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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 | |||||||
| 19730 | 3' | -55.6 | NC_004686.1 | + | 49271 | 0.66 | 0.707337 |
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Target: 5'- uCUUCCACC---ACCACUuucacccaaUGUCCGGc- -3' miRNA: 3'- -GAAGGUGGagaUGGUGG---------ACAGGCCac -5' |
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| 19730 | 3' | -55.6 | NC_004686.1 | + | 21489 | 0.68 | 0.584074 |
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Target: 5'- aCUUCUGCCgCUGCCACCgauucgcuucggcuUGUgaCCGGUa -3' miRNA: 3'- -GAAGGUGGaGAUGGUGG--------------ACA--GGCCAc -5' |
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| 19730 | 3' | -55.6 | NC_004686.1 | + | 5182 | 0.68 | 0.553796 |
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Target: 5'- -gUCCugCag-ACCauggcggACCUGUCCGGUGu -3' miRNA: 3'- gaAGGugGagaUGG-------UGGACAGGCCAC- -5' |
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| 19730 | 3' | -55.6 | NC_004686.1 | + | 33690 | 0.69 | 0.491757 |
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Target: 5'- gCUUCCACUUCagGCUGCCca-CCGGUGa -3' miRNA: 3'- -GAAGGUGGAGa-UGGUGGacaGGCCAC- -5' |
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| 19730 | 3' | -55.6 | NC_004686.1 | + | 10811 | 0.7 | 0.451572 |
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Target: 5'- -cUCCcCC-CUGCCACUguUCCGGUGg -3' miRNA: 3'- gaAGGuGGaGAUGGUGGacAGGCCAC- -5' |
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| 19730 | 3' | -55.6 | NC_004686.1 | + | 11895 | 0.71 | 0.432164 |
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Target: 5'- -gUCCGCUggUCUGCCuCCUGggCCGGUc -3' miRNA: 3'- gaAGGUGG--AGAUGGuGGACa-GGCCAc -5' |
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| 19730 | 3' | -55.6 | NC_004686.1 | + | 55367 | 1.09 | 0.000958 |
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Target: 5'- gCUUCCACCUCUACCACCUGUCCGGUGg -3' miRNA: 3'- -GAAGGUGGAGAUGGUGGACAGGCCAC- -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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