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= Os09g0488800 Os09g0488800|Os09g0488800
         (610 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os09g0488800  Retrovirus capsid, C-terminal domain containin...   986   0.0  
Os03g0249100  Conserved hypothetical protein                      164   2e-40

>Os09g0488800 Retrovirus capsid, C-terminal domain containing protein
          Length = 610

 Score =  986 bits (2549), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 491/596 (82%), Positives = 491/596 (82%)

Query: 15  TSTPPVQATRQDVQAAIAKAVELRALHAALLQRXXXXXXXXASASRSXXXXXXXXXXXXX 74
           TSTPPVQATRQDVQAAIAKAVELRALHAALLQR        ASASRS             
Sbjct: 15  TSTPPVQATRQDVQAAIAKAVELRALHAALLQRGGGGVGGGASASRSPAIIRLPPAASPA 74

Query: 75  XXXXXXXXXXXXTVDEDYPVFTPAYDEEQMAGLSHICQDNRSRSENWXXXXXXXXXXXXX 134
                       TVDEDYPVFTPAYDEEQMAGLSHICQDNRSRSENW             
Sbjct: 75  LSRAGAAAAAVATVDEDYPVFTPAYDEEQMAGLSHICQDNRSRSENWSGIALGGGGSGDD 134

Query: 135 XXXXXXXXYDNLNAFSSSNSELRFPSSTDHHRRHKVHPAFLHSAPSADRFLASAGRATMA 194
                   YDNLNAFSSSNSELRFPSSTDHHRRHKVHPAFLHSAPSADRFLASAGRATMA
Sbjct: 135 DDDAAFSDYDNLNAFSSSNSELRFPSSTDHHRRHKVHPAFLHSAPSADRFLASAGRATMA 194

Query: 195 GTAELLKAPSTCGSAFRPATIGRDHGIDVGALKFLXXXXXXXXXXXXXXXXXXXXXXXXQ 254
           GTAELLKAPSTCGSAFRPATIGRDHGIDVGALKFL                        Q
Sbjct: 195 GTAELLKAPSTCGSAFRPATIGRDHGIDVGALKFLASSGAPLSAAAAAAQPRPAKHRRAQ 254

Query: 255 ILSWLFPRXXXXXXPMSPSAIERENMSQLLKEWGLLSLDSLRRELADANAHRDAALQEAA 314
           ILSWLFPR      PMSPSAIERENMSQLLKEWGLLSLDSLRRELADANAHRDAALQEAA
Sbjct: 255 ILSWLFPRAKKKAKPMSPSAIERENMSQLLKEWGLLSLDSLRRELADANAHRDAALQEAA 314

Query: 315 EMRSSLGELTTKLAGLEAYCSELKKALRLAXXXXXXXXXXXXXXXXXXXXXIGASQELPG 374
           EMRSSLGELTTKLAGLEAYCSELKKALRLA                     IGASQELPG
Sbjct: 315 EMRSSLGELTTKLAGLEAYCSELKKALRLATSSTSNAQPSSSSMSRRSTRSIGASQELPG 374

Query: 375 PVSHEAMVEGFLQIASEARLSVKQFCKALIQQVEEPDNGLIEKLNILLQPYQLMITDNKH 434
           PVSHEAMVEGFLQIASEARLSVKQFCKALIQQVEEPDNGLIEKLNILLQPYQLMITDNKH
Sbjct: 375 PVSHEAMVEGFLQIASEARLSVKQFCKALIQQVEEPDNGLIEKLNILLQPYQLMITDNKH 434

Query: 435 CSKLVLYHLEALMNQAMYQDFENCTFQKNGSPRCLDPKQGSQESFASFVALRNLSWNEVL 494
           CSKLVLYHLEALMNQAMYQDFENCTFQKNGSPRCLDPKQGSQESFASFVALRNLSWNEVL
Sbjct: 435 CSKLVLYHLEALMNQAMYQDFENCTFQKNGSPRCLDPKQGSQESFASFVALRNLSWNEVL 494

