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= Os04g0509600 Os04g0509600|AK073718
         (536 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0509600  Similar to Ammonium transporter Amt1                441   e-124

>Os04g0509600 Similar to Ammonium transporter Amt1
          Length = 536

 Score =  441 bits (1133), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 301/536 (56%), Positives = 301/536 (56%)

Query: 1   GREEDGDVRXXXXXXXXXXXXERDGLPVQPVRRHDVGGGRDVPALLGVPRVRHAARVRDA 60
           GREEDGDVR            ERDGLPVQPVRRHDVGGGRDVPALLGVPRVRHAARVRDA
Sbjct: 1   GREEDGDVRGGPGAAAGAGGGERDGLPVQPVRRHDVGGGRDVPALLGVPRVRHAARVRDA 60

Query: 61  LRRVGAGQEHDEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXEAVLRPQAHAAXXX 120
           LRRVGAGQEHDE                                  EAVLRPQAHAA   
Sbjct: 61  LRRVGAGQEHDEHHAHQRARRRGRGALLLPLRLRLRLRHAVQRLHREAVLRPQAHAADRV 120

Query: 121 XXXXXXXXXXXXXXXXXXXXXXXXXEDAXXXXXXXXXXXXXXXXXGGVPLDLVRRWVGLC 180
                                    EDA                 GGVPLDLVRRWVGLC
Sbjct: 121 RLRLLPLPVGLRHRRRRDHVGLHRREDAVRRLPHLLRLPHRVRLPGGVPLDLVRRWVGLC 180

Query: 181 LPHVRTSAVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXPPHREVRPRRPIGGAQGPQRVA 240
           LPHVRTSAV                             PPHREVRPRRPIGGAQGPQRVA
Sbjct: 181 LPHVRTSAVRLRCHRLRRLRRRPHGRRCRRALGRAHRGPPHREVRPRRPIGGAQGPQRVA 240

Query: 241 RRAWHLPAVVRLVRIQPRVVHHHPQDVRPGRRHQRAVVXXXXXXXXXXXXXXXXXAHHAV 300
           RRAWHLPAVVRLVRIQPRVVHHHPQDVRPGRRHQRAVV                 AHHAV
Sbjct: 241 RRAWHLPAVVRLVRIQPRVVHHHPQDVRPGRRHQRAVVRSRPHRRDDDPGRQRGGAHHAV 300

Query: 301 REAAPDGALEXXXXXXXXXXXXXXXXXXXXXXXXXXXDHLRVRLGVGAHXXXXXXXXXXX 360
           REAAPDGALE                           DHLRVRLGVGAH           
Sbjct: 301 REAAPDGALERGRRLQRPPRRVRRHHRRVQRRRPVGRDHLRVRLGVGAHRPQRARRAPQV 360

Query: 361 XXXXXXXXXXXXXXXXXDPLHRALREAEVRRGDLRRRPAVRPVHGXXXXXXXXXXHPDPG 420
                            DPLHRALREAEVRRGDLRRRPAVRPVHG          HPDPG
Sbjct: 361 RRPARGRPAPRRVRRVGDPLHRALREAEVRRGDLRRRPAVRPVHGRRRQAARRARHPDPG 420

Query: 421 HLRVGQLHHGTSLLRAQEARPAPHLRRGRDVRHGPDTAXXXXXXXXXXXXXXXXWGWWVH 480
           HLRVGQLHHGTSLLRAQEARPAPHLRRGRDVRHGPDTA                WGWWVH
Sbjct: 421 HLRVGQLHHGTSLLRAQEARPAPHLRRGRDVRHGPDTARRVRVRLPRRGRARQVWGWWVH 480

Query: 481 APVRADPRRAGGGGCLQQQQPSVTNPERTTSQXXXXXXXXXXXXXXXXXHKFDPHI 536
           APVRADPRRAGGGGCLQQQQPSVTNPERTTSQ                 HKFDPHI
Sbjct: 481 APVRADPRRAGGGGCLQQQQPSVTNPERTTSQRRKKSRVSLPLRSRSSRHKFDPHI 536



  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
   0.322    0.140    0.455 

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: 12,772,619
Number of extensions: 436122
Number of successful extensions: 1040
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 1028
Number of HSP's successfully gapped: 1
Length of query: 536
Length of database: 17,035,801
Length adjustment: 106
Effective length of query: 430
Effective length of database: 11,501,117
Effective search space: 4945480310
Effective search space used: 4945480310
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: 158 (65.5 bits)