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Copy/paste the nucleotides sequence below and search for the latest BLAST results by yourself.

5' CCUGUCACCGGAUGUGUUUUCCGGUCUGAUGAGUCCGUGAGGACGAAACAGG 3'

BLASTN 2.0.8 [Jan-05-1999]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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= hammerhead ribozyme
         (52 letters)

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

If you have any problems or questions with the results of this search
please refer to the BLAST FAQs

Distribution of 23 Blast Hits on the Query Sequence


  

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

gb|M17439|TRSSTOBAA  Tobacco ringspot virus (TobRV) mRNA.              84  2e-15
gb|M14879|TRSSATA  Tobacco ringspot virus satellite RNA.               84  2e-15
gb|M31515|TRSSTOBA  Tobacco ringspot virus (STobRV) autolytic ju...    64  2e-09
gb|U43954|XXU43954  Expression vector pBMRz, complete cds              48  1e-04
gb|U43955|XXU43955  Expression vector pBRz, complete cds               48  1e-04
gb|U43957|XXU43957  Expression vector pB10T-MRz, complete cds          48  1e-04
gb|U43956|XXU43956  Expression vector pB5T-MRz, complete cds           48  1e-04
dbj|D00685|CHYTSSR  Chicory yellow mottle virus isolate T small ...    38  0.12
gb|M63666|BYDSATRNA  Barley yellow dwarf virus satellite RNA.          34  1.9
gb|J02439|MTVR2  Velvet tobacco mottle virus circular viroid-lik...    34  1.9



  
 gb|M17439|TRSSTOBAA Tobacco ringspot virus (TobRV) mRNA.
          Length = 360
          
 Score = 83.8 bits (42), Expect = 2e-15
 Identities = 45/46 (97%)
 Strand = Plus / Plus

                                                        
Query: 7  accggatgtgttttccggtctgatgagtccgtgaggacgaaacagg 52
          |||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 1  accggatgtgctttccggtctgatgagtccgtgaggacgaaacagg 46




  
 gb|M14879|TRSSATA Tobacco ringspot virus satellite RNA.
          Length = 359
          
 Score = 83.8 bits (42), Expect = 2e-15
 Identities = 45/46 (97%)
 Strand = Plus / Plus

                                                        
Query: 7  accggatgtgttttccggtctgatgagtccgtgaggacgaaacagg 52
          |||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 1  accggatgtgctttccggtctgatgagtccgtgaggacgaaacagg 46




  
 gb|M31515|TRSSTOBA Tobacco ringspot virus (STobRV) autolytic junction.
          Length = 71
          
 Score = 63.9 bits (32), Expect = 2e-09
 Identities = 32/32 (100%)
 Strand = Plus / Minus

                                          
Query: 21 ccggtctgatgagtccgtgaggacgaaacagg 52
          ||||||||||||||||||||||||||||||||
Sbjct: 71 ccggtctgatgagtccgtgaggacgaaacagg 40




  
 gb|U43954|XXU43954 Expression vector pBMRz, complete cds
           Length = 2994
           
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 754 ctgatgagtccgtgaggacgaaac 731




  
 gb|U43955|XXU43955 Expression vector pBRz, complete cds
           Length = 2998
           
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 758 ctgatgagtccgtgaggacgaaac 735




  
 gb|U43957|XXU43957 Expression vector pB10T-MRz, complete cds
           Length = 3624
           
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 824 ctgatgagtccgtgaggacgaaac 801




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 894 ctgatgagtccgtgaggacgaaac 871




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 964 ctgatgagtccgtgaggacgaaac 941




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1034 ctgatgagtccgtgaggacgaaac 1011




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1104 ctgatgagtccgtgaggacgaaac 1081




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1174 ctgatgagtccgtgaggacgaaac 1151




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1244 ctgatgagtccgtgaggacgaaac 1221




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1314 ctgatgagtccgtgaggacgaaac 1291




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1384 ctgatgagtccgtgaggacgaaac 1361




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 754 ctgatgagtccgtgaggacgaaac 731




  
 gb|U43956|XXU43956 Expression vector pB5T-MRz, complete cds
           Length = 3274
           
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 824 ctgatgagtccgtgaggacgaaac 801




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 894 ctgatgagtccgtgaggacgaaac 871




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 964 ctgatgagtccgtgaggacgaaac 941




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                    
Query: 26   ctgatgagtccgtgaggacgaaac 49
            ||||||||||||||||||||||||
Sbjct: 1034 ctgatgagtccgtgaggacgaaac 1011




  
 Score = 48.1 bits (24), Expect = 1e-04
 Identities = 24/24 (100%)
 Strand = Plus / Minus

                                   
Query: 26  ctgatgagtccgtgaggacgaaac 49
           ||||||||||||||||||||||||
Sbjct: 754 ctgatgagtccgtgaggacgaaac 731




  
 dbj|D00685|CHYTSSR Chicory yellow mottle virus isolate T small satellite RNA
          >gi|221225|dbj|D00721|CHYSATS1 Chicory yellow mottle
          virus satellite RNA S1
          Length = 457
          
 Score = 38.2 bits (19), Expect = 0.12
 Identities = 28/31 (90%)
 Strand = Plus / Plus

                                         
Query: 21 ccggtctgatgagtccgtgaggacgaaacag 51
          |||| ||||||||||||  ||||||||||||
Sbjct: 14 ccggcctgatgagtccgaaaggacgaaacag 44




  
 gb|M63666|BYDSATRNA Barley yellow dwarf virus satellite RNA.
           Length = 322
           
 Score = 34.2 bits (17), Expect = 1.9
 Identities = 23/25 (92%)
 Strand = Plus / Minus

                                    
Query: 26  ctgatgagtccgtgaggacgaaaca 50
           ||||||||||||  |||||||||||
Sbjct: 220 ctgatgagtccgaaaggacgaaaca 196




  
 gb|J02439|MTVR2 Velvet tobacco mottle virus circular viroid-like RNA (RNA 2).
          Length = 366
          
 Score = 34.2 bits (17), Expect = 1.9
 Identities = 23/25 (92%)
 Strand = Plus / Plus

                                   
Query: 25 tctgatgagtccgtgaggacgaaac 49
          |||||||||||||  ||||||||||
Sbjct: 66 tctgatgagtccgaaaggacgaaac 90


CPU time:     0.09 user secs.	    0.03 sys. secs	    0.12 total secs.

  Database: Non-redundant GenBank+EMBL+DDBJ+PDB sequences
    Posted date:  May 31, 1999 11:36 AM
  Number of letters in database: 1,126,993,556
  Number of sequences in database:  433,126
  
Lambda     K      H
    1.37    0.711     0.00 

Gapped
Lambda     K      H
    1.37    0.711 4.94e-324 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 10877
Number of Sequences: 433126
Number of extensions: 10877
Number of successful extensions: 10789
Number of sequences better than 10.0: 10
length of query: 52
length of database: 1,126,993,556
effective HSP length: 18
effective length of query: 34
effective length of database: 1119197288
effective search space: 38052707792
effective search space used: 38052707792
T: 0
A: 0
X1: 6 (11.9 bits)
X2: 25 (49.6 bits)
S1: 12 (24.3 bits)
S2: 16 (32.2 bits)