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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 | |||||||
| 28462 | 5' | -56.4 | NC_005946.1 | + | 82280 | 0.66 | 0.786308 |
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Target: 5'- -aGGccccuGCCCCGGCGGUgAGGGGUAc--- -3' miRNA: 3'- gaCC-----UGGGGUCGUCG-UCCCUAUacau -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 56653 | 0.66 | 0.786308 |
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Target: 5'- cCUGGAgCCCAGgaaGGaCAGGGGgcUGUc -3' miRNA: 3'- -GACCUgGGGUCg--UC-GUCCCUauACAu -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 80985 | 0.66 | 0.757028 |
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Target: 5'- -aGGGCUCCGGC-GUGGaGGGUGUGa- -3' miRNA: 3'- gaCCUGGGGUCGuCGUC-CCUAUACau -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 11314 | 0.68 | 0.663853 |
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Target: 5'- -aGGAUCCCAGagacCAGGGAgAUGUAc -3' miRNA: 3'- gaCCUGGGGUCguc-GUCCCUaUACAU- -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 61336 | 0.69 | 0.598953 |
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Target: 5'- aUGGACCucucgCCAGCAGCAGaccucacggcccuGGcgGUGUGa -3' miRNA: 3'- gACCUGG-----GGUCGUCGUC-------------CCuaUACAU- -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 69633 | 0.69 | 0.578849 |
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Target: 5'- gUGGGCUCCGGCGGCGGuggcGGGUcUGg- -3' miRNA: 3'- gACCUGGGGUCGUCGUC----CCUAuACau -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 29352 | 0.71 | 0.466802 |
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Target: 5'- gCUGGGCCUCAGgGGCAGaGGGgaaucagGUGUc -3' miRNA: 3'- -GACCUGGGGUCgUCGUC-CCUa------UACAu -5' |
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| 28462 | 5' | -56.4 | NC_005946.1 | + | 62946 | 0.76 | 0.250039 |
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Target: 5'- gCUGGACCCCAucauGaCAGaCAGGGGUGUGc- -3' miRNA: 3'- -GACCUGGGGU----C-GUC-GUCCCUAUACau -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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