miRNA: 3'- gGCCGCAg--GCGGCUg----------UGCUgGGCCAU- -5'
miRNA: 3'- -GGCCGc-AGgCgGCUGUGCuGGGCCAU- -5'
miRNA: 3'- gGCCGCaGGC------GGCUG--UGCUGGGCCau -5'
miRNA: 3'- -GGC-CGCag----GCGGCUG-UGCUGGGccau -5'
miRNA: 3'- ggCCGCAGg------CGGCUGuGCU-GGGCCAu -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
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| Predicted miRNA align pattern | |||||||
| 8073 | 3' | -61.8 | NC_001978.2 | + | 740 | 0.66 | 0.356412 |
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Target: 5'- uUGGCGUaggCGCCGAaggugaagccgACGAgCCGGUAa -3' miRNA: 3'- gGCCGCAg--GCGGCUg----------UGCUgGGCCAU- -5' |
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| 8073 | 3' | -61.8 | NC_001978.2 | + | 22617 | 0.66 | 0.356412 |
|
Target: 5'- aCCGGCacUCaG-CGACGCG-CCCGGUAg -3' miRNA: 3'- -GGCCGc-AGgCgGCUGUGCuGGGCCAU- -5' |
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| 8073 | 3' | -61.8 | NC_001978.2 | + | 32471 | 0.66 | 0.364656 |
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Target: 5'- aCGGUG-CCGacucgaCCGACugACGACCUGGg- -3' miRNA: 3'- gGCCGCaGGC------GGCUG--UGCUGGGCCau -5' |
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| 8073 | 3' | -61.8 | NC_001978.2 | + | 33872 | 0.66 | 0.373031 |
|
Target: 5'- aCCGuGCGcguguaCGCCGACgACGACCCu--- -3' miRNA: 3'- -GGC-CGCag----GCGGCUG-UGCUGGGccau -5' |
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| 8073 | 3' | -61.8 | NC_001978.2 | + | 32713 | 0.66 | 0.373031 |
|
Target: 5'- -gGGCGUCagcgucaGUCGGC-CGGuCCCGGUu -3' miRNA: 3'- ggCCGCAGg------CGGCUGuGCU-GGGCCAu -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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