miRNA: 3'- gUGCGGGC--UGGaACCA--UCUGgCGCUc -5'
miRNA: 3'- gUGCGGGC--UGGaACCA--UCUGgCGCUc -5'
miRNA: 3'- guGCGGGCUGgaACCAUCU---GGCGCUc -5'
miRNA: 3'- -GUGCGGGC---------UGGaACCa----UCUGGCGCUc -5'
miRNA: 3'- -GUGCGGGCUGGAACCAUCUGGCGCUC- -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 | |||||||
| 32778 | 3' | -57.8 | NC_007346.1 | + | 128403 | 0.66 | 0.975131 |
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Target: 5'- gGCGCCUGccACCaUGGUggAGGCgGCGGc -3' miRNA: 3'- gUGCGGGC--UGGaACCA--UCUGgCGCUc -5' |
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| 32778 | 3' | -57.8 | NC_007346.1 | + | 128454 | 0.66 | 0.975131 |
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Target: 5'- gGCGCCUGccACCaUGGUggAGGCgGCGGc -3' miRNA: 3'- gUGCGGGC--UGGaACCA--UCUGgCGCUc -5' |
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| 32778 | 3' | -57.8 | NC_007346.1 | + | 268352 | 0.66 | 0.970083 |
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Target: 5'- -gUGUCCGAC--UGGUAGAccaCCGCGAu -3' miRNA: 3'- guGCGGGCUGgaACCAUCU---GGCGCUc -5' |
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| 32778 | 3' | -57.8 | NC_007346.1 | + | 38292 | 0.68 | 0.938313 |
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Target: 5'- gCGCGUCCGgggacgcuaGCCaUGGgggugGGACCGUGAa -3' miRNA: 3'- -GUGCGGGC---------UGGaACCa----UCUGGCGCUc -5' |
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| 32778 | 3' | -57.8 | NC_007346.1 | + | 171261 | 1.09 | 0.005877 |
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Target: 5'- aCACGCCCGACCUUGGUAGACCGCGAGg -3' miRNA: 3'- -GUGCGGGCUGGAACCAUCUGGCGCUC- -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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