miRNA: 3'- aaCGUUAAGc-CGCGCAUaua---UCUGCA- -5'
miRNA: 3'- -AACGUUAAGcCGCGCAUAuau-CUGCA- -5'
miRNA: 3'- aACGU-------UAAG-CCGCGCAUA------UAUCUGCa -5'
miRNA: 3'- -AACGUUaaGC-CGCGCAUAUAUCUGCa -5'
miRNA: 3'- -AACGUUAAGCCGCGCAUaUAUCUGCA- -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 | |||||||
| 9990 | 3' | -48.3 | NC_002654.1 | + | 87815 | 0.66 | 0.998248 |
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Target: 5'- -aGCAAUUCucGCGCGUGaaacaaAGGCGUa -3' miRNA: 3'- aaCGUUAAGc-CGCGCAUaua---UCUGCA- -5' |
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| 9990 | 3' | -48.3 | NC_002654.1 | + | 95874 | 0.68 | 0.98633 |
|
Target: 5'- aUUGCGAUUCaGUGUGUGUccgcGACGUg -3' miRNA: 3'- -AACGUUAAGcCGCGCAUAuau-CUGCA- -5' |
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| 9990 | 3' | -48.3 | NC_002654.1 | + | 104874 | 0.68 | 0.986153 |
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Target: 5'- aUGCGuugguuaGUUCgGGCGCGUGUugaguaAUGGGCGc -3' miRNA: 3'- aACGU-------UAAG-CCGCGCAUA------UAUCUGCa -5' |
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| 9990 | 3' | -48.3 | NC_002654.1 | + | 124996 | 0.69 | 0.980202 |
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Target: 5'- aUUGCGAa-CGuGUGUGUGUGUAGGCGc -3' miRNA: 3'- -AACGUUaaGC-CGCGCAUAUAUCUGCa -5' |
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| 9990 | 3' | -48.3 | NC_002654.1 | + | 79823 | 0.95 | 0.082377 |
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Target: 5'- gUUGCAAUUCGGCGCGUA-AUAGACGUg -3' miRNA: 3'- -AACGUUAAGCCGCGCAUaUAUCUGCA- -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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