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= 0001.4179.p
         (384 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096511|ref|YP_001101586.1| DNA polymerase IV [Herminiimona...   461   e-131

>gi|134096511|ref|YP_001101586.1| DNA polymerase IV [Herminiimonas
           arsenicoxydans]
          Length = 343

 Score =  461 bits (1186), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 233/336 (69%), Positives = 274/336 (81%), Gaps = 5/336 (1%)

Query: 47  DGTRQYFRLRDYAGRGVVTTSTYEARALGVFSAMGIMKAAQLAPEAILLPTDFEAYRKYS 106
           DG+R+Y RLRDY GRGVVTTSTYEARALGVFSAMG+MKAA+LAP+AILLPTDF AYR YS
Sbjct: 5   DGSRRYARLRDYTGRGVVTTSTYEARALGVFSAMGLMKAAKLAPDAILLPTDFTAYRHYS 64

Query: 107 RLFKDAVRNIAPLIEDRGIDEIYIDLSAWPDTAHEVARQIKQAVHAATALTCSIGVAPNK 166
           RLFK A   IAP +EDRGIDEIY+DL+   D    VA++IK AV AAT L+CSIGVAPNK
Sbjct: 65  RLFKAAAGAIAPQMEDRGIDEIYLDLNDQTDDIAVVAQRIKDAVVAATGLSCSIGVAPNK 124

Query: 167 MLAKISSELDKPDGLTILMPEDIQRRIWPLPVRKINGIGPKAAEKLAALGLETVADLAGA 226
           +LAKI S+L+KP+GLTIL   DI  RIWPLPV+KINGIGPK+ EKLAALG+ T+  LA  
Sbjct: 125 LLAKICSDLEKPNGLTILSEADIPTRIWPLPVKKINGIGPKSTEKLAALGILTIEQLANC 184

Query: 227 APELLRAHFGRSYSEWLGRVAQGIDERPLQTYSEPKSISRETTFERDLHARADRAQLSEI 286
            P +LRA+FGR YS WL RVAQGIDER + T SEPKSISRE+T ERDLHA+ DR++LS +
Sbjct: 185 DPAVLRANFGRIYSAWLMRVAQGIDEREIVTRSEPKSISRESTLERDLHAKLDRSELSAL 244

Query: 287 FTALCVKLAGDLERKGYVGRTIGIKLKYADFRGVTRDVTLPAPTGEAALIRQAAGECLKR 346
           FT LC ++A DL RK Y+GRT+GIKL+YADF  VTRD+TLPAPT +A  IRQAAGECL+R
Sbjct: 245 FTRLCERVADDLVRKEYLGRTVGIKLRYADFSTVTRDLTLPAPTNDAQAIRQAAGECLRR 304

Query: 347 VPLEKKLRLLGVRVGTLSKKEALAALPQAV--QGEL 380
           VPL+K+LRLLGVR+ +LSK     A+P  +  QGEL
Sbjct: 305 VPLDKRLRLLGVRITSLSKP---GAVPSTIVAQGEL 337


  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
   0.320    0.136    0.393 

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: 729,112
Number of extensions: 29593
Number of successful extensions: 78
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 78
Number of HSP's successfully gapped: 1
Length of query: 384
Length of database: 1,000,347
Length adjustment: 83
Effective length of query: 301
Effective length of database: 726,862
Effective search space: 218785462
Effective search space used: 218785462
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 (21.8 bits)
S2: 129 (54.3 bits)