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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 25014 | 3' | -45.5 | NC_005294.1 | + | 4865 | 1.09 | 0.006337 |
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Target: 5'- uCAUAAAAAGCCUAGCAACCAAGGACAc -3' miRNA: 3'- -GUAUUUUUCGGAUCGUUGGUUCCUGU- -5' |
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| 25014 | 3' | -45.5 | NC_005294.1 | + | 5916 | 0.66 | 0.989968 |
|
Target: 5'- aCAUAAAgguuAAGCCUcAGCuACCuAGcGACAu -3' miRNA: 3'- -GUAUUU----UUCGGA-UCGuUGGuUC-CUGU- -5' |
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| 25014 | 3' | -45.5 | NC_005294.1 | + | 7161 | 0.66 | 0.988338 |
|
Target: 5'- aGUAAAGAGgUuaucaaguUAGCAAUCAAGGAa- -3' miRNA: 3'- gUAUUUUUCgG--------AUCGUUGGUUCCUgu -5' |
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| 25014 | 3' | -45.5 | NC_005294.1 | + | 20729 | 0.7 | 0.898632 |
|
Target: 5'- --gAGAAAGCUUcAGCAAacggCGAGGACAa -3' miRNA: 3'- guaUUUUUCGGA-UCGUUg---GUUCCUGU- -5' |
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| 25014 | 3' | -45.5 | NC_005294.1 | + | 24902 | 0.72 | 0.82697 |
|
Target: 5'- -cUAAAAAGCCUAGCGua-GAGGAa- -3' miRNA: 3'- guAUUUUUCGGAUCGUuggUUCCUgu -5' |
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| 25014 | 3' | -45.5 | NC_005294.1 | + | 35141 | 0.67 | 0.978897 |
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Target: 5'- --aGGAAAGCCUuaugauuuuguaaaAGCuGACCuugaGAGGACAa -3' miRNA: 3'- guaUUUUUCGGA--------------UCG-UUGG----UUCCUGU- -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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