miRNA: 3'- ccCCGCCG--CUUGCaCCUCGAUCCuua -5'
miRNA: 3'- -CCCCGC-CGCuUGC-ACC-UCGau-CCUua -5'
miRNA: 3'- ccCCGCCGCUUGCAcCUCGauCCUua -5'
miRNA: 3'- -CCCCGCCGCUU-GCac-CU-CGA-UCCUUa -5'
miRNA: 3'- -CCCCGCCGCUUGCACCUCGAUCCUUA- -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 | |||||||
| 33112 | 5' | -57.3 | NC_007497.1 | + | 36769 | 0.66 | 0.538462 |
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Target: 5'- -cGGUGGCugGGAUG-GGAGCUAGGu-- -3' miRNA: 3'- ccCCGCCG--CUUGCaCCUCGAUCCuua -5' |
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| 33112 | 5' | -57.3 | NC_007497.1 | + | 10790 | 0.67 | 0.465409 |
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Target: 5'- aGGGGCGcGCGcACGcUGGcAGCgauGGAc- -3' miRNA: 3'- -CCCCGC-CGCuUGC-ACC-UCGau-CCUua -5' |
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| 33112 | 5' | -57.3 | NC_007497.1 | + | 8022 | 0.68 | 0.407109 |
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Target: 5'- -aGGCGGCGGGCGUcGAGCc-GGAc- -3' miRNA: 3'- ccCCGCCGCUUGCAcCUCGauCCUua -5' |
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| 33112 | 5' | -57.3 | NC_007497.1 | + | 8521 | 0.71 | 0.262157 |
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Target: 5'- uGGGGCGGCGAGuCGgaaGAuGCUcAGGAGa -3' miRNA: 3'- -CCCCGCCGCUU-GCac-CU-CGA-UCCUUa -5' |
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| 33112 | 5' | -57.3 | NC_007497.1 | + | 10911 | 1.08 | 0.000513 |
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Target: 5'- aGGGGCGGCGAACGUGGAGCUAGGAAUg -3' miRNA: 3'- -CCCCGCCGCUUGCACCUCGAUCCUUA- -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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