miRNA: 3'- -CGGCCGGCaUUACgGCGCag--AGUGGa -5'
miRNA: 3'- -CGG---CCGGCAUuACG-GCGCAGa------------GUGGa -5'
miRNA: 3'- -CGGcCGGCauua-CGGCGCaGAGUGga -5'
miRNA: 3'- -CgGCCGGCauUACGGCGCa-GAGUgga -5'
miRNA: 3'- -CGGCCGGCauUACG-GCGCaGA---GUGGa -5'
Results 41 - 45 of 45 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28058 | 3' | -57.7 | NC_005887.1 | + | 26344 | 0.67 | 0.465527 |
|
Target: 5'- cGCUGGCCG-GGUG-CGCGaacaUCACCg -3' miRNA: 3'- -CGGCCGGCaUUACgGCGCag--AGUGGa -5' |
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| 28058 | 3' | -57.7 | NC_005887.1 | + | 24108 | 0.67 | 0.471561 |
|
Target: 5'- gGCCcuuGGCCGUGcUGCgCGUGUCgugcggugugaagCGCCg -3' miRNA: 3'- -CGG---CCGGCAUuACG-GCGCAGa------------GUGGa -5' |
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| 28058 | 3' | -57.7 | NC_005887.1 | + | 4788 | 0.67 | 0.475606 |
|
Target: 5'- cGCCaGCCGgcgagGCCGUG-CUCGCg- -3' miRNA: 3'- -CGGcCGGCauua-CGGCGCaGAGUGga -5' |
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| 28058 | 3' | -57.7 | NC_005887.1 | + | 24882 | 0.66 | 0.506467 |
|
Target: 5'- cGgCGGCCG--AUGCCGCGcgCUCGg-- -3' miRNA: 3'- -CgGCCGGCauUACGGCGCa-GAGUgga -5' |
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| 28058 | 3' | -57.7 | NC_005887.1 | + | 1000 | 0.73 | 0.197258 |
|
Target: 5'- uGCCGGCCGccGUGCgCGCG-CUguaCACCg -3' miRNA: 3'- -CGGCCGGCauUACG-GCGCaGA---GUGGa -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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