miRNA: 3'- uuaaacuuaaCuuUuCGCCGGUAGGc -5'
miRNA: 3'- uuaaaCUuaaCuuUuCGCCGGUAGGc -5'
miRNA: 3'- uuaaaCUuaaCuuUuCGCCGGUAGGC- -5'
miRNA: 3'- -UUAAACUUAACUUUUCGCCGGUAGGC- -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 | |||||||
| 7506 | 3' | -44.9 | NC_001933.1 | + | 238 | 0.67 | 0.284108 |
|
Target: 5'- ---------gGggGcGCGGCCAUCCa -3' miRNA: 3'- uuaaacuuaaCuuUuCGCCGGUAGGc -5' |
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| 7506 | 3' | -44.9 | NC_001933.1 | + | 201 | 0.69 | 0.205171 |
|
Target: 5'- ----aGAgg-GggGcGCGGCCAUCCa -3' miRNA: 3'- uuaaaCUuaaCuuUuCGCCGGUAGGc -5' |
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| 7506 | 3' | -44.9 | NC_001933.1 | + | 160 | 0.73 | 0.106855 |
|
Target: 5'- ----aGAgg-GggGcGCGGCCAUCCGg -3' miRNA: 3'- uuaaaCUuaaCuuUuCGCCGGUAGGC- -5' |
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| 7506 | 3' | -44.9 | NC_001933.1 | + | 100 | 1.07 | 0.000184 |
|
Target: 5'- uAAUUUGAAUUGAAAAGCGGCCAUCCGu -3' miRNA: 3'- -UUAAACUUAACUUUUCGCCGGUAGGC- -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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