Query= Escherichia coli K-12 MG1655 section 1 of 400 of the complete
genome
         (720 letters)

>gi|1786181|gb|AE000111.1|AE000111 Escherichia coli K-12 MG1655
           section 1 of 400 of the complete genome
          Length = 720

 Score =  515 bits (1118), Expect = e-151
 Identities = 229/240 (95%), Positives = 229/240 (95%)
 Frame = +1 / +1

                                                                       
Query: 1   SFSF*LQRAICLCVD*KKSV**QLLNWLPAVSKLKFY*LRSLNTLTNIGIAHRQIKITEY 180
           SFSF*LQRAICLCVD*KKSV**QLLNWLPAVSKLKFY*LRSLNTLTNIGIAHRQIKITEY
Sbjct: 1   SFSF*LQRAICLCVD*KKSV**QLLNWLPAVSKLKFY*LRSLNTLTNIGIAHRQIKITEY 180

                                                                       
Query: 181 TTSMKRISXXXXXXXXXXXGNGAG*RVQETQKKART*QCGLFFSTKGNEVTTMRVLKFGG 360
           TTSMKRIS           GNGAG*RVQETQKKART*QCGLFFSTKGNEVTTMRVLKFGG
Sbjct: 181 TTSMKRISTTITTTITITTGNGAG*RVQETQKKART*QCGLFFSTKGNEVTTMRVLKFGG 360

                                                                       
Query: 361 TSVANAERFLRVADILESNARQGQVATVLSAPAKITNHLVAMIEKTISGQDALPNISDAE 540
           TSVANAERFLRVADILESNARQGQVATVLSAPAKITNHLVAMIEKTISGQDALPNISDAE
Sbjct: 361 TSVANAERFLRVADILESNARQGQVATVLSAPAKITNHLVAMIEKTISGQDALPNISDAE 540

                                                                       
Query: 541 RIFAELLTGLAAAQPGFPLAQLKTFVDQEFAQIKHVLHGISLLGQCPDSINAALICRGEK 720
           RIFAELLTGLAAAQPGFPLAQLKTFVDQEFAQIKHVLHGISLLGQCPDSINAALICRGEK
Sbjct: 541 RIFAELLTGLAAAQPGFPLAQLKTFVDQEFAQIKHVLHGISLLGQCPDSINAALICRGEK 720



 Score =  508 bits (1103), Expect = e-149
 Identities = 218/240 (90%), Positives = 218/240 (90%)
 Frame = -1 / -1

                                                                       
Query: 720 FLATANQRSVDAIRALPQQTNAMQDMFYLGKFLIDESFQLRQREPRLGGGESRQKFGKNT 541
           FLATANQRSVDAIRALPQQTNAMQDMFYLGKFLIDESFQLRQREPRLGGGESRQKFGKNT
Sbjct: 720 FLATANQRSVDAIRALPQQTNAMQDMFYLGKFLIDESFQLRQREPRLGGGESRQKFGKNT 541

                                                                       
Query: 540 FGIADIG*SILAANGFFNHRHQVVXXXXXXXXXXGHLPLPGIAFQNIGNTQKTFCICH*C 361
           FGIADIG*SILAANGFFNHRHQVV          GHLPLPGIAFQNIGNTQKTFCICH*C
Sbjct: 540 FGIADIG*SILAANGFFNHRHQVVGDFGGGREDGGHLPLPGIAFQNIGNTQKTFCICH*C 361

                                                                       
Query: 360 TAELQHSHGCYLVTFGRKKKPALSGAGFFLCFLYASARTVTCXXXXXXXXXXXXAFHGCC 181
           TAELQHSHGCYLVTFGRKKKPALSGAGFFLCFLYASARTVTC            AFHGCC
Sbjct: 360 TAELQHSHGCYLVTFGRKKKPALSGAGFFLCFLYASARTVTCGNGDGGGNGGANAFHGCC 181

                                                                       
Query: 180 VLCNFYLSVRYAYIG*SI**PKSIKF*FTHGR*PVQKLLSDTLFLIHTETYCPLQSE*KA 1
           VLCNFYLSVRYAYIG*SI**PKSIKF*FTHGR*PVQKLLSDTLFLIHTETYCPLQSE*KA
Sbjct: 180 VLCNFYLSVRYAYIG*SI**PKSIKF*FTHGR*PVQKLLSDTLFLIHTETYCPLQSE*KA 1



