miRNA: 3'- gUGUGCUGUgCUaUGGGGGCGCGU---GG- -5'
miRNA: 3'- -GUGUGCUGUGcuauGGgGGCG-CGUGg -5'
miRNA: 3'- gUGUGCUGU--GCUAUGGGGGc---GCgUGG- -5'
miRNA: 3'- -GUGUgCUG-------------UGCuaUGG-GGGCGCGUGg -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 |
| Predicted miRNA align pattern | |||||||
| 2102 | 3' | -56.6 | NC_001348.1 | + | 48206 | 0.69 | 0.719532 |
|
Target: 5'- aACAUGGCA-GAaAUCCCUGCGCAacuCCa -3' miRNA: 3'- gUGUGCUGUgCUaUGGGGGCGCGU---GG- -5' |
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| 2102 | 3' | -56.6 | NC_001348.1 | + | 47717 | 0.7 | 0.659169 |
|
Target: 5'- aCACACGACGCcu--CCgCCGCaGCACg -3' miRNA: 3'- -GUGUGCUGUGcuauGGgGGCG-CGUGg -5' |
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| 2102 | 3' | -56.6 | NC_001348.1 | + | 41890 | 0.72 | 0.557633 |
|
Target: 5'- gACACGGCAgcCGAUGCCCCCcaaaCG-ACCu -3' miRNA: 3'- gUGUGCUGU--GCUAUGGGGGc---GCgUGG- -5' |
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| 2102 | 3' | -56.6 | NC_001348.1 | + | 39712 | 0.68 | 0.785508 |
|
Target: 5'- cCACA-GACgccucccccauaaACGcgGCCaCCCGCGCGCg -3' miRNA: 3'- -GUGUgCUG-------------UGCuaUGG-GGGCGCGUGg -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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