miRNA: 3'- -UC-UGCaGUACCGU------AGGCCC-----------UGGCCGU- -5'
miRNA: 3'- uCUGCagUACCGUAGGCCCUGgcCGU- -5'
miRNA: 3'- ucUGCAGUAC-CGUAGGCCcUGGCCGU- -5'
miRNA: 3'- -UCUGCAgUACC-GUag------GCCCUGGCCgu -5'
miRNA: 3'- -UCUGCAGUACCGUAGGCCCUGGCCGU- -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 | |||||||
| 1062 | 5' | -58.7 | NC_000929.1 | + | 24970 | 0.66 | 0.407789 |
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Target: 5'- uGGcACGaCAUGGCGgauaaaUCCGGGgaacuugacgcACUGGCAg -3' miRNA: 3'- -UC-UGCaGUACCGU------AGGCCC-----------UGGCCGU- -5' |
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| 1062 | 5' | -58.7 | NC_000929.1 | + | 29347 | 0.66 | 0.407789 |
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Target: 5'- uGAUG--AUGGCAUCCGGGGCa-GUAa -3' miRNA: 3'- uCUGCagUACCGUAGGCCCUGgcCGU- -5' |
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| 1062 | 5' | -58.7 | NC_000929.1 | + | 1931 | 0.68 | 0.329336 |
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Target: 5'- -aAUGUUAUGaGCGUCUGGaACUGGCAg -3' miRNA: 3'- ucUGCAGUAC-CGUAGGCCcUGGCCGU- -5' |
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| 1062 | 5' | -58.7 | NC_000929.1 | + | 12296 | 0.68 | 0.298222 |
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Target: 5'- gAGGCGUgAUGGaCAggaaaacaCGGGGCCGGg- -3' miRNA: 3'- -UCUGCAgUACC-GUag------GCCCUGGCCgu -5' |
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| 1062 | 5' | -58.7 | NC_000929.1 | + | 25366 | 1.08 | 0.000308 |
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Target: 5'- cAGACGUCAUGGCAUCCGGGACCGGCAg -3' miRNA: 3'- -UCUGCAGUACCGUAGGCCCUGGCCGU- -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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