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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254780994|ref|YP_003065407.1| hypothetical protein
CLIBASIA_04475 [Candidatus Liberibacter asiaticus str. psy62]
         (53 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

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


Results from round 1


>gi|254780994|ref|YP_003065407.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter
          asiaticus str. psy62]
 gi|254040671|gb|ACT57467.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter
          asiaticus str. psy62]
          Length = 53

 Score =  110 bits (274), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 53/53 (100%), Positives = 53/53 (100%)

Query: 1  MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53
          MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL
Sbjct: 1  MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53


>gi|332159094|ref|YP_004424373.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2]
 gi|331034557|gb|AEC52369.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2]
          Length = 393

 Score = 35.4 bits (80), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 30/51 (58%), Gaps = 4/51 (7%)

Query: 2   NGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYA 52
           +  I ++H+RD   +K FS   EV YT +LED  +  G GEG+L  GI  A
Sbjct: 109 HSKIMMIHQRDPGLAKAFS---EVGYTDILEDGKVRSGKGEGML-IGILLA 155


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


Results from round 2





CONVERGED!
>gi|254780994|ref|YP_003065407.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter
          asiaticus str. psy62]
 gi|254040671|gb|ACT57467.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter
          asiaticus str. psy62]
          Length = 53

 Score =  106 bits (264), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 53/53 (100%), Positives = 53/53 (100%)

Query: 1  MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53
          MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL
Sbjct: 1  MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53


>gi|332159094|ref|YP_004424373.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2]
 gi|331034557|gb|AEC52369.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2]
          Length = 393

 Score = 35.7 bits (81), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/48 (45%), Positives = 29/48 (60%), Gaps = 4/48 (8%)

Query: 5   IFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYA 52
           I ++H+RD   +K FS   EV YT +LED  +  G GEG+L  GI  A
Sbjct: 112 IMMIHQRDPGLAKAFS---EVGYTDILEDGKVRSGKGEGMLI-GILLA 155


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.329    0.149    0.445 

Lambda     K      H
   0.267   0.0473    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,322,269,114
Number of Sequences: 14124377
Number of extensions: 48435659
Number of successful extensions: 141232
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 141229
Number of HSP's gapped (non-prelim): 4
length of query: 53
length of database: 4,842,793,630
effective HSP length: 26
effective length of query: 27
effective length of database: 4,475,559,828
effective search space: 120840115356
effective search space used: 120840115356
T: 11
A: 40
X1: 16 ( 7.6 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 76 (33.7 bits)