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= BGIBMGA000497-TA|BGIBMGA000497-PA|IPR011598|Helix-loop-helix
DNA-binding, IPR001092|Basic helix-loop-helix dimerisation region bHLH
         (233 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

02_02_0288 - 8603033-8603436,8603611-8603862,8604530-8605022           29   4.2  
03_05_0441 + 24350026-24350081,24350186-24351011,24351088-243511...    28   5.6  
06_01_0775 - 5795329-5795801,5796582-5796720,5796810-5797049,579...    27   9.8  
05_03_0660 + 16724361-16724684,16725085-16725300                       27   9.8  
05_03_0424 - 13795721-13795900,13796134-13796202,13796260-137963...    27   9.8  

>02_02_0288 - 8603033-8603436,8603611-8603862,8604530-8605022
          Length = 382

 Score = 28.7 bits (61), Expect = 4.2
 Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 35 GSDDESASLHSELPSCVYAAARSRLQLPLAAYVHQHT-RQLHPVFFV 80
          GS   + S+ +  PSC    +R  +QLPL  Y  +H  R  H   FV
Sbjct: 53 GSSSSTLSIAAASPSCHCRHSRPMVQLPLHGYRRRHPGRWSHYFAFV 99


>03_05_0441 +
           24350026-24350081,24350186-24351011,24351088-24351189,
           24351278-24351343,24351418-24351483,24351594-24351800,
           24351925-24352086
          Length = 494

 Score = 28.3 bits (60), Expect = 5.6
 Identities = 19/56 (33%), Positives = 29/56 (51%)

Query: 3   GARTQLADSSTSPPLSDSRRLDYSGLKFSYVDGSDDESASLHSELPSCVYAAARSR 58
           G  T    +STS   S  +RLD +    S  + ++ ESA+L  + P+ +  A RSR
Sbjct: 263 GTTTTTEPTSTSNRSSKRKRLDTTEDSESPSEDAESESAALARKPPAKMTTARRSR 318


>06_01_0775 -
           5795329-5795801,5796582-5796720,5796810-5797049,
           5797278-5797313,5797421-5797501,5797937-5797994,
           5799440-5799630
          Length = 405

 Score = 27.5 bits (58), Expect = 9.8
 Identities = 13/39 (33%), Positives = 21/39 (53%)

Query: 85  SLLEAAAEPDYQCGGSPYRVQRAAANVRERRRMLRSGPN 123
           S L A ++ +Y+   S   +   AAN  ER R + +GP+
Sbjct: 277 SQLNATSDQEYKIAHSVCSLHNVAANSNERLRRVANGPS 315


>05_03_0660 + 16724361-16724684,16725085-16725300
          Length = 179

 Score = 27.5 bits (58), Expect = 9.8
 Identities = 16/47 (34%), Positives = 24/47 (51%)

Query: 33 VDGSDDESASLHSELPSCVYAAARSRLQLPLAAYVHQHTRQLHPVFF 79
          VD S++   +L   L + V AAA+S    P  A V  H R   P+++
Sbjct: 20 VDESEESMHALSWCLSNVVSAAAKSPAAAPPPAVVLVHARPARPLYY 66


>05_03_0424 -
           13795721-13795900,13796134-13796202,13796260-13796385,
           13797224-13798166,13798263-13799248
          Length = 767

 Score = 27.5 bits (58), Expect = 9.8
 Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 12/85 (14%)

Query: 76  PVFFVTYKDSLLEAAAEPDYQCGG------SPYRVQRAAANVRERRRMLRSG--PNCSIN 127
           P  F         AAAE +Y+C G      SP  V R +++       L S   P C   
Sbjct: 3   PSAFAQIDGDAAAAAAEAEYRCTGARRGISSPAMV-RISSSPAATASYLASNLLPKCRSL 61

Query: 128 SAFDELRVHV---PTFPYEKRLSKI 149
           +A  +L  H+    +FPY   LSK+
Sbjct: 62  AAVKQLHAHLLHRASFPYNHFLSKL 86


  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
   0.317    0.130    0.390 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 6,784,641
Number of Sequences: 37544
Number of extensions: 267308
Number of successful extensions: 571
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: 567
Number of HSP's gapped (non-prelim): 5
length of query: 233
length of database: 14,793,348
effective HSP length: 80
effective length of query: 153
effective length of database: 11,789,828
effective search space: 1803843684
effective search space used: 1803843684
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 58 (27.5 bits)