miRNA: 3'- gGCUGGu-GCUUGGGAAGUa---GUCGgUG- -5'
miRNA: 3'- -GGCUGG----UGCUUGGGA--AG--UAgUCGGUg -5'
miRNA: 3'- -GGCUGGuGCUUGGGaa---GUAGuCGGUG- -5'
miRNA: 3'- -GGCUGG---UgCUUGGGAAGUAGUCg------GUG- -5'
miRNA: 3'- -GGCUGGUGCUUGGGAAGUAGUCGGUG- -5'
Results 21 - 25 of 25 are showing below:
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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 | |||||||
| 12552 | 5' | -53.6 | NC_003345.1 | + | 20375 | 0.72 | 0.559926 |
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Target: 5'- gCGACUcuCGAACCCUUCGgcaaCGGCgACg -3' miRNA: 3'- gGCUGGu-GCUUGGGAAGUa---GUCGgUG- -5' |
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| 12552 | 5' | -53.6 | NC_003345.1 | + | 12247 | 0.72 | 0.538803 |
|
Target: 5'- aCCGACCaagaACGAACCCUgcUCcgGUgGGCCGg -3' miRNA: 3'- -GGCUGG----UGCUUGGGA--AG--UAgUCGGUg -5' |
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| 12552 | 5' | -53.6 | NC_003345.1 | + | 14953 | 0.73 | 0.48732 |
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Target: 5'- aCCGACC-CGAACCCgaacgUAUCcGUCACc -3' miRNA: 3'- -GGCUGGuGCUUGGGaa---GUAGuCGGUG- -5' |
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| 12552 | 5' | -53.6 | NC_003345.1 | + | 42020 | 0.75 | 0.383352 |
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Target: 5'- cCCGACUcguGgGAACCCUUCAUCGGaggggaaCACu -3' miRNA: 3'- -GGCUGG---UgCUUGGGAAGUAGUCg------GUG- -5' |
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| 12552 | 5' | -53.6 | NC_003345.1 | + | 37279 | 1.13 | 0.001309 |
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Target: 5'- aCCGACCACGAACCCUUCAUCAGCCACa -3' miRNA: 3'- -GGCUGGUGCUUGGGAAGUAGUCGGUG- -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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