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= 0001.1265.p
         (139 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310781|ref|YP_003774873.1| DNA polymerase III subunit chi ...   255   1e-69

>gi|300310781|ref|YP_003774873.1| DNA polymerase III subunit chi
           [Herbaspirillum seropedicae SmR1]
          Length = 139

 Score =  255 bits (651), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 121/139 (87%), Positives = 130/139 (93%)

Query: 1   MTRIDFHSNVPQKIAYVCRLVRKARSAGASIVLRARDRAELQQLDQALWSFSEQDFLPHV 60
           MTRIDFHSNVPQKI YVCRLVRKAR+ G +IV+R+ D A+LQQLDQALWSFSEQDFLPHV
Sbjct: 1   MTRIDFHSNVPQKITYVCRLVRKARATGVNIVVRSPDAAQLQQLDQALWSFSEQDFLPHV 60

Query: 61  MAGDPLAAQTPIILTADDNTELPHHQILINLGSDTPAHFARFERLLEIISADDADKAAGR 120
           MA DPLAAQT IILT+DD  ELPHHQ+LINLG+DTPAHFARFERLLEIISADDADKAAGR
Sbjct: 61  MAKDPLAAQTAIILTSDDAAELPHHQLLINLGADTPAHFARFERLLEIISADDADKAAGR 120

Query: 121 DRYRFYKERGYPLSHHVAA 139
           DRYRFYKERGYPL+HHVAA
Sbjct: 121 DRYRFYKERGYPLTHHVAA 139


  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
   0.323    0.136    0.403 

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: 387,898
Number of extensions: 13782
Number of successful extensions: 50
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 1
Length of query: 139
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 63
Effective length of database: 1,260,010
Effective search space: 79380630
Effective search space used: 79380630
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 126 (53.1 bits)