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= 0023.0014.p
         (320 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309492|ref|YP_003773584.1| RNA polymerase sigma-24 factor ...   545   e-156

>gi|300309492|ref|YP_003773584.1| RNA polymerase sigma-24 factor
           protein [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score =  545 bits (1403), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 280/322 (86%), Positives = 289/322 (89%), Gaps = 3/322 (0%)

Query: 1   MTDDPALAQFTQLRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKSVLHSTEAWLVTV 60
           MTDD ALA FTQ RPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDK+VL S EAWLVTV
Sbjct: 1   MTDDLALALFTQHRPRLFGVAYRMLASRSEADDVLQDAWLRWHAQDKAVLDSAEAWLVTV 60

Query: 61  VTRLCIDRLRQLQQERQHYVGHWLPEPLVGLAEPAP--EIDLFGAARLAPSPEALLEQQS 118
           VTRLCIDRLRQLQQERQHYVGHWLPEPLV LAEP P  +IDL+G ARLAPSPE LLEQ S
Sbjct: 61  VTRLCIDRLRQLQQERQHYVGHWLPEPLVDLAEPGPGPDIDLYGQARLAPSPEQLLEQHS 120

Query: 119 DVSFAYLLLLERLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQE 178
           D+SFAYLLLLE LKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQE
Sbjct: 121 DLSFAYLLLLEHLKPEERAAFLLREVFDNDYPDIAAILQKSEASCRQLVHRARERLARQE 180

Query: 179 ADGVAR-PAVRAASSPVTRETHALLLEKFMQAVQSGQREAMLGLLAEDARLIGDGGGKVA 237
                R PAVRAASSPVTRETHALLLEKFMQA+QSGQREAMLGLLAEDARLIGDGGGKVA
Sbjct: 181 HQADPRSPAVRAASSPVTRETHALLLEKFMQALQSGQREAMLGLLAEDARLIGDGGGKVA 240

Query: 238 SFPHPLAGGERISWLYYANVRRFAQRIVYRAAWINGSPGLLRYVDGALESAQVLESDGLR 297
           SFPHPL G ERISWLYYANVRRF  RIVYRAAWING+ GLLRYVDG LESAQ L+    R
Sbjct: 241 SFPHPLEGAERISWLYYANVRRFGTRIVYRAAWINGAAGLLRYVDGVLESAQALQWQAGR 300

Query: 298 IHAIYVVRNPDKLAAIAQQNTA 319
           + AIYVVRNPDKLAAIA+Q  A
Sbjct: 301 VSAIYVVRNPDKLAAIARQQLA 322


  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
   0.321    0.135    0.400 

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: 1,050,899
Number of extensions: 44043
Number of successful extensions: 171
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 169
Number of HSP's successfully gapped: 1
Length of query: 320
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 235
Effective length of database: 1,217,395
Effective search space: 286087825
Effective search space used: 286087825
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: 130 (54.7 bits)