Results 1 - 9 of 9 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12160 | 5' | -52.7 | NC_003309.1 | + | 48036 | 0.67 | 0.825014 |
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Target: 5'- cGGCGUGAa-GAGu-GGCcGGUCGAGGu -3' miRNA: 3'- -CCGCGCUagCUCuuCCG-CUAGCUUCu -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 37279 | 0.82 | 0.148321 |
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Target: 5'- cGGCGCG-UCGAu--GGCGGUCGAGGAc -3' miRNA: 3'- -CCGCGCuAGCUcuuCCGCUAGCUUCU- -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 37223 | 0.7 | 0.636631 |
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Target: 5'- aGCGCG-UCGAGGacgagguaaAGGCGAacgccgCGAAGGu -3' miRNA: 3'- cCGCGCuAGCUCU---------UCCGCUa-----GCUUCU- -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 37033 | 0.66 | 0.868275 |
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Target: 5'- aGuCGCGAUCGccaAGGGCGAggcCGAAGc -3' miRNA: 3'- cC-GCGCUAGCuc-UUCCGCUa--GCUUCu -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 36547 | 1.12 | 0.001243 |
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Target: 5'- cGGCGCGAUCGAGAAGGCGAUCGAAGAa -3' miRNA: 3'- -CCGCGCUAGCUCUUCCGCUAGCUUCU- -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 32896 | 0.7 | 0.614427 |
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Target: 5'- uGCGCGAcggcaggguucUCGGGAcugcaaauguGGGCGAUCcaGAAGGc -3' miRNA: 3'- cCGCGCU-----------AGCUCU----------UCCGCUAG--CUUCU- -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 26812 | 0.7 | 0.674294 |
|
Target: 5'- uGCGCGAuccaguauUCGGucgccucauucucguGAGGaGCGGUCGggGAa -3' miRNA: 3'- cCGCGCU--------AGCU---------------CUUC-CGCUAGCuuCU- -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 9640 | 0.66 | 0.851664 |
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Target: 5'- cGCGUGA-CGAuccGAAGGCGAUUGcucAGGu -3' miRNA: 3'- cCGCGCUaGCU---CUUCCGCUAGCu--UCU- -5' |
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| 12160 | 5' | -52.7 | NC_003309.1 | + | 5063 | 0.67 | 0.796509 |
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Target: 5'- gGGCGCGG-CGGccggugccgcGAcGGCGGUCGGAu- -3' miRNA: 3'- -CCGCGCUaGCU----------CUuCCGCUAGCUUcu -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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