miRNA: 3'- -GGCUGCAac---GGUUGgACGUGUUguuc -5'
miRNA: 3'- gGCUGCAACGGUUGGaCGUGuUGUuc -5'
miRNA: 3'- -GGCUGCaACGG--UUgGACGuGUUGUUC- -5'
miRNA: 3'- -GGCUGCAACGGUUGGACGUGUUGUUC- -5'
miRNA: 3'- gGCUGCA--------------ACGGU-----------UGGACGUGuUGUUC- -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 | |||||||
| 27992 | 5' | -50.3 | NC_005886.2 | + | 38275 | 0.67 | 0.881118 |
|
Target: 5'- gCCGACGUgcgaaCCGACgUGCGCGGg--- -3' miRNA: 3'- -GGCUGCAac---GGUUGgACGUGUUguuc -5' |
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| 27992 | 5' | -50.3 | NC_005886.2 | + | 38595 | 0.66 | 0.896364 |
|
Target: 5'- uUGGUGUUGCCGGCC-GCGCcGCAc- -3' miRNA: 3'- gGCUGCAACGGUUGGaCGUGuUGUuc -5' |
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| 27992 | 5' | -50.3 | NC_005886.2 | + | 38931 | 0.67 | 0.873074 |
|
Target: 5'- aUCGGCGcUGCUgcGGgCUGCuCGACAGGg -3' miRNA: 3'- -GGCUGCaACGG--UUgGACGuGUUGUUC- -5' |
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| 27992 | 5' | -50.3 | NC_005886.2 | + | 41521 | 1.11 | 0.002076 |
|
Target: 5'- gCCGACGUUGCCAACCUGCACAACAAGu -3' miRNA: 3'- -GGCUGCAACGGUUGGACGUGUUGUUC- -5' |
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| 27992 | 5' | -50.3 | NC_005886.2 | + | 44814 | 0.67 | 0.870608 |
|
Target: 5'- gCGACGUauugugagaacgacUGUCAaggaacgaucgACCUGUACcGCAAGa -3' miRNA: 3'- gGCUGCA--------------ACGGU-----------UGGACGUGuUGUUC- -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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