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= 0004.0101.p
         (344 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312837|ref|YP_003776929.1| hypothetical protein Hsero_3542...   369   e-103

>gi|300312837|ref|YP_003776929.1| hypothetical protein Hsero_3542
           [Herbaspirillum seropedicae SmR1]
          Length = 469

 Score =  369 bits (948), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 189/344 (54%), Positives = 233/344 (67%), Gaps = 4/344 (1%)

Query: 1   VAPTKLVDGSWLYGTLRYWENPDFHPLILTYLEELGDGDPAMNHVTLYKKLLATHDCDDW 60
           VAPTKLVDG+WLY  +++W +P F PLILTYLEELGDG+ AMNHV+LY+ LL  H C+  
Sbjct: 124 VAPTKLVDGAWLYSAVKHWRDPVFRPLILTYLEELGDGEVAMNHVSLYRSLLQAHGCEQA 183

Query: 61  QTLSDEYFVQGAIQLALGYQTERFLPEVIGYNLGYEQLPLHLLISAYELNELGIDPYYFT 120
             LS  ++VQGA+QLALG+  + F+PE+ G+NLGYEQLPLHLLI+AYELNELGIDPYYFT
Sbjct: 184 DWLSQAHYVQGALQLALGWHGDEFIPEMFGFNLGYEQLPLHLLITAYELNELGIDPYYFT 243

Query: 121 LHVTIDNAATGHAHKAAQAVADIVAQQDDPAGFYRRVRDGYRLNDLGMSTTSVIADFDPE 180
           LHVTIDNAA+GHA KA  AV +  AQ  D   F +R+R GY LN+LG ST  VI  FD +
Sbjct: 244 LHVTIDNAASGHARKAVDAVLEAAAQWPDREEFLQRMRRGYLLNELGASTLGVIGSFDLD 303

Query: 181 RALVAVLQEKTAVGRNMHSDYCRFAGKTVNEWLDNPEDAGRFLSELERAGWIRRGSDPEE 240
           + +  VL +K A GR MHSDYCR  GKTVN+WL+ PE    FL+ +E+  WI RG     
Sbjct: 304 QEVQRVLADKAAFGRMMHSDYCRIGGKTVNQWLERPEGMRDFLAAMEQGKWILRGEPAGH 363

Query: 241 SRFWRLINGAGAEMFGVFSPREQQLLHDWI-TRADGNSRGMTFRAAARVRATREAVIGRT 299
           SRFWRLI+  G EMFGVF+  E+Q++ +WI T  D   R  +FRA AR    R+ V  + 
Sbjct: 364 SRFWRLIDAPGGEMFGVFNGYEKQVIREWIETGWDDAPRQPSFRAQAR---GRQGVAEQP 420

Query: 300 GMHLVGADNTTSNDPAALITALSPGAHHSAQGLQATRKFSAVLR 343
                 A +       AL+  LSP  HH   GL+ATR FS   R
Sbjct: 421 EQPHQEAPSHLDAGLDALVAPLSPACHHLPPGLEATRLFSQCYR 464


  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
   0.320    0.136    0.418 

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: 1,084,121
Number of extensions: 43043
Number of successful extensions: 117
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 1
Length of query: 344
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 258
Effective length of database: 1,212,660
Effective search space: 312866280
Effective search space used: 312866280
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: 131 (55.1 bits)