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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 | |||||||
| 28537 | 5' | -55.7 | NC_005946.1 | + | 74400 | 0.66 | 0.824703 |
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Target: 5'- aACUCUgccUCGUCCCCGGacGAG-GCAgACc -3' miRNA: 3'- aUGAGA---GGCAGGGGUU--CUCuCGUgUG- -5' |
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| 28537 | 5' | -55.7 | NC_005946.1 | + | 98135 | 0.66 | 0.824703 |
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Target: 5'- --gUCUCuCGUCCCCGGugauGAGGGCgACGg -3' miRNA: 3'- augAGAG-GCAGGGGUU----CUCUCG-UGUg -5' |
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| 28537 | 5' | -55.7 | NC_005946.1 | + | 8726 | 0.66 | 0.815777 |
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Target: 5'- --gUCUCCaugugGUCCCCGugAGAGGGCcucCACu -3' miRNA: 3'- augAGAGG-----CAGGGGU--UCUCUCGu--GUG- -5' |
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| 28537 | 5' | -55.7 | NC_005946.1 | + | 54129 | 0.67 | 0.752788 |
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Target: 5'- gACUCUgagcugaagcugauaCCauGUCCCgGcAGAGAGCACAUg -3' miRNA: 3'- aUGAGA---------------GG--CAGGGgU-UCUCUCGUGUG- -5' |
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| 28537 | 5' | -55.7 | NC_005946.1 | + | 9605 | 0.73 | 0.421449 |
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Target: 5'- cGC-CUCCGcCUCCAGGAucuugGAGCACACc -3' miRNA: 3'- aUGaGAGGCaGGGGUUCU-----CUCGUGUG- -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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