miRNA: 3'- -CCGUUGGcGaccgCUCCGUAGUAG-GG- -5'
miRNA: 3'- -CCGuUGGCGaCCGC-UCCGUaGUAGGG- -5'
miRNA: 3'- -CCGUUGgCGaCCGCU-CCGU--------------AGUAG-GG- -5'
miRNA: 3'- -CCGUUggCGaCCGCUCCGu--AGUaGGG- -5'
miRNA: 3'- -CCGUUG-----GCGACCGCUCC-GUAGUAGgg -5'
Results 41 - 45 of 45 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12472 | 5' | -56.7 | NC_003324.1 | + | 47071 | 0.66 | 0.629136 |
|
Target: 5'- aGGCAGCC-Cga--GGGGCGUUAUCgCCg -3' miRNA: 3'- -CCGUUGGcGaccgCUCCGUAGUAG-GG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 5494 | 0.67 | 0.607446 |
|
Target: 5'- cGGC-GCCGCaGGUGcGGGCGcCAUCUUc -3' miRNA: 3'- -CCGuUGGCGaCCGC-UCCGUaGUAGGG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 13161 | 0.67 | 0.582609 |
|
Target: 5'- cGGCGGCgGUcGGCGGcGGCGguaccggcugcaaaUCGUCaCCg -3' miRNA: 3'- -CCGUUGgCGaCCGCU-CCGU--------------AGUAG-GG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 40472 | 0.68 | 0.55373 |
|
Target: 5'- aGGCGAagGCcGGUGAGGUuuuUCAcCCCu -3' miRNA: 3'- -CCGUUggCGaCCGCUCCGu--AGUaGGG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 31311 | 0.8 | 0.099995 |
|
Target: 5'- cGGCGGCgcuggCGCUGGCGGGGgCAUCGUCa- -3' miRNA: 3'- -CCGUUG-----GCGACCGCUCC-GUAGUAGgg -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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