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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 | |||||||
| 11324 | 3' | -52.3 | NC_003084.1 | + | 93531 | 0.66 | 0.943053 |
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Target: 5'- uGUACuCACguuggGGCCGU---UUAGGUCc -3' miRNA: 3'- gCAUGuGUGa----CCGGCGagaAAUCCAG- -5' |
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| 11324 | 3' | -52.3 | NC_003084.1 | + | 99422 | 0.67 | 0.938134 |
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Target: 5'- gGUGCGCGCagacgaGGCCGCaauUCgcgUUAGGg- -3' miRNA: 3'- gCAUGUGUGa-----CCGGCG---AGa--AAUCCag -5' |
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| 11324 | 3' | -52.3 | NC_003084.1 | + | 25007 | 0.67 | 0.927502 |
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Target: 5'- gCGUGCACGacCUGGCgUGCUCUUggcuuguGGcCa -3' miRNA: 3'- -GCAUGUGU--GACCG-GCGAGAAau-----CCaG- -5' |
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| 11324 | 3' | -52.3 | NC_003084.1 | + | 43629 | 0.69 | 0.874472 |
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Target: 5'- uGUACAUuCUGGCgGCUUacUGGGUa -3' miRNA: 3'- gCAUGUGuGACCGgCGAGaaAUCCAg -5' |
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| 11324 | 3' | -52.3 | NC_003084.1 | + | 48442 | 0.69 | 0.866709 |
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Target: 5'- -uUACACACUGGUuuuCGUuuUCUUUGGGg- -3' miRNA: 3'- gcAUGUGUGACCG---GCG--AGAAAUCCag -5' |
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| 11324 | 3' | -52.3 | NC_003084.1 | + | 37777 | 1.11 | 0.003166 |
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Target: 5'- uCGUACACACUGGCCGCUCUUUAGGUCg -3' miRNA: 3'- -GCAUGUGUGACCGGCGAGAAAUCCAG- -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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