miRNA: 3'- -CCAUGGCaCU-GCCG-------GGUUAGcUACCU- -5'
miRNA: 3'- -CCAUGGCAc---UgCCGGG-UUAGCuaCCU- -5'
miRNA: 3'- -CCAUgGCACU-GCCGGGUUa----------GCUACCU- -5'
miRNA: 3'- -CCAUGGCACUGCCGGGUUAGCUACCU- -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 | |||||||
| 7617 | 3' | -53.9 | NC_001964.1 | + | 2201 | 0.67 | 0.157401 |
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Target: 5'- cGGUGCCG-GGcCGGCuucaucgCCGGUC-AUGGAg -3' miRNA: 3'- -CCAUGGCaCU-GCCG-------GGUUAGcUACCU- -5' |
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| 7617 | 3' | -53.9 | NC_001964.1 | + | 1886 | 0.69 | 0.10943 |
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Target: 5'- cGGUACCGUucguAgGGCCCuGGUCGccGGGg -3' miRNA: 3'- -CCAUGGCAc---UgCCGGG-UUAGCuaCCU- -5' |
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| 7617 | 3' | -53.9 | NC_001964.1 | + | 2408 | 0.7 | 0.08924 |
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Target: 5'- uGGUG-CGUGGuCGGCCCGAggggcggaccaCGGUGGGc -3' miRNA: 3'- -CCAUgGCACU-GCCGGGUUa----------GCUACCU- -5' |
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| 7617 | 3' | -53.9 | NC_001964.1 | + | 2104 | 1.11 | 3.1e-05 |
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Target: 5'- cGGUACCGUGACGGCCCAAUCGAUGGAc -3' miRNA: 3'- -CCAUGGCACUGCCGGGUUAGCUACCU- -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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