BLASTP 2.2.8 [Jan-05-2004]


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.

Query= gi|16130963|ref|NP_417539.1| RNA polymerase sigma(70)
[Escherichia coli K12]
         (613 letters)

Database: NC_000913 
           4311 sequences; 1,350,842 total letters


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|16130963|ref|NP_417539.1| RNA polymerase sigma(70) [Escherich...  1032   0.0  
gi|16130648|ref|NP_417221.1| sigma S factor [Escherichia coli K12]    189   3e-049
gi|16131333|ref|NP_417918.1| sigma(32) factor [Escherichia coli ...    84   2e-017
gi|33347603|ref|NP_416432.2| sigma factor 28 [Escherichia coli K12]    63   5e-011


Results from round 2


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value
Sequences used in model and found again:

gi|16130963|ref|NP_417539.1| RNA polymerase sigma(70) [Escherich...  1016   0.0  
gi|16130648|ref|NP_417221.1| sigma S factor [Escherichia coli K12]    358   e-100
gi|16131333|ref|NP_417918.1| sigma(32) factor [Escherichia coli ...   290   2e-079
gi|33347603|ref|NP_416432.2| sigma factor 28 [Escherichia coli K12]   237   2e-063

Sequences not found previously or not previously below threshold:


CONVERGED!
  Database: NC_000913
    Posted date:  Apr 8, 2004 12:56 AM
  Number of letters in database: 1,350,842
  Number of sequences in database:  4311
  
Lambda     K      H
   0.313    0.141    0.379 

Lambda     K      H
   0.267   0.0431    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,949,500
Number of Sequences: 4311
Number of extensions: 123966
Number of successful extensions: 504
Number of sequences better than  1.0: 6
Number of HSP's better than  1.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 445
Number of HSP's gapped (non-prelim): 23
length of query: 613
length of database: 1,350,842
effective HSP length: 90
effective length of query: 523
effective length of database: 962,852
effective search space: 503571596
effective search space used: 503571596
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.3 bits)
S2: 64 (29.2 bits)