miRNA: 3'- cuaaUGGUGuaGUUGCCaAGGUCGgG- -5'
miRNA: 3'- cuaaUGGU----------GUAGUUGCCaAGGU-CGGG- -5'
miRNA: 3'- -CUAAu---GGUGUAGUUGCCaaGGU---------CG-GG- -5'
miRNA: 3'- cuaaUGGUG---UAGUUGCCAAGgUCGGG- -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 | |||||||
| 12640 | 3' | -49.7 | NC_003345.1 | + | 72326 | 0.67 | 0.958339 |
|
Target: 5'- ---cGCCGCc-CGGCGGcUCCAGCgCg -3' miRNA: 3'- cuaaUGGUGuaGUUGCCaAGGUCGgG- -5' |
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| 12640 | 3' | -49.7 | NC_003345.1 | + | 73614 | 0.69 | 0.904138 |
|
Target: 5'- ---gGCCGuaggaguaguCGUCAGCGGcUCCGcGCCCc -3' miRNA: 3'- cuaaUGGU----------GUAGUUGCCaAGGU-CGGG- -5' |
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| 12640 | 3' | -49.7 | NC_003345.1 | + | 74909 | 0.68 | 0.940047 |
|
Target: 5'- cGAUUuuuuCCACGUCAGCGGggUCAacgucgguuGCuCCa -3' miRNA: 3'- -CUAAu---GGUGUAGUUGCCaaGGU---------CG-GG- -5' |
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| 12640 | 3' | -49.7 | NC_003345.1 | + | 75405 | 0.77 | 0.500816 |
|
Target: 5'- ---gGCCGCgagGUCGGCGGUUC-AGCCCu -3' miRNA: 3'- cuaaUGGUG---UAGUUGCCAAGgUCGGG- -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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