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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 | |||||||
| 24809 | 3' | -53.9 | NC_005284.1 | + | 27525 | 0.66 | 0.789183 |
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Target: 5'- cGUcGAGGCGUUccUCGCggGGUucggcuauuggccgCGUGCGCUg -3' miRNA: 3'- aCA-CUCCGCGA--AGUG--UCA--------------GCAUGCGA- -5' |
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| 24809 | 3' | -53.9 | NC_005284.1 | + | 32362 | 0.66 | 0.77198 |
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Target: 5'- gGUGAGG-GUUUC-CGGgacCGUAUGCUu -3' miRNA: 3'- aCACUCCgCGAAGuGUCa--GCAUGCGA- -5' |
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| 24809 | 3' | -53.9 | NC_005284.1 | + | 9232 | 0.66 | 0.761656 |
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Target: 5'- cGUcGAGGCGCUgacgcgCGCGG-CGggcggcacggaUACGCUg -3' miRNA: 3'- aCA-CUCCGCGAa-----GUGUCaGC-----------AUGCGA- -5' |
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| 24809 | 3' | -53.9 | NC_005284.1 | + | 4792 | 0.69 | 0.57477 |
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Target: 5'- cGUGGGGCGCga-GCcuUCGaUGCGCUc -3' miRNA: 3'- aCACUCCGCGaagUGucAGC-AUGCGA- -5' |
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| 24809 | 3' | -53.9 | NC_005284.1 | + | 52108 | 1.09 | 0.001354 |
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Target: 5'- uUGUGAGGCGCUUCACAGUCGUACGCUg -3' miRNA: 3'- -ACACUCCGCGAAGUGUCAGCAUGCGA- -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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