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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 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 | + | 13931 | 0.66 | 0.310304 |
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Target: 5'- gGACGGgGCGCgCGCCGaagaagaaGCGGa -3' miRNA: 3'- -CUGCCgCGCGgGCGGCagacag--CGCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 27675 | 0.67 | 0.285066 |
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Target: 5'- uACGGCgGCGaCgUGCUGgugCUGUCGCGu -3' miRNA: 3'- cUGCCG-CGC-GgGCGGCa--GACAGCGCc -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 | + | 7759 | 0.67 | 0.278349 |
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Target: 5'- gGACGGcCGUGUCaucaGCCaUC-GUCGCGGc -3' miRNA: 3'- -CUGCC-GCGCGGg---CGGcAGaCAGCGCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 5369 | 0.67 | 0.278349 |
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Target: 5'- -uCGGCGCGUCCGgucCCGUCaccGUCGaGGc -3' miRNA: 3'- cuGCCGCGCGGGC---GGCAGa--CAGCgCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 15196 | 0.67 | 0.271759 |
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Target: 5'- -cCGGUGCGCCagCGCCG-Cgc-CGCGGa -3' miRNA: 3'- cuGCCGCGCGG--GCGGCaGacaGCGCC- -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 3485 | 0.67 | 0.271759 |
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Target: 5'- cGACGucuGCGUcgacuacaaGCUCGCCGUCUGgcgucUCGCGa -3' miRNA: 3'- -CUGC---CGCG---------CGGGCGGCAGAC-----AGCGCc -5' |
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| 11520 | 3' | -63.3 | NC_003085.1 | + | 3873 | 1.09 | 0.000188 |
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Target: 5'- cGACGGCGCGCCCGCCGUCUGUCGCGGu -3' miRNA: 3'- -CUGCCGCGCGGGCGGCAGACAGCGCC- -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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