miRNA: 3'- ugaCCC-------------CCGCGGUUG-CgGACGgCCGG- -5'
miRNA: 3'- ugaCCcCCGCGguUGCGG-ACGGCCGG- -5'
miRNA: 3'- -UGACCc---CCG-CGGUu--------GCGGA--CGGCCGg -5'
miRNA: 3'- -UGacCCCCGCGGUUgCGgACGGc---CGG- -5'
miRNA: 3'- uGACCCCCGCGGUugCGgACggcCGg -5'
Results 21 - 25 of 25 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 | |||||||
| 12454 | 3' | -64.7 | NC_003324.1 | + | 48724 | 0.67 | 0.247732 |
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Target: 5'- --aGGGcgccaaccgcgucGGCGCCAGCaGgCUGCaGGCCa -3' miRNA: 3'- ugaCCC-------------CCGCGGUUG-CgGACGgCCGG- -5' |
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| 12454 | 3' | -64.7 | NC_003324.1 | + | 7631 | 0.67 | 0.254443 |
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Target: 5'- --cGGaGGCGU--GCGCCuUGCUGGCCc -3' miRNA: 3'- ugaCCcCCGCGguUGCGG-ACGGCCGG- -5' |
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| 12454 | 3' | -64.7 | NC_003324.1 | + | 32449 | 0.67 | 0.254443 |
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Target: 5'- cGCUGGcaacGGCaGCCAugcccucguCGCCUucGCCGGCa -3' miRNA: 3'- -UGACCc---CCG-CGGUu--------GCGGA--CGGCCGg -5' |
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| 12454 | 3' | -64.7 | NC_003324.1 | + | 46742 | 0.66 | 0.280107 |
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Target: 5'- aGCacGGGGCGCCGAgGUgUGCCccgcGCUa -3' miRNA: 3'- -UGacCCCCGCGGUUgCGgACGGc---CGG- -5' |
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| 12454 | 3' | -64.7 | NC_003324.1 | + | 41818 | 0.66 | 0.286836 |
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Target: 5'- gUUGGGGGUGCCGugGCgUGaucGCa -3' miRNA: 3'- uGACCCCCGCGGUugCGgACggcCGg -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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