miRNA: 3'- uCUAUGGA--UGCUGGGAcuuUGGGCGU- -5'
miRNA: 3'- ucUAUGGaUGcuGGGACU----UUGGGCGU- -5'
miRNA: 3'- -UCUAUGGAUGCUGGGACUUUGGGCGU- -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 | |||||||
| 8443 | 5' | -52.7 | NC_002166.1 | + | 29390 | 0.66 | 0.745354 |
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Target: 5'- uGAUGCCUugGCGAUCUU---AUCCGCAu -3' miRNA: 3'- uCUAUGGA--UGCUGGGAcuuUGGGCGU- -5' |
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| 8443 | 5' | -52.7 | NC_002166.1 | + | 24683 | 0.68 | 0.632588 |
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Target: 5'- -uAUACCcACuuCCCUGAaauuGACCCGCGc -3' miRNA: 3'- ucUAUGGaUGcuGGGACU----UUGGGCGU- -5' |
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| 8443 | 5' | -52.7 | NC_002166.1 | + | 14889 | 1.09 | 0.001301 |
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Target: 5'- cAGAUACCUACGACCCUGAAACCCGCAc -3' miRNA: 3'- -UCUAUGGAUGCUGGGACUUUGGGCGU- -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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