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= 0001.3466.p
         (252 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312856|ref|YP_003776948.1| hypothetical protein Hsero_3561...   372   e-104

>gi|300312856|ref|YP_003776948.1| hypothetical protein Hsero_3561
           [Herbaspirillum seropedicae SmR1]
          Length = 256

 Score =  372 bits (956), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 237/256 (92%), Positives = 241/256 (94%), Gaps = 4/256 (1%)

Query: 1   MDIKKLQTLVVDALEDVKAQEIRIYDTTHLTSLFDRVAIASGTSNRQTKALAASVRDKVK 60
           MDIKKLQTLVVDALEDVKAQEIRIYDTTHLTSLFDRVAIASGTSNRQTKALAASVRDKVK
Sbjct: 1   MDIKKLQTLVVDALEDVKAQEIRIYDTTHLTSLFDRVAIASGTSNRQTKALAASVRDKVK 60

Query: 61  AKGGNVVSIEGEDTGEWVLVDLGDMIVHIMQPAIRTYYRLEEIWGDKEVKLGAAKRTGTS 120
           AKGGNVVS+EGEDTGEWVLVDLGDMIVHIMQPAIRTYYRLEEIWGDKEVKLGAAKRTGTS
Sbjct: 61  AKGGNVVSVEGEDTGEWVLVDLGDMIVHIMQPAIRTYYRLEEIWGDKEVKLGAAKRTGTS 120

Query: 121 AAAKRAAADEAPAPKTRRTRAQAEAVEASQALDDDEDAPKKPARKPRATSATTGARAATG 180
           AAAKRAAADEAPAPKTRRTRAQAEAVEASQALDDDEDAPKKPARKPR TSAT+GARAATG
Sbjct: 121 AAAKRAAADEAPAPKTRRTRAQAEAVEASQALDDDEDAPKKPARKPRTTSATSGARAATG 180

Query: 181 STRTTRTTGTKTTAAKTTTTRGTAAGSKTTTT----KAATTRKAAAPKTPTGKTVRVAPA 236
           +TRTTRTTGTKTTAAKTTTTRGTAAG           A T RK +APKTPTGKTVRVAPA
Sbjct: 181 TTRTTRTTGTKTTAAKTTTTRGTAAGKAAAGKACCPNACTNRKLSAPKTPTGKTVRVAPA 240

Query: 237 KSETAKKPAAKRSSKA 252
           KSETAKKPAAKRSSKA
Sbjct: 241 KSETAKKPAAKRSSKA 256


  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
   0.307    0.119    0.317 

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: 413,857
Number of extensions: 12220
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 1
Length of query: 252
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 169
Effective length of database: 1,226,865
Effective search space: 207340185
Effective search space used: 207340185
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 129 (54.3 bits)