miRNA: 3'- gucaAAGCGU---AUGAGGCauuUGUGCA- -5'
miRNA: 3'- gUCAA----AGCGU------AU-GAGGCAU-UUGUGCA- -5'
miRNA: 3'- guCAAAGCGUA---UGAGGCAu---UUGUGca -5'
miRNA: 3'- -GUCAAAGCgUAUGaGGCAU-----UUGUGCA- -5'
miRNA: 3'- -GUCAAAGCGUAUGAGGCAUUUGUGCA- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 1155 | 3' | -46.2 | NC_001132.2 | + | 7916 | 0.66 | 0.999987 |
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Target: 5'- ---cUUCGCAccgUGCUCCGcu-ACAUGUa -3' miRNA: 3'- gucaAAGCGU---AUGAGGCauuUGUGCA- -5' |
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| 1155 | 3' | -46.2 | NC_001132.2 | + | 11335 | 0.66 | 0.999966 |
|
Target: 5'- gAGUUcuccUCGCGauucaaUAcCUCCGUGcAACGCGUg -3' miRNA: 3'- gUCAA----AGCGU------AU-GAGGCAU-UUGUGCA- -5' |
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| 1155 | 3' | -46.2 | NC_001132.2 | + | 62486 | 0.68 | 0.999766 |
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Target: 5'- -cGUUUUGCAUaagGCUCCGUccauGGCACc- -3' miRNA: 3'- guCAAAGCGUA---UGAGGCAu---UUGUGca -5' |
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| 1155 | 3' | -46.2 | NC_001132.2 | + | 111681 | 0.69 | 0.999259 |
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Target: 5'- cCAGUUUUGaGUACgCCGUGgacuuGACACGUu -3' miRNA: 3'- -GUCAAAGCgUAUGaGGCAU-----UUGUGCA- -5' |
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| 1155 | 3' | -46.2 | NC_001132.2 | + | 4288 | 1.08 | 0.030972 |
|
Target: 5'- aCAGUUUCGCAUACUCCGUAAACACGUu -3' miRNA: 3'- -GUCAAAGCGUAUGAGGCAUUUGUGCA- -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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