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= 0016.0008.p
         (172 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312975|ref|YP_003777067.1| DNA polymerase III subunit gamm...   326   6e-91

>gi|300312975|ref|YP_003777067.1| DNA polymerase III subunit
           gamma/tau [Herbaspirillum seropedicae SmR1]
          Length = 712

 Score =  326 bits (836), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 161/168 (95%), Positives = 163/168 (97%), Gaps = 1/168 (0%)

Query: 6   EKKTEP-AAVAPSRRTRARSARPPHPAQQQETARIAAELGWDGHWPTLAASLASLRGVAH 64
           +KKTEP   VA + RTRARSARPPHPAQQQETARIAAELGWDGHWPTLAASLASLRGVAH
Sbjct: 545 KKKTEPRTHVAHTHRTRARSARPPHPAQQQETARIAAELGWDGHWPTLAASLASLRGVAH 604

Query: 65  QMAFQSELVRCEPLNGGNVCFHLRIPLETLRSSGSVEKLTAALSERFGKEIRVETEIGAV 124
           QMAFQSELVRCEPLNGGNVCFHLRIPLETLRSSGSVEKLTAALSERFGKEIRVETEIGAV
Sbjct: 605 QMAFQSELVRCEPLNGGNVCFHLRIPLETLRSSGSVEKLTAALSERFGKEIRVETEIGAV 664

Query: 125 ADTANAVAEAERAERQRQAEHKMKNDPFVVTMMREFGASIVPGSIQPR 172
           ADTANAVAEAERAERQRQAEHKMKNDPFVVTMMREFGASIVPGSIQPR
Sbjct: 665 ADTANAVAEAERAERQRQAEHKMKNDPFVVTMMREFGASIVPGSIQPR 712


  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
   0.315    0.127    0.364 

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: 346,027
Number of extensions: 9507
Number of successful extensions: 47
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 47
Number of HSP's successfully gapped: 1
Length of query: 172
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 93
Effective length of database: 1,245,805
Effective search space: 115859865
Effective search space used: 115859865
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)