miRNA: 3'- -UUGAUGACGUUGACGGCGGCACUCGC- -5'
miRNA: 3'- -UUGa--UGACGU---UGACGGCGGC----ACu-CGc -5'
miRNA: 3'- uuGAUGACGuUGACGGCGGCaCUCgC- -5'
miRNA: 3'- uUGAUGACgUUGaCGGCGGCa-------------CUCGC- -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 |
| Predicted miRNA align pattern | |||||||
| 715 | 5' | -55.8 | AC_000019.1 | + | 10728 | 1.07 | 0.000514 |
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Target: 5'- cAACUACUGCAACUGCCGCCGUGAGCGg -3' miRNA: 3'- -UUGAUGACGUUGACGGCGGCACUCGC- -5' |
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| 715 | 5' | -55.8 | AC_000019.1 | + | 3654 | 0.67 | 0.448462 |
|
Target: 5'- gGACgcaGCUGCAgccGCUGCCGCCGccucUGucGCc -3' miRNA: 3'- -UUGa--UGACGU---UGACGGCGGC----ACu-CGc -5' |
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| 715 | 5' | -55.8 | AC_000019.1 | + | 10743 | 0.7 | 0.287099 |
|
Target: 5'- -gUUGCUGCuGCUGCUGCUGcGAGgGg -3' miRNA: 3'- uuGAUGACGuUGACGGCGGCaCUCgC- -5' |
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| 715 | 5' | -55.8 | AC_000019.1 | + | 25892 | 0.74 | 0.162551 |
|
Target: 5'- uACUGCUGgGAC-GCCGCCGgguuccucgacucgGAGCGg -3' miRNA: 3'- uUGAUGACgUUGaCGGCGGCa-------------CUCGC- -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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