miRNA: 3'- cAGGaCGCCCaACGGUGUuuuUUGUu -5'
miRNA: 3'- cagGACGCCCaACGGUGU---UUuuUGUu -5'
miRNA: 3'- cAGGaCGCCcaACGGUGUU-UUUUGUU- -5'
miRNA: 3'- caGGACGC-CCAaCGGUGUuUUUUGUU- -5'
miRNA: 3'- -CAGGACGCCCAACGGUGUUUUUUGUU- -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 | |||||||
| 17190 | 5' | -49.8 | NC_004333.2 | + | 37700 | 0.66 | 0.904453 |
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Target: 5'- aUCCgGCGGGaUGUCGCGcguGACAu -3' miRNA: 3'- cAGGaCGCCCaACGGUGUuuuUUGUu -5' |
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| 17190 | 5' | -49.8 | NC_004333.2 | + | 37225 | 0.66 | 0.889405 |
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Target: 5'- --gCUGCGGGaUGCCGCAcguGAucGCGu -3' miRNA: 3'- cagGACGCCCaACGGUGU---UUuuUGUu -5' |
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| 17190 | 5' | -49.8 | NC_004333.2 | + | 35738 | 0.67 | 0.855738 |
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Target: 5'- aUCCgGCGGcgUGCCAUAGcAGAGCAGa -3' miRNA: 3'- cAGGaCGCCcaACGGUGUU-UUUUGUU- -5' |
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| 17190 | 5' | -49.8 | NC_004333.2 | + | 14395 | 0.68 | 0.827625 |
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Target: 5'- -gCCUGCGcGGUcGCCAUG-AAGGCGAg -3' miRNA: 3'- caGGACGC-CCAaCGGUGUuUUUUGUU- -5' |
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| 17190 | 5' | -49.8 | NC_004333.2 | + | 35053 | 1.06 | 0.003656 |
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Target: 5'- uGUCCUGCGGGUUGCCACAAAAAACAAu -3' miRNA: 3'- -CAGGACGCCCAACGGUGUUUUUUGUU- -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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