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miRNA: 3'- -CAGUUCCUGUUGACCUAAAAGUGGUG- -5'
miRNA: 3'- caGUUCCUGUUGaCCUAAAAgUGG-UG- -5'
miRNA: 3'- caGUUCCuGUUGaCCUAAAAGuGGUg -5'
miRNA: 3'- -CAGu---UCCUG-UUGaCCUAaaAGUGGUG- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 28225 | 5' | -46.8 | NC_005891.1 | + | 33640 | 1.12 | 0.003111 |
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Target: 5'- gGUCAAGGACAACUGGAUUUUCACCACg -3' miRNA: 3'- -CAGUUCCUGUUGACCUAAAAGUGGUG- -5' |
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| 28225 | 5' | -46.8 | NC_005891.1 | + | 33669 | 0.69 | 0.894199 |
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Target: 5'- -gCAAGGGCGAUgGGAUUUUaGCCuACa -3' miRNA: 3'- caGUUCCUGUUGaCCUAAAAgUGG-UG- -5' |
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| 28225 | 5' | -46.8 | NC_005891.1 | + | 12836 | 0.68 | 0.935198 |
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Target: 5'- -gCGAGG-CGACgGGAUUUUCuCCAg -3' miRNA: 3'- caGUUCCuGUUGaCCUAAAAGuGGUg -5' |
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| 28225 | 5' | -46.8 | NC_005891.1 | + | 20100 | 0.66 | 0.9681 |
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Target: 5'- uGUCugacGGGACuGAC-GGAU--UCACCGCa -3' miRNA: 3'- -CAGu---UCCUG-UUGaCCUAaaAGUGGUG- -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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