miRNA: 3'- -UAGCCGGUUGGccUGCuCAGCUCGCu -5'
miRNA: 3'- uaGCCGGu-----UGGCCUGCUCAGcUCGCU- -5'
miRNA: 3'- uAGCCGGUUGGCCUGCU-CAGCu-CGCU- -5'
miRNA: 3'- -UAGCCGGUUGGCCUGCUCAGCUCGCU- -5'
Results 21 - 24 of 24 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 | |||||||
| 28087 | 5' | -58.2 | NC_005887.1 | + | 26453 | 0.74 | 0.149719 |
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Target: 5'- gGUCGGCCAGCU--GCGcGUCGAGCGc -3' miRNA: 3'- -UAGCCGGUUGGccUGCuCAGCUCGCu -5' |
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| 28087 | 5' | -58.2 | NC_005887.1 | + | 876 | 0.76 | 0.113372 |
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Target: 5'- -gUGGCCcgcgccGCCGGACGAGUCaGGCGGc -3' miRNA: 3'- uaGCCGGu-----UGGCCUGCUCAGcUCGCU- -5' |
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| 28087 | 5' | -58.2 | NC_005887.1 | + | 15439 | 0.83 | 0.035801 |
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Target: 5'- uUCGGUCAACCGGACGAcGUCGccGCGAu -3' miRNA: 3'- uAGCCGGUUGGCCUGCU-CAGCu-CGCU- -5' |
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| 28087 | 5' | -58.2 | NC_005887.1 | + | 6062 | 1.07 | 0.000542 |
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Target: 5'- gAUCGGCCAACCGGACGAGUCGAGCGAg -3' miRNA: 3'- -UAGCCGGUUGGCCUGCUCAGCUCGCU- -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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