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= P00864, test sequence
         (883 letters)

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

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE006090|AE006090 Pasteurella multocida subsp. multocida st...  1127   0.0  
embl|AE006190|AE006190 Pasteurella multocida subsp. multocida st...    30   0.77 
embl|AE006208|AE006208 Pasteurella multocida subsp. multocida st...    26   8.6  

>embl|AE006090|AE006090 Pasteurella multocida subsp. multocida str.
            Pm70 section 57 of 204 of the complete genome.
          Length = 9961

 Score = 1127 bits (2914), Expect = 0.0
 Identities = 561/886 (63%), Positives = 682/886 (76%), Gaps = 3/886 (0%)
 Frame = -2

Query: 1    MNEQYSALRSNVSMLGKVLGETIKDALGEHILERVETIRKLSKSSRAGNDANRQELLTTL 60
            M +QYS +R+N+SMLG+ LGETI DA G  ILE +E IR LS++SR G+D  R  LL TL
Sbjct: 6840 MIQQYSTMRNNISMLGRFLGETISDAQGSDILELIENIRVLSRNSRHGDDQARNALLNTL 6661

Query: 61   QNLSNDELLPVARAFSQFLNLANTAEQYHSISPKG-EAASNPEVIARTLRKLKNQPELSE 119
              +SN+ ++PVARAFSQFLNL N AEQY +IS    +  ++   I+   ++LK Q ++ +
Sbjct: 6660 ATISNENIIPVARAFSQFLNLTNIAEQYQTISRHHHDHVASERSISALFKRLKAQ-QVPK 6484

Query: 120  DTIKKAVESLSLELVLTAHPTEITRRTLIHKMVEVNACLKQLDNKDIADYEHNQLMRRLR 179
            + + + V+ L +ELVLTAHPTE+TRR+L+HK VE+N CL +L++ D+ D E   + RRL 
Sbjct: 6483 ENVMETVQKLLIELVLTAHPTEVTRRSLVHKHVEINKCLSKLEHTDLTDAERKAIERRLL 6304

Query: 180  QLIAQSWHTDEIRKLRPSPVDEAKWGFAVVENSLWQGVPXXXXXXXXXXXXXXGYKLPVE 239
            QLIAQ+WHT+EIR  RP+P +EAKWGFAV+ENSLWQ VP              G+ LPVE
Sbjct: 6303 QLIAQAWHTNEIRTQRPTPFEEAKWGFAVIENSLWQAVPEFLRHLNTSAVEYFGFHLPVE 6124

Query: 240  FVPVRFTSWMGGDRDGNPNVTADITRHVLLLSRWKATDLFLKDIQVLVSELSMVEATPEL 299
              P+RF+SWMGGDRDGNP VTA++TR VL L+RWKA DLFL DIQ L  ELS+V+ TPE 
Sbjct: 6123 LNPIRFSSWMGGDRDGNPFVTAEVTRQVLRLARWKAADLFLTDIQALSDELSVVKCTPEF 5944

Query: 300  LALVGEEGAAEPYRYLMKNLRSRLMATQAWLEARLKGEELPK--PEGLLTQNEELWEPLY 357
             A  G     EPYR ++K LRS+L AT A+ +  L     P+   E ++TQ+ +LWEPLY
Sbjct: 5943 QAKYGSH--VEPYRTVVKALRSKLTATLAYYDDLL-ANRTPRVAEEDIITQDAQLWEPLY 5773

Query: 358  ACYQSLQACGMGIIANGDLLDTLRRVKCFGVPLVRIDIRQESTRHTEALGELTRYLGIGD 417
             CYQSLQACGM IIANG LLD LRR++CFGV L R+DIRQESTRH EA+ E+TRY+G+GD
Sbjct: 5772 DCYQSLQACGMRIIANGLLLDCLRRIRCFGVTLSRLDIRQESTRHAEAIAEITRYIGLGD 5593

Query: 418  YESWSEADKQAFLIRELNSKRPLLPRNWQPSAETREVLDTCQVIAEAPQGSIAAYVISMA 477
            Y  WSE+DKQAFLI+EL+S+RPLLPR WQPSA T+EVLDTC+VIAE P+G I+ Y+ISMA
Sbjct: 5592 YAQWSESDKQAFLIKELSSRRPLLPREWQPSAATQEVLDTCRVIAEQPEGVISCYIISMA 5413

Query: 478  KTPSDVLAVHLLLKEAGIGFAMPVAPLFETLDDLNNANDVMTQLLNIDWYRGLIQGKQMV 537
            KT SDVLAVHLLLKE+G+ + +PV PLFETLDDL  +  VM++L NI WYRG+I  KQMV
Sbjct: 5412 KTASDVLAVHLLLKESGVPYHLPVVPLFETLDDLRASEQVMSELFNIGWYRGVINNKQMV 5233

Query: 538  MIGYSDSAKDAGVMAASWAQYQAQDALIKTCEKAGIELTLFHXXXXXXXXXXAPAHAALL 597
            MIGYSDSAKDAG+MAASWAQY AQ+AL+  C+K  IELTLFH          APAHAALL
Sbjct: 5232 MIGYSDSAKDAGMMAASWAQYCAQEALVNLCDKCNIELTLFHGRGGTIGRGGAPAHAALL 5053

Query: 598  SQPPGSLKGGLRVTEQGEMIRFKYGLPEITVSSLSLYTGAILEANLLPPPEPKESWRRIM 657
            SQPP SLK GLRVTEQGEMIRFK GLP + V SL LY  AILEANLLPPPEPK  WR +M
Sbjct: 5052 SQPPRSLKNGLRVTEQGEMIRFKLGLPAVAVESLGLYASAILEANLLPPPEPKAQWRTVM 4873

Query: 658  DELSVISCDVYRGYVRENKDFVPYFRSATPEQELGKLPLGSRPAKRRPTGGVESLRAIPW 717
            DELS ISC +YR  VR  KDFVPYFR+ATPEQEL KLPLGSRPAKR P GGVESLRAIPW
Sbjct: 4872 DELSTISCQIYRDVVRGEKDFVPYFRAATPEQELSKLPLGSRPAKRNPNGGVESLRAIPW 4693

Query: 718  IFAWTQNRLMLPAWLGAGTALQKVVEDGKQSELEAMCRDWPFFSTRLGMLEMVFAKADLW 777
            IFAW QNRLMLPAWLGAG +L++ +E G+++ +E MC+ WPFFSTR+GMLEMVF+K D W
Sbjct: 4692 IFAWMQNRLMLPAWLGAGASLRQAIEKGQKTVIEDMCKTWPFFSTRIGMLEMVFSKTDTW 4513

Query: 778  LAEYYDQRLVDKALWPLGKELRNLQEEDIKVVLAIANDSHLMADLPWIAESIQLRNIYTD 837
            L+E+YDQ LVD ALW LG+ LR   ++DI+ VL+++++  LM+DLPWIAESI LRN+YTD
Sbjct: 4512 LSEHYDQHLVDPALWYLGESLREQLKQDIQTVLSLSHEDQLMSDLPWIAESIALRNVYTD 4333

Query: 838  PLNVLQAELLHRSRQAEKEGQEPDPRVEQALMVTIAGIAAGMRNTG 883
            PLN+LQ ELL R R   +    P+P VEQALM+TI G+AAGMRNTG
Sbjct: 4332 PLNLLQVELLRRLR---RNPDNPNPDVEQALMITITGVAAGMRNTG 4204


>embl|AE006190|AE006190 Pasteurella multocida subsp. multocida str.
            Pm70 section 157 of 204 of the complete genome.
          Length = 10728

 Score = 29.6 bits (65), Expect = 0.77
 Identities = 15/40 (37%), Positives = 21/40 (52%)
 Frame = +2

Query: 150  KMVEVNACLKQLDNKDIADYEHNQLMRRLRQLIAQSWHTD 189
            K   VN  L  LDNK   + + NQ + ++ Q I +SW  D
Sbjct: 7070 KRKRVNQFLGSLDNKIDLNTQTNQTLEQIAQAIFKSWFVD 7189


>embl|AE006208|AE006208 Pasteurella multocida subsp. multocida str.
            Pm70 section 175 of 204 of the complete genome.
          Length = 8850

 Score = 26.2 bits (56), Expect = 8.6
 Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
 Frame = +3

Query: 528  RGLIQGKQMVMIG--YSDSAKDAGVMAASWAQYQ 559
            RG +QG  + + G  Y +   D G+   SW QYQ
Sbjct: 4218 RGKVQGYALGVYGTWYQNPNDDTGLYIDSWLQYQ 4319


  Database: pm
    Posted date:  Oct 31, 2007  1:19 PM
  Number of letters in database: 2,269,587
  Number of sequences in database:  204
  
Lambda     K      H
   0.317    0.133    0.393 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 204
Number of Hits to DB: 1,963,385
Number of extensions: 26195
Number of successful extensions: 105
Number of sequences better than 10.0: 3
Number of HSP's gapped: 101
Number of HSP's successfully gapped: 3
Length of query: 883
Length of database: 756,529
Length adjustment: 90
Effective length of query: 793
Effective length of database: 738,169
Effective search space: 585368017
Effective search space used: 585368017
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)