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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 | |||||||
| 13538 | 3' | -48.2 | NC_003436.1 | + | 16926 | 0.66 | 0.897789 |
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Target: 5'- aAUGAaaACAGCCuuug-ACCACCuAGGAu -3' miRNA: 3'- -UGCU--UGUCGGuguaaUGGUGGuUUCU- -5' |
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| 13538 | 3' | -48.2 | NC_003436.1 | + | 23418 | 0.67 | 0.825768 |
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Target: 5'- -aGAuCAGCCACAgaGCgACCAuuAGAa -3' miRNA: 3'- ugCUuGUCGGUGUaaUGgUGGUu-UCU- -5' |
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| 13538 | 3' | -48.2 | NC_003436.1 | + | 22089 | 0.69 | 0.75749 |
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Target: 5'- cACGAACAGCCAauuucuuuuguuacuUUGCCAUCAu--- -3' miRNA: 3'- -UGCUUGUCGGUgu-------------AAUGGUGGUuucu -5' |
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| 13538 | 3' | -48.2 | NC_003436.1 | + | 20247 | 0.69 | 0.737825 |
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Target: 5'- --uAAUAGCUACAgUACCACCAAGu- -3' miRNA: 3'- ugcUUGUCGGUGUaAUGGUGGUUUcu -5' |
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| 13538 | 3' | -48.2 | NC_003436.1 | + | 4014 | 0.69 | 0.737825 |
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Target: 5'- --aAGCAGCCGCAcaaagagguuUUACaACCAAAGAa -3' miRNA: 3'- ugcUUGUCGGUGU----------AAUGgUGGUUUCU- -5' |
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| 13538 | 3' | -48.2 | NC_003436.1 | + | 27397 | 1.1 | 0.001833 |
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Target: 5'- cACGAACAGCCACAUUACCACCAAAGAg -3' miRNA: 3'- -UGCUUGUCGGUGUAAUGGUGGUUUCU- -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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