miRNA: 3'- uUGACa--CACCGU-----CACcGGCUGUGAac -5'
miRNA: 3'- -UUGACAcAC-CGUCACCGgCUgUGAAC- -5'
miRNA: 3'- uuGACACACCG---UCACC-----GGCugUGAAC- -5'
miRNA: 3'- -UUGACACACCGUCACCGGCUGUGAAC- -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 | |||||||
| 33672 | 5' | -55.1 | NC_011451.1 | + | 2686 | 0.66 | 0.190351 |
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Target: 5'- uGCUGgacGUGGCAgaagcGUGcCCGACACUg- -3' miRNA: 3'- uUGACa--CACCGU-----CACcGGCUGUGAac -5' |
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| 33672 | 5' | -55.1 | NC_011451.1 | + | 5273 | 0.67 | 0.137858 |
|
Target: 5'- aGGCUGU-UGaGCGGUGGCaGAgGCUUGa -3' miRNA: 3'- -UUGACAcAC-CGUCACCGgCUgUGAAC- -5' |
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| 33672 | 5' | -55.1 | NC_011451.1 | + | 1988 | 0.68 | 0.133409 |
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Target: 5'- -uUUGUGUGGUcgaGGUGGuaguaCCGugACUUGu -3' miRNA: 3'- uuGACACACCG---UCACC-----GGCugUGAAC- -5' |
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| 33672 | 5' | -55.1 | NC_011451.1 | + | 2253 | 1.05 | 9.6e-05 |
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Target: 5'- aAACUGUGUGGCAGUGGCCGACACUUGc -3' miRNA: 3'- -UUGACACACCGUCACCGGCUGUGAAC- -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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