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|15644708|ref|NP_206878.1| hypothetical protein
[Helicobacter pylori 26695]
         (85 letters)

Database: /home/scwang/download_20020708_db/nr
           1,026,957 sequences; 324,149,939 total letters

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

ref|NP_206878.1|  (NC_000915) hypothetical protein [Helicoba...   173  4e-43
dbj|BAB69064.1|  (AB060264) HPOmp29(43504) [Helicobacter pyl...   132  1e-30
dbj|BAB69065.1|  (AB060265) HPOmp29(SS1) [Helicobacter pylori]    131  2e-30
dbj|BAB69066.1|  (AB060266) OMU116 [Helicobacter pylori]          129  7e-30
ref|NP_222795.1|  (NC_000921) putative Outer membrane protei...   126  4e-29

>ref|NP_206878.1| (NC_000915) hypothetical protein [Helicobacter pylori 26695]
 pir||F64529 hypothetical protein HP0078 - Helicobacter pylori (strain 26695)
 gb|AAD07149.1| (AE000529) H. pylori predicted coding region HP0078 [Helicobacter
          pylori 26695]
          Length = 85

 Score =  173 bits (438), Expect = 4e-43
 Identities = 85/85 (100%), Positives = 85/85 (100%)

Query: 1  MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT 60
          MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT
Sbjct: 1  MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT 60

Query: 61 APAQETQSASKPDTKVNPSASWMKK 85
          APAQETQSASKPDTKVNPSASWMKK
Sbjct: 61 APAQETQSASKPDTKVNPSASWMKK 85



>dbj|BAB69064.1| (AB060264) HPOmp29(43504) [Helicobacter pylori]
          Length = 255

 Score =  132 bits (331), Expect = 1e-30
 Identities = 64/68 (94%), Positives = 66/68 (96%)

Query: 1  MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT 60
          MKK+FLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSN+ 
Sbjct: 1  MKKIFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNQV 60

Query: 61 APAQETQS 68
          APAQET S
Sbjct: 61 APAQETPS 68



>dbj|BAB69065.1| (AB060265) HPOmp29(SS1) [Helicobacter pylori]
          Length = 260

 Score =  131 bits (329), Expect = 2e-30
 Identities = 63/72 (87%), Positives = 67/72 (92%)

Query: 1  MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT 60
          MKK+FLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSN+T
Sbjct: 1  MKKIFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNQT 60

Query: 61 APAQETQSASKP 72
          APA + Q+   P
Sbjct: 61 APAPQAQATYTP 72



>dbj|BAB69066.1| (AB060266) OMU116 [Helicobacter pylori]
          Length = 260

 Score =  129 bits (324), Expect = 7e-30
 Identities = 62/72 (86%), Positives = 67/72 (92%)

Query: 1  MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT 60
          MKK+FLGMALAFSVSMAEKSGAFLGGGFQYSNLE+QNTTRTPGANNNTPIDTSMFGSN+T
Sbjct: 1  MKKIFLGMALAFSVSMAEKSGAFLGGGFQYSNLESQNTTRTPGANNNTPIDTSMFGSNQT 60

Query: 61 APAQETQSASKP 72
          APA + Q+   P
Sbjct: 61 APAPQAQATYTP 72



>ref|NP_222795.1| (NC_000921) putative Outer membrane protein [Helicobacter pylori
          J99]
 pir||G71977 probable outer membrane protein - Helicobacter pylori  (strain
          J99)
 gb|AAD05657.1| (AE001446) putative Outer membrane protein [Helicobacter pylori
          J99]
          Length = 255

 Score =  126 bits (317), Expect = 4e-29
 Identities = 61/68 (89%), Positives = 65/68 (94%)

Query: 1  MKKVFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPGANNNTPIDTSMFGSNKT 60
          MKK+FLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTP ANNNTPI+TSMFG+N+ 
Sbjct: 1  MKKIFLGMALAFSVSMAEKSGAFLGGGFQYSNLENQNTTRTPSANNNTPINTSMFGNNQA 60

Query: 61 APAQETQS 68
          APAQET S
Sbjct: 61 APAQETPS 68



  Database: /home/scwang/download_20020708_db/nr
    Posted date:  Aug 7, 2002 12:55 PM
  Number of letters in database: 324,149,939
  Number of sequences in database:  1,026,957
  
Lambda     K      H
   0.307    0.121    0.337 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 57,210,740
Number of Sequences: 1026957
Number of extensions: 2105225
Number of successful extensions: 6046
Number of sequences better than 1.0e-02: 5
Number of HSP's better than  0.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6041
Number of HSP's gapped (non-prelim): 5
length of query: 85
length of database: 324,149,939
effective HSP length: 61
effective length of query: 24
effective length of database: 261,505,562
effective search space: 6276133488
effective search space used: 6276133488
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 90 (39.3 bits)