miRNA: 3'- uuucUGGG---UCGuGU--UCCGACCCGGUu -5'
miRNA: 3'- -UUUCuGGGUCGUGuUCCGa-CCCGGuu -5'
miRNA: 3'- uuuCUGGG-UCGUGuUCCGACCCGguu -5'
miRNA: 3'- -UUUCUGGGUCGUGUUCCGACCCGGUU- -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 | |||||||
| 17515 | 3' | -58 | NC_004456.1 | + | 22421 | 0.66 | 0.386449 |
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Target: 5'- ---cACCCcuuAGC-CAgcAGGCUGGGCCGc -3' miRNA: 3'- uuucUGGG---UCGuGU--UCCGACCCGGUu -5' |
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| 17515 | 3' | -58 | NC_004456.1 | + | 30432 | 0.67 | 0.333373 |
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Target: 5'- aAAAGcCCCGGCAC-AGGCcaGGGCUu- -3' miRNA: 3'- -UUUCuGGGUCGUGuUCCGa-CCCGGuu -5' |
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| 17515 | 3' | -58 | NC_004456.1 | + | 28266 | 0.69 | 0.271228 |
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Target: 5'- --uGGCUCgAGCGCcGGGCUGGGCg-- -3' miRNA: 3'- uuuCUGGG-UCGUGuUCCGACCCGguu -5' |
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| 17515 | 3' | -58 | NC_004456.1 | + | 38400 | 1.04 | 0.000582 |
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Target: 5'- aAAAGACCCAGCACAAGGCUGGGCCAAa -3' miRNA: 3'- -UUUCUGGGUCGUGUUCCGACCCGGUU- -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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