miRNA: 3'- caAUugCCCGCGggCUUAg---GCAGAUG- -5'
miRNA: 3'- cAAUUGCC---CGCGGGCuuaGGCAGAug -5'
miRNA: 3'- -CAAUUGCCCGCGGGCUUAGGCAGAUG- -5'
Results 1 - 3 of 3 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 | |||||||
| 31938 | 5' | -53.4 | NC_006940.1 | + | 33469 | 0.66 | 0.750798 |
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Target: 5'- -aUAugGGGUGCa-GAAUauggCGUCUGCu -3' miRNA: 3'- caAUugCCCGCGggCUUAg---GCAGAUG- -5' |
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| 31938 | 5' | -53.4 | NC_006940.1 | + | 3087 | 0.69 | 0.559743 |
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Target: 5'- cUUAGCGGccaGCGCCCGc--CCGUCUu- -3' miRNA: 3'- cAAUUGCC---CGCGGGCuuaGGCAGAug -5' |
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| 31938 | 5' | -53.4 | NC_006940.1 | + | 7275 | 1.09 | 0.001079 |
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Target: 5'- aGUUAACGGGCGCCCGAAUCCGUCUACc -3' miRNA: 3'- -CAAUUGCCCGCGGGCUUAGGCAGAUG- -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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