miRNA: 3'- -CAGuCGGa--ACGaa----GGCGGCUGGUaau -5'
miRNA: 3'- -CAGUCGGAACGAAGGCGGCUGGUAAU- -5'
miRNA: 3'- cAGUCGGaa--------CGa--AGGCGGCuGGUaau -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 | |||||||
| 26518 | 3' | -54.4 | NC_005357.1 | + | 41071 | 0.69 | 0.453942 |
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Target: 5'- gGUC-GCCggaUGCgcaaggCCGCCGACCAc-- -3' miRNA: 3'- -CAGuCGGa--ACGaa----GGCGGCUGGUaau -5' |
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| 26518 | 3' | -54.4 | NC_005357.1 | + | 15559 | 1.07 | 0.000996 |
|
Target: 5'- cGUCAGCCUUGCUUCCGCCGACCAUUAc -3' miRNA: 3'- -CAGUCGGAACGAAGGCGGCUGGUAAU- -5' |
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| 26518 | 3' | -54.4 | NC_005357.1 | + | 27276 | 0.66 | 0.654284 |
|
Target: 5'- aUCAGCCgucgcccuggGCgcaUCCGCCG-CCAg-- -3' miRNA: 3'- cAGUCGGaa--------CGa--AGGCGGCuGGUaau -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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