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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 | |||||||
| 28377 | 5' | -57.6 | NC_005946.1 | + | 71967 | 0.66 | 0.788621 |
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Target: 5'- cUCCC-CGaCUGGGGCCUga-GGaACAGa -3' miRNA: 3'- -AGGGuGC-GGCCCUGGAacaCCaUGUC- -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 60472 | 0.66 | 0.788621 |
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Target: 5'- cCCCAcCGCCGGaGACCcgGUGccuauaGCAGg -3' miRNA: 3'- aGGGU-GCGGCC-CUGGaaCACca----UGUC- -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 61858 | 0.66 | 0.787697 |
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Target: 5'- cUCCCgACGCCcugcccaGGGACCUguaUGUG--ACGGg -3' miRNA: 3'- -AGGG-UGCGG-------CCCUGGA---ACACcaUGUC- -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 12818 | 0.66 | 0.760315 |
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Target: 5'- gUCCACGCUGuGGGCCgagGUGacggcugGCAGg -3' miRNA: 3'- aGGGUGCGGC-CCUGGaa-CACca-----UGUC- -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 2281 | 0.72 | 0.449891 |
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Target: 5'- aCCC-CGCCGGGGgC---UGGUGCAGa -3' miRNA: 3'- aGGGuGCGGCCCUgGaacACCAUGUC- -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 58379 | 0.78 | 0.195281 |
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Target: 5'- aUCCaCAcCGCCGGGAUaguggacgUGUGGUACAGa -3' miRNA: 3'- -AGG-GU-GCGGCCCUGga------ACACCAUGUC- -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 98435 | 0.81 | 0.129398 |
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Target: 5'- cUCCCAUGUCGGGgaGCCUUGUGGUGu-- -3' miRNA: 3'- -AGGGUGCGGCCC--UGGAACACCAUguc -5' |
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| 28377 | 5' | -57.6 | NC_005946.1 | + | 40338 | 1.1 | 0.001267 |
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Target: 5'- gUCCCACGCCGGGACCUUGUGGUACAGg -3' miRNA: 3'- -AGGGUGCGGCCCUGGAACACCAUGUC- -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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