miRNA: 3'- -CCCACUG----UCUCGGUGgAGGAGG-AGac -5'
miRNA: 3'- ccCACUGUC-UCGGUGGAGGAgGa-GAC- -5'
miRNA: 3'- cCCac-UGUCuCGGUGGAGGAGGagac -5'
miRNA: 3'- -CCCa--CUGUCUCGG---UGGaGGA-GGAGAc -5'
miRNA: 3'- -CCCa----CUGUCu----CGGu-GGa-GGAGGAGAC- -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 | |||||||
| 9170 | 5' | -57.7 | NC_002512.2 | + | 222221 | 0.72 | 0.619105 |
|
Target: 5'- gGGGUGGCcgucGGGGCCGCgUCCUUCgUCg- -3' miRNA: 3'- -CCCACUG----UCUCGGUGgAGGAGG-AGac -5' |
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| 9170 | 5' | -57.7 | NC_002512.2 | + | 222493 | 0.66 | 0.903301 |
|
Target: 5'- -cGUGGCGGuGGCCGCCUUCUgCgcCUGg -3' miRNA: 3'- ccCACUGUC-UCGGUGGAGGAgGa-GAC- -5' |
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| 9170 | 5' | -57.7 | NC_002512.2 | + | 225299 | 0.66 | 0.897143 |
|
Target: 5'- cGGcccGCGGcGCCGCCUCCUCCg--- -3' miRNA: 3'- cCCac-UGUCuCGGUGGAGGAGGagac -5' |
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| 9170 | 5' | -57.7 | NC_002512.2 | + | 228669 | 0.72 | 0.628956 |
|
Target: 5'- cGGGgagGACGGGGCCgggGCCgCCUuCCUCUc -3' miRNA: 3'- -CCCa--CUGUCUCGG---UGGaGGA-GGAGAc -5' |
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| 9170 | 5' | -57.7 | NC_002512.2 | + | 229697 | 0.67 | 0.89077 |
|
Target: 5'- gGGGgccagGGCAGcccacGCCcuCCggCCUCCUCUGc -3' miRNA: 3'- -CCCa----CUGUCu----CGGu-GGa-GGAGGAGAC- -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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