TBLASTN 2.2.21 [Jun-14-2009]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= MOEB_ECOLI P12282 Molybdopterin biosynthesis protein moeB
         (249 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AE006106 Pasteurella multocida subsp. multocida str. Pm70 sectio...   307   4e-85
AE006132 Pasteurella multocida subsp. multocida str. Pm70 sectio...    65   4e-12

>AE006106 Pasteurella multocida subsp. multocida str. Pm70 section 73
            of 204 of the complete genome.
          Length = 12778

 Score =  307 bits (786), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 145/238 (60%), Positives = 180/238 (75%)
 Frame = +3

Query: 1    MAELSDQEMLRYNRQIILRGFDFDGQEALKDSRVLIVGLGGLGCAASQYLASAGVGNLTL 60
            M ELS QE LRYNRQI+L+  DF+GQE LK S++LIVGLGGLGCAASQYL +AGVG+LTL
Sbjct: 2199 MTELSYQEELRYNRQIMLKAVDFEGQETLKQSKMLIVGLGGLGCAASQYLTTAGVGHLTL 2378

Query: 61   LDFDTVSLSNLQRQTLHSDATVGQPKVESARDALTRINPHIAITPVNXXXXXXXXXXXXX 120
            LDFDTVSLSNLQRQ LH D+ +  PKV+SA+ +L R+NPHI I  +N             
Sbjct: 2379 LDFDTVSLSNLQRQVLHDDSRLAMPKVDSAKLSLQRLNPHIQIDTINAKLSTEKLAEIIP 2558

Query: 121  XXXXVLDCTDNVAVRNQLNAGCFAAKVPLVSGAAIRMEGQITVFTYQDGEPCYRCLSRLF 180
                +LDCTDN+ +RNQL+  C  AKVPLVSGAAIR+EGQ+TVFTYQ+  P YR LS+LF
Sbjct: 2559 HFDVILDCTDNIEIRNQLDQVCQQAKVPLVSGAAIRLEGQVTVFTYQENTPTYRTLSQLF 2738

Query: 181  GENALTCVEAGVMAPLIGVIGSLQAMEAIKMLAGYGKPASGKIVMYDAMTCQFREMKL 238
            GEN L+CVEAGV+AP++G++GS+QA+EAIK+    GK   G+++M D MT   RE+K 
Sbjct: 2739 GENTLSCVEAGVLAPIVGIVGSIQALEAIKVRLNIGKNLCGRLLMIDGMTMNVREIKF 2912


>AE006132 Pasteurella multocida subsp. multocida str. Pm70 section 99
            of 204 of the complete genome.
          Length = 11793

 Score = 65.1 bits (157), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 39/136 (28%), Positives = 65/136 (47%), Gaps = 1/136 (0%)
 Frame = -2

Query: 17   ILRGFDFDGQEALKDSRVLIVGLGGLGCAASQYLASAGVGNLTLLDFDTVSLSNLQRQTL 76
            I R +  +G   LK S V ++G+GG+G    + LA +GVG LTL+D D + ++N+ RQ  
Sbjct: 4166 IARLYSTEGLTRLKQSHVCVIGIGGVGSWCVEALARSGVGKLTLIDMDDICVTNINRQIH 3987

Query: 77   HSDATVGQPKVESARDALTRINPHIAITPVNXXXXXXXXXXXXXX-XXXVLDCTDNVAVR 135
                 +GQ K E  +  +  INP   +  ++                  V+D  D+V  +
Sbjct: 3986 ALSGNIGQLKTEVMKARVALINPECEVAIIDDFISSENLADYLSKGYDYVIDAIDHVKTK 3807

Query: 136  NQLNAGCFAAKVPLVS 151
              L A C   K+ +++
Sbjct: 3806 AALIAYCKRHKINMIT 3759


  Database: pm
    Posted date:  Nov 5, 2009  1:39 AM
  Number of letters in database: 2,269,587
  Number of sequences in database:  204
  
Lambda     K      H
   0.322    0.137    0.401 

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: 521,688
Number of extensions: 5980
Number of successful extensions: 37
Number of sequences better than 1.0e-03: 2
Number of HSP's gapped: 36
Number of HSP's successfully gapped: 2
Length of query: 249
Length of database: 756,529
Length adjustment: 79
Effective length of query: 170
Effective length of database: 740,413
Effective search space: 125870210
Effective search space used: 125870210
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 (21.9 bits)
S2: 44 (21.6 bits)