miRNA: 3'- -UUGGCCUUUGGCCGaagaaCaGCUUu -5'
miRNA: 3'- -UUGGCCUU--UGGCCGAagaaCAGCUUu -5'
miRNA: 3'- -UUGGCCUU-UGGcCGAAGAa--CAGCUUU- -5'
miRNA: 3'- -UUGGCCUUUGGCCGAAGAACAGCUUU- -5'
Results 1 - 4 of 4 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 | |||||||
| 7176 | 5' | -51.3 | NC_001900.1 | + | 3372 | 0.66 | 0.863744 |
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Target: 5'- gAACUGGAGACCGGCg----G-CGAGc -3' miRNA: 3'- -UUGGCCUUUGGCCGaagaaCaGCUUu -5' |
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| 7176 | 5' | -51.3 | NC_001900.1 | + | 15103 | 0.72 | 0.515868 |
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Target: 5'- gGACUGGAGccACCGGCUg---GUCGAGc -3' miRNA: 3'- -UUGGCCUU--UGGCCGAagaaCAGCUUu -5' |
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| 7176 | 5' | -51.3 | NC_001900.1 | + | 43821 | 0.72 | 0.515868 |
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Target: 5'- gAACCGGAAcGCC-GCUUCUggcGUCGGGAa -3' miRNA: 3'- -UUGGCCUU-UGGcCGAAGAa--CAGCUUU- -5' |
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| 7176 | 5' | -51.3 | NC_001900.1 | + | 37139 | 1.04 | 0.004204 |
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Target: 5'- aAACCGGAAACCGGCUUCUUGUCGAAAc -3' miRNA: 3'- -UUGGCCUUUGGCCGAAGAACAGCUUU- -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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