miRNA: 3'- uCGGCU---UGGCGAGCUAC-C-------------ACGAGUUc -5'
miRNA: 3'- -UCGGCUUGgCGAgCUaC-CACGA-GUUC- -5'
miRNA: 3'- uCGGCuu-----GGCGAGCUACC-----ACGAGUUC- -5'
miRNA: 3'- -UCGGCUUGGCGAGCUACCACGAGUUC- -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 | |||||||
| 26541 | 5' | -55 | NC_005357.1 | + | 4571 | 0.68 | 0.49204 |
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Target: 5'- cGCCGAggcGCUGCUCGGUGcGccaggcgaggaacUGCUCGGc -3' miRNA: 3'- uCGGCU---UGGCGAGCUAC-C-------------ACGAGUUc -5' |
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| 26541 | 5' | -55 | NC_005357.1 | + | 15061 | 0.7 | 0.393418 |
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Target: 5'- uGGCCGAAUgGCUgGAcGaGUGCUgCGAGg -3' miRNA: 3'- -UCGGCUUGgCGAgCUaC-CACGA-GUUC- -5' |
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| 26541 | 5' | -55 | NC_005357.1 | + | 5030 | 0.72 | 0.300028 |
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Target: 5'- cGCCGcgaugccCCGCUCGAUGGcguccUGCUUGAGc -3' miRNA: 3'- uCGGCuu-----GGCGAGCUACC-----ACGAGUUC- -5' |
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| 26541 | 5' | -55 | NC_005357.1 | + | 1557 | 1.08 | 0.00082 |
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Target: 5'- aAGCCGAACCGCUCGAUGGUGCUCAAGu -3' miRNA: 3'- -UCGGCUUGGCGAGCUACCACGAGUUC- -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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