miRNA: 3'- caCUCCCAGGGUCUCU----UUGac-UCaGU- -5'
miRNA: 3'- -CACUCC---CAGGGUCuCUUUGaCUCAGU- -5'
miRNA: 3'- cACUCCCAGGguCUCUuugaCUCAGu -5'
miRNA: 3'- caCUCCCa---GGGUCUCUU------------UGaCUCAGU- -5'
miRNA: 3'- -CACUCCCAGGGUCUCUUUGACUCAGU- -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 | |||||||
| 10910 | 3' | -53 | NC_002794.1 | + | 91865 | 0.66 | 0.986762 |
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Target: 5'- -cGAGGGUCCCGGGGGuggcGGCggcGGcCGc -3' miRNA: 3'- caCUCCCAGGGUCUCU----UUGac-UCaGU- -5' |
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| 10910 | 3' | -53 | NC_002794.1 | + | 89818 | 0.66 | 0.985075 |
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Target: 5'- uGUGGGGugcGUCCUGG-GGAAC-GAGUCGg -3' miRNA: 3'- -CACUCC---CAGGGUCuCUUUGaCUCAGU- -5' |
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| 10910 | 3' | -53 | NC_002794.1 | + | 158702 | 0.68 | 0.950219 |
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Target: 5'- aUGGGGGUCCguGGGAuga-GGGUCu -3' miRNA: 3'- cACUCCCAGGguCUCUuugaCUCAGu -5' |
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| 10910 | 3' | -53 | NC_002794.1 | + | 181445 | 0.71 | 0.836048 |
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Target: 5'- -cGAGGGgccgCCCGGAGGAcgucuuacccgcGCcGAGUCGc -3' miRNA: 3'- caCUCCCa---GGGUCUCUU------------UGaCUCAGU- -5' |
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| 10910 | 3' | -53 | NC_002794.1 | + | 3528 | 1.09 | 0.006494 |
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Target: 5'- aGUGAGGGUCCCAGAGAAACUGAGUCAa -3' miRNA: 3'- -CACUCCCAGGGUCUCUUUGACUCAGU- -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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