miRNA: 3'- -CAAAUCUGCGGUCG---ACGcCCu----GGCGG- -5'
miRNA: 3'- -CAAAUCUGCGGUCGACGCCCUGGCGG- -5'
miRNA: 3'- caaaUCUGCGGuCGacg-----CCCUGGCGG- -5'
miRNA: 3'- caaAUCUGCGGUCGAC--GCccUGGcGG- -5'
miRNA: 3'- caaauCUG--CGGUCGaCGCCCUGGCGg -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 |
| Predicted miRNA align pattern | |||||||
| 9803 | 5' | -57 | NC_002593.1 | + | 11394 | 0.67 | 0.725662 |
|
Target: 5'- cGUUUGGACGCCAGUacaUGUcGGuucuuUCGCUc -3' miRNA: 3'- -CAAAUCUGCGGUCG---ACGcCCu----GGCGG- -5' |
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| 9803 | 5' | -57 | NC_002593.1 | + | 30737 | 1.12 | 0.000814 |
|
Target: 5'- cGUUUAGACGCCAGCUGCGGGACCGCCg -3' miRNA: 3'- -CAAAUCUGCGGUCGACGCCCUGGCGG- -5' |
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| 9803 | 5' | -57 | NC_002593.1 | + | 35809 | 0.72 | 0.45111 |
|
Target: 5'- ---aAGACGCC-GCauauaauaGGGACCGCCg -3' miRNA: 3'- caaaUCUGCGGuCGacg-----CCCUGGCGG- -5' |
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| 9803 | 5' | -57 | NC_002593.1 | + | 70347 | 0.66 | 0.75553 |
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Target: 5'- --cUGGACGCCGGCUGguCGucGCC-CCg -3' miRNA: 3'- caaAUCUGCGGUCGAC--GCccUGGcGG- -5' |
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| 9803 | 5' | -57 | NC_002593.1 | + | 91154 | 0.67 | 0.705312 |
|
Target: 5'- ----cGACcaGCUAGUgGUGGGGCCGCa -3' miRNA: 3'- caaauCUG--CGGUCGaCGCCCUGGCGg -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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