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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 | |||||||
| 28188 | 3' | -45.4 | NC_005889.1 | + | 518 | 0.66 | 0.535703 |
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Target: 5'- cCUCAGcuGACgGuGGCuGACAGAAuucGCCg -3' miRNA: 3'- -GAGUU--UUGgU-CUGuCUGUCUUua-CGG- -5' |
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| 28188 | 3' | -45.4 | NC_005889.1 | + | 1267 | 0.67 | 0.468109 |
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Target: 5'- aUCAAAaaucuGCCAGAUucuGuuuuCAGAAAUGUCc -3' miRNA: 3'- gAGUUU-----UGGUCUGu--Cu---GUCUUUACGG- -5' |
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| 28188 | 3' | -45.4 | NC_005889.1 | + | 59 | 0.69 | 0.370057 |
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Target: 5'- gCUCAAAgagcuGCCAGAC-GACGGcccucuggGCCg -3' miRNA: 3'- -GAGUUU-----UGGUCUGuCUGUCuuua----CGG- -5' |
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| 28188 | 3' | -45.4 | NC_005889.1 | + | 4599 | 0.69 | 0.370057 |
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Target: 5'- gCUCAAAgagcuGCCAGAC-GACGGcccucuggGCCg -3' miRNA: 3'- -GAGUUU-----UGGUCUGuCUGUCuuua----CGG- -5' |
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| 28188 | 3' | -45.4 | NC_005889.1 | + | 3347 | 1.14 | 0.000156 |
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Target: 5'- uCUCAAAACCAGACAGACAGAAAUGCCu -3' miRNA: 3'- -GAGUUUUGGUCUGUCUGUCUUUACGG- -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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