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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 | |||||||
| 11520 | 3' | -63.3 | NC_003085.1 | + | 16541 | 0.66 | 0.313211 |
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Target: 5'- aGGCGGCGCGCaggucggacaCUGCCGUCgccucgaaUGaCGuCGGc -3' miRNA: 3'- -CUGCCGCGCG----------GGCGGCAG--------ACaGC-GCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 13791 | 0.66 | 0.320568 |
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Target: 5'- aGGCGaGCGUGa-CGCCaGUCUG-CGUGGa -3' miRNA: 3'- -CUGC-CGCGCggGCGG-CAGACaGCGCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 7492 | 0.66 | 0.320568 |
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Target: 5'- uGACGG-GCGUCCG-CGUCgagcgGUUGCaGGa -3' miRNA: 3'- -CUGCCgCGCGGGCgGCAGa----CAGCG-CC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 621 | 0.66 | 0.320568 |
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Target: 5'- --gGGCGCGCUCGagG-CUGgCGCGGa -3' miRNA: 3'- cugCCGCGCGGGCggCaGACaGCGCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 25258 | 0.66 | 0.328054 |
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Target: 5'- cGCGGCGgGCgUCGUCGUCgg-CGCGc -3' miRNA: 3'- cUGCCGCgCG-GGCGGCAGacaGCGCc -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 42629 | 0.66 | 0.343412 |
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Target: 5'- cGCGGCGUuCCCcUCGUC-GUCGCGc -3' miRNA: 3'- cUGCCGCGcGGGcGGCAGaCAGCGCc -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 33014 | 0.66 | 0.343412 |
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Target: 5'- uGGCaGGCGCGCCUGuuGagccgGUCGCc- -3' miRNA: 3'- -CUG-CCGCGCGGGCggCaga--CAGCGcc -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 39727 | 0.66 | 0.351282 |
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Target: 5'- cACGcGCGCGCCgcuCGgUGUC-GUCGCGa -3' miRNA: 3'- cUGC-CGCGCGG---GCgGCAGaCAGCGCc -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 12674 | 0.66 | 0.351282 |
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Target: 5'- -cCGGgGCGCCaCGCgCGUCaGUCggaccacgagcaGCGGu -3' miRNA: 3'- cuGCCgCGCGG-GCG-GCAGaCAG------------CGCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 5574 | 0.66 | 0.351282 |
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Target: 5'- aACGGUGCGCCaCGUCuacgccCUGgUGCGGa -3' miRNA: 3'- cUGCCGCGCGG-GCGGca----GACaGCGCC- -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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