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miRNA: 3'- -CCCGUA------GGCGG--CUGCgUCuGCCGCGC- -5'
miRNA: 3'- -CCCGUagg--------CGGCUGCGUCUGCCG---CGC- -5'
miRNA: 3'- -CCCGUAG--------GCGGCU------GCGU---CUGCCGCGc -5'
Results 21 - 23 of 23 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 22407 | 5' | -61.5 | NC_005056.1 | + | 1288 | 0.66 | 0.303223 |
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Target: 5'- aGGGCGUgcauggUCGCCcaGGCGaGGuCGGCGUGg -3' miRNA: 3'- -CCCGUA------GGCGG--CUGCgUCuGCCGCGC- -5' |
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| 22407 | 5' | -61.5 | NC_005056.1 | + | 8092 | 0.66 | 0.292957 |
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Target: 5'- aGGGCAgacaaaaacgaGCUGGCGCAGGUGGCacuGCGu -3' miRNA: 3'- -CCCGUagg--------CGGCUGCGUCUGCCG---CGC- -5' |
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| 22407 | 5' | -61.5 | NC_005056.1 | + | 2031 | 0.66 | 0.303223 |
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Target: 5'- aGGGCGUUaugacugaCGUCGAuuuccaCGCGuucGGCGGCGCu -3' miRNA: 3'- -CCCGUAG--------GCGGCU------GCGU---CUGCCGCGc -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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