miRNA: 3'- aCGCGUGuuguaaaCCGU---AC-GCUACG- -5'
miRNA: 3'- aCGCG--UGUUGUaaa-CCGUaCGCUa-CG- -5'
miRNA: 3'- -ACGC-GUGUUGUAA--------ACCGUacgCUACG- -5'
miRNA: 3'- aCGCGUG-----UUGUaAACCG--UACGC-UACG- -5'
miRNA: 3'- aCGCGUGUUgUaa-ACCGuACGCUa--CG- -5'
Results 41 - 45 of 45 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 | |||||||
| 12497 | 3' | -49.4 | NC_003324.1 | + | 7332 | 0.67 | 0.934014 |
|
Target: 5'- cGCGCGCcgag---GGCAcgcUGaCGAUGCg -3' miRNA: 3'- aCGCGUGuuguaaaCCGU---AC-GCUACG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 5280 | 0.66 | 0.949608 |
|
Target: 5'- cGCGCcaGCGAUAgaggGGUAaGCGAggGCa -3' miRNA: 3'- aCGCG--UGUUGUaaa-CCGUaCGCUa-CG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 4271 | 0.66 | 0.954207 |
|
Target: 5'- aUGCGcCACGGCGUUuccgccggUGGCAa--GAUGUc -3' miRNA: 3'- -ACGC-GUGUUGUAA--------ACCGUacgCUACG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 1999 | 0.68 | 0.886965 |
|
Target: 5'- aGCGCAUucucuGACA-UUGGCuuGUGUGcAUGCc -3' miRNA: 3'- aCGCGUG-----UUGUaAACCG--UACGC-UACG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 143 | 0.71 | 0.764746 |
|
Target: 5'- gGCGCAUAAgAgcgUGGC-UGCGGcagGCa -3' miRNA: 3'- aCGCGUGUUgUaa-ACCGuACGCUa--CG- -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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