miRNA: 3'- gCUUGA--------UGuuGCAGUUCG------CGGACCAG- -5'
miRNA: 3'- gcUUGaUGUUGCAGU--------UCGCGGACCAg -5'
miRNA: 3'- gCUUGAUGUUGcAGuUCG-CGGACCAG- -5'
miRNA: 3'- -GCUUGAUGUUGCAGUUCgCGGACCAG- -5'
Results 21 - 24 of 24 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 | |||||||
| 11979 | 5' | -51.3 | NC_003278.1 | + | 6808 | 0.74 | 0.356874 |
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Target: 5'- aGAGCUucgcgcggGCuuCGUCGGGCaugucgGCCUGGUCg -3' miRNA: 3'- gCUUGA--------UGuuGCAGUUCG------CGGACCAG- -5' |
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| 11979 | 5' | -51.3 | NC_003278.1 | + | 32026 | 0.75 | 0.322048 |
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Target: 5'- -cAGC-GCAGCGUCAacucguucAGCGCCUGGUa -3' miRNA: 3'- gcUUGaUGUUGCAGU--------UCGCGGACCAg -5' |
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| 11979 | 5' | -51.3 | NC_003278.1 | + | 6203 | 0.78 | 0.196879 |
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Target: 5'- aGGACUACGGCcUC-GGCuGCCUGGUCg -3' miRNA: 3'- gCUUGAUGUUGcAGuUCG-CGGACCAG- -5' |
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| 11979 | 5' | -51.3 | NC_003278.1 | + | 12957 | 0.99 | 0.007499 |
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Target: 5'- gCGAACUACAACGUCAAG-GCCUGGUCa -3' miRNA: 3'- -GCUUGAUGUUGCAGUUCgCGGACCAG- -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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