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= BGIBMGA000883-TA|BGIBMGA000883-PA|IPR006629|LPS-induced tumor
necrosis factor alpha factor
         (153 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

08_01_0538 - 4670159-4670251,4670332-4670393,4670476-4670599,467...    29   1.6  
02_03_0408 - 18692176-18692278,18692590-18692669,18692764-186928...    29   2.2  
09_04_0048 - 14188102-14188146,14188656-14188790                       28   2.9  
05_01_0142 - 940421-940701,941262-941574                               28   2.9  
12_01_0357 + 2720860-2721066,2721169-2721384,2721481-2723608,272...    27   6.6  
05_01_0267 + 2050854-2051682,2051864-2051921,2052518-2052608           27   6.6  
02_01_0227 - 1481511-1481831,1482083-1482469,1483470-1483688           27   6.6  

>08_01_0538 -
           4670159-4670251,4670332-4670393,4670476-4670599,
           4670797-4670859,4671483-4671533,4671627-4671691,
           4671797-4671935,4672332-4672388,4672729-4672827,
           4673266-4673337,4673426-4673494,4673617-4673762,
           4673881-4674157
          Length = 438

 Score = 29.1 bits (62), Expect = 1.6
 Identities = 12/18 (66%), Positives = 12/18 (66%)

Query: 86  SHYTCPSCNTAIVTRVER 103
           SHY CPSC TAI  R  R
Sbjct: 15  SHYPCPSCPTAIPIRDRR 32


>02_03_0408 -
           18692176-18692278,18692590-18692669,18692764-18692890,
           18694016-18694051,18695832-18696085
          Length = 199

 Score = 28.7 bits (61), Expect = 2.2
 Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 9/76 (11%)

Query: 85  PSHYTCPSCNTAIVTRVERVST--------TKTHLFAALLCLIGCWPCVCIPYCTNSCQ- 135
           P+ + C +C  A V+ +    T        +K  L + + C++     VC    +  C  
Sbjct: 68  PAPFHCQACGAAAVSSLRSEDTIFFPVHGRSKPSLASVVACMMPFMMGVCFLCPSMDCLW 127

Query: 136 NAEHYCPNCSAYIGNY 151
           +  HYCP+C   +  +
Sbjct: 128 HKYHYCPSCGEKVAEF 143


>09_04_0048 - 14188102-14188146,14188656-14188790
          Length = 59

 Score = 28.3 bits (60), Expect = 2.9
 Identities = 11/15 (73%), Positives = 11/15 (73%)

Query: 86  SHYTCPSCNTAIVTR 100
           SHY CPSC TAI  R
Sbjct: 15  SHYPCPSCPTAIPKR 29


>05_01_0142 - 940421-940701,941262-941574
          Length = 197

 Score = 28.3 bits (60), Expect = 2.9
 Identities = 11/23 (47%), Positives = 13/23 (56%)

Query: 36 LSGTHFVPPHQNPPPYVTQPQPG 58
          ++G H  PPHQ  PP    P PG
Sbjct: 23 VAGGHGYPPHQGYPPQGYPPPPG 45


>12_01_0357 +
           2720860-2721066,2721169-2721384,2721481-2723608,
           2723699-2724124,2724242-2724546,2724660-2724823,
           2724899-2724980
          Length = 1175

 Score = 27.1 bits (57), Expect = 6.6
 Identities = 18/51 (35%), Positives = 22/51 (43%), Gaps = 10/51 (19%)

Query: 85  PSHYTCPSCNTAIVTRVERVSTTKTHLFAALLCLIGCWPCVC-IPYCTNSC 134
           P  Y CP C T I    E + T  THL+        C PC+  I   T +C
Sbjct: 15  PGEYFCPVCRTLICPN-EALQTQCTHLY--------CKPCLAYIVATTQAC 56


>05_01_0267 + 2050854-2051682,2051864-2051921,2052518-2052608
          Length = 325

 Score = 27.1 bits (57), Expect = 6.6
 Identities = 10/19 (52%), Positives = 12/19 (63%)

Query: 83  PDPSHYTCPSCNTAIVTRV 101
           PDP  + CP+C  A V RV
Sbjct: 97  PDPVSFVCPTCADAAVGRV 115


>02_01_0227 - 1481511-1481831,1482083-1482469,1483470-1483688
          Length = 308

 Score = 27.1 bits (57), Expect = 6.6
 Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 89  TCPSCNTAIVTRVERVSTTKTH-LFAALLCLIGCWPCVC-IP----YCTNSCQNAEHYCP 142
           TC   +T++VT VE  S T  + L    +C     P +   P     C+N     E++CP
Sbjct: 35  TCKPWSTSLVT-VELSSLTGLNDLLECPVCTNSMRPPILQCPNGHTICSNCKHRVENHCP 93

Query: 143 NCSAYIGN 150
            C   +GN
Sbjct: 94  TCRQELGN 101


  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
   0.323    0.137    0.466 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 4,494,963
Number of Sequences: 37544
Number of extensions: 166682
Number of successful extensions: 583
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 578
Number of HSP's gapped (non-prelim): 7
length of query: 153
length of database: 14,793,348
effective HSP length: 76
effective length of query: 77
effective length of database: 11,940,004
effective search space: 919380308
effective search space used: 919380308
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (22.0 bits)
S2: 56 (26.6 bits)