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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 | |||||||
| 28362 | 5' | -49.8 | NC_005946.1 | + | 38762 | 0.66 | 0.990555 |
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Target: 5'- cGGAGA---UCUAGCcGGAGAC-CUCc -3' miRNA: 3'- -CCUUUacgAGAUCGuCCUCUGuGAGa -5' |
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| 28362 | 5' | -49.8 | NC_005946.1 | + | 2316 | 0.66 | 0.987611 |
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Target: 5'- cGGGGA-GCUCgugAGCAGGguguccucGGACGCg-- -3' miRNA: 3'- -CCUUUaCGAGa--UCGUCC--------UCUGUGaga -5' |
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| 28362 | 5' | -49.8 | NC_005946.1 | + | 82521 | 0.66 | 0.984005 |
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Target: 5'- uGGAGGUG-UCU-GCGGGAGGCAg--- -3' miRNA: 3'- -CCUUUACgAGAuCGUCCUCUGUgaga -5' |
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| 28362 | 5' | -49.8 | NC_005946.1 | + | 88454 | 0.67 | 0.981927 |
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Target: 5'- aGGAcGUGCU--AGgAGGGGACGCagUCUa -3' miRNA: 3'- -CCUuUACGAgaUCgUCCUCUGUG--AGA- -5' |
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| 28362 | 5' | -49.8 | NC_005946.1 | + | 12803 | 0.68 | 0.953321 |
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Target: 5'- cGAGGUGacggCUGGCAGGAGGUACgUCa -3' miRNA: 3'- cCUUUACga--GAUCGUCCUCUGUG-AGa -5' |
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| 28362 | 5' | -49.8 | NC_005946.1 | + | 22619 | 0.69 | 0.928492 |
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Target: 5'- aGGAGAccUUCUcGCAGGAGACuuuCUCa -3' miRNA: 3'- -CCUUUacGAGAuCGUCCUCUGu--GAGa -5' |
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| 28362 | 5' | -49.8 | NC_005946.1 | + | 22352 | 1.1 | 0.00599 |
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Target: 5'- uGGAAAUGCUCUAGCAGGAGACACUCUc -3' miRNA: 3'- -CCUUUACGAGAUCGUCCUCUGUGAGA- -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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