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= 0001.0123.p
         (218 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096321|ref|YP_001101396.1| 50S ribosomal protein L3 [Hermi...   380   e-107

>gi|134096321|ref|YP_001101396.1| 50S ribosomal protein L3
           [Herminiimonas arsenicoxydans]
          Length = 224

 Score =  380 bits (975), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 187/215 (86%), Positives = 202/215 (93%)

Query: 4   GLVGRKVGMMRIFTEDGDSIPVTVLDVSNNRVTQIKTPEVDGYSAVQVTFGQRRASRVVK 63
           GL+GRKVGMMRIFT+DGDSIPVTVLDVSNNRVTQIKTP+VDGYSAVQV FG RRASRV K
Sbjct: 10  GLLGRKVGMMRIFTDDGDSIPVTVLDVSNNRVTQIKTPDVDGYSAVQVAFGSRRASRVNK 69

Query: 64  AAAGHFAKAGVEAGTVLKEFRVDASKAAELKAGDVVGIGMFEAGQKVDVQGVSIGKGYAG 123
           A+AGH AKAGVEAGTVLKEFRV A+ A+ELK GDV+   +FE GQKVDVQGV+IGKGYAG
Sbjct: 70  ASAGHHAKAGVEAGTVLKEFRVAATAASELKVGDVIAASLFEVGQKVDVQGVTIGKGYAG 129

Query: 124 TIKRYNFSSGRATHGNSRSHNVPGSIGMAQDPGRVFPGKRMTGHLGDVKTTVQNLEIARV 183
           TIKR++F+SGRATHGNSRSHNVPGSIGMAQDPGRVFPGKRMTGHLGDV  T+QNLEIAR+
Sbjct: 130 TIKRHHFASGRATHGNSRSHNVPGSIGMAQDPGRVFPGKRMTGHLGDVARTMQNLEIARI 189

Query: 184 DAERQLLLVKGAVPGAKNGQVIVSPAVKVKAKKGA 218
           DA+RQLLLVKGAVPGAKNGQVIVSPAVKVKAKKGA
Sbjct: 190 DADRQLLLVKGAVPGAKNGQVIVSPAVKVKAKKGA 224


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.316    0.133    0.369 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 419,810
Number of extensions: 16945
Number of successful extensions: 58
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 1
Length of query: 218
Length of database: 1,000,347
Length adjustment: 78
Effective length of query: 140
Effective length of database: 743,337
Effective search space: 104067180
Effective search space used: 104067180
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: 127 (53.5 bits)