BLASTP 2.2.23 [Feb-03-2010]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Os04g0486400 Os04g0486400|AK103296
         (385 letters)

Database: rap3 
           52,214 sequences; 17,035,801 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0486400  RML1 protein                                        623   e-179
Os05g0128000  Homeodomain-like containing protein                  67   3e-11

>Os04g0486400 RML1 protein
          Length = 385

 Score =  623 bits (1606), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 308/344 (89%), Positives = 308/344 (89%)

Query: 42  PKKRAETWVQDETLCLIALRREMDSHFNTSKSNKHLWEAISARMREQGFDRSPTMCTDKW 101
           PKKRAETWVQDETLCLIALRREMDSHFNTSKSNKHLWEAISARMREQGFDRSPTMCTDKW
Sbjct: 42  PKKRAETWVQDETLCLIALRREMDSHFNTSKSNKHLWEAISARMREQGFDRSPTMCTDKW 101

Query: 102 RNLLKEFKKARSHARXXXXXXXXXXXXXXXXXNCPAKMACYKEIDDLLKRRXXXXXXXXX 161
           RNLLKEFKKARSHAR                 NCPAKMACYKEIDDLLKRR         
Sbjct: 102 RNLLKEFKKARSHARGGGGGGVGGGGAGTGGGNCPAKMACYKEIDDLLKRRGKPTGGGGA 161

Query: 162 XXXXXXXXXXTVTSKIDSYLQFDKGFEDASIPFGPVEASGRSLLSVEDRLEPDSHPLALT 221
                     TVTSKIDSYLQFDKGFEDASIPFGPVEASGRSLLSVEDRLEPDSHPLALT
Sbjct: 162 AVGSGAVKSPTVTSKIDSYLQFDKGFEDASIPFGPVEASGRSLLSVEDRLEPDSHPLALT 221

Query: 222 ADAVATNGVNPWNWRDTSTNGGDNQVTFGGRVILVKWGDYTKRIGIDGTADAIKEAIKSA 281
           ADAVATNGVNPWNWRDTSTNGGDNQVTFGGRVILVKWGDYTKRIGIDGTADAIKEAIKSA
Sbjct: 222 ADAVATNGVNPWNWRDTSTNGGDNQVTFGGRVILVKWGDYTKRIGIDGTADAIKEAIKSA 281

Query: 282 FGLRTRRAFWLEDEDEVVRSLDRDMPVGTYTLHLDTGMTIKLYMFENDEVRTEDKTFYTE 341
           FGLRTRRAFWLEDEDEVVRSLDRDMPVGTYTLHLDTGMTIKLYMFENDEVRTEDKTFYTE
Sbjct: 282 FGLRTRRAFWLEDEDEVVRSLDRDMPVGTYTLHLDTGMTIKLYMFENDEVRTEDKTFYTE 341

Query: 342 EDFRDFLSRRGWTLLREYSGYRIADTLDDLRPGVIYEGMRSLGD 385
           EDFRDFLSRRGWTLLREYSGYRIADTLDDLRPGVIYEGMRSLGD
Sbjct: 342 EDFRDFLSRRGWTLLREYSGYRIADTLDDLRPGVIYEGMRSLGD 385



>Os05g0128000 Homeodomain-like containing protein
          Length = 333

 Score = 66.6 bits (161), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 29/67 (43%), Positives = 41/67 (61%)

Query: 43  KKRAETWVQDETLCLIALRREMDSHFNTSKSNKHLWEAISARMREQGFDRSPTMCTDKWR 102
           ++R   W   ET   +A+R ++D  F ++K NK LWEA SAR+   GF R+P  C  KW+
Sbjct: 52  RERLPQWSHAETAAFLAIRADLDHSFLSTKRNKALWEAASARLHALGFARTPDQCKSKWK 111

Query: 103 NLLKEFK 109
           NL+  FK
Sbjct: 112 NLVTRFK 118



  Database: rap3
    Posted date:  Nov 19, 2010  6:03 PM
  Number of letters in database: 17,035,801
  Number of sequences in database:  52,214
  
Lambda     K      H
   0.319    0.135    0.413 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 10,672,572
Number of extensions: 419773
Number of successful extensions: 907
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 906
Number of HSP's successfully gapped: 2
Length of query: 385
Length of database: 17,035,801
Length adjustment: 103
Effective length of query: 282
Effective length of database: 11,657,759
Effective search space: 3287488038
Effective search space used: 3287488038
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: 157 (65.1 bits)