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miRNA: 3'- gAGCGGACGG----------CAGCGAUGc----UGGGCuu -5'
miRNA: 3'- gAGCG-GaCGGCAGCGA----------UGCUGGGCUu -5'
miRNA: 3'- -GAGCGgaCGGCAGCGAUG-CUGGgCUU- -5'
miRNA: 3'- -GAGCGGACGGCAGCGAUGCUGGGCUU- -5'
Results 41 - 44 of 44 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 25558 | 5' | -59.5 | NC_005337.1 | + | 23889 | 0.71 | 0.427358 |
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Target: 5'- uUCGCCUGCCuccuccgccuGUCGCUGCcgcgcGCCCGc- -3' miRNA: 3'- gAGCGGACGG----------CAGCGAUGc----UGGGCuu -5' |
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| 25558 | 5' | -59.5 | NC_005337.1 | + | 38903 | 0.72 | 0.376699 |
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Target: 5'- gUCGCgCgGCCGUCGCUguugccuucgGCGACUCGGc -3' miRNA: 3'- gAGCG-GaCGGCAGCGA----------UGCUGGGCUu -5' |
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| 25558 | 5' | -59.5 | NC_005337.1 | + | 107244 | 0.72 | 0.368658 |
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Target: 5'- aCUCGCg-GCUGUCGCUGCuGGCCgGGGa -3' miRNA: 3'- -GAGCGgaCGGCAGCGAUG-CUGGgCUU- -5' |
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| 25558 | 5' | -59.5 | NC_005337.1 | + | 103379 | 1.06 | 0.001934 |
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Target: 5'- gCUCGCCUGCCGUCGCUACGACCCGAAg -3' miRNA: 3'- -GAGCGGACGGCAGCGAUGCUGGGCUU- -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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