miRNA: 3'- caCACG--AAACUGUCuaaCGCACguCa -5'
miRNA: 3'- caCACGaaACUGuCUAACG-----CACGUCA- -5'
miRNA: 3'- -CACACga---AACUGUCUaaCGCACGUCa -5'
miRNA: 3'- -CACACGAAACUGUCUAACGCACGUCA- -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 | |||||||
| 16675 | 3' | -49.5 | NC_004156.1 | + | 150447 | 0.66 | 0.999289 |
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Target: 5'- -aGUGCagUUUGACGGcacGCGUGguGg -3' miRNA: 3'- caCACG--AAACUGUCuaaCGCACguCa -5' |
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| 16675 | 3' | -49.5 | NC_004156.1 | + | 143193 | 0.66 | 0.999126 |
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Target: 5'- -cGUGCg-UGGCcGGUUGCaaucgGUGCAGUa -3' miRNA: 3'- caCACGaaACUGuCUAACG-----CACGUCA- -5' |
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| 16675 | 3' | -49.5 | NC_004156.1 | + | 104620 | 0.68 | 0.99312 |
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Target: 5'- uGUGUGaagugUUGAUAGAcaGUGUGCGGa -3' miRNA: 3'- -CACACga---AACUGUCUaaCGCACGUCa -5' |
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| 16675 | 3' | -49.5 | NC_004156.1 | + | 90180 | 1.08 | 0.017659 |
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Target: 5'- cGUGUGCUUUGACAGAUUGCGUGCAGUc -3' miRNA: 3'- -CACACGAAACUGUCUAACGCACGUCA- -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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