miRNA: 3'- aC-GUCU-CCCGCuGCAGCU----CugCUAGc -5'
miRNA: 3'- aCGuCU--CCCGCUGCa----GCUCUGCUAGc -5'
miRNA: 3'- aCGUCU-C-CCGC---------UGC-AGCUCUGCUAGc -5'
miRNA: 3'- -ACGUCUCCCGCUGCAGCUCUGCUAGC- -5'
Results 41 - 44 of 44 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 16385 | 3' | -56.2 | NC_004084.1 | + | 43691 | 0.69 | 0.549447 |
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Target: 5'- cGaCGGAcGGGCG-CGUCGAcgaaGugGAUCa -3' miRNA: 3'- aC-GUCU-CCCGCuGCAGCU----CugCUAGc -5' |
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| 16385 | 3' | -56.2 | NC_004084.1 | + | 5345 | 0.69 | 0.549447 |
|
Target: 5'- cGCcGAgcGGGCGGCGaggacUGGGACGAUCu -3' miRNA: 3'- aCGuCU--CCCGCUGCa----GCUCUGCUAGc -5' |
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| 16385 | 3' | -56.2 | NC_004084.1 | + | 5195 | 0.69 | 0.528502 |
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Target: 5'- gGUAGAcGaGGCGgcaggcagcACGcUCGAGACGAUCa -3' miRNA: 3'- aCGUCU-C-CCGC---------UGC-AGCUCUGCUAGc -5' |
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| 16385 | 3' | -56.2 | NC_004084.1 | + | 8232 | 1.09 | 0.000962 |
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Target: 5'- uUGCAGAGGGCGACGUCGAGACGAUCGa -3' miRNA: 3'- -ACGUCUCCCGCUGCAGCUCUGCUAGC- -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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