miRNA: 3'- -CCCCUAU-CU---UGGCGcCGGGUAGAGag -5'
miRNA: 3'- ccccuaUCUUGGCGCCGGGUAgA-GAG- -5'
miRNA: 3'- cCCCU----------AU-CUUGGCGCCGGGu--AGAGAG- -5'
miRNA: 3'- -CCCCUAUCUUGGCGCCGGGUAGAGAG- -5'
Results 21 - 24 of 24 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 | |||||||
| 30208 | 3' | -56.4 | NC_006273.1 | + | 92229 | 0.7 | 0.781407 |
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Target: 5'- uGGGGAUGcGGcgcGCCGU-GCCCGUCUCc- -3' miRNA: 3'- -CCCCUAU-CU---UGGCGcCGGGUAGAGag -5' |
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| 30208 | 3' | -56.4 | NC_006273.1 | + | 223212 | 0.71 | 0.735283 |
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Target: 5'- -----gAGGACCGCGGCCCGUgUaCUCu -3' miRNA: 3'- ccccuaUCUUGGCGCCGGGUAgA-GAG- -5' |
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| 30208 | 3' | -56.4 | NC_006273.1 | + | 21855 | 0.73 | 0.667418 |
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Target: 5'- uGGGAcuuuggcugcUGcGGGCCGCGGCCCcguUCUUUCu -3' miRNA: 3'- cCCCU----------AU-CUUGGCGCCGGGu--AGAGAG- -5' |
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| 30208 | 3' | -56.4 | NC_006273.1 | + | 198174 | 1.12 | 0.002578 |
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Target: 5'- cGGGGAUAGAACCGCGGCCCAUCUCUCg -3' miRNA: 3'- -CCCCUAUCUUGGCGCCGGGUAGAGAG- -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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