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_A10_A19ZS5.seq
         (888 letters)

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

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

YOR310C YOR310c  COG1498 [J] Protein implicated in ribosomal bio...    31  2.5
AQ_642 aq_642  COG0430 [K] RNA phosphate cyclase                       30  7.3

>YOR310C YOR310c  COG1498 [J] Protein implicated in ribosomal
           biogenesis, Nop56p homolog
          Length = 511

 Score = 31.2 bits (69), Expect = 2.5
 Identities = 13/35 (37%), Positives = 24/35 (68%)
 Frame = -1

Query: 543 KDTKKSYRTEKGKRRKVHKRELLAMRERREKQWRK 439
           KD+KK+ + +K K+ K  K+E    +E++EK+ +K
Sbjct: 468 KDSKKAKKEKKDKKEKKEKKEKKEKKEKKEKKEKK 502



>AQ_642 aq_642  COG0430 [K] RNA phosphate cyclase
          Length = 360

 Score = 29.6 bits (65), Expect = 7.3
 Identities = 20/60 (33%), Positives = 32/60 (53%)
 Frame = -1

Query: 549 HLKDTKKSYRTEKGKRRKVHKRELLAMRERREKQWRKMTLQWMQ*RGGALRLRSITKPPP 370
           +LKD    YRTE+G+ RK+H    +A  E RE++     +   Q +G    L+++  P P
Sbjct: 188 YLKDKVNLYRTERGEIRKIHVFS-VAHEELRERK-----VAERQAKGAIEALKNLGYPEP 241



  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: 25201214
Number of Sequences: 78847
Number of extensions: 451350
Number of successful extensions: 1354
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 1320
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): 1352
length of query: 296
length of database: 26,228,252
effective HSP length: 49
effective length of query: 246
effective length of database: 22,364,749
effective search space: 5501728254
effective search space used: 5501728254
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)