miRNA: 3'- gCGAGU--CGUCUCGC-UGCACGcGCGGa -5'
miRNA: 3'- -GCGAGUCGu-----------CUCGC-------------UGCaCGCGCGGA- -5'
miRNA: 3'- gCGaGUCGUCUCGCUGCa-----CGCGCGGa -5'
miRNA: 3'- -GCGAGUCGUCUCGCUGCACGCGCGGA- -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 | |||||||
| 11998 | 5' | -60.1 | NC_003278.1 | + | 16135 | 0.72 | 0.12664 |
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Target: 5'- uGCUCGcuGCAGAGUGaACGUGCaCGCUg -3' miRNA: 3'- gCGAGU--CGUCUCGC-UGCACGcGCGGa -5' |
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| 11998 | 5' | -60.1 | NC_003278.1 | + | 21826 | 0.73 | 0.11539 |
|
Target: 5'- aCGCUCAGCcaacugcuggauGAGCGcgaacgcaacaagGCG-GCGCGCCUg -3' miRNA: 3'- -GCGAGUCGu-----------CUCGC-------------UGCaCGCGCGGA- -5' |
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| 11998 | 5' | -60.1 | NC_003278.1 | + | 8559 | 0.75 | 0.075761 |
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Target: 5'- gGCaCAGCAGGGUGGCGacgaugGCGUGCCa -3' miRNA: 3'- gCGaGUCGUCUCGCUGCa-----CGCGCGGa -5' |
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| 11998 | 5' | -60.1 | NC_003278.1 | + | 19327 | 1.07 | 0.000237 |
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Target: 5'- aCGCUCAGCAGAGCGACGUGCGCGCCUu -3' miRNA: 3'- -GCGAGUCGUCUCGCUGCACGCGCGGA- -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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