miRNA: 3'- cAUGUUa-----UUAUUUGuCGAUCG-GGUUa -5'
miRNA: 3'- cauGUUAUUAuuUguCGAUCGGGUua -5'
miRNA: 3'- caUGUUAuUAUUUGUCGAUCg--GGUUa -5'
miRNA: 3'- -CAUGUUAUUAUUUGUCGAUCGGGUUA- -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 | |||||||
| 6332 | 3' | -42.8 | NC_001846.1 | + | 239 | 0.66 | 0.994842 |
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Target: 5'- aUGCAAccuaugGGUGGGCuGCUGGCgCCGAa -3' miRNA: 3'- cAUGUUa-----UUAUUUGuCGAUCG-GGUUa -5' |
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| 6332 | 3' | -42.8 | NC_001846.1 | + | 15447 | 0.68 | 0.978504 |
|
Target: 5'- --uUAGUAGUuuGguGCUAGCCCGu- -3' miRNA: 3'- cauGUUAUUAuuUguCGAUCGGGUua -5' |
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| 6332 | 3' | -42.8 | NC_001846.1 | + | 19025 | 0.74 | 0.830248 |
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Target: 5'- -aGCAAUcAUGAACAGCUAGacaCCGGg -3' miRNA: 3'- caUGUUAuUAUUUGUCGAUCg--GGUUa -5' |
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| 6332 | 3' | -42.8 | NC_001846.1 | + | 17274 | 1.08 | 0.010471 |
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Target: 5'- uGUACAAUAAUAAACAGCUAGCCCAAUg -3' miRNA: 3'- -CAUGUUAUUAUUUGUCGAUCGGGUUA- -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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