miRNA: 3'- caGUGCC-----UGGGCUuCGU-GGGC-GACau -5'
miRNA: 3'- cAGUGC-CUGGGCU-UCGUGGGCgacau -5'
miRNA: 3'- caGUGCCUGGgCUUCGuGGGCGa-CAu -5'
miRNA: 3'- -CAGUGCCUGGGCUUCGUGGGCGACAU- -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 | |||||||
| 24961 | 3' | -58.3 | NC_005284.1 | + | 23875 | 0.66 | 0.519622 |
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Target: 5'- -cCACGGcgcccGCCCGAuGCAuCCCGaCUGg- -3' miRNA: 3'- caGUGCC-----UGGGCUuCGU-GGGC-GACau -5' |
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| 24961 | 3' | -58.3 | NC_005284.1 | + | 33385 | 0.66 | 0.498945 |
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Target: 5'- uUCACGaGACCCGGcAGCACUCGa---- -3' miRNA: 3'- cAGUGC-CUGGGCU-UCGUGGGCgacau -5' |
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| 24961 | 3' | -58.3 | NC_005284.1 | + | 52459 | 0.68 | 0.429773 |
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Target: 5'- -aCGCGGACCaGAAGCuCCCGUcgGUc -3' miRNA: 3'- caGUGCCUGGgCUUCGuGGGCGa-CAu -5' |
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| 24961 | 3' | -58.3 | NC_005284.1 | + | 47140 | 1.06 | 0.00072 |
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Target: 5'- cGUCACGGACCCGAAGCACCCGCUGUAc -3' miRNA: 3'- -CAGUGCCUGGGCUUCGUGGGCGACAU- -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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