miRNA: 3'- gcaACGGcUUGCUG-----GGGAGugGAUGU- -5'
miRNA: 3'- gCAaCGGCUUgCUGGGGAG------UGGa-UGU- -5'
miRNA: 3'- -GCAACGGCu----UGCUG-GGGaGugGAUGu -5'
miRNA: 3'- -GCAACGGCUUGCUGGGGAGUGGAUGU- -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 | |||||||
| 14707 | 3' | -54.7 | NC_003529.1 | + | 105615 | 0.66 | 0.950021 |
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Target: 5'- --aUGCCcAAUGGCuuuaaCCCUCugCUACAa -3' miRNA: 3'- gcaACGGcUUGCUG-----GGGAGugGAUGU- -5' |
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| 14707 | 3' | -54.7 | NC_003529.1 | + | 165 | 0.66 | 0.936443 |
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Target: 5'- aGUgGCCGAG-GACCCCUUcuugggACCggGCAa -3' miRNA: 3'- gCAaCGGCUUgCUGGGGAG------UGGa-UGU- -5' |
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| 14707 | 3' | -54.7 | NC_003529.1 | + | 76410 | 0.68 | 0.902845 |
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Target: 5'- cCGUUGCUGcuccuGCGGCgCCCgCugCUGCu -3' miRNA: 3'- -GCAACGGCu----UGCUG-GGGaGugGAUGu -5' |
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| 14707 | 3' | -54.7 | NC_003529.1 | + | 86996 | 1.1 | 0.003827 |
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Target: 5'- aCGUUGCCGAACGACCCCUCACCUACAa -3' miRNA: 3'- -GCAACGGCUUGCUGGGGAGUGGAUGU- -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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