TBLASTN 2.2.10 [Oct-19-2004]


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= ASSY_ECOLI 
         (447 letters)

Database: pm 
           204 sequences; 2,269,587 total letters

Searching.done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE006120|AE006120 Pasteurella multocida subsp. multocida st...   718   0.0  
embl|AE006151|AE006151 Pasteurella multocida subsp. multocida st...    25   6.7  

>embl|AE006120|AE006120 Pasteurella multocida subsp. multocida str.
            Pm70 section 87 of 204 of the complete genome.
          Length = 11573

 Score =  718 bits (1853), Expect = 0.0
 Identities = 356/438 (81%), Positives = 392/438 (89%), Gaps = 1/438 (0%)
 Frame = -3

Query: 3    TILKHLPVGQRIGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYDAIPRRAME 62
            TIL+ LP GQ++GIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDY+AIPR+AME
Sbjct: 3591 TILQQLPKGQKVGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYNAIPRKAME 3412

Query: 63   YGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDG 122
            YGAENARLIDCR QL  EGIAAIQ GAFH +TGG+TYFNTTPLGRAVTGTMLV+AM+ED 
Sbjct: 3411 YGAENARLIDCRAQLAHEGIAAIQSGAFHISTGGVTYFNTTPLGRAVTGTMLVSAMREDD 3232

Query: 123  VNIWGDGSTYKGNDIERFYRYGLLTNAELQIYKPWLDTDFIDELGGRHEMSEFMIACGFD 182
            VNIWGDGST+KGNDIERFYRYGLLTN  L+IYKPWLD  FI+ELGGRHEMSEF+IA GF+
Sbjct: 3231 VNIWGDGSTFKGNDIERFYRYGLLTNPNLKIYKPWLDNQFIEELGGRHEMSEFLIANGFE 3052

Query: 183  YKMSVEKAYSTDSNMLGATHEAKDLEYLNSSVKIVNPIMGVKFWDESVKIPAEEVTVRFE 242
            YKMSVEKAYSTDSNMLGATHEAKDLE+LN+ ++IV PIMGV FW + V++ AEEVTVRFE
Sbjct: 3051 YKMSVEKAYSTDSNMLGATHEAKDLEFLNTGIRIVKPIMGVAFWRDDVEVKAEEVTVRFE 2872

Query: 243  QGHPVALNGKTFSDDVEMMLEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHI 302
            +G PVALNGKTFSD VE+ LEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHI
Sbjct: 2871 EGIPVALNGKTFSDHVELFLEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHI 2692

Query: 303  AYERLLTGIHNEDTIEQYHAHGRQLGRLLYQGRWFDSQALMLRDSLQRWVASQITGEVTL 362
            AYERL++GIHNEDTIEQY  +G +LGRLLYQGRWFD QALMLR++ QRWVA  ITGEVT 
Sbjct: 2691 AYERLVSGIHNEDTIEQYRINGLRLGRLLYQGRWFDPQALMLRETAQRWVARAITGEVTF 2512

Query: 363  ELRRGNDYSILNTVSENLTYKPERLTMEKGDSV-FSPDDRIGQLTMRNLDITDTREKLFG 421
            ELRRGNDYSILNT S NLTY PERL+MEK ++  F P DRIGQLTMRNLDI DTR+KL  
Sbjct: 2511 ELRRGNDYSILNTESPNLTYMPERLSMEKVENAPFDPVDRIGQLTMRNLDIVDTRDKLGI 2332

Query: 422  YAKTGLLSSSAASGVPQV 439
            Y +TGLLS S  S +PQ+
Sbjct: 2331 YTQTGLLSISKDSFLPQL 2278


>embl|AE006151|AE006151 Pasteurella multocida subsp. multocida str.
            Pm70 section 118 of 204 of the complete genome.
          Length = 10890

 Score = 25.4 bits (54), Expect = 6.7
 Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
 Frame = -1

Query: 313  NEDTIEQYH----AHGRQLGRLLYQGRWFDSQALMLRDSLQRWV 352
            NE T ++ H    +H   +G   Y+  W D+   +LRD  + W+
Sbjct: 7212 NEITNKRNHKGTGSHEEPVGFRTYRISWIDNLCSLLRDPCE*WI 7081


  Database: pm
    Posted date:  Nov 14, 2006  2:54 PM
  Number of letters in database: 2,269,587
  Number of sequences in database:  204
  
Lambda     K      H
   0.317    0.135    0.397 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 958,708
Number of Sequences: 204
Number of extensions: 11814
Number of successful extensions: 50
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 39
Number of HSP's gapped (non-prelim): 11
length of query: 447
length of database: 756,529
effective HSP length: 85
effective length of query: 362
effective length of database: 739,189
effective search space: 267586418
effective search space used: 267586418
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)