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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 | |||||||
| 30914 | 3' | -56.5 | NC_006552.1 | + | 59675 | 0.66 | 0.681251 |
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Target: 5'- uGCCUcGCCGGccaacggcGGUGA---UCGGCAAu -3' miRNA: 3'- gUGGAaCGGCC--------CCACUugaAGCCGUU- -5' |
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| 30914 | 3' | -56.5 | NC_006552.1 | + | 11735 | 0.66 | 0.641953 |
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Target: 5'- gGCCUUGCCGGugaGGccgGAGCggcgaauggcacgcUCGGCAu -3' miRNA: 3'- gUGGAACGGCC---CCa--CUUGa-------------AGCCGUu -5' |
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| 30914 | 3' | -56.5 | NC_006552.1 | + | 47602 | 0.67 | 0.582922 |
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Target: 5'- aCGCCUcGCCccGGGuGUGcAGCUUCGaGCAc -3' miRNA: 3'- -GUGGAaCGG--CCC-CAC-UUGAAGC-CGUu -5' |
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| 30914 | 3' | -56.5 | NC_006552.1 | + | 57502 | 0.68 | 0.508304 |
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Target: 5'- gGCCUggGCCGcccGGUGAACg-CGGCAAa -3' miRNA: 3'- gUGGAa-CGGCc--CCACUUGaaGCCGUU- -5' |
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| 30914 | 3' | -56.5 | NC_006552.1 | + | 14281 | 0.76 | 0.174212 |
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Target: 5'- cCACgUUGCCgGGGGUGAAguaUUCGGCGc -3' miRNA: 3'- -GUGgAACGG-CCCCACUUg--AAGCCGUu -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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