miRNA: 3'- cGGAaaGCGugA---CCGUAGGUG-CGGcG- -5'
miRNA: 3'- -CGGaaaGCGUGACCGuaGGUGcGGCG- -5'
miRNA: 3'- -CGGaaaGCGUGa--CCGUagGUGCGGCg -5'
miRNA: 3'- -CGGaaaGCG-UGACCGuAGGuGCGGCG- -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 | |||||||
| 22400 | 3' | -55.7 | NC_005056.1 | + | 5949 | 0.67 | 0.494825 |
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Target: 5'- aCCUgaCGCugUaccGGCGUCCACcGCC-Cg -3' miRNA: 3'- cGGAaaGCGugA---CCGUAGGUG-CGGcG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 5701 | 0.66 | 0.527334 |
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Target: 5'- cGCCgg-UGCGCUGGC--UCAC-CUGCa -3' miRNA: 3'- -CGGaaaGCGUGACCGuaGGUGcGGCG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 5907 | 0.66 | 0.538349 |
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Target: 5'- cGCCc--CGCGCcagGGCGg-CACGCCGg -3' miRNA: 3'- -CGGaaaGCGUGa--CCGUagGUGCGGCg -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 1313 | 0.66 | 0.549443 |
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Target: 5'- gGUCgg-CGUgGCUGGCuUCCuCGCUGCg -3' miRNA: 3'- -CGGaaaGCG-UGACCGuAGGuGCGGCG- -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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