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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 | |||||||
| 28562 | 5' | -62.7 | NC_005946.1 | + | 8236 | 0.66 | 0.480331 |
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Target: 5'- cGuCugGCCacUGCCUGGCguUGGgucugcagcaGGGAGGCa -3' miRNA: 3'- uC-GugCGG--ACGGACCG--GCC----------UCCUCUG- -5' |
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| 28562 | 5' | -62.7 | NC_005946.1 | + | 12896 | 0.66 | 0.470992 |
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Target: 5'- gGGCGCGUCgGCCgcggaGGCCGuggcucagguGAGGcuGGACg -3' miRNA: 3'- -UCGUGCGGaCGGa----CCGGC----------CUCC--UCUG- -5' |
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| 28562 | 5' | -62.7 | NC_005946.1 | + | 20729 | 0.67 | 0.399895 |
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Target: 5'- uGgACGCCguggucaccaGCCUGGCCGGccucGAGGCc -3' miRNA: 3'- uCgUGCGGa---------CGGACCGGCCuc--CUCUG- -5' |
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| 28562 | 5' | -62.7 | NC_005946.1 | + | 76355 | 0.69 | 0.328592 |
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Target: 5'- cGGgGCGCCUGgaUCUcagGGcCCGGAcGGAGACg -3' miRNA: 3'- -UCgUGCGGAC--GGA---CC-GGCCU-CCUCUG- -5' |
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| 28562 | 5' | -62.7 | NC_005946.1 | + | 57908 | 0.72 | 0.195173 |
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Target: 5'- uGGC-UGCCaggGCCcuguUGGCCGGGGGGGAg -3' miRNA: 3'- -UCGuGCGGa--CGG----ACCGGCCUCCUCUg -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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