BLASTP 2.2.21 [Jun-14-2009]


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= HSLV_ECOLI P0A7B8 ATP-dependent protease hslV (3.4.25.-) (Heat
shock protein hslV)
         (176 letters)

Database: base 
           13 sequences; 610 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

D89965_13 [375 - 1] (REVERSE SENSE) Rattus norvegicus mRNA for R...   224   1e-63
D89965_5 [19 - 432] Rattus norvegicus mRNA for RSS, complete cds.      15   1.5  

>D89965_13 [375 - 1] (REVERSE SENSE) Rattus norvegicus mRNA for RSS,
           complete cds.
          Length = 125

 Score =  224 bits (572), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 113/125 (90%), Positives = 113/125 (90%)

Query: 1   MTTIVSVRRNGHVVIAGDGQATLGNTVMKGNVKKVRRLYNDKVIXXXXXXXXXXXXLFEL 60
           MTTIVSVRRNGHVVIAGDGQATLGNTVMKGNVKKVRRLYNDKVI            LFEL
Sbjct: 1   MTTIVSVRRNGHVVIAGDGQATLGNTVMKGNVKKVRRLYNDKVIAGFAGGTADAFTLFEL 60

Query: 61  FERKLEMHQGHLVKAAVELAKDWRTDRMLRKLEALLAVADETASLIITGNGDVVQPENDL 120
           FERKLEMHQGHLVKAAVELAKDWRTDRMLRKLEALLAVADETASLIITGNGDVVQPENDL
Sbjct: 61  FERKLEMHQGHLVKAAVELAKDWRTDRMLRKLEALLAVADETASLIITGNGDVVQPENDL 120

Query: 121 IAIGS 125
           IAIGS
Sbjct: 121 IAIGS 125


>D89965_5 [19 - 432] Rattus norvegicus mRNA for RSS, complete cds.
          Length = 138

 Score = 15.0 bits (27), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 4/7 (57%), Positives = 5/7 (71%)

Query: 12 HVVIAGD 18
          HV + GD
Sbjct: 7  HVTVTGD 13


  Database: base
    Posted date:  Oct 31, 2009 12:04 PM
  Number of letters in database: 610
  Number of sequences in database:  13
  
Lambda     K      H
   0.318    0.134    0.372 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13
Number of Hits to DB: 251
Number of extensions: 5
Number of successful extensions: 2
Number of sequences better than 10.0: 2
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 2
Length of query: 176
Length of database: 610
Length adjustment: 23
Effective length of query: 153
Effective length of database: 311
Effective search space:    47583
Effective search space used:    47583
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: 20 (12.1 bits)
S2: 20 (12.3 bits)