miRNA: 3'- -CUGgCUCGCaUGg--UGCCAGCUa----AGCU- -5'
miRNA: 3'- -CUGGCUCGCA---UGG---UGCCaGCuaAGCu -5'
miRNA: 3'- -CUGGCucGCaUGGUGCCagCUAAGCu -5'
miRNA: 3'- cugGCUCGCa----UGGUGCCa--GCuAAGCU- -5'
miRNA: 3'- -CUGgCUCGCaUGGugCCaGCUAAGCU- -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 | |||||||
| 9376 | 5' | -53.9 | NC_002512.2 | + | 89644 | 0.66 | 0.98687 |
|
Target: 5'- cGACgGGGCGgACgaaGCGGUCGAcguacUCGAc -3' miRNA: 3'- -CUGgCUCGCaUGg--UGCCAGCUa----AGCU- -5' |
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| 9376 | 5' | -53.9 | NC_002512.2 | + | 87835 | 0.69 | 0.944064 |
|
Target: 5'- cGGCCGGGCGUcggGCCcucGCGG-CGggUCGc -3' miRNA: 3'- -CUGGCUCGCA---UGG---UGCCaGCuaAGCu -5' |
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| 9376 | 5' | -53.9 | NC_002512.2 | + | 78328 | 0.66 | 0.985254 |
|
Target: 5'- cGACCGucCGgACCGCGGaaGGUUCGu -3' miRNA: 3'- -CUGGCucGCaUGGUGCCagCUAAGCu -5' |
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| 9376 | 5' | -53.9 | NC_002512.2 | + | 74654 | 0.67 | 0.979493 |
|
Target: 5'- --aCGGGCGggacgGCCGCGGgcgCGuUUCGGu -3' miRNA: 3'- cugGCUCGCa----UGGUGCCa--GCuAAGCU- -5' |
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| 9376 | 5' | -53.9 | NC_002512.2 | + | 32899 | 0.67 | 0.979493 |
|
Target: 5'- cGACaGGGCGaACUggGGcCGAUUCGAg -3' miRNA: 3'- -CUGgCUCGCaUGGugCCaGCUAAGCU- -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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