miRNA: 3'- -AGGGCUGUGCgCGUAGUUaucCCG-GU- -5'
miRNA: 3'- -AGGGCUGUg--CGCGUAGUU-------------AUCcCGGU- -5'
miRNA: 3'- aGGGCUgu-----GCGCGUAGUUaUCCCGGU- -5'
miRNA: 3'- aGGGCUGUGCGCguaGUUAUCCCGGu -5'
miRNA: 3'- -AGGGCUGUGCGCGUAGUUAUCCCGGU- -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 | |||||||
| 16674 | 3' | -56 | NC_004156.1 | + | 102210 | 0.68 | 0.90553 |
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Target: 5'- uUUCCGACAUGgGCAUCGAa--GGCuCAa -3' miRNA: 3'- -AGGGCUGUGCgCGUAGUUaucCCG-GU- -5' |
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| 16674 | 3' | -56 | NC_004156.1 | + | 68522 | 0.7 | 0.825346 |
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Target: 5'- aUCCCGGCAacgGUGCAUCAAagagcacucagacUAGuGCCAg -3' miRNA: 3'- -AGGGCUGUg--CGCGUAGUU-------------AUCcCGGU- -5' |
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| 16674 | 3' | -56 | NC_004156.1 | + | 86259 | 0.72 | 0.697571 |
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Target: 5'- gCCUGAagcuuuuCGCGUAUCAA-AGGGCCGa -3' miRNA: 3'- aGGGCUgu-----GCGCGUAGUUaUCCCGGU- -5' |
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| 16674 | 3' | -56 | NC_004156.1 | + | 14558 | 0.74 | 0.607958 |
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Target: 5'- gUCCGAUAUGCGaaaCGGUAGGGCCc -3' miRNA: 3'- aGGGCUGUGCGCguaGUUAUCCCGGu -5' |
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| 16674 | 3' | -56 | NC_004156.1 | + | 84469 | 1.09 | 0.004297 |
|
Target: 5'- cUCCCGACACGCGCAUCAAUAGGGCCAa -3' miRNA: 3'- -AGGGCUGUGCGCGUAGUUAUCCCGGU- -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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