miRNA: 3'- -GGUGGU--UGUUGUa--AUGG--CCGUCGUGC- -5'
miRNA: 3'- -GGUGGUUGUUGUA---AUGGCcgUCGUGC- -5'
miRNA: 3'- -GGUGGUUGUUGUaAUGGCC--GUCGUGC- -5'
miRNA: 3'- -GGUGGUUGUUGUAAUgGCCGUCGUGC- -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 | |||||||
| 1030 | 3' | -50.5 | NC_000924.1 | + | 40904 | 0.78 | 0.38628 |
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Target: 5'- uCCGCCAguACAGCGgaaUGCUcgGGCAGCAUGg -3' miRNA: 3'- -GGUGGU--UGUUGUa--AUGG--CCGUCGUGC- -5' |
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| 1030 | 3' | -50.5 | NC_000924.1 | + | 37871 | 0.79 | 0.325732 |
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Target: 5'- gCCACCGGCAGCAUccuUACUGaaAGCGCGa -3' miRNA: 3'- -GGUGGUUGUUGUA---AUGGCcgUCGUGC- -5' |
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| 1030 | 3' | -50.5 | NC_000924.1 | + | 14531 | 0.83 | 0.182176 |
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Target: 5'- aUCACCAACAACA-UGCCGGaaCAGUACGa -3' miRNA: 3'- -GGUGGUUGUUGUaAUGGCC--GUCGUGC- -5' |
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| 1030 | 3' | -50.5 | NC_000924.1 | + | 56696 | 0.99 | 0.017262 |
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Target: 5'- aCCACCAACAACAUUA-CGGCAGCACGg -3' miRNA: 3'- -GGUGGUUGUUGUAAUgGCCGUCGUGC- -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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