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= 0229.0071.p
         (197 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312008|ref|YP_003776100.1| RNA polymerase sigma-E factor [...   131   3e-32
gi|300312009|ref|YP_003776101.1| hypothetical protein Hsero_2697...    70   2e-13

>gi|300312008|ref|YP_003776100.1| RNA polymerase sigma-E factor
           [Herbaspirillum seropedicae SmR1]
          Length = 163

 Score =  131 bits (330), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 84/129 (65%), Positives = 97/129 (75%), Gaps = 3/129 (2%)

Query: 72  QKLASWRRGSDMRPWLFSIMHNLHVDQRRKPVIPTVALDDEDALATPAYAPDRLVGYDLE 131
           QKL SW+RGS MRPWLFSIMHNLH D RR+    TVALD+   +     A D  V  DLE
Sbjct: 35  QKLDSWQRGSPMRPWLFSIMHNLHADARRRASPATVALDEYGEIDQAQVALDPGVLLDLE 94

Query: 132 SALRLLAAEQREILLLVVLEEMTYEEVAATLGIPLGTVMSRLSRARERLRTLVEGRPQH- 190
           +AL+LL  EQRE+LLLVVLEEM YEEVA TLGIP GTVMSRLSRARERLR +++G+ +  
Sbjct: 95  TALQLLPPEQREVLLLVVLEEMRYEEVAVTLGIPTGTVMSRLSRARERLRRVMQGQGESS 154

Query: 191 --STLKVVK 197
             S+LKVVK
Sbjct: 155 PGSSLKVVK 163


>gi|300312009|ref|YP_003776101.1| hypothetical protein Hsero_2697
          [Herbaspirillum seropedicae SmR1]
          Length = 123

 Score = 69.7 bits (169), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 36/64 (56%), Positives = 40/64 (62%), Gaps = 2/64 (3%)

Query: 16 SAVPAAFAEEMAVKKADDVLVTTKGMTVYTFDND--PVGKSVCNGPCATAWPPVAPVGQK 73
          SA   A A+   VK  D +LV   GMTVYTFD D    GKSVCNGPCA  WPPVAP+G  
Sbjct: 15 SASVTALAQGAGVKAMDGILVDAHGMTVYTFDKDTPNNGKSVCNGPCAKLWPPVAPMGSP 74

Query: 74 LASW 77
           A +
Sbjct: 75 AAPY 78


  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
   0.319    0.134    0.390 

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: 569,890
Number of extensions: 22847
Number of successful extensions: 105
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 105
Number of HSP's successfully gapped: 2
Length of query: 197
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 117
Effective length of database: 1,241,070
Effective search space: 145205190
Effective search space used: 145205190
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: 128 (53.9 bits)