFLNA-------------------GQIAAFDLFCMLLQREGMSQLVYKHAVS 100 Query: 61 TVVPSRPVSHHSNNAGGG 78 T+ P+ P++ A G Sbjct: 101 TIQPANPLNLAEEQASGA 118 >UniRef50_C1SNE1 RNA chaperone Hfq n=1 Tax=Denitrovibrio acetiphilus DSM 12809 RepID=C1SNE1_9BACT Length = 142 Score = 53.1 bits (126), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 23/59 (38%), Positives = 39/59 (66%), Gaps = 1/59 (1%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVP 64 +QD FLN +R+ R P+ +L+NG+K++G + FD + +L Q+VYK+ +ST+ P Sbjct: 70 MQDIFLNEVRKSRSPIISFLINGVKIRGSLIGFDNYTLLTSFEGRQQLVYKNTVSTIFP 128 >UniRef50_Q5HPN7 Host factor-I protein, putative n=64 Tax=Staphylococcus RepID=Q5HPN7_STAEQ Length = 79 Score = 52.8 bits (125), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 22/62 (35%), Positives = 42/62 (67%), Gaps = 1/62 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M +++QD L + E+ V+I+ +NG +++G +E++D++V+ L + Q ++YKHAI Sbjct: 1 MIANENIQDQALENFKSEKTEVTIFFLNGFQMKGVVENYDKYVVSLNSQGKQHLIYKHAI 60 Query: 60 ST 61 ST Sbjct: 61 ST 62 >UniRef50_B4U9V4 RNA chaperone Hfq n=5 Tax=Aquificales RepID=B4U9V4_HYDS0 Length = 69 Score = 47.8 bits (112), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 22/60 (36%), Positives = 40/60 (66%), Gaps = 1/60 (1%) Query: 5 QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVV 63 ++LQD L + + + V IYL G ++ G++ D++ +LLK ++ + ++YKHAIST+V Sbjct: 3 ENLQDKILEDAKEKGIEVVIYLTRGNRMVGKVLDQDKYTVLLKSDSGTNLIYKHAISTIV 62 >UniRef50_Q73AM9 Host factor-I protein n=136 Tax=Bacillus RepID=Q73AM9_BACC1 Length = 78 Score = 41.6 bits (96), Expect = 0.007, Method: Compositional matrix adjust. Identities = 18/59 (30%), Positives = 40/59 (67%), Gaps = 1/59 (1%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQF-VILLKNTVSQMVYKHAISTVVP 64 LQ+ ++ E+ V+I+L +G+++ G++ + D+F V++L + Q++YK A+ST++ Sbjct: 20 LQEELYKQIKEEKGIVTIFLKSGVRIVGEVVAIDKFTVLMLVDGKQQLIYKQAVSTIMK 78 >UniRef50_C3HSH3 Host factor-I protein n=3 Tax=Bacillus cereus group RepID=C3HSH3_BACTU Length = 61 Score = 41.6 bits (96), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/56 (39%), Positives = 35/56 (62%), Gaps = 1/56 (1%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAISTV 62 Q+ F L V+I+L+NG+++ G I + D+F +L+ + Q +YKHAISTV Sbjct: 4 QEDFYTKLIEANRLVTIFLINGVRVPGIIIAVDKFSVLISSHGKQQFIYKHAISTV 59 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_A4W5R3 Protein hfq n=443 Tax=Bacteria RepID=HFQ_ENT38 155 3e-37 UniRef50_A5EVF4 Protein hfq n=1 Tax=Dichelobacter nodosus VCS170... 121 5e-27 UniRef50_Q14IJ3 Protein hfq n=18 Tax=Francisella RepID=HFQ_FRAT1 119 4e-26 UniRef50_Q5F9R5 Protein hfq n=26 Tax=Neisseria RepID=HFQ_NEIG1 119 4e-26 UniRef50_Q43971 Protein hfq n=2 Tax=Xanthobacteraceae RepID=HFQ_... 116 2e-25 UniRef50_B2JKR6 RNA chaperone Hfq n=1 Tax=Burkholderia phymatum ... 114 7e-25 UniRef50_Q140R2 Conserved nucleoprotein, Hfg, host factor I like... 114 1e-24 UniRef50_A9HLS1 Protein hfq n=74 Tax=Proteobacteria RepID=HFQ_GLUDA 113 2e-24 UniRef50_Q0AYA9 Protein hfq n=6 Tax=Clostridiales RepID=HFQ_SYNWW 112 3e-24 UniRef50_B0SBH9 Protein hfq n=17 Tax=Bacteria RepID=HFQ_LEPBA 112 4e-24 UniRef50_Q9KAC4 Protein hfq n=3 Tax=Firmicutes RepID=HFQ_BACHD 111 5e-24 UniRef50_B3PYU7 Protein hfq n=115 Tax=Bacteria RepID=HFQ_RHIE6 110 1e-23 UniRef50_Q31GP2 Protein hfq n=46 Tax=Proteobacteria RepID=HFQ_THICR 110 1e-23 UniRef50_C5D9J0 Protein hfq n=7 Tax=Bacteria RepID=HFQ_GEOSW 109 3e-23 UniRef50_C1F408 Protein hfq n=1 Tax=Acidobacterium capsulatum AT... 109 4e-23 UniRef50_Q67NL2 Protein hfq n=3 Tax=Clostridiales RepID=HFQ_SYMTH 109 4e-23 UniRef50_Q5WFY7 Protein hfq n=4 Tax=Firmicutes RepID=HFQ_BACSK 107 9e-23 UniRef50_O66512 Protein hfq n=4 Tax=Aquificales RepID=HFQ_AQUAE 107 1e-22 UniRef50_Q3SIN9 Protein hfq n=19 Tax=cellular organisms RepID=HF... 107 1e-22 UniRef50_C9KPY2 RNA chaperone Hfq n=1 Tax=Mitsuokella multacida ... 105 3e-22 UniRef50_B9KBC4 Protein hfq n=1 Tax=Thermotoga neapolitana DSM 4... 104 7e-22 UniRef50_B2V6C4 RNA chaperone Hfq n=4 Tax=Aquificales RepID=B2V6... 104 7e-22 UniRef50_A4XL44 Protein hfq n=6 Tax=Clostridia RepID=HFQ_CALS8 103 2e-21 UniRef50_Q187T2 Protein hfq n=21 Tax=Clostridia RepID=HFQ_CLOD6 103 2e-21 UniRef50_A8F5B4 Protein hfq n=11 Tax=Thermotogaceae RepID=HFQ_THELT 102 3e-21 UniRef50_D2RKG7 RNA chaperone Hfq n=2 Tax=Clostridiales RepID=D2... 101 9e-21 UniRef50_D0ZAP0 RNA-binding protein Hfq n=3 Tax=Gammaproteobacte... 97 2e-19 UniRef50_Q029X0 RNA-binding protein Hfq n=2 Tax=Acidobacteria Re... 96 4e-19 UniRef50_Q3A502 RNA-binding protein Hfq n=11 Tax=Desulfuromonada... 95 7e-19 UniRef50_B6IY17 Host factor protein n=1 Tax=Rhodospirillum cente... 92 5e-18 UniRef50_A9AK18 RNA chaperone Hfq n=68 Tax=Burkholderia RepID=A9... 88 7e-17 UniRef50_C1SNE1 RNA chaperone Hfq n=1 Tax=Denitrovibrio acetiphi... 86 4e-16 UniRef50_C8W3I4 RNA chaperone Hfq n=1 Tax=Desulfotomaculum aceto... 85 8e-16 UniRef50_A0KPP4 Hfq protein n=3 Tax=Aeromonadaceae RepID=A0KPP4_... 82 6e-15 UniRef50_Q5HPN7 Host factor-I protein, putative n=64 Tax=Staphyl... 79 3e-14 UniRef50_B4U9V4 RNA chaperone Hfq n=5 Tax=Aquificales RepID=B4U9... 79 5e-14 UniRef50_D1ZW62 Whole genome shotgun sequence assembly, contig_8... 78 1e-13 Sequences not found previously or not previously below threshold: UniRef50_Q73AM9 Host factor-I protein n=136 Tax=Bacillus RepID=Q... 67 2e-10 UniRef50_C3HSH3 Host factor-I protein n=3 Tax=Bacillus cereus gr... 64 1e-09 UniRef50_B7JTR0 RNA chaperone Hfq n=19 Tax=Bacillus cereus group... 62 6e-09 UniRef50_B7IZ69 Host factor Hfq n=4 Tax=Bacillus cereus group Re... 56 4e-07 UniRef50_C3IB87 Host factor-I protein n=1 Tax=Bacillus thuringie... 56 4e-07 UniRef50_Q1LCL6 Host factor-I protein n=2 Tax=Cupriavidus RepID=... 51 1e-05 UniRef50_Q0JYN3 Putative uncharacterized protein h16_B2359 n=2 T... 45 6e-04 UniRef50_A4V7P6 Putative uncharacterized protein n=1 Tax=Pseudom... 43 0.003 >UniRef50_A4W5R3 Protein hfq n=443 Tax=Bacteria RepID=HFQ_ENT38 Length = 103 Score = 155 bits (393), Expect = 3e-37, Method: Composition-based stats. Identities = 95/103 (92%), Positives = 99/103 (96%), Gaps = 1/103 (0%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS Sbjct: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSA-QQDSEETE 102 TVVPSRPVSHHSNNAGGGT SN+HHGS+AQ +SA QDS+ETE Sbjct: 61 TVVPSRPVSHHSNNAGGGTGSNFHHGSNAQGSSAPAQDSDETE 103 >UniRef50_A5EVF4 Protein hfq n=1 Tax=Dichelobacter nodosus VCS1703A RepID=HFQ_DICNV Length = 106 Score = 121 bits (304), Expect = 5e-27, Method: Composition-based stats. Identities = 61/103 (59%), Positives = 73/103 (70%), Gaps = 6/103 (5%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 M+K QSLQDP+LNALR+ERVPVSIYLVNGIKLQGQIESFD FVILL+N +SQMVYKHA+S Sbjct: 1 MSKSQSLQDPYLNALRKERVPVSIYLVNGIKLQGQIESFDAFVILLRNNISQMVYKHAVS 60 Query: 61 TVVPSRPVSHH------SNNAGGGTSSNYHHGSSAQNTSAQQD 97 T+VPSR + + AG S+ Y + Q + Sbjct: 61 TIVPSRNIHLSREEMGLEDEAGEEISAEYTPNAEGQAEATADP 103 >UniRef50_Q14IJ3 Protein hfq n=18 Tax=Francisella RepID=HFQ_FRAT1 Length = 109 Score = 119 bits (297), Expect = 4e-26, Method: Composition-based stats. Identities = 58/97 (59%), Positives = 75/97 (77%), Gaps = 10/97 (10%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 M++ SLQDPFLNALR+E+V VS+YLVNGIKLQGQ+E+FDQF I+L+NTV+QMVYKHAIS Sbjct: 1 MSRISSLQDPFLNALRKEKVSVSVYLVNGIKLQGQVEAFDQFCIVLRNTVNQMVYKHAIS 60 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQD 97 T+VP++ V N S N +H QN++ +QD Sbjct: 61 TIVPAKSVRMIYN------SFNPYH----QNSNDEQD 87 >UniRef50_Q5F9R5 Protein hfq n=26 Tax=Neisseria RepID=HFQ_NEIG1 Length = 97 Score = 119 bits (297), Expect = 4e-26, Method: Composition-based stats. Identities = 62/100 (62%), Positives = 75/100 (75%), Gaps = 7/100 (7%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAIS 60 AKGQ LQDPFLNALR+E VPVSIYLVNGIKLQGQ+ESFDQ+V+LL+N +V+QMVYKHAIS Sbjct: 3 AKGQMLQDPFLNALRKEHVPVSIYLVNGIKLQGQVESFDQYVVLLRNTSVTQMVYKHAIS 62 Query: 61 TVVPSRPVSH-HSNNAGGGTSSNYHHGSSAQNTSAQQDSE 99 T+VP+R V+ H N +S Q + QQ +E Sbjct: 63 TIVPARSVNLQHENKPQAAPASTL-----VQVETVQQPAE 97 >UniRef50_Q43971 Protein hfq n=2 Tax=Xanthobacteraceae RepID=HFQ_AZOC5 Length = 85 Score = 116 bits (291), Expect = 2e-25, Method: Composition-based stats. Identities = 36/71 (50%), Positives = 52/71 (73%), Gaps = 1/71 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIST 61 + Q+LQD FLN +R+ + P++I+LVNG+KLQG + FD F +LL ++ SQ+VYKHAIST Sbjct: 5 RTQNLQDTFLNHVRKSKTPLTIFLVNGVKLQGVVTWFDNFCVLLRRDGHSQLVYKHAIST 64 Query: 62 VVPSRPVSHHS 72 ++P PV Sbjct: 65 IMPGHPVQLFD 75 >UniRef50_B2JKR6 RNA chaperone Hfq n=1 Tax=Burkholderia phymatum STM815 RepID=B2JKR6_BURP8 Length = 150 Score = 114 bits (286), Expect = 7e-25, Method: Composition-based stats. Identities = 40/91 (43%), Positives = 54/91 (59%), Gaps = 4/91 (4%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAIS 60 + Q+ F+NA R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIS Sbjct: 3 SAESHPQNDFMNAARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAIS 62 Query: 61 TV---VPSRPVSHHSNNAGGGTSSNYHHGSS 88 T+ SRP + G S+ HGS Sbjct: 63 TIQLDTGSRPAPRAGRPSHGDHSARGPHGSR 93 >UniRef50_Q140R2 Conserved nucleoprotein, Hfg, host factor I like protein n=4 Tax=Burkholderia RepID=Q140R2_BURXL Length = 186 Score = 114 bits (284), Expect = 1e-24, Method: Composition-based stats. Identities = 41/93 (44%), Positives = 57/93 (61%), Gaps = 5/93 (5%) Query: 1 MAKGQS-LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHA 58 MA +S Q+ F+NA R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK A Sbjct: 1 MASAESHPQNDFMNAARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRA 60 Query: 59 ISTV---VPSRPVSHHSNNAGGGTSSNYHHGSS 88 IST+ +RP + G ++ HGS Sbjct: 61 ISTIQLDTGTRPAPRAGRPSHGEHTTRGPHGSR 93 >UniRef50_A9HLS1 Protein hfq n=74 Tax=Proteobacteria RepID=HFQ_GLUDA Length = 98 Score = 113 bits (282), Expect = 2e-24, Method: Composition-based stats. Identities = 40/71 (56%), Positives = 55/71 (77%), Gaps = 3/71 (4%) Query: 1 MAKG--QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKH 57 MAK Q++QD FLN +RR + PV+++LVNG+KLQG I FD F +LL ++ +Q+VYKH Sbjct: 1 MAKEPTQNVQDVFLNHVRRSKTPVTVFLVNGVKLQGIITWFDNFSVLLRRDGHTQLVYKH 60 Query: 58 AISTVVPSRPV 68 AISTV+P+ PV Sbjct: 61 AISTVMPATPV 71 >UniRef50_Q0AYA9 Protein hfq n=6 Tax=Clostridiales RepID=HFQ_SYNWW Length = 82 Score = 112 bits (280), Expect = 3e-24, Method: Composition-based stats. Identities = 35/80 (43%), Positives = 57/80 (71%), Gaps = 2/80 (2%) Query: 1 MAKGQ-SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHA 58 M+K Q +LQD FLN +R++++PV+++LVNG +++G + FD F ++++ + Q+VYKHA Sbjct: 1 MSKSQINLQDAFLNQVRKDKIPVTVFLVNGFQIKGMVRGFDNFTVIIEVDQKQQLVYKHA 60 Query: 59 ISTVVPSRPVSHHSNNAGGG 78 ISTV P RP+S + A Sbjct: 61 ISTVAPLRPISMLNLEAKSD 80 >UniRef50_B0SBH9 Protein hfq n=17 Tax=Bacteria RepID=HFQ_LEPBA Length = 83 Score = 112 bits (279), Expect = 4e-24, Method: Composition-based stats. Identities = 34/76 (44%), Positives = 55/76 (72%), Gaps = 1/76 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M+ ++QD LN R+E++ ++IYL+NG+ L+G++ SFD F I+L+N Q +VYKHAI Sbjct: 1 MSAKNNIQDQLLNTARKEKIDLTIYLLNGVPLKGKVVSFDNFTIILENENKQNLVYKHAI 60 Query: 60 STVVPSRPVSHHSNNA 75 ST++P++P+ HS Sbjct: 61 STIIPAKPIKLHSEET 76 >UniRef50_Q9KAC4 Protein hfq n=3 Tax=Firmicutes RepID=HFQ_BACHD Length = 78 Score = 111 bits (278), Expect = 5e-24, Method: Composition-based stats. Identities = 33/75 (44%), Positives = 50/75 (66%), Gaps = 1/75 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR+E +PV+++L+NG +L+G ++ FD F ++L+ Q+VYKHAI Sbjct: 1 MKSSVNIQDHFLNQLRKENIPVTVFLLNGFQLRGLVKGFDNFTVILETEGKQQLVYKHAI 60 Query: 60 STVVPSRPVSHHSNN 74 ST P R V + N Sbjct: 61 STFAPQRNVQMKTEN 75 >UniRef50_B3PYU7 Protein hfq n=115 Tax=Bacteria RepID=HFQ_RHIE6 Length = 80 Score = 110 bits (276), Expect = 1e-23, Method: Composition-based stats. Identities = 33/77 (42%), Positives = 55/77 (71%), Gaps = 1/77 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIST 61 + Q+LQD FLN +R++++ ++I+L+NG+KL G + SFD F +LL ++ SQ+VYKHAIST Sbjct: 4 RSQNLQDLFLNTVRKQKISLTIFLINGVKLTGVVTSFDNFCVLLRRDGHSQLVYKHAIST 63 Query: 62 VVPSRPVSHHSNNAGGG 78 ++P +P+ + Sbjct: 64 IMPGQPMQMFESEEAAS 80 >UniRef50_Q31GP2 Protein hfq n=46 Tax=Proteobacteria RepID=HFQ_THICR Length = 89 Score = 110 bits (275), Expect = 1e-23, Method: Composition-based stats. Identities = 45/76 (59%), Positives = 63/76 (82%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 +AK +QDP+LNALR+E++ V+IYLVNG+KLQG+++SFDQFV+LL++ V+QMVYKHAIS Sbjct: 6 VAKALPIQDPYLNALRKEKINVAIYLVNGVKLQGRVDSFDQFVVLLRSNVTQMVYKHAIS 65 Query: 61 TVVPSRPVSHHSNNAG 76 T+VP+R + A Sbjct: 66 TIVPARDPKAYEFEAQ 81 >UniRef50_C5D9J0 Protein hfq n=7 Tax=Bacteria RepID=HFQ_GEOSW Length = 74 Score = 109 bits (272), Expect = 3e-23, Method: Composition-based stats. Identities = 30/74 (40%), Positives = 47/74 (63%), Gaps = 1/74 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR++ V+++L+NG +L+G I+ FD F +LL+ Q++YKHAI Sbjct: 1 MKNSINIQDQFLNQLRKDGTQVTVFLLNGYQLKGYIKGFDNFTVLLEVQGKQQLIYKHAI 60 Query: 60 STVVPSRPVSHHSN 73 ST P + V + Sbjct: 61 STFAPEKNVRFETE 74 >UniRef50_C1F408 Protein hfq n=1 Tax=Acidobacterium capsulatum ATCC 51196 RepID=HFQ_ACIC5 Length = 106 Score = 109 bits (271), Expect = 4e-23, Method: Composition-based stats. Identities = 38/99 (38%), Positives = 60/99 (60%), Gaps = 1/99 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAISTV 62 Q++QD FLN +R+++ P++IYLV+G+KL G+I SFD++ +LL+N Q+++KHAISTV Sbjct: 6 AQNIQDTFLNTVRKDKTPITIYLVSGVKLTGKIRSFDKYSVLLENNSQEQLIFKHAISTV 65 Query: 63 VPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQDSEET 101 V SR V H + G + + E + Sbjct: 66 VSSRSVLHGDHRPGVAGHGAPPISPTPPAGTHSTPGESS 104 >UniRef50_Q67NL2 Protein hfq n=3 Tax=Clostridiales RepID=HFQ_SYMTH Length = 90 Score = 109 bits (271), Expect = 4e-23, Method: Composition-based stats. Identities = 35/74 (47%), Positives = 49/74 (66%), Gaps = 1/74 (1%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAIS 60 SLQD FLN LRRE +P +IYLVNG +L+G I FD F + ++ + Q+VYKHA+S Sbjct: 3 KASASLQDGFLNLLRRENIPATIYLVNGYQLKGYIRGFDNFTVAVEVDGRVQLVYKHALS 62 Query: 61 TVVPSRPVSHHSNN 74 T+ P+RP+ + Sbjct: 63 TITPARPLPVSVSQ 76 >UniRef50_Q5WFY7 Protein hfq n=4 Tax=Firmicutes RepID=HFQ_BACSK Length = 77 Score = 107 bits (268), Expect = 9e-23, Method: Composition-based stats. Identities = 31/74 (41%), Positives = 50/74 (67%), Gaps = 1/74 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR+E +PV+++L+NG +L+GQ++ FD F ++++ Q+VYKHAI Sbjct: 1 MKATVNIQDQFLNQLRKESIPVTVFLLNGFQLRGQVKGFDNFTVIVETEGRQQLVYKHAI 60 Query: 60 STVVPSRPVSHHSN 73 ST P + V + Sbjct: 61 STFAPQKNVQLKNE 74 >UniRef50_O66512 Protein hfq n=4 Tax=Aquificales RepID=HFQ_AQUAE Length = 80 Score = 107 bits (267), Expect = 1e-22, Method: Composition-based stats. Identities = 38/72 (52%), Positives = 51/72 (70%), Gaps = 1/72 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVP 64 LQ+ FLN R++RV VS+YLVNG++LQG+I SFD F ILL++ Q +VYKHAI+T+VP Sbjct: 4 KLQESFLNTARKKRVKVSVYLVNGVRLQGRIRSFDLFTILLEDGKQQTLVYKHAITTIVP 63 Query: 65 SRPVSHHSNNAG 76 + AG Sbjct: 64 HERLEIEFEEAG 75 >UniRef50_Q3SIN9 Protein hfq n=19 Tax=cellular organisms RepID=HFQ_THIDA Length = 80 Score = 107 bits (267), Expect = 1e-22, Method: Composition-based stats. Identities = 48/78 (61%), Positives = 61/78 (78%), Gaps = 3/78 (3%) Query: 1 MAKGQS-LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK--NTVSQMVYKH 57 MAK + LQD FLN LR+ER+PVS++LVNGIKL G+IESFDQFV+LLK + +QM++KH Sbjct: 1 MAKEHNHLQDVFLNTLRKERIPVSVFLVNGIKLMGRIESFDQFVVLLKGQDQAAQMIFKH 60 Query: 58 AISTVVPSRPVSHHSNNA 75 AIST+ PSR V +A Sbjct: 61 AISTISPSREVVLPQRDA 78 >UniRef50_C9KPY2 RNA chaperone Hfq n=1 Tax=Mitsuokella multacida DSM 20544 RepID=C9KPY2_9FIRM Length = 86 Score = 105 bits (263), Expect = 3e-22, Method: Composition-based stats. Identities = 34/67 (50%), Positives = 48/67 (71%), Gaps = 1/67 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAIST 61 K +LQD FLN +R+E VPV+I+LVNG +++G + FD F ++L QMVYKHAIST Sbjct: 4 KVINLQDSFLNQVRKENVPVTIHLVNGFQIKGSVRGFDNFTVVLDVMGKQQMVYKHAIST 63 Query: 62 VVPSRPV 68 + P+ P+ Sbjct: 64 ITPAHPI 70 >UniRef50_B9KBC4 Protein hfq n=1 Tax=Thermotoga neapolitana DSM 4359 RepID=B9KBC4_THENN Length = 100 Score = 104 bits (260), Expect = 7e-22, Method: Composition-based stats. Identities = 33/75 (44%), Positives = 49/75 (65%), Gaps = 1/75 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 +A+ +LQD FLN LR ++ V +YLVNG + +G I SFD + +LL++ Q ++YKHAI Sbjct: 11 LAEKFNLQDRFLNHLRVNKIEVKVYLVNGFQTKGFIRSFDSYTVLLESGNQQSLIYKHAI 70 Query: 60 STVVPSRPVSHHSNN 74 ST++PS V Sbjct: 71 STIIPSSYVMLMPRK 85 >UniRef50_B2V6C4 RNA chaperone Hfq n=4 Tax=Aquificales RepID=B2V6C4_SULSY Length = 85 Score = 104 bits (260), Expect = 7e-22, Method: Composition-based stats. Identities = 37/77 (48%), Positives = 53/77 (68%), Gaps = 3/77 (3%) Query: 1 MAKGQS--LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKH 57 MAK + LQ+ FLN +R+E+V +YLVNG+KL+G+I+ FD FVILLK Q +VYKH Sbjct: 1 MAKEKKGRLQEKFLNTIRKEKVRCDVYLVNGVKLEGKIKYFDNFVILLKEGPRQVLVYKH 60 Query: 58 AISTVVPSRPVSHHSNN 74 AI+T+ P + + + Sbjct: 61 AITTISPKKEIEFEYDQ 77 >UniRef50_A4XL44 Protein hfq n=6 Tax=Clostridia RepID=HFQ_CALS8 Length = 99 Score = 103 bits (257), Expect = 2e-21, Method: Composition-based stats. Identities = 35/76 (46%), Positives = 59/76 (77%), Gaps = 3/76 (3%) Query: 1 MAKGQ-SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL--KNTVSQMVYKH 57 MAKG +LQD FLN LR+E+V V+I+L++G +L+G I+ FD F +++ +N Q++YKH Sbjct: 1 MAKGNLNLQDLFLNQLRKEKVNVTIFLLSGFQLKGVIKGFDNFTLVVETENNKQQLIYKH 60 Query: 58 AISTVVPSRPVSHHSN 73 AIS+++PS+P+++ + Sbjct: 61 AISSILPSKPINYMAQ 76 >UniRef50_Q187T2 Protein hfq n=21 Tax=Clostridia RepID=HFQ_CLOD6 Length = 86 Score = 103 bits (256), Expect = 2e-21, Method: Composition-based stats. Identities = 31/67 (46%), Positives = 51/67 (76%), Gaps = 2/67 (2%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK--NTVSQMVYKHAISTVV 63 +LQD FLN R+ER+PV+IYLVNG++++G ++ FD ++IL++ N M+YKHA+ST+ Sbjct: 7 NLQDLFLNNARKERIPVTIYLVNGVQVKGLVKGFDSYIILIEGDNRQQNMIYKHAVSTIQ 66 Query: 64 PSRPVSH 70 P + ++ Sbjct: 67 PGKYINL 73 >UniRef50_A8F5B4 Protein hfq n=11 Tax=Thermotogaceae RepID=HFQ_THELT Length = 91 Score = 102 bits (255), Expect = 3e-21, Method: Composition-based stats. Identities = 34/71 (47%), Positives = 48/71 (67%), Gaps = 1/71 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M + +LQD FLN LR ++ V +YLVNG + +G I SFD + ILL++ Q ++YKHAI Sbjct: 1 MTEKFNLQDRFLNMLRTGKIEVKVYLVNGFQTKGIIRSFDSYTILLESENQQNLIYKHAI 60 Query: 60 STVVPSRPVSH 70 ST++PS V Sbjct: 61 STIMPSSFVRL 71 >UniRef50_D2RKG7 RNA chaperone Hfq n=2 Tax=Clostridiales RepID=D2RKG7_ACIFE Length = 89 Score = 101 bits (251), Expect = 9e-21, Method: Composition-based stats. Identities = 26/63 (41%), Positives = 44/63 (69%), Gaps = 1/63 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAIST 61 K +LQD FLN +R E+ + +YL+NG +++G++ FD F ++++ Q++YKHAIST Sbjct: 7 KPLNLQDSFLNRVRSEKKTIVVYLLNGFQVRGRVWGFDNFTVIMECEGKQQLIYKHAIST 66 Query: 62 VVP 64 + P Sbjct: 67 IAP 69 >UniRef50_D0ZAP0 RNA-binding protein Hfq n=3 Tax=Gammaproteobacteria RepID=D0ZAP0_EDWTE Length = 76 Score = 96.7 bits (239), Expect = 2e-19, Method: Composition-based stats. Identities = 59/76 (77%), Positives = 64/76 (84%), Gaps = 3/76 (3%) Query: 27 VNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSNNAGGGTS-SNYHH 85 +NGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHS NAG G++ S+YHH Sbjct: 1 MNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSGNAGTGSAGSSYHH 60 Query: 86 GSSA--QNTSAQQDSE 99 G A Q T D+E Sbjct: 61 GGQAASQPTQGSDDAE 76 >UniRef50_Q029X0 RNA-binding protein Hfq n=2 Tax=Acidobacteria RepID=Q029X0_SOLUE Length = 101 Score = 95.5 bits (236), Expect = 4e-19, Method: Composition-based stats. Identities = 30/73 (41%), Positives = 55/73 (75%), Gaps = 1/73 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAISTV 62 Q++QD FLN R++++ ++IYL++G+KL G+I+SFD++ ++L+ Q+++KHAISTV Sbjct: 5 AQNIQDSFLNNARKDKIVLTIYLMSGVKLSGRIKSFDKYSLVLETNNQEQLIFKHAISTV 64 Query: 63 VPSRPVSHHSNNA 75 V + +S+N+ Sbjct: 65 VTQKTAHSYSSNS 77 >UniRef50_Q3A502 RNA-binding protein Hfq n=11 Tax=Desulfuromonadales RepID=Q3A502_PELCD Length = 77 Score = 94.7 bits (234), Expect = 7e-19, Method: Composition-based stats. Identities = 28/66 (42%), Positives = 47/66 (71%), Gaps = 1/66 (1%) Query: 1 MAKG-QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAI 59 M+K ++QD +LN R+ERV V+I +++G KL G I+SFD F +L+++ ++YKHAI Sbjct: 1 MSKTPFNIQDQYLNQARKERVRVNIIMMSGEKLDGFIKSFDSFCVLIESKGDLLLYKHAI 60 Query: 60 STVVPS 65 S++ + Sbjct: 61 SSITSA 66 >UniRef50_B6IY17 Host factor protein n=1 Tax=Rhodospirillum centenum SW RepID=B6IY17_RHOCS Length = 117 Score = 92.1 bits (227), Expect = 5e-18, Method: Composition-based stats. Identities = 27/78 (34%), Positives = 48/78 (61%), Gaps = 2/78 (2%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS--QMVYKHA 58 MA ++LQ L+ LR V+++LV G++L G+I + D + + L Q++YKHA Sbjct: 1 MAFSEALQSKVLDVLRTGGTEVTVFLVTGVRLVGRIVAHDAYSLALTGHGGGLQLIYKHA 60 Query: 59 ISTVVPSRPVSHHSNNAG 76 ++T+VPS P+S + ++ Sbjct: 61 VTTLVPSSPLSLYDPSSS 78 >UniRef50_A9AK18 RNA chaperone Hfq n=68 Tax=Burkholderia RepID=A9AK18_BURM1 Length = 243 Score = 88.2 bits (217), Expect = 7e-17, Method: Composition-based stats. Identities = 31/61 (50%), Positives = 43/61 (70%), Gaps = 1/61 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAIST 61 Q+ F+N+ R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIST Sbjct: 56 AESHPQNDFINSARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAIST 115 Query: 62 V 62 + Sbjct: 116 I 116 >UniRef50_C1SNE1 RNA chaperone Hfq n=1 Tax=Denitrovibrio acetiphilus DSM 12809 RepID=C1SNE1_9BACT Length = 142 Score = 85.5 bits (210), Expect = 4e-16, Method: Composition-based stats. Identities = 23/60 (38%), Positives = 39/60 (65%), Gaps = 1/60 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVP 64 +QD FLN +R+ R P+ +L+NG+K++G + FD + +L Q+VYK+ +ST+ P Sbjct: 69 PMQDIFLNEVRKSRSPIISFLINGVKIRGSLIGFDNYTLLTSFEGRQQLVYKNTVSTIFP 128 >UniRef50_C8W3I4 RNA chaperone Hfq n=1 Tax=Desulfotomaculum acetoxidans DSM 771 RepID=C8W3I4_DESAS Length = 85 Score = 84.7 bits (208), Expect = 8e-16, Method: Composition-based stats. Identities = 24/62 (38%), Positives = 44/62 (70%), Gaps = 1/62 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVP 64 S+Q+ L L+ ++ + +YL+NG +L G+++ FD F ++L+ +Q +VYKHAIST++P Sbjct: 19 SVQNKILVQLKEQQASIIVYLINGYRLGGKLKDFDTFTVILEEKETQYIVYKHAISTIIP 78 Query: 65 SR 66 + Sbjct: 79 EK 80 >UniRef50_A0KPP4 Hfq protein n=3 Tax=Aeromonadaceae RepID=A0KPP4_AERHH Length = 120 Score = 81.7 bits (200), Expect = 6e-15, Method: Composition-based stats. Identities = 36/95 (37%), Positives = 51/95 (53%), Gaps = 5/95 (5%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN--TVSQMVYKHAISTVV 63 + QD LN LR+ R V+I+LV+GIKL+G I FDQ+ +LL + Q+VYK IST+ Sbjct: 19 NGQDSALNWLRKNRSQVAIFLVSGIKLEGTISGFDQYSVLLTDAHGNQQLVYKAKISTIA 78 Query: 64 --PSRP-VSHHSNNAGGGTSSNYHHGSSAQNTSAQ 95 RP VS + + HG+ + Q Sbjct: 79 MHSGRPQVSIQRARKPRVSMAPRPHGAPGRYDDNQ 113 >UniRef50_Q5HPN7 Host factor-I protein, putative n=64 Tax=Staphylococcus RepID=Q5HPN7_STAEQ Length = 79 Score = 79.3 bits (194), Expect = 3e-14, Method: Composition-based stats. Identities = 22/64 (34%), Positives = 42/64 (65%), Gaps = 1/64 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M +++QD L + E+ V+I+ +NG +++G +E++D++V+ L + Q ++YKHAI Sbjct: 1 MIANENIQDQALENFKSEKTEVTIFFLNGFQMKGVVENYDKYVVSLNSQGKQHLIYKHAI 60 Query: 60 STVV 63 ST Sbjct: 61 STFT 64 >UniRef50_B4U9V4 RNA chaperone Hfq n=5 Tax=Aquificales RepID=B4U9V4_HYDS0 Length = 69 Score = 79.0 bits (193), Expect = 5e-14, Method: Composition-based stats. Identities = 22/61 (36%), Positives = 40/61 (65%), Gaps = 1/61 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTV 62 ++LQD L + + + V IYL G ++ G++ D++ +LLK ++ + ++YKHAIST+ Sbjct: 2 TENLQDKILEDAKEKGIEVVIYLTRGNRMVGKVLDQDKYTVLLKSDSGTNLIYKHAISTI 61 Query: 63 V 63 V Sbjct: 62 V 62 >UniRef50_D1ZW62 Whole genome shotgun sequence assembly, contig_801 n=1 Tax=Sordaria macrospora RepID=D1ZW62_SORMA Length = 121 Score = 77.8 bits (190), Expect = 1e-13, Method: Composition-based stats. Identities = 24/50 (48%), Positives = 36/50 (72%), Gaps = 1/50 (2%) Query: 24 IYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVPSRPVSHHS 72 ++LV G+KLQG + FD F +LL+ + SQ++YKHAIST++P+ P S Sbjct: 1 MFLVKGVKLQGIVTWFDNFSVLLRRDGQSQLIYKHAISTIMPAGPADLSS 50 Score = 66.2 bits (160), Expect = 3e-10, Method: Composition-based stats. Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 20/78 (25%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIS 60 +K LQ+ FLNA GQI +FD F +LL + +SQ+VYKHA+S Sbjct: 60 SKNAPLQEIFLNA-------------------GQIAAFDLFCMLLQREGMSQLVYKHAVS 100 Query: 61 TVVPSRPVSHHSNNAGGG 78 T+ P+ P++ A G Sbjct: 101 TIQPANPLNLAEEQASGA 118 >UniRef50_Q73AM9 Host factor-I protein n=136 Tax=Bacillus RepID=Q73AM9_BACC1 Length = 78 Score = 66.6 bits (161), Expect = 2e-10, Method: Composition-based stats. Identities = 18/60 (30%), Positives = 40/60 (66%), Gaps = 1/60 (1%) Query: 5 QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVIL-LKNTVSQMVYKHAISTVV 63 + LQ+ ++ E+ V+I+L +G+++ G++ + D+F +L L + Q++YK A+ST++ Sbjct: 18 EHLQEELYKQIKEEKGIVTIFLKSGVRIVGEVVAIDKFTVLMLVDGKQQLIYKQAVSTIM 77 >UniRef50_C3HSH3 Host factor-I protein n=3 Tax=Bacillus cereus group RepID=C3HSH3_BACTU Length = 61 Score = 63.9 bits (154), Expect = 1e-09, Method: Composition-based stats. Identities = 22/57 (38%), Positives = 35/57 (61%), Gaps = 1/57 (1%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAISTVV 63 Q+ F L V+I+L+NG+++ G I + D+F +L+ + Q +YKHAISTV Sbjct: 4 QEDFYTKLIEANRLVTIFLINGVRVPGIIIAVDKFSVLISSHGKQQFIYKHAISTVS 60 >UniRef50_B7JTR0 RNA chaperone Hfq n=19 Tax=Bacillus cereus group RepID=B7JTR0_BACC0 Length = 77 Score = 62.0 bits (149), Expect = 6e-09, Method: Composition-based stats. Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 1/56 (1%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTV 62 Q+ L ++R + + L+ G+ ++G I +D F IL++ Q+VYKHAIST+ Sbjct: 20 QEYLLQEAFQKRKNIMLILLKGLHIKGIIRGYDIFSILIEYEGKQQLVYKHAISTI 75 >UniRef50_B7IZ69 Host factor Hfq n=4 Tax=Bacillus cereus group RepID=B7IZ69_BACC2 Length = 83 Score = 55.8 bits (133), Expect = 4e-07, Method: Composition-based stats. Identities = 19/74 (25%), Positives = 38/74 (51%), Gaps = 14/74 (18%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT------------- 49 Q++Q+ + ++ + V+ L NG +++G+I ++D F IL+ Sbjct: 2 ANQTVQNKVIENVKGKNSKVNFILNNGFRIEGKIVAYDDFCILVSTKAPSNEKQIGDKQV 61 Query: 50 -VSQMVYKHAISTV 62 +Q++YKH IST+ Sbjct: 62 FQNQLIYKHNISTI 75 >UniRef50_C3IB87 Host factor-I protein n=1 Tax=Bacillus thuringiensis IBL 200 RepID=C3IB87_BACTU Length = 72 Score = 55.8 bits (133), Expect = 4e-07, Method: Composition-based stats. Identities = 17/58 (29%), Positives = 37/58 (63%), Gaps = 1/58 (1%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVI-LLKNTVSQMVYKHAISTVV 63 +Q+ L ++ V+I+L +G+ ++G+I S D+F + ++ Q+V+K A+ST++ Sbjct: 14 IQEDMYKELIDKKRTVTIFLKSGVLIRGKILSTDKFTVFMMVQGKQQLVFKQALSTII 71 >UniRef50_Q1LCL6 Host factor-I protein n=2 Tax=Cupriavidus RepID=Q1LCL6_RALME Length = 106 Score = 50.8 bits (120), Expect = 1e-05, Method: Composition-based stats. Identities = 16/53 (30%), Positives = 30/53 (56%), Gaps = 4/53 (7%) Query: 18 ERVPVSIYLVNGIKLQGQIESFDQFVILL----KNTVSQMVYKHAISTVVPSR 66 R V ++L NG +L G + + D +++LL ++ ++YK AI+ V P+ Sbjct: 25 SRNAVIVHLSNGTRLTGVVLASDNYMVLLGQSAEDPTPTLIYKRAITVVTPAH 77 >UniRef50_Q0JYN3 Putative uncharacterized protein h16_B2359 n=2 Tax=Cupriavidus RepID=Q0JYN3_RALEH Length = 108 Score = 45.4 bits (106), Expect = 6e-04, Method: Composition-based stats. Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 4/61 (6%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL----KNTVSQMVYKHAISTV 62 LQ A R + PV ++L G +LQG + + D +V+LL + +VYK AI V Sbjct: 16 LQHQQFAAYRTSQAPVIVHLATGARLQGLVLASDDYVVLLGRQPDDIRPTVVYKRAICLV 75 Query: 63 V 63 Sbjct: 76 T 76 >UniRef50_A4V7P6 Putative uncharacterized protein n=1 Tax=Pseudomonas fluorescens SBW25 RepID=A4V7P6_PSEFS Length = 188 Score = 43.1 bits (100), Expect = 0.003, Method: Composition-based stats. Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 5/68 (7%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTV 62 + + QD FL+ +R + + +YL +G LQG+I D+ ILL T + + K + Sbjct: 26 RSTNEQDRFLDYCQRNEILIKVYLDSGRALQGKIVDHDRKCILLGATRVEKIPK-----M 80 Query: 63 VPSRPVSH 70 +P ++ Sbjct: 81 IPKSYIAL 88 Searching..................................................done Results from round 3 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_A4W5R3 Protein hfq n=443 Tax=Bacteria RepID=HFQ_ENT38 141 5e-33 UniRef50_A5EVF4 Protein hfq n=1 Tax=Dichelobacter nodosus VCS170... 129 3e-29 UniRef50_C1F408 Protein hfq n=1 Tax=Acidobacterium capsulatum AT... 124 8e-28 UniRef50_Q43971 Protein hfq n=2 Tax=Xanthobacteraceae RepID=HFQ_... 119 4e-26 UniRef50_A9HLS1 Protein hfq n=74 Tax=Proteobacteria RepID=HFQ_GLUDA 115 3e-25 UniRef50_Q0AYA9 Protein hfq n=6 Tax=Clostridiales RepID=HFQ_SYNWW 114 8e-25 UniRef50_Q9KAC4 Protein hfq n=3 Tax=Firmicutes RepID=HFQ_BACHD 114 1e-24 UniRef50_Q14IJ3 Protein hfq n=18 Tax=Francisella RepID=HFQ_FRAT1 113 1e-24 UniRef50_B3PYU7 Protein hfq n=115 Tax=Bacteria RepID=HFQ_RHIE6 113 2e-24 UniRef50_B2JKR6 RNA chaperone Hfq n=1 Tax=Burkholderia phymatum ... 112 3e-24 UniRef50_B0SBH9 Protein hfq n=17 Tax=Bacteria RepID=HFQ_LEPBA 112 3e-24 UniRef50_Q5F9R5 Protein hfq n=26 Tax=Neisseria RepID=HFQ_NEIG1 112 3e-24 UniRef50_Q5WFY7 Protein hfq n=4 Tax=Firmicutes RepID=HFQ_BACSK 110 9e-24 UniRef50_Q31GP2 Protein hfq n=46 Tax=Proteobacteria RepID=HFQ_THICR 110 1e-23 UniRef50_C5D9J0 Protein hfq n=7 Tax=Bacteria RepID=HFQ_GEOSW 110 2e-23 UniRef50_Q140R2 Conserved nucleoprotein, Hfg, host factor I like... 109 3e-23 UniRef50_Q67NL2 Protein hfq n=3 Tax=Clostridiales RepID=HFQ_SYMTH 107 1e-22 UniRef50_C9KPY2 RNA chaperone Hfq n=1 Tax=Mitsuokella multacida ... 107 1e-22 UniRef50_O66512 Protein hfq n=4 Tax=Aquificales RepID=HFQ_AQUAE 107 1e-22 UniRef50_Q3SIN9 Protein hfq n=19 Tax=cellular organisms RepID=HF... 107 1e-22 UniRef50_B9KBC4 Protein hfq n=1 Tax=Thermotoga neapolitana DSM 4... 106 2e-22 UniRef50_A8F5B4 Protein hfq n=11 Tax=Thermotogaceae RepID=HFQ_THELT 103 2e-21 UniRef50_B2V6C4 RNA chaperone Hfq n=4 Tax=Aquificales RepID=B2V6... 103 2e-21 UniRef50_D2RKG7 RNA chaperone Hfq n=2 Tax=Clostridiales RepID=D2... 102 3e-21 UniRef50_A4XL44 Protein hfq n=6 Tax=Clostridia RepID=HFQ_CALS8 102 3e-21 UniRef50_Q187T2 Protein hfq n=21 Tax=Clostridia RepID=HFQ_CLOD6 102 5e-21 UniRef50_A0KPP4 Hfq protein n=3 Tax=Aeromonadaceae RepID=A0KPP4_... 100 1e-20 UniRef50_Q3A502 RNA-binding protein Hfq n=11 Tax=Desulfuromonada... 96 5e-19 UniRef50_B6IY17 Host factor protein n=1 Tax=Rhodospirillum cente... 94 2e-18 UniRef50_Q029X0 RNA-binding protein Hfq n=2 Tax=Acidobacteria Re... 93 2e-18 UniRef50_D0ZAP0 RNA-binding protein Hfq n=3 Tax=Gammaproteobacte... 89 5e-17 UniRef50_A9AK18 RNA chaperone Hfq n=68 Tax=Burkholderia RepID=A9... 89 6e-17 UniRef50_C1SNE1 RNA chaperone Hfq n=1 Tax=Denitrovibrio acetiphi... 86 3e-16 UniRef50_C8W3I4 RNA chaperone Hfq n=1 Tax=Desulfotomaculum aceto... 84 2e-15 UniRef50_Q5HPN7 Host factor-I protein, putative n=64 Tax=Staphyl... 83 3e-15 UniRef50_Q73AM9 Host factor-I protein n=136 Tax=Bacillus RepID=Q... 80 2e-14 UniRef50_B4U9V4 RNA chaperone Hfq n=5 Tax=Aquificales RepID=B4U9... 80 2e-14 UniRef50_D1ZW62 Whole genome shotgun sequence assembly, contig_8... 79 5e-14 UniRef50_C3HSH3 Host factor-I protein n=3 Tax=Bacillus cereus gr... 77 2e-13 UniRef50_C3IB87 Host factor-I protein n=1 Tax=Bacillus thuringie... 73 3e-12 UniRef50_B7JTR0 RNA chaperone Hfq n=19 Tax=Bacillus cereus group... 72 6e-12 UniRef50_Q1LCL6 Host factor-I protein n=2 Tax=Cupriavidus RepID=... 67 2e-10 UniRef50_B7IZ69 Host factor Hfq n=4 Tax=Bacillus cereus group Re... 67 2e-10 UniRef50_Q0JYN3 Putative uncharacterized protein h16_B2359 n=2 T... 66 3e-10 Sequences not found previously or not previously below threshold: UniRef50_Q8YVD1 Asl2047 protein n=2 Tax=Nostocaceae RepID=Q8YVD1... 44 0.001 UniRef50_A4V7P6 Putative uncharacterized protein n=1 Tax=Pseudom... 44 0.001 UniRef50_Q1IPZ0 Putative uncharacterized protein n=1 Tax=Candida... 44 0.002 UniRef50_B5LPT9 Putative uncharacterized protein n=4 Tax=root Re... 42 0.004 >UniRef50_A4W5R3 Protein hfq n=443 Tax=Bacteria RepID=HFQ_ENT38 Length = 103 Score = 141 bits (356), Expect = 5e-33, Method: Composition-based stats. Identities = 95/103 (92%), Positives = 99/103 (96%), Gaps = 1/103 (0%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS Sbjct: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSA-QQDSEETE 102 TVVPSRPVSHHSNNAGGGT SN+HHGS+AQ +SA QDS+ETE Sbjct: 61 TVVPSRPVSHHSNNAGGGTGSNFHHGSNAQGSSAPAQDSDETE 103 >UniRef50_A5EVF4 Protein hfq n=1 Tax=Dichelobacter nodosus VCS1703A RepID=HFQ_DICNV Length = 106 Score = 129 bits (324), Expect = 3e-29, Method: Composition-based stats. Identities = 61/103 (59%), Positives = 73/103 (70%), Gaps = 6/103 (5%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 M+K QSLQDP+LNALR+ERVPVSIYLVNGIKLQGQIESFD FVILL+N +SQMVYKHA+S Sbjct: 1 MSKSQSLQDPYLNALRKERVPVSIYLVNGIKLQGQIESFDAFVILLRNNISQMVYKHAVS 60 Query: 61 TVVPSRPVSHH------SNNAGGGTSSNYHHGSSAQNTSAQQD 97 T+VPSR + + AG S+ Y + Q + Sbjct: 61 TIVPSRNIHLSREEMGLEDEAGEEISAEYTPNAEGQAEATADP 103 >UniRef50_C1F408 Protein hfq n=1 Tax=Acidobacterium capsulatum ATCC 51196 RepID=HFQ_ACIC5 Length = 106 Score = 124 bits (311), Expect = 8e-28, Method: Composition-based stats. Identities = 38/99 (38%), Positives = 60/99 (60%), Gaps = 1/99 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAISTV 62 Q++QD FLN +R+++ P++IYLV+G+KL G+I SFD++ +LL+N Q+++KHAISTV Sbjct: 6 AQNIQDTFLNTVRKDKTPITIYLVSGVKLTGKIRSFDKYSVLLENNSQEQLIFKHAISTV 65 Query: 63 VPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQDSEET 101 V SR V H + G + + E + Sbjct: 66 VSSRSVLHGDHRPGVAGHGAPPISPTPPAGTHSTPGESS 104 >UniRef50_Q43971 Protein hfq n=2 Tax=Xanthobacteraceae RepID=HFQ_AZOC5 Length = 85 Score = 119 bits (297), Expect = 4e-26, Method: Composition-based stats. Identities = 36/78 (46%), Positives = 53/78 (67%), Gaps = 1/78 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIST 61 + Q+LQD FLN +R+ + P++I+LVNG+KLQG + FD F +LL ++ SQ+VYKHAIST Sbjct: 5 RTQNLQDTFLNHVRKSKTPLTIFLVNGVKLQGVVTWFDNFCVLLRRDGHSQLVYKHAIST 64 Query: 62 VVPSRPVSHHSNNAGGGT 79 ++P PV + Sbjct: 65 IMPGHPVQLFDPTDEVAS 82 >UniRef50_A9HLS1 Protein hfq n=74 Tax=Proteobacteria RepID=HFQ_GLUDA Length = 98 Score = 115 bits (289), Expect = 3e-25, Method: Composition-based stats. Identities = 41/83 (49%), Positives = 58/83 (69%), Gaps = 3/83 (3%) Query: 1 MAK--GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKH 57 MAK Q++QD FLN +RR + PV+++LVNG+KLQG I FD F +LL ++ +Q+VYKH Sbjct: 1 MAKEPTQNVQDVFLNHVRRSKTPVTVFLVNGVKLQGIITWFDNFSVLLRRDGHTQLVYKH 60 Query: 58 AISTVVPSRPVSHHSNNAGGGTS 80 AISTV+P+ PV + G + Sbjct: 61 AISTVMPATPVVLFDPSRTEGAT 83 >UniRef50_Q0AYA9 Protein hfq n=6 Tax=Clostridiales RepID=HFQ_SYNWW Length = 82 Score = 114 bits (286), Expect = 8e-25, Method: Composition-based stats. Identities = 35/80 (43%), Positives = 57/80 (71%), Gaps = 2/80 (2%) Query: 1 MAKGQ-SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHA 58 M+K Q +LQD FLN +R++++PV+++LVNG +++G + FD F ++++ + Q+VYKHA Sbjct: 1 MSKSQINLQDAFLNQVRKDKIPVTVFLVNGFQIKGMVRGFDNFTVIIEVDQKQQLVYKHA 60 Query: 59 ISTVVPSRPVSHHSNNAGGG 78 ISTV P RP+S + A Sbjct: 61 ISTVAPLRPISMLNLEAKSD 80 >UniRef50_Q9KAC4 Protein hfq n=3 Tax=Firmicutes RepID=HFQ_BACHD Length = 78 Score = 114 bits (284), Expect = 1e-24, Method: Composition-based stats. Identities = 33/78 (42%), Positives = 50/78 (64%), Gaps = 1/78 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR+E +PV+++L+NG +L+G ++ FD F ++L+ Q+VYKHAI Sbjct: 1 MKSSVNIQDHFLNQLRKENIPVTVFLLNGFQLRGLVKGFDNFTVILETEGKQQLVYKHAI 60 Query: 60 STVVPSRPVSHHSNNAGG 77 ST P R V + N Sbjct: 61 STFAPQRNVQMKTENEPS 78 >UniRef50_Q14IJ3 Protein hfq n=18 Tax=Francisella RepID=HFQ_FRAT1 Length = 109 Score = 113 bits (283), Expect = 1e-24, Method: Composition-based stats. Identities = 58/97 (59%), Positives = 75/97 (77%), Gaps = 10/97 (10%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 M++ SLQDPFLNALR+E+V VS+YLVNGIKLQGQ+E+FDQF I+L+NTV+QMVYKHAIS Sbjct: 1 MSRISSLQDPFLNALRKEKVSVSVYLVNGIKLQGQVEAFDQFCIVLRNTVNQMVYKHAIS 60 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQD 97 T+VP++ V N S N +H QN++ +QD Sbjct: 61 TIVPAKSVRMIYN------SFNPYH----QNSNDEQD 87 >UniRef50_B3PYU7 Protein hfq n=115 Tax=Bacteria RepID=HFQ_RHIE6 Length = 80 Score = 113 bits (282), Expect = 2e-24, Method: Composition-based stats. Identities = 33/77 (42%), Positives = 55/77 (71%), Gaps = 1/77 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIST 61 + Q+LQD FLN +R++++ ++I+L+NG+KL G + SFD F +LL ++ SQ+VYKHAIST Sbjct: 4 RSQNLQDLFLNTVRKQKISLTIFLINGVKLTGVVTSFDNFCVLLRRDGHSQLVYKHAIST 63 Query: 62 VVPSRPVSHHSNNAGGG 78 ++P +P+ + Sbjct: 64 IMPGQPMQMFESEEAAS 80 >UniRef50_B2JKR6 RNA chaperone Hfq n=1 Tax=Burkholderia phymatum STM815 RepID=B2JKR6_BURP8 Length = 150 Score = 112 bits (281), Expect = 3e-24, Method: Composition-based stats. Identities = 42/105 (40%), Positives = 58/105 (55%), Gaps = 8/105 (7%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAIS 60 + Q+ F+NA R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIS Sbjct: 3 SAESHPQNDFMNAARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAIS 62 Query: 61 TV---VPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQDSEETE 102 T+ SRP + G S+ HGS ++ E E Sbjct: 63 TIQLDTGSRPAPRAGRPSHGDHSARGPHGSR----EHREPREPRE 103 >UniRef50_B0SBH9 Protein hfq n=17 Tax=Bacteria RepID=HFQ_LEPBA Length = 83 Score = 112 bits (280), Expect = 3e-24, Method: Composition-based stats. Identities = 33/82 (40%), Positives = 54/82 (65%), Gaps = 1/82 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAI 59 M+ ++QD LN R+E++ ++IYL+NG+ L+G++ SFD F I+L+N +VYKHAI Sbjct: 1 MSAKNNIQDQLLNTARKEKIDLTIYLLNGVPLKGKVVSFDNFTIILENENKQNLVYKHAI 60 Query: 60 STVVPSRPVSHHSNNAGGGTSS 81 ST++P++P+ HS Sbjct: 61 STIIPAKPIKLHSEETPKEAGG 82 >UniRef50_Q5F9R5 Protein hfq n=26 Tax=Neisseria RepID=HFQ_NEIG1 Length = 97 Score = 112 bits (280), Expect = 3e-24, Method: Composition-based stats. Identities = 60/99 (60%), Positives = 73/99 (73%), Gaps = 5/99 (5%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAIS 60 AKGQ LQDPFLNALR+E VPVSIYLVNGIKLQGQ+ESFDQ+V+LL+N +V+QMVYKHAIS Sbjct: 3 AKGQMLQDPFLNALRKEHVPVSIYLVNGIKLQGQVESFDQYVVLLRNTSVTQMVYKHAIS 62 Query: 61 TVVPSRPVSHHSNNAGGGTSSNYHHGSSAQNTSAQQDSE 99 T+VP+R V+ N + Q + QQ +E Sbjct: 63 TIVPARSVNLQHENKPQAA----PASTLVQVETVQQPAE 97 >UniRef50_Q5WFY7 Protein hfq n=4 Tax=Firmicutes RepID=HFQ_BACSK Length = 77 Score = 110 bits (276), Expect = 9e-24, Method: Composition-based stats. Identities = 31/74 (41%), Positives = 50/74 (67%), Gaps = 1/74 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR+E +PV+++L+NG +L+GQ++ FD F ++++ Q+VYKHAI Sbjct: 1 MKATVNIQDQFLNQLRKESIPVTVFLLNGFQLRGQVKGFDNFTVIVETEGRQQLVYKHAI 60 Query: 60 STVVPSRPVSHHSN 73 ST P + V + Sbjct: 61 STFAPQKNVQLKNE 74 >UniRef50_Q31GP2 Protein hfq n=46 Tax=Proteobacteria RepID=HFQ_THICR Length = 89 Score = 110 bits (276), Expect = 1e-23, Method: Composition-based stats. Identities = 45/80 (56%), Positives = 64/80 (80%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAIS 60 +AK +QDP+LNALR+E++ V+IYLVNG+KLQG+++SFDQFV+LL++ V+QMVYKHAIS Sbjct: 6 VAKALPIQDPYLNALRKEKINVAIYLVNGVKLQGRVDSFDQFVVLLRSNVTQMVYKHAIS 65 Query: 61 TVVPSRPVSHHSNNAGGGTS 80 T+VP+R + A + Sbjct: 66 TIVPARDPKAYEFEAQETEA 85 >UniRef50_C5D9J0 Protein hfq n=7 Tax=Bacteria RepID=HFQ_GEOSW Length = 74 Score = 110 bits (274), Expect = 2e-23, Method: Composition-based stats. Identities = 30/74 (40%), Positives = 47/74 (63%), Gaps = 1/74 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAI 59 M ++QD FLN LR++ V+++L+NG +L+G I+ FD F +LL+ Q++YKHAI Sbjct: 1 MKNSINIQDQFLNQLRKDGTQVTVFLLNGYQLKGYIKGFDNFTVLLEVQGKQQLIYKHAI 60 Query: 60 STVVPSRPVSHHSN 73 ST P + V + Sbjct: 61 STFAPEKNVRFETE 74 >UniRef50_Q140R2 Conserved nucleoprotein, Hfg, host factor I like protein n=4 Tax=Burkholderia RepID=Q140R2_BURXL Length = 186 Score = 109 bits (272), Expect = 3e-23, Method: Composition-based stats. Identities = 38/95 (40%), Positives = 54/95 (56%), Gaps = 4/95 (4%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAIS 60 + Q+ F+NA R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIS Sbjct: 3 SAESHPQNDFMNAARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAIS 62 Query: 61 TV---VPSRPVSHHSNNAGGGTSSNYHHGSSAQNT 92 T+ +RP + G ++ HGS Sbjct: 63 TIQLDTGTRPAPRAGRPSHGEHTTRGPHGSREPRD 97 >UniRef50_Q67NL2 Protein hfq n=3 Tax=Clostridiales RepID=HFQ_SYMTH Length = 90 Score = 107 bits (268), Expect = 1e-22, Method: Composition-based stats. Identities = 35/74 (47%), Positives = 49/74 (66%), Gaps = 1/74 (1%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAIS 60 SLQD FLN LRRE +P +IYLVNG +L+G I FD F + ++ + Q+VYKHA+S Sbjct: 3 KASASLQDGFLNLLRRENIPATIYLVNGYQLKGYIRGFDNFTVAVEVDGRVQLVYKHALS 62 Query: 61 TVVPSRPVSHHSNN 74 T+ P+RP+ + Sbjct: 63 TITPARPLPVSVSQ 76 >UniRef50_C9KPY2 RNA chaperone Hfq n=1 Tax=Mitsuokella multacida DSM 20544 RepID=C9KPY2_9FIRM Length = 86 Score = 107 bits (267), Expect = 1e-22, Method: Composition-based stats. Identities = 34/67 (50%), Positives = 48/67 (71%), Gaps = 1/67 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAIST 61 K +LQD FLN +R+E VPV+I+LVNG +++G + FD F ++L QMVYKHAIST Sbjct: 4 KVINLQDSFLNQVRKENVPVTIHLVNGFQIKGSVRGFDNFTVVLDVMGKQQMVYKHAIST 63 Query: 62 VVPSRPV 68 + P+ P+ Sbjct: 64 ITPAHPI 70 >UniRef50_O66512 Protein hfq n=4 Tax=Aquificales RepID=HFQ_AQUAE Length = 80 Score = 107 bits (266), Expect = 1e-22, Method: Composition-based stats. Identities = 38/77 (49%), Positives = 51/77 (66%), Gaps = 1/77 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVP 64 LQ+ FLN R++RV VS+YLVNG++LQG+I SFD F ILL++ Q +VYKHAI+T+VP Sbjct: 4 KLQESFLNTARKKRVKVSVYLVNGVRLQGRIRSFDLFTILLEDGKQQTLVYKHAITTIVP 63 Query: 65 SRPVSHHSNNAGGGTSS 81 + AG Sbjct: 64 HERLEIEFEEAGVPGQG 80 >UniRef50_Q3SIN9 Protein hfq n=19 Tax=cellular organisms RepID=HFQ_THIDA Length = 80 Score = 107 bits (266), Expect = 1e-22, Method: Composition-based stats. Identities = 48/80 (60%), Positives = 59/80 (73%), Gaps = 3/80 (3%) Query: 1 MAKGQS-LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS--QMVYKH 57 MAK + LQD FLN LR+ER+PVS++LVNGIKL G+IESFDQFV+LLK QM++KH Sbjct: 1 MAKEHNHLQDVFLNTLRKERIPVSVFLVNGIKLMGRIESFDQFVVLLKGQDQAAQMIFKH 60 Query: 58 AISTVVPSRPVSHHSNNAGG 77 AIST+ PSR V +A Sbjct: 61 AISTISPSREVVLPQRDAEA 80 >UniRef50_B9KBC4 Protein hfq n=1 Tax=Thermotoga neapolitana DSM 4359 RepID=B9KBC4_THENN Length = 100 Score = 106 bits (264), Expect = 2e-22, Method: Composition-based stats. Identities = 33/85 (38%), Positives = 49/85 (57%), Gaps = 1/85 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 +A+ +LQD FLN LR ++ V +YLVNG + +G I SFD + +LL++ Q ++YKHAI Sbjct: 11 LAEKFNLQDRFLNHLRVNKIEVKVYLVNGFQTKGFIRSFDSYTVLLESGNQQSLIYKHAI 70 Query: 60 STVVPSRPVSHHSNNAGGGTSSNYH 84 ST++PS V Sbjct: 71 STIIPSSYVMLMPRKQEPEKEDETP 95 >UniRef50_A8F5B4 Protein hfq n=11 Tax=Thermotogaceae RepID=HFQ_THELT Length = 91 Score = 103 bits (256), Expect = 2e-21, Method: Composition-based stats. Identities = 34/71 (47%), Positives = 48/71 (67%), Gaps = 1/71 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M + +LQD FLN LR ++ V +YLVNG + +G I SFD + ILL++ Q ++YKHAI Sbjct: 1 MTEKFNLQDRFLNMLRTGKIEVKVYLVNGFQTKGIIRSFDSYTILLESENQQNLIYKHAI 60 Query: 60 STVVPSRPVSH 70 ST++PS V Sbjct: 61 STIMPSSFVRL 71 >UniRef50_B2V6C4 RNA chaperone Hfq n=4 Tax=Aquificales RepID=B2V6C4_SULSY Length = 85 Score = 103 bits (256), Expect = 2e-21, Method: Composition-based stats. Identities = 37/78 (47%), Positives = 53/78 (67%), Gaps = 3/78 (3%) Query: 1 MAKGQS--LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKH 57 MAK + LQ+ FLN +R+E+V +YLVNG+KL+G+I+ FD FVILLK Q +VYKH Sbjct: 1 MAKEKKGRLQEKFLNTIRKEKVRCDVYLVNGVKLEGKIKYFDNFVILLKEGPRQVLVYKH 60 Query: 58 AISTVVPSRPVSHHSNNA 75 AI+T+ P + + + Sbjct: 61 AITTISPKKEIEFEYDQE 78 >UniRef50_D2RKG7 RNA chaperone Hfq n=2 Tax=Clostridiales RepID=D2RKG7_ACIFE Length = 89 Score = 102 bits (255), Expect = 3e-21, Method: Composition-based stats. Identities = 26/63 (41%), Positives = 44/63 (69%), Gaps = 1/63 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAIST 61 K +LQD FLN +R E+ + +YL+NG +++G++ FD F ++++ Q++YKHAIST Sbjct: 7 KPLNLQDSFLNRVRSEKKTIVVYLLNGFQVRGRVWGFDNFTVIMECEGKQQLIYKHAIST 66 Query: 62 VVP 64 + P Sbjct: 67 IAP 69 >UniRef50_A4XL44 Protein hfq n=6 Tax=Clostridia RepID=HFQ_CALS8 Length = 99 Score = 102 bits (255), Expect = 3e-21, Method: Composition-based stats. Identities = 34/76 (44%), Positives = 58/76 (76%), Gaps = 3/76 (3%) Query: 1 MAK-GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL--KNTVSQMVYKH 57 MAK +LQD FLN LR+E+V V+I+L++G +L+G I+ FD F +++ +N Q++YKH Sbjct: 1 MAKGNLNLQDLFLNQLRKEKVNVTIFLLSGFQLKGVIKGFDNFTLVVETENNKQQLIYKH 60 Query: 58 AISTVVPSRPVSHHSN 73 AIS+++PS+P+++ + Sbjct: 61 AISSILPSKPINYMAQ 76 >UniRef50_Q187T2 Protein hfq n=21 Tax=Clostridia RepID=HFQ_CLOD6 Length = 86 Score = 102 bits (253), Expect = 5e-21, Method: Composition-based stats. Identities = 31/67 (46%), Positives = 51/67 (76%), Gaps = 2/67 (2%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK--NTVSQMVYKHAISTVV 63 +LQD FLN R+ER+PV+IYLVNG++++G ++ FD ++IL++ N M+YKHA+ST+ Sbjct: 7 NLQDLFLNNARKERIPVTIYLVNGVQVKGLVKGFDSYIILIEGDNRQQNMIYKHAVSTIQ 66 Query: 64 PSRPVSH 70 P + ++ Sbjct: 67 PGKYINL 73 >UniRef50_A0KPP4 Hfq protein n=3 Tax=Aeromonadaceae RepID=A0KPP4_AERHH Length = 120 Score = 100 bits (250), Expect = 1e-20, Method: Composition-based stats. Identities = 36/102 (35%), Positives = 52/102 (50%), Gaps = 5/102 (4%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN--TVSQMVYKHAISTVV 63 + QD LN LR+ R V+I+LV+GIKL+G I FDQ+ +LL + Q+VYK IST+ Sbjct: 19 NGQDSALNWLRKNRSQVAIFLVSGIKLEGTISGFDQYSVLLTDAHGNQQLVYKAKISTIA 78 Query: 64 --PSRP-VSHHSNNAGGGTSSNYHHGSSAQNTSAQQDSEETE 102 RP VS + + HG+ + Q + Sbjct: 79 MHSGRPQVSIQRARKPRVSMAPRPHGAPGRYDDNQGGGSSEQ 120 >UniRef50_Q3A502 RNA-binding protein Hfq n=11 Tax=Desulfuromonadales RepID=Q3A502_PELCD Length = 77 Score = 95.5 bits (236), Expect = 5e-19, Method: Composition-based stats. Identities = 28/66 (42%), Positives = 47/66 (71%), Gaps = 1/66 (1%) Query: 1 MAKG-QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAI 59 M+K ++QD +LN R+ERV V+I +++G KL G I+SFD F +L+++ ++YKHAI Sbjct: 1 MSKTPFNIQDQYLNQARKERVRVNIIMMSGEKLDGFIKSFDSFCVLIESKGDLLLYKHAI 60 Query: 60 STVVPS 65 S++ + Sbjct: 61 SSITSA 66 >UniRef50_B6IY17 Host factor protein n=1 Tax=Rhodospirillum centenum SW RepID=B6IY17_RHOCS Length = 117 Score = 93.6 bits (231), Expect = 2e-18, Method: Composition-based stats. Identities = 27/78 (34%), Positives = 48/78 (61%), Gaps = 2/78 (2%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS--QMVYKHA 58 MA ++LQ L+ LR V+++LV G++L G+I + D + + L Q++YKHA Sbjct: 1 MAFSEALQSKVLDVLRTGGTEVTVFLVTGVRLVGRIVAHDAYSLALTGHGGGLQLIYKHA 60 Query: 59 ISTVVPSRPVSHHSNNAG 76 ++T+VPS P+S + ++ Sbjct: 61 VTTLVPSSPLSLYDPSSS 78 >UniRef50_Q029X0 RNA-binding protein Hfq n=2 Tax=Acidobacteria RepID=Q029X0_SOLUE Length = 101 Score = 93.2 bits (230), Expect = 2e-18, Method: Composition-based stats. Identities = 30/74 (40%), Positives = 55/74 (74%), Gaps = 1/74 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAISTV 62 Q++QD FLN R++++ ++IYL++G+KL G+I+SFD++ ++L+ Q+++KHAISTV Sbjct: 5 AQNIQDSFLNNARKDKIVLTIYLMSGVKLSGRIKSFDKYSLVLETNNQEQLIFKHAISTV 64 Query: 63 VPSRPVSHHSNNAG 76 V + +S+N+ Sbjct: 65 VTQKTAHSYSSNSP 78 >UniRef50_D0ZAP0 RNA-binding protein Hfq n=3 Tax=Gammaproteobacteria RepID=D0ZAP0_EDWTE Length = 76 Score = 88.6 bits (218), Expect = 5e-17, Method: Composition-based stats. Identities = 59/76 (77%), Positives = 64/76 (84%), Gaps = 3/76 (3%) Query: 27 VNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSNNAGGGTS-SNYHH 85 +NGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHS NAG G++ S+YHH Sbjct: 1 MNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVSHHSGNAGTGSAGSSYHH 60 Query: 86 GSSA--QNTSAQQDSE 99 G A Q T D+E Sbjct: 61 GGQAASQPTQGSDDAE 76 >UniRef50_A9AK18 RNA chaperone Hfq n=68 Tax=Burkholderia RepID=A9AK18_BURM1 Length = 243 Score = 88.6 bits (218), Expect = 6e-17, Method: Composition-based stats. Identities = 31/61 (50%), Positives = 43/61 (70%), Gaps = 1/61 (1%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVS-QMVYKHAIST 61 Q+ F+N+ R+ER V IYLVNGI+L G IESFDQ++++L+ V Q +YK AIST Sbjct: 56 AESHPQNDFINSARKERKRVEIYLVNGIRLTGCIESFDQYLVMLRTPVGLQGIYKRAIST 115 Query: 62 V 62 + Sbjct: 116 I 116 >UniRef50_C1SNE1 RNA chaperone Hfq n=1 Tax=Denitrovibrio acetiphilus DSM 12809 RepID=C1SNE1_9BACT Length = 142 Score = 85.9 bits (211), Expect = 3e-16, Method: Composition-based stats. Identities = 23/60 (38%), Positives = 39/60 (65%), Gaps = 1/60 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVP 64 +QD FLN +R+ R P+ +L+NG+K++G + FD + +L Q+VYK+ +ST+ P Sbjct: 69 PMQDIFLNEVRKSRSPIISFLINGVKIRGSLIGFDNYTLLTSFEGRQQLVYKNTVSTIFP 128 >UniRef50_C8W3I4 RNA chaperone Hfq n=1 Tax=Desulfotomaculum acetoxidans DSM 771 RepID=C8W3I4_DESAS Length = 85 Score = 83.6 bits (205), Expect = 2e-15, Method: Composition-based stats. Identities = 24/62 (38%), Positives = 44/62 (70%), Gaps = 1/62 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVP 64 S+Q+ L L+ ++ + +YL+NG +L G+++ FD F ++L+ +Q +VYKHAIST++P Sbjct: 19 SVQNKILVQLKEQQASIIVYLINGYRLGGKLKDFDTFTVILEEKETQYIVYKHAISTIIP 78 Query: 65 SR 66 + Sbjct: 79 EK 80 >UniRef50_Q5HPN7 Host factor-I protein, putative n=64 Tax=Staphylococcus RepID=Q5HPN7_STAEQ Length = 79 Score = 82.8 bits (203), Expect = 3e-15, Method: Composition-based stats. Identities = 22/64 (34%), Positives = 42/64 (65%), Gaps = 1/64 (1%) Query: 1 MAKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAI 59 M +++QD L + E+ V+I+ +NG +++G +E++D++V+ L + Q ++YKHAI Sbjct: 1 MIANENIQDQALENFKSEKTEVTIFFLNGFQMKGVVENYDKYVVSLNSQGKQHLIYKHAI 60 Query: 60 STVV 63 ST Sbjct: 61 STFT 64 >UniRef50_Q73AM9 Host factor-I protein n=136 Tax=Bacillus RepID=Q73AM9_BACC1 Length = 78 Score = 80.5 bits (197), Expect = 2e-14, Method: Composition-based stats. Identities = 18/60 (30%), Positives = 40/60 (66%), Gaps = 1/60 (1%) Query: 5 QSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVIL-LKNTVSQMVYKHAISTVV 63 + LQ+ ++ E+ V+I+L +G+++ G++ + D+F +L L + Q++YK A+ST++ Sbjct: 18 EHLQEELYKQIKEEKGIVTIFLKSGVRIVGEVVAIDKFTVLMLVDGKQQLIYKQAVSTIM 77 >UniRef50_B4U9V4 RNA chaperone Hfq n=5 Tax=Aquificales RepID=B4U9V4_HYDS0 Length = 69 Score = 80.1 bits (196), Expect = 2e-14, Method: Composition-based stats. Identities = 22/61 (36%), Positives = 40/61 (65%), Gaps = 1/61 (1%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTV 62 ++LQD L + + + V IYL G ++ G++ D++ +LLK ++ + ++YKHAIST+ Sbjct: 2 TENLQDKILEDAKEKGIEVVIYLTRGNRMVGKVLDQDKYTVLLKSDSGTNLIYKHAISTI 61 Query: 63 V 63 V Sbjct: 62 V 62 >UniRef50_D1ZW62 Whole genome shotgun sequence assembly, contig_801 n=1 Tax=Sordaria macrospora RepID=D1ZW62_SORMA Length = 121 Score = 78.9 bits (193), Expect = 5e-14, Method: Composition-based stats. Identities = 28/64 (43%), Positives = 40/64 (62%), Gaps = 3/64 (4%) Query: 24 IYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTVVPSRPVSHHS--NNAGGGTS 80 ++LV G+KLQG + FD F +LL+ + SQ++YKHAIST++P+ P S A TS Sbjct: 1 MFLVKGVKLQGIVTWFDNFSVLLRRDGQSQLIYKHAISTIMPAGPADLSSVIQAASENTS 60 Query: 81 SNYH 84 N Sbjct: 61 KNAP 64 Score = 67.8 bits (164), Expect = 1e-10, Method: Composition-based stats. Identities = 28/81 (34%), Positives = 41/81 (50%), Gaps = 20/81 (24%) Query: 2 AKGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL-KNTVSQMVYKHAIS 60 +K LQ+ FLNA GQI +FD F +LL + +SQ+VYKHA+S Sbjct: 60 SKNAPLQEIFLNA-------------------GQIAAFDLFCMLLQREGMSQLVYKHAVS 100 Query: 61 TVVPSRPVSHHSNNAGGGTSS 81 T+ P+ P++ A G + Sbjct: 101 TIQPANPLNLAEEQASGADEA 121 >UniRef50_C3HSH3 Host factor-I protein n=3 Tax=Bacillus cereus group RepID=C3HSH3_BACTU Length = 61 Score = 76.6 bits (187), Expect = 2e-13, Method: Composition-based stats. Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%) Query: 6 SLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKN-TVSQMVYKHAISTVV 63 Q+ F L V+I+L+NG+++ G I + D+F +L+ + Q +YKHAISTV Sbjct: 2 HTQEDFYTKLIEANRLVTIFLINGVRVPGIIIAVDKFSVLISSHGKQQFIYKHAISTVS 60 >UniRef50_C3IB87 Host factor-I protein n=1 Tax=Bacillus thuringiensis IBL 200 RepID=C3IB87_BACTU Length = 72 Score = 72.8 bits (177), Expect = 3e-12, Method: Composition-based stats. Identities = 17/58 (29%), Positives = 37/58 (63%), Gaps = 1/58 (1%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVI-LLKNTVSQMVYKHAISTVV 63 +Q+ L ++ V+I+L +G+ ++G+I S D+F + ++ Q+V+K A+ST++ Sbjct: 14 IQEDMYKELIDKKRTVTIFLKSGVLIRGKILSTDKFTVFMMVQGKQQLVFKQALSTII 71 >UniRef50_B7JTR0 RNA chaperone Hfq n=19 Tax=Bacillus cereus group RepID=B7JTR0_BACC0 Length = 77 Score = 72.0 bits (175), Expect = 6e-12, Method: Composition-based stats. Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 1/56 (1%) Query: 8 QDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLK-NTVSQMVYKHAISTV 62 Q+ L ++R + + L+ G+ ++G I +D F IL++ Q+VYKHAIST+ Sbjct: 20 QEYLLQEAFQKRKNIMLILLKGLHIKGIIRGYDIFSILIEYEGKQQLVYKHAISTI 75 >UniRef50_Q1LCL6 Host factor-I protein n=2 Tax=Cupriavidus RepID=Q1LCL6_RALME Length = 106 Score = 66.6 bits (161), Expect = 2e-10, Method: Composition-based stats. Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 4/67 (5%) Query: 4 GQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL----KNTVSQMVYKHAI 59 + LQ A R V ++L NG +L G + + D +++LL ++ ++YK AI Sbjct: 11 SRKLQHLHYAAHGASRNAVIVHLSNGTRLTGVVLASDNYMVLLGQSAEDPTPTLIYKRAI 70 Query: 60 STVVPSR 66 + V P+ Sbjct: 71 TVVTPAH 77 >UniRef50_B7IZ69 Host factor Hfq n=4 Tax=Bacillus cereus group RepID=B7IZ69_BACC2 Length = 83 Score = 66.6 bits (161), Expect = 2e-10, Method: Composition-based stats. Identities = 19/74 (25%), Positives = 38/74 (51%), Gaps = 14/74 (18%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNT------------- 49 Q++Q+ + ++ + V+ L NG +++G+I ++D F IL+ Sbjct: 2 ANQTVQNKVIENVKGKNSKVNFILNNGFRIEGKIVAYDDFCILVSTKAPSNEKQIGDKQV 61 Query: 50 -VSQMVYKHAISTV 62 +Q++YKH IST+ Sbjct: 62 FQNQLIYKHNISTI 75 >UniRef50_Q0JYN3 Putative uncharacterized protein h16_B2359 n=2 Tax=Cupriavidus RepID=Q0JYN3_RALEH Length = 108 Score = 66.2 bits (160), Expect = 3e-10, Method: Composition-based stats. Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 4/61 (6%) Query: 7 LQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL----KNTVSQMVYKHAISTV 62 LQ A R + PV ++L G +LQG + + D +V+LL + +VYK AI V Sbjct: 16 LQHQQFAAYRTSQAPVIVHLATGARLQGLVLASDDYVVLLGRQPDDIRPTVVYKRAICLV 75 Query: 63 V 63 Sbjct: 76 T 76 >UniRef50_Q8YVD1 Asl2047 protein n=2 Tax=Nostocaceae RepID=Q8YVD1_ANASP Length = 72 Score = 44.3 bits (103), Expect = 0.001, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 2/57 (3%) Query: 10 PFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL--KNTVSQMVYKHAISTVVP 64 L L ++ PV I LV G + G++ D + + +N+ ++K AI+ + P Sbjct: 14 RQLQNLIKQAAPVEIKLVTGDAITGRVLWQDPTCVCIADENSRQTTIWKQAIAYLQP 70 >UniRef50_A4V7P6 Putative uncharacterized protein n=1 Tax=Pseudomonas fluorescens SBW25 RepID=A4V7P6_PSEFS Length = 188 Score = 43.9 bits (102), Expect = 0.001, Method: Composition-based stats. Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 4/82 (4%) Query: 3 KGQSLQDPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILL----KNTVSQMVYKHA 58 + + QD FL+ +R + + +YL +G LQG+I D+ ILL + +M+ K Sbjct: 26 RSTNEQDRFLDYCQRNEILIKVYLDSGRALQGKIVDHDRKCILLGATRVEKIPKMIPKSY 85 Query: 59 ISTVVPSRPVSHHSNNAGGGTS 80 I+ V + G G Sbjct: 86 IALVRAEEILPLFLEYKGRGNH 107 >UniRef50_Q1IPZ0 Putative uncharacterized protein n=1 Tax=Candidatus Koribacter versatilis Ellin345 RepID=Q1IPZ0_ACIBL Length = 104 Score = 43.5 bits (101), Expect = 0.002, Method: Composition-based stats. Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 3/73 (4%) Query: 11 FLNALRRERVPVSIYLVNGIKLQGQIESFDQFVI-LLKNTVSQM-VYKHAISTVVPSRPV 68 +L L ++ PV I LV+G ++G IE +D+ ++ L + + +YKH I + PV Sbjct: 28 YLKMLGEKQKPVKIKLVDGEIVKGWIEYYDKAMVRLTREGAPNLFIYKHDIRYI-SEEPV 86 Query: 69 SHHSNNAGGGTSS 81 G + Sbjct: 87 KKAPRADGAKPEA 99 >UniRef50_B5LPT9 Putative uncharacterized protein n=4 Tax=root RepID=B5LPT9_9CAUD Length = 90 Score = 42.4 bits (98), Expect = 0.004, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 1/73 (1%) Query: 9 DPFLNALRRERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQ-MVYKHAISTVVPSRP 67 D L L +P + L NG L+G++ D+++I ++ Q ++K + V+P+ Sbjct: 9 DSILMYLEHYEMPCTFVLSNGKPLKGKVVGRDKYMIYVETEEKQHFLFKSNVMDVIPNEK 68 Query: 68 VSHHSNNAGGGTS 80 + + Sbjct: 69 IDLKTAKESVKNH 81 Database: uniref50.fasta Posted date: Mar 8, 2010 10:38 AM Number of letters in database: 1,040,396,356 Number of sequences in database: 3,077,464 Lambda K H 0.304 0.134 0.352 Lambda K H 0.267 0.0411 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 507,855,654 Number of Sequences: 3077464 Number of extensions: 16381255 Number of successful extensions: 50771 Number of sequences better than 1.0e-01: 48 Number of HSP's better than 0.1 without gapping: 122 Number of HSP's successfully gapped in prelim test: 11 Number of HSP's that attempted gapping in prelim test: 50526 Number of HSP's gapped (non-prelim): 140 length of query: 102 length of database: 1,040,396,356 effective HSP length: 71 effective length of query: 31 effective length of database: 821,896,412 effective search space: 25478788772 effective search space used: 25478788772 T: 11 A: 40 X1: 16 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.3 bits) S2: 87 (38.1 bits)