Query: 495 RKGTKYYSEDFSRFCDQKMSCIVSTLKNWSRPWPEQLLQCFFVAAKCVWLLHLLAFSFTP 554
           RKGTKYYSEDFSRFCDQKMSCIVSTLKNWSRPWPEQLLQCFFVAAKCVWLLHLLAFSFTP
Sbjct: 495 RKGTKYYSEDFSRFCDQKMSCIVSTLKNWSRPWPEQLLQCFFVAAKCVWLLHLLAFSFTP 554

Query: 555 ALTIMRVEESRVFDQMYMEDILPDKQQLHNPCQVKIMVMPGFYVQYRVLKCRVLTT 610
           ALTIMRVEESRVFDQMYMEDILPDKQQLHNPCQVKIMVMPGFYVQYRVLKCRVLTT
Sbjct: 555 ALTIMRVEESRVFDQMYMEDILPDKQQLHNPCQVKIMVMPGFYVQYRVLKCRVLTT 610



>Os03g0249100 Conserved hypothetical protein
          Length = 445

 Score =  164 bits (415), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 113/329 (34%), Positives = 154/329 (46%), Gaps = 73/329 (22%)

Query: 285 KEWGLLSLDSLRRELADANAHRDAALQEAAEMRSSLGELTTKLAGLEAYCSELKKALRLA 344
           ++W L + D L R LA A   RD AL+E   ++ SL EL  KLA LEA            
Sbjct: 131 EQWRLAAAD-LSRRLAAATRTRDEALEETTRLKHSLTELEMKLARLEA------------ 177

Query: 345 XXXXXXXXXXXXXXXXXXXXXIGASQELPGPVSHEAMVEGFLQIASEARLSVKQFCKALI 404
                                    + LP P +    VE FL+  S AR +V+   +AL 
Sbjct: 178 -------------------------RVLPTPTAAAFPVESFLRAVSTARAAVRSLTRALS 212

Query: 405 QQVEEPDNGLIEKLNILLQPYQLMITDNKHCSKLVLYHLEALMNQAMYQDFENCTFQKNG 464
             +  P N           P                 +LE+ +N+A + DFE       G
Sbjct: 213 NHLRSPVN-----------PGP---------------NLESFLNRAFHADFE---LDTEG 243

Query: 465 SPRCLDPKQGSQESFASFVALRNLSWNEVLRKGTKYYSEDFSRFCDQKMSCIVSTLKNWS 524
                DP    + + A++ ++  L+W EVL  GTK+YSE  SRFCD KMS +VS+L  W+
Sbjct: 244 DVHTADPAGRCEANLAAYHSIAALTWEEVLLHGTKHYSEGLSRFCDAKMSEVVSSL-GWA 302

Query: 525 RP--WPEQLLQCFFVAAKCVWLLHLLAFSFTPALTIMRVEESRVFDQMYMEDILPDKQQL 582
           R   WPE LLQ FF+AAK VW + LLA S  P L ++RV+    FD  +MED    +   
Sbjct: 303 RARAWPEPLLQAFFLAAKGVWGVRLLARSVHPPLPVVRVDRGARFDSRFMEDAAAGRAGK 362

Query: 583 HNPCQVKIMVMPGFYVQY---RVLKCRVL 608
             P  VK+MV PGF+V      V+KC+V+
Sbjct: 363 LEPASVKMMVAPGFHVYVACAGVVKCKVV 391



  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
   0.320    0.131    0.393 

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: 15,717,818
Number of extensions: 537148
Number of successful extensions: 1555
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 1550
Number of HSP's successfully gapped: 2
Length of query: 610
Length of database: 17,035,801
Length adjustment: 107
Effective length of query: 503
Effective length of database: 11,448,903
Effective search space: 5758798209
Effective search space used: 5758798209
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: 159 (65.9 bits)