miRNA: 3'- -UGUCUCUGGCGa----GGCC------ACUG---UAGCUU- -5'
miRNA: 3'- ugUCUCUGGCG-AGGccACuGUAGCUU- -5'
miRNA: 3'- -UGUCuCUGGCGaGGCCaCUGUaGCUU- -5'
miRNA: 3'- uGUCuCUGGcGAgGCCACUGUAGCUU- -5'
miRNA: 3'- -UGUCUCUGGCGAGGCCACUGUAGCUU- -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 | |||||||
| 4331 | 3' | -55.9 | NC_001720.1 | + | 28717 | 0.66 | 0.606529 |
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Target: 5'- gGCAGAGACCGUcgggcCCGGaaucgaUGGCuucGUCGGGa -3' miRNA: 3'- -UGUCUCUGGCGa----GGCC------ACUG---UAGCUU- -5' |
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| 4331 | 3' | -55.9 | NC_001720.1 | + | 24218 | 0.66 | 0.561965 |
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Target: 5'- -aGGAGACCGCaUCCacUGuCAUCGAAg -3' miRNA: 3'- ugUCUCUGGCG-AGGccACuGUAGCUU- -5' |
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| 4331 | 3' | -55.9 | NC_001720.1 | + | 10930 | 0.67 | 0.507631 |
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Target: 5'- aGCGG-GGCCGC-CCGGaGACA-CGAAc -3' miRNA: 3'- -UGUCuCUGGCGaGGCCaCUGUaGCUU- -5' |
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| 4331 | 3' | -55.9 | NC_001720.1 | + | 34380 | 0.69 | 0.416206 |
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Target: 5'- cCAG-GACCaCU-CGGUGACGUCGAGg -3' miRNA: 3'- uGUCuCUGGcGAgGCCACUGUAGCUU- -5' |
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| 4331 | 3' | -55.9 | NC_001720.1 | + | 10514 | 1.06 | 0.001025 |
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Target: 5'- uACAGAGACCGCUCCGGUGACAUCGAAg -3' miRNA: 3'- -UGUCUCUGGCGAGGCCACUGUAGCUU- -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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