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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12723 | 5' | -47.6 | NC_003356.1 | + | 39246 | 0.66 | 0.974517 |
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Target: 5'- cCGAUAcccagCGCAccauuGACCUGAGAAccGCc -3' miRNA: 3'- aGCUGUuaaa-GCGU-----CUGGACUCUU--CG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 31820 | 0.66 | 0.967974 |
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Target: 5'- -gGGCAAUg--GCAGAUUUGAccgGGAGCg -3' miRNA: 3'- agCUGUUAaagCGUCUGGACU---CUUCG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 20855 | 1.14 | 0.002252 |
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Target: 5'- gUCGACAAUUUCGCAGACCUGAGAAGCu -3' miRNA: 3'- -AGCUGUUAAAGCGUCUGGACUCUUCG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 20819 | 0.66 | 0.967974 |
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Target: 5'- uUCGGCAGUgUCuGCAGaacugaucGCCUGuaaGAGCa -3' miRNA: 3'- -AGCUGUUAaAG-CGUC--------UGGACuc-UUCG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 12487 | 0.69 | 0.888522 |
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Target: 5'- aCGugAug--CGCAuACCUGuGAAGCa -3' miRNA: 3'- aGCugUuaaaGCGUcUGGACuCUUCG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 10498 | 0.68 | 0.935924 |
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Target: 5'- aCGGCAAUUUC--AGAgCUG-GAGGCu -3' miRNA: 3'- aGCUGUUAAAGcgUCUgGACuCUUCG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 3864 | 0.68 | 0.935924 |
|
Target: 5'- uUCGACAugGUUUUGCAGGgCaaUGcGAAGUg -3' miRNA: 3'- -AGCUGU--UAAAGCGUCUgG--ACuCUUCG- -5' |
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| 12723 | 5' | -47.6 | NC_003356.1 | + | 1793 | 0.67 | 0.951487 |
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Target: 5'- aCGGCAA--UCGCuauGACCUGAc--GCg -3' miRNA: 3'- aGCUGUUaaAGCGu--CUGGACUcuuCG- -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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