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miRNA: 3'- -AAUCUGCAugAUAAGuAUUAG-CAUGu -5'
miRNA: 3'- aaUCugCaUGAUAA-----------GUAUUAGCAUGu -5'
miRNA: 3'- aaUCUGCAUGAUa--AGUAUUAGca-----UGU- -5'
miRNA: 3'- -AAUCUGCAUGAUAAGUAUUAGCAUGU- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 27394 | 5' | -41.1 | NC_005859.1 | + | 53957 | 0.66 | 1 |
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Target: 5'- cUUAGAUGUugUAUUU-UGAUCuGUGCu -3' miRNA: 3'- -AAUCUGCAugAUAAGuAUUAG-CAUGu -5' |
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| 27394 | 5' | -41.1 | NC_005859.1 | + | 49284 | 0.68 | 1 |
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Target: 5'- -cAGugGaGCUAUUuugaagaccugCAUAGUCGUGCu -3' miRNA: 3'- aaUCugCaUGAUAA-----------GUAUUAGCAUGu -5' |
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| 27394 | 5' | -41.1 | NC_005859.1 | + | 98157 | 0.7 | 0.999995 |
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Target: 5'- -aAGACGUACUAgcgUCAUAGUUagagaggGCAu -3' miRNA: 3'- aaUCUGCAUGAUa--AGUAUUAGca-----UGU- -5' |
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| 27394 | 5' | -41.1 | NC_005859.1 | + | 98260 | 1.09 | 0.074852 |
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Target: 5'- cUUAGACGUACUAUUCAUAAUCGUACAa -3' miRNA: 3'- -AAUCUGCAUGAUAAGUAUUAGCAUGU- -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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