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= 0001.0003.p
         (330 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310939|ref|YP_003775031.1| hypothetical protein Hsero_1610...   537   e-154

>gi|300310939|ref|YP_003775031.1| hypothetical protein Hsero_1610
           [Herbaspirillum seropedicae SmR1]
          Length = 389

 Score =  537 bits (1383), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 264/389 (67%), Positives = 304/389 (78%), Gaps = 59/389 (15%)

Query: 1   MLIDFFFTLKDARVPVSIKEFLILLEAMQKDVISPNIDDFYYLARITLVKDEANYDKFDK 60
           MLIDFF+T+K A VPVSIKEFL LLEAM K VISP++D+FY+L+R+TLVKDEA++DKFD+
Sbjct: 1   MLIDFFYTVKQAGVPVSIKEFLTLLEAMDKQVISPSLDEFYFLSRLTLVKDEAHFDKFDR 60

Query: 61  AFGSYFKGIETIFEKNPEIPLDWLMKRMQRELTPEQKAALEKFGYDKLMDRLKELLKEQH 120
           AFG+YFKGIETIFEK PEIPL+WL+K++QR+LTPEQKAA+EKFGYDKLMDRLK+LL+EQ 
Sbjct: 61  AFGAYFKGIETIFEKRPEIPLEWLVKQLQRDLTPEQKAAIEKFGYDKLMDRLKQLLEEQK 120

Query: 121 ERHEGGNKWIGTGGSSPFGNSGYNPEGIRIGGESKNRSAVKVWDERTYKDYDSERELGTR 180
           ERHEGG+KWIGTGG SPFG+ GYNPEGIRIGG+   RSAVKVW+ER Y+DYD ERELGTR
Sbjct: 121 ERHEGGSKWIGTGGVSPFGHGGYNPEGIRIGGKGGQRSAVKVWEERQYQDYDGERELGTR 180

Query: 181 NIKV-----------------ALSLSLSLSLS---------------------------- 195
           NIKV                 AL  ++  + S                            
Sbjct: 181 NIKVALRRLRRFAREGLDEELALDDTIRATASNAGYLDIRMQPERKNKIKVLMLFDVGGS 240

Query: 196 -----AKTE---------FKNMEFFYFHNCVYDYVWKNNRRRHAERFPTWDLLHKYSPDT 241
                A+TE         FKNMEFFYFHNCVYDY+WKNNRRRHAERFPTWD+L KY+PDT
Sbjct: 241 MDDHIARTEELFSAARTEFKNMEFFYFHNCVYDYLWKNNRRRHAERFPTWDVLRKYTPDT 300

Query: 242 KLIFVGDATMSPYEIVQPGGSVEYNNPEAGAVWLQRFTSTFANFAWLNPEPEGLWQYRQS 301
           KLIFVGDATMSPYEIVQPGG+VEYNN EAGA WLQRFTSTF +F WLNPEPEGLWQYRQS
Sbjct: 301 KLIFVGDATMSPYEIVQPGGAVEYNNAEAGAEWLQRFTSTFPHFVWLNPEPEGLWQYRQS 360

Query: 302 ISIIQQLMSQRMFPLTIEGLERAMRLLSK 330
           I++I+QLM+ RMFPLT++GLE AMRLLSK
Sbjct: 361 IALIRQLMNDRMFPLTMDGLEGAMRLLSK 389


  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    0.137    0.416 

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: 1,025,044
Number of extensions: 41261
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 2
Length of query: 330
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 244
Effective length of database: 1,212,660
Effective search space: 295889040
Effective search space used: 295889040
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)