Bombyx BLAST Result against arabidopsis

BLASTX 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= msgV0898.Seq
         (339 letters)

Database: arabidopsis 
           28,952 sequences; 12,070,560 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At5g02960.1 68418.m00239 40S ribosomal protein S23 (RPS23B) ribo...   101   9e-23
At3g09680.1 68416.m01147 40S ribosomal protein S23 (RPS23A) simi...   101   9e-23
At1g74750.1 68414.m08661 pentatricopeptide (PPR) repeat-containi...    27   4.2  
At1g18900.2 68414.m02353 pentatricopeptide (PPR) repeat-containi...    27   4.2  
At1g18900.1 68414.m02352 pentatricopeptide (PPR) repeat-containi...    27   4.2  

>At5g02960.1 68418.m00239 40S ribosomal protein S23 (RPS23B)
           ribosomal protein S23, Fragaria x ananassa, PIR:S56673
          Length = 142

 Score =  101 bits (243), Expect = 9e-23
 Identities = 47/65 (72%), Positives = 54/65 (83%)
 Frame = -3

Query: 229 KXVXAFVPRDGCXNHIEEXXXVLVAXFGRKGXAVGDIPGVRFKVVKVANVSLLALYKXRK 50
           K + AFVP DGC N+IEE   VL+A FGRKG AVGDIPGVRFKVVKV+ VSLLAL+K +K
Sbjct: 78  KKIAAFVPNDGCLNYIEENDEVLIAGFGRKGHAVGDIPGVRFKVVKVSGVSLLALFKEKK 137

Query: 49  ERPRS 35
           E+PRS
Sbjct: 138 EKPRS 142



 Score = 49.2 bits (112), Expect = 7e-07
 Identities = 23/33 (69%), Positives = 26/33 (78%)
 Frame = -1

Query: 336 GASHAKGXVLEKVGVXAXQPNSAIRIMLRVQXI 238
           G+SHAKG VLEK+G+ A QPNSAIR   RVQ I
Sbjct: 42  GSSHAKGIVLEKIGIEAKQPNSAIRKCARVQLI 74


>At3g09680.1 68416.m01147 40S ribosomal protein S23 (RPS23A) similar
           to 40S ribosomal protein S23 (S12) GB:P46297 from
           [Fragaria x ananassa]
          Length = 142

 Score =  101 bits (243), Expect = 9e-23
 Identities = 47/65 (72%), Positives = 54/65 (83%)
 Frame = -3

Query: 229 KXVXAFVPRDGCXNHIEEXXXVLVAXFGRKGXAVGDIPGVRFKVVKVANVSLLALYKXRK 50
           K + AFVP DGC N+IEE   VL+A FGRKG AVGDIPGVRFKVVKV+ VSLLAL+K +K
Sbjct: 78  KKIAAFVPNDGCLNYIEENDEVLIAGFGRKGHAVGDIPGVRFKVVKVSGVSLLALFKEKK 137

Query: 49  ERPRS 35
           E+PRS
Sbjct: 138 EKPRS 142



 Score = 46.8 bits (106), Expect = 4e-06
 Identities = 22/32 (68%), Positives = 25/32 (78%)
 Frame = -1

Query: 333 ASHAKGXVLEKVGVXAXQPNSAIRIMLRVQXI 238
           +SHAKG VLEK+G+ A QPNSAIR   RVQ I
Sbjct: 43  SSHAKGIVLEKIGIEAKQPNSAIRKCARVQLI 74


>At1g74750.1 68414.m08661 pentatricopeptide (PPR) repeat-containing
           protein low similarity to post-transcriptional control
           of chloroplast gene expression CRP1 [Zea mays]
           GI:3289002; contains Pfam profile PF01535: PPR repeat
          Length = 855

 Score = 26.6 bits (56), Expect = 4.2
 Identities = 11/22 (50%), Positives = 14/22 (63%)
 Frame = +2

Query: 83  VGYFYHLKTNSGNVTDGXTFTT 148
           +G+FY LK   G   DG T+TT
Sbjct: 343 LGFFYWLKRQPGFKHDGHTYTT 364


>At1g18900.2 68414.m02353 pentatricopeptide (PPR) repeat-containing
           protein low similarity to 67kD chloroplastic RNA-binding
           protein, P67 [Arabidopsis thaliana] GI:9755842; contains
           Pfam profile PF01535: PPR repeat
          Length = 860

 Score = 26.6 bits (56), Expect = 4.2
 Identities = 11/22 (50%), Positives = 14/22 (63%)
 Frame = +2

Query: 83  VGYFYHLKTNSGNVTDGXTFTT 148
           +G+FY LK   G   DG T+TT
Sbjct: 348 LGFFYWLKRQPGFKHDGHTYTT 369


>At1g18900.1 68414.m02352 pentatricopeptide (PPR) repeat-containing
           protein low similarity to 67kD chloroplastic RNA-binding
           protein, P67 [Arabidopsis thaliana] GI:9755842; contains
           Pfam profile PF01535: PPR repeat
          Length = 860

 Score = 26.6 bits (56), Expect = 4.2
 Identities = 11/22 (50%), Positives = 14/22 (63%)
 Frame = +2

Query: 83  VGYFYHLKTNSGNVTDGXTFTT 148
           +G+FY LK   G   DG T+TT
Sbjct: 348 LGFFYWLKRQPGFKHDGHTYTT 369


  Database: arabidopsis
    Posted date:  Oct 4, 2007 10:56 AM
  Number of letters in database: 12,070,560
  Number of sequences in database:  28,952
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 5,445,635
Number of Sequences: 28952
Number of extensions: 70664
Number of successful extensions: 101
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 99
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 101
length of database: 12,070,560
effective HSP length: 72
effective length of database: 9,986,016
effective search space used: 399440640
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)