miRNA: 3'- aGUCUAGUcUUG--AUGAUGGCGA--GGUU- -5'
miRNA: 3'- aGUCUaGUC-UUGAUGAUGGCGaGGUu -5'
miRNA: 3'- aGUCUagUCUUGAUGAUGGCGagGUu -5'
miRNA: 3'- -AGUCUAGUCUUGAUGAUGGCGAGGUU- -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 | |||||||
| 8872 | 5' | -50.3 | NC_002484.1 | + | 19639 | 0.68 | 0.810246 |
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Target: 5'- gUAGAUCGuGACagUGCUACCGCUuaCCGAa -3' miRNA: 3'- aGUCUAGUcUUG--AUGAUGGCGA--GGUU- -5' |
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| 8872 | 5' | -50.3 | NC_002484.1 | + | 54317 | 0.71 | 0.66858 |
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Target: 5'- cCAGGcCGGcGACUGCUACCGCaCCAc -3' miRNA: 3'- aGUCUaGUC-UUGAUGAUGGCGaGGUu -5' |
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| 8872 | 5' | -50.3 | NC_002484.1 | + | 12251 | 0.72 | 0.610817 |
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Target: 5'- gCAGA--AGAGCUACUGCCGCagCAc -3' miRNA: 3'- aGUCUagUCUUGAUGAUGGCGagGUu -5' |
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| 8872 | 5' | -50.3 | NC_002484.1 | + | 53635 | 1.07 | 0.003839 |
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Target: 5'- uUCAGAUCAGAACUACUACCGCUCCAAc -3' miRNA: 3'- -AGUCUAGUCUUGAUGAUGGCGAGGUU- -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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