miRNA: 3'- gCCUGUUGcCGUUC-----AGGUUCUUGAAG- -5'
miRNA: 3'- -GCCUGUUGCCGU-------------UCAGGUucuuGAAG- -5'
miRNA: 3'- -GCCUGUUGCCGUUCAGGUUCUUGAAG- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 22320 | 5' | -49.5 | NC_005045.1 | + | 34366 | 0.73 | 0.548678 |
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Target: 5'- gGGGCAACuGCGGGgcgucUUCGGGGACUUCa -3' miRNA: 3'- gCCUGUUGcCGUUC-----AGGUUCUUGAAG- -5' |
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| 22320 | 5' | -49.5 | NC_005045.1 | + | 28481 | 0.74 | 0.502553 |
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Target: 5'- gCGGGCAGCGGCGcccagguugucgaGGUCCGu---CUUCa -3' miRNA: 3'- -GCCUGUUGCCGU-------------UCAGGUucuuGAAG- -5' |
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| 22320 | 5' | -49.5 | NC_005045.1 | + | 14688 | 1.1 | 0.002586 |
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Target: 5'- uCGGACAACGGCAAGUCCAAGAACUUCc -3' miRNA: 3'- -GCCUGUUGCCGUUCAGGUUCUUGAAG- -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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