miRNA: 3'- -UCUCCGgCACCacaUGCACGAC-UGUG- -5'
miRNA: 3'- -UCUCCG----------GCACCACAuGCACgACUGUG- -5'
miRNA: 3'- ucUCCGGCAcc-ACAUGc---ACGACUGUG- -5'
miRNA: 3'- -UCuCCGG-CACC--ACAUGCaCGACUGug -5'
miRNA: 3'- -UCUCCGGCACCACAUGCACGACUGUG- -5'
Results 1 - 5 of 5 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 | |||||||
| 13297 | 3' | -55.9 | NC_003409.1 | + | 73641 | 0.66 | 0.891207 |
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Target: 5'- aAGGGGCgGUGG---AUGUGUUGuACACc -3' miRNA: 3'- -UCUCCGgCACCacaUGCACGAC-UGUG- -5' |
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| 13297 | 3' | -55.9 | NC_003409.1 | + | 46322 | 0.66 | 0.869763 |
|
Target: 5'- cGGGGGCgugcggcgugCGUGGUGU-CGUG-UGAUGCu -3' miRNA: 3'- -UCUCCG----------GCACCACAuGCACgACUGUG- -5' |
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| 13297 | 3' | -55.9 | NC_003409.1 | + | 116610 | 0.66 | 0.86217 |
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Target: 5'- -aAGGCCGUuucUGUGCuugcUGCUGACGCu -3' miRNA: 3'- ucUCCGGCAcc-ACAUGc---ACGACUGUG- -5' |
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| 13297 | 3' | -55.9 | NC_003409.1 | + | 52148 | 0.69 | 0.73696 |
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Target: 5'- gGGuGGCCuGUGGcgUGUGCGcGCUGGCc- -3' miRNA: 3'- -UCuCCGG-CACC--ACAUGCaCGACUGug -5' |
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| 13297 | 3' | -55.9 | NC_003409.1 | + | 43675 | 1.08 | 0.002625 |
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Target: 5'- cAGAGGCCGUGGUGUACGUGCUGACACc -3' miRNA: 3'- -UCUCCGGCACCACAUGCACGACUGUG- -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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