miRNA: 3'- gUCGUCCA----------GGa-CCUCC-CCCgaCACGa -5'
miRNA: 3'- guCGUCCaGGACCUC--------CCCCGa----CACGA- -5'
miRNA: 3'- gUCGu---CCAGGACCucCCCCGACaCGa -5'
miRNA: 3'- guCGUCCa---GGACCUCCCCCGaca-CGa -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 | |||||||
| 31195 | 3' | -61.9 | NC_006560.1 | + | 32520 | 0.69 | 0.405578 |
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Target: 5'- gAGCAGGUagggcgccccCCagGGAGGcGGGgaGUGCg -3' miRNA: 3'- gUCGUCCA----------GGa-CCUCC-CCCgaCACGa -5' |
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| 31195 | 3' | -61.9 | NC_006560.1 | + | 112511 | 0.7 | 0.380876 |
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Target: 5'- -cGCGGGgCCUGGAGcucagcguGGGGCggcacGUGCUg -3' miRNA: 3'- guCGUCCaGGACCUC--------CCCCGa----CACGA- -5' |
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| 31195 | 3' | -61.9 | NC_006560.1 | + | 98313 | 0.71 | 0.320084 |
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Target: 5'- gGGCugcuGGUCCUGGc-GGGGCUG-GCg -3' miRNA: 3'- gUCGu---CCAGGACCucCCCCGACaCGa -5' |
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| 31195 | 3' | -61.9 | NC_006560.1 | + | 85525 | 0.71 | 0.313017 |
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Target: 5'- -cGCGGGggcgCUUGGGGGGGGCggggGCg -3' miRNA: 3'- guCGUCCa---GGACCUCCCCCGaca-CGa -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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