miRNA: 3'- gCUaCUGC--AGACGGCGCCGAgaUUGa -5'
miRNA: 3'- -GCUACUGC-------AGa--CGGC----GCCGAGAUUGa -5'
miRNA: 3'- gCUAcUGca----GACGGCGCCGAgAUUGa -5'
miRNA: 3'- gcUACUGCAGa---CGGCGCCGagaUUGA- -5'
miRNA: 3'- -GCUACUGCAga----CGGC-GCCGagaUUGA- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 24612 | 5' | -54.5 | NC_005264.1 | + | 98766 | 0.68 | 0.895667 |
|
Target: 5'- gGAaGGCGgcUCUGCUGCGGCU--GACa -3' miRNA: 3'- gCUaCUGC--AGACGGCGCCGAgaUUGa -5' |
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| 24612 | 5' | -54.5 | NC_005264.1 | + | 17976 | 0.69 | 0.859143 |
|
Target: 5'- cCGAUGGCGagcgcguUCaaaGCCGgcacCGGCUCUGACg -3' miRNA: 3'- -GCUACUGC-------AGa--CGGC----GCCGAGAUUGa -5' |
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| 24612 | 5' | -54.5 | NC_005264.1 | + | 97511 | 0.69 | 0.844122 |
|
Target: 5'- aGAUuGCcaggagCUGCCGCGGCUgUGGCg -3' miRNA: 3'- gCUAcUGca----GACGGCGCCGAgAUUGa -5' |
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| 24612 | 5' | -54.5 | NC_005264.1 | + | 26145 | 0.7 | 0.792334 |
|
Target: 5'- -cAUGAUGUCccagGCCGCGGCgagGACUu -3' miRNA: 3'- gcUACUGCAGa---CGGCGCCGagaUUGA- -5' |
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| 24612 | 5' | -54.5 | NC_005264.1 | + | 68225 | 0.66 | 0.940764 |
|
Target: 5'- gCGAUGACGUauccgcGCCGgCGGCg--GGCUu -3' miRNA: 3'- -GCUACUGCAga----CGGC-GCCGagaUUGA- -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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