miRNA: 3'- -AUgUUUCUAGG-CaUGGUCA---CAGGUGU- -5'
miRNA: 3'- aUGUUUCUAGGCAUg----GUCaca----GGUGu -5'
miRNA: 3'- aUGUU-UCUAGGCA---UGGUCACaGGUGU- -5'
miRNA: 3'- aUGUUUCUAGG-CAUGGUCAcAGgUGU- -5'
miRNA: 3'- -AUGUUUCUAGGcaUGGUCACAGGUGU- -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 | |||||||
| 32293 | 5' | -49.7 | NC_007023.1 | + | 166571 | 0.66 | 0.998115 |
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Target: 5'- cUGgAAAGAUCCaGcACCAGUugcGUUCACAa -3' miRNA: 3'- -AUgUUUCUAGG-CaUGGUCA---CAGGUGU- -5' |
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| 32293 | 5' | -49.7 | NC_007023.1 | + | 81003 | 0.66 | 0.997744 |
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Target: 5'- cACGAAGAUCCGUGaagaaCAGguuaacgCCGCu -3' miRNA: 3'- aUGUUUCUAGGCAUg----GUCaca----GGUGu -5' |
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| 32293 | 5' | -49.7 | NC_007023.1 | + | 32843 | 0.67 | 0.994026 |
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Target: 5'- aACAGcAGAUCCGUgaaACUGGUGaUCGCAa -3' miRNA: 3'- aUGUU-UCUAGGCA---UGGUCACaGGUGU- -5' |
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| 32293 | 5' | -49.7 | NC_007023.1 | + | 136263 | 0.72 | 0.933075 |
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Target: 5'- cGCGAAGAUCCuGUGCCAGU-UCaACAg -3' miRNA: 3'- aUGUUUCUAGG-CAUGGUCAcAGgUGU- -5' |
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| 32293 | 5' | -49.7 | NC_007023.1 | + | 142019 | 0.91 | 0.145617 |
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Target: 5'- gUACAAAGAUCCugACCAGUGUCCACAc -3' miRNA: 3'- -AUGUUUCUAGGcaUGGUCACAGGUGU- -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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