miRNA: 3'- -CGGAAUACUUCCCCAGAAAGUUAUGU- -5'
miRNA: 3'- -CGGAauacuUCCCCAGAAAGUUAUGu -5'
miRNA: 3'- -CGGAAUACUUCCCCAGAAAGUuaugu -5'
miRNA: 3'- -CGGAauacuUCCCCAGAAAGUuAugU- -5'
Results 1 - 4 of 4 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 | |||||||
| 3210 | 3' | -44.8 | NC_001506.1 | + | 3400 | 1.14 | 0.000138 |
|
Target: 5'- aGCCUUAUGAAGGGGUCUUUCAAUACAg -3' miRNA: 3'- -CGGAAUACUUCCCCAGAAAGUUAUGU- -5' |
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| 3210 | 3' | -44.8 | NC_001506.1 | + | 3339 | 0.79 | 0.065543 |
|
Target: 5'- aGCCU-----GGGGGUCUUUCAGUAUg -3' miRNA: 3'- -CGGAauacuUCCCCAGAAAGUUAUGu -5' |
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| 3210 | 3' | -44.8 | NC_001506.1 | + | 2807 | 0.97 | 0.002877 |
|
Target: 5'- aGCCUUAUGAAGGGGUCUUUCAu---- -3' miRNA: 3'- -CGGAAUACUUCCCCAGAAAGUuaugu -5' |
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| 3210 | 3' | -44.8 | NC_001506.1 | + | 126 | 0.7 | 0.266323 |
|
Target: 5'- aGCCU-----GGGGGUCUUUCAuUugGg -3' miRNA: 3'- -CGGAauacuUCCCCAGAAAGUuAugU- -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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