miRNA: 3'- aUAUCGCGUCCCGUUGC--------CAGcCGaCG- -5'
miRNA: 3'- auaUCGCG---UCCCG-UUGCCAGCCGa-----CG- -5'
miRNA: 3'- auaUCGCGUCCCGU--UGCC-------AGCCgACG- -5'
miRNA: 3'- aUAUCGCGuCCCGU---UGCCAGCCGa--CG- -5'
miRNA: 3'- -AUAUCGCGUCCCGUUGCCAGCCGACG- -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 | |||||||
| 23044 | 5' | -57.1 | NC_005178.1 | + | 23711 | 0.75 | 0.120599 |
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Target: 5'- gGUGGCGCAGGGCGACGagaucgacGUCaGUcGCg -3' miRNA: 3'- aUAUCGCGUCCCGUUGC--------CAGcCGaCG- -5' |
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| 23044 | 5' | -57.1 | NC_005178.1 | + | 28145 | 0.78 | 0.073305 |
|
Target: 5'- --cGGCGCccaGGGGCuGACGGUCGGCgccucgGCu -3' miRNA: 3'- auaUCGCG---UCCCG-UUGCCAGCCGa-----CG- -5' |
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| 23044 | 5' | -57.1 | NC_005178.1 | + | 12814 | 0.78 | 0.068876 |
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Target: 5'- --cGGCGCAGGGCGucGCGGguuuccuUCGGgUGCg -3' miRNA: 3'- auaUCGCGUCCCGU--UGCC-------AGCCgACG- -5' |
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| 23044 | 5' | -57.1 | NC_005178.1 | + | 4534 | 0.83 | 0.032601 |
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Target: 5'- gGUAGCGCuGGGCGggaGCGGUCGGCaggGUg -3' miRNA: 3'- aUAUCGCGuCCCGU---UGCCAGCCGa--CG- -5' |
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| 23044 | 5' | -57.1 | NC_005178.1 | + | 24465 | 1.1 | 0.000255 |
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Target: 5'- uUAUAGCGCAGGGCAACGGUCGGCUGCg -3' miRNA: 3'- -AUAUCGCGUCCCGUUGCCAGCCGACG- -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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