miRNA: 3'- -GCuaUCGCGUCCUacacGCaGCACUU- -5'
miRNA: 3'- -GCUAUCGCGUCCuaCa---CGCa-----GCACUU- -5'
miRNA: 3'- -GCUA--UCGCGUCCuaCACGCaGCACUu -5'
miRNA: 3'- -GCUAUCGCGUCCUACACGCAGCACUU- -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 | |||||||
| 24031 | 3' | -53.5 | NC_005262.1 | + | 23575 | 0.66 | 0.795385 |
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Target: 5'- gCGcgGGCGCAGGAgau-CGcCGUGAAa -3' miRNA: 3'- -GCuaUCGCGUCCUacacGCaGCACUU- -5' |
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| 24031 | 3' | -53.5 | NC_005262.1 | + | 11707 | 0.67 | 0.75478 |
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Target: 5'- cCGAUGGUGCAGGggGcagaGCGggaucgUGUGGAa -3' miRNA: 3'- -GCUAUCGCGUCCuaCa---CGCa-----GCACUU- -5' |
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| 24031 | 3' | -53.5 | NC_005262.1 | + | 16990 | 0.7 | 0.579282 |
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Target: 5'- gCGGUgcGGUGCGGGcgGUGCGgUGUGGu -3' miRNA: 3'- -GCUA--UCGCGUCCuaCACGCaGCACUu -5' |
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| 24031 | 3' | -53.5 | NC_005262.1 | + | 31378 | 1.06 | 0.002579 |
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Target: 5'- gCGAUAGCGCAGGAUGUGCGUCGUGAAc -3' miRNA: 3'- -GCUAUCGCGUCCUACACGCAGCACUU- -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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