BLASTP 2.2.22 [Sep-27-2009]


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.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= batch____
         (78 letters)

Database: uniref50.fasta 
           3,077,464 sequences; 1,040,396,356 total letters

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


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

UniRef50_P52134 Uncharacterized protein ypjK n=4 Tax=Escherichia...   140   1e-32
UniRef50_D0KKQ7 CP4-57 prophage; inner membrane protein n=2 Tax=...    84   1e-15

>UniRef50_P52134 Uncharacterized protein ypjK n=4 Tax=Escherichia coli
          RepID=YPJK_ECOLI
          Length = 78

 Score =  140 bits (353), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 78/78 (100%), Positives = 78/78 (100%)

Query: 1  MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI 60
          MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI
Sbjct: 1  MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI 60

Query: 61 FVGIYVFAKVVRLISGKK 78
          FVGIYVFAKVVRLISGKK
Sbjct: 61 FVGIYVFAKVVRLISGKK 78


>UniRef50_D0KKQ7 CP4-57 prophage; inner membrane protein n=2 Tax=Pectobacterium
          RepID=D0KKQ7_PECWW
          Length = 77

 Score = 84.0 bits (206), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/77 (67%), Positives = 65/77 (84%)

Query: 1  MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI 60
          MP+IAII IV++VI+L+KTG+SDSL  L +ATVA LLTG G AG ASVALTPF+GVP+G+
Sbjct: 1  MPIIAIIVIVVVVIVLSKTGISDSLIGLVIATVAGLLTGSGTAGVASVALTPFLGVPIGL 60

Query: 61 FVGIYVFAKVVRLISGK 77
          FVG+ VFAKV+R  S +
Sbjct: 61 FVGVTVFAKVLRWFSRR 77


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


Results from round 2


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

UniRef50_P52134 Uncharacterized protein ypjK n=4 Tax=Escherichia...    70   2e-11
UniRef50_D0KKQ7 CP4-57 prophage; inner membrane protein n=2 Tax=...    70   3e-11

Sequences not found previously or not previously below threshold:


CONVERGED!
>UniRef50_P52134 Uncharacterized protein ypjK n=4 Tax=Escherichia coli
          RepID=YPJK_ECOLI
          Length = 78

 Score = 70.3 bits (171), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 78/78 (100%), Positives = 78/78 (100%)

Query: 1  MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI 60
          MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI
Sbjct: 1  MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI 60

Query: 61 FVGIYVFAKVVRLISGKK 78
          FVGIYVFAKVVRLISGKK
Sbjct: 61 FVGIYVFAKVVRLISGKK 78


>UniRef50_D0KKQ7 CP4-57 prophage; inner membrane protein n=2 Tax=Pectobacterium
          RepID=D0KKQ7_PECWW
          Length = 77

 Score = 69.5 bits (169), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 52/77 (67%), Positives = 65/77 (84%)

Query: 1  MPVIAIIAIVIIVIILNKTGVSDSLTALTLATVAALLTGGGAAGAASVALTPFVGVPVGI 60
          MP+IAII IV++VI+L+KTG+SDSL  L +ATVA LLTG G AG ASVALTPF+GVP+G+
Sbjct: 1  MPIIAIIVIVVVVIVLSKTGISDSLIGLVIATVAGLLTGSGTAGVASVALTPFLGVPIGL 60

Query: 61 FVGIYVFAKVVRLISGK 77
          FVG+ VFAKV+R  S +
Sbjct: 61 FVGVTVFAKVLRWFSRR 77


  Database: uniref50.fasta
    Posted date:  Mar 8, 2010 10:38 AM
  Number of letters in database: 1,040,396,356
  Number of sequences in database:  3,077,464
  
Lambda     K      H
   0.328    0.152    0.428 

Lambda     K      H
   0.267   0.0483    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 308,234,934
Number of Sequences: 3077464
Number of extensions: 12122424
Number of successful extensions: 113464
Number of sequences better than 1.0e-01: 3
Number of HSP's better than  0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 113453
Number of HSP's gapped (non-prelim): 10
length of query: 78
length of database: 1,040,396,356
effective HSP length: 49
effective length of query: 29
effective length of database: 889,600,620
effective search space: 25798417980
effective search space used: 25798417980
T: 11
A: 40
X1: 16 ( 7.6 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 88 (38.3 bits)