 Score =  416 bits (902), Expect(2) = e-160
 Identities = 161/161 (100%), Positives = 161/161 (100%)
 Frame = +3 / +3

                                                                       
Query: 237 R*RCGLTRTGNTEKSPHLTVRAFFFDQR*RGNNHASVEVRRYISGKCRTFSACCRYSGKQ 416
           R*RCGLTRTGNTEKSPHLTVRAFFFDQR*RGNNHASVEVRRYISGKCRTFSACCRYSGKQ
Sbjct: 237 R*RCGLTRTGNTEKSPHLTVRAFFFDQR*RGNNHASVEVRRYISGKCRTFSACCRYSGKQ 416

                                                                       
Query: 417 CQAGAGGHRPLCPRQNHQPPGGDD*KNH*RPGCFTQYQRCRTYFCRTFDGTRRRPAGVPA 596
           CQAGAGGHRPLCPRQNHQPPGGDD*KNH*RPGCFTQYQRCRTYFCRTFDGTRRRPAGVPA
Sbjct: 417 CQAGAGGHRPLCPRQNHQPPGGDD*KNH*RPGCFTQYQRCRTYFCRTFDGTRRRPAGVPA 596

                                                    
Query: 597 GAIENFRRSGICPNKTCPAWH*FVGAVPG*HQRCADLPWRE 719
           GAIENFRRSGICPNKTCPAWH*FVGAVPG*HQRCADLPWRE
Sbjct: 597 GAIENFRRSGICPNKTCPAWH*FVGAVPG*HQRCADLPWRE 719



 Score =  389 bits (843), Expect(2) = e-153
 Identities = 161/161 (100%), Positives = 161/161 (100%)
 Frame = -2 / -2

                                                                       
Query: 719 FSPRQISAALMLSGHCPNKLMPCRTCFIWANS*STKVFNCASGNPGWAAASPVKSSAKIR 540
           FSPRQISAALMLSGHCPNKLMPCRTCFIWANS*STKVFNCASGNPGWAAASPVKSSAKIR
Sbjct: 719 FSPRQISAALMLSGHCPNKLMPCRTCFIWANS*STKVFNCASGNPGWAAASPVKSSAKIR 540

                                                                       
Query: 539 SASLILGKASWPLMVFSIIATRWLVILAGAERTVATCPCLALLSRISATRRKRSAFATDV 360
           SASLILGKASWPLMVFSIIATRWLVILAGAERTVATCPCLALLSRISATRRKRSAFATDV
Sbjct: 539 SASLILGKASWPLMVFSIIATRWLVILAGAERTVATCPCLALLSRISATRRKRSAFATDV 360

                                                    
Query: 359 PPNFNTRMVVTSLPLVEKKSPHCQVRAFFCVSCTRQPAPLP 237
           PPNFNTRMVVTSLPLVEKKSPHCQVRAFFCVSCTRQPAPLP
Sbjct: 359 PPNFNTRMVVTSLPLVEKKSPHCQVRAFFCVSCTRQPAPLP 237



 Score =  326 bits (706), Expect(2) = e-129
 Identities = 138/161 (85%), Positives = 138/161 (85%)
 Frame = +2 / +2

                                                                       
Query: 236 QVTVRADAYRKHRKKPAPDSAGFFFRPKVTR*QPCEC*SSAVHQWQMQNVFCVLPIFWKA 415
           QVTVRADAYRKHRKKPAPDSAGFFFRPKVTR*QPCEC*SSAVHQWQMQNVFCVLPIFWKA
Sbjct: 236 QVTVRADAYRKHRKKPAPDSAGFFFRPKVTR*QPCEC*SSAVHQWQMQNVFCVLPIFWKA 415

