miRNA: 3'- -CGUGC-GaGGAAGGUCC-------ACAGAAGu----UG- -5'
miRNA: 3'- -CGU---GCGAGGAa--GGUCCa---------CAGaAGUUG- -5'
miRNA: 3'- -CGUGCGAGGAaGGUCCA-CaGAa----GUUG- -5'
miRNA: 3'- cgUGCG--AGGAAGGUCCACAGAaGUUG- -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 | |||||||
| 13997 | 5' | -51.8 | NC_003521.1 | + | 146979 | 0.67 | 0.988813 |
|
Target: 5'- aGCACGaCcUCUUCCAGGguuucuaUGUCUUCuuccuGCu -3' miRNA: 3'- -CGUGC-GaGGAAGGUCC-------ACAGAAGu----UG- -5' |
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| 13997 | 5' | -51.8 | NC_003521.1 | + | 50305 | 0.67 | 0.988953 |
|
Target: 5'- cGCAccuCGCUCCUcagCCAGGgaggcagcggGUCcUCGGCc -3' miRNA: 3'- -CGU---GCGAGGAa--GGUCCa---------CAGaAGUUG- -5' |
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| 13997 | 5' | -51.8 | NC_003521.1 | + | 160257 | 0.67 | 0.992548 |
|
Target: 5'- cGCGCGCUUCUcCCGGGUuGcCUgguggUAGCc -3' miRNA: 3'- -CGUGCGAGGAaGGUCCA-CaGAa----GUUG- -5' |
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| 13997 | 5' | -51.8 | NC_003521.1 | + | 47315 | 0.79 | 0.559825 |
|
Target: 5'- -aACGUccUCUUUCCAGGUGUCUcCAACg -3' miRNA: 3'- cgUGCG--AGGAAGGUCCACAGAaGUUG- -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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