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= Os04g0397500 Os04g0397500|Os04g0397500
         (329 letters)

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

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


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0397500  Homeodomain-like containing protein                 229   2e-60
Os02g0516800  Homeodomain-like containing protein                 162   2e-40
Os01g0927200  Homeodomain-like containing protein                 113   2e-25

>Os04g0397500 Homeodomain-like containing protein
          Length = 329

 Score =  229 bits (584), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 112/137 (81%), Positives = 112/137 (81%)

Query: 1   MSGGGEVSGRAPRLPRWTRQEILVLIEGKRVVEXXXXXXXXXXXXXAAAEPTKWAAVAEY 60
           MSGGGEVSGRAPRLPRWTRQEILVLIEGKRVVE             AAAEPTKWAAVAEY
Sbjct: 1   MSGGGEVSGRAPRLPRWTRQEILVLIEGKRVVEGRGRGRGRGGGGGAAAEPTKWAAVAEY 60

Query: 61  CRRHGLERGPVQCRKRWSNLAGDYKKIREWERXXXXXXXXXXXXGMGKEVSFWAMRNDAR 120
           CRRHGLERGPVQCRKRWSNLAGDYKKIREWER            GMGKEVSFWAMRNDAR
Sbjct: 61  CRRHGLERGPVQCRKRWSNLAGDYKKIREWERSLSSPSSSSAAAGMGKEVSFWAMRNDAR 120

Query: 121 RERRLPGFFDREVYDIL 137
           RERRLPGFFDREVYDIL
Sbjct: 121 RERRLPGFFDREVYDIL 137



 Score =  224 bits (572), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 115/115 (100%), Positives = 115/115 (100%)

Query: 215 VPVLTSEKKSDPPRQDASEQAGTSRAKQPEQIVEDSPAQGAHKRQRSDDASGEAPDLQGQ 274
           VPVLTSEKKSDPPRQDASEQAGTSRAKQPEQIVEDSPAQGAHKRQRSDDASGEAPDLQGQ
Sbjct: 215 VPVLTSEKKSDPPRQDASEQAGTSRAKQPEQIVEDSPAQGAHKRQRSDDASGEAPDLQGQ 274

Query: 275 LIEILDRSSRMVAAQLEAQNINCQLDREQRKDQVSSLLGVLGKVADALYRIADKM 329
           LIEILDRSSRMVAAQLEAQNINCQLDREQRKDQVSSLLGVLGKVADALYRIADKM
Sbjct: 275 LIEILDRSSRMVAAQLEAQNINCQLDREQRKDQVSSLLGVLGKVADALYRIADKM 329



>Os02g0516800 Homeodomain-like containing protein
          Length = 374

 Score =  162 bits (411), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 95/150 (63%), Positives = 99/150 (66%), Gaps = 28/150 (18%)

Query: 8   SGRAPRLPRWTRQEILVLIEGKRVVEXXXXXXXXXXXXXAAA------------------ 49
           SGRAPRLPRWTRQEILVLIEGKR+VE             AAA                  
Sbjct: 20  SGRAPRLPRWTRQEILVLIEGKRMVEGRGGGRGGRGRAAAAAAAAAAAAAGGSGGEAAVA 79

Query: 50  --EPTKWAAVAEYCRRHGLERGPVQCRKRWSNLAGDYKKIREWERXXXXXXXXXXXXGMG 107
             EP KWAAVAEYCRRHG+ERG VQCRKRWSNLAGDYKKI+EWER               
Sbjct: 80  ALEP-KWAAVAEYCRRHGVERGAVQCRKRWSNLAGDYKKIKEWERAAAAAAPP------- 131

Query: 108 KEVSFWAMRNDARRERRLPGFFDREVYDIL 137
           +E SFWAMRNDARRERRLPGFFDREVYDIL
Sbjct: 132 REPSFWAMRNDARRERRLPGFFDREVYDIL 161



 Score = 87.4 bits (215), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 44/59 (74%), Positives = 52/59 (88%)

Query: 271 LQGQLIEILDRSSRMVAAQLEAQNINCQLDREQRKDQVSSLLGVLGKVADALYRIADKM 329
           LQ +L+EILDRSSRMVAAQLEAQN N +LDREQR+DQ +SL  VLG++ADAL RIADK+
Sbjct: 316 LQSKLVEILDRSSRMVAAQLEAQNANSRLDREQRRDQAASLAVVLGRLADALGRIADKL 374



>Os01g0927200 Homeodomain-like containing protein
          Length = 316

 Score =  113 bits (282), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 63/139 (45%), Positives = 77/139 (55%), Gaps = 23/139 (16%)

Query: 13  RLPRWTRQEILVLIEGKRVVEXXXXXXXXXXXXXAAAEPT--KWAAVAEYCRRHGLERGP 70
           RLPRWTR E LVL++ +R +E              + +P   KWAAV+ YCRRHG+ERGP
Sbjct: 20  RLPRWTRHETLVLLQARRAMEHRGRR---------SPQPVRLKWAAVSTYCRRHGVERGP 70

Query: 71  VQCRKRWSNLAGDYKKIREWERXXXXX------XXXXXXXGMGKEV------SFWAMRND 118
           +QCRKRW NL+ D KKI  WE+                  G G+        SFW MR +
Sbjct: 71  MQCRKRWGNLSWDLKKIVAWEKNLAAVVSGAGDNAVAAGEGEGEAPPPPRLESFWDMRGE 130

Query: 119 ARRERRLPGFFDREVYDIL 137
            RR R+LP  FDREVYD L
Sbjct: 131 QRRARQLPSSFDREVYDAL 149



  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
   0.316    0.132    0.390 

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: 8,734,794
Number of extensions: 293612
Number of successful extensions: 1188
Number of sequences better than 1.0e-10: 4
Number of HSP's gapped: 1183
Number of HSP's successfully gapped: 6
Length of query: 329
Length of database: 17,035,801
Length adjustment: 101
Effective length of query: 228
Effective length of database: 11,762,187
Effective search space: 2681778636
Effective search space used: 2681778636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 156 (64.7 bits)