miRNA: 3'- -AGAACGGGGGCGCGUUGAGGACCUCG- -5'
miRNA: 3'- agaaCGGGGGCGcGUUGAGGacCUCG- -5'
miRNA: 3'- agaacGGG--GGCGC---GUUGAGGACCUCG- -5'
miRNA: 3'- agaACGGGGG-CG-------CGUUGAGGACcu--CG- -5'
Results 1 - 4 of 4 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 | |||||||
| 3233 | 3' | -58.6 | NC_001514.1 | + | 2414 | 1.11 | 1.9e-05 |
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Target: 5'- aUCUUGCCCCCGCGCAACUCCUGGAGCc -3' miRNA: 3'- -AGAACGGGGGCGCGUUGAGGACCUCG- -5' |
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| 3233 | 3' | -58.6 | NC_001514.1 | + | 6165 | 0.69 | 0.07653 |
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Target: 5'- ---gGCCCCCGC-UGGCUCCcuGAGCg -3' miRNA: 3'- agaaCGGGGGCGcGUUGAGGacCUCG- -5' |
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| 3233 | 3' | -58.6 | NC_001514.1 | + | 573 | 0.68 | 0.081654 |
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Target: 5'- ----aCCCgaCCGCGagcCGACUCCUGGAGUu -3' miRNA: 3'- agaacGGG--GGCGC---GUUGAGGACCUCG- -5' |
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| 3233 | 3' | -58.6 | NC_001514.1 | + | 1388 | 0.66 | 0.115822 |
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Target: 5'- --gUGCCCCCaGUggcaguuGCGGCUCCUGuuuuGCa -3' miRNA: 3'- agaACGGGGG-CG-------CGUUGAGGACcu--CG- -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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