The query sequence for this search has been filtered. Filtering
eliminates low complexity regions that commonly give spuriously high
scores that reflect compositional bias rather than significant
position-by-position alignment. Filtering can eliminate these potentially
confounding matches (e.g., hits against proline-rich regions or poly-A
tails) from the blast reports, leaving regions whose blast statistics
reflect the specificity of their pairwise alignment.

BLASTX 2.1.1 [Aug-8-2000]


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= Contig699.seq Contig699
         (1188 letters)

Database: nr
           565,281 sequences; 177,575,912 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

dbj|BAA09311.1|  (D50644) STF2 [Saccharomyces cerevisiae]          42  0.011
ref|NP_011522.1|  ATPase stabilizing factor; Stf2p >gi|13497...    42  0.011
prf||1006225A  ATP synthase regulating factor [Saccharomycet...    40  0.043
gb|AAF14242.1|AF110226_1  (AF110226) nuclear RNA binding pro...    38  0.22
pir||F71435  probable nuclear antigen - Arabidopsis thaliana...    37  0.48
gb|AAF14244.1|AF110228_1  (AF110228) nuclear RNA binding pro...    37  0.48
ref|NP_013431.1|  Ylr327cp >gi|1078067|pir||S53404 ATP synth...    36  0.83
dbj|BAA97154.1|  (AB018117) gene_id:MQL5.6~pir||G71444~simil...    36  1.1
gb|AAB66119.1|  (AF016672) F56D12.5 gene product [Caenorhabd...    36  1.1
dbj|BAB06447.1|  (AP001516) two-component response regulator...    34  2.4
pir||G71444  hypothetical protein - Arabidopsis thaliana >gi...    34  4.2
gb|AAF14245.1|AF110229_1  (AF110229) nuclear RNA binding pro...    33  5.5
pir||T12180  probable transcription factor - fava bean >gi|2...    32  9.4

>dbj|BAA09311.1| (D50644) STF2 [Saccharomyces cerevisiae]
          Length = 65

 Score = 42.2 bits (97), Expect = 0.011
 Identities = 21/60 (35%), Positives = 31/60 (51%)
 Frame = +2

Query: 365 MTRSHKANDRDHKGIAEGTMLPTETVPRFFGKSGFADVDPKKVKKDGSGRGNWGTVNDDI 544
           MTR++K  +R+ K             P++F  +G     P  +KK GSG+GNWG   D+I
Sbjct: 1   MTRTNKWTEREGKAD-----------PKYFSHTGNYGESPNHIKKQGSGKGNWGKPGDEI 49



>ref|NP_011522.1| ATPase stabilizing factor; Stf2p
 sp|P16965|STF2_YEAST ATPASE STABILIZING FACTOR 15 KD PROTEIN
 pir||S12201 ATP synthase regulatory factor, 15K - yeast (Saccharomyces
           cerevisiae)
 dbj|BAA00345.1| (D00444) open reading frame [Saccharomyces cerevisiae]
 emb|CAA96991.1| (Z72793) ORF YGR008c [Saccharomyces cerevisiae]
          Length = 84

 Score = 42.2 bits (97), Expect = 0.011
 Identities = 21/60 (35%), Positives = 31/60 (51%)
 Frame = +2

Query: 365 MTRSHKANDRDHKGIAEGTMLPTETVPRFFGKSGFADVDPKKVKKDGSGRGNWGTVNDDI 544
           MTR++K  +R+ K             P++F  +G     P  +KK GSG+GNWG   D+I
Sbjct: 1   MTRTNKWTEREGKAD-----------PKYFSHTGNYGESPNHIKKQGSGKGNWGKPGDEI 49



>prf||1006225A ATP synthase regulating factor [Saccharomycetales]
          Length = 83

 Score = 40.2 bits (92), Expect = 0.043
 Identities = 20/59 (33%), Positives = 30/59 (49%)
 Frame = +2

Query: 368 TRSHKANDRDHKGIAEGTMLPTETVPRFFGKSGFADVDPKKVKKDGSGRGNWGTVNDDI 544
           TR++K  +R+ K             P++F  +G     P  +KK GSG+GNWG   D+I
Sbjct: 1   TRTNKWTEREGKAN-----------PKYFSHTGNYGQSPNHIKKQGSGKGNWGKPGDEI 48



>gb|AAF14242.1|AF110226_1 (AF110226) nuclear RNA binding protein [Nicotiana tabacum]
          Length = 299

 Score = 37.9 bits (86), Expect = 0.22
 Identities = 15/21 (71%), Positives = 18/21 (85%)
 Frame = +2

Query: 491 VKKDGSGRGNWGTVNDDIAGE 553
           +K++GSGRGNWGT  DDIA E
Sbjct: 107 IKREGSGRGNWGTPADDIAQE 127



>pir||F71435 probable nuclear antigen - Arabidopsis thaliana
 emb|CAB10456.1| (Z97342) nuclear antigen homolog [Arabidopsis thaliana]
 gb|AAF14243.1|AF110227_1 (AF110227) nuclear RNA binding protein [Arabidopsis thaliana]
 emb|CAB80954.1| (AL161545) nuclear antigen homolog [Arabidopsis thaliana]
          Length = 355

 Score = 36.7 bits (83), Expect = 0.48
 Identities = 14/20 (70%), Positives = 17/20 (85%)
 Frame = +2

Query: 494 KKDGSGRGNWGTVNDDIAGE 553
           K+DGSGRGNWGT  ++IA E
Sbjct: 164 KRDGSGRGNWGTPGEEIAAE 183



>gb|AAF14244.1|AF110228_1 (AF110228) nuclear RNA binding protein A [Spinacia oleracea]
          Length = 356

 Score = 36.7 bits (83), Expect = 0.48
 Identities = 15/21 (71%), Positives = 18/21 (85%)
 Frame = +2

Query: 491 VKKDGSGRGNWGTVNDDIAGE 553
           VK++GSGRGNWGT  D+IA E
Sbjct: 159 VKREGSGRGNWGTPADEIAQE 179



>ref|NP_013431.1| Ylr327cp
 pir||S53404 ATP synthase regulatory factor homolog YLR327c - yeast
           (Saccharomyces cerevisiae)
 gb|AAB64510.1| (U20618) Ylr327cp [Saccharomyces cerevisiae]
          Length = 86

 Score = 36.0 bits (81), Expect = 0.83
 Identities = 15/42 (35%), Positives = 24/42 (56%)
 Frame = +2

Query: 419 TMLPTETVPRFFGKSGFADVDPKKVKKDGSGRGNWGTVNDDI 544
           T+   ++ P++F  +G     P  VK+ G G+GNWG   D+I
Sbjct: 8   TVHEAKSNPKYFTHNGNFGESPNHVKRGGYGKGNWGKPGDEI 49



>dbj|BAA97154.1| (AB018117) gene_id:MQL5.6~pir||G71444~similar to unknown protein
           [Arabidopsis thaliana]
          Length = 357

 Score = 35.6 bits (80), Expect = 1.1
 Identities = 18/47 (38%), Positives = 24/47 (50%)
 Frame = +2

Query: 404 GIAEGTMLPTETVPRFFGKSGFADVDPKKVKKDGSGRGNWGTVNDDI 544
           G+A G     E  PR + +          +K++G GRGNWGT  DDI
Sbjct: 135 GVANGESGDVERPPRNYDRHSRTG-HGTGMKRNGGGRGNWGTTEDDI 180



>gb|AAB66119.1| (AF016672) F56D12.5 gene product [Caenorhabditis elegans]
          Length = 378

 Score = 35.6 bits (80), Expect = 1.1
 Identities = 13/20 (65%), Positives = 16/20 (80%)
 Frame = +2

Query: 494 KKDGSGRGNWGTVNDDIAGE 553
           KKDG G+GNWG   D++AGE
Sbjct: 196 KKDGHGKGNWGDQKDELAGE 215



>dbj|BAB06447.1| (AP001516) two-component response regulator [Bacillus halodurans]
          Length = 510

 Score = 34.4 bits (77), Expect = 2.4
 Identities = 19/62 (30%), Positives = 34/62 (54%)
 Frame = -1

Query: 1074 DSDTSNTSFRLEDNFAAGRKSHDPRGDLSFSSPSITATIAPKLFDPSLPL*KRYNFWFPF 895
            + D S++  +  D+F  GR +H     L  SSP  +   A ++++  +PL K+Y+F+ P 
Sbjct: 218  EGDVSSSMKQALDDFLKGRDAHA----LLVSSPFSSIYEAKEVYERDIPLLKQYSFYLPD 273

Query: 894  VP 889
             P
Sbjct: 274  TP 275



>pir||G71444 hypothetical protein - Arabidopsis thaliana
 emb|CAB10532.1| (Z97343) hypothetical protein [Arabidopsis thaliana]
 emb|CAB78755.1| (AL161546) hypothetical protein [Arabidopsis thaliana]
          Length = 360

 Score = 33.6 bits (75), Expect = 4.2
 Identities = 12/17 (70%), Positives = 14/17 (81%)
 Frame = +2

Query: 494 KKDGSGRGNWGTVNDDI 544
           K+DG+GR NWGT  DDI
Sbjct: 153 KRDGAGRANWGTTQDDI 169



>gb|AAF14245.1|AF110229_1 (AF110229) nuclear RNA binding protein B [Spinacia oleracea]
          Length = 240

 Score = 33.2 bits (74), Expect = 5.5
 Identities = 11/20 (55%), Positives = 18/20 (90%)
 Frame = +2

Query: 488 KVKKDGSGRGNWGTVNDDIA 547
           +VK++GSGRGNWG  ++++A
Sbjct: 44  EVKREGSGRGNWGAESEEVA 63



>pir||T12180 probable transcription factor - fava bean
 emb|CAA66481.1| (X97907) transcription factor [Vicia faba]
          Length = 370

 Score = 32.5 bits (72), Expect = 9.4
 Identities = 11/17 (64%), Positives = 15/17 (87%)
 Frame = +2

Query: 494 KKDGSGRGNWGTVNDDI 544
           K+DG+GRGNWGT  D++
Sbjct: 174 KRDGAGRGNWGTEADEV 190



  Database: nr
    Posted date:  Sep 29, 2000  9:53 PM
  Number of letters in database: 177,575,912
  Number of sequences in database:  565,281
  
Lambda     K      H
   0.318    0.135     0.00 

Gapped
Lambda     K      H
   0.270   0.0470 4.94e-324 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 359775679
Number of Sequences: 565281
Number of extensions: 7462133
Number of successful extensions: 20138
Number of sequences better than 10.0: 26
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 20126
Number of HSP's gapped (non-prelim): 13
length of query: 396
length of database: 177,575,912
effective HSP length: 54
effective length of query: 341
effective length of database: 147,050,738
effective search space: 50144301658
effective search space used: 50144301658
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 72 (32.5 bits)