miRNA: 3'- uuAGCUGCCGc--GACaACGCG--------AGUAGU- -5'
miRNA: 3'- uuaGCUGCCGCGACaa-CGCGaGUa-GU- -5'
miRNA: 3'- uuAGCUGC-CGCGAcaaCGC-GAGUAGU- -5'
miRNA: 3'- -UUAGCUGCCGCGAcAACGcGAGUagu -5'
miRNA: 3'- uuAGC------UGCCGCGACAaCGCGAGUAgu -5'
Results 1 - 5 of 5 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 | |||||||
| 12195 | 3' | -54.4 | NC_003309.1 | + | 46442 | 0.66 | 0.718445 |
|
Target: 5'- -uUCGGCGGCcucCUG-UGCGCuuuccgcgUCGUCAa -3' miRNA: 3'- uuAGCUGCCGc--GACaACGCG--------AGUAGU- -5' |
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| 12195 | 3' | -54.4 | NC_003309.1 | + | 22642 | 0.68 | 0.572976 |
|
Target: 5'- --cCGGCGGCGCUGgaaGCGC-CGggCAc -3' miRNA: 3'- uuaGCUGCCGCGACaa-CGCGaGUa-GU- -5' |
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| 12195 | 3' | -54.4 | NC_003309.1 | + | 7402 | 0.69 | 0.528925 |
|
Target: 5'- -uUCGGCGcGCGCUuacGCGcCUCGUCAc -3' miRNA: 3'- uuAGCUGC-CGCGAcaaCGC-GAGUAGU- -5' |
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| 12195 | 3' | -54.4 | NC_003309.1 | + | 28413 | 0.7 | 0.496723 |
|
Target: 5'- uAAUCGGCGGCGCU-UUGCcCUCGg-- -3' miRNA: 3'- -UUAGCUGCCGCGAcAACGcGAGUagu -5' |
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| 12195 | 3' | -54.4 | NC_003309.1 | + | 1258 | 0.72 | 0.351806 |
|
Target: 5'- -uUCGuacagcGCGGCGCUGUcGUGCUCGUg- -3' miRNA: 3'- uuAGC------UGCCGCGACAaCGCGAGUAgu -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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