                                                                       
Query: 416 MPGRGRWXXXXXXXXXXXTTWWR*LKKPLAARMLYPISAMPNVFLPNFXXXXXXXXXXXX 595
           MPGRGRW           TTWWR*LKKPLAARMLYPISAMPNVFLPNF            
Sbjct: 416 MPGRGRWPPSSLPPPKSPTTWWR*LKKPLAARMLYPISAMPNVFLPNF*RDSPPPSRGSR 595

                                                    
Query: 596 WRN*KLSSIRNLPK*NMSCMALVCWGSARIASTLR*FAVAR 718
           WRN*KLSSIRNLPK*NMSCMALVCWGSARIASTLR*FAVAR
Sbjct: 596 WRN*KLSSIRNLPK*NMSCMALVCWGSARIASTLR*FAVAR 718



 Score =  198 bits (427), Expect(3) = e-136
 Identities = 79/79 (100%), Positives = 79/79 (100%)
 Frame = -3 / -3

                                                                       
Query: 718 SRHGKSAQR*CYPGTAPTN*CHAGHVLFGQIPDRRKFSIAPAGTPAGRRRVPSKVRQKYV 539
           SRHGKSAQR*CYPGTAPTN*CHAGHVLFGQIPDRRKFSIAPAGTPAGRRRVPSKVRQKYV
Sbjct: 718 SRHGKSAQR*CYPGTAPTN*CHAGHVLFGQIPDRRKFSIAPAGTPAGRRRVPSKVRQKYV 539

                              
Query: 538 RHR*YWVKHPGR*WFFQSS 482
           RHR*YWVKHPGR*WFFQSS
Sbjct: 538 RHR*YWVKHPGR*WFFQSS 482



 Score =  170 bits (365), Expect(3) = e-136
 Identities = 65/65 (100%), Positives = 65/65 (100%)
 Frame = -3 / -3

                                                                       
Query: 430 APAWHCFPEYRQHAENVLHLPLMYRRTSTLAWLLPRYLWSKKKARTVRCGLFSVFPVRVS 251
           APAWHCFPEYRQHAENVLHLPLMYRRTSTLAWLLPRYLWSKKKARTVRCGLFSVFPVRVS
Sbjct: 430 APAWHCFPEYRQHAENVLHLPLMYRRTSTLAWLLPRYLWSKKKARTVRCGLFSVFPVRVS 251

                
Query: 250 PHRYL 236
           PHRYL
Sbjct: 250 PHRYL 236



 Score =  155 bits (332), Expect(2) = e-153
 Identities = 65/65 (100%), Positives = 65/65 (100%)
 Frame = -3 / -3

                                                                       
Query: 196 VSWMLCTL*FLSVCALCLYWLKYLVT*VNKILIYSRQVTSSEAAIRHSFFNPHRDILPVA 17
           VSWMLCTL*FLSVCALCLYWLKYLVT*VNKILIYSRQVTSSEAAIRHSFFNPHRDILPVA
Sbjct: 196 VSWMLCTL*FLSVCALCLYWLKYLVT*VNKILIYSRQVTSSEAAIRHSFFNPHRDILPVA 17

                
Query: 16  VRMKS 2
           VRMKS
Sbjct: 16  VRMKS 2



 Score =  154 bits (330), Expect(2) = e-160
 Identities = 65/65 (100%), Positives = 65/65 (100%)
 Frame = +3 / +3

                                                                       
Query: 3   LFILTATGNMSLCGLKKECLIAASELVTCRE*IKILLT*VTKYFNQYRHSAQTDKNYRVH 182
           LFILTATGNMSLCGLKKECLIAASELVTCRE*IKILLT*VTKYFNQYRHSAQTDKNYRVH
Sbjct: 3   LFILTATGNMSLCGLKKECLIAASELVTCRE*IKILLT*VTKYFNQYRHSAQTDKNYRVH 182

                
Query: 183 NIHET 197
           NIHET
Sbjct: 183 NIHET 197



 Score =  141 bits (302), Expect(3) = e-136
 Identities = 59/59 (100%), Positives = 59/59 (100%)
 Frame = -2 / -2

