miRNA: 3'- cCACCGGCUCU--CCGcc-CACUAGUGca -5'
miRNA: 3'- ccaCCGGCUCUc-CGCCCACUAGu---GCa -5'
miRNA: 3'- -CCACcGGC-UCUCCgCCCACUAGUGCA- -5'
miRNA: 3'- -CCACCGGCUCUCCGCCCACUAGUGCA- -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 |
| Predicted miRNA align pattern | |||||||
| 7161 | 5' | -58.8 | NC_001900.1 | + | 2172 | 0.71 | 0.253991 |
|
Target: 5'- cGUGGCCGAGAauGGCcacGUGAUCACc- -3' miRNA: 3'- cCACCGGCUCU--CCGcc-CACUAGUGca -5' |
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| 7161 | 5' | -58.8 | NC_001900.1 | + | 36645 | 0.68 | 0.400247 |
|
Target: 5'- --cGGUCGAGGuuGCGGGUGAUCuccuCGg -3' miRNA: 3'- ccaCCGGCUCUc-CGCCCACUAGu---GCa -5' |
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| 7161 | 5' | -58.8 | NC_001900.1 | + | 26374 | 0.73 | 0.191276 |
|
Target: 5'- aGGUGcUCGcGGAGGaGGGUGAUCGCGUu -3' miRNA: 3'- -CCACcGGC-UCUCCgCCCACUAGUGCA- -5' |
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| 7161 | 5' | -58.8 | NC_001900.1 | + | 46874 | 1.09 | 0.000414 |
|
Target: 5'- uGGUGGCCGAGAGGCGGGUGAUCACGUg -3' miRNA: 3'- -CCACCGGCUCUCCGCCCACUAGUGCA- -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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