BLASTX 2.1.3 [Apr-1-2001]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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=
/home/local/jxu/web/Fgr/NCPvsCOGs/blast/0941_H11_O21ZS5.seq
         (900 letters)

Database: COGs
           78,847 sequences; 26,228,252 total letters

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

BU166 BU166  COG1007 [C] NADH:ubiquinone oxidoreductase subunit ...    31  2.5
TP0714 TP0714  COG1298 [N] Flagellar biosynthesis/type III secre...    29  9.7

>BU166 BU166  COG1007 [C] NADH:ubiquinone oxidoreductase subunit 2
           (chain N)
          Length = 469

 Score = 31.2 bits (69), Expect = 2.5
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 3/77 (3%)
 Frame = -2

Query: 755 PVH-WTKDIYRHCFDNVCSGHSTLGKASFYPIM--FKKPDSPDEANKAFLIISSNKHIXR 585
           P H WT DIY+    +V S  ST GK S + ++  F    S  +    + I+S    +  
Sbjct: 206 PFHLWTPDIYQGSPTSVLSFFSTAGKISVFSVLLNFLSYFSNSDNKVIYFILSLIIILSI 265

Query: 584 LLLPYVASFLLDLERFI 534
           L+   +A F  D++RF+
Sbjct: 266 LVGNLMALFQKDIKRFL 282



>TP0714 TP0714  COG1298 [N] Flagellar biosynthesis/type III
           secretory pathway protein
          Length = 707

 Score = 29.3 bits (64), Expect = 9.7
 Identities = 10/21 (47%), Positives = 15/21 (70%)
 Frame = +1

Query: 205 GYLPSLMSRNALRSMMWGCFF 267
           GY+P L++ + +RS MW  FF
Sbjct: 647 GYIPVLLTTDTIRSAMWNLFF 667



  Database: COGs
    Posted date:  Jan 30, 2002  4:01 PM
  Number of letters in database: 26,228,252
  Number of sequences in database:  78,847
  
Lambda     K      H
   0.318    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 36973622
Number of Sequences: 78847
Number of extensions: 707787
Number of successful extensions: 1770
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 1749
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): 1770
length of query: 300
length of database: 26,228,252
effective HSP length: 49
effective length of query: 250
effective length of database: 22,364,749
effective search space: 5591187250
effective search space used: 5591187250
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 64 (29.3 bits)