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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 | |||||||
| 20858 | 5' | -57.3 | NC_004689.1 | + | 6291 | 0.68 | 0.533525 |
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Target: 5'- cCCGCuuuGAGCGUcGGcgaacccuACGCAGACCgGg -3' miRNA: 3'- aGGCG---UUCGCA-CCu-------UGCGUCUGGgCa -5' |
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| 20858 | 5' | -57.3 | NC_004689.1 | + | 68583 | 0.68 | 0.532493 |
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Target: 5'- aCUGCccAGCaGUGGGACGCccuggucgucgguGGACCCGc -3' miRNA: 3'- aGGCGu-UCG-CACCUUGCG-------------UCUGGGCa -5' |
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| 20858 | 5' | -57.3 | NC_004689.1 | + | 11374 | 0.68 | 0.532493 |
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Target: 5'- gCUGC-GGCcaGUGGAGCGCGGAaauugccgacauaCCCGUc -3' miRNA: 3'- aGGCGuUCG--CACCUUGCGUCU-------------GGGCA- -5' |
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| 20858 | 5' | -57.3 | NC_004689.1 | + | 35731 | 0.69 | 0.517096 |
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Target: 5'- cCCGcCAGGUGUGGGgaacggaggguucacGgGCAGGCUCGg -3' miRNA: 3'- aGGC-GUUCGCACCU---------------UgCGUCUGGGCa -5' |
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| 20858 | 5' | -57.3 | NC_004689.1 | + | 7298 | 0.69 | 0.502888 |
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Target: 5'- cUUGCGAGCGUaGGAACGCuuGGCCg-- -3' miRNA: 3'- aGGCGUUCGCA-CCUUGCGu-CUGGgca -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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