miRNA: 3'- aC-CUGGAACGGCUGaagacGGCUCGc -5'
miRNA: 3'- aCCUGGa-------ACGGCUGa----------AGACGGCU--CGc -5'
miRNA: 3'- aCCUGGaa-----CGGCU-Ga-AGa-CGGCUCGc -5'
miRNA: 3'- aCCUGGaaCGGCuGaaGACGGC--UCGC- -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 | |||||||
| 23185 | 3' | -56.9 | NC_005259.1 | + | 17505 | 0.67 | 0.639973 |
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Target: 5'- gGcGACCUUGCCGAU-----CCGAGCu -3' miRNA: 3'- aC-CUGGAACGGCUGaagacGGCUCGc -5' |
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| 23185 | 3' | -56.9 | NC_005259.1 | + | 45115 | 0.66 | 0.650718 |
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Target: 5'- cGGGCCgagaguggUGCCGACgaggucggcaaUCUGCUGAucGCu -3' miRNA: 3'- aCCUGGa-------ACGGCUGa----------AGACGGCU--CGc -5' |
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| 23185 | 3' | -56.9 | NC_005259.1 | + | 4741 | 0.66 | 0.682819 |
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Target: 5'- aGGACCggcucagGCCGGuCccUCggGCCGGGCu -3' miRNA: 3'- aCCUGGaa-----CGGCU-Ga-AGa-CGGCUCGc -5' |
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| 23185 | 3' | -56.9 | NC_005259.1 | + | 35636 | 0.66 | 0.682819 |
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Target: 5'- cGGGCC--GCCG-CcgCUGCCGcuGGCGa -3' miRNA: 3'- aCCUGGaaCGGCuGaaGACGGC--UCGC- -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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