miRNA: 3'- cAUGCGcCAUaGGag--CGCCAGGUGUc -5'
miRNA: 3'- caugCGCCAUAGGaGCGCCAGGuguc -5'
miRNA: 3'- caUGCGCCa-UAGGAGCGCCag-GUGUC- -5'
miRNA: 3'- -CAUGCGCCAUAGGAGCGCCAGGUGUC- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 174 | 5' | -55.9 | AC_000007.1 | + | 18613 | 0.66 | 0.534283 |
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Target: 5'- cUGCGCcGUG-CCgccaGCGGUCCGCGa -3' miRNA: 3'- cAUGCGcCAUaGGag--CGCCAGGUGUc -5' |
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| 174 | 5' | -55.9 | AC_000007.1 | + | 5777 | 0.68 | 0.420469 |
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Target: 5'- ---aGCGGUGUUC-CGCGGUCCu--- -3' miRNA: 3'- caugCGCCAUAGGaGCGCCAGGuguc -5' |
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| 174 | 5' | -55.9 | AC_000007.1 | + | 9497 | 0.72 | 0.255911 |
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Target: 5'- -gGCGCGGccGUUCUCGCGGgggCGCAGu -3' miRNA: 3'- caUGCGCCa-UAGGAGCGCCag-GUGUC- -5' |
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| 174 | 5' | -55.9 | AC_000007.1 | + | 19088 | 1.09 | 0.000489 |
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Target: 5'- aGUACGCGGUAUCCUCGCGGUCCACAGg -3' miRNA: 3'- -CAUGCGCCAUAGGAGCGCCAGGUGUC- -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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