miRNA: 3'- uaCACAGCAg------GGCAG--ACAUCCG-AGag -5'
miRNA: 3'- uacACAGCa---GGGCAGACaUCCGAGaG- -5'
miRNA: 3'- uaCACAGca-GGGCAGACa----UCCGa--GAG- -5'
miRNA: 3'- uaCACAGCAGGG---------CAGACAU-CCGAgAG- -5'
miRNA: 3'- -UACACAGCAGGGCAGACAUCCGAGAG- -5'
Results 1 - 5 of 5 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 | |||||||
| 30171 | 3' | -55.4 | NC_006273.1 | + | 123329 | 0.66 | 0.948029 |
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Target: 5'- -cGUGUCGUacgcgcaCCGUCagUGUGGGCgUCa- -3' miRNA: 3'- uaCACAGCAg------GGCAG--ACAUCCG-AGag -5' |
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| 30171 | 3' | -55.4 | NC_006273.1 | + | 230737 | 0.68 | 0.887766 |
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Target: 5'- --cUGUCGgcggCCUGUCUGgGGGCUC-Cg -3' miRNA: 3'- uacACAGCa---GGGCAGACaUCCGAGaG- -5' |
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| 30171 | 3' | -55.4 | NC_006273.1 | + | 187634 | 0.69 | 0.873874 |
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Target: 5'- -gGUGUCaggCCCGUCUGccgagAGGCgccCUCg -3' miRNA: 3'- uaCACAGca-GGGCAGACa----UCCGa--GAG- -5' |
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| 30171 | 3' | -55.4 | NC_006273.1 | + | 184247 | 0.74 | 0.617445 |
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Target: 5'- -cGUGUCGUCCCcacguagguGUCUGUGuGGCUgUUg -3' miRNA: 3'- uaCACAGCAGGG---------CAGACAU-CCGAgAG- -5' |
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| 30171 | 3' | -55.4 | NC_006273.1 | + | 162648 | 1.07 | 0.006172 |
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Target: 5'- uAUGUGUCGUCCCGUCUGUAGGCUCUCu -3' miRNA: 3'- -UACACAGCAGGGCAGACAUCCGAGAG- -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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