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= rrv-miR-rr1-9-3p
         (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-miR169c-3p MIMAT0037137 Aegilops tauschii miR169c-3p               14      20
mcmv-miR-m108-2-5p.1 MIMAT0005560 Mouse cytomegalovirus miR-m108...    14      20
oha-miR-29a-2-5p MIMAT0036881 Ophiophagus hannah miR-29a-2-5p          12      80
chi-miR-29c-5p MIMAT0036116 Capra hircus miR-29c-5p                    12      80
bra-miR9552b-3p MIMAT0035656 Brassica rapa miR9552b-3p                 12      80
sma-miR-8419-5p MIMAT0033542 Schistosoma mansoni miR-8419-5p           12      80
bdi-miR7758-3p MIMAT0030263 Brachypodium distachyon miR7758-3p         12      80
mtr-miR2587g MIMAT0029964 Medicago truncatula miR2587g                 12      80
dev-miR-D17-3p MIMAT0028191 Duck enteritis miR-D17-3p                  12      80
mmu-miR-6956-3p MIMAT0027813 Mus musculus miR-6956-3p                  12      80
mja-miR-6492 MIMAT0025300 Marsupenaeus japonicus miR-6492              12      80
cgr-miR-1973 MIMAT0023835 Cricetulus griseus miR-1973                  12      80
pti-miR5476 MIMAT0022109 Phaeodactylum tricornutum miR5476             12      80
aca-miR-29a-2-5p MIMAT0021913 Anolis carolinensis miR-29a-2-5p         12      80
bdi-miR5178-3p MIMAT0020725 Brachypodium distachyon miR5178-3p         12      80
pma-miR-4624 MIMAT0019658 Petromyzon marinus miR-4624                  12      80
pma-miR-4549 MIMAT0019581 Petromyzon marinus miR-4549                  12      80
tca-miR-3809-3p MIMAT0018641 Tribolium castaneum miR-3809-3p           12      80
tca-miR-2765-3p MIMAT0018631 Tribolium castaneum miR-2765-3p           12      80
cin-miR-4061-5p MIMAT0016610 Ciona intestinalis miR-4061-5p            12      80
cin-miR-4038-5p MIMAT0016565 Ciona intestinalis miR-4038-5p            12      80
tgu-miR-29a-2-5p MIMAT0031063 Taeniopygia guttata miR-29a-2-5p         12      80
mtr-miR2587f MIMAT0013257 Medicago truncatula miR2587f                 12      80
mtr-miR2587e MIMAT0013256 Medicago truncatula miR2587e                 12      80
mtr-miR2587d MIMAT0013255 Medicago truncatula miR2587d                 12      80
mtr-miR2587c MIMAT0013254 Medicago truncatula miR2587c                 12      80
mtr-miR2587b MIMAT0013253 Medicago truncatula miR2587b                 12      80
mtr-miR2587a MIMAT0013252 Medicago truncatula miR2587a                 12      80
cbr-miR-64b MIMAT0011490 Caenorhabditis briggsae miR-64b               12      80
bta-miR-29d-5p MIMAT0026919 Bos taurus miR-29d-5p                      12      80
oan-miR-29a-2-5p MIMAT0009167 Ornithorhynchus anatinus miR-29a-2-5p    12      80
mcmv-miR-m107-1-5p MIMAT0005555 Mouse cytomegalovirus miR-m107-1-5p    12      80
xtr-miR-29c-5p MIMAT0003676 Xenopus tropicalis miR-29c-5p              12      80
kshv-miR-K12-3-3p MIMAT0002194 Kaposi sarcoma-associated miR-K12...    12      80
sbi-miR169d-3p MIMAT0026431 Sorghum bicolor miR169d-3p                 12      80
cbr-miR-360 MIMAT0001303 Caenorhabditis briggsae miR-360               12      80
rno-miR-29c-5p MIMAT0003154 Rattus norvegicus miR-29c-5p               12      80
cel-miR-360-3p MIMAT0000702 Caenorhabditis elegans miR-360-3p          12      80
hsa-miR-29c-5p MIMAT0004673 Homo sapiens miR-29c-5p                    12      80
mmu-miR-29c-5p MIMAT0004632 Mus musculus miR-29c-5p                    12      80
>ata-miR169c-3p MIMAT0037137 Aegilops tauschii miR169c-3p
          Length = 8

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

                
Query: 1 gcggtca 7
         |||||||
Sbjct: 2 gcggtca 8
>mcmv-miR-m108-2-5p.1 MIMAT0005560 Mouse cytomegalovirus
         miR-m108-2-5p.1
          Length = 8

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

                
Query: 1 gcggtca 7
         |||||||
Sbjct: 1 gcggtca 7
>oha-miR-29a-2-5p MIMAT0036881 Ophiophagus hannah miR-29a-2-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>chi-miR-29c-5p MIMAT0036116 Capra hircus miR-29c-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>bra-miR9552b-3p MIMAT0035656 Brassica rapa miR9552b-3p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>sma-miR-8419-5p MIMAT0033542 Schistosoma mansoni miR-8419-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 8 cggtca 3
>bdi-miR7758-3p MIMAT0030263 Brachypodium distachyon miR7758-3p
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 3 gcggtc 8
>mtr-miR2587g MIMAT0029964 Medicago truncatula miR2587g
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>dev-miR-D17-3p MIMAT0028191 Duck enteritis miR-D17-3p
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 6 gcggtc 1
>mmu-miR-6956-3p MIMAT0027813 Mus musculus miR-6956-3p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>mja-miR-6492 MIMAT0025300 Marsupenaeus japonicus miR-6492
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 8 cggtca 3
>cgr-miR-1973 MIMAT0023835 Cricetulus griseus miR-1973
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>pti-miR5476 MIMAT0022109 Phaeodactylum tricornutum miR5476
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>aca-miR-29a-2-5p MIMAT0021913 Anolis carolinensis miR-29a-2-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>bdi-miR5178-3p MIMAT0020725 Brachypodium distachyon miR5178-3p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 8 cggtca 3
>pma-miR-4624 MIMAT0019658 Petromyzon marinus miR-4624
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 3 gcggtc 8
>pma-miR-4549 MIMAT0019581 Petromyzon marinus miR-4549
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 8 gcggtc 3
>tca-miR-3809-3p MIMAT0018641 Tribolium castaneum miR-3809-3p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 3 cggtca 8
>tca-miR-2765-3p MIMAT0018631 Tribolium castaneum miR-2765-3p
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 3 gcggtc 8
>cin-miR-4061-5p MIMAT0016610 Ciona intestinalis miR-4061-5p
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 3 gcggtc 8
>cin-miR-4038-5p MIMAT0016565 Ciona intestinalis miR-4038-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 1 cggtca 6
>tgu-miR-29a-2-5p MIMAT0031063 Taeniopygia guttata miR-29a-2-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>mtr-miR2587f MIMAT0013257 Medicago truncatula miR2587f
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>mtr-miR2587e MIMAT0013256 Medicago truncatula miR2587e
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>mtr-miR2587d MIMAT0013255 Medicago truncatula miR2587d
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>mtr-miR2587c MIMAT0013254 Medicago truncatula miR2587c
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>mtr-miR2587b MIMAT0013253 Medicago truncatula miR2587b
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>mtr-miR2587a MIMAT0013252 Medicago truncatula miR2587a
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 7 cggtca 2
>cbr-miR-64b MIMAT0011490 Caenorhabditis briggsae miR-64b
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 8 gcggtc 3
>bta-miR-29d-5p MIMAT0026919 Bos taurus miR-29d-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>oan-miR-29a-2-5p MIMAT0009167 Ornithorhynchus anatinus
         miR-29a-2-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>mcmv-miR-m107-1-5p MIMAT0005555 Mouse cytomegalovirus
         miR-m107-1-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 1 cggtca 6
>xtr-miR-29c-5p MIMAT0003676 Xenopus tropicalis miR-29c-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>kshv-miR-K12-3-3p MIMAT0002194 Kaposi sarcoma-associated
         miR-K12-3-3p
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 3 gcggtc 8
>sbi-miR169d-3p MIMAT0026431 Sorghum bicolor miR169d-3p
          Length = 8

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

               
Query: 1 gcggtc 6
         ||||||
Sbjct: 3 gcggtc 8
>cbr-miR-360 MIMAT0001303 Caenorhabditis briggsae miR-360
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>rno-miR-29c-5p MIMAT0003154 Rattus norvegicus miR-29c-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>cel-miR-360-3p MIMAT0000702 Caenorhabditis elegans miR-360-3p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>hsa-miR-29c-5p MIMAT0004673 Homo sapiens miR-29c-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
>mmu-miR-29c-5p MIMAT0004632 Mus musculus miR-29c-5p
          Length = 8

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

               
Query: 2 cggtca 7
         ||||||
Sbjct: 6 cggtca 1
  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: 47
Number of extensions: 45
Number of successful extensions: 40
Number of sequences better than 100.0: 40
Number of HSP's gapped: 40
Number of HSP's successfully gapped: 40
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)