miRNA: 3'- caGGUUgUgCA-GGAGCCAUGUC----AUGG- -5'
miRNA: 3'- -CAGGUUGUGcaGGAgCCA-UGUCAUGG- -5'
miRNA: 3'- caGGUUguGCAGGA--------------GCCAUGUCAUGG- -5'
Results 21 - 23 of 23 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 | |||||||
| 16628 | 5' | -51.5 | NC_004156.1 | + | 15795 | 0.69 | 0.982693 |
|
Target: 5'- -gCCGAgGaGUgCCUCGGUGCAGaugcUACCg -3' miRNA: 3'- caGGUUgUgCA-GGAGCCAUGUC----AUGG- -5' |
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| 16628 | 5' | -51.5 | NC_004156.1 | + | 15213 | 0.68 | 0.986263 |
|
Target: 5'- cGUCUAACGC--CCUgGGUcAUGGUACCg -3' miRNA: 3'- -CAGGUUGUGcaGGAgCCA-UGUCAUGG- -5' |
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| 16628 | 5' | -51.5 | NC_004156.1 | + | 14928 | 0.68 | 0.991351 |
|
Target: 5'- -aCUAGuuUGUCCUuuuuaaaguuuaccCGGUACGGUACCa -3' miRNA: 3'- caGGUUguGCAGGA--------------GCCAUGUCAUGG- -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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