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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 | |||||||
| 30969 | 3' | -48.9 | NC_006556.1 | + | 17217 | 0.66 | 0.832831 |
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Target: 5'- ------gACGCGCCAGAggcCGUauaGGGa -3' miRNA: 3'- guuaagaUGCGCGGUCUauaGCA---CCC- -5' |
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| 30969 | 3' | -48.9 | NC_006556.1 | + | 5809 | 0.66 | 0.822713 |
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Target: 5'- ---aUCUGCGaaaagcauaGCCGGcAUAUCuUGGGg -3' miRNA: 3'- guuaAGAUGCg--------CGGUC-UAUAGcACCC- -5' |
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| 30969 | 3' | -48.9 | NC_006556.1 | + | 1134 | 0.66 | 0.801742 |
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Target: 5'- ---gUCUAUGCGCCaaAGGUGUUGaGGc -3' miRNA: 3'- guuaAGAUGCGCGG--UCUAUAGCaCCc -5' |
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| 30969 | 3' | -48.9 | NC_006556.1 | + | 15843 | 0.66 | 0.801742 |
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Target: 5'- ------cAUGUGCCGGGacuauUCGUGGGg -3' miRNA: 3'- guuaagaUGCGCGGUCUau---AGCACCC- -5' |
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| 30969 | 3' | -48.9 | NC_006556.1 | + | 17024 | 0.71 | 0.516097 |
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Target: 5'- ---aUCaugACGcCGCUGGGUAUUGUGGGu -3' miRNA: 3'- guuaAGa--UGC-GCGGUCUAUAGCACCC- -5' |
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| 30969 | 3' | -48.9 | NC_006556.1 | + | 18141 | 0.72 | 0.458937 |
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Target: 5'- ---gUCUGCGUGcCCAGAgagGUCGUugaGGGc -3' miRNA: 3'- guuaAGAUGCGC-GGUCUa--UAGCA---CCC- -5' |
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| 30969 | 3' | -48.9 | NC_006556.1 | + | 17138 | 1.12 | 0.000941 |
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Target: 5'- uCAAUUCUACGCGCCAGAUAUCGUGGGa -3' miRNA: 3'- -GUUAAGAUGCGCGGUCUAUAGCACCC- -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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