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= BGIBMGA002027-TA|BGIBMGA002027-PA|IPR007889|Helix-turn-helix,
Psq, IPR011526|Helix-turn-helix, Psq-like
         (273 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

12_02_0998 + 25126114-25126596,25129213-25129339,25129349-251294...    31   1.00 
02_05_0891 - 32554355-32555305                                         30   2.3  
04_04_0662 - 27051508-27051828,27051878-27053438,27054333-27054733     29   4.0  

>12_02_0998 +
          25126114-25126596,25129213-25129339,25129349-25129459,
          25130122-25130270,25130356-25130643,25130753-25130941,
          25131445-25131619,25132219-25132316
          Length = 539

 Score = 31.1 bits (67), Expect = 1.00
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 3/63 (4%)

Query: 6  EHRSEEAHNIDMMRESITLSSVPQQRRRDYHDDRTVENSQQTTDQQNM--NIDQVGM-DA 62
          E  S  A N+D   ++I LS VP+Q + D  +    E    + ++  +  N DQV + D 
Sbjct: 10 EDMSGIASNLDNEEQAIPLSDVPEQYKEDPENTYDEETKDSSYEESGIPYNEDQVNINDG 69

Query: 63 NTG 65
          N G
Sbjct: 70 NVG 72


>02_05_0891 - 32554355-32555305
          Length = 316

 Score = 29.9 bits (64), Expect = 2.3
 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)

Query: 6   EHRSEEAHNIDMMRESITLSSVPQQRRRDYHDDRTVENSQQTTDQQ 51
           E  SEE    D++R S T S  P Q  R+  DD + E   ++++ +
Sbjct: 58  EEESEEEEEEDLVRSSATKSRDPPQENRE-EDDSSDEEEDESSESE 102


>04_04_0662 - 27051508-27051828,27051878-27053438,27054333-27054733
          Length = 760

 Score = 29.1 bits (62), Expect = 4.0
 Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 235 PPHPVSVGFIDSRPLDFPLQAVPHNSPLNILGVNFNSM 272
           PP P+    I S     PL+ +P   P+N+ G++F+SM
Sbjct: 231 PPGPIQPAPISSAAPAVPLE-LPPQPPINLQGLSFSSM 267


  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    0.131    0.395 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 7,162,220
Number of Sequences: 37544
Number of extensions: 250912
Number of successful extensions: 470
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 468
Number of HSP's gapped (non-prelim): 3
length of query: 273
length of database: 14,793,348
effective HSP length: 81
effective length of query: 192
effective length of database: 11,752,284
effective search space: 2256438528
effective search space used: 2256438528
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: 59 (27.9 bits)