miRNA: 3'- -UAUCGAau-AGGcGCUAUGCG-GCGGGG- -5'
miRNA: 3'- uauCGAAuAGG-CGCua-UGCGGCGG-GG- -5'
miRNA: 3'- -UAUCGaaua-----GGCGCUa-UGCGGCGGGG- -5'
miRNA: 3'- uaUCGAAUaGGCGCUAUGCGG---------------CGGGG- -5'
miRNA: 3'- uaUCGaaUAGGCGCUau--GCGGCGGGG- -5'
Results 41 - 45 of 45 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 | |||||||
| 9598 | 5' | -54.9 | NC_002577.1 | + | 157389 | 0.68 | 0.869996 |
|
Target: 5'- uGUGGUUguuUUCuCGAUGCGCgCGCCUCg -3' miRNA: 3'- -UAUCGAau-AGGcGCUAUGCG-GCGGGG- -5' |
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| 9598 | 5' | -54.9 | NC_002577.1 | + | 157789 | 0.69 | 0.846748 |
|
Target: 5'- --uGCUU-UCCgGCGugcGCGCCGCCgCCg -3' miRNA: 3'- uauCGAAuAGG-CGCua-UGCGGCGG-GG- -5' |
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| 9598 | 5' | -54.9 | NC_002577.1 | + | 159066 | 0.71 | 0.72629 |
|
Target: 5'- gAUGGCgcccgccggCCGCGGccGCGCCGUCCUc -3' miRNA: 3'- -UAUCGaaua-----GGCGCUa-UGCGGCGGGG- -5' |
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| 9598 | 5' | -54.9 | NC_002577.1 | + | 159369 | 0.7 | 0.798757 |
|
Target: 5'- -gAGCUUG-CCGUGGUGCGCCcaguucaggggguucGCCUUc -3' miRNA: 3'- uaUCGAAUaGGCGCUAUGCGG---------------CGGGG- -5' |
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| 9598 | 5' | -54.9 | NC_002577.1 | + | 161674 | 0.69 | 0.830251 |
|
Target: 5'- -aGGCc-GUCUGCGAcguuUGCCGCUCCg -3' miRNA: 3'- uaUCGaaUAGGCGCUau--GCGGCGGGG- -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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