miRNA: 3'- -UGCCuGGUGCGCCa-CCGcGACaaGUu -5'
miRNA: 3'- -UGCCugGUGCgCCACCGCG---------ACAAGuu -5'
miRNA: 3'- -UGCCUGGuGCGCCACcGCGacaaGUU- -5'
miRNA: 3'- uGCCUGGUGCgCCACCg---CGACaaguu -5'
miRNA: 3'- uGCCUGGUGCgc------CACCGCGa---CAAGUU- -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 | |||||||
| 5564 | 5' | -58.7 | NC_001806.1 | + | 3457 | 0.67 | 0.739201 |
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Target: 5'- gACGG-CCACGCGGccGGC-CUGggCGc -3' miRNA: 3'- -UGCCuGGUGCGCCa-CCGcGACaaGUu -5' |
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| 5564 | 5' | -58.7 | NC_001806.1 | + | 49508 | 0.66 | 0.76778 |
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Target: 5'- gGCGGuuCGCG-GGUGGCGCcgucgccgcUGUUCc- -3' miRNA: 3'- -UGCCugGUGCgCCACCGCG---------ACAAGuu -5' |
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| 5564 | 5' | -58.7 | NC_001806.1 | + | 24227 | 0.66 | 0.777081 |
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Target: 5'- gACGGGCC-CGCGGUGuCGCgg--CAGc -3' miRNA: 3'- -UGCCUGGuGCGCCACcGCGacaaGUU- -5' |
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| 5564 | 5' | -58.7 | NC_001806.1 | + | 91986 | 0.66 | 0.786253 |
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Target: 5'- gUGGACCGCGaGGUGGagcaGCUGa---- -3' miRNA: 3'- uGCCUGGUGCgCCACCg---CGACaaguu -5' |
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| 5564 | 5' | -58.7 | NC_001806.1 | + | 91378 | 0.66 | 0.795289 |
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Target: 5'- gUGGACCGCGagggacacGUGGUGCccggGUUCGAg -3' miRNA: 3'- uGCCUGGUGCgc------CACCGCGa---CAAGUU- -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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