miRNA: 3'- -AGUGCCUUCAGGAG---UUCCUgcaacaa -5'
miRNA: 3'- aGUGcCUUCAGGAGUUCCUg---------CAACaa -5'
miRNA: 3'- -AGUGCCU---UCAG-G-----------AGUUCCUGCAACAA- -5'
miRNA: 3'- aGUGCCUUCAGGAg-UUCCUG-C-AACAa -5'
miRNA: 3'- -AGUGCCUUCAGGAGUUCCUGCAACAA- -5'
Results 1 - 5 of 5 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 | |||||||
| 17968 | 3' | -51 | NC_004665.1 | + | 7155 | 0.67 | 0.7802 |
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Target: 5'- cUCACGGAAGUUCUCcuuGAGGAa------ -3' miRNA: 3'- -AGUGCCUUCAGGAG---UUCCUgcaacaa -5' |
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| 17968 | 3' | -51 | NC_004665.1 | + | 29047 | 0.67 | 0.75862 |
|
Target: 5'- cCAUuGAAGUCCUCAAGGGaaucaucggaGUUGa- -3' miRNA: 3'- aGUGcCUUCAGGAGUUCCUg---------CAACaa -5' |
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| 17968 | 3' | -51 | NC_004665.1 | + | 6345 | 0.72 | 0.494575 |
|
Target: 5'- cUCACGGAgccAGUCgCuguacucggagUCGGGGAUGUUGUUg -3' miRNA: 3'- -AGUGCCU---UCAG-G-----------AGUUCCUGCAACAA- -5' |
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| 17968 | 3' | -51 | NC_004665.1 | + | 30953 | 0.75 | 0.336051 |
|
Target: 5'- gCACGGGAGUCCUgaGAGGACaGcUUGUa -3' miRNA: 3'- aGUGCCUUCAGGAg-UUCCUG-C-AACAa -5' |
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| 17968 | 3' | -51 | NC_004665.1 | + | 3637 | 1.07 | 0.002255 |
|
Target: 5'- cUCACGGAAGUCCUCAAGGACGUUGUUg -3' miRNA: 3'- -AGUGCCUUCAGGAGUUCCUGCAACAA- -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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