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= 0001.0096.p
         (205 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312711|ref|YP_003776803.1| DNA polymerase III subunit epsi...    65   3e-12

>gi|300312711|ref|YP_003776803.1| DNA polymerase III subunit epsilon
           [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score = 65.5 bits (158), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 55/180 (30%), Positives = 91/180 (50%), Gaps = 15/180 (8%)

Query: 7   VMLDFETTGLSPAQGARITEVAALRIVDGRVVERFVSL-INCGAEVPYEITVLTGITQDM 65
           ++LD ETTGLSP  G RI E+  + +++ ++  + +   IN   +       + G+T + 
Sbjct: 4   IILDTETTGLSPRNGNRILEIGCVEVLNRQLSGKNLHFYINPERDSEEGALAVHGLTTEF 63

Query: 66  VDSAPPVERVLPELLRFIGSDALAAHNASFDAKFLAAEAERLDL---QAGYSELVCSLLL 122
           +   P  +++  E L ++    +  HNA FD  FL AE   L L   +    ++V SL +
Sbjct: 64  LADKPTFKQIAAEFLDYVRGAQIIIHNAPFDVGFLDAELALLGLPPFKDHVIDVVDSLQM 123

Query: 123 SRRLLPGLSSYRLSSLADSLGIRFSGHAHR----AEADAEVSAELLLHLSERLRGHHKCT 178
           ++ L PG  +  L +L D  GI    +AHR    A  DAE+ AE+ L ++   RG +  T
Sbjct: 124 AKELHPGRRN-SLDALCDRYGI---SNAHRVLHGALLDAELLAEVYLSMT---RGQNSLT 176


  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    0.135    0.379 

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: 533,907
Number of extensions: 18513
Number of successful extensions: 64
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 1
Length of query: 205
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 124
Effective length of database: 1,236,335
Effective search space: 153305540
Effective search space used: 153305540
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: 128 (53.9 bits)