GeneModel BLAST Result against rice

BLASTP 2.2.12 [Aug-07-2005]


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.

Query= BGIBMGA001092-TA|BGIBMGA001092-PA|IPR004153|CXCXC repeat,
IPR000072|Platelet-derived growth factor (PDGF)
         (195 letters)

Database: rice 
           37,544 sequences; 14,793,348 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

10_07_0081 - 12716130-12716271,12716367-12716449,12716729-127167...    28   5.7  
06_03_1374 - 29671511-29672252,29672452-29672558,29672904-29673245     28   5.7  
03_02_0893 - 12223104-12223346                                         27   7.6  
08_02_1326 - 26158279-26159712                                         27   10.0 
04_03_0848 + 20261635-20261668,20261824-20261824,20261861-202619...    27   10.0 

>10_07_0081 - 12716130-12716271,12716367-12716449,12716729-12716785,
            12716886-12716942,12717014-12717113,12717204-12717274,
            12718284-12718460,12719142-12719312,12722151-12722234,
            12722310-12722354,12722447-12722537,12722745-12722863,
            12723213-12723434,12723630-12723854,12725366-12725571,
            12726081-12726258,12726702-12726762,12727930-12728039,
            12728126-12728257,12729136-12729208,12729608-12729645,
            12730373-12730474,12730565-12730622,12731071-12731172,
            12731240-12731386,12732023-12732159,12732256-12732405,
            12733103-12733259,12733615-12733673,12733982-12734138,
            12734209-12734354,12739177-12739320,12739478-12739606
          Length = 1309

 Score = 27.9 bits (59), Expect = 5.7
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 111  IPVRIYNGNTNKESCATYAVEEHVKCGCCAL 141
            I V+++N    +  C T++  E+VK G C L
Sbjct: 1157 INVQLFNSLLLRRECCTFSNGEYVKTGLCVL 1187


>06_03_1374 - 29671511-29672252,29672452-29672558,29672904-29673245
          Length = 396

 Score = 27.9 bits (59), Expect = 5.7
 Identities = 13/41 (31%), Positives = 20/41 (48%)

Query: 49  NERDHIMEKSRCGEPKDVFVQLKPNSPHELVSPSAVWVKNC 89
           NE+   ME + C E + +FVQ   N P  L+  + +    C
Sbjct: 102 NEKHRAMEFTTCKEDRPLFVQFCANDPDILLQAAKIVEPYC 142


>03_02_0893 - 12223104-12223346
          Length = 80

 Score = 27.5 bits (58), Expect = 7.6
 Identities = 9/24 (37%), Positives = 18/24 (75%)

Query: 66 VFVQLKPNSPHELVSPSAVWVKNC 89
          ++ QL+P+SP    +PSA+++ +C
Sbjct: 42 LWAQLQPDSPEPTCNPSALYLSHC 65


>08_02_1326 - 26158279-26159712
          Length = 477

 Score = 27.1 bits (57), Expect = 10.0
 Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 1/37 (2%)

Query: 86  VKNCVGICDYDNEGSCIATETKIRHIPVRIYN-GNTN 121
           VK C+G  D   E +   +  K    P+R+YN GNT+
Sbjct: 351 VKGCLGALDTAGESTGTKSGKKRGPAPLRVYNLGNTS 387


>04_03_0848 +
           20261635-20261668,20261824-20261824,20261861-20261924,
           20262647-20262739,20262818-20262926,20263212-20263261,
           20263335-20263425,20263660-20263730,20263979-20264077,
           20264241-20264307,20264507-20264592
          Length = 254

 Score = 27.1 bits (57), Expect = 10.0
 Identities = 13/30 (43%), Positives = 17/30 (56%)

Query: 156 KCSCHCPNIEDRRECVKKVRKMMDVLLITG 185
           +  C   +IE   ECVK V+K    LL+TG
Sbjct: 91  RLGCFNLSIEGHAECVKFVKKFNIPLLVTG 120


  Database: rice
    Posted date:  Oct 3, 2007  3:31 PM
  Number of letters in database: 14,793,348
  Number of sequences in database:  37,544
  
Lambda     K      H
   0.322    0.137    0.442 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 5,746,059
Number of Sequences: 37544
Number of extensions: 241852
Number of successful extensions: 432
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 428
Number of HSP's gapped (non-prelim): 5
length of query: 195
length of database: 14,793,348
effective HSP length: 78
effective length of query: 117
effective length of database: 11,864,916
effective search space: 1388195172
effective search space used: 1388195172
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.9 bits)
S2: 57 (27.1 bits)