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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 | |||||||
| 12820 | 3' | -62.4 | NC_003387.1 | + | 48600 | 0.66 | 0.340637 |
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Target: 5'- uGAaCGCA-GCGCGGUGUCGGCCGa-- -3' miRNA: 3'- -CUcGCGUgCGCGCUGCAGCCGGCcua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 1941 | 0.66 | 0.364086 |
|
Target: 5'- cAGCGCAUGauccggcCGCGG-GUCuGGCCGGGc -3' miRNA: 3'- cUCGCGUGC-------GCGCUgCAG-CCGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 52387 | 0.66 | 0.35669 |
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Target: 5'- -cGCGCACGCGgaucuUGGCGUgCGugucGCCGGGc -3' miRNA: 3'- cuCGCGUGCGC-----GCUGCA-GC----CGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 38091 | 0.66 | 0.348597 |
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Target: 5'- cGGCcuuGCccuuCGCGUacACGUCGGCCGGGUu -3' miRNA: 3'- cUCG---CGu---GCGCGc-UGCAGCCGGCCUA- -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 31259 | 0.66 | 0.340637 |
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Target: 5'- cGGCGCGgGCuGCGccaGCGg-GGCCGGGUu -3' miRNA: 3'- cUCGCGUgCG-CGC---UGCagCCGGCCUA- -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 32526 | 0.66 | 0.332808 |
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Target: 5'- cGAGCGCAUGCguaguucacgGCGGCGcCGuCCGGu- -3' miRNA: 3'- -CUCGCGUGCG----------CGCUGCaGCcGGCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 7982 | 0.66 | 0.31755 |
|
Target: 5'- cGGGUGCuGCGCuuCGGCGcccCGGCCGGGc -3' miRNA: 3'- -CUCGCG-UGCGc-GCUGCa--GCCGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 4978 | 0.66 | 0.31755 |
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Target: 5'- -cGUGCuCGCGCaGAgGUCGGUCGcGAUu -3' miRNA: 3'- cuCGCGuGCGCG-CUgCAGCCGGC-CUA- -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 9729 | 0.66 | 0.364914 |
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Target: 5'- -cGCGUACGgGuCGGCGUCaaGGUCGGc- -3' miRNA: 3'- cuCGCGUGCgC-GCUGCAG--CCGGCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 25202 | 0.66 | 0.364914 |
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Target: 5'- cAG-GCAaccuCGCGGCGgCGGCCGGAUc -3' miRNA: 3'- cUCgCGUgc--GCGCUGCaGCCGGCCUA- -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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