miRNA: 3'- aGUGGCCGUuGggCUaa--UAGAGAa-GG- -5'
miRNA: 3'- agUGGCC-GUUGGGCUAA-----UAGAG-AAGG- -5'
miRNA: 3'- agUGGCCGUUGggCUAa---UAGAGAAGG- -5'
miRNA: 3'- -AGUGGCCGUUGg----GCUAAuaGAGAAGG- -5'
miRNA: 3'- -AGUGGCCGUUGGGCUAAUAGAGAAGG- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 9792 | 5' | -50.1 | NC_002593.1 | + | 83577 | 0.71 | 0.894038 |
|
Target: 5'- aCACCGGCAuUuuGAaaggAUCUCUggCCa -3' miRNA: 3'- aGUGGCCGUuGggCUaa--UAGAGAa-GG- -5' |
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| 9792 | 5' | -50.1 | NC_002593.1 | + | 32314 | 0.7 | 0.900939 |
|
Target: 5'- -gACCGGaCAGCUCGAUUucguaGUCUCgUUUCa -3' miRNA: 3'- agUGGCC-GUUGGGCUAA-----UAGAG-AAGG- -5' |
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| 9792 | 5' | -50.1 | NC_002593.1 | + | 33269 | 0.72 | 0.820987 |
|
Target: 5'- -gACCGGCGAUuuGGUggccGUUUCUUCUu -3' miRNA: 3'- agUGGCCGUUGggCUAa---UAGAGAAGG- -5' |
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| 9792 | 5' | -50.1 | NC_002593.1 | + | 18021 | 0.73 | 0.773252 |
|
Target: 5'- cUCACCGGCGACaucauCGGUUc-CUCUUCUc -3' miRNA: 3'- -AGUGGCCGUUGg----GCUAAuaGAGAAGG- -5' |
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| 9792 | 5' | -50.1 | NC_002593.1 | + | 18132 | 1.14 | 0.003457 |
|
Target: 5'- cUCACCGGCAACCCGAUUAUCUCUUCCa -3' miRNA: 3'- -AGUGGCCGUUGGGCUAAUAGAGAAGG- -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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