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miRNA: 3'- agCAUCUCCAGGAGCuu--GgGCUCGgg -5'
miRNA: 3'- -AGCAUCuccaGGAGCUUGGGCUCGGG- -5'
miRNA: 3'- -AGCAUCUCCA---GGAGCUUgGGCuCGGG- -5'
miRNA: 3'- -AGCAUCu------CCAGGAGCUUGGg-CUCGGG- -5'
miRNA: 3'- -AGCAUCUCCAGGAGCUUGGGCUCGGG- -5'
Results 41 - 45 of 45 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 16316 | 3' | -56.4 | NC_004084.1 | + | 14273 | 0.74 | 0.290053 |
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Target: 5'- -gGUGGAGGUCCUCGucguCgCGAGCg- -3' miRNA: 3'- agCAUCUCCAGGAGCuu--GgGCUCGgg -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 26028 | 0.76 | 0.208879 |
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Target: 5'- gUCGUAGc---CUUCGAGCCCGAGCUCg -3' miRNA: 3'- -AGCAUCuccaGGAGCUUGGGCUCGGG- -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 52047 | 0.76 | 0.193169 |
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Target: 5'- cUCGUAGAGGUuuuUCUCGAGgUCGcGCCCc -3' miRNA: 3'- -AGCAUCUCCA---GGAGCUUgGGCuCGGG- -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 49399 | 0.83 | 0.072229 |
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Target: 5'- uUCGUAGucgucguGGUCCUCGAACCagGAGUCCu -3' miRNA: 3'- -AGCAUCu------CCAGGAGCUUGGg-CUCGGG- -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 26389 | 1.12 | 0.000622 |
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Target: 5'- gUCGUAGAGGUCCUCGAACCCGAGCCCu -3' miRNA: 3'- -AGCAUCUCCAGGAGCUUGGGCUCGGG- -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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