miRNA: 3'- gaCGgGCUUuccCU-CGUCGCGCGCCG- -5'
miRNA: 3'- gACGGGCUuUCc--CUCGuCGCGCGCCG- -5'
miRNA: 3'- gaCGGGCuUUC----CC-UCGUCGCGCGCCG- -5'
miRNA: 3'- -GACGGGCUUUCCCUCGUCGCGCGCCG- -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 | |||||||
| 27607 | 3' | -60.5 | NC_005882.1 | + | 12708 | 0.7 | 0.16478 |
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Target: 5'- -cGCgCGGA---GAcGCAGCGCGCGGCg -3' miRNA: 3'- gaCGgGCUUuccCU-CGUCGCGCGCCG- -5' |
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| 27607 | 3' | -60.5 | NC_005882.1 | + | 17786 | 0.74 | 0.091679 |
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Target: 5'- uUGCCCGAuGGcucGGGC-GCGUGCGGCu -3' miRNA: 3'- gACGGGCUuUCc--CUCGuCGCGCGCCG- -5' |
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| 27607 | 3' | -60.5 | NC_005882.1 | + | 26705 | 0.77 | 0.05788 |
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Target: 5'- -gGUCCGuGAGcgacGGcAGCAGCGCGCGGCc -3' miRNA: 3'- gaCGGGCuUUC----CC-UCGUCGCGCGCCG- -5' |
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| 27607 | 3' | -60.5 | NC_005882.1 | + | 27094 | 1.1 | 0.000143 |
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Target: 5'- cCUGCCCGAAAGGGAGCAGCGCGCGGCc -3' miRNA: 3'- -GACGGGCUUUCCCUCGUCGCGCGCCG- -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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