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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 | |||||||
| 12020 | 5' | -53.3 | NC_003278.1 | + | 21421 | 0.66 | 0.727006 |
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Target: 5'- -cGGGUGUUCGcCGAccugGGCGgguucaccaUGGCCGg -3' miRNA: 3'- gaCCUACAAGUaGCUa---CUGC---------GCCGGC- -5' |
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| 12020 | 5' | -53.3 | NC_003278.1 | + | 18071 | 0.66 | 0.704757 |
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Target: 5'- -gGGGUGUagUCGUaGGUGAUGCGcagcuuGCCGg -3' miRNA: 3'- gaCCUACA--AGUAgCUACUGCGC------CGGC- -5' |
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| 12020 | 5' | -53.3 | NC_003278.1 | + | 14196 | 0.68 | 0.579489 |
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Target: 5'- gUGGcagcccacccauAUGcUCAUCGGUGACGcCGGCgGc -3' miRNA: 3'- gACC------------UACaAGUAGCUACUGC-GCCGgC- -5' |
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| 12020 | 5' | -53.3 | NC_003278.1 | + | 4807 | 0.69 | 0.545729 |
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Target: 5'- gCUGGcgGgggaGUCGGUGAUGgccaGGCCGa -3' miRNA: 3'- -GACCuaCaag-UAGCUACUGCg---CCGGC- -5' |
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| 12020 | 5' | -53.3 | NC_003278.1 | + | 18164 | 0.71 | 0.438993 |
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Target: 5'- gCUGGgcG-UCAggCGuUGACGCGGCUGg -3' miRNA: 3'- -GACCuaCaAGUa-GCuACUGCGCCGGC- -5' |
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| 12020 | 5' | -53.3 | NC_003278.1 | + | 28775 | 1.1 | 0.000892 |
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Target: 5'- gCUGGAUGUUCAUCGAUGACGCGGCCGa -3' miRNA: 3'- -GACCUACAAGUAGCUACUGCGCCGGC- -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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