BLASTP 2.2.22 [Sep-27-2009]


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= gi|254780937|ref|YP_003065350.1| DNA-directed RNA polymerase
subunit omega [Candidatus Liberibacter asiaticus str. psy62]
         (122 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

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



>gi|254780937|ref|YP_003065350.1| DNA-directed RNA polymerase subunit omega [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 122

 Score =  250 bits (638), Expect = 7e-69,   Method: Compositional matrix adjust.
 Identities = 122/122 (100%), Positives = 122/122 (100%)

Query: 1   MARTTVEDCIDKVDNRFLLVLLASHRTRHLSQGAKPTVDVGKDKNTVVALREIASGTLSP 60
           MARTTVEDCIDKVDNRFLLVLLASHRTRHLSQGAKPTVDVGKDKNTVVALREIASGTLSP
Sbjct: 1   MARTTVEDCIDKVDNRFLLVLLASHRTRHLSQGAKPTVDVGKDKNTVVALREIASGTLSP 60

Query: 61  DDLEEDFIHSLQKHVEIDEPDSPTENSDFSWHKPEALSFGQMSEGDLLEGINNIVTPDKR 120
           DDLEEDFIHSLQKHVEIDEPDSPTENSDFSWHKPEALSFGQMSEGDLLEGINNIVTPDKR
Sbjct: 61  DDLEEDFIHSLQKHVEIDEPDSPTENSDFSWHKPEALSFGQMSEGDLLEGINNIVTPDKR 120

Query: 121 DD 122
           DD
Sbjct: 121 DD 122


>gi|254780456|ref|YP_003064869.1| 30S ribosomal protein S1 [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 576

 Score = 21.9 bits (45), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 6/25 (24%), Positives = 15/25 (60%)

Query: 87  SDFSWHKPEALSFGQMSEGDLLEGI 111
           SD  W++P      + ++GD+++ +
Sbjct: 400 SDLDWNRPGEKVIAEYAKGDIVKAV 424


>gi|254780711|ref|YP_003065124.1| signal recognition particle protein [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 461

 Score = 21.9 bits (45), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 15/61 (24%)

Query: 11  DKVDNRFL----LVLLASHRTRHLSQGAKPTVDVGKDKNTVVALREIASGTLSPDDLEED 66
           D++ NR L    +V L     R+L+           +K   +  ++IA G    +DL E 
Sbjct: 288 DRIANRILGMGDVVSLVEKAARNLN-----------EKQAALTAKKIAKGKFDLEDLAEQ 336

Query: 67  F 67
           F
Sbjct: 337 F 337


  Database: las_proteome
    Posted date:  Jun 5, 2011  6:30 PM
  Number of letters in database: 328,796
  Number of sequences in database:  1233
  
Lambda     K      H
   0.313    0.132    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 81,318
Number of Sequences: 1233
Number of extensions: 3207
Number of successful extensions: 4
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4
length of query: 122
length of database: 328,796
effective HSP length: 64
effective length of query: 58
effective length of database: 249,884
effective search space: 14493272
effective search space used: 14493272
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 33 (17.3 bits)