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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 12138 | 3' | -60.6 | NC_003309.1 | + | 22000 | 1.07 | 0.000395 |
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Target: 5'- gACCGGCUCCGCGUGCUCGAUGAGCCGu -3' miRNA: 3'- -UGGCCGAGGCGCACGAGCUACUCGGC- -5' |
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| 12138 | 3' | -60.6 | NC_003309.1 | + | 15155 | 0.73 | 0.157754 |
|
Target: 5'- cCCGGCUCCaGC-UGCUgGAUGucuGCCGu -3' miRNA: 3'- uGGCCGAGG-CGcACGAgCUACu--CGGC- -5' |
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| 12138 | 3' | -60.6 | NC_003309.1 | + | 45256 | 0.69 | 0.277038 |
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Target: 5'- uGCCGGCcgCCGCGUGCgccUCGAauacGUCGg -3' miRNA: 3'- -UGGCCGa-GGCGCACG---AGCUacu-CGGC- -5' |
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| 12138 | 3' | -60.6 | NC_003309.1 | + | 912 | 0.68 | 0.312624 |
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Target: 5'- aACCGGCgcuugCCgGUGcGCUUGuUGAGCCa -3' miRNA: 3'- -UGGCCGa----GG-CGCaCGAGCuACUCGGc -5' |
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| 12138 | 3' | -60.6 | NC_003309.1 | + | 31638 | 0.66 | 0.448703 |
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Target: 5'- uGCCcGCU-CGCGUGCgcuuccugUCGAUgGAGCCu -3' miRNA: 3'- -UGGcCGAgGCGCACG--------AGCUA-CUCGGc -5' |
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| 12138 | 3' | -60.6 | NC_003309.1 | + | 52704 | 0.66 | 0.438326 |
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Target: 5'- uACCGGCUCCgaguuggcgauugGCGUGUguuguacgaaaUCGAaGAugGCCGc -3' miRNA: 3'- -UGGCCGAGG-------------CGCACG-----------AGCUaCU--CGGC- -5' |
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| 12138 | 3' | -60.6 | NC_003309.1 | + | 41373 | 0.66 | 0.411644 |
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Target: 5'- gGCgGGCaagCCGCGUgguugGCUCGAcaucgaucaUGAGCgGa -3' miRNA: 3'- -UGgCCGa--GGCGCA-----CGAGCU---------ACUCGgC- -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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