miRNA: 3'- cuUCGGggAUGAugua----ACGCUCGAGG- -5'
miRNA: 3'- cuUCGgGGaUGAugUAACGCUCG-AGG- -5'
miRNA: 3'- -CUUC-GGGGaUGAUGUAACGCuCGAGG- -5'
miRNA: 3'- -CUUCGGGGAUGAUGUAACGCUCGAGG- -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 | |||||||
| 15261 | 3' | -52.3 | NC_003839.1 | + | 1138 | 0.67 | 0.240494 |
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Target: 5'- -uGGCUuuUGCUcuuuaaaaUGCGAGCUCCa -3' miRNA: 3'- cuUCGGggAUGAugua----ACGCUCGAGG- -5' |
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| 15261 | 3' | -52.3 | NC_003839.1 | + | 1423 | 0.68 | 0.19884 |
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Target: 5'- -uGGCgUUaGCUugAUUGCGAGCgUCCu -3' miRNA: 3'- cuUCGgGGaUGAugUAACGCUCG-AGG- -5' |
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| 15261 | 3' | -52.3 | NC_003839.1 | + | 2991 | 0.76 | 0.047771 |
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Target: 5'- aGAGGaUCCC-AUUACAUUGCGcGCUCCu -3' miRNA: 3'- -CUUC-GGGGaUGAUGUAACGCuCGAGG- -5' |
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| 15261 | 3' | -52.3 | NC_003839.1 | + | 2922 | 1.13 | 0.000046 |
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Target: 5'- gGAAGCCCCUACUACAUUGCGAGCUCCa -3' miRNA: 3'- -CUUCGGGGAUGAUGUAACGCUCGAGG- -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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