miRNA: 3'- -UUCCGGcGgUAGCC----AGCCGaCUACCU- -5'
miRNA: 3'- -UUCCGGCGgUAGCC--------------AGCCGACu------ACCu -5'
miRNA: 3'- uUCCGGCGGUaGCCAgCCGaCUACcu -5'
miRNA: 3'- uuCCGgCGGUaGCC--AGC-CGACUACCu -5'
miRNA: 3'- -UUCCGGCGGUAGCCAGCCGACUACCU- -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 | |||||||
| 22342 | 5' | -59.7 | NC_005045.1 | + | 11827 | 0.68 | 0.290342 |
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Target: 5'- cGAGGCCcUgAUCGGuuucUCGGC-GAUGGAg -3' miRNA: 3'- -UUCCGGcGgUAGCC----AGCCGaCUACCU- -5' |
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| 22342 | 5' | -59.7 | NC_005045.1 | + | 27892 | 0.68 | 0.280986 |
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Target: 5'- cGAGGCCGUgGUCGGggcgguguauguggUCGGCUGugaguucUGGu -3' miRNA: 3'- -UUCCGGCGgUAGCC--------------AGCCGACu------ACCu -5' |
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| 22342 | 5' | -59.7 | NC_005045.1 | + | 26163 | 0.69 | 0.230437 |
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Target: 5'- cGGGCCGCCA-CGGU-GGCcGAUGa- -3' miRNA: 3'- uUCCGGCGGUaGCCAgCCGaCUACcu -5' |
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| 22342 | 5' | -59.7 | NC_005045.1 | + | 25942 | 0.7 | 0.224466 |
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Target: 5'- -cGGCgGCCAgCGGuaUCGaGCUGAUGGc -3' miRNA: 3'- uuCCGgCGGUaGCC--AGC-CGACUACCu -5' |
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| 22342 | 5' | -59.7 | NC_005045.1 | + | 23840 | 1.06 | 0.000394 |
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Target: 5'- cAAGGCCGCCAUCGGUCGGCUGAUGGAc -3' miRNA: 3'- -UUCCGGCGGUAGCCAGCCGACUACCU- -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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