miRNA: 3'- -CC-ACUGCAGGAGCCGCUUgCaUCUUG- -5'
miRNA: 3'- -CCACUGCa--GGag-CCG--CUUGCaUCUUG- -5'
miRNA: 3'- -CCaCUGC---AGGAGCCG-CUUGCaUCUUG- -5'
miRNA: 3'- -CCACUGCAGGAGCCGCUUGCAUCUUG- -5'
Results 1 - 4 of 4 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 | |||||||
| 27379 | 3' | -52.2 | NC_005857.1 | + | 12149 | 0.67 | 0.848943 |
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Target: 5'- gGGcUGGCGUUUUUGGCGAA-GcAGGACc -3' miRNA: 3'- -CC-ACUGCAGGAGCCGCUUgCaUCUUG- -5' |
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| 27379 | 3' | -52.2 | NC_005857.1 | + | 34525 | 0.68 | 0.802927 |
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Target: 5'- cGGUGGCGguaCCggaGGCcuGGGCGgAGAACg -3' miRNA: 3'- -CCACUGCa--GGag-CCG--CUUGCaUCUUG- -5' |
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| 27379 | 3' | -52.2 | NC_005857.1 | + | 12970 | 0.74 | 0.459605 |
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Target: 5'- cGGcGACGauuUCCUCGGCuGAAUGcGGGACg -3' miRNA: 3'- -CCaCUGC---AGGAGCCG-CUUGCaUCUUG- -5' |
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| 27379 | 3' | -52.2 | NC_005857.1 | + | 36003 | 1.12 | 0.001429 |
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Target: 5'- uGGUGACGUCCUCGGCGAACGUAGAACu -3' miRNA: 3'- -CCACUGCAGGAGCCGCUUGCAUCUUG- -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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