miRNA: 3'- gcCAGCACU----UGAGCUAUa------GCGGCAGU- -5'
miRNA: 3'- gCCa--GCACUUG----AGCUAUAGCGGcAGU- -5'
miRNA: 3'- -GCcAGCACUUG-AGCUAU---------------AGCGGCAGu -5'
miRNA: 3'- -GCCAGCACUUGAGCUAUAGCGGCAGU- -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 | |||||||
| 16273 | 5' | -51.7 | NC_004084.1 | + | 38725 | 0.68 | 0.842927 |
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Target: 5'- -aGUCGUGGgaguGCUCGGUGaacgcgaUGCCGUCGa -3' miRNA: 3'- gcCAGCACU----UGAGCUAUa------GCGGCAGU- -5' |
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| 16273 | 5' | -51.7 | NC_004084.1 | + | 17959 | 0.68 | 0.824947 |
|
Target: 5'- aGGccgUGUGGACgucgUCGGUGUCGCCcUCGg -3' miRNA: 3'- gCCa--GCACUUG----AGCUAUAGCGGcAGU- -5' |
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| 16273 | 5' | -51.7 | NC_004084.1 | + | 14032 | 0.68 | 0.819389 |
|
Target: 5'- gCGcUCGUGGACaUCGGUGuucaggaggugucgcUCGCCGUUg -3' miRNA: 3'- -GCcAGCACUUG-AGCUAU---------------AGCGGCAGu -5' |
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| 16273 | 5' | -51.7 | NC_004084.1 | + | 46568 | 1.09 | 0.002819 |
|
Target: 5'- uCGGUCGUGAACUCGAUAUCGCCGUCAg -3' miRNA: 3'- -GCCAGCACUUGAGCUAUAGCGGCAGU- -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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