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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 | |||||||
| 29111 | 3' | -47.5 | NC_006146.1 | + | 133831 | 0.66 | 0.999529 |
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Target: 5'- gGGGGUGAggAUGGUggGCCCAg---- -3' miRNA: 3'- aUUCCACUuaUAUCGa-CGGGUaacua -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 83106 | 0.67 | 0.998872 |
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Target: 5'- gAGGGUGAGg--AGCgGCCUGUUGc- -3' miRNA: 3'- aUUCCACUUauaUCGaCGGGUAACua -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 37199 | 0.67 | 0.998619 |
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Target: 5'- -cGGGUGGGcaAUGGCUGgCCCAcgUGAa -3' miRNA: 3'- auUCCACUUa-UAUCGAC-GGGUa-ACUa -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 36840 | 0.67 | 0.998319 |
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Target: 5'- cUAAGGUGAGUGUaAGCUG-UgGUUGGg -3' miRNA: 3'- -AUUCCACUUAUA-UCGACgGgUAACUa -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 78362 | 0.69 | 0.994307 |
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Target: 5'- cAGGGUGuagcc-GCUGCCCAggGAg -3' miRNA: 3'- aUUCCACuuauauCGACGGGUaaCUa -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 70523 | 0.69 | 0.992287 |
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Target: 5'- aUGAGcGUGGAggacAUGGCUGCCCGgcuggcucgucUUGAg -3' miRNA: 3'- -AUUC-CACUUa---UAUCGACGGGU-----------AACUa -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 50239 | 0.71 | 0.975387 |
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Target: 5'- --uGGUGGcgGUGGCUGCCU--UGAa -3' miRNA: 3'- auuCCACUuaUAUCGACGGGuaACUa -5' |
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| 29111 | 3' | -47.5 | NC_006146.1 | + | 133887 | 1.05 | 0.025512 |
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Target: 5'- gUAAGGUGAAUAUAGCUGCCCAUUGAUg -3' miRNA: 3'- -AUUCCACUUAUAUCGACGGGUAACUA- -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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