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= 0036.0172.p
         (448 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311574|ref|YP_003775666.1| DNA polymerase, Y family protei...   719   0.0  

>gi|300311574|ref|YP_003775666.1| DNA polymerase, Y family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 466

 Score =  719 bits (1855), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 368/448 (82%), Positives = 406/448 (90%), Gaps = 5/448 (1%)

Query: 1   MRRGGVQLLAPQAHLNERDILREQTTLQQAALALLQYTPQVTLAEEACILLEVGASLRLF 60
           MRRGGVQLLAP+A L ERD  REQ  L+Q ALALLQYTPQV+LA +AC+LLEV ASLRLF
Sbjct: 24  MRRGGVQLLAPEAQLQERDPAREQAALEQTALALLQYTPQVSLAPQACVLLEVSASLRLF 83

Query: 61  GGIRALCRKIRVTIARMGLSATLSCAVTATGSWLLARYGYVRTLSHRSLQRRLDRLPVVL 120
           GGIRALCRK+RV+I+R+GLSATLSCAVTATG+W+LARYG VRT+  RSL+RRLDRLPVVL
Sbjct: 84  GGIRALCRKVRVSISRLGLSATLSCAVTATGAWMLARYGDVRTVRERSLRRRLDRLPVVL 143

Query: 121 LTAARAHLEWLHGLGCRQLGQVQRLPRAXLGAAGLQRRCGKDLLAMLDRAYGAAPEVHDW 180
           L+AA+AHLEWLHGLGCRQLGQ++ LPRA     GLQRRCGK LL ML+ AYG APEVHDW
Sbjct: 144 LSAAQAHLEWLHGLGCRQLGQLRALPRA-----GLQRRCGKALLDMLEHAYGEAPEVHDW 198

Query: 181 IVAPPTFQARVELPDRIEHTDILAAYAQGLLAQLAGWLTARQLAIKKLRLWLEHERGRQA 240
           +VAPP FQARVELPDRIE TDIL AYAQ LL QLAGWLTARQLA+K+LRLWLEHERGRQA
Sbjct: 199 VVAPPVFQARVELPDRIEQTDILTAYAQALLTQLAGWLTARQLAVKQLRLWLEHERGRQA 258

Query: 241 VAPTELQIALTVPAWQEDHLHTLVKEKLARSSLPAPAIALGLAADELENQQAASEMLFPE 300
           VAPT+L+IAL+ PAWQEDHL++LVKEKLARS+LPAPAIALGLAA+ELE +Q AS+MLFPE
Sbjct: 259 VAPTDLRIALSAPAWQEDHLYSLVKEKLARSTLPAPAIALGLAAEELERRQPASDMLFPE 318

Query: 301 PGGSAEDHQRLLELLVARLGADKVQQAAPRADHRPEVANRWCSVMQSPASLPASLTTDAA 360
           PGGSAEDHQRLLELLVARLGADKV+QAAPRAD+RPE+ANRWCSVMQ  ASLPA L+TDAA
Sbjct: 319 PGGSAEDHQRLLELLVARLGADKVRQAAPRADYRPELANRWCSVMQPAASLPAPLSTDAA 378

Query: 361 RLPPRPLWLLAEPLPLRMQQHKPFYRSALEFTSPPERIEAGWWEGRPLTRDYFTARDASH 420
           RLPPRPLWLL EP+PLR+ QHKPFYR+ LEFTSPPERIEAGWWEGRP TRDYFT RDA H
Sbjct: 379 RLPPRPLWLLDEPVPLRVLQHKPFYRTPLEFTSPPERIEAGWWEGRPSTRDYFTVRDAQH 438

Query: 421 AYYWIFRQWRGGEWSDEEPQWFLHGLFG 448
           AYYWIFRQW GGE  +EEPQWFLHGLFG
Sbjct: 439 AYYWIFRQWHGGECPEEEPQWFLHGLFG 466


  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
   0.322    0.135    0.424 

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: 1,313,802
Number of extensions: 47708
Number of successful extensions: 159
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 158
Number of HSP's successfully gapped: 1
Length of query: 448
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 360
Effective length of database: 1,203,190
Effective search space: 433148400
Effective search space used: 433148400
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 (22.0 bits)
S2: 132 (55.5 bits)