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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2181 | 5' | -53.1 | NC_001396.1 | + | 273 | 0.83 | 0.011689 |
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Target: 5'- cUGCAAGGGUcaucAGGCCGAugaAGUaaGCGCCGCc -3' miRNA: 3'- -ACGUUUUCA----UCCGGCU---UCG--UGCGGCG- -5' |
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| 2181 | 5' | -53.1 | NC_001396.1 | + | 527 | 0.67 | 0.197391 |
|
Target: 5'- cGCGAAG--GGGCCaGAauGGuCACGCCGa -3' miRNA: 3'- aCGUUUUcaUCCGG-CU--UC-GUGCGGCg -5' |
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| 2181 | 5' | -53.1 | NC_001396.1 | + | 790 | 1.13 | 3.6e-05 |
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Target: 5'- uUGCAAAAGUAGGCCGAAGCACGCCGCg -3' miRNA: 3'- -ACGUUUUCAUCCGGCUUCGUGCGGCG- -5' |
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| 2181 | 5' | -53.1 | NC_001396.1 | + | 1884 | 0.66 | 0.231164 |
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Target: 5'- gGCAGGGGauGGCCuc-GCGUGCCGCu -3' miRNA: 3'- aCGUUUUCauCCGGcuuCGUGCGGCG- -5' |
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| 2181 | 5' | -53.1 | NC_001396.1 | + | 4385 | 0.7 | 0.12909 |
|
Target: 5'- aGCGAGGGcAGGUCGuuuaucAGUcaGCGCCGUg -3' miRNA: 3'- aCGUUUUCaUCCGGCu-----UCG--UGCGGCG- -5' |
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| 2181 | 5' | -53.1 | NC_001396.1 | + | 5227 | 0.66 | 0.22404 |
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Target: 5'- gGCGAGA--GGGCCGcuAGCAgCGCCu- -3' miRNA: 3'- aCGUUUUcaUCCGGCu-UCGU-GCGGcg -5' |
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| 2181 | 5' | -53.1 | NC_001396.1 | + | 6193 | 0.7 | 0.124857 |
|
Target: 5'- aUGCAucuGUGGGCgucauGCAgGCCGCg -3' miRNA: 3'- -ACGUuuuCAUCCGgcuu-CGUgCGGCG- -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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