miRNA: 3'- -UGG------UAUCGgUAGUGa----------AGUGGACGGGA- -5'
miRNA: 3'- -UGGUAUCGGUAGUGaagUGGaCGGGA- -5'
miRNA: 3'- -UGGUaucGGUAGugAa----GUGGACGGGA- -5'
miRNA: 3'- -UGGUAUCGGUAGUGAAGUGGACGGGA- -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 | |||||||
| 15391 | 5' | -54.4 | NC_003907.2 | + | 12095 | 0.66 | 0.662756 |
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Target: 5'- aACCugagauGUAGUgGUCACacccucgauagUCACCUGUCCUg -3' miRNA: 3'- -UGG------UAUCGgUAGUGa----------AGUGGACGGGA- -5' |
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| 15391 | 5' | -54.4 | NC_003907.2 | + | 5552 | 0.68 | 0.549434 |
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Target: 5'- aAUCGUGGCUAUCAUa--GCC-GCCCUg -3' miRNA: 3'- -UGGUAUCGGUAGUGaagUGGaCGGGA- -5' |
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| 15391 | 5' | -54.4 | NC_003907.2 | + | 5962 | 0.73 | 0.299611 |
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Target: 5'- uACCAguuCCAUCugUgcauaCACCUGCCCUu -3' miRNA: 3'- -UGGUaucGGUAGugAa----GUGGACGGGA- -5' |
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| 15391 | 5' | -54.4 | NC_003907.2 | + | 5591 | 1.08 | 0.000956 |
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Target: 5'- uACCAUAGCCAUCACUUCACCUGCCCUa -3' miRNA: 3'- -UGGUAUCGGUAGUGAAGUGGACGGGA- -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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