miRNA: 3'- -UCGUaAAGCa---UGUCGGa--GUAG--------------UCGUG- -5'
miRNA: 3'- -UCguAaAGCAuGU-CGGAGuAGUCGUG- -5'
miRNA: 3'- -UCGUAAaGcAUGUCGga-GUAGUCGUG- -5'
miRNA: 3'- -UCGUAAAGCAUGUCGGAGUAGUCGUG- -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 | |||||||
| 13569 | 3' | -50 | NC_003444.1 | + | 1620 | 0.66 | 0.836531 |
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Target: 5'- gAGCAgUUCGagggGCAGCCgugCAUUcuggccuuugaccuGGCGCg -3' miRNA: 3'- -UCGUaAAGCa---UGUCGGa--GUAG--------------UCGUG- -5' |
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| 13569 | 3' | -50 | NC_003444.1 | + | 3757 | 0.68 | 0.721638 |
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Target: 5'- cGGguUaUCGU-CAuGCCUC-UCAGCACg -3' miRNA: 3'- -UCguAaAGCAuGU-CGGAGuAGUCGUG- -5' |
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| 13569 | 3' | -50 | NC_003444.1 | + | 36126 | 0.69 | 0.686498 |
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Target: 5'- gGGCAUUaC-UACAGCaaaUAUCAGCACg -3' miRNA: 3'- -UCGUAAaGcAUGUCGga-GUAGUCGUG- -5' |
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| 13569 | 3' | -50 | NC_003444.1 | + | 36225 | 1.11 | 0.001174 |
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Target: 5'- cAGCAUUUCGUACAGCCUCAUCAGCACg -3' miRNA: 3'- -UCGUAAAGCAUGUCGGAGUAGUCGUG- -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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