miRNA: 3'- -AGUUGGUGU--AGCACaCCauCGGGAgu -5'
miRNA: 3'- -AGUUGG-UGUAGCACAcCAUCGGGagu -5'
miRNA: 3'- -AGUUGGUgUa-GCACaCCAUCGGGAGu -5'
miRNA: 3'- -AGUUGGUGUAGCACACCAUCGGGAGU- -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 | |||||||
| 30740 | 3' | -52.9 | NC_006552.1 | + | 56450 | 0.67 | 0.820969 |
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Target: 5'- uUCAACCAUGccUCGUG-GGccGCCCUg- -3' miRNA: 3'- -AGUUGGUGU--AGCACaCCauCGGGAgu -5' |
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| 30740 | 3' | -52.9 | NC_006552.1 | + | 136 | 0.73 | 0.449717 |
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Target: 5'- cUCGAUCaACGUCGUGUcGUAGCCCa-- -3' miRNA: 3'- -AGUUGG-UGUAGCACAcCAUCGGGagu -5' |
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| 30740 | 3' | -52.9 | NC_006552.1 | + | 32038 | 0.81 | 0.172575 |
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Target: 5'- gUCAGCCAgGggCGUGcGGUAGCCCUCc -3' miRNA: 3'- -AGUUGGUgUa-GCACaCCAUCGGGAGu -5' |
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| 30740 | 3' | -52.9 | NC_006552.1 | + | 45093 | 1.1 | 0.001802 |
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Target: 5'- gUCAACCACAUCGUGUGGUAGCCCUCAg -3' miRNA: 3'- -AGUUGGUGUAGCACACCAUCGGGAGU- -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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