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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 | |||||||
| 23543 | 3' | -50.3 | NC_005260.1 | + | 217191 | 0.66 | 0.99849 |
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Target: 5'- --cGCUGAAUAACGgagaCAGugcGACGUUUCa -3' miRNA: 3'- aucCGACUUAUUGCg---GUC---UUGCAGAG- -5' |
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| 23543 | 3' | -50.3 | NC_005260.1 | + | 101904 | 0.66 | 0.998187 |
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Target: 5'- aGGGUaucuuUGAAUAccAgGCCGGAA-GUCUCa -3' miRNA: 3'- aUCCG-----ACUUAU--UgCGGUCUUgCAGAG- -5' |
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| 23543 | 3' | -50.3 | NC_005260.1 | + | 66965 | 0.67 | 0.996413 |
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Target: 5'- cUAGGCU---UggUGUUAGAACGUCUa -3' miRNA: 3'- -AUCCGAcuuAuuGCGGUCUUGCAGAg -5' |
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| 23543 | 3' | -50.3 | NC_005260.1 | + | 170809 | 0.67 | 0.995096 |
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Target: 5'- cUAGGCU-AAUGACuGCCAuuuauGAACGUCa- -3' miRNA: 3'- -AUCCGAcUUAUUG-CGGU-----CUUGCAGag -5' |
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| 23543 | 3' | -50.3 | NC_005260.1 | + | 126544 | 0.67 | 0.994303 |
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Target: 5'- aUGGGCUaGAcaGACuCCAGGACG-CUCu -3' miRNA: 3'- -AUCCGA-CUuaUUGcGGUCUUGCaGAG- -5' |
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| 23543 | 3' | -50.3 | NC_005260.1 | + | 146632 | 0.67 | 0.994303 |
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Target: 5'- ---cCUGAAUuacaggAGCGCCAaGACGUCUCa -3' miRNA: 3'- auccGACUUA------UUGCGGUcUUGCAGAG- -5' |
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| 23543 | 3' | -50.3 | NC_005260.1 | + | 180220 | 1.08 | 0.014625 |
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Target: 5'- cUAGGCUGAAUAACGCCAGAACGUCUCu -3' miRNA: 3'- -AUCCGACUUAUUGCGGUCUUGCAGAG- -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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