miRNA: 3'- aAGCaGCUGuAGCgCGAGCUCG--UCaa -5'
miRNA: 3'- aAGC---AGCUGuaGCGCGAGCU-CGUCAa -5'
miRNA: 3'- aAGCAGc----UGUAGCGCGa--GCUCGUcaa -5'
miRNA: 3'- aaGCAGCUGUAGCGCGAGcUC-GUCaa -5'
miRNA: 3'- -AAgCAGCUGUAGCGCG--AGC-UCGUcaa -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 | |||||||
| 24280 | 5' | -55.3 | NC_005263.2 | + | 10207 | 0.66 | 0.657835 |
|
Target: 5'- cUCGcCGGCcUCGgGCUCGAGUccAGa- -3' miRNA: 3'- aAGCaGCUGuAGCgCGAGCUCG--UCaa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 6609 | 0.72 | 0.314376 |
|
Target: 5'- aUCGcguUCGGCggCGCGCUCGGcGCGGUc -3' miRNA: 3'- aAGC---AGCUGuaGCGCGAGCU-CGUCAa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 4722 | 0.67 | 0.578938 |
|
Target: 5'- cUCGUCcggguACGUCGCGCccgCGAGCAc-- -3' miRNA: 3'- aAGCAGc----UGUAGCGCGa--GCUCGUcaa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 3770 | 0.68 | 0.491621 |
|
Target: 5'- -aUGUCGACGUCGCGUUCuGGuCGGc- -3' miRNA: 3'- aaGCAGCUGUAGCGCGAGcUC-GUCaa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 913 | 0.67 | 0.534652 |
|
Target: 5'- gUUgGUCGGCAUCGCGUccUCGuAGCGu-- -3' miRNA: 3'- -AAgCAGCUGUAGCGCG--AGC-UCGUcaa -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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