miRNA: 3'- uaGUCGg-UUCUACca-----CUCUUAUGGGU- -5'
miRNA: 3'- uAGuCGGuuCUACCACUCUUa----UGGGu -5'
miRNA: 3'- -UAGUCGGUUCUACCACUCUUAUGGGU- -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 | |||||||
| 24796 | 3' | -50.9 | NC_005282.1 | + | 4548 | 0.66 | 0.955295 |
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Target: 5'- -aCAGCgaGAGGUGaaucucaGAGAAUACCCAc -3' miRNA: 3'- uaGUCGg-UUCUACca-----CUCUUAUGGGU- -5' |
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| 24796 | 3' | -50.9 | NC_005282.1 | + | 23434 | 0.68 | 0.884087 |
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Target: 5'- cUCuGCUu-GGUGGUGAGAAguuugACCCu -3' miRNA: 3'- uAGuCGGuuCUACCACUCUUa----UGGGu -5' |
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| 24796 | 3' | -50.9 | NC_005282.1 | + | 53566 | 1.07 | 0.005114 |
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Target: 5'- cAUCAGCCAAGAUGGUGAGAAUACCCAu -3' miRNA: 3'- -UAGUCGGUUCUACCACUCUUAUGGGU- -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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