miRNA: 3'- -GCCU---AGcGGCUC-AAGCa-GgUGAUGCG- -5'
miRNA: 3'- gCCUaGCG-GCUCA-----------AGCAGGUGauGCG- -5'
miRNA: 3'- gCCUAGCGGCucaaGCaGGUGaUGCg -5'
miRNA: 3'- -GCCUA--------------GCGGCUCa--AGCaGGUGa---UGCG- -5'
Results 121 - 124 of 124 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 | |||||||
| 8995 | 3' | -53.8 | NC_002512.2 | + | 165473 | 0.66 | 0.986758 |
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Target: 5'- uCGGAagaUC-CCGAGuUUCGggUgGCUGCGCg -3' miRNA: 3'- -GCCU---AGcGGCUC-AAGCa-GgUGAUGCG- -5' |
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| 8995 | 3' | -53.8 | NC_002512.2 | + | 146505 | 0.66 | 0.988238 |
|
Target: 5'- gGGA-CGCgCGGGUcuccgcgacgaUCGUCCACauCGCc -3' miRNA: 3'- gCCUaGCG-GCUCA-----------AGCAGGUGauGCG- -5' |
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| 8995 | 3' | -53.8 | NC_002512.2 | + | 157081 | 0.66 | 0.988238 |
|
Target: 5'- gGGGUCGCCGg---CGcCCACgGCGg -3' miRNA: 3'- gCCUAGCGGCucaaGCaGGUGaUGCg -5' |
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| 8995 | 3' | -53.8 | NC_002512.2 | + | 226669 | 0.65 | 0.992629 |
|
Target: 5'- cCGGGUccagacucucugagCGCCGGGccgUCGcCCGCggcgGCGUc -3' miRNA: 3'- -GCCUA--------------GCGGCUCa--AGCaGGUGa---UGCG- -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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