miRNA: 3'- -UCGUCGUa--CGCUGA-G---------AAACAGAaa-UG- -5'
miRNA: 3'- uCGU--------CGU--------ACGCUGAGAaACAGAaAUG- -5'
miRNA: 3'- -UCGUCGUa--------CGCUGaga-AACAGaaAUG- -5'
miRNA: 3'- -UCGUCGUACGCUGAGAAACAGAAAUG- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 11676 | 3' | -47.4 | NC_003102.1 | + | 33101 | 0.66 | 0.99892 |
|
Target: 5'- cGGCGGCGgcgGCGACUgCacggcguugUUUGUCUcugACg -3' miRNA: 3'- -UCGUCGUa--CGCUGA-G---------AAACAGAaa-UG- -5' |
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| 11676 | 3' | -47.4 | NC_003102.1 | + | 40071 | 0.67 | 0.998387 |
|
Target: 5'- cGCAuagauaacGCAaacuguucUGCGACUCUcUGUCUcUGCc -3' miRNA: 3'- uCGU--------CGU--------ACGCUGAGAaACAGAaAUG- -5' |
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| 11676 | 3' | -47.4 | NC_003102.1 | + | 102033 | 0.66 | 0.999436 |
|
Target: 5'- cGGCGGCGguggcggugGCGGCggugUUGUCggUGCc -3' miRNA: 3'- -UCGUCGUa--------CGCUGaga-AACAGaaAUG- -5' |
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| 11676 | 3' | -47.4 | NC_003102.1 | + | 102483 | 1.1 | 0.012911 |
|
Target: 5'- cAGCAGCAUGCGACUCUUUGUCUUUACc -3' miRNA: 3'- -UCGUCGUACGCUGAGAAACAGAAAUG- -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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