miRNA: 3'- gcuCCGGCGG----UGgGUGG---GUGGCCGGG- -5'
miRNA: 3'- -GCU--CCGG---------CGG-UGGgUGGGUGGCC-GGG- -5'
miRNA: 3'- gcuCCGGCGGugGGUGGG---------------UGG-CCGgG- -5'
miRNA: 3'- gcucCGGCGGUGGG-UGgGugGCCGGg -5'
Results 61 - 64 of 64 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 | |||||||
| 27998 | 5' | -65.7 | NC_005887.1 | + | 1003 | 0.66 | 0.215009 |
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Target: 5'- --cGGCCGCCgugcGCgCGCUguaCACCGGCUUg -3' miRNA: 3'- gcuCCGGCGG----UGgGUGG---GUGGCCGGG- -5' |
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| 27998 | 5' | -65.7 | NC_005887.1 | + | 25849 | 0.66 | 0.225988 |
|
Target: 5'- gCGAucGGCCugcgacaucGCCgACCaGCCCGCCGGaUCCu -3' miRNA: 3'- -GCU--CCGG---------CGG-UGGgUGGGUGGCC-GGG- -5' |
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| 27998 | 5' | -65.7 | NC_005887.1 | + | 39656 | 0.66 | 0.22824 |
|
Target: 5'- --cGGCCGCUugCCGCCCguacgcuucacgcgcACCaGGUgCu -3' miRNA: 3'- gcuCCGGCGGugGGUGGG---------------UGG-CCGgG- -5' |
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| 27998 | 5' | -65.7 | NC_005887.1 | + | 5835 | 0.66 | 0.231654 |
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Target: 5'- ---uGCCGCCGCCCgAUgCugCGGUCg -3' miRNA: 3'- gcucCGGCGGUGGG-UGgGugGCCGGg -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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