miRNA: 3'- gCUCgCugCAUGCGU----CAAGCGaCuCG- -5'
miRNA: 3'- -GCUCGCUgCAU--GCg--UCaAGCGACU-CG- -5'
miRNA: 3'- gCUCGCUGcauGCGUcaagCGACUCG- -5'
miRNA: 3'- gCUcGCUGCaUGCGucaAGCGa--CUCG- -5'
Results 41 - 44 of 44 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 | |||||||
| 28018 | 5' | -53.5 | NC_005887.1 | + | 3380 | 0.66 | 0.739743 |
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Target: 5'- aGGGaGugGUGCGCAcgcuGUUCGCcGcGCg -3' miRNA: 3'- gCUCgCugCAUGCGU----CAAGCGaCuCG- -5' |
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| 28018 | 5' | -53.5 | NC_005887.1 | + | 5942 | 0.66 | 0.750418 |
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Target: 5'- uCGGGCGAgGUGauCGauaAGcUCGCUGGcGCg -3' miRNA: 3'- -GCUCGCUgCAU--GCg--UCaAGCGACU-CG- -5' |
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| 28018 | 5' | -53.5 | NC_005887.1 | + | 41928 | 0.66 | 0.771379 |
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Target: 5'- uGAGCGGCu--CGCA----GCUGAGCu -3' miRNA: 3'- gCUCGCUGcauGCGUcaagCGACUCG- -5' |
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| 28018 | 5' | -53.5 | NC_005887.1 | + | 42074 | 0.66 | 0.771379 |
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Target: 5'- gGAuCGACGaGCGCug-UCGCgugGGGCg -3' miRNA: 3'- gCUcGCUGCaUGCGucaAGCGa--CUCG- -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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