miRNA: 3'- -CGCGCCGACCGCCACGAGUUUGCGUG- -5'
miRNA: 3'- -CGCGCCG--ACCg---CCACGAGU---UUGCGUG- -5'
miRNA: 3'- -CGCgCCG-ACCGCCACgaguuUGCGug -5'
miRNA: 3'- cgCGCCGACCGCca---CgaGUUUgCGUG- -5'
miRNA: 3'- -CGCgCCg-----ACCGCCACGAg--UUUgCGUG- -5'
Results 21 - 25 of 25 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 | |||||||
| 415 | 3' | -58.1 | AC_000011.1 | + | 24154 | 1.12 | 0.000162 |
|
Target: 5'- cGCGCGGCUGGCGGUGCUCAAACGCACg -3' miRNA: 3'- -CGCGCCGACCGCCACGAGUUUGCGUG- -5' |
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| 415 | 3' | -58.1 | AC_000011.1 | + | 24236 | 0.83 | 0.026001 |
|
Target: 5'- aGCGCGGUcaUGGaccaGGUGCUCAucaAGCGCGCg -3' miRNA: 3'- -CGCGCCG--ACCg---CCACGAGU---UUGCGUG- -5' |
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| 415 | 3' | -58.1 | AC_000011.1 | + | 26648 | 0.66 | 0.445513 |
|
Target: 5'- uGCGgGGCgUGGCGGUGa----GCGCu- -3' miRNA: 3'- -CGCgCCG-ACCGCCACgaguuUGCGug -5' |
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| 415 | 3' | -58.1 | AC_000011.1 | + | 26785 | 0.67 | 0.379002 |
|
Target: 5'- -aGCGGCUGGUGauccgGggCAGAgGCACa -3' miRNA: 3'- cgCGCCGACCGCca---CgaGUUUgCGUG- -5' |
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| 415 | 3' | -58.1 | AC_000011.1 | + | 30443 | 0.69 | 0.26726 |
|
Target: 5'- aGCGaGGagagauUGGCGGUGCUagaGAAgGCACu -3' miRNA: 3'- -CGCgCCg-----ACCGCCACGAg--UUUgCGUG- -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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