miRNA: 3'- uUCGUg------UGGUGGugUCUGAgaCUgGG- -5'
miRNA: 3'- -UUCGUG--UGGUGGUGUC---UGagaCUGGG- -5'
miRNA: 3'- uuCGUGUGGUGGUGu---CugAGA--CUGGG- -5'
miRNA: 3'- -UUCG-----UGUGGUGG--------------UGUCUGAGa--CUGGG- -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 | |||||||
| 9683 | 5' | -55 | NC_002577.1 | + | 46646 | 0.7 | 0.735488 |
|
Target: 5'- cGGCAauaucuaACCACCugAGACUgaGAgCCa -3' miRNA: 3'- uUCGUg------UGGUGGugUCUGAgaCUgGG- -5' |
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| 9683 | 5' | -55 | NC_002577.1 | + | 87449 | 0.69 | 0.802043 |
|
Target: 5'- aGAGCAUcuGCCGCCAUAGcauACga-GACCCg -3' miRNA: 3'- -UUCGUG--UGGUGGUGUC---UGagaCUGGG- -5' |
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| 9683 | 5' | -55 | NC_002577.1 | + | 137980 | 0.69 | 0.819778 |
|
Target: 5'- -cGCACAUCGCCGCcagcGugUCUauGACUCg -3' miRNA: 3'- uuCGUGUGGUGGUGu---CugAGA--CUGGG- -5' |
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| 9683 | 5' | -55 | NC_002577.1 | + | 11237 | 0.66 | 0.930509 |
|
Target: 5'- gGGGCuagaaACGCCGCCccccucccacggggGCGGAUUCgggGACCUc -3' miRNA: 3'- -UUCG-----UGUGGUGG--------------UGUCUGAGa--CUGGG- -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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