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= 0013.0105.p
         (216 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311625|ref|YP_003775717.1| cytochrome c oxidase polypeptid...   283   1e-77

>gi|300311625|ref|YP_003775717.1| cytochrome c oxidase polypeptide
           II precursor transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 200

 Score =  283 bits (723), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 139/198 (70%), Positives = 169/198 (85%)

Query: 19  RQGAALDISALPTFAFGPRSTTWWGTMGMVLVEGTVFALGVMSYFYLRSQSDQWPDGGIP 78
           +  A LD+S LPTF FGP STTWW T+G++ +E TVFALG+ SYFYLR Q+  WP    P
Sbjct: 3   QPAATLDVSGLPTFGFGPASTTWWATLGLIFIESTVFALGIASYFYLRGQAPAWPPDSAP 62

Query: 79  PDLMWGTLNTLLMLLSCVPNWWTNEAAKQFDLRKVRIGLCICMVFSLLFLGGRVGEFASL 138
           PDL+WG+LNT++MLLSC+PN+  ++AA +FDL++VR+GL +C++FSLLFLGGR+GEFASL
Sbjct: 63  PDLLWGSLNTVIMLLSCLPNYLASQAAHRFDLQRVRLGLVLCLLFSLLFLGGRIGEFASL 122

Query: 139 NVKWSDNAYGSVTWMLLGLHTTHLITDTYNTLVLTVLFFTGPVEAKRFVDVSENAAYWYF 198
           NV WS NAYGS+TWMLLGLHT HLITDT++TLVLTVLFFTGPVE+KR+VDVSEN  YWYF
Sbjct: 123 NVNWSHNAYGSITWMLLGLHTVHLITDTFDTLVLTVLFFTGPVESKRYVDVSENGDYWYF 182

Query: 199 VVISWVAIYAVIYGGARL 216
           VVISW+AIYAVIY G R 
Sbjct: 183 VVISWLAIYAVIYWGPRF 200


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.325    0.138    0.457 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 698,142
Number of extensions: 26925
Number of successful extensions: 105
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 2
Length of query: 216
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 135
Effective length of database: 1,236,335
Effective search space: 166905225
Effective search space used: 166905225
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 128 (53.9 bits)