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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 1090 | 3' | -56.1 | NC_000929.1 | + | 2630 | 0.67 | 0.407757 |
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Target: 5'- aGGUuUUGCCUGCggAUUugGCCCcGUAu -3' miRNA: 3'- aCCGuAAUGGACG--UGGugCGGGaCAU- -5' |
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| 1090 | 3' | -56.1 | NC_000929.1 | + | 16504 | 0.67 | 0.437525 |
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Target: 5'- cGGUAUUcaucAUCUGCGCauaACGUCCUGc- -3' miRNA: 3'- aCCGUAA----UGGACGUGg--UGCGGGACau -5' |
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| 1090 | 3' | -56.1 | NC_000929.1 | + | 25492 | 1.06 | 0.00057 |
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Target: 5'- cUGGCAUUACCUGCACCACGCCCUGUAc -3' miRNA: 3'- -ACCGUAAUGGACGUGGUGCGGGACAU- -5' |
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| 1090 | 3' | -56.1 | NC_000929.1 | + | 25550 | 0.72 | 0.207177 |
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Target: 5'- cGGCAcgGCCUGCACCAUuaCCUu-- -3' miRNA: 3'- aCCGUaaUGGACGUGGUGcgGGAcau -5' |
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| 1090 | 3' | -56.1 | NC_000929.1 | + | 18054 | 0.7 | 0.264858 |
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Target: 5'- uUGGCAUUGCC-GCACUgaAUGCgCUGUc -3' miRNA: 3'- -ACCGUAAUGGaCGUGG--UGCGgGACAu -5' |
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| 1090 | 3' | -56.1 | NC_000929.1 | + | 13662 | 0.67 | 0.407757 |
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Target: 5'- cUGGCGUgaugGCCUGUACCggaauGCGCCg---- -3' miRNA: 3'- -ACCGUAa---UGGACGUGG-----UGCGGgacau -5' |
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| 1090 | 3' | -56.1 | NC_000929.1 | + | 3544 | 0.67 | 0.437525 |
|
Target: 5'- gUGGCAgaacUACCUGaacCGCCcCGCUUUGUGg -3' miRNA: 3'- -ACCGUa---AUGGAC---GUGGuGCGGGACAU- -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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