miRNA: 3'- -UCUaug---UCGUgUGUCUGGUG----GCAUGU- -5'
miRNA: 3'- ucuaUGUCGUgUGUCUg---GUGGCaUGU- -5'
miRNA: 3'- -UCUa--UGUCG--UG-UGUCUGGUGGcAUGU- -5'
miRNA: 3'- -UCuAUGUCGUGuGUCUGGUGG-CAugU- -5'
miRNA: 3'- -UCUAUGUCGUGUGUCUGGUGGCAUGU- -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 | |||||||
| 954 | 5' | -51.2 | NC_000902.1 | + | 54293 | 0.66 | 0.918388 |
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Target: 5'- cGGAcgugaaAGCAgGCAGGCCAUggggCGUGCAu -3' miRNA: 3'- -UCUaug---UCGUgUGUCUGGUG----GCAUGU- -5' |
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| 954 | 5' | -51.2 | NC_000902.1 | + | 50624 | 0.67 | 0.875458 |
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Target: 5'- ---cACAGCAgGCAGAaguaCGCCG-ACAg -3' miRNA: 3'- ucuaUGUCGUgUGUCUg---GUGGCaUGU- -5' |
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| 954 | 5' | -51.2 | NC_000902.1 | + | 7890 | 0.72 | 0.630252 |
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Target: 5'- cGGAaggGCAGCcaGCaACAGGCCACCcUGCAa -3' miRNA: 3'- -UCUa--UGUCG--UG-UGUCUGGUGGcAUGU- -5' |
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| 954 | 5' | -51.2 | NC_000902.1 | + | 35135 | 0.74 | 0.497217 |
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Target: 5'- cGGuUGCAGUACcCAGACCACCcGUugAa -3' miRNA: 3'- -UCuAUGUCGUGuGUCUGGUGG-CAugU- -5' |
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| 954 | 5' | -51.2 | NC_000902.1 | + | 24850 | 1.1 | 0.002454 |
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Target: 5'- gAGAUACAGCACACAGACCACCGUACAg -3' miRNA: 3'- -UCUAUGUCGUGUGUCUGGUGGCAUGU- -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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