miRNA: 3'- aCUG-CUUAGUUUCGU--UCACCGuAGGu -5'
miRNA: 3'- acuGCUUAgUUUCGUUCACCGuaGGu -5'
miRNA: 3'- -ACUGCuuAGUUUCGuucACCGUAgGu -5'
miRNA: 3'- aCugCuua-GUUUCGU---UCACCGUAGGu -5'
miRNA: 3'- -ACUGCUUAGUUUCGUUCACCGUAGGU- -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 | |||||||
| 6186 | 5' | -48.2 | NC_001837.1 | + | 6693 | 0.66 | 0.584339 |
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Target: 5'- aGACuGGAUUGAGGCGuuGGUGGUcUCUg -3' miRNA: 3'- aCUG-CUUAGUUUCGU--UCACCGuAGGu -5' |
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| 6186 | 5' | -48.2 | NC_001837.1 | + | 9496 | 0.66 | 0.571107 |
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Target: 5'- --uCGGAU-AGAGCGGGUGGCggCCu -3' miRNA: 3'- acuGCUUAgUUUCGUUCACCGuaGGu -5' |
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| 6186 | 5' | -48.2 | NC_001837.1 | + | 7383 | 0.67 | 0.531909 |
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Target: 5'- cUGACGuuUCAAGGCu--UGGCAUgCu -3' miRNA: 3'- -ACUGCuuAGUUUCGuucACCGUAgGu -5' |
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| 6186 | 5' | -48.2 | NC_001837.1 | + | 1106 | 0.72 | 0.255489 |
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Target: 5'- aGugGugggCGAGGCAcagGGUGGCAUCUu -3' miRNA: 3'- aCugCuua-GUUUCGU---UCACCGUAGGu -5' |
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| 6186 | 5' | -48.2 | NC_001837.1 | + | 8405 | 1.1 | 0.000395 |
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Target: 5'- uUGACGAAUCAAAGCAAGUGGCAUCCAc -3' miRNA: 3'- -ACUGCUUAGUUUCGUUCACCGUAGGU- -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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