miRNA: 3'- aaCUUAuGGCGuAUGUCCAA----------AAGAAG- -5'
miRNA: 3'- -AACUuaUGGCgUAUGUCCAAAAGaag -5'
miRNA: 3'- aACUUAUGGCGUAUGu--------CCAAAa-GAAG- -5'
miRNA: 3'- aaCUUAUGGC-GUA-UGUCCAAAagaAG- -5'
miRNA: 3'- -AACUUAUGGCGUAUGUCCAAAAGAAG- -5'
Results 1 - 5 of 5 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 | |||||||
| 32273 | 3' | -44.2 | NC_007023.1 | + | 56952 | 0.67 | 0.999992 |
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Target: 5'- -gGAAUcCCGCuUGCAGGUUcgauaacagcUUUUUCa -3' miRNA: 3'- aaCUUAuGGCGuAUGUCCAA----------AAGAAG- -5' |
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| 32273 | 3' | -44.2 | NC_007023.1 | + | 125307 | 0.69 | 0.999922 |
|
Target: 5'- uUUGA--AUCGgGUGCAGGUUUUCa-- -3' miRNA: 3'- -AACUuaUGGCgUAUGUCCAAAAGaag -5' |