                                                                      
Query: 179 YSVIFICLCAMPILVKVFSDLSQ*NFNLLTAGNQFRSCYQTLFF*STQRHIARCSQNEK 3
           YSVIFICLCAMPILVKVFSDLSQ*NFNLLTAGNQFRSCYQTLFF*STQRHIARCSQNEK
Sbjct: 179 YSVIFICLCAMPILVKVFSDLSQ*NFNLLTAGNQFRSCYQTLFF*STQRHIARCSQNEK 3



 Score =  139 bits (298), Expect(2) = e-129
 Identities = 62/62 (100%), Positives = 62/62 (100%)
 Frame = +2 / +2

                                                                       
Query: 2   AFHSDCNGQYVSVWIKKRVSDSSF*TGYLP*VN*NFIDLGH*IL*PI*A*RTDR*KLQST 181
           AFHSDCNGQYVSVWIKKRVSDSSF*TGYLP*VN*NFIDLGH*IL*PI*A*RTDR*KLQST
Sbjct: 2   AFHSDCNGQYVSVWIKKRVSDSSF*TGYLP*VN*NFIDLGH*IL*PI*A*RTDR*KLQST 181

             
Query: 182 QH 187
           QH
Sbjct: 182 QH 187



 Score = 24.9 bits (48), Expect = 0.002
 Identities = 9/12 (75%), Positives = 10/12 (83%)
 Frame = -2 / +3

                       
Query: 308 KKSPHCQVRAFF 273
           +KSPH  VRAFF
Sbjct: 273 EKSPHLTVRAFF 308



 Score = 24.9 bits (48), Expect = 0.002
 Identities = 9/13 (69%), Positives = 12/13 (92%)
 Frame = -3 / +1

                        
Query: 313 SKKKARTVRCGLF 275
           ++KKART +CGLF
Sbjct: 268 TQKKART*QCGLF 306



 Score = 24.9 bits (48), Expect = 0.002
 Identities = 9/12 (75%), Positives = 10/12 (83%)
 Frame = +3 / -2

                       
Query: 273 EKSPHLTVRAFF 308
           +KSPH  VRAFF
Sbjct: 308 KKSPHCQVRAFF 273



 Score = 24.9 bits (48), Expect = 0.002
 Identities = 9/13 (69%), Positives = 12/13 (92%)
 Frame = +1 / -3

                        
Query: 268 TQKKART*QCGLF 306
           ++KKART +CGLF
Sbjct: 313 SKKKARTVRCGLF 275



 Score = 22.1 bits (42), Expect = 0.012
 Identities = 8/12 (66%), Positives = 9/12 (74%)
 Frame = +2 / -1

                       
Query: 272 RKKPAPDSAGFF 307
           +KKPA   AGFF
Sbjct: 309 KKKPALSGAGFF 274



 Score = 22.1 bits (42), Expect = 0.012
 Identities = 8/12 (66%), Positives = 9/12 (74%)
 Frame = -1 / +2

                       
Query: 309 KKKPALSGAGFF 274
           +KKPA   AGFF
Sbjct: 272 RKKPAPDSAGFF 307



 Score = 18.5 bits (34), Expect = 0.15
 Identities = 5/6 (83%), Positives = 5/6 (83%)
 Frame = -3 / +3

                 
Query: 598 PAGTPA 581
           PAG PA
Sbjct: 579 PAGVPA 596



 Score = 18.5 bits (34), Expect = 0.15
 Identities = 5/6 (83%), Positives = 5/6 (83%)
 Frame = +3 / -3

                 
Query: 579 PAGVPA 596
           PAG PA
Sbjct: 598 PAGTPA 581



 Score = 18.0 bits (33), Expect = 0.20
 Identities = 6/14 (42%), Positives = 6/14 (42%)
 Frame = +3 / -3

                         
Query: 243 RCGLTRTGNTEKSP 284
           RCGL        SP
Sbjct: 289 RCGLFSVFPVRVSP 248



 Score = 18.0 bits (33), Expect = 0.20
 Identities = 6/14 (42%), Positives = 6/14 (42%)
 Frame = -3 / +3

                         
Query: 289 RCGLFSVFPVRVSP 248
           RCGL        SP
Sbjct: 243 RCGLTRTGNTEKSP 284



 Score = 17.6 bits (32), Expect = 0.28
 Identities = 5/6 (83%), Positives = 5/6 (83%)
 Frame = -3 / -1

                 
Query: 301 ARTVRC 284
           ARTV C
Sbjct: 252 ARTVTC 235



 Score = 15.3 bits (27), Expect = 1.4
 Identities = 5/14 (35%), Positives = 8/14 (56%)
 Frame = +1 / +3

                         
Query: 469 NHLVAMIEKTISGQ 510
           NH    + + ISG+
Sbjct: 333 NHASVEVRRYISGK 374



 Score = 15.3 bits (27), Expect = 1.4
 Identities = 5/14 (35%), Positives = 8/14 (56%)
 Frame = +3 / +1

                         
Query: 333 NHASVEVRRYISGK 374
           NH    + + ISG+
Sbjct: 469 NHLVAMIEKTISGQ 510



 Score = 14.8 bits (26), Expect = 1.9
 Identities = 8/20 (40%), Positives = 10/20 (50%)
 Frame = +1 / -1

                               
Query: 241 NGAG*RVQETQKKART*QCG 300
           +GAG  +      ART  CG
Sbjct: 291 SGAGFFLCFLYASARTVTCG 232



 Score = 14.8 bits (26), Expect = 1.9
 Identities = 2/6 (33%), Positives = 4/6 (66%)
 Frame = +2 / -3

                 
Query: 389 CVLPIF 406
           C L ++
Sbjct: 157 CALCLY 140



 Score = 14.8 bits (26), Expect = 1.9
 Identities = 2/6 (33%), Positives = 4/6 (66%)
 Frame = -3 / +2

                 
Query: 157 CALCLY 140
           C L ++
Sbjct: 389 CVLPIF 406



 Score = 14.3 bits (25), Expect = 2.6
 Identities = 6/18 (33%), Positives = 8/18 (44%)
 Frame = -2 / +2

                             
Query: 299 PHCQVRAFFCVSCTRQPA 246
           P   VRA       ++PA
Sbjct: 233 PQVTVRADAYRKHRKKPA 286



 Score = 13.4 bits (23), Expect = 4.9
 Identities = 11/31 (35%), Positives = 11/31 (35%)
 Frame = +3 / -3

                                          
Query: 57  CLIAASELVTCRE*IKILLT*VTKYFNQYRH 149
           CL     LVT    I I    VT      RH
Sbjct: 148 CLYWLKYLVT*VNKILIYSRQVTSSEAAIRH 56



 Score = 13.4 bits (23), Expect = 4.9
 Identities = 11/31 (35%), Positives = 11/31 (35%)
 Frame = -3 / +3

                                          
Query: 148 CLYWLKYLVT*VNKILIYSRQVTSSEAAIRH 56
           CL     LVT    I I    VT      RH
Sbjct: 57  CLIAASELVTCRE*IKILLT*VTKYFNQYRH 149



 Score = 13.0 bits (22), Expect = 6.7
 Identities = 5/14 (35%), Positives = 6/14 (42%)
 Frame = -3 / -2

                         
Query: 370 PLMYRRTSTLAWLL 329
           PLM        WL+
Sbjct: 506 PLMVFSIIATRWLV 465



 Score = 13.0 bits (22), Expect = 6.7
 Identities = 5/14 (35%), Positives = 6/14 (42%)
 Frame = -2 / -3

                         
Query: 506 PLMVFSIIATRWLV 465
           PLM        WL+
Sbjct: 370 PLMYRRTSTLAWLL 329



 Score = 12.5 bits (21), Expect = 9.2
 Identities = 3/5 (60%), Positives = 5/5 (100%)
 Frame = +2 / -2

                
Query: 275 KKPAP 289
           ++PAP
Sbjct: 257 RQPAP 243


Lambda     K      H
   0.318    0.135    0.401 


Matrix: BLOSUM62
Number of Hits to DB: 2790
Number of Sequences: 0
Number of extensions: 62
Number of successful extensions: 40
Number of sequences better than 10.0: 1
length of database: 240
effective HSP length: 19
effective length of database: 221
effective search space used:    48620
frameshift window, decay const: 50,  0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 0 ( 0.0 bits)
S1: 41 (21.7 bits)
