miRNA: 3'- -GUUGAgGAUGuu---UGCGGGUgcGCAUG- -5'
miRNA: 3'- -GUUGAGGAUguUUGCGGG---UGCGCauG- -5'
miRNA: 3'- -GUUGagGAUgu-UUGCGGGUGCGcaUG- -5'
miRNA: 3'- -GUUGAGGauGUUUGCGGGUGCGCAUg -5'
miRNA: 3'- -GUUGAGGAUGUUUGCGGGUGCGCAUG- -5'
Results 1 - 5 of 5 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 | |||||||
| 15435 | 3' | -51.5 | NC_003930.1 | + | 1478 | 0.66 | 0.445962 |
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Target: 5'- gCAACUgCUGCuuaauACGCUCAaaCGUGCg -3' miRNA: 3'- -GUUGAgGAUGuu---UGCGGGUgcGCAUG- -5' |
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| 15435 | 3' | -51.5 | NC_003930.1 | + | 7989 | 0.67 | 0.402039 |
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Target: 5'- gCGGCUCCUGgcGGCGCUUaguGCGCGgcCg -3' miRNA: 3'- -GUUGAGGAUguUUGCGGG---UGCGCauG- -5' |
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| 15435 | 3' | -51.5 | NC_003930.1 | + | 4742 | 0.67 | 0.391494 |
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Target: 5'- cCAGCaaCUGauuGACGCCCACGCucGCg -3' miRNA: 3'- -GUUGagGAUgu-UUGCGGGUGCGcaUG- -5' |
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| 15435 | 3' | -51.5 | NC_003930.1 | + | 9604 | 0.69 | 0.287918 |
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Target: 5'- gCGACUCC--CAGACGUUUACGUGUGa -3' miRNA: 3'- -GUUGAGGauGUUUGCGGGUGCGCAUg -5' |
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| 15435 | 3' | -51.5 | NC_003930.1 | + | 10094 | 1.1 | 0.000255 |
|
Target: 5'- gCAACUCCUACAAACGCCCACGCGUACu -3' miRNA: 3'- -GUUGAGGAUGUUUGCGGGUGCGCAUG- -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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