miRNA: 3'- uuaUGGUCGA-GaGGCCG-CCGUaACGA- -5'
miRNA: 3'- uuAUGGUCGAG-AG-GcCGCCGuaACGa -5'
miRNA: 3'- uuaUGGUCGaGAGGCc---GCCGUAACGA- -5'
miRNA: 3'- -UUAugGUCGAGAG-GCCGCCG--------UAACGa -5'
miRNA: 3'- -UUAUGGUCGAGAGGCCGCCGUAACGA- -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 | |||||||
| 1068 | 5' | -56.1 | NC_000929.1 | + | 29931 | 0.66 | 0.473333 |
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Target: 5'- --gGCCAGCUaC-CCGGCaGGCGcUGUUc -3' miRNA: 3'- uuaUGGUCGA-GaGGCCG-CCGUaACGA- -5' |
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| 1068 | 5' | -56.1 | NC_000929.1 | + | 14654 | 0.67 | 0.431969 |
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Target: 5'- -uUGCCAGCUCaUCgCuGCGGCucUGCa -3' miRNA: 3'- uuAUGGUCGAG-AG-GcCGCCGuaACGa -5' |
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| 1068 | 5' | -56.1 | NC_000929.1 | + | 21801 | 0.68 | 0.356003 |
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Target: 5'- --aGCCGGUgUUCCGcugaCGGCAUUGCUg -3' miRNA: 3'- uuaUGGUCGaGAGGCc---GCCGUAACGA- -5' |
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| 1068 | 5' | -56.1 | NC_000929.1 | + | 7973 | 0.7 | 0.26068 |
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Target: 5'- cAGUugCAGUUUUCgCGGCGGCuuguucucAUUGCa -3' miRNA: 3'- -UUAugGUCGAGAG-GCCGCCG--------UAACGa -5' |
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| 1068 | 5' | -56.1 | NC_000929.1 | + | 28217 | 1.06 | 0.000588 |
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Target: 5'- gAAUACCAGCUCUCCGGCGGCAUUGCUg -3' miRNA: 3'- -UUAUGGUCGAGAGGCCGCCGUAACGA- -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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