miRNA: 3'- aGCGGg--CAGUUGUguU----UGCGCaGCCC- -5'
miRNA: 3'- aGCGGgca----GUUGUGuUUGCGCAGCCc -5'
miRNA: 3'- aGCGGGCAGUUG--UGUUUgCGca-------GCCC- -5'
miRNA: 3'- agCGG-GCaGUUG-------------UGUUUGCGCAGCCc -5'
Results 61 - 64 of 64 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 22882 | 3' | -53.9 | NC_005137.2 | + | 91223 | 0.68 | 0.905287 |
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Target: 5'- cCGCCauuGUCAGCAguGugccACGUGcCGGGg -3' miRNA: 3'- aGCGGg--CAGUUGUguU----UGCGCaGCCC- -5' |
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| 22882 | 3' | -53.9 | NC_005137.2 | + | 62250 | 0.68 | 0.905287 |
|
Target: 5'- gCGCCacacaagCGGCACcAACGCGUUGGu -3' miRNA: 3'- aGCGGgca----GUUGUGuUUGCGCAGCCc -5' |
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| 22882 | 3' | -53.9 | NC_005137.2 | + | 110947 | 0.68 | 0.892314 |
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Target: 5'- gUGCCCGUCGAUcaACAGAgGCuuauuuaugCGGGc -3' miRNA: 3'- aGCGGGCAGUUG--UGUUUgCGca-------GCCC- -5' |
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| 22882 | 3' | -53.9 | NC_005137.2 | + | 120734 | 0.66 | 0.966033 |
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Target: 5'- -gGCCaCG-UAAUggggaauuugguuGCAAACGCGUCGGa -3' miRNA: 3'- agCGG-GCaGUUG-------------UGUUUGCGCAGCCc -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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