TBLASTN 2.2.15 [Oct-15-2006] 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. Query= P0AG30|RHO_ECOLI Transcription termination factor rho (EC 3.6.1.-) (ATP-dependent helicase rho).... (419 letters) Database: xc 460 sequences; 5,103,728 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AE012498 AE008922 |AE012498| Xanthomonas campestris pv. campestr... 587 e-168 AE012222 AE008922 |AE012222| Xanthomonas campestris pv. campestr... 69 1e-12 AE012296 AE008922 |AE012296| Xanthomonas campestris pv. campestr... 67 5e-12 AE012153 AE008922 |AE012153| Xanthomonas campestris pv. campestr... 41 2e-04 AE012366 AE008922 |AE012366| Xanthomonas campestris pv. campestr... 28 1.6 AE012207 AE008922 |AE012207| Xanthomonas campestris pv. campestr... 28 2.7 AE012197 AE008922 |AE012197| Xanthomonas campestris pv. campestr... 27 4.7 >AE012498 AE008922 |AE012498| Xanthomonas campestris pv. campestris str. ATCC 33913, section 406 of 460 of the complete genome. Length = 12898 Score = 587 bits (1512), Expect = e-168 Identities = 289/418 (69%), Positives = 352/418 (84%), Gaps = 1/418 (0%) Frame = +2 Query: 2 NLTELKNTPVSELITLGENMGL-ENLARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQD 60 +L++LK P +L+ + + + + E +AR RKQD+IFA+LK + GE + DGVLEIL D Sbjct: 7574 SLSDLKRMPAQKLLDIADQLNIQEGVARARKQDVIFALLKVLTRHGEGVAADGVLEILPD 7753 Query: 61 GFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVN 120 GFGFLR+A++SYLAGPDD Y+SPSQIRRFNLRTGD +SG+IR PK+GERYFAL V+ +N Sbjct: 7754 GFGFLRAAEASYLAGPDDTYISPSQIRRFNLRTGDHLSGRIRFPKDGERYFALSIVDTIN 7933 Query: 121 FDKPENARNKILFENLTPLHANSRLRMERGNGSTEDLTARVLDLASPIGRGQRGLIVAPP 180 + E ++NK+LFENLTPL R R+ERG+GSTED+T R+LDL +P G+GQR LIV+PP Sbjct: 7934 GEPLEASKNKVLFENLTPLFPRRRFRLERGDGSTEDITGRILDLMAPQGKGQRALIVSPP 8113 Query: 181 KAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHV 240 KAGKTM++Q +A +I NHP+ ++VLLIDERPEEVTEMQR V+GEV++STFDEPA+RHV Sbjct: 8114 KAGKTMMMQQVATAITTNHPEVHMIVLLIDERPEEVTEMQRTVRGEVISSTFDEPAARHV 8293 Query: 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRF 300 QVAEMVIE+AKRLVEHKKDV+ILLDSITRLARAYN VVP+SGKVLTGGVDANALHRPKRF Sbjct: 8294 QVAEMVIERAKRLVEHKKDVVILLDSITRLARAYNNVVPSSGKVLTGGVDANALHRPKRF 8473 Query: 301 FGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDY 360 FGAARNVEEGGSLTIIATAL++TGSKMDEVIYEEFKGTGN E+HL+R+I EKRV+PAID Sbjct: 8474 FGAARNVEEGGSLTIIATALVETGSKMDEVIYEEFKGTGNSEVHLNRRITEKRVYPAIDI 8653 Query: 361 NRSGTRKXXXXXXXXXXXKMWILRKIIHPMGEIDAMEFLINKLAMTKTNDDFFEMMKR 418 NRSGTR+ K+WILRK++HPM EI AMEFL++K+ TK+ND+FF MKR Sbjct: 8654 NRSGTRREDLLIEPELLQKIWILRKLLHPMDEIAAMEFLLDKMKTTKSNDEFFSSMKR 8827 >AE012222 AE008922 |AE012222| Xanthomonas campestris pv. campestris str. ATCC 33913, section 130 of 460 of the complete genome. Length = 11629 Score = 68.9 bits (167), Expect = 1e-12 Identities = 70/247 (28%), Positives = 112/247 (45%), Gaps = 10/247 (4%) Frame = +3 Query: 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEM 219 R++D +G GQR I A GK+ L+ A+ + V +++LI ER EV E Sbjct: 7362 RIVDGLMTLGEGQRMGIFAAAGVGKSTLIGMFARGTQCD----VNVIVLIGERGREVREF 7529 Query: 220 QRLVKGE-------VVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLAR 272 ++ G VV +T D + + A + A+ + V++++DS+TR AR Sbjct: 7530 IEMILGPDGLARSVVVCATSDRSSIERAKAAYVGTAIAEYFRDRGMRVLLMMDSLTRFAR 7709 Query: 273 AYNTVVPASGKVLTG-GVDANALHRPKRFFGAARNVEEGGSLTIIATALI--DTGSKMDE 329 A + A+G+ T G + R A + E GS+T T L DTGS + Sbjct: 7710 AQREIGLAAGEPPTRRGFPPSVFAELPRLLERA-GMGETGSITAFYTVLAEDDTGS---D 7877 Query: 330 VIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKXXXXXXXXXXXKMWILRKIIHP 389 I EE +G + L LSR+IA + +PAID S +R LR+++ Sbjct: 7878 PIAEEVRGILDGHLILSREIAARNQYPAIDVLGSLSRVMSQIVSAEQRQYAGQLRRLLAK 8057 Query: 390 MGEIDAM 396 E++ + Sbjct: 8058 HNEVETL 8078 >AE012296 AE008922 |AE012296| Xanthomonas campestris pv. campestris str. ATCC 33913, section 204 of 460 of the complete genome. Length = 11064 Score = 66.6 bits (161), Expect = 5e-12 Identities = 69/266 (25%), Positives = 117/266 (43%), Gaps = 24/266 (9%) Frame = -2 Query: 125 ENARNKILFENLTPLHANSRLRMERGNG---------------STEDLTARVLDLASPIG 169 E +++ + TPL +R E G ++ D+ R ++ PIG Sbjct: 6863 EGLLGRVIDSDGTPLDGKGPIRAEGSVGMAGVSINPLAREPITTSLDVGVRAINAMLPIG 6684 Query: 170 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGE--- 226 RGQR + A GK+ LL + + + + V++V LI ER EV + GE Sbjct: 6683 RGQRVGLFAGSGVGKSTLLGMMTRFTSAD----VIVVGLIGERGREVRDFVETTLGEEGL 6516 Query: 227 ----VVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASG 282 VVA+ D P + A A+ + +V++L+DS+TR A+A + + G Sbjct: 6515 RRAVVVAAPADRPPLARLHGAYRATAIAEWFRDQGLNVLLLMDSLTRFAQAQREIGLSVG 6336 Query: 283 K-VLTGGVDANALHRPKRFFGAARNVEEG-GSLTIIATALIDTGSKMDEVIYEEFKGTGN 340 + T G + + A N +G GS+T T L + G + I + + + Sbjct: 6335 EPPTTRGYPPSVFAKLPALVERAGNGAKGRGSITAFYTVLTE-GDDPQDPIADAARAILD 6159 Query: 341 MELHLSRKIAEKRVFPAIDYNRSGTR 366 + LSR++A+ ++PAID S +R Sbjct: 6158 GHILLSRRVADSGLYPAIDLESSVSR 6081 >AE012153 AE008922 |AE012153| Xanthomonas campestris pv. campestris str. ATCC 33913, section 61 of 460 of the complete genome. Length = 11990 Score = 41.2 bits (95), Expect = 2e-04 Identities = 53/234 (22%), Positives = 92/234 (39%), Gaps = 14/234 (5%) Frame = +2 Query: 148 ERGNGSTEDLTA--RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLM 205 E + STE L +V+DL P +G + + GKT+ + + +IA H + Sbjct: 5915 EDQSSSTELLETGIKVIDLMCPFAKGGKVGLFGGAGVGKTVNMMELINNIAKAHSGLSVF 6094 Query: 206 VLLIDERPE------EVTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHK-- 257 + + E E+ + L K +V +EP ++VA + A+ + K Sbjct: 6095 AGVGERTREGNDFYHEMKDSNVLDKVAMVYGQMNEPPGNRLRVALTGLTMAEYFRDEKDE 6274 Query: 258 ----KDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSL 313 KDV++ +D+I R A V G++ + L + GS+ Sbjct: 6275 NGKGKDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQERITSTKSGSI 6454 Query: 314 TIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRK 367 T I + D F + + LSR IA ++PA+D S +R+ Sbjct: 6455 TSIQAVYVPADDLTDPSPATTFAHLDST-VTLSRNIASLGIYPAVDPLDSTSRQ 6613 Score = 37.4 bits (85), Expect = 0.003 Identities = 29/121 (23%), Positives = 52/121 (42%), Gaps = 5/121 (4%) Frame = +2 Query: 162 LDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVL-----LIDERPEEV 216 +D PIGRGQR L++ + GKT L + + CV + + + ++ Sbjct: 3386 VDAMIPIGRGQRELVIGDRQTGKTALAIDAVINQKGTGIKCVYVAIGQKASTVANIVRKL 3565 Query: 217 TEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNT 276 E L VVA+T E A+ + ++ +D +I+ D +++ A AY Sbjct: 3566 EENGALAHTVVVAATASESAAMQYISPYAGCTMGEYFMDRGEDALIVYDDLSKQAVAYRQ 3745 Query: 277 V 277 + Sbjct: 3746 I 3748 >AE012366 AE008922 |AE012366| Xanthomonas campestris pv. campestris str. ATCC 33913, section 274 of 460 of the complete genome. Length = 10585 Score = 28.5 bits (62), Expect = 1.6 Identities = 18/45 (40%), Positives = 25/45 (55%) Frame = -1 Query: 269 RLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSL 313 R ARA + PA+G+ TGG A+ RP+ GA R+ G +L Sbjct: 7507 RHARALSQPQPAAGRDRTGG--GCAVCRPRHLAGAVRSPGTGAAL 7379 >AE012207 AE008922 |AE012207| Xanthomonas campestris pv. campestris str. ATCC 33913, section 115 of 460 of the complete genome. Length = 13425 Score = 27.7 bits (60), Expect = 2.7 Identities = 20/54 (37%), Positives = 24/54 (44%), Gaps = 3/54 (5%) Frame = -2 Query: 133 FENLTPLHANSRLRMERGN-GSTEDLTARVLD--LASPIGRGQRGLIVAPPKAG 183 F L LH+ RLRM+R G D T +V +A R G PPK G Sbjct: 2963 FGQLCMLHSGQRLRMQRRTAGQRSDATIQVRQHVIAVLYRRAHHGRTRPPPKLG 2802 >AE012197 AE008922 |AE012197| Xanthomonas campestris pv. campestris str. ATCC 33913, section 105 of 460 of the complete genome. Length = 11537 Score = 26.9 bits (58), Expect = 4.7 Identities = 16/42 (38%), Positives = 25/42 (59%) Frame = -2 Query: 127 ARNKILFENLTPLHANSRLRMERGNGSTEDLTARVLDLASPI 168 +R IL + ++ + SR+ G G +++LTAR D ASPI Sbjct: 3700 SRRMILPKMVSVIGRESRI----GIGESQELTARASDFASPI 3587 Database: xc Posted date: Sep 25, 2007 7:19 PM Number of letters in database: 5,103,728 Number of sequences in database: 460 Lambda K H 0.319 0.136 0.381 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 460 Number of Hits to DB: 1,996,800 Number of extensions: 27447 Number of successful extensions: 177 Number of sequences better than 10.0: 7 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 8 Length of query: 419 Length of database: 1,701,242 Length adjustment: 90 Effective length of query: 329 Effective length of database: 1,659,842 Effective search space: 546088018 Effective search space used: 546088018 Neighboring words threshold: 13 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 46 (22.3 bits)