miRNA: 3'- -UCUGGcUCCaGUg---GCUCUUCGUGAag -5'
miRNA: 3'- uCU--GGCUCCAGUGGCU--CUu---CGUGAAG- -5'
miRNA: 3'- -UCUGGcu--CCAGUGGCuc-UUCGUGAAg -5'
miRNA: 3'- ucUGG-CUCCA-GUGGCUCUUCGUgaag -5'
Results 1 - 4 of 4 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 | |||||||
| 20886 | 5' | -53.9 | NC_004689.1 | + | 6576 | 0.66 | 0.821244 |
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Target: 5'- aAGACC-AGGcCGagaaUGAGAAGCACUa- -3' miRNA: 3'- -UCUGGcUCCaGUg---GCUCUUCGUGAag -5' |
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| 20886 | 5' | -53.9 | NC_004689.1 | + | 11885 | 0.66 | 0.811979 |
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Target: 5'- uGAuuUCGAGGUCGCUGGccGAccgcGCACUUCc -3' miRNA: 3'- uCU--GGCUCCAGUGGCU--CUu---CGUGAAG- -5' |
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| 20886 | 5' | -53.9 | NC_004689.1 | + | 44866 | 0.69 | 0.678455 |
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Target: 5'- cGGGCCugccGGUCACCGcuuGAGCACUUg -3' miRNA: 3'- -UCUGGcu--CCAGUGGCuc-UUCGUGAAg -5' |
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| 20886 | 5' | -53.9 | NC_004689.1 | + | 21660 | 0.69 | 0.678455 |
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Target: 5'- -uGCCgGAGGUcCACCGGGGAGCGu--- -3' miRNA: 3'- ucUGG-CUCCA-GUGGCUCUUCGUgaag -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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