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= 0001.1416.p
         (241 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310247|ref|YP_003774339.1| hypothetical protein Hsero_0914...   146   2e-36

>gi|300310247|ref|YP_003774339.1| hypothetical protein Hsero_0914
           [Herbaspirillum seropedicae SmR1]
          Length = 240

 Score =  146 bits (368), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 88/209 (42%), Positives = 121/209 (57%), Gaps = 13/209 (6%)

Query: 40  LDEWLLKGNTKDEAYRYEVFDSAGPTTAAIAVLTESLKTTVDP----KIVSMWNGKEGPE 95
           L++W    +T D A R   FD  GP+ AA+A+  E  K   DP    +I+ +WNGKE   
Sbjct: 38  LEDWCPPADTPDNARRNVAFDKNGPSPAAVAIFHEEEKA--DPSEKFRILGVWNGKEDDG 95

Query: 96  GASLQYVGRVAPETSM--IVLRAKPSAFSTTAEPVLKLVLKNVNLLTPSVLTLETASYFD 153
           GA L +   +A   S     L +K        E +++++   + +     + +    Y  
Sbjct: 96  GAVLLHKLSIASNHSRSSFELNSKGVQALEKKENIVQIINTLLEIFPAPFIQVSPPPYAT 155

Query: 154 KK-VFKDRPGVGWMLYLPRALNAQQVPEAGALVPVMSKDASGKDKQLGTIIVSVIDEPFS 212
           +  VF+D PGVGWMLYLP  L   QVPEA  L+PV+ KD    +K+ GTI+VSV +E FS
Sbjct: 156 RHAVFEDHPGVGWMLYLPEILTPAQVPEAPELIPVLDKD----NKRKGTIVVSVPNETFS 211

Query: 213 DENSEHVKIANAIEIRLVDQDLLPRFADL 241
            +N EHVK+ANAIEIRL DQDLLPRF++L
Sbjct: 212 VKNKEHVKVANAIEIRLADQDLLPRFSNL 240


  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
   0.316    0.133    0.382 

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: 720,361
Number of extensions: 26740
Number of successful extensions: 82
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 1
Length of query: 241
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 158
Effective length of database: 1,226,865
Effective search space: 193844670
Effective search space used: 193844670
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 129 (54.3 bits)