miRNA: 3'- -GAAGU------ACCCUGAgUUU---UCAUUUGuuc -5'
miRNA: 3'- gAAGuaCCcuGAGUUUUCAUUugUUc -5'
miRNA: 3'- -GAAGUa--CCCUGa--GUUUUCauUUGUUC- -5'
miRNA: 3'- -GAAGUACCCUGAGUUUUCAUUUGUUC- -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 | |||||||
| 32301 | 3' | -41.9 | NC_007024.1 | + | 15336 | 0.68 | 0.999864 |
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Target: 5'- uCUUCAcggaacUGGGACUgGAAuccAGUGGACu-- -3' miRNA: 3'- -GAAGU------ACCCUGAgUUU---UCAUUUGuuc -5' |
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| 32301 | 3' | -41.9 | NC_007024.1 | + | 48121 | 0.68 | 0.999683 |
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Target: 5'- gUUCcgGGuuCUCAAGAGUGAugGGa -3' miRNA: 3'- gAAGuaCCcuGAGUUUUCAUUugUUc -5' |
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| 32301 | 3' | -41.9 | NC_007024.1 | + | 30046 | 0.7 | 0.998644 |
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Target: 5'- gCUUCGaggGGGACgugUAAGAGgaGGCAGGu -3' miRNA: 3'- -GAAGUa--CCCUGa--GUUUUCauUUGUUC- -5' |
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| 32301 | 3' | -41.9 | NC_007024.1 | + | 8287 | 1.13 | 0.016208 |
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Target: 5'- cCUUCAUGGGACUCAAAAGUAAACAAGg -3' miRNA: 3'- -GAAGUACCCUGAGUUUUCAUUUGUUC- -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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