miRNA: 3'- -UGgUUGC-----CACAc-UGCCGCUGGAUGcu -5'
miRNA: 3'- uGGUUGCCACa--------CUGCCGCu-GGaUGCU- -5'
miRNA: 3'- -UGGUUGCcacACUGcCGCUGGaUGCU- -5'
miRNA: 3'- -UGGUuGCCa-CACUGCCGCUGgaugCU- -5'
miRNA: 3'- uGGUUGCCac--ACU-GCCGCUGGAuGCU- -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 | |||||||
| 20847 | 3' | -55.4 | NC_004689.1 | + | 42312 | 0.66 | 0.810271 |
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Target: 5'- gGCgAACGugaucGUGUccACGGCGACCUGCu- -3' miRNA: 3'- -UGgUUGC-----CACAc-UGCCGCUGGAUGcu -5' |
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| 20847 | 3' | -55.4 | NC_004689.1 | + | 70458 | 0.66 | 0.810271 |
|
Target: 5'- gUCAGCGGUGcaucgggacGACGGCGuuCC-ACGAc -3' miRNA: 3'- uGGUUGCCACa--------CUGCCGCu-GGaUGCU- -5' |
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| 20847 | 3' | -55.4 | NC_004689.1 | + | 33748 | 0.66 | 0.781911 |
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Target: 5'- aGCCGACGa--UGACaGCGACC-GCGAa -3' miRNA: 3'- -UGGUUGCcacACUGcCGCUGGaUGCU- -5' |
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| 20847 | 3' | -55.4 | NC_004689.1 | + | 12010 | 0.67 | 0.752221 |
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Target: 5'- uGCCAuCGGcgGUGGCGGUGACaa--GAu -3' miRNA: 3'- -UGGUuGCCa-CACUGCCGCUGgaugCU- -5' |
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| 20847 | 3' | -55.4 | NC_004689.1 | + | 43458 | 0.7 | 0.561842 |
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Target: 5'- uCCAACGGacccUGAcCGGCGACCU-CGGc -3' miRNA: 3'- uGGUUGCCac--ACU-GCCGCUGGAuGCU- -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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