miRNA: 3'- caUGCUGGCau---AGCACuaCu--UgGGCG- -5'
miRNA: 3'- caugCUGGCAUAGCAcUAcuUGGGCg -5'
miRNA: 3'- caUGCUGGCauaGCACU--ACU---------UGGGCG- -5'
miRNA: 3'- caUGCUGGcaua------GCACUACUUGGGCG- -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 | |||||||
| 30922 | 3' | -50.4 | NC_006552.1 | + | 55340 | 0.66 | 0.952198 |
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Target: 5'- -gGCGACCGcgacuUCGUGggGuucAgCCGCg -3' miRNA: 3'- caUGCUGGCau---AGCACuaCu--UgGGCG- -5' |
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| 30922 | 3' | -50.4 | NC_006552.1 | + | 17756 | 0.67 | 0.947666 |
|
Target: 5'- ---aGGCCGUGUCGUuAUucGCCCGa -3' miRNA: 3'- caugCUGGCAUAGCAcUAcuUGGGCg -5' |
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| 30922 | 3' | -50.4 | NC_006552.1 | + | 26763 | 0.67 | 0.942858 |
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Target: 5'- -aACGGCUGgucCGUGAccUGGcgcacagagGCCCGCa -3' miRNA: 3'- caUGCUGGCauaGCACU--ACU---------UGGGCG- -5' |
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| 30922 | 3' | -50.4 | NC_006552.1 | + | 56679 | 0.7 | 0.834126 |
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Target: 5'- -aACGACCucgacggggaCGUGGUGAACCUGUu -3' miRNA: 3'- caUGCUGGcaua------GCACUACUUGGGCG- -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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