miRNA: 3'- -UUUCUUUCCUUUGCUGUCCACGACUU- -5'
miRNA: 3'- uuUCUU--UCC-UUUGCUGUCCaCGACUu -5'
miRNA: 3'- uuuCUUUCCuuUGCUGUC-CACGAcuu -5'
miRNA: 3'- uuUCUuu----CCUUUGCUGUCCaCGACuu -5'
miRNA: 3'- -UUUCUUUCCUUUGCUGUC-CaCGacuu -5'
Results 1 - 5 of 5 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 | |||||||
| 2365 | 3' | -48.3 | NC_001416.1 | + | 106 | 1.04 | 0.006586 |
|
Target: 5'- aAAAGAAAGGAAACGACAGGUGCUGAAa -3' miRNA: 3'- -UUUCUUUCCUUUGCUGUCCACGACUU- -5' |
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| 2365 | 3' | -48.3 | NC_001416.1 | + | 11043 | 0.71 | 0.740882 |
|
Target: 5'- -cAGAGccGGGcAGGCGGCAGG-GCUGAc -3' miRNA: 3'- uuUCUU--UCC-UUUGCUGUCCaCGACUu -5' |
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| 2365 | 3' | -48.3 | NC_001416.1 | + | 8285 | 0.68 | 0.873081 |
|
Target: 5'- --uGAAAGGugGCGGCAGcGUGCUu-- -3' miRNA: 3'- uuuCUUUCCuuUGCUGUC-CACGAcuu -5' |
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| 2365 | 3' | -48.3 | NC_001416.1 | + | 14578 | 0.68 | 0.889577 |
|
Target: 5'- -uGGAuaaucuGGAGGCGACGGG-GCUGu- -3' miRNA: 3'- uuUCUuu----CCUUUGCUGUCCaCGACuu -5' |
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| 2365 | 3' | -48.3 | NC_001416.1 | + | 217 | 0.72 | 0.682454 |
|
Target: 5'- cAGAGAAAGGAAACGACAGaG-GCc--- -3' miRNA: 3'- -UUUCUUUCCUUUGCUGUC-CaCGacuu -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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