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= 0001.0002.p
         (368 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134093296|ref|YP_001098371.1| DNA polymerase III subunit beta...   674   0.0  

>gi|134093296|ref|YP_001098371.1| DNA polymerase III subunit beta
           [Herminiimonas arsenicoxydans]
          Length = 368

 Score =  674 bits (1740), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/368 (88%), Positives = 351/368 (95%)

Query: 1   MQLVKTQRDTLLRPLQIVSGIVERRHTLPILANILIRKDGEKVSFLSTDIEVQITTHADV 60
           MQLVKTQRD LLRPLQIVSGIVERRHTLPILANILIRKDGE+VSFLSTDIEVQITTHA V
Sbjct: 1   MQLVKTQRDALLRPLQIVSGIVERRHTLPILANILIRKDGERVSFLSTDIEVQITTHAQV 60

Query: 61  GSGSEATATTVAARKLLDILRALPDSGEVSISLSNKRLTVQSGKSRFALQTLAAEEFPTV 120
           GSG+E  +TTVAARKLLDILRALPDSG+VS++L+NKR+TVQSGKSRFALQTLAAEEFPTV
Sbjct: 61  GSGNEIASTTVAARKLLDILRALPDSGDVSLTLANKRMTVQSGKSRFALQTLAAEEFPTV 120

Query: 121 AQAEHYNAQVNLPQKTLKHLFNMVHFAMAQQDIRYYLNGLLLVVEGKNVIAVATDGHRLA 180
           AQAE YNA+V LPQKTLKHLFNMVHF+MAQQDIRYYLNGLLLVV+GKNVIAVATDGHRLA
Sbjct: 121 AQAEQYNAKVTLPQKTLKHLFNMVHFSMAQQDIRYYLNGLLLVVDGKNVIAVATDGHRLA 180

Query: 181 FCQVETEQDFPRQEVIIPRKTIIELQRLLDDSDEEVQLQIANNQVKLTFADIELISKLVE 240
           FCQV TEQ+F RQEVIIPRKTIIELQRLL+D+D+ V L+IAN+QVKLTF DIELISKLVE
Sbjct: 181 FCQVATEQEFARQEVIIPRKTIIELQRLLEDTDQPVDLEIANSQVKLTFGDIELISKLVE 240

Query: 241 GKFPDYTRVVPKGYKNSFTISRDQLLRSLQRAAIMTSDKFKGVRWVIAPGSLKISSTNAD 300
           GKFPDYTRVVPKGYKN+FTI RD LLRSLQRAAIMTSDKFKGVR +++PGS+KISSTNAD
Sbjct: 241 GKFPDYTRVVPKGYKNNFTIGRDALLRSLQRAAIMTSDKFKGVRCIMSPGSMKISSTNAD 300

Query: 301 QEEAVEELEIDYGGDTVDIGFNVSYLLDVLNNLKNDYVNIALGDANSSALITIPDNADFK 360
           QEEAVEE+EIDYGGD+VDIGFNV+YLLDVLNNLK D +NIALGDANSSALIT+PDN DFK
Sbjct: 301 QEEAVEEIEIDYGGDSVDIGFNVTYLLDVLNNLKGDNINIALGDANSSALITVPDNPDFK 360

Query: 361 YVVMPMRI 368
           YVVMPMRI
Sbjct: 361 YVVMPMRI 368


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.318    0.134    0.367 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 641,844
Number of extensions: 24980
Number of successful extensions: 75
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 75
Number of HSP's successfully gapped: 1
Length of query: 368
Length of database: 1,000,347
Length adjustment: 83
Effective length of query: 285
Effective length of database: 726,862
Effective search space: 207155670
Effective search space used: 207155670
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 (21.7 bits)
S2: 129 (54.3 bits)