miRNA: 3'- -UGCUCgUUCCGU---CGUAGUGGC----GGUUu -5'
miRNA: 3'- -UGCUCGuUC-CG-------------UCGUAGUGGCGGUuu -5'
miRNA: 3'- uGCUCGUUCCgUCGu--AGUGGCGGUUu -5'
miRNA: 3'- -UGCUCGUUCCGUCGUAGUGGCGGUUU- -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 | |||||||
| 30716 | 5' | -55.7 | NC_006552.1 | + | 16605 | 0.7 | 0.43611 |
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Target: 5'- aGCGAGgAGGGUAuccGCAUCACCGauacCCAGu -3' miRNA: 3'- -UGCUCgUUCCGU---CGUAGUGGC----GGUUu -5' |
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| 30716 | 5' | -55.7 | NC_006552.1 | + | 10468 | 0.72 | 0.33597 |
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Target: 5'- gGCGAGCcAGcGCagugccgccuucuGGCAUCACUGCCAc- -3' miRNA: 3'- -UGCUCGuUC-CG-------------UCGUAGUGGCGGUuu -5' |
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| 30716 | 5' | -55.7 | NC_006552.1 | + | 3637 | 0.75 | 0.229577 |
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Target: 5'- cCGGGCAGGG-GGCuccUCACCGCCGAc -3' miRNA: 3'- uGCUCGUUCCgUCGu--AGUGGCGGUUu -5' |
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| 30716 | 5' | -55.7 | NC_006552.1 | + | 54769 | 1.05 | 0.00143 |
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Target: 5'- gACGAGCAAGGCAGCAUCACCGCCAAAc -3' miRNA: 3'- -UGCUCGUUCCGUCGUAGUGGCGGUUU- -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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