miRNA: 3'- aUGGACG-------------AUUCGGCUCUGGaAgCAGG- -5'
miRNA: 3'- aUGGACGAUUCGGcucuGGaagCAGG- -5'
miRNA: 3'- aUgGACGAUuCGGCUCUGGaa---GCa----GG- -5'
miRNA: 3'- auGGaCGAUUCGGCUCUGGa--AG---CAGG- -5'
miRNA: 3'- -AUGGa--CGAU--UCGG---CUCUGGAAgCAGG- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 22324 | 3' | -53.6 | NC_005045.1 | + | 33069 | 0.75 | 0.26305 |
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Target: 5'- cGCCUGCgcuacagcgacggUGGGCCGGGACUgUgGUCCc -3' miRNA: 3'- aUGGACG-------------AUUCGGCUCUGGaAgCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 33129 | 0.68 | 0.61886 |
|
Target: 5'- aGCCUGCUGGGCCu---CCg--GUCCg -3' miRNA: 3'- aUGGACGAUUCGGcucuGGaagCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 33621 | 0.66 | 0.720614 |
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Target: 5'- gAgCUGCUGcGCCGGGACCgggagUGgacugCCu -3' miRNA: 3'- aUgGACGAUuCGGCUCUGGaa---GCa----GG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 36675 | 0.7 | 0.496299 |
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Target: 5'- -uCCcGCUGGGCUGAGGCUgggUCccuGUCCa -3' miRNA: 3'- auGGaCGAUUCGGCUCUGGa--AG---CAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 39439 | 0.7 | 0.485639 |
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Target: 5'- gUACUgaaGCUGgaAGCCcucGGGGCCUUgGUCCa -3' miRNA: 3'- -AUGGa--CGAU--UCGG---CUCUGGAAgCAGG- -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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