miRNA: 3'- cUGCGGAuGCU--GGGGUAGAGCuuuua -5'
miRNA: 3'- cUGCGGAuGCUGGGGUAG--AGCUUUua -5'
miRNA: 3'- -CUGCGGAUGCUGGGGUaGaGCUuuua -5'
miRNA: 3'- cuGCGGaUGCUG-GGGU-AGAGCUUUUA- -5'
miRNA: 3'- -CUG-CGGAUGCUGGGguAGAGCuuUua -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 | |||||||
| 22141 | 3' | -52.1 | NC_004927.1 | + | 60494 | 0.66 | 0.915068 |
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Target: 5'- cACGCUU-CGAguCCCCAUCUCGc---- -3' miRNA: 3'- cUGCGGAuGCU--GGGGUAGAGCuuuua -5' |
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| 22141 | 3' | -52.1 | NC_004927.1 | + | 62259 | 0.66 | 0.894884 |
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Target: 5'- uGCGCUU-CGACCUCGUUguUCGAGAc- -3' miRNA: 3'- cUGCGGAuGCUGGGGUAG--AGCUUUua -5' |
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| 22141 | 3' | -52.1 | NC_004927.1 | + | 70354 | 0.69 | 0.771704 |
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Target: 5'- cGAUGCUUGCGGCCCCA-CaCGAc--- -3' miRNA: 3'- -CUGCGGAUGCUGGGGUaGaGCUuuua -5' |
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| 22141 | 3' | -52.1 | NC_004927.1 | + | 12496 | 0.71 | 0.697631 |
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Target: 5'- -cCGUCaGCGACuCCCAcUCUCGAAGGUa -3' miRNA: 3'- cuGCGGaUGCUG-GGGU-AGAGCUUUUA- -5' |
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| 22141 | 3' | -52.1 | NC_004927.1 | + | 54037 | 0.76 | 0.402067 |
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Target: 5'- aGACaGCCUGCGGCCCgcUCUCGggGc- -3' miRNA: 3'- -CUG-CGGAUGCUGGGguAGAGCuuUua -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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