miRNA: 3'- cuaCCGGUUGAgGCCGCUGGAGCaag -5'
miRNA: 3'- -CUACCGGUUGAGGcCGCu--GGAGCAaG- -5'
miRNA: 3'- cuACCGGUUGa------GGCCGCUGGAGCaag -5'
miRNA: 3'- -CUACCGGUUGAGGCCGCUGGAGCAAG- -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 | |||||||
| 16449 | 3' | -56.4 | NC_004084.1 | + | 39797 | 0.76 | 0.183637 |
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Target: 5'- --cGGCCAACU-CGGCGACUUCGa-- -3' miRNA: 3'- cuaCCGGUUGAgGCCGCUGGAGCaag -5' |
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| 16449 | 3' | -56.4 | NC_004084.1 | + | 18193 | 0.76 | 0.183637 |
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Target: 5'- gGAUGGCCAGCUUCcGCGucuCCUCGUcCa -3' miRNA: 3'- -CUACCGGUUGAGGcCGCu--GGAGCAaG- -5' |
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| 16449 | 3' | -56.4 | NC_004084.1 | + | 9714 | 0.77 | 0.15195 |
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Target: 5'- -uUGGCCGACgccgaugCCGGCGGCUUCGa-- -3' miRNA: 3'- cuACCGGUUGa------GGCCGCUGGAGCaag -5' |
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| 16449 | 3' | -56.4 | NC_004084.1 | + | 40183 | 1.1 | 0.000719 |
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Target: 5'- gGAUGGCCAACUCCGGCGACCUCGUUCa -3' miRNA: 3'- -CUACCGGUUGAGGCCGCUGGAGCAAG- -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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