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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 | |||||||
| 11873 | 3' | -54.8 | NC_003266.2 | + | 10189 | 0.66 | 0.612929 |
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Target: 5'- -aUGCCGGcgGCGGUgGUggAGGCGCg- -3' miRNA: 3'- gaACGGCCa-UGUCGgCGa-UCUGUGag -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 13875 | 0.66 | 0.567222 |
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Target: 5'- --cGgCGGcgaUGCAGCCcccGCUGGAgGCUCc -3' miRNA: 3'- gaaCgGCC---AUGUCGG---CGAUCUgUGAG- -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 4750 | 0.66 | 0.555916 |
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Target: 5'- --aGCCGGUGgGGCCG-UAGAUAa-- -3' miRNA: 3'- gaaCGGCCAUgUCGGCgAUCUGUgag -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 22510 | 0.67 | 0.50054 |
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Target: 5'- gCUUGCCcucgacuucGGUACAGCCGUgcAGcCACa- -3' miRNA: 3'- -GAACGG---------CCAUGUCGGCGa-UCuGUGag -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 25074 | 0.68 | 0.479066 |
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Target: 5'- -gUGCagaGGuUGCAGCgGCaguGGCACUCg -3' miRNA: 3'- gaACGg--CC-AUGUCGgCGau-CUGUGAG- -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 10960 | 0.68 | 0.459092 |
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Target: 5'- --cGCCGGaGCGGCaccCGCggugcagaugaaaagGGACGCUCg -3' miRNA: 3'- gaaCGGCCaUGUCG---GCGa--------------UCUGUGAG- -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 16953 | 0.72 | 0.251124 |
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Target: 5'- --aGCCGGUAUAGCCGUggUAGaaGCGCg- -3' miRNA: 3'- gaaCGGCCAUGUCGGCG--AUC--UGUGag -5' |
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| 11873 | 3' | -54.8 | NC_003266.2 | + | 2007 | 1.1 | 0.000475 |
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Target: 5'- aCUUGCCGGUACAGCCGCUAGACACUCu -3' miRNA: 3'- -GAACGGCCAUGUCGGCGAUCUGUGAG- -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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