miRNA: 3'- uaaCUGGUCCAUGACCaccUUGa--GGU- -5'
miRNA: 3'- uaACUGGUCCaUGaCCac-CUUGAGGU- -5'
miRNA: 3'- uaACUGGUCCAuGA--CCACCUuGAGGU- -5'
miRNA: 3'- uaaCUGGUCCAuGACCACC-----UUGa---GGU- -5'
miRNA: 3'- -UAACUGGUCCAUGACCACCUUGAGGU- -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 | |||||||
| 23099 | 3' | -52.8 | NC_005178.1 | + | 16793 | 0.66 | 0.726959 |
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Target: 5'- --gGACCAGGUGCUGGcc-AGCcugCCGg -3' miRNA: 3'- uaaCUGGUCCAUGACCaccUUGa--GGU- -5' |
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| 23099 | 3' | -52.8 | NC_005178.1 | + | 23360 | 0.67 | 0.669643 |
|
Target: 5'- -aUGGCCAGGcGC-GGauuGAACUCCAg -3' miRNA: 3'- uaACUGGUCCaUGaCCac-CUUGAGGU- -5' |
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| 23099 | 3' | -52.8 | NC_005178.1 | + | 10187 | 0.7 | 0.44398 |
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Target: 5'- -aUGGCCAGGU-CUgaGGUGGAuCUUCGg -3' miRNA: 3'- uaACUGGUCCAuGA--CCACCUuGAGGU- -5' |
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| 23099 | 3' | -52.8 | NC_005178.1 | + | 8719 | 0.71 | 0.423534 |
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Target: 5'- --cGACCAGGUuCUGGUGGuucguGGCggugCCGa -3' miRNA: 3'- uaaCUGGUCCAuGACCACC-----UUGa---GGU- -5' |
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| 23099 | 3' | -52.8 | NC_005178.1 | + | 9928 | 1.07 | 0.001201 |
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Target: 5'- gAUUGACCAGGUACUGGUGGAACUCCAg -3' miRNA: 3'- -UAACUGGUCCAUGACCACCUUGAGGU- -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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