miRNA: 3'- -CUGUCCACACC--------UGCCGgCucUGCAag -5'
miRNA: 3'- -CUGUCCa------CACcUGC-CGGCUCUGCaaG- -5'
miRNA: 3'- -CUGUCCa--CACCUGCc--GGCUCugCAAG- -5'
miRNA: 3'- -CUGUCCACACCUGCCGGCUCUGCAAG- -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 | |||||||
| 6992 | 3' | -56.4 | NC_001875.2 | + | 97005 | 0.66 | 0.873528 |
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Target: 5'- cGACGGGUGUGGgcgacaaaACGGCgGcaGCGUc- -3' miRNA: 3'- -CUGUCCACACC--------UGCCGgCucUGCAag -5' |
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| 6992 | 3' | -56.4 | NC_001875.2 | + | 29488 | 0.68 | 0.762456 |
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Target: 5'- gGACGGGccaauugGUGuACGuGCCGAGACGcgCg -3' miRNA: 3'- -CUGUCCa------CACcUGC-CGGCUCUGCaaG- -5' |
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| 6992 | 3' | -56.4 | NC_001875.2 | + | 105013 | 0.71 | 0.590761 |
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Target: 5'- gGACAGGaaaGUGGACGacaCCGAGuuGUUCa -3' miRNA: 3'- -CUGUCCa--CACCUGCc--GGCUCugCAAG- -5' |
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| 6992 | 3' | -56.4 | NC_001875.2 | + | 98707 | 1.1 | 0.002064 |
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Target: 5'- gGACAGGUGUGGACGGCCGAGACGUUCa -3' miRNA: 3'- -CUGUCCACACCUGCCGGCUCUGCAAG- -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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