miRNA: 3'- gaGCGUCG-CGCCu--GugCUAGaa--AUCG- -5'
miRNA: 3'- -GAgCGUCGCG-CCU-------------GugCUAGAa-----AUCG- -5'
miRNA: 3'- gaGCGuCgCGCCUGUGCUAGaaaUCG- -5'
miRNA: 3'- gagCGUCGCGCCuGU-----------GCU--AGAaAUCG- -5'
Results 21 - 24 of 24 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 | |||||||
| 33264 | 3' | -52.1 | NC_007605.1 | + | 156164 | 0.69 | 0.949063 |
|
Target: 5'- -gUGCGGCgGCGGucuCugGAUCgugaUAGCg -3' miRNA: 3'- gaGCGUCG-CGCCu--GugCUAGaa--AUCG- -5' |
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| 33264 | 3' | -52.1 | NC_007605.1 | + | 157294 | 0.66 | 0.987845 |
|
Target: 5'- uCUgGCGGCGCaGGGagucguaggcaaaUugGAUCUggacggUGGCg -3' miRNA: 3'- -GAgCGUCGCG-CCU-------------GugCUAGAa-----AUCG- -5' |
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| 33264 | 3' | -52.1 | NC_007605.1 | + | 159034 | 0.71 | 0.893976 |
|
Target: 5'- -gCGCcGgGCGGACGCGGUC---AGCc -3' miRNA: 3'- gaGCGuCgCGCCUGUGCUAGaaaUCG- -5' |
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| 33264 | 3' | -52.1 | NC_007605.1 | + | 160501 | 0.66 | 0.991884 |
|
Target: 5'- --aGCAGCGCGG-CAgaggccucucuCGAguUCUcUAGCa -3' miRNA: 3'- gagCGUCGCGCCuGU-----------GCU--AGAaAUCG- -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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