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= BGIBMGA002746-TA|BGIBMGA002746-PA|IPR008161|Collagen helix
repeat, IPR008160|Collagen triple helix repeat
         (135 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

04_04_0397 - 24921892-24922947,24923486-24923734,24923807-249241...    29   0.97 
06_01_0145 + 1092764-1093351                                           29   1.7  
06_01_0892 - 6827510-6827590,6829348-6830412                           26   9.0  
03_05_0292 + 22846273-22846377,22847161-22847823                       26   9.0  

>04_04_0397 -
           24921892-24922947,24923486-24923734,24923807-24924157,
           24924244-24924331,24924466-24924563,24925141-24925362,
           24925490-24925585,24926410-24926481,24927156-24927305
          Length = 793

 Score = 29.5 bits (63), Expect = 0.97
 Identities = 12/23 (52%), Positives = 13/23 (56%)

Query: 1   MKGAQGEPGSKGERGDPGLPGTD 23
           M G  G PG  G R  PG+PG D
Sbjct: 496 MPGMPGTPGMPGSRKMPGMPGLD 518


>06_01_0145 + 1092764-1093351
          Length = 195

 Score = 28.7 bits (61), Expect = 1.7
 Identities = 13/25 (52%), Positives = 14/25 (56%)

Query: 6  GEPGSKGERGDPGLPGTDGIPGQEG 30
          GEPG  GE G PG  G  G  G+ G
Sbjct: 16 GEPGQPGEPGQPGGRGRGGRGGRGG 40



 Score = 28.3 bits (60), Expect = 2.2
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 7  EPGSKGERGDPGLPGTDGIPGQEG 30
          +PG  G+ G+PG PG  G  G+ G
Sbjct: 14 QPGEPGQPGEPGQPGGRGRGGRGG 37


>06_01_0892 - 6827510-6827590,6829348-6830412
          Length = 381

 Score = 26.2 bits (55), Expect = 9.0
 Identities = 10/23 (43%), Positives = 11/23 (47%)

Query: 53 DAPCPLGHDGLPLPGCGWRPNKE 75
          D P P  H   P P  G+RP  E
Sbjct: 69 DEPSPYAHHSKPQPAYGFRPQHE 91


>03_05_0292 + 22846273-22846377,22847161-22847823
          Length = 255

 Score = 26.2 bits (55), Expect = 9.0
 Identities = 10/17 (58%), Positives = 12/17 (70%)

Query: 47 QGVPGLDAPCPLGHDGL 63
          Q VPG+D PC LG + L
Sbjct: 27 QAVPGVDGPCRLGPEEL 43


  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
   0.311    0.143    0.475 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 3,729,136
Number of Sequences: 37544
Number of extensions: 114824
Number of successful extensions: 195
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 179
Number of HSP's gapped (non-prelim): 13
length of query: 135
length of database: 14,793,348
effective HSP length: 75
effective length of query: 60
effective length of database: 11,977,548
effective search space: 718652880
effective search space used: 718652880
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 42 (21.7 bits)
S2: 55 (26.2 bits)