miRNA: 3'- -CCGGuu-GUGCUaaGCC-ACGUCGAGUG- -5'
miRNA: 3'- cCGGuUGUGCuaAGCCACG--------------UCGAGUG- -5'
miRNA: 3'- -CCGGU--------UGUGCUAagccACGUCGAGUG- -5'
miRNA: 3'- -CC-GGUUG-UGCUa---AGCCa-----CGUCGaGUG- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 1336 | 3' | -53.2 | NC_001335.1 | + | 34377 | 0.71 | 0.520069 |
|
Target: 5'- uGGCCccuUGCGGc-CGGaUGCGGCUCACg -3' miRNA: 3'- -CCGGuu-GUGCUaaGCC-ACGUCGAGUG- -5' |
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| 1336 | 3' | -53.2 | NC_001335.1 | + | 33895 | 0.71 | 0.495514 |
|
Target: 5'- cGCC-GCAUGggUUGGUGCagaccacccgguugGGCUCACg -3' miRNA: 3'- cCGGuUGUGCuaAGCCACG--------------UCGAGUG- -5' |
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| 1336 | 3' | -53.2 | NC_001335.1 | + | 17165 | 0.73 | 0.3893 |
|
Target: 5'- cGGCCAggucgcagGCGCGGUgc--UGCAGCUCGCu -3' miRNA: 3'- -CCGGU--------UGUGCUAagccACGUCGAGUG- -5' |
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| 1336 | 3' | -53.2 | NC_001335.1 | + | 50738 | 0.66 | 0.783507 |
|
Target: 5'- aGGcCCAGCgACGAgucgUCGGccggggGCGGCgCACc -3' miRNA: 3'- -CC-GGUUG-UGCUa---AGCCa-----CGUCGaGUG- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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