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= 0267.0004.p
         (63 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|NP_240906.1| sigma-F transcribed protein [Bacillus haloduran...    55   7e-07
ref|NP_829931.1| CsfB protein [Bacillus cereus ATCC 14579] >gi|2...    53   2e-06
ref|NP_842595.1| csfB protein, putative [Bacillus anthracis str....    52   4e-06
ref|NP_976354.1| csfB protein, putative [Bacillus cereus ATCC 10...    52   5e-06

>ref|NP_240906.1| sigma-F transcribed protein [Bacillus halodurans]
 pir||H83654 sigma-F transcribed protein csfB [imported] - Bacillus halodurans
          (strain C-125)
 dbj|BAB03759.1| sigma-F transcribed protein [Bacillus halodurans]
          Length = 66

 Score = 54.7 bits (130), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 27/57 (47%), Positives = 34/57 (59%)

Query: 6  QTEQACIICGQMKEEGIVIVSHFICEDCEAEMVRTEAEDAKYRFFVGRMKKIDLQKN 62
          Q  + C+IC Q +  GI +   FICE CE E+V+TE ED  Y  FV  +KKI L K 
Sbjct: 10 QERKRCVICEQPRPSGIQLFESFICEGCEQEIVKTEIEDTAYYHFVRCLKKIALPKT 66


>ref|NP_829931.1| CsfB protein [Bacillus cereus ATCC 14579]
 gb|AAP07132.1| CsfB protein [Bacillus cereus ATCC 14579]
          Length = 59

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 41/58 (70%), Gaps = 1/58 (1%)

Query: 3  MEQQTEQACIICGQMKEEGIVIVSHFICEDCEAEMVRTEAEDAKYRFFVGRMKKIDLQ 60
          M+ Q+E  CI+C   ++EGI + ++ IC +CE +MV TE +D KY +++ +++K+++ 
Sbjct: 1  MKLQSE-VCIVCETKRKEGIYVYNNLICHECEKDMVNTETDDPKYIYYLKQLRKLEVS 57


>ref|NP_842595.1| csfB protein, putative [Bacillus anthracis str. Ames]
 gb|AAP24081.1| csfB protein, putative [Bacillus anthracis str. Ames]
          Length = 59

 Score = 52.0 bits (123), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 40/58 (68%), Gaps = 1/58 (1%)

Query: 3  MEQQTEQACIICGQMKEEGIVIVSHFICEDCEAEMVRTEAEDAKYRFFVGRMKKIDLQ 60
          M+ Q E  CI+C   ++EGI + ++ IC +CE +MV TE +D KY +++ +++K+++ 
Sbjct: 1  MKSQNE-VCIVCETERKEGIYVYNNLICYECEKDMVNTETDDPKYIYYLKQLRKLEVS 57


>ref|NP_976354.1| csfB protein, putative [Bacillus cereus ATCC 10987]
 gb|AAS38962.1| csfB protein, putative [Bacillus cereus ATCC 10987]
          Length = 59

 Score = 51.6 bits (122), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 39/58 (67%), Gaps = 1/58 (1%)

Query: 3  MEQQTEQACIICGQMKEEGIVIVSHFICEDCEAEMVRTEAEDAKYRFFVGRMKKIDLQ 60
          M+ Q E  CI+C   ++EGI + ++ IC +CE +MV TE  D KY +++ +++K+++ 
Sbjct: 1  MKSQNE-VCIVCETERKEGIYVYNNLICYECEKDMVNTETNDPKYIYYLKQLRKLEVS 57


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.324    0.135    0.392 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 76,486,809
Number of extensions: 2082353
Number of successful extensions: 5895
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 5895
Number of HSP's successfully gapped: 5
Length of query: 63
Length of database: 757,237,578
Length adjustment: 35
Effective length of query: 28
Effective length of database: 662,209,113
Effective search space: 18541855164
Effective search space used: 18541855164
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 120 (50.8 bits)