miRNA: 3'- -GGUGAAG-CGUCCGGGcuucuACUAGG- -5'
miRNA: 3'- -GGUGAAGCGUCCGGG------------CU-------------UCUACUAgg -5'
miRNA: 3'- -GGUGaaGC-GUCCG--GGCUU-CUACUAGG- -5'
miRNA: 3'- -GGUGAAGCGUCCgGGCUUCUACUAGG- -5'
Results 21 - 24 of 24 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 | |||||||
| 18578 | 3' | -52.6 | NC_004682.1 | + | 3909 | 0.71 | 0.561529 |
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Target: 5'- cCCGCUUCgGCGGGCCUcau--UGAUCUg -3' miRNA: 3'- -GGUGAAG-CGUCCGGGcuucuACUAGG- -5' |
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| 18578 | 3' | -52.6 | NC_004682.1 | + | 32707 | 0.72 | 0.527832 |
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Target: 5'- gCCGCUUCGCGGGCCUucuuccgacccaGAccggccucggcguAGAUGGUg- -3' miRNA: 3'- -GGUGAAGCGUCCGGG------------CU-------------UCUACUAgg -5' |
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| 18578 | 3' | -52.6 | NC_004682.1 | + | 20203 | 0.72 | 0.518186 |
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Target: 5'- gCCGCgcUGuCGGGCgaCCGGAcGAUGAUCCa -3' miRNA: 3'- -GGUGaaGC-GUCCG--GGCUU-CUACUAGG- -5' |
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| 18578 | 3' | -52.6 | NC_004682.1 | + | 29926 | 1.02 | 0.005837 |
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Target: 5'- aCCACUUCGCAGG-CCGAAGAUGAUCCa -3' miRNA: 3'- -GGUGAAGCGUCCgGGCUUCUACUAGG- -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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