miRNA: 3'- uUCugCUGGUAGGauu-------ACAUAGAUCG- -5'
miRNA: 3'- uUCUGCUGG--------UAGgAUUA-CAUAGAUCg -5'
miRNA: 3'- -UUCUGCUGGUAGGA--UUACaUAgaUCG- -5'
miRNA: 3'- -UUCUGcuGGUAGGaUUACAUAGA-UCg -5'
miRNA: 3'- -UUCUGCUGGUAGGAUUACAUAGAUCG- -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 | |||||||
| 17765 | 5' | -46.4 | NC_004629.1 | + | 179142 | 0.66 | 0.999997 |
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Target: 5'- uGGugGAUUAUCCacgauaucacUGUGUCUAGUu -3' miRNA: 3'- uUCugCUGGUAGGauu-------ACAUAGAUCG- -5' |
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| 17765 | 5' | -46.4 | NC_004629.1 | + | 95750 | 0.67 | 0.999995 |
|
Target: 5'- cAGGCGGCCuuggcucgAUCgUGAUuGUAUCUGGa -3' miRNA: 3'- uUCUGCUGG--------UAGgAUUA-CAUAGAUCg -5' |
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| 17765 | 5' | -46.4 | NC_004629.1 | + | 53410 | 0.67 | 0.999989 |
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Target: 5'- cAAGAUGACCAUCUUcaGAUGgGUa-AGCa -3' miRNA: 3'- -UUCUGCUGGUAGGA--UUACaUAgaUCG- -5' |
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| 17765 | 5' | -46.4 | NC_004629.1 | + | 6118 | 0.68 | 0.999933 |
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Target: 5'- gGAGACu-CCAUCCcAAUGUAUCUuGGa -3' miRNA: 3'- -UUCUGcuGGUAGGaUUACAUAGA-UCg -5' |
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| 17765 | 5' | -46.4 | NC_004629.1 | + | 53136 | 1.12 | 0.027617 |
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Target: 5'- aAAGACGACCAUCCUAAUGUAUCUAGCa -3' miRNA: 3'- -UUCUGCUGGUAGGAUUACAUAGAUCG- -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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