miRNA: 3'- uagaCAAGCUGCuCGAGCG---------------CGCAgAG- -5'
miRNA: 3'- -UAGaCAAGCUgCUCGAgCgCGCAGag -5'
miRNA: 3'- uaGACaa-GCUGC-UCGAGCGcGCAGAG- -5'
miRNA: 3'- uagacaaGCUGCUCGAgCGCGC---AGAG- -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 | |||||||
| 23946 | 5' | -55.3 | NC_005262.1 | + | 54911 | 0.67 | 0.692577 |
|
Target: 5'- ---aGUUCGACG-GCUCGCaccugacgcugccggGCGUgUCg -3' miRNA: 3'- uagaCAAGCUGCuCGAGCG---------------CGCAgAG- -5' |
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| 23946 | 5' | -55.3 | NC_005262.1 | + | 55472 | 0.66 | 0.741506 |
|
Target: 5'- uGUC-GUUCGAgGAGCUgG-GCGUCg- -3' miRNA: 3'- -UAGaCAAGCUgCUCGAgCgCGCAGag -5' |
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| 23946 | 5' | -55.3 | NC_005262.1 | + | 60379 | 0.69 | 0.568163 |
|
Target: 5'- -gCUGaagCGAUGcGGCUCGC-CGUCUCg -3' miRNA: 3'- uaGACaa-GCUGC-UCGAGCGcGCAGAG- -5' |
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| 23946 | 5' | -55.3 | NC_005262.1 | + | 62909 | 0.7 | 0.514917 |
|
Target: 5'- ------cCGACGAGCUgGCGCGcaaUCUCa -3' miRNA: 3'- uagacaaGCUGCUCGAgCGCGC---AGAG- -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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