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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 | |||||||
| 12625 | 3' | -40.2 | NC_003345.1 | + | 59488 | 0.67 | 1 |
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Target: 5'- gGAAUCGGCGcUCUgcuGGUCG-GUGGUg -3' miRNA: 3'- -UUUAGUCGU-AGAaauUCAGUaUAUCA- -5' |
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| 12625 | 3' | -40.2 | NC_003345.1 | + | 36289 | 0.67 | 0.999999 |
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Target: 5'- --uUCAGUAUCUccGAGUCGg--AGUa -3' miRNA: 3'- uuuAGUCGUAGAaaUUCAGUauaUCA- -5' |
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| 12625 | 3' | -40.2 | NC_003345.1 | + | 20637 | 0.69 | 0.999983 |
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Target: 5'- aGAAUCaaauaGGUAUCUUUAAGUCu--UAGUc -3' miRNA: 3'- -UUUAG-----UCGUAGAAAUUCAGuauAUCA- -5' |
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| 12625 | 3' | -40.2 | NC_003345.1 | + | 18356 | 0.8 | 0.912558 |
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Target: 5'- cAAAUCGGUAUCUUUAAGUCu--UAGg -3' miRNA: 3'- -UUUAGUCGUAGAAAUUCAGuauAUCa -5' |
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| 12625 | 3' | -40.2 | NC_003345.1 | + | 17276 | 0.81 | 0.88129 |
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Target: 5'- aGAAUCGGUAUCUUUAAGUCcu-UAGUu -3' miRNA: 3'- -UUUAGUCGUAGAAAUUCAGuauAUCA- -5' |
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| 12625 | 3' | -40.2 | NC_003345.1 | + | 47942 | 0.82 | 0.854451 |
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Target: 5'- aAAGUCGGUAUCUUUAAGUCuu-UAGUu -3' miRNA: 3'- -UUUAGUCGUAGAAAUUCAGuauAUCA- -5' |
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| 12625 | 3' | -40.2 | NC_003345.1 | + | 37246 | 1.07 | 0.0612 |
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Target: 5'- uAAAUCAGCAUCUUUAAGUCAUAUAGUa -3' miRNA: 3'- -UUUAGUCGUAGAAAUUCAGUAUAUCA- -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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