miRNA: 3'- aGUC-GCU----AUCGAu--CAUGGUAUCGUug -5'
miRNA: 3'- aGUCGCuaUCGa--UCaUGGUAUCGUUG- -5'
miRNA: 3'- aGUCgCUAU----CGauCAUGGUAUCGUUG- -5'
miRNA: 3'- -AGUCGCUAUCGaUCAUGGuAUCGuug -5'
miRNA: 3'- -AGUCGcUAUCGAUCAUGGUAUCGUUG- -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 | |||||||
| 32039 | 3' | -48.1 | NC_006953.1 | + | 1424 | 0.66 | 0.927071 |
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Target: 5'- cCAGcCGAugucUAGCUcuuGUAUCAUGGCAu- -3' miRNA: 3'- aGUC-GCU----AUCGAu--CAUGGUAUCGUug -5' |
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| 32039 | 3' | -48.1 | NC_006953.1 | + | 14154 | 0.67 | 0.875051 |
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Target: 5'- cCGGUGggAGCgccGGaACUGUGGCAGCa -3' miRNA: 3'- aGUCGCuaUCGa--UCaUGGUAUCGUUG- -5' |
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| 32039 | 3' | -48.1 | NC_006953.1 | + | 35026 | 0.68 | 0.838537 |
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Target: 5'- aCAGgGAUGuaucGCc-GUACCGUGGCGAUg -3' miRNA: 3'- aGUCgCUAU----CGauCAUGGUAUCGUUG- -5' |
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| 32039 | 3' | -48.1 | NC_006953.1 | + | 22079 | 0.7 | 0.742385 |
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Target: 5'- uUCAGCGAUAGC-GGUAUUcUGGCu-- -3' miRNA: 3'- -AGUCGCUAUCGaUCAUGGuAUCGuug -5' |
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| 32039 | 3' | -48.1 | NC_006953.1 | + | 34925 | 0.98 | 0.0164 |
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Target: 5'- aUCAGC-AUAGCUAGUACCAUAGCAACu -3' miRNA: 3'- -AGUCGcUAUCGAUCAUGGUAUCGUUG- -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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