miRNA: 3'- -AUGGCUag----AUCGaa--UUUUGCCGAAUu -5'
miRNA: 3'- -AUGGcUAGA--UCGAAUU----UUGCCGAAUU- -5'
miRNA: 3'- -AUGGcuaGAUCGAAUUUUGCCGAAUU- -5'
miRNA: 3'- -AUGGCUAGAUCGAAUUUU---------GCCGAAUU- -5'
miRNA: 3'- -AUGGCUAGAUCGAAUUUUGCCGAAUU- -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 | |||||||
| 31280 | 5' | -45.7 | NC_006565.1 | + | 77133 | 0.67 | 0.999663 |
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Target: 5'- cUACCGGcuaaaaUGGCgccaGAAGCGGCUUGg -3' miRNA: 3'- -AUGGCUag----AUCGaa--UUUUGCCGAAUu -5' |
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| 31280 | 5' | -45.7 | NC_006565.1 | + | 117943 | 0.67 | 0.999314 |
|
Target: 5'- aUACC-AUCUagGGCUUGAcucuGACGGUUUAGc -3' miRNA: 3'- -AUGGcUAGA--UCGAAUU----UUGCCGAAUU- -5' |
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| 31280 | 5' | -45.7 | NC_006565.1 | + | 129378 | 0.77 | 0.825949 |
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Target: 5'- aUACCcaaCUAGUUUAAAACGGCUUAGa -3' miRNA: 3'- -AUGGcuaGAUCGAAUUUUGCCGAAUU- -5' |
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| 31280 | 5' | -45.7 | NC_006565.1 | + | 1801 | 0.84 | 0.519777 |
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Target: 5'- aUACUGAUCUAGCUUAAAAgcguuagagUGGCUUAAa -3' miRNA: 3'- -AUGGCUAGAUCGAAUUUU---------GCCGAAUU- -5' |
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| 31280 | 5' | -45.7 | NC_006565.1 | + | 1665 | 1.06 | 0.030511 |
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Target: 5'- aUACCGAUCUAGCUUAAAACGGCUUAAa -3' miRNA: 3'- -AUGGCUAGAUCGAAUUUUGCCGAAUU- -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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