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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 | |||||||
| 16840 | 3' | -56.5 | NC_004194.1 | + | 4216 | 0.66 | 0.141274 |
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Target: 5'- -gGGCCCC----CCCAGAaguaagcUCGGUCUCg -3' miRNA: 3'- ggUCGGGGacguGGGUUU-------AGCCAGAG- -5' |
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| 16840 | 3' | -56.5 | NC_004194.1 | + | 4753 | 0.68 | 0.099198 |
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Target: 5'- aCCuguGCCCCUauguuaCGgCCAGAUCGGgugCUCa -3' miRNA: 3'- -GGu--CGGGGAc-----GUgGGUUUAGCCa--GAG- -5' |
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| 16840 | 3' | -56.5 | NC_004194.1 | + | 625 | 0.73 | 0.044528 |
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Target: 5'- gCAGCUuuUCUGCGCCCAGugugccccccccAUCGGUCg- -3' miRNA: 3'- gGUCGG--GGACGUGGGUU------------UAGCCAGag -5' |
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| 16840 | 3' | -56.5 | NC_004194.1 | + | 4425 | 0.73 | 0.044528 |
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Target: 5'- aCCAGCacCCCUG-ACCCAAGUgugCGuGUCUCa -3' miRNA: 3'- -GGUCG--GGGACgUGGGUUUA---GC-CAGAG- -5' |
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| 16840 | 3' | -56.5 | NC_004194.1 | + | 4170 | 1.11 | 2.7e-05 |
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Target: 5'- aCCAGCCCCUGCACCCAAAUCGGUCUCc -3' miRNA: 3'- -GGUCGGGGACGUGGGUUUAGCCAGAG- -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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