miRNA: 3'- uAGACaaGCuGCUCGA--------GCGCGCAGag -5'
miRNA: 3'- uagacAAGCUGCUCG-AGCG-----CGCAGAG- -5'
miRNA: 3'- uaGACaAGCUGCUCGAGCGCGca------GAG- -5'
miRNA: 3'- -UAGACAAGCUGCUCGAGCGCGCAGAG- -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 | |||||||
| 23946 | 5' | -55.3 | NC_005262.1 | + | 16378 | 0.7 | 0.5045 |
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Target: 5'- uUCUGggCGuCGAGCUugcuuuucUGCGCGUCg- -3' miRNA: 3'- uAGACaaGCuGCUCGA--------GCGCGCAGag -5' |
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| 23946 | 5' | -55.3 | NC_005262.1 | + | 30063 | 0.71 | 0.424897 |
|
Target: 5'- ----cUUCGGCGAGCuUCGCcuucaGCGUCUCg -3' miRNA: 3'- uagacAAGCUGCUCG-AGCG-----CGCAGAG- -5' |
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| 23946 | 5' | -55.3 | NC_005262.1 | + | 46170 | 0.75 | 0.262707 |
|
Target: 5'- -gCUGcUCGGCGAGCUCGCGCugcuggcgCUCc -3' miRNA: 3'- uaGACaAGCUGCUCGAGCGCGca------GAG- -5' |
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| 23946 | 5' | -55.3 | NC_005262.1 | + | 18147 | 1.07 | 0.001604 |
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Target: 5'- gAUCUGUUCGACGAGCUCGCGCGUCUCc -3' miRNA: 3'- -UAGACAAGCUGCUCGAGCGCGCAGAG- -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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