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= 0017.0104.p
         (187 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310703|ref|YP_003774795.1| transcription regulator protein...   259   1e-70

>gi|300310703|ref|YP_003774795.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 223

 Score =  259 bits (661), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 135/203 (66%), Positives = 157/203 (77%), Gaps = 19/203 (9%)

Query: 2   STAERILLRLKTRGPASTATLAQELGMTAEAARX------GAG-------------RPRQ 42
           STA+RILLRLKTRGPAS + LA EL M+AEAAR       G G             RPRQ
Sbjct: 16  STADRILLRLKTRGPASASELAGELEMSAEAARQQIQKLAGDGLIASRQAAAARAGRPRQ 75

Query: 43  NWELSPAGHARFPDTHAYLTIQLIGSIRQLFGEEGLDRLISQREGEMRKDYLKACRGVAG 102
           +WEL+ AGHARFPDTHA LT+QLIGSIRQLFG+ GLD+LI QRE +MR +Y + C  +  
Sbjct: 76  DWELTAAGHARFPDTHAQLTVQLIGSIRQLFGQAGLDKLIEQREVQMRAEYQQHCGRLNS 135

Query: 103 IPKKLDKLAALRAAEGYMARVEKDGKDWLLIEDHCPICAAATTCQGFCRSELQLFREVIG 162
           +P+KL+KLA LR+AEGYMARVEK GK WLLIEDHCPICAAA +CQGFCRSELQLF EV+G
Sbjct: 136 LPRKLEKLAELRSAEGYMARVEKHGKQWLLIEDHCPICAAAQSCQGFCRSELQLFGEVLG 195

Query: 163 DAASVTREEHLLAGARRCVYRVS 185
           + A +TREEHLLA  RRCVYR++
Sbjct: 196 EQAEITREEHLLAEGRRCVYRIT 218


  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
   0.322    0.135    0.404 

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: 504,353
Number of extensions: 16865
Number of successful extensions: 53
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 52
Number of HSP's successfully gapped: 1
Length of query: 187
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 107
Effective length of database: 1,241,070
Effective search space: 132794490
Effective search space used: 132794490
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 (21.9 bits)
S2: 128 (53.9 bits)