BLASTP 2.2.18 [Mar-02-2008]


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= 0004.0001.p
         (498 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310312|ref|YP_003774404.1| hypothetical protein Hsero_0979...   105   1e-23

>gi|300310312|ref|YP_003774404.1| hypothetical protein Hsero_0979
           [Herbaspirillum seropedicae SmR1]
          Length = 613

 Score =  105 bits (261), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 57/145 (39%), Positives = 79/145 (54%)

Query: 293 MKSADLPRSNDPDRLAQALKATDYAWGNGPSPFASLTRNEVVAIYYDDSGTYTRDERMAA 352
           +  A+LP S +P RLA+A +AT+  +G   +PFA L R E+ AI YDDSG YT +ER AA
Sbjct: 120 LADAELPPSQEPQRLARARQATESLYGRAANPFAGLGRAELSAIVYDDSGAYTINERYAA 179

Query: 353 VKQLNEIDRNLWDGLTTRAANTGDWREVNEMGLKNYDDLLPIEKMRYPANYKMQLQQLLA 412
             Q  E+D+  W  +  RA  +G+W+ V    L  Y  L  +E+  YP NY   LQQ L 
Sbjct: 180 ANQRTELDQRFWAPVFQRALESGNWQPVITAALVFYVSLSALERTAYPDNYPQLLQQYLD 239

Query: 413 YDNAKAGGALSKEQKKTLLEMMDAL 437
               +    L   Q+  L  M++ L
Sbjct: 240 LYRLQPQAVLPAPQQADLARMLETL 264



 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/120 (39%), Positives = 71/120 (59%), Gaps = 6/120 (5%)

Query: 94  DAEVPNTDDPTLLARAKQATDSINGKGANPFAGLSRDQLALIAYDEGGSFTVNERKAALD 153
           DAE+P + +P  LARA+QAT+S+ G+ ANPFAGL R +L+ I YD+ G++T+NER AA +
Sbjct: 122 DAELPPSQEPQRLARARQATESLYGRAANPFAGLGRAELSAIVYDDSGAYTINERYAAAN 181

Query: 154 EAQNQESQWRQQTFAKAMSAYKGGEGANSREAGKQLLDHLKSLSPIEQAQYPQSYAVQLQ 213
           +    + ++    F +A+      E  N +      L    SLS +E+  YP +Y   LQ
Sbjct: 182 QRTELDQRFWAPVFQRAL------ESGNWQPVITAALVFYVSLSALERTAYPDNYPQLLQ 235


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.308    0.123    0.340 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,428,057
Number of extensions: 56377
Number of successful extensions: 180
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 2
Length of query: 498
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 409
Effective length of database: 1,198,455
Effective search space: 490168095
Effective search space used: 490168095
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 132 (55.5 bits)