miRNA: 3'- gaAGuUGCCUUU-GCCGCGgUCCGUUU- -5'
miRNA: 3'- gaagUUGCCU----UUGCCGCGGUcCGUuu -5'
miRNA: 3'- gAAGU-UGCCUuuGCCGCgGUCCGUuu -5'
miRNA: 3'- gaaGUUGCCUu--UG-CCGCGGUcCGUuu -5'
miRNA: 3'- gaaGUUGCCUUUGCcgCGGUCCGUuu -5'
Results 21 - 25 of 25 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 | |||||||
| 22921 | 3' | -53 | NC_005137.2 | + | 89105 | 0.68 | 0.886726 |
|
Target: 5'- -aUC-ACGGAGAuUGGCGC-GGGCGAAa -3' miRNA: 3'- gaAGuUGCCUUU-GCCGCGgUCCGUUU- -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 55578 | 0.66 | 0.940976 |
|
Target: 5'- ---uGGCGGAcgcgGGCGGCGCCGuGCGc- -3' miRNA: 3'- gaagUUGCCU----UUGCCGCGGUcCGUuu -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 19706 | 0.66 | 0.940976 |
|
Target: 5'- uUUCAgACGGGu-UGGCGgCGGGCAc- -3' miRNA: 3'- gAAGU-UGCCUuuGCCGCgGUCCGUuu -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 99523 | 0.66 | 0.95018 |
|
Target: 5'- --aCAACGGGuuuGCgGGCGCCGuGCAu- -3' miRNA: 3'- gaaGUUGCCUu--UG-CCGCGGUcCGUuu -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 43224 | 0.75 | 0.544686 |
|
Target: 5'- --gCGACGGAAAUGuaGCCGGGCGc- -3' miRNA: 3'- gaaGUUGCCUUUGCcgCGGUCCGUuu -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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