miRNA: 3'- uCgCU-UUUGGUGCauuaUCACCGUGa -5'
miRNA: 3'- -UCGCUU--UUGGUGCAU-------------UauCACCGUGa -5'
miRNA: 3'- -UCGCUuuUGgUGCA-UUAUCaCCGUGA- -5'
miRNA: 3'- -UCGCuuUUGGUGCAUUAUCACCgUGa -5'
miRNA: 3'- -UCGCUUUUGGUGCAUUAUCACCGUGA- -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 | |||||||
| 31958 | 3' | -47.7 | NC_006944.1 | + | 13978 | 0.66 | 0.755439 |
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Target: 5'- cGgGAgGAACCACGc---GGUGGCGCc -3' miRNA: 3'- uCgCU-UUUGGUGCauuaUCACCGUGa -5' |
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| 31958 | 3' | -47.7 | NC_006944.1 | + | 1740 | 0.68 | 0.653866 |
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Target: 5'- aAGUGAAguAGCCGCGUAuuugaauucuaacGgcGUGGUACg -3' miRNA: 3'- -UCGCUU--UUGGUGCAU-------------UauCACCGUGa -5' |
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| 31958 | 3' | -47.7 | NC_006944.1 | + | 10000 | 0.68 | 0.6423 |
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Target: 5'- cGGCGGucGCgAUGUaGAUAG-GGCGCUa -3' miRNA: 3'- -UCGCUuuUGgUGCA-UUAUCaCCGUGA- -5' |
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| 31958 | 3' | -47.7 | NC_006944.1 | + | 7393 | 0.75 | 0.28523 |
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Target: 5'- uGGCGcuGAUUACGUAGUAGUGGaGCg -3' miRNA: 3'- -UCGCuuUUGGUGCAUUAUCACCgUGa -5' |
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| 31958 | 3' | -47.7 | NC_006944.1 | + | 7308 | 1.08 | 0.001292 |
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Target: 5'- uAGCGAAAACCACGUAAUAGUGGCACUu -3' miRNA: 3'- -UCGCUUUUGGUGCAUUAUCACCGUGA- -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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