miRNA: 3'- -AGAUUu-----GCAAACUAUUCCAGUA-CGgU- -5'
miRNA: 3'- aGAUUUGCAAACUAUUCCAgUaCGgU- -5'
miRNA: 3'- -AGAUuUGCAAACUAUUCCAGUAC-GGu -5'
miRNA: 3'- aGAUUU-GCAAACUAUUCCAGuACGGU- -5'
miRNA: 3'- -AGAUUUGCAAACUAUUCCAGUACGGU- -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 | |||||||
| 16318 | 5' | -43.7 | NC_004084.1 | + | 33576 | 0.69 | 0.993904 |
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Target: 5'- gUCUAAuaaaucUGUUUGAUAAGGUCGUaGUgAg -3' miRNA: 3'- -AGAUUu-----GCAAACUAUUCCAGUA-CGgU- -5' |
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| 16318 | 5' | -43.7 | NC_004084.1 | + | 4879 | 0.72 | 0.974778 |
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Target: 5'- gUUAGAUGUUUGAUAAGGUgAgGCgAg -3' miRNA: 3'- aGAUUUGCAAACUAUUCCAgUaCGgU- -5' |
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| 16318 | 5' | -43.7 | NC_004084.1 | + | 53576 | 0.79 | 0.702784 |
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Target: 5'- cUCUA-AUGUUUGAUAAGGUCAUGaCUc -3' miRNA: 3'- -AGAUuUGCAAACUAUUCCAGUAC-GGu -5' |
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| 16318 | 5' | -43.7 | NC_004084.1 | + | 31803 | 0.8 | 0.690977 |
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Target: 5'- aUUAGAgUGUUUGAUAAGGUC-UGCCGa -3' miRNA: 3'- aGAUUU-GCAAACUAUUCCAGuACGGU- -5' |
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| 16318 | 5' | -43.7 | NC_004084.1 | + | 24872 | 1.12 | 0.012104 |
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Target: 5'- cUCUAAACGUUUGAUAAGGUCAUGCCAg -3' miRNA: 3'- -AGAUUUGCAAACUAUUCCAGUACGGU- -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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