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= 0001.0002.p
         (368 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309348|ref|YP_003773440.1| DNA polymerase III subunit beta...   750   0.0  

>gi|300309348|ref|YP_003773440.1| DNA polymerase III subunit beta
           [Herbaspirillum seropedicae SmR1]
          Length = 368

 Score =  750 bits (1936), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 367/368 (99%), Positives = 368/368 (100%)

Query: 1   MQLVKTQRDTLLRPLQIVSGIVERRHTLPILANILIRKDGEKVSFLSTDIEVQITTHADV 60
           MQLVKTQRDTLLRPLQIVSGIVERRHTLPILANILIRKDGEKVSFLSTDIEVQITTHADV
Sbjct: 1   MQLVKTQRDTLLRPLQIVSGIVERRHTLPILANILIRKDGEKVSFLSTDIEVQITTHADV 60

Query: 61  GSGSEATATTVAARKLLDILRALPDSGEVSISLSNKRLTVQSGKSRFALQTLAAEEFPTV 120
           GSGSEATATTVAARKLLDILRALPDSGEVSISLSNKRLTVQSGKSRFALQTLAAEEFPTV
Sbjct: 61  GSGSEATATTVAARKLLDILRALPDSGEVSISLSNKRLTVQSGKSRFALQTLAAEEFPTV 120

Query: 121 AQAEHYNAQVNLPQKTLKHLFNMVHFAMAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLA 180
           AQAEHYNAQVNLPQKTLKHLFNMVHFAMAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLA
Sbjct: 121 AQAEHYNAQVNLPQKTLKHLFNMVHFAMAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLA 180

Query: 181 FCQVETEQDFPRQEVIIPRKTIIELQRLLDDSDEEVQLQIANNQVKLTFADIELISKLVE 240
           FCQVETE+DFPRQEVIIPRKTIIELQRLLDDSDEEVQLQIANNQVKLTFADIELISKLVE
Sbjct: 181 FCQVETEEDFPRQEVIIPRKTIIELQRLLDDSDEEVQLQIANNQVKLTFADIELISKLVE 240

Query: 241 GKFPDYTRVVPKGYKNSFTISRDQLLRSLQRAAIMTSDKFKGVRWVIAPGSLKISSTNAD 300
           GKFPDYTRVVPKGYKNSFTISRDQLLRSLQRAAIMTSDKFKGVRWVIAPGSLKISSTNAD
Sbjct: 241 GKFPDYTRVVPKGYKNSFTISRDQLLRSLQRAAIMTSDKFKGVRWVIAPGSLKISSTNAD 300

Query: 301 QEEAVEELEIDYGGDTVDIGFNVSYLLDVLNNLKNDYVNIALGDANSSALITIPDNADFK 360
           QEEAVEELEIDYGGDTVDIGFNVSYLLDVLNNLKNDYVNIALGDANSSALITIPDNADFK
Sbjct: 301 QEEAVEELEIDYGGDTVDIGFNVSYLLDVLNNLKNDYVNIALGDANSSALITIPDNADFK 360

Query: 361 YVVMPMRI 368
           YVVMPMRI
Sbjct: 361 YVVMPMRI 368


  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
   0.318    0.134    0.367 

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: 1,023,718
Number of extensions: 39352
Number of successful extensions: 120
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 120
Number of HSP's successfully gapped: 1
Length of query: 368
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 281
Effective length of database: 1,207,925
Effective search space: 339426925
Effective search space used: 339426925
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 (21.7 bits)
S2: 131 (55.1 bits)