miRNA: 3'- uGUACUcGCGUUGG-----CCCGCGA-AGGUU- -5'
miRNA: 3'- uGUACu-CGcGUUGGCCCGCGa--AGGuu -5'
miRNA: 3'- -UGUaCUcGCGUUGG-CCCGCGa----AGGUU- -5'
miRNA: 3'- uGuaCUCGCGUUGGCCCg----CgaAGGUu -5'
miRNA: 3'- -UGuACUCGCGuugGCCCGCGa--------AGGUu -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 |
| Predicted miRNA align pattern | |||||||
| 9376 | 3' | -57.2 | NC_002512.2 | + | 198544 | 0.67 | 0.866178 |
|
Target: 5'- uCGUGGuCGUAGCCggccaGGGCGCUgUCCAGg -3' miRNA: 3'- uGUACUcGCGUUGG-----CCCGCGA-AGGUU- -5' |
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| 9376 | 3' | -57.2 | NC_002512.2 | + | 209946 | 0.68 | 0.792308 |
|
Target: 5'- uCGUGcuGCuCGACCGGGCGCgggUCCu- -3' miRNA: 3'- uGUACu-CGcGUUGGCCCGCGa--AGGuu -5' |
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| 9376 | 3' | -57.2 | NC_002512.2 | + | 221440 | 0.67 | 0.843161 |
|
Target: 5'- uGCG-GAcCGCGGCCgGGGCGCggucgUCCGAc -3' miRNA: 3'- -UGUaCUcGCGUUGG-CCCGCGa----AGGUU- -5' |
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| 9376 | 3' | -57.2 | NC_002512.2 | + | 225749 | 0.68 | 0.809905 |
|
Target: 5'- gUcgGGGCGCGGCCGGGacaugGgaUCCAu -3' miRNA: 3'- uGuaCUCGCGUUGGCCCg----CgaAGGUu -5' |
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| 9376 | 3' | -57.2 | NC_002512.2 | + | 228132 | 0.66 | 0.880511 |
|
Target: 5'- uGC-UGGGCGCcgaCGGGCGCgagcucaggUCCAc -3' miRNA: 3'- -UGuACUCGCGuugGCCCGCGa--------AGGUu -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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