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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 | |||||||
| 27128 | 3' | -53.3 | NC_005832.1 | + | 66693 | 0.66 | 0.952522 |
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Target: 5'- gCCCAGGCcGCggcCGGGaccGUGUuuGGGGa -3' miRNA: 3'- -GGGUUUGuCGaa-GCUC---CACAggCCUC- -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 21434 | 0.66 | 0.943703 |
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Target: 5'- gUCCAugUAGUUcUCGAGGgcGUCCaGGAGc -3' miRNA: 3'- -GGGUuuGUCGA-AGCUCCa-CAGG-CCUC- -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 7284 | 0.66 | 0.928585 |
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Target: 5'- uCCUAcGCGGCggCGGuccuGUGUCCGGGa -3' miRNA: 3'- -GGGUuUGUCGaaGCUc---CACAGGCCUc -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 29112 | 0.68 | 0.884435 |
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Target: 5'- aCCCAGGCuuAGCUggaacgacguguUUGAGGUGUgaGGAu -3' miRNA: 3'- -GGGUUUG--UCGA------------AGCUCCACAggCCUc -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 13503 | 0.68 | 0.877143 |
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Target: 5'- aUCCAGaaggaaugcuguACGGCUUCGGGGcGUCuuuCGGAa -3' miRNA: 3'- -GGGUU------------UGUCGAAGCUCCaCAG---GCCUc -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 5737 | 0.69 | 0.834744 |
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Target: 5'- gCCCAAACuggAGCccggcaugaccgugaCGAGGUGUCUGGuGg -3' miRNA: 3'- -GGGUUUG---UCGaa-------------GCUCCACAGGCCuC- -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 27990 | 0.72 | 0.661082 |
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Target: 5'- gCUCGGA-GGCUUCacGGUGUCCGGAGc -3' miRNA: 3'- -GGGUUUgUCGAAGcuCCACAGGCCUC- -5' |
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| 27128 | 3' | -53.3 | NC_005832.1 | + | 95525 | 1.1 | 0.003237 |
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Target: 5'- cCCCAAACAGCUUCGAGGUGUCCGGAGc -3' miRNA: 3'- -GGGUUUGUCGAAGCUCCACAGGCCUC- -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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