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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 | |||||||
| 28208 | 5' | -51.5 | NC_005891.1 | + | 2750 | 0.66 | 0.768916 |
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Target: 5'- aGGguGCGAcgC-CCAAUCGugaacGGCGUUa -3' miRNA: 3'- -UCguCGCUuaGaGGUUAGU-----UCGCGAg -5' |
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| 28208 | 5' | -51.5 | NC_005891.1 | + | 31755 | 0.66 | 0.758006 |
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Target: 5'- cGCAGCGAAUCgCCuuUUuuGUGCg- -3' miRNA: 3'- uCGUCGCUUAGaGGuuAGuuCGCGag -5' |
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| 28208 | 5' | -51.5 | NC_005891.1 | + | 9149 | 0.67 | 0.746949 |
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Target: 5'- cGCAGCGAAUUuugUCCGcuuguucgucgGUCAGGuCGUUUu -3' miRNA: 3'- uCGUCGCUUAG---AGGU-----------UAGUUC-GCGAG- -5' |
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| 28208 | 5' | -51.5 | NC_005891.1 | + | 24949 | 0.67 | 0.740249 |
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Target: 5'- uGGUAGCGAGcgcgcugUUCCAucaauagcuugguuUCAGGCGCUUu -3' miRNA: 3'- -UCGUCGCUUa------GAGGUu-------------AGUUCGCGAG- -5' |
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| 28208 | 5' | -51.5 | NC_005891.1 | + | 22176 | 0.68 | 0.654866 |
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Target: 5'- ---uGC--AUCUCCGAaaUCAAGCGCUCu -3' miRNA: 3'- ucguCGcuUAGAGGUU--AGUUCGCGAG- -5' |
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| 28208 | 5' | -51.5 | NC_005891.1 | + | 35009 | 1.11 | 0.000903 |
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Target: 5'- gAGCAGCGAAUCUCCAAUCAAGCGCUCa -3' miRNA: 3'- -UCGUCGCUUAGAGGUUAGUUCGCGAG- -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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