miRNA: 3'- -GGUGUCCGcAGuGUUGUGACgAGAga -5'
miRNA: 3'- -GGUGuCCGCAgUGUUGUgACGAGaGa -5'
miRNA: 3'- gGuGUCCGCAGUGUUGugACGagaga -5'
miRNA: 3'- -GGUGUCCGCAGUGUUGUGACGAGAGA- -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
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| Predicted miRNA align pattern | |||||||
| 21951 | 5' | -53.1 | NC_004913.1 | + | 30712 | 0.66 | 0.819699 |
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Target: 5'- cCCGCAGGCuUUuCAGCAUUGgUCUg- -3' miRNA: 3'- -GGUGUCCGcAGuGUUGUGACgAGAga -5' |
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| 21951 | 5' | -53.1 | NC_004913.1 | + | 23782 | 0.67 | 0.810249 |
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Target: 5'- uCCGCuGGUGUgACAACA-UGCUC-Ca -3' miRNA: 3'- -GGUGuCCGCAgUGUUGUgACGAGaGa -5' |
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| 21951 | 5' | -53.1 | NC_004913.1 | + | 19330 | 0.68 | 0.739379 |
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Target: 5'- gC-CGGGUGUCGCAACugUGCa---- -3' miRNA: 3'- gGuGUCCGCAGUGUUGugACGagaga -5' |
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| 21951 | 5' | -53.1 | NC_004913.1 | + | 54271 | 1.09 | 0.001722 |
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Target: 5'- gCCACAGGCGUCACAACACUGCUCUCUu -3' miRNA: 3'- -GGUGUCCGCAGUGUUGUGACGAGAGA- -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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