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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 | |||||||
| 18567 | 3' | -55.6 | NC_004682.1 | + | 22988 | 0.67 | 0.59016 |
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Target: 5'- --gCCuUCGGGCUgguccGGggGGCCGUCc -3' miRNA: 3'- gaaGGuAGCUCGGa----CCaaCCGGCAGu -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 1305 | 0.67 | 0.568193 |
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Target: 5'- ---gCGUCGAGCgcuacUUGGUccgcgacagguaUGGCCGUCAc -3' miRNA: 3'- gaagGUAGCUCG-----GACCA------------ACCGGCAGU- -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 32393 | 0.69 | 0.462665 |
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Target: 5'- aCUUCCuUCGcGGCCUGcaugaucuccUUGGCCGUCu -3' miRNA: 3'- -GAAGGuAGC-UCGGACc---------AACCGGCAGu -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 16852 | 0.69 | 0.452657 |
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Target: 5'- --gCCAUCG-GCCUGGUggcUGGCC-UCc -3' miRNA: 3'- gaaGGUAGCuCGGACCA---ACCGGcAGu -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 43614 | 0.7 | 0.40448 |
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Target: 5'- --cCCAgcUCGAuGCCUGGgguGCCGUCAg -3' miRNA: 3'- gaaGGU--AGCU-CGGACCaacCGGCAGU- -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 22883 | 0.72 | 0.334493 |
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Target: 5'- --gCCGUCGucGGCCUGG-UGGCCuUCAu -3' miRNA: 3'- gaaGGUAGC--UCGGACCaACCGGcAGU- -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 23732 | 0.72 | 0.332048 |
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Target: 5'- -gUCCAUCaGgugcuggagauccuGGCUgGGUUGGCCGUCAc -3' miRNA: 3'- gaAGGUAG-C--------------UCGGaCCAACCGGCAGU- -5' |
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| 18567 | 3' | -55.6 | NC_004682.1 | + | 34270 | 1.09 | 0.000768 |
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Target: 5'- aCUUCCAUCGAGCCUGGUUGGCCGUCAg -3' miRNA: 3'- -GAAGGUAGCUCGGACCAACCGGCAGU- -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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