BLASTP 2.2.18 [Mar-02-2008]


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.

Query= 0027.0007.p
         (90 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Rv0055 [J] COG0238 Ribosomal protein S18                               76   1e-14
MT0061 [J] COG0238 Ribosomal protein S18                               76   1e-14
Rv2055c [J] COG0238 Ribosomal protein S18                              51   3e-07
MT2116 [J] COG0238 Ribosomal protein S18                               51   3e-07

>Rv0055 [J] COG0238 Ribosomal protein S18
          Length = 84

 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/78 (50%), Positives = 51/78 (65%), Gaps = 2/78 (2%)

Query: 13 KRPARRGGRNKRKKVCYFTVNKITHIDYKDTELLKKFISERGKILPRRVTGTSAKYQRAL 72
          +RPA       RK  C F   K   IDYKDT LL+ +ISERGKI  RRVTG   ++QR +
Sbjct: 7  RRPAPEKPVKTRK--CVFCAKKDQAIDYKDTALLRTYISERGKIRARRVTGNCVQHQRDI 64

Query: 73 TIAVKRSRQIALLPYTTE 90
           +AVK +R++ALLP+T+ 
Sbjct: 65 ALAVKNAREVALLPFTSS 82


>MT0061 [J] COG0238 Ribosomal protein S18
          Length = 84

 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/78 (50%), Positives = 51/78 (65%), Gaps = 2/78 (2%)

Query: 13 KRPARRGGRNKRKKVCYFTVNKITHIDYKDTELLKKFISERGKILPRRVTGTSAKYQRAL 72
          +RPA       RK  C F   K   IDYKDT LL+ +ISERGKI  RRVTG   ++QR +
Sbjct: 7  RRPAPEKPVKTRK--CVFCAKKDQAIDYKDTALLRTYISERGKIRARRVTGNCVQHQRDI 64

Query: 73 TIAVKRSRQIALLPYTTE 90
           +AVK +R++ALLP+T+ 
Sbjct: 65 ALAVKNAREVALLPFTSS 82


>Rv2055c [J] COG0238 Ribosomal protein S18
          Length = 88

 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 38/53 (71%)

Query: 35 ITHIDYKDTELLKKFISERGKILPRRVTGTSAKYQRALTIAVKRSRQIALLPY 87
          +  +DYKDT  L+ FIS+RGKI  R VTG + + QR +  A+K +R++ALLPY
Sbjct: 23 VESVDYKDTATLRVFISDRGKIRSRGVTGLTVQQQRQVAQAIKNAREMALLPY 75


>MT2116 [J] COG0238 Ribosomal protein S18
          Length = 88

 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 38/53 (71%)

Query: 35 ITHIDYKDTELLKKFISERGKILPRRVTGTSAKYQRALTIAVKRSRQIALLPY 87
          +  +DYKDT  L+ FIS+RGKI  R VTG + + QR +  A+K +R++ALLPY
Sbjct: 23 VESVDYKDTATLRVFISDRGKIRSRGVTGLTVQQQRQVAQAIKNAREMALLPY 75


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.320    0.135    0.381 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 6,405,918
Number of extensions: 214711
Number of successful extensions: 337
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 337
Number of HSP's successfully gapped: 4
Length of query: 90
Length of database: 38,378,431
Length adjustment: 60
Effective length of query: 30
Effective length of database: 31,458,391
Effective search space: 943751730
Effective search space used: 943751730
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 109 (46.6 bits)