miRNA: 3'- uuGCUGa-GGUUUCGC-AGACGCUAAGc -5'
miRNA: 3'- uugCUgaGGUUUCGCAGACGCUAAGc -5'
miRNA: 3'- uUGCUGAGGUU----------UCGCAGACg--CUAAGC- -5'
miRNA: 3'- -UUGCUGAGGUUUCGCAGACGCUAAGC- -5'
Results 1 - 4 of 4 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 | |||||||
| 20819 | 5' | -50.8 | NC_004689.1 | + | 28333 | 0.66 | 0.937139 |
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Target: 5'- -gUGGCagCCGGAGUGaUCUGUGGUUCc -3' miRNA: 3'- uuGCUGa-GGUUUCGC-AGACGCUAAGc -5' |
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| 20819 | 5' | -50.8 | NC_004689.1 | + | 44226 | 0.7 | 0.777521 |
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Target: 5'- --aGAg-CCAAAGCGUUUGCGAUUUc -3' miRNA: 3'- uugCUgaGGUUUCGCAGACGCUAAGc -5' |
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| 20819 | 5' | -50.8 | NC_004689.1 | + | 40356 | 0.78 | 0.349573 |
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Target: 5'- cACGGCUCCGAcgcuacacccGGCGUCUGacgGGUUCGg -3' miRNA: 3'- uUGCUGAGGUU----------UCGCAGACg--CUAAGC- -5' |
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| 20819 | 5' | -50.8 | NC_004689.1 | + | 54015 | 1.08 | 0.004414 |
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Target: 5'- gAACGACUCCAAAGCGUCUGCGAUUCGa -3' miRNA: 3'- -UUGCUGAGGUUUCGCAGACGCUAAGC- -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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