miRNA: 3'- aUGGACGA---UUCGGCU-----CUGGA---AGCa--GG- -5'
miRNA: 3'- -AUGGACGau---------UCGGCucUGGAAGCaGG- -5'
miRNA: 3'- -AUGGa--CGAU--UCGG---CUCUGGAAgCAGG- -5'
miRNA: 3'- aUGGACGAuuCGGCUCUggaAGCAGG- -5'
miRNA: 3'- auGGACGauUCGGcUCUGGAa--GCaGG- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 22324 | 3' | -53.6 | NC_005045.1 | + | 6185 | 0.69 | 0.517926 |
|
Target: 5'- aGCUUGCUgauGAGCCGAcagacGGCCUcggUCGgggCCa -3' miRNA: 3'- aUGGACGA---UUCGGCU-----CUGGA---AGCa--GG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 6283 | 0.7 | 0.494159 |
|
Target: 5'- cUGCCUGCcagguguccuuAGCCGccGCCUUCGcCCg -3' miRNA: 3'- -AUGGACGau---------UCGGCucUGGAAGCaGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 39439 | 0.7 | 0.485639 |
|
Target: 5'- gUACUgaaGCUGgaAGCCcucGGGGCCUUgGUCCa -3' miRNA: 3'- -AUGGa--CGAU--UCGG---CUCUGGAAgCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 30449 | 0.7 | 0.454342 |
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Target: 5'- gACCUGCUu-GCCGAGG---UUGUCCu -3' miRNA: 3'- aUGGACGAuuCGGCUCUggaAGCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 23122 | 0.66 | 0.698344 |
|
Target: 5'- -uCCUGCgcGGCCuGGGCCUgcgCGgCCu -3' miRNA: 3'- auGGACGauUCGGcUCUGGAa--GCaGG- -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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