miRNA: 3'- -CGUCaCAgCuGAUAACGuagaCGACG- -5'
miRNA: 3'- -CGUCACa------GCUgAUAACGUag---ACGACG- -5'
miRNA: 3'- -CGUCACAGCUGAUAACGUAGaC-GACg -5'
miRNA: 3'- -CGUCACAGCUGAUAACGUAGACGACG- -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 | |||||||
| 21760 | 3' | -48.8 | NC_004813.1 | + | 6781 | 0.66 | 0.972279 |
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Target: 5'- uGCAGgGUgGcCUGUUGCug--GCUGCc -3' miRNA: 3'- -CGUCaCAgCuGAUAACGuagaCGACG- -5' |
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| 21760 | 3' | -48.8 | NC_004813.1 | + | 54739 | 0.68 | 0.932973 |
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Target: 5'- uGCAGUGgaugcagCGGaUGUUGCAgcagaUGUUGCa -3' miRNA: 3'- -CGUCACa------GCUgAUAACGUag---ACGACG- -5' |
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| 21760 | 3' | -48.8 | NC_004813.1 | + | 54799 | 0.89 | 0.089544 |
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Target: 5'- uGCAGUGUCGACUAUUGCAUC-GaCUGg -3' miRNA: 3'- -CGUCACAGCUGAUAACGUAGaC-GACg -5' |
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| 21760 | 3' | -48.8 | NC_004813.1 | + | 54856 | 1.16 | 0.00158 |
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Target: 5'- uGCAGUGUCGACUAUUGCAUCUGCUGCa -3' miRNA: 3'- -CGUCACAGCUGAUAACGUAGACGACG- -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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