miRNA: 3'- -GGGaUUCCUUGG-UGACaAC-CUCUaug -5'
miRNA: 3'- -GGgAUUCCu-UGGUGacaACCUCUAUg -5'
miRNA: 3'- -GGGA--------UUCCUUGGUG--ACa---ACCUCUaUG- -5'
miRNA: 3'- -GGGAUUCCUUGGu------GACAaccUCUAUG- -5'
miRNA: 3'- gGGauUCCU--------UGGUGACAACCUCUAUg -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 |
| Predicted miRNA align pattern | |||||||
| 13286 | 5' | -48.6 | NC_003409.1 | + | 95615 | 0.68 | 0.990088 |
|
Target: 5'- gCCCaAAGGGACCaACUGgUGuGAGAg-- -3' miRNA: 3'- -GGGaUUCCUUGG-UGACaAC-CUCUaug -5' |
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| 13286 | 5' | -48.6 | NC_003409.1 | + | 128542 | 0.69 | 0.987091 |
|
Target: 5'- aCCgUGAGGcuGCCGCg--UGGGGAUAa -3' miRNA: 3'- -GGgAUUCCu-UGGUGacaACCUCUAUg -5' |
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| 13286 | 5' | -48.6 | NC_003409.1 | + | 106908 | 0.69 | 0.985353 |
|
Target: 5'- gCCCUucuuggugAGGGGACCACguUGgcgcUGGAGAcACu -3' miRNA: 3'- -GGGA--------UUCCUUGGUG--ACa---ACCUCUaUG- -5' |
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| 13286 | 5' | -48.6 | NC_003409.1 | + | 87448 | 0.72 | 0.928311 |
|
Target: 5'- aCCCUGAGGAGCCcggccuuCUGU---AGAUGCc -3' miRNA: 3'- -GGGAUUCCUUGGu------GACAaccUCUAUG- -5' |
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| 13286 | 5' | -48.6 | NC_003409.1 | + | 79681 | 0.8 | 0.566045 |
|
Target: 5'- aCCgcGGGGuuguucaaGCCGCUGUUGGAGAUAa -3' miRNA: 3'- gGGauUCCU--------UGGUGACAACCUCUAUg -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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