miRNA: 3'- uGUCAUA-AGUAgUUCCgAGGGGUCGA- -5'
miRNA: 3'- -UGUcaUAAGU---AGUUCCGA-----------GGGGUCGA- -5'
miRNA: 3'- ugucaUAAGUAGU--------UCCGAGGGGUCGa -5'
miRNA: 3'- ugucauaaGUAGUUCCG--AGGGGUCGa -5'
miRNA: 3'- -UGUCAUAAGUAGUUCCGAGGGGUCGA- -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 | |||||||
| 13219 | 5' | -52.2 | NC_003401.1 | + | 110673 | 0.66 | 0.968524 |
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Target: 5'- cCAGUGUcUCAU-GAGGgUCUCCAGUUg -3' miRNA: 3'- uGUCAUA-AGUAgUUCCgAGGGGUCGA- -5' |
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| 13219 | 5' | -52.2 | NC_003401.1 | + | 95956 | 0.67 | 0.949596 |
|
Target: 5'- cGCAucGUUCAgggUCAAGGCUugagcuacaccCCCCAGUUc -3' miRNA: 3'- -UGUcaUAAGU---AGUUCCGA-----------GGGGUCGA- -5' |
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| 13219 | 5' | -52.2 | NC_003401.1 | + | 54359 | 0.68 | 0.918445 |
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Target: 5'- ----aGUUUGUCGgagaggacAGGCUCCCCAGUg -3' miRNA: 3'- ugucaUAAGUAGU--------UCCGAGGGGUCGa -5' |
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| 13219 | 5' | -52.2 | NC_003401.1 | + | 121854 | 0.68 | 0.918445 |
|
Target: 5'- -------aCGUCAGGGUcgUCCCCGGCa -3' miRNA: 3'- ugucauaaGUAGUUCCG--AGGGGUCGa -5' |
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| 13219 | 5' | -52.2 | NC_003401.1 | + | 57779 | 1.07 | 0.006193 |
|
Target: 5'- aACAGUAUUCAUCAAGGCUCCCCAGCUc -3' miRNA: 3'- -UGUCAUAAGUAGUUCCGAGGGGUCGA- -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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