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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 | |||||||
| 23533 | 3' | -52.7 | NC_005260.1 | + | 9072 | 0.66 | 0.992984 |
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Target: 5'- aCCAuCCGguucaUGCCAACgcugCUUGCCCUUGu- -3' miRNA: 3'- -GGU-GGC-----AUGGUUGg---GAACGGGAAUcu -5' |
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| 23533 | 3' | -52.7 | NC_005260.1 | + | 120178 | 0.67 | 0.989601 |
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Target: 5'- aCCGC-GUACCAuuCCCUUaGCUCUguuaUAGAa -3' miRNA: 3'- -GGUGgCAUGGUu-GGGAA-CGGGA----AUCU- -5' |
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| 23533 | 3' | -52.7 | NC_005260.1 | + | 35121 | 0.67 | 0.986235 |
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Target: 5'- cCCAgCCGUccggacgaauguagAUCAGCCCU-GCCCauUUAGGa -3' miRNA: 3'- -GGU-GGCA--------------UGGUUGGGAaCGGG--AAUCU- -5' |
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| 23533 | 3' | -52.7 | NC_005260.1 | + | 177806 | 0.67 | 0.983253 |
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Target: 5'- gCCAUgGUACCGACUCcUGCUa-UGGAa -3' miRNA: 3'- -GGUGgCAUGGUUGGGaACGGgaAUCU- -5' |
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| 23533 | 3' | -52.7 | NC_005260.1 | + | 60232 | 1.11 | 0.007408 |
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Target: 5'- gCCACCGUACCAACCCUUGCCCUUAGAc -3' miRNA: 3'- -GGUGGCAUGGUUGGGAACGGGAAUCU- -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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