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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 | |||||||
| 23484 | 3' | -55.2 | NC_005259.1 | + | 32180 | 0.66 | 0.785035 |
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Target: 5'- ---gUGAGCUCGcugcgcgCCUCGGUCugcGACu -3' miRNA: 3'- cagaACUCGGGCa------GGAGCCAGua-CUG- -5' |
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| 23484 | 3' | -55.2 | NC_005259.1 | + | 9708 | 0.66 | 0.755031 |
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Target: 5'- ---cUGGGCaCCGUCCUCGGgCcgGuCg -3' miRNA: 3'- cagaACUCG-GGCAGGAGCCaGuaCuG- -5' |
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| 23484 | 3' | -55.2 | NC_005259.1 | + | 11328 | 0.67 | 0.69201 |
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Target: 5'- ----cGcAGCUCGUCgUCGGUCAUGcCg -3' miRNA: 3'- cagaaC-UCGGGCAGgAGCCAGUACuG- -5' |
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| 23484 | 3' | -55.2 | NC_005259.1 | + | 22051 | 0.69 | 0.561998 |
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Target: 5'- ----cGAGCCCGUCCUCauGGUCGc--- -3' miRNA: 3'- cagaaCUCGGGCAGGAG--CCAGUacug -5' |
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| 23484 | 3' | -55.2 | NC_005259.1 | + | 24481 | 0.7 | 0.551321 |
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Target: 5'- ----aGAGCUCGUCCUCGGcgaugUCAaGACc -3' miRNA: 3'- cagaaCUCGGGCAGGAGCC-----AGUaCUG- -5' |
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| 23484 | 3' | -55.2 | NC_005259.1 | + | 50335 | 0.73 | 0.358096 |
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Target: 5'- cGUCgc-GGCCCuuGUCCUCGGUCAcGAUg -3' miRNA: 3'- -CAGaacUCGGG--CAGGAGCCAGUaCUG- -5' |
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| 23484 | 3' | -55.2 | NC_005259.1 | + | 10417 | 0.74 | 0.325515 |
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Target: 5'- -cCUUGAGCaCCGUCCUCGG-CGagcucGACa -3' miRNA: 3'- caGAACUCG-GGCAGGAGCCaGUa----CUG- -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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