miRNA: 3'- -AGUUGA-----UGGGUUgC-UAGUGGC---GCUGC- -5'
miRNA: 3'- -AGU----UGAUGGGuUGCUaGUGGC-GCUGC- -5'
miRNA: 3'- aGUUGAUGGGUUgCUAGU--GGCGC-UGC- -5'
miRNA: 3'- -AGUUGaUGGG--UUGCUAGUGgCGCUGC- -5'
miRNA: 3'- -AGUUGAUGGGUUGCUAGUGGCGCUGC- -5'
Results 21 - 25 of 25 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 | |||||||
| 22331 | 5' | -51.7 | NC_005045.1 | + | 26960 | 0.71 | 0.590696 |
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Target: 5'- uUCAACUucgucACCCGAgGcAUCACCGgcaUGACGa -3' miRNA: 3'- -AGUUGA-----UGGGUUgC-UAGUGGC---GCUGC- -5' |
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| 22331 | 5' | -51.7 | NC_005045.1 | + | 6332 | 0.74 | 0.429681 |
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Target: 5'- gUCAgcacACUGCCC-ACGA-CGCCGcCGGCGa -3' miRNA: 3'- -AGU----UGAUGGGuUGCUaGUGGC-GCUGC- -5' |
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| 22331 | 5' | -51.7 | NC_005045.1 | + | 30966 | 0.75 | 0.354935 |
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Target: 5'- cCGACUGCCUGGgGAUCAacCCGCGuGCGg -3' miRNA: 3'- aGUUGAUGGGUUgCUAGU--GGCGC-UGC- -5' |
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| 22331 | 5' | -51.7 | NC_005045.1 | + | 17089 | 0.76 | 0.305187 |
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Target: 5'- gUCGAUcACCUugAACGGUCGCgGCGGCGg -3' miRNA: 3'- -AGUUGaUGGG--UUGCUAGUGgCGCUGC- -5' |
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| 22331 | 5' | -51.7 | NC_005045.1 | + | 18302 | 1.11 | 0.001474 |
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Target: 5'- aUCAACUACCCAACGAUCACCGCGACGa -3' miRNA: 3'- -AGUUGAUGGGUUGCUAGUGGCGCUGC- -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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