miRNA: 3'- uuCUUGCCua-GC-UUGUGC-------UGCAGCGG- -5'
miRNA: 3'- -UUCUUGCCua---GCUUGu--GCUGC------------AGCGG- -5'
miRNA: 3'- uuCUUGCC---------UAGCuUGUGCUGCaGCGg -5'
miRNA: 3'- uucuUGCCuaGCUU-GUGCUgcAGCGG- -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
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| Predicted miRNA align pattern | |||||||
| 12176 | 3' | -51.5 | NC_003309.1 | + | 47871 | 0.66 | 0.902446 |
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Target: 5'- -cGAGCGGccaUGaAGCGCGcuucgucACGUCGCCu -3' miRNA: 3'- uuCUUGCCua-GC-UUGUGC-------UGCAGCGG- -5' |
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| 12176 | 3' | -51.5 | NC_003309.1 | + | 27340 | 0.66 | 0.909897 |
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Target: 5'- cGGGAGCGGcgcggCGAACugcCGAUGcaucagacuggaUCGCCa -3' miRNA: 3'- -UUCUUGCCua---GCUUGu--GCUGC------------AGCGG- -5' |
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| 12176 | 3' | -51.5 | NC_003309.1 | + | 9711 | 0.66 | 0.909897 |
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Target: 5'- -cGAGCGGuugccguguGUCGcGCGCGAUG-CGCa -3' miRNA: 3'- uuCUUGCC---------UAGCuUGUGCUGCaGCGg -5' |
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| 12176 | 3' | -51.5 | NC_003309.1 | + | 13082 | 0.66 | 0.916372 |
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Target: 5'- ---uGCGGcgCGGAcCACGAacUCGCCg -3' miRNA: 3'- uucuUGCCuaGCUU-GUGCUgcAGCGG- -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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