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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 | |||||||
| 12317 | 3' | -44 | NC_003323.1 | + | 3423 | 1.12 | 0.001021 |
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Target: 5'- uCCAAACGAAACAAAAGUGGCCACUUGu -3' miRNA: 3'- -GGUUUGCUUUGUUUUCACCGGUGAAC- -5' |
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| 12317 | 3' | -44 | NC_003323.1 | + | 4388 | 0.67 | 0.825992 |
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Target: 5'- aCAAGCGAuACAAGuauuGCCugUUGg -3' miRNA: 3'- gGUUUGCUuUGUUUucacCGGugAAC- -5' |
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| 12317 | 3' | -44 | NC_003323.1 | + | 3096 | 0.66 | 0.847991 |
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Target: 5'- cCCAAgaaaauguAUGGAAcCAGGAGUGGCCugaguCUUu -3' miRNA: 3'- -GGUU--------UGCUUU-GUUUUCACCGGu----GAAc -5' |
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| 12317 | 3' | -44 | NC_003323.1 | + | 341 | 0.66 | 0.837158 |
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Target: 5'- gUAAGCGAGGCGAccaGGGcUGGuCCACg-- -3' miRNA: 3'- gGUUUGCUUUGUU---UUC-ACC-GGUGaac -5' |
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| 12317 | 3' | -44 | NC_003323.1 | + | 8557 | 0.66 | 0.837158 |
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Target: 5'- gUAAGCGAGGCGAccaGGGcUGGuCCACg-- -3' miRNA: 3'- gGUUUGCUUUGUU---UUC-ACC-GGUGaac -5' |
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| 12317 | 3' | -44 | NC_003323.1 | + | 3482 | 0.71 | 0.591283 |
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Target: 5'- gCCGggUGggGgguguguaacCAGAcaAGUGGCCACUUu -3' miRNA: 3'- -GGUuuGCuuU----------GUUU--UCACCGGUGAAc -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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