miRNA: 3'- -ACCGuAAGGCGuaACGGUUUUag-UAC- -5'
miRNA: 3'- -ACCGuaa-GGCGua--------ACG-GUUUUAGUAC- -5'
miRNA: 3'- -ACCGUaaggCGUAACGGuUUUAgUAC- -5'
miRNA: 3'- -ACCGUAAGGCGUaACGgU--UUUAgUAC- -5'
miRNA: 3'- -ACCGUAAGGCGUAACGGUUUUAGUAC- -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 | |||||||
| 12290 | 3' | -47 | NC_003313.1 | + | 25637 | 0.66 | 0.934543 |
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Target: 5'- gUGGC-UUUCGCcgUGCCGGGAauaAUGc -3' miRNA: 3'- -ACCGuAAGGCGuaACGGUUUUag-UAC- -5' |
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| 12290 | 3' | -47 | NC_003313.1 | + | 8802 | 0.68 | 0.857768 |
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Target: 5'- gUGGCuuggCCGCuuagucaaagUGCgCAAAAUCAUGc -3' miRNA: 3'- -ACCGuaa-GGCGua--------ACG-GUUUUAGUAC- -5' |
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| 12290 | 3' | -47 | NC_003313.1 | + | 16906 | 0.7 | 0.80786 |
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Target: 5'- cUGGCAga--GCAUUGCCcAAGUgAUGg -3' miRNA: 3'- -ACCGUaaggCGUAACGGuUUUAgUAC- -5' |
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| 12290 | 3' | -47 | NC_003313.1 | + | 7437 | 0.76 | 0.431471 |
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Target: 5'- uUGGCAUUCCGCAaUGCgGgcAAGUgGUGu -3' miRNA: 3'- -ACCGUAAGGCGUaACGgU--UUUAgUAC- -5' |
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| 12290 | 3' | -47 | NC_003313.1 | + | 8578 | 1.11 | 0.00232 |
|
Target: 5'- aUGGCAUUCCGCAUUGCCAAAAUCAUGg -3' miRNA: 3'- -ACCGUAAGGCGUAACGGUUUUAGUAC- -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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