miRNA: 3'- -CUCGCaaa---GGCUCUGCGAGagacuca -5'
miRNA: 3'- cUCGCaaa------GGCUCUGCGAGa--GACUca -5'
miRNA: 3'- cUCGCAAAGGcUCUGCGAGAGacuca -5'
miRNA: 3'- -CUCGCaaa--GGCUCUGCGAGagaCuCA- -5'
miRNA: 3'- cuCGCA--AAGGCUCUGCGAGAGACUca -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 10979 | 5' | -53.5 | NC_002794.1 | + | 127336 | 0.66 | 0.982031 |
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Target: 5'- cGAGCGccgcugCCGAGACGCUCg------ -3' miRNA: 3'- -CUCGCaaa---GGCUCUGCGAGagacuca -5' |
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| 10979 | 5' | -53.5 | NC_002794.1 | + | 179253 | 0.67 | 0.966582 |
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Target: 5'- cGGCGagaccgccgCCGAGACGCUCaggCUGAc- -3' miRNA: 3'- cUCGCaaa------GGCUCUGCGAGa--GACUca -5' |
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| 10979 | 5' | -53.5 | NC_002794.1 | + | 46472 | 0.68 | 0.933977 |
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Target: 5'- aAGCGUUUUC-AGACGCUCUCg---- -3' miRNA: 3'- cUCGCAAAGGcUCUGCGAGAGacuca -5' |
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| 10979 | 5' | -53.5 | NC_002794.1 | + | 147582 | 0.69 | 0.917849 |
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Target: 5'- cGAGCGgcacaCCGAGGCGCUCgcgGuGUg -3' miRNA: 3'- -CUCGCaaa--GGCUCUGCGAGagaCuCA- -5' |
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| 10979 | 5' | -53.5 | NC_002794.1 | + | 135423 | 0.84 | 0.228826 |
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Target: 5'- -cGUGUagUUCCGAGACGCUCUCUGAa- -3' miRNA: 3'- cuCGCA--AAGGCUCUGCGAGAGACUca -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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