miRNA: 3'- -GCUGGACCugC-ACGUU-----UACCa--------ACAUA- -5'
miRNA: 3'- -GCUGGACCUgcaCGUuUACCAACAua -5'
miRNA: 3'- -GCUGGACCuGC-----------ACGUUUAC-CAACAUa -5'
miRNA: 3'- -GCUGgACCUGCACGUUuaCCAACAua -5'
miRNA: 3'- -GCUGGACCUGCACGUUUACCAACAUA- -5'
Results 1 - 5 of 5 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 | |||||||
| 29345 | 3' | -49.8 | NC_006150.1 | + | 123408 | 0.66 | 0.999395 |
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Target: 5'- aUGACCUGGugGuUGCAGuuaucAUGGccacauaccUGUGUg -3' miRNA: 3'- -GCUGGACCugC-ACGUU-----UACCa--------ACAUA- -5' |
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| 29345 | 3' | -49.8 | NC_006150.1 | + | 171244 | 0.66 | 0.999255 |
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Target: 5'- gCGGCCUGGGuaaGCA-GUGGUUGUu- -3' miRNA: 3'- -GCUGGACCUgcaCGUuUACCAACAua -5' |
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| 29345 | 3' | -49.8 | NC_006150.1 | + | 2418 | 0.69 | 0.99199 |
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Target: 5'- uCGGCCUGG-CGgcuggugccguUGCGGGUGuGUUGUGc -3' miRNA: 3'- -GCUGGACCuGC-----------ACGUUUAC-CAACAUa -5' |
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| 29345 | 3' | -49.8 | NC_006150.1 | + | 187067 | 0.76 | 0.804022 |
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Target: 5'- uCGGCaUGGAUGUGCAAggGGUUGUu- -3' miRNA: 3'- -GCUGgACCUGCACGUUuaCCAACAua -5' |
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| 29345 | 3' | -49.8 | NC_006150.1 | + | 186774 | 1.08 | 0.01819 |
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Target: 5'- aCGACCUGGACGUGCAAAUGGUUGUAUg -3' miRNA: 3'- -GCUGGACCUGCACGUUUACCAACAUA- -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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