miRNA: 3'- aCguCUC------------CCGCU------------GCAGCUCUGCUAGc -5'
miRNA: 3'- aCGUCU----------CCCGCUGCAGC----UCUGcu--AGC- -5'
miRNA: 3'- aCGu-CUCCCGCUGCAG------CUCU----GCUAGC- -5'
miRNA: 3'- aCGu-CucCCGCUGCAGCUcUGCUAGC- -5'
Results 41 - 44 of 44 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 | |||||||
| 16385 | 3' | -56.2 | NC_004084.1 | + | 52643 | 0.7 | 0.448185 |
|
Target: 5'- gGguGAGugccucggcugcGGCGAgacggagaucguCGUCGAGGCGAUCa -3' miRNA: 3'- aCguCUC------------CCGCU------------GCAGCUCUGCUAGc -5' |
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| 16385 | 3' | -56.2 | NC_004084.1 | + | 56823 | 0.69 | 0.518139 |
|
Target: 5'- aGCAGAgcucccagccGGGCGACGUCGuccuGGACccguUCGc -3' miRNA: 3'- aCGUCU----------CCCGCUGCAGC----UCUGcu--AGC- -5' |
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| 16385 | 3' | -56.2 | NC_004084.1 | + | 56924 | 0.73 | 0.310501 |
|
Target: 5'- aGCucGAGGGCGACGUCuaccagGAGGucguCGAUCGc -3' miRNA: 3'- aCGu-CUCCCGCUGCAG------CUCU----GCUAGC- -5' |
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| 16385 | 3' | -56.2 | NC_004084.1 | + | 57487 | 0.74 | 0.261223 |
|
Target: 5'- aGCucGccGGCGACGUCGAcGCGAUCGg -3' miRNA: 3'- aCGu-CucCCGCUGCAGCUcUGCUAGC- -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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