miRNA: 3'- cuCGG-AACuaCUGUuuuAGCUGCCCG- -5'
miRNA: 3'- cuCGgaaCUACUGuuuuAGCugCCCG- -5'
miRNA: 3'- cucGGAACUACUGUuU----------UAGCUGCCCG- -5'
miRNA: 3'- cUCGGAacUACUGUUUUAg---CUGCCCG- -5'
miRNA: 3'- -CUCGGAACUACUGUUUUAGCUGCCCG- -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 | |||||||
| 16573 | 3' | -49 | NC_004117.1 | + | 71248 | 0.66 | 0.999117 |
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Target: 5'- -uGCCgUUGccGACAcuuUCGAUGGGUu -3' miRNA: 3'- cuCGG-AACuaCUGUuuuAGCUGCCCG- -5' |
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| 16573 | 3' | -49 | NC_004117.1 | + | 624 | 0.67 | 0.997269 |
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Target: 5'- -uGCg--GAUGACu---UCGugGGGCa -3' miRNA: 3'- cuCGgaaCUACUGuuuuAGCugCCCG- -5' |
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| 16573 | 3' | -49 | NC_004117.1 | + | 109925 | 0.68 | 0.99477 |
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Target: 5'- --aUUUUGAUGACAcAgcuugaccgcAUCGAUGGGCa -3' miRNA: 3'- cucGGAACUACUGUuU----------UAGCUGCCCG- -5' |
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| 16573 | 3' | -49 | NC_004117.1 | + | 148621 | 0.74 | 0.873356 |
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Target: 5'- cGGCCUcuGUGGCAAAAUacugGACGGGUu -3' miRNA: 3'- cUCGGAacUACUGUUUUAg---CUGCCCG- -5' |
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| 16573 | 3' | -49 | NC_004117.1 | + | 67870 | 1.14 | 0.006788 |
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Target: 5'- cGAGCCUUGAUGACAAAAUCGACGGGCg -3' miRNA: 3'- -CUCGGAACUACUGUUUUAGCUGCCCG- -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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