miRNA: 3'- -UUCGuu--UUAU--ACCCGGuuguCCGGGU- -5'
miRNA: 3'- -UUCguuUUAUACCC-GGUUG----UCCGGGU- -5'
miRNA: 3'- uUCGuuuUAUACCCGGuu-----GUCCGGGU- -5'
miRNA: 3'- -UUCGUUUUAUACCCGGUUGUCCGGGU- -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 | |||||||
| 17741 | 5' | -52.2 | NC_004625.1 | + | 503 | 0.67 | 0.076015 |
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Target: 5'- uGGGCuuccGAUAcaUGGGCCuguuGGCCCAu -3' miRNA: 3'- -UUCGuu--UUAU--ACCCGGuuguCCGGGU- -5' |
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| 17741 | 5' | -52.2 | NC_004625.1 | + | 1975 | 0.7 | 0.04091 |
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Target: 5'- gAAGac-GAUGUGGGcCCGAUcucuGGGCCCAc -3' miRNA: 3'- -UUCguuUUAUACCC-GGUUG----UCCGGGU- -5' |
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| 17741 | 5' | -52.2 | NC_004625.1 | + | 1936 | 0.72 | 0.026579 |
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Target: 5'- uAGUu--AUGUGGGCCcagagauCGGGCCCAc -3' miRNA: 3'- uUCGuuuUAUACCCGGuu-----GUCCGGGU- -5' |
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| 17741 | 5' | -52.2 | NC_004625.1 | + | 460 | 1.07 | 1.9e-05 |
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Target: 5'- gAAGCAAAAUAUGGGCCAACAGGCCCAu -3' miRNA: 3'- -UUCGUUUUAUACCCGGUUGUCCGGGU- -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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