miRNA: 3'- aUUCACU---GCGU-ACG-ACGCGGgUUCUg -5'
miRNA: 3'- -AUUCACUGCGUAcGACG-------------CG-GGUUCUG- -5'
miRNA: 3'- auucACUGCGUAc---GACGCGGGU---UCUG- -5'
miRNA: 3'- auucACUGCGUAc---GACGCGGGU---UCUG- -5'
miRNA: 3'- -AUUCACUGCGUACGaCGCGGGUUCUG- -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 | |||||||
| 27292 | 5' | -54.3 | NC_005856.1 | + | 60743 | 0.67 | 0.814231 |
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Target: 5'- aGGGUGAgcaCGCAuUGCaUGCGCCaGAGAa -3' miRNA: 3'- aUUCACU---GCGU-ACG-ACGCGGgUUCUg -5' |
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| 27292 | 5' | -54.3 | NC_005856.1 | + | 13598 | 0.68 | 0.733722 |
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Target: 5'- gUAAGUGGCGCAUcCUGCugguguucguccaGCuCCGGGAUc -3' miRNA: 3'- -AUUCACUGCGUAcGACG-------------CG-GGUUCUG- -5' |
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| 27292 | 5' | -54.3 | NC_005856.1 | + | 35984 | 0.68 | 0.713663 |
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Target: 5'- ---uUGACGUAUagacCUGCGCCCAuucAGACc -3' miRNA: 3'- auucACUGCGUAc---GACGCGGGU---UCUG- -5' |
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| 27292 | 5' | -54.3 | NC_005856.1 | + | 32747 | 0.68 | 0.713663 |
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Target: 5'- ---uUGACGUAUagacCUGCGCCCAuucAGACc -3' miRNA: 3'- auucACUGCGUAc---GACGCGGGU---UCUG- -5' |
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| 27292 | 5' | -54.3 | NC_005856.1 | + | 31941 | 0.98 | 0.010105 |
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Target: 5'- cUAAGUGACGCAUGC-GCGCCCAAGACg -3' miRNA: 3'- -AUUCACUGCGUACGaCGCGGGUUCUG- -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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