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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 | |||||||
| 23910 | 3' | -53.5 | NC_005262.1 | + | 25631 | 0.66 | 0.834284 |
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Target: 5'- gUGGUgacGGgcUCCAucccGGCCGUGC-CGAa -3' miRNA: 3'- -ACCAau-CCaaAGGU----CUGGCGCGaGCU- -5' |
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| 23910 | 3' | -53.5 | NC_005262.1 | + | 40978 | 0.66 | 0.825242 |
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Target: 5'- cGGcgucGGGUUUCUGGcgGCgGCGCUCGc -3' miRNA: 3'- aCCaa--UCCAAAGGUC--UGgCGCGAGCu -5' |
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| 23910 | 3' | -53.5 | NC_005262.1 | + | 56917 | 0.67 | 0.777173 |
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Target: 5'- cGGcgAGa--UCaAGGCCGCGCUCGAg -3' miRNA: 3'- aCCaaUCcaaAGgUCUGGCGCGAGCU- -5' |
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| 23910 | 3' | -53.5 | NC_005262.1 | + | 41374 | 0.67 | 0.767062 |
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Target: 5'- gGGUUGccGGcgagCAGGCgGCGCUCGAu -3' miRNA: 3'- aCCAAU--CCaaagGUCUGgCGCGAGCU- -5' |
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| 23910 | 3' | -53.5 | NC_005262.1 | + | 32693 | 0.69 | 0.644753 |
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Target: 5'- gGGUUAGGagguaggauugUCGGGCCGCgGCUCGc -3' miRNA: 3'- aCCAAUCCaaa--------GGUCUGGCG-CGAGCu -5' |
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| 23910 | 3' | -53.5 | NC_005262.1 | + | 4725 | 0.7 | 0.627096 |
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Target: 5'- gGGUU-GGUgagCAGGCgGUGCUCGAg -3' miRNA: 3'- aCCAAuCCAaagGUCUGgCGCGAGCU- -5' |
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| 23910 | 3' | -53.5 | NC_005262.1 | + | 38792 | 1.09 | 0.001704 |
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Target: 5'- cUGGUUAGGUUUCCAGACCGCGCUCGAa -3' miRNA: 3'- -ACCAAUCCAAAGGUCUGGCGCGAGCU- -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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