miRNA: 3'- aCGACGUG--CUG---UGCCGGCGCaGGgAC- -5'
miRNA: 3'- aCGACGu----GCUG---------------UGC-CGGCGCAG-GGac -5'
miRNA: 3'- -ACGACGUGCUGUGCCGg----CG--CAGgGAC- -5'
miRNA: 3'- -ACGaCGUGCUG----------UGC-CGGCGC---AGGGac -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 |
| Predicted miRNA align pattern | |||||||
| 24096 | 5' | -60.8 | NC_005262.1 | + | 62367 | 0.71 | 0.229316 |
|
Target: 5'- cGCUGCGCucGACgaaGCGGCCGCGgUCgUGg -3' miRNA: 3'- aCGACGUG--CUG---UGCCGGCGCaGGgAC- -5' |
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| 24096 | 5' | -60.8 | NC_005262.1 | + | 63296 | 0.66 | 0.444465 |
|
Target: 5'- gGCUGCuggcuCGGCgucgacguggaacacGCGcGCCGCGUCgCCg- -3' miRNA: 3'- aCGACGu----GCUG---------------UGC-CGGCGCAG-GGac -5' |
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| 24096 | 5' | -60.8 | NC_005262.1 | + | 63626 | 0.73 | 0.173078 |
|
Target: 5'- cUGCUGUACGACAUGGCaaaaaGCauGUCgCUGu -3' miRNA: 3'- -ACGACGUGCUGUGCCGg----CG--CAGgGAC- -5' |
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| 24096 | 5' | -60.8 | NC_005262.1 | + | 63718 | 0.66 | 0.431472 |
|
Target: 5'- gUGCgGCGCGGCcgacuucuucGCGaGCCGCGgccUCCCc- -3' miRNA: 3'- -ACGaCGUGCUG----------UGC-CGGCGC---AGGGac -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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