BLASTP 2.2.26 [Sep-21-2011]


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= 042654
         (270 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|P09514|MCAPS_TYYVF Minor capsid protein P3-RTD OS=Turnip yellows virus (isolate FL-1)
           GN=ORF3/ORF5 PE=1 SV=2
          Length = 670

 Score = 31.6 bits (70), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 8/41 (19%)

Query: 70  SVVDMASRRIRYFRPCENGHYNWKQLKWLLSDARWYASNQI 110
           S+ DM S+R RY    E+ + NW  L     D+RWY+ N +
Sbjct: 249 SLYDMPSQRFRYI---EDENMNWTNL-----DSRWYSQNSL 281


>sp|P09515|MCAPS_BWYVG Minor capsid protein P3-RTD (Fragment) OS=Beet western yellows
           virus (isolate GB1) GN=ORF3/ORF5 PE=3 SV=2
          Length = 673

 Score = 31.6 bits (70), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 8/41 (19%)

Query: 70  SVVDMASRRIRYFRPCENGHYNWKQLKWLLSDARWYASNQI 110
           S+ DM S+R RY    E+ + NW  L     D+RWY+ N +
Sbjct: 248 SLYDMPSQRFRYI---EDENMNWTNL-----DSRWYSQNSL 280


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.321    0.133    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 105,194,910
Number of Sequences: 539616
Number of extensions: 4373898
Number of successful extensions: 7949
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 7948
Number of HSP's gapped (non-prelim): 7
length of query: 270
length of database: 191,569,459
effective HSP length: 116
effective length of query: 154
effective length of database: 128,974,003
effective search space: 19861996462
effective search space used: 19861996462
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.7 bits)