miRNA: 3'- caGCGUUUCCUGg----CCc-UGGUGGCAgC- -5'
miRNA: 3'- caGCGuUUC-CUGGcCCUGGUGGCAgc -5'
miRNA: 3'- caGCGuuuCC-UGGCCCu----GGUGGCAGc -5'
miRNA: 3'- -CAgCGUUUCCU---GGcCCUGGUGGC-AGc -5'
miRNA: 3'- -CAGCGUUUCCUGGCCCUGGUGGCAGC- -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 | |||||||
| 1612 | 3' | -57.4 | NC_001347.2 | + | 124760 | 0.68 | 0.84793 |
|
Target: 5'- -aCGCGGAGGACagcaaGGccGCCGCCGUgGg -3' miRNA: 3'- caGCGUUUCCUGg----CCc-UGGUGGCAgC- -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 13523 | 0.67 | 0.914293 |
|
Target: 5'- -cCGCcGGGcGGCCcGGGCCGCCGUg- -3' miRNA: 3'- caGCGuUUC-CUGGcCCUGGUGGCAgc -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 202777 | 0.67 | 0.914293 |
|
Target: 5'- -gCGCu--GGuACUGGGuuguuCCACCGUCa -3' miRNA: 3'- caGCGuuuCC-UGGCCCu----GGUGGCAGc -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 208346 | 0.67 | 0.902669 |
|
Target: 5'- gGUgGCAGAGGGaggUCaGGGCCACCGaUCc -3' miRNA: 3'- -CAgCGUUUCCU---GGcCCUGGUGGC-AGc -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 148177 | 1.08 | 0.004626 |
|
Target: 5'- gGUCGCAAAGGACCGGGACCACCGUCGu -3' miRNA: 3'- -CAGCGUUUCCUGGCCCUGGUGGCAGC- -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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