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= 0001.4087.p
         (227 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313509|ref|YP_003777601.1| hypothetical protein Hsero_4224...   153   9e-39

>gi|300313509|ref|YP_003777601.1| hypothetical protein Hsero_4224
           [Herbaspirillum seropedicae SmR1]
          Length = 242

 Score =  153 bits (387), Expect = 9e-39,   Method: Compositional matrix adjust.
 Identities = 131/229 (57%), Positives = 161/229 (70%), Gaps = 4/229 (1%)

Query: 1   MDKALWNFLLPHWDGSAYGGLQCLLALLALAPVIALPLLLARTAQPAQWQARLIRIADQP 60
           MD+++  FLLP W  +  GGLQ + ALL +  +I +P L+ R A PAQWQ R   ++  P
Sbjct: 14  MDRSVLGFLLPQWQAAGEGGLQLVFALLFVLALILMPWLVRRAATPAQWQQRWAALSADP 73

Query: 61  ASLPLTTTPEQLSQAVATAAERWAVVLPGLMLMLGLLGTFIGLGLAL-SAVGVPD---AQ 116
            SLP + TPEQLSQ VAT  ERWA ++PGL+LM GLLGTFIGLGLAL  A G  D   A 
Sbjct: 74  QSLPSSITPEQLSQIVATGPERWARLVPGLLLMAGLLGTFIGLGLALGEASGALDGAQAP 133

Query: 117 AALGFVIDALGSQFKSAVWGLLAFLILKSWNTVRPHEQARLAWSLATLQTLTDAAVQRQS 176
            AL  V+D LG++F+ A WG+L++LIL+ W     HEQARLAWS A L  L   AVQRQ 
Sbjct: 134 TALAAVLDTLGAKFRIAAWGILSYLILRLWWAASAHEQARLAWSAAALGALAAQAVQRQV 193

Query: 177 QQQAQQQQRLVEAITQSGNALLVAQQAEAQRAHLRHGELLDALQQTTAR 225
           QQ+  QQQRL+EAI+ +G ALL AQQAEAQRAH+RH EL+DALQ+  AR
Sbjct: 194 QQEQAQQQRLIEAISHNGQALLAAQQAEAQRAHVRHAELVDALQRQVAR 242


  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
   0.321    0.131    0.388 

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: 562,992
Number of extensions: 15916
Number of successful extensions: 123
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 1
Length of query: 227
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 145
Effective length of database: 1,231,600
Effective search space: 178582000
Effective search space used: 178582000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 129 (54.3 bits)