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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 | |||||||
| 13424 | 5' | -43.8 | NC_003409.1 | + | 88585 | 0.66 | 0.999998 |
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Target: 5'- gGCCGCGUAUGg--UCcuGAAAaACUGc -3' miRNA: 3'- aUGGUGCGUACaaaAGu-CUUUaUGAC- -5' |
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| 13424 | 5' | -43.8 | NC_003409.1 | + | 78313 | 0.66 | 0.999996 |
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Target: 5'- aGCCACGUG-GggUUCAGggGggcCUGg -3' miRNA: 3'- aUGGUGCGUaCaaAAGUCuuUau-GAC- -5' |
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| 13424 | 5' | -43.8 | NC_003409.1 | + | 130529 | 0.66 | 0.999996 |
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Target: 5'- cUGCCACGgAUGgaacaUCAGAGAUGg-- -3' miRNA: 3'- -AUGGUGCgUACaaa--AGUCUUUAUgac -5' |
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| 13424 | 5' | -43.8 | NC_003409.1 | + | 92783 | 0.67 | 0.999994 |
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Target: 5'- gUGCCgaacucucaaggggAUGCGUGg---CGGGAGUACUGa -3' miRNA: 3'- -AUGG--------------UGCGUACaaaaGUCUUUAUGAC- -5' |
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| 13424 | 5' | -43.8 | NC_003409.1 | + | 102165 | 0.69 | 0.99981 |
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Target: 5'- -uCCGCGUgugAUGUUUUCAGA---ACUGu -3' miRNA: 3'- auGGUGCG---UACAAAAGUCUuuaUGAC- -5' |
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| 13424 | 5' | -43.8 | NC_003409.1 | + | 16945 | 0.73 | 0.992444 |
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Target: 5'- gAUCACuCGUGUucaccagUUUCAGggGUGCUGg -3' miRNA: 3'- aUGGUGcGUACA-------AAAGUCuuUAUGAC- -5' |
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| 13424 | 5' | -43.8 | NC_003409.1 | + | 101592 | 1.1 | 0.034544 |
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Target: 5'- gUACCACGCAUGUUUUCAGAAAUACUGg -3' miRNA: 3'- -AUGGUGCGUACAAAAGUCUUUAUGAC- -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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