miRNA: 3'- -GGUGCGCcAGUAG---------------GUGGACCUGCaCU- -5'
miRNA: 3'- gGUgCGcCAGUAGGUGGAC-CUGCACU- -5'
miRNA: 3'- gGUGC-GCCAguaGGUGG--ACCUGCAcu -5'
miRNA: 3'- gGUG-CGCCAGUa--GG-UGGACCUGCaCU- -5'
miRNA: 3'- -GGUgCGCCAGU---------AgGUGGACC-UGCA-CU- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 26514 | 3' | -56.1 | NC_005357.1 | + | 12966 | 0.72 | 0.294585 |
|
Target: 5'- gCCGCGCGcUCGUCgccuggugccaggagCACCUGGGCGcGAc -3' miRNA: 3'- -GGUGCGCcAGUAG---------------GUGGACCUGCaCU- -5' |
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| 26514 | 3' | -56.1 | NC_005357.1 | + | 10641 | 0.72 | 0.28441 |
|
Target: 5'- aUAgGC-GUCAUUCACCUGcGGCGUGAa -3' miRNA: 3'- gGUgCGcCAGUAGGUGGAC-CUGCACU- -5' |
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| 26514 | 3' | -56.1 | NC_005357.1 | + | 3752 | 0.66 | 0.647833 |
|
Target: 5'- gCACGuCGGUg--CCGCCgcUGGACGUa- -3' miRNA: 3'- gGUGC-GCCAguaGGUGG--ACCUGCAcu -5' |
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| 26514 | 3' | -56.1 | NC_005357.1 | + | 2394 | 0.67 | 0.549407 |
|
Target: 5'- gCAUgGCGGUCGcugCCuACCUGGAUG-GAc -3' miRNA: 3'- gGUG-CGCCAGUa--GG-UGGACCUGCaCU- -5' |
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| 26514 | 3' | -56.1 | NC_005357.1 | + | 1750 | 0.68 | 0.517477 |
|
Target: 5'- aCCGgGCGGUCAuggccggccUgCGCCUGGcGCGUcGGg -3' miRNA: 3'- -GGUgCGCCAGU---------AgGUGGACC-UGCA-CU- -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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