miRNA: 3'- uuuAGC-CGGU--GCCCGUGc-UCAAACGC- -5'
miRNA: 3'- -UUUAGCCG-GUGCCC-GUGCucaaa-CGC- -5'
miRNA: 3'- uuuAGCCGG--UGCC-CGugCUCAAa---CGc -5'
miRNA: 3'- -UUUAG-CCGGugCCCGUGCUCaaaCGC- -5'
miRNA: 3'- uuuAGCCGGUGCCcGuGCUCaaaCGC- -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 | |||||||
| 8062 | 5' | -54.8 | NC_001973.1 | + | 145713 | 0.66 | 0.925999 |
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Target: 5'- --uUUGuGCCGauCGGGCGCauAGUUUGCGg -3' miRNA: 3'- uuuAGC-CGGU--GCCCGUGc-UCAAACGC- -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 133451 | 0.66 | 0.936362 |
|
Target: 5'- gAAGUCGGCgCGCGGGuCGCGcacggaGCGc -3' miRNA: 3'- -UUUAGCCG-GUGCCC-GUGCucaaa-CGC- -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 85724 | 0.66 | 0.941177 |
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Target: 5'- --cUCGGCCgcACGGcGUugGAGUUggucGCc -3' miRNA: 3'- uuuAGCCGG--UGCC-CGugCUCAAa---CGc -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 43866 | 0.66 | 0.941177 |
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Target: 5'- aAAGUCaGGCC--GGGCAUGAGgccGCGu -3' miRNA: 3'- -UUUAG-CCGGugCCCGUGCUCaaaCGC- -5' |
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| 8062 | 5' | -54.8 | NC_001973.1 | + | 133277 | 0.66 | 0.94575 |
|
Target: 5'- --cUCGGCCGCGG-C-CGAGaacGCGg -3' miRNA: 3'- uuuAGCCGGUGCCcGuGCUCaaaCGC- -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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