miRNA: 3'- ggUGGAgGGUUGUUCuGUCCGc-CGAG- -5'
miRNA: 3'- -GGUGGaGGGUu---GUUCUGUCCgCCGAG- -5'
miRNA: 3'- -GGUG-GAGGGUUGuuCUG-UCC-GCCGag -5'
miRNA: 3'- -GGUGGAGGGUUGUUCUGUCCGCCGAG- -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 | |||||||
| 30325 | 3' | -56.4 | NC_006383.2 | + | 3122 | 0.67 | 0.274419 |
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Target: 5'- -aACCUgUCGACAAG-CAGGCaaGCUCu -3' miRNA: 3'- ggUGGAgGGUUGUUCuGUCCGc-CGAG- -5' |
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| 30325 | 3' | -56.4 | NC_006383.2 | + | 5327 | 0.71 | 0.120713 |
|
Target: 5'- cUCGCCcCCCGccacCGGGACAGG-GGCUCc -3' miRNA: 3'- -GGUGGaGGGUu---GUUCUGUCCgCCGAG- -5' |
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| 30325 | 3' | -56.4 | NC_006383.2 | + | 4538 | 0.76 | 0.055308 |
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Target: 5'- gCCACuCUCCCGAUggGACgAGGcCGGCc- -3' miRNA: 3'- -GGUG-GAGGGUUGuuCUG-UCC-GCCGag -5' |
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| 30325 | 3' | -56.4 | NC_006383.2 | + | 5241 | 1.11 | 9.5e-05 |
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Target: 5'- aCCACCUCCCAACAAGACAGGCGGCUCc -3' miRNA: 3'- -GGUGGAGGGUUGUUCUGUCCGCCGAG- -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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