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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 | |||||||
| 28420 | 5' | -53.8 | NC_005946.1 | + | 99893 | 0.66 | 0.904398 |
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Target: 5'- ----cUCUGUCCGGUGGuCAU-GGUCCu -3' miRNA: 3'- aaaccAGGUAGGCCACU-GUAgCCAGG- -5' |
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| 28420 | 5' | -53.8 | NC_005946.1 | + | 67731 | 0.66 | 0.904398 |
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Target: 5'- --aGGUCCAgggccaccaCGGUGACcUCGGgCUg -3' miRNA: 3'- aaaCCAGGUag-------GCCACUGuAGCCaGG- -5' |
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| 28420 | 5' | -53.8 | NC_005946.1 | + | 76914 | 0.67 | 0.890927 |
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Target: 5'- --aGGaCCGUCCGGgGACccagguucaCGGUCCc -3' miRNA: 3'- aaaCCaGGUAGGCCaCUGua-------GCCAGG- -5' |
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| 28420 | 5' | -53.8 | NC_005946.1 | + | 5302 | 0.67 | 0.868894 |
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Target: 5'- --gGGUCag-UCGGUGugAUCGGUg- -3' miRNA: 3'- aaaCCAGguaGGCCACugUAGCCAgg -5' |
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| 28420 | 5' | -53.8 | NC_005946.1 | + | 88252 | 0.68 | 0.827684 |
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Target: 5'- --gGGUCCcgCCGGaGACGgccUGGUCg -3' miRNA: 3'- aaaCCAGGuaGGCCaCUGUa--GCCAGg -5' |
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| 28420 | 5' | -53.8 | NC_005946.1 | + | 76442 | 0.75 | 0.482286 |
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Target: 5'- --aGGUCCggCCGGUcACAggGGUCCa -3' miRNA: 3'- aaaCCAGGuaGGCCAcUGUagCCAGG- -5' |
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| 28420 | 5' | -53.8 | NC_005946.1 | + | 76598 | 1.1 | 0.002561 |
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Target: 5'- cUUUGGUCCAUCCGGUGACAUCGGUCCg -3' miRNA: 3'- -AAACCAGGUAGGCCACUGUAGCCAGG- -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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