BLAST Search Results
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= hhv6b-miR-ro6-1*
         (7 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ata-miR160a-3p MIMAT0037157 Aegilops tauschii miR160a-3p               14      20
hhv6b-miR-Ro6-1-3p MIMAT0023511 Human herpesvirus miR-Ro6-1-3p         14      20
smo-miR1082a MIMAT0005232 Selaginella moellendorffii miR1082a          14      20
dre-miR-733 MIMAT0003763 Danio rerio miR-733                           14      20
hvu-miR397b-3p MIMAT0035814 Hordeum vulgare miR397b-3p                 12      80
sma-miR-8444-3p MIMAT0033597 Schistosoma mansoni miR-8444-3p           12      80
ppe-miR8132 MIMAT0031562 Prunus persica miR8132                        12      80
mdo-miR-7398f-3p MIMAT0028899 Monodelphis domestica miR-7398f-3p       12      80
mdo-miR-7253-3p MIMAT0028473 Monodelphis domestica miR-7253-3p         12      80
mdm-miR319c MIMAT0026058 Malus domestica miR319c                       12      80
gga-miR-6579-5p MIMAT0025665 Gallus gallus miR-6579-5p                 12      80
mmu-miR-6351 MIMAT0025094 Mus musculus miR-6351                        12      80
mmu-miR-6239 MIMAT0024860 Mus musculus miR-6239                        12      80
rno-miR-1306-3p MIMAT0024852 Rattus norvegicus miR-1306-3p             12      80
mtr-miR4414a-3p MIMAT0021207 Medicago truncatula miR4414a-3p           12      80
gma-miR4414-3p MIMAT0032112 Glycine max miR4414-3p                     12      80
ame-miR-3768 MIMAT0018542 Apis mellifera miR-3768                      12      80
bmo-miR-3235 MIMAT0015418 Bombyx mori miR-3235                         12      80
cte-miR-2718 MIMAT0013587 Capitella teleta miR-2718                    12      80
cte-miR-2712 MIMAT0013581 Capitella teleta miR-2712                    12      80
mdv1-miR-M10-5p MIMAT0007294 Mareks disease miR-M10-5p                 12      80
cre-miR1148.1 MIMAT0005386 Chlamydomonas reinhardtii miR1148.1         12      80
cre-miR1145.2 MIMAT0005381 Chlamydomonas reinhardtii miR1145.2         12      80
tae-miR1125 MIMAT0005360 Triticum aestivum miR1125                     12      80
cel-miR-249-5p MIMAT0020338 Caenorhabditis elegans miR-249-5p          12      80
>ata-miR160a-3p MIMAT0037157 Aegilops tauschii miR160a-3p
          Length = 8

 Score = 14.4 bits (7), Expect =    20
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 gcgttgg 7
         |||||||
Sbjct: 1 gcgttgg 7
>hhv6b-miR-Ro6-1-3p MIMAT0023511 Human herpesvirus miR-Ro6-1-3p
          Length = 8

 Score = 14.4 bits (7), Expect =    20
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 gcgttgg 7
         |||||||
Sbjct: 2 gcgttgg 8
>smo-miR1082a MIMAT0005232 Selaginella moellendorffii miR1082a
          Length = 8

 Score = 14.4 bits (7), Expect =    20
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 gcgttgg 7
         |||||||
Sbjct: 1 gcgttgg 7
>dre-miR-733 MIMAT0003763 Danio rerio miR-733
          Length = 8

 Score = 14.4 bits (7), Expect =    20
 Identities = 7/7 (100%)
 Strand = Plus / Plus

                
Query: 1 gcgttgg 7
         |||||||
Sbjct: 2 gcgttgg 8
>hvu-miR397b-3p MIMAT0035814 Hordeum vulgare miR397b-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 8 gcgttg 3
>sma-miR-8444-3p MIMAT0033597 Schistosoma mansoni miR-8444-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 6 gcgttg 1
>ppe-miR8132 MIMAT0031562 Prunus persica miR8132
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 7 cgttgg 2
>mdo-miR-7398f-3p MIMAT0028899 Monodelphis domestica
         miR-7398f-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 6 gcgttg 1
>mdo-miR-7253-3p MIMAT0028473 Monodelphis domestica miR-7253-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 1 cgttgg 6
>mdm-miR319c MIMAT0026058 Malus domestica miR319c
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 8 cgttgg 3
>gga-miR-6579-5p MIMAT0025665 Gallus gallus miR-6579-5p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 6 gcgttg 1
>mmu-miR-6351 MIMAT0025094 Mus musculus miR-6351
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 3 gcgttg 8
>mmu-miR-6239 MIMAT0024860 Mus musculus miR-6239
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 3 gcgttg 8
>rno-miR-1306-3p MIMAT0024852 Rattus norvegicus miR-1306-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 3 cgttgg 8
>mtr-miR4414a-3p MIMAT0021207 Medicago truncatula miR4414a-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 8 cgttgg 3
>gma-miR4414-3p MIMAT0032112 Glycine max miR4414-3p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 7 cgttgg 2
>ame-miR-3768 MIMAT0018542 Apis mellifera miR-3768
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 6 cgttgg 1
>bmo-miR-3235 MIMAT0015418 Bombyx mori miR-3235
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 7 cgttgg 2
>cte-miR-2718 MIMAT0013587 Capitella teleta miR-2718
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 8 cgttgg 3
>cte-miR-2712 MIMAT0013581 Capitella teleta miR-2712
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 3 cgttgg 8
>mdv1-miR-M10-5p MIMAT0007294 Mareks disease miR-M10-5p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 1 gcgttg 6
>cre-miR1148.1 MIMAT0005386 Chlamydomonas reinhardtii miR1148.1
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 6 cgttgg 1
>cre-miR1145.2 MIMAT0005381 Chlamydomonas reinhardtii miR1145.2
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Plus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 3 gcgttg 8
>tae-miR1125 MIMAT0005360 Triticum aestivum miR1125
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 2 cgttgg 7
         ||||||
Sbjct: 8 cgttgg 3
>cel-miR-249-5p MIMAT0020338 Caenorhabditis elegans miR-249-5p
          Length = 8

 Score = 12.4 bits (6), Expect =    80
 Identities = 6/6 (100%)
 Strand = Plus / Minus

               
Query: 1 gcgttg 6
         ||||||
Sbjct: 8 gcgttg 3
  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: 44
Number of extensions: 40
Number of successful extensions: 25
Number of sequences better than 100.0: 25
Number of HSP's gapped: 25
Number of HSP's successfully gapped: 25
Length of query: 7
Length of database: 286,624
Length adjustment: 4
Effective length of query: 3
Effective length of database: 143,312
Effective search space:   429936
Effective search space used:   429936
X1: 5 ( 9.9 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 5 (10.4 bits)
S2: 6 (12.4 bits)