VIRmiRNA

BLASTN 2.2.15 [Oct-15-2006]


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= kshv-miR-k12-3-3p
         (8 letters)

Database: /home/users/abid/BLAST/MIRBASE 
           35,828 sequences; 286,624 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

kshv-miR-K12-3-3p MIMAT0002194 Kaposi sarcoma-associated miR-K12...    16   6.9  
ppc-miR-8248-5p MIMAT0032960 Pristionchus pacificus miR-8248-5p        14      27
pma-miR-4624 MIMAT0019658 Petromyzon marinus miR-4624                  14      27
hsa-miR-579-5p MIMAT0026616 Homo sapiens miR-579-5p                    14      27

>kshv-miR-K12-3-3p MIMAT0002194 Kaposi sarcoma-associated
         miR-K12-3-3p
          Length = 8

 Score = 16.4 bits (8), Expect = 6.9
 Identities = 8/8 (100%)
 Strand = Plus / Plus

                 
Query: 1 tcgcggtc 8
         ||||||||
Sbjct: 1 tcgcggtc 8



>ppc-miR-8248-5p MIMAT0032960 Pristionchus pacificus miR-8248-5p
          Length = 8

 Score = 14.4 bits (7), Expect =    27
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 2 cgcggtc 8
         |||||||
Sbjct: 1 cgcggtc 7



>pma-miR-4624 MIMAT0019658 Petromyzon marinus miR-4624
          Length = 8

 Score = 14.4 bits (7), Expect =    27
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 2 cgcggtc 8
         |||||||
Sbjct: 2 cgcggtc 8



>hsa-miR-579-5p MIMAT0026616 Homo sapiens miR-579-5p
          Length = 8

 Score = 14.4 bits (7), Expect =    27
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 tcgcggt 7
         |||||||
Sbjct: 1 tcgcggt 7



  Database: /home/users/abid/BLAST/MIRBASE
    Posted date:  Sep 2, 2014  3:58 PM
  Number of letters in database: 286,624
  Number of sequences in database:  35,828
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 35828
Number of Hits to DB: 38
Number of extensions: 33
Number of successful extensions: 22
Number of sequences better than 100.0: 4
Number of HSP's gapped: 22
Number of HSP's successfully gapped: 4
Length of query: 8
Length of database: 286,624
Length adjustment: 4
Effective length of query: 4
Effective length of database: 143,312
Effective search space:   573248
Effective search space used:   573248
X1: 5 ( 9.9 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 5 (10.4 bits)
S2: 7 (14.4 bits)