miRNA: 3'- -UUG-AGGgGCGaguGCGAAGGAGGUUU- -5'
miRNA: 3'- uuGAGGGGCGAGu--GCGAAGGaGGUuu -5'
miRNA: 3'- uUG-AGGGGCGAGUGCGAAGGAGGuuu -5'
miRNA: 3'- -UUGAGGGGCGAGUGCGAAGGAGGUUU- -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 | |||||||
| 18155 | 3' | -57 | NC_004680.1 | + | 42375 | 0.66 | 0.595226 |
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Target: 5'- cAGCaUCCgCGC---CGCUUCCUCCAGGa -3' miRNA: 3'- -UUG-AGGgGCGaguGCGAAGGAGGUUU- -5' |
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| 18155 | 3' | -57 | NC_004680.1 | + | 24567 | 0.7 | 0.346617 |
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Target: 5'- -uCUCCCCGUUCcacCGCUUCCgCCGc- -3' miRNA: 3'- uuGAGGGGCGAGu--GCGAAGGaGGUuu -5' |
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| 18155 | 3' | -57 | NC_004680.1 | + | 49896 | 0.86 | 0.026211 |
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Target: 5'- cGCgUCCCCGCUCAUGCUUCCUCCc-- -3' miRNA: 3'- uUG-AGGGGCGAGUGCGAAGGAGGuuu -5' |
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| 18155 | 3' | -57 | NC_004680.1 | + | 50537 | 1.04 | 0.001301 |
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Target: 5'- cAACUCCCCGCUCACGCUUCCUCCAAAg -3' miRNA: 3'- -UUGAGGGGCGAGUGCGAAGGAGGUUU- -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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