# /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa FASTA searches a protein or DNA sequence data bank version 35.03 Feb. 18, 2008 Please cite: W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448 Query: NC_002127.faa 1>>>gi|10955263|ref|NP_052604.1| plasmid mobilization [Escherichia coli O157:H7 s 107 aa - 107 aa Library: NC_009649.faa 45119 residues in 180 sequences 45119 residues in 180 sequences Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 6.1549+/-0.00908; mu= -2.2550+/- 0.463 mean_var=53.4246+/-12.058, 0's: 0 Z-trim: 0 B-trim: 0 in 0/33 Lambda= 0.175470 Algorithm: FASTA (3.5 Sept 2006) [optimized] Parameters: BL50 matrix (15:-5) ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 Scan time: 0.030 The best scores are: opt bits E(180) gi|152973457|ref|YP_001338508.1| ATPase with chape ( 931) 71 25.3 0.43 gi|152973588|ref|YP_001338639.1| F pilus assembly ( 459) 63 23.4 0.81 >>>gi|10955263|ref|NP_052604.1|, 107 aa vs NC_009649.faa library ; pg_name: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 ; pg_ver: 35.03 ; pg_argv: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa ; pg_name: FASTA ; pg_ver: 3.5 Sept 2006 ; pg_matrix: BL50 (15:-5) ; pg_open-ext: -10 -2 ; pg_ktup: 2 ; pg_optcut: 24 ; pg_cgap: 36 ; mp_extrap: 60000 500 ; mp_stats: (shuffled [500]) Expectation_n fit: rho(ln(x))= 6.1549+/-0.00908; mu= -2.2550+/- 0.463 mean_var=53.4246+/-12.058, 0's: 0 Z-trim: 0 B-trim: 0 in 0/33 Lambda= 0.175470 ; mp_KS: -0.0000 (N=1069612839) at 20 ; mp_Algorithm: FASTA (3.5 Sept 2006) [optimized] ; mp_Parameters: BL50 matrix (15:-5) ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 >>gi|152973457|ref|YP_001338508.1| ATPase with chaperone activity, ATP-binding subunit [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] ; fa_frame: f ; fa_initn: 65 ; fa_init1: 43 ; fa_opt: 71 ; fa_z-score: 92.7 ; fa_bits: 25.3 ; fa_expect: 0.43 ; sw_score: 71 ; sw_ident: 0.250 ; sw_sim: 0.574 ; sw_overlap: 108 >gi|10955263| .. ; sq_len: 107 ; sq_offset: 1 ; sq_type: p ; al_start: 5 ; al_stop: 103 ; al_display_start: 1 --------------------------MTKRSGSNT-RRRAISRPVRLTAE ED---QEIRKRAAECGKTVSGFLRAAALGKKVNSLTDDRVLKEVM----- RLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRLMAD >gi|152973457|ref|YP_001338508.1| .. ; sq_len: 931 ; sq_offset: 1 ; sq_type: p ; al_start: 96 ; al_stop: 195 ; al_display_start: 66 SDFFRIGDDATPVAADTDDVVDASFGEPAAAGSGAPRRRGSGLASRISEQ SEALLQEAAKHAAEFGRS------EVDTEHLLLALADSDVVKTILGQFKI KVDDLKRQIESEAKR-GDKPF-EGEIGVSPRVKDALSRAFVASNELGHSY VGPEHFLIGLAEEGEGLAANLLRRYGLTPQ >>gi|152973588|ref|YP_001338639.1| F pilus assembly protein [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] ; fa_frame: f ; fa_initn: 33 ; fa_init1: 33 ; fa_opt: 63 ; fa_z-score: 87.7 ; fa_bits: 23.4 ; fa_expect: 0.81 ; sw_score: 63 ; sw_ident: 0.266 ; sw_sim: 0.656 ; sw_overlap: 64 >gi|10955263| .. ; sq_len: 107 ; sq_offset: 1 ; sq_type: p ; al_start: 32 ; al_stop: 94 ; al_display_start: 2 TKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRAAALGKK VNSLTDDRVLKEV-MRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRAL LSRLMAD >gi|152973588|ref|YP_001338639.1| .. ; sq_len: 459 ; sq_offset: 1 ; sq_type: p ; al_start: 191 ; al_stop: 248 ; al_display_start: 161 VGGLFPRTQVAQQKVCQDIAGESNIFSDWAASRQGCTVGG--KMDSVQDK ASDKDKERVMKNINIMWNALSKNRLFDG----NKELKEFIMTLTGTLIFG ENSEITPLPARTTDQDLIRAMMEGGTAKIYHCNDSDKCLKVVADATVTIT SNKALKSQISALLSSIQNKAVADEKLTDQE 2>>>gi|10955264|ref|NP_052605.1| hypothetical protein pOSAK1_02 [Escherichia coli O157:H7 s 126 aa - 126 aa Library: NC_009649.faa 45119 residues in 180 sequences 45119 residues in 180 sequences Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.7842+/-0.0102; mu= 9.7189+/- 0.536 mean_var=54.8927+/-12.828, 0's: 0 Z-trim: 0 B-trim: 0 in 0/33 Lambda= 0.173108 Algorithm: FASTA (3.5 Sept 2006) [optimized] Parameters: BL50 matrix (15:-5) ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 Scan time: 0.030 The best scores are: opt bits E(180) gi|152973462|ref|YP_001338513.1| hypothetical prot ( 101) 58 22.2 0.49 >>>gi|10955264|ref|NP_052605.1|, 126 aa vs NC_009649.faa library ; pg_name: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 ; pg_ver: 35.03 ; pg_argv: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa ; pg_name: FASTA ; pg_ver: 3.5 Sept 2006 ; pg_matrix: BL50 (15:-5) ; pg_open-ext: -10 -2 ; pg_ktup: 2 ; pg_optcut: 24 ; pg_cgap: 36 ; mp_extrap: 60000 500 ; mp_stats: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.7842+/-0.0102; mu= 9.7189+/- 0.536 mean_var=54.8927+/-12.828, 0's: 0 Z-trim: 0 B-trim: 0 in 0/33 Lambda= 0.173108 ; mp_KS: -0.0000 (N=1067190620) at 20 ; mp_Algorithm: FASTA (3.5 Sept 2006) [optimized] ; mp_Parameters: BL50 matrix (15:-5) ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 >>gi|152973462|ref|YP_001338513.1| hypothetical protein KPN_pKPN3p05904 [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] ; fa_frame: f ; fa_initn: 50 ; fa_init1: 50 ; fa_opt: 58 ; fa_z-score: 91.6 ; fa_bits: 22.2 ; fa_expect: 0.49 ; sw_score: 58 ; sw_ident: 0.289 ; sw_sim: 0.632 ; sw_overlap: 38 >gi|10955264| .. ; sq_len: 126 ; sq_offset: 1 ; sq_type: p ; al_start: 1 ; al_stop: 38 ; al_display_start: 1 ------------------------------MKKDKKYQIEAIKNKDKTLF IVYATDIYSPSEFFSKIESDLKKKKSKGDVFFDLIIPNGGKKDRYVYTSF NGEKFSSYTLNKVTKTDEYN >gi|152973462|ref|YP_001338513.1| .. ; sq_len: 101 ; sq_offset: 1 ; sq_type: p ; al_start: 44 ; al_stop: 81 ; al_display_start: 14 DALLGEIQRLRKQVHQLQLERDILTKANELIKKDLGVSFLKLKNREKTLI VDALKKKYPVAELLSVLQLARSCYFYQNVCTISMRKYA 3>>>gi|10955265|ref|NP_052606.1| hypothetical protein pOSAK1_03 [Escherichia coli O157:H7 s 346 aa - 346 aa Library: NC_009649.faa 45119 residues in 180 sequences 45119 residues in 180 sequences Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.6839+/- 0.011; mu= 15.3165+/- 0.586 mean_var=61.2646+/-13.548, 0's: 0 Z-trim: 0 B-trim: 0 in 0/33 Lambda= 0.163859 Algorithm: FASTA (3.5 Sept 2006) [optimized] Parameters: BL50 matrix (15:-5) ktup: 2 join: 37, opt: 25, open/ext: -10/-2, width: 16 Scan time: 0.050 The best scores are: opt bits E(180) gi|152973545|ref|YP_001338596.1| putative plasmid ( 242) 70 25.3 0.36 >>>gi|10955265|ref|NP_052606.1|, 346 aa vs NC_009649.faa library ; pg_name: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 ; pg_ver: 35.03 ; pg_argv: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa ; pg_name: FASTA ; pg_ver: 3.5 Sept 2006 ; pg_matrix: BL50 (15:-5) ; pg_open-ext: -10 -2 ; pg_ktup: 2 ; pg_optcut: 25 ; pg_cgap: 37 ; mp_extrap: 60000 500 ; mp_stats: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.6839+/- 0.011; mu= 15.3165+/- 0.586 mean_var=61.2646+/-13.548, 0's: 0 Z-trim: 0 B-trim: 0 in 0/33 Lambda= 0.163859 ; mp_KS: -0.0000 (N=1072013992) at 20 ; mp_Algorithm: FASTA (3.5 Sept 2006) [optimized] ; mp_Parameters: BL50 matrix (15:-5) ktup: 2 join: 37, opt: 25, open/ext: -10/-2, width: 16 >>gi|152973545|ref|YP_001338596.1| putative plasmid SOS inhibition protein A [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] ; fa_frame: f ; fa_initn: 52 ; fa_init1: 52 ; fa_opt: 70 ; fa_z-score: 94.0 ; fa_bits: 25.3 ; fa_expect: 0.36 ; sw_score: 70 ; sw_ident: 0.279 ; sw_sim: 0.651 ; sw_overlap: 43 >gi|10955265| .. ; sq_len: 346 ; sq_offset: 1 ; sq_type: p ; al_start: 197 ; al_stop: 238 ; al_display_start: 167 DFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKK QLSC-SLIMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNL GEYFTENKPKYIIREIHQET >gi|152973545|ref|YP_001338596.1| .. ; sq_len: 242 ; sq_offset: 1 ; sq_type: p ; al_start: 52 ; al_stop: 94 ; al_display_start: 22 IMTVEEARQRGARLPSMPHVRTFLRLLTGCSRINSDVARRIPGIHRDPKD RLSSLKQVEEALDMLISSHGEYCPLPLTMDVQAENFPEVLHTRTVRRLKR QDFAFTRKMRREARQVEQSW >>><<< 579 residues in 3 query sequences 45119 residues in 180 library sequences Scomplib [35.03] start: Tue May 20 15:20:03 2008 done: Tue May 20 15:20:03 2008 Total Scan time: 0.110 Total Display time: 0.010 Function used was FASTA [version 35.03 Feb. 18, 2008]