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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 | |||||||
| 30506 | 5' | -51 | NC_006548.1 | + | 13870 | 0.66 | 0.861402 |
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Target: 5'- gUCGagCUUCgccucGAUCAcgcUCUgGCCGCg -3' miRNA: 3'- gAGCagGAAGa----CUAGUa--AGAgCGGCG- -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 11304 | 0.66 | 0.84366 |
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Target: 5'- uUCaGUCCUUCUGGUCGccuaUUGCgCGUu -3' miRNA: 3'- gAG-CAGGAAGACUAGUaag-AGCG-GCG- -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 34380 | 0.66 | 0.84366 |
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Target: 5'- cCUgGUCCUUgUGggCGgcacCUCGCUGUu -3' miRNA: 3'- -GAgCAGGAAgACuaGUaa--GAGCGGCG- -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 27913 | 0.66 | 0.84366 |
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Target: 5'- gCUCGgccagcgCgUUCccgGcgCGUUCUCGCUGCc -3' miRNA: 3'- -GAGCa------GgAAGa--CuaGUAAGAGCGGCG- -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 27070 | 0.66 | 0.834416 |
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Target: 5'- -cCGUCUg-CUGAUCGgcggaCUCGCCGa -3' miRNA: 3'- gaGCAGGaaGACUAGUaa---GAGCGGCg -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 11762 | 0.7 | 0.651336 |
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Target: 5'- -gCGUCCagCUGGUCAUg--CGCgGCg -3' miRNA: 3'- gaGCAGGaaGACUAGUAagaGCGgCG- -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 38300 | 0.78 | 0.258132 |
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Target: 5'- gUCGUCCUgugCUGAUCuuuugaaAUUCUuuUGCCGCa -3' miRNA: 3'- gAGCAGGAa--GACUAG-------UAAGA--GCGGCG- -5' |
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| 30506 | 5' | -51 | NC_006548.1 | + | 11733 | 1.12 | 0.00122 |
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Target: 5'- cCUCGUCCUUCUGAUCAUUCUCGCCGCc -3' miRNA: 3'- -GAGCAGGAAGACUAGUAAGAGCGGCG- -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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