miRNA: 3'- gGGuaCAGu-----CUUCCUUuAACAgUGGG- -5'
miRNA: 3'- gGGUACa--GUCUU-------------CCUUUaACAGUGGG- -5'
miRNA: 3'- -GGGUACAGUCUUCCUUUAACAGUGGG- -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 | |||||||
| 12320 | 5' | -46.9 | NC_003323.1 | + | 2664 | 0.68 | 0.580795 |
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Target: 5'- gCUagGUCucugguGAGGGAGuUUGUgGCCCg -3' miRNA: 3'- gGGuaCAGu-----CUUCCUUuAACAgUGGG- -5' |
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| 12320 | 5' | -46.9 | NC_003323.1 | + | 2806 | 0.7 | 0.441378 |
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Target: 5'- aCCAUGgucCAGGAaccagguacucuuGGAGAgUGUUACCCc -3' miRNA: 3'- gGGUACa--GUCUU-------------CCUUUaACAGUGGG- -5' |
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| 12320 | 5' | -46.9 | NC_003323.1 | + | 7941 | 1.15 | 0.000297 |
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Target: 5'- uCCCAUGUCAGAAGGAAAUUGUCACCCc -3' miRNA: 3'- -GGGUACAGUCUUCCUUUAACAGUGGG- -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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