BLASTP 2.2.1 [Apr-13-2001]


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= gi|15646015|ref|NP_208196.1| hypothetical protein
[Helicobacter pylori 26695]
         (34 letters)

Database: NC_000921.faa
           1491 sequences; 494,079 total letters

Searching...done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_223667.1|  putative [Helicobacter pylori J99]               61  4e-12
ref|NP_224126.1|  putative [Helicobacter pylori J99]               45  3e-07
ref|NP_223096.1|  TRANSLATION INITIATION FACTOR IF-2 [Helico...    21  6.4
ref|NP_222915.1|  putative lipopolysaccharide biosynthesis p...    21  6.4
ref|NP_223331.1|  putative [Helicobacter pylori J99]               20  8.3

>ref|NP_223667.1| putative [Helicobacter pylori J99]
          Length = 227

 Score = 61.2 bits (147), Expect = 4e-12
 Identities = 30/34 (88%), Positives = 32/34 (93%)

Query: 1   MPMNISVEPSKIVLFLDDLTKSIGNKDLENLSGL 34
           +PMNISVEPSKIVLFLDDL KSIGNKDLE+LS L
Sbjct: 194 IPMNISVEPSKIVLFLDDLIKSIGNKDLEDLSSL 227



>ref|NP_224126.1| putative [Helicobacter pylori J99]
          Length = 227

 Score = 45.1 bits (105), Expect = 3e-07
 Identities = 20/30 (66%), Positives = 24/30 (79%)

Query: 5   ISVEPSKIVLFLDDLTKSIGNKDLENLSGL 34
           I +EP+KI LFLDDL KS+GNKD  +LS L
Sbjct: 198 IGIEPNKITLFLDDLIKSVGNKDFADLSSL 227



>ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helicobacter pylori J99]
          Length = 949

 Score = 20.8 bits (42), Expect = 6.4
 Identities = 6/15 (40%), Positives = 13/15 (86%)

Query: 17  DDLTKSIGNKDLENL 31
           D+L++ + NK+L+N+
Sbjct: 734 DELSEMVANKELKNI 748



>ref|NP_222915.1| putative lipopolysaccharide biosynthesis protein [Helicobacter
           pylori J99]
          Length = 394

 Score = 20.8 bits (42), Expect = 6.4
 Identities = 9/15 (60%), Positives = 11/15 (73%)

Query: 15  FLDDLTKSIGNKDLE 29
           FLD L +S+ NKD E
Sbjct: 322 FLDHLFESLQNKDKE 336



>ref|NP_223331.1| putative [Helicobacter pylori J99]
          Length = 1167

 Score = 20.4 bits (41), Expect = 8.3
 Identities = 11/21 (52%), Positives = 13/21 (61%)

Query: 11  KIVLFLDDLTKSIGNKDLENL 31
           K+VL L DL      KDL+NL
Sbjct: 364 KMVLKLSDLGLEGETKDLKNL 384



  Database: NC_000921.faa
    Posted date:  Dec 10, 2001  4:36 PM
  Number of letters in database: 494,079
  Number of sequences in database:  1491
  
Lambda     K      H
   0.313    0.137    0.365 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,456
Number of Sequences: 1491
Number of extensions: 733
Number of successful extensions: 5
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 5
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): 5
length of query: 34
length of database: 494,079
effective HSP length: 10
effective length of query: 24
effective length of database: 479,169
effective search space: 11500056
effective search space used: 11500056
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.4 bits)
S2: 41 (20.4 bits)