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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 | |||||||
| 28460 | 3' | -52.9 | NC_005946.1 | + | 96735 | 0.67 | 0.905287 |
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Target: 5'- cAGCCCAgcacgccgUCCUGCAcCAGGGACacuUCUGc- -3' miRNA: 3'- -UCGGGU--------GGGACGU-GUCUUUG---AGAUac -5' |
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| 28460 | 3' | -52.9 | NC_005946.1 | + | 88221 | 0.68 | 0.869104 |
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Target: 5'- cGCCC-CCCUGgACAG--GCUC-AUGa -3' miRNA: 3'- uCGGGuGGGACgUGUCuuUGAGaUAC- -5' |
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| 28460 | 3' | -52.9 | NC_005946.1 | + | 96937 | 0.68 | 0.852913 |
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Target: 5'- gAGCCUcuugacccucauGCCCaGCAUAGAGuUUCUGUGc -3' miRNA: 3'- -UCGGG------------UGGGaCGUGUCUUuGAGAUAC- -5' |
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| 28460 | 3' | -52.9 | NC_005946.1 | + | 37479 | 0.68 | 0.841039 |
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Target: 5'- cGUUUACCCUGCACAcuuuugccauCUCUGUGa -3' miRNA: 3'- uCGGGUGGGACGUGUcuuu------GAGAUAC- -5' |
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| 28460 | 3' | -52.9 | NC_005946.1 | + | 46708 | 0.69 | 0.80864 |
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Target: 5'- cGGCCUGCgCCUGCugGGcAAUguugUCUAUGa -3' miRNA: 3'- -UCGGGUG-GGACGugUCuUUG----AGAUAC- -5' |
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| 28460 | 3' | -52.9 | NC_005946.1 | + | 33683 | 0.69 | 0.799207 |
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Target: 5'- --gCCACCCUGCACAGGcugGACUa---- -3' miRNA: 3'- ucgGGUGGGACGUGUCU---UUGAgauac -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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