miRNA: 3'- -CAGCGCGUGCUaGCGCa--------UCGUCaGCa -5'
miRNA: 3'- -CAGCGCGUGCUAgCGCaUCGU-CAGCA- -5'
miRNA: 3'- -CAGCGCGUGCUAGCGCauCGUCagca -5'
miRNA: 3'- -CAGCGCGUGCUAGCGCAUCGUCAGCA- -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
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| Predicted miRNA align pattern | |||||||
| 24839 | 3' | -55.7 | NC_005284.1 | + | 11819 | 0.75 | 0.226197 |
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Target: 5'- gGUCGCGCGCGAgCGCGgcuaucucgAGCAG-CGg -3' miRNA: 3'- -CAGCGCGUGCUaGCGCa--------UCGUCaGCa -5' |
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| 24839 | 3' | -55.7 | NC_005284.1 | + | 45908 | 0.79 | 0.128035 |
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Target: 5'- gGUCGCGCGCGAU-GCGcAGCAcGUCGUu -3' miRNA: 3'- -CAGCGCGUGCUAgCGCaUCGU-CAGCA- -5' |
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| 24839 | 3' | -55.7 | NC_005284.1 | + | 37110 | 0.79 | 0.117741 |
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Target: 5'- cGUCGCGCACGAUCGCGc-GCAGg--- -3' miRNA: 3'- -CAGCGCGUGCUAGCGCauCGUCagca -5' |
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| 24839 | 3' | -55.7 | NC_005284.1 | + | 39329 | 1.08 | 0.00112 |
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Target: 5'- aGUCGCGCACGAUCGCGUAGCAGUCGUg -3' miRNA: 3'- -CAGCGCGUGCUAGCGCAUCGUCAGCA- -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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