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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 | |||||||
| 28872 | 5' | -48.6 | NC_006146.1 | + | 104091 | 0.66 | 0.998952 |
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Target: 5'- gCGCGAGUUacuccGCCUcaUGCGCCGcCUGGg -3' miRNA: 3'- -GUGUUCAA-----CGGAcaAUGCGGUaGAUU- -5' |
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| 28872 | 5' | -48.6 | NC_006146.1 | + | 47766 | 0.66 | 0.998952 |
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Target: 5'- gGCGAGUacgGCCUccaGgGCCGUCUGAa -3' miRNA: 3'- gUGUUCAa--CGGAcaaUgCGGUAGAUU- -5' |
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| 28872 | 5' | -48.6 | NC_006146.1 | + | 35519 | 0.67 | 0.996199 |
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Target: 5'- gCGCGuguuAGUUGCUUGUUGaugccuuuUGCCAUCUu- -3' miRNA: 3'- -GUGU----UCAACGGACAAU--------GCGGUAGAuu -5' |
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| 28872 | 5' | -48.6 | NC_006146.1 | + | 115172 | 0.7 | 0.974667 |
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Target: 5'- gGCAGGgacuguaaagGCCUGggACaGCCGUCUGg -3' miRNA: 3'- gUGUUCaa--------CGGACaaUG-CGGUAGAUu -5' |
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| 28872 | 5' | -48.6 | NC_006146.1 | + | 49155 | 0.71 | 0.961751 |
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Target: 5'- gCACGGGUUccagggucaGCCUGUUGC-CCGUCUc- -3' miRNA: 3'- -GUGUUCAA---------CGGACAAUGcGGUAGAuu -5' |
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| 28872 | 5' | -48.6 | NC_006146.1 | + | 36445 | 1.07 | 0.016802 |
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Target: 5'- aCACAAGUUGCCUGUUACGCCAUCUAAa -3' miRNA: 3'- -GUGUUCAACGGACAAUGCGGUAGAUU- -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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