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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 | |||||||
| 13024 | 3' | -51.4 | NC_003390.1 | + | 11079 | 0.66 | 0.848964 |
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Target: 5'- gAGAAGC-CCaAGGCUauccccgUCUUUG-UGGAu -3' miRNA: 3'- -UCUUCGaGG-UCCGGa------AGAAACuACCU- -5' |
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| 13024 | 3' | -51.4 | NC_003390.1 | + | 27200 | 0.66 | 0.839844 |
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Target: 5'- aGGAAGCUCCugucgaggaggAGGUCgaggUCUcUGAcgUGGGu -3' miRNA: 3'- -UCUUCGAGG-----------UCCGGa---AGAaACU--ACCU- -5' |
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| 13024 | 3' | -51.4 | NC_003390.1 | + | 27222 | 0.66 | 0.83143 |
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Target: 5'- uGGAGCUCCagguAGGCCUUCUcaagcuccucaGGAg -3' miRNA: 3'- uCUUCGAGG----UCCGGAAGAaacua------CCU- -5' |
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| 13024 | 3' | -51.4 | NC_003390.1 | + | 7707 | 0.67 | 0.794951 |
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Target: 5'- cGGAGCUCuCGGGCCcUCUgcccaggucucuggUG-UGGAg -3' miRNA: 3'- uCUUCGAG-GUCCGGaAGAa-------------ACuACCU- -5' |
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| 13024 | 3' | -51.4 | NC_003390.1 | + | 7849 | 0.68 | 0.737269 |
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Target: 5'- aGGAGGCUaaagcugcUCAGGCauccgcccCUUUGGUGGAg -3' miRNA: 3'- -UCUUCGA--------GGUCCGgaa-----GAAACUACCU- -5' |
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| 13024 | 3' | -51.4 | NC_003390.1 | + | 16622 | 0.7 | 0.646137 |
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Target: 5'- gAGGAGCUCaUGGGCUUUCUcUGGggucUGGGu -3' miRNA: 3'- -UCUUCGAG-GUCCGGAAGAaACU----ACCU- -5' |
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| 13024 | 3' | -51.4 | NC_003390.1 | + | 14152 | 1.1 | 0.001576 |
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Target: 5'- gAGAAGCUCCAGGCCUUCUUUGAUGGAu -3' miRNA: 3'- -UCUUCGAGGUCCGGAAGAAACUACCU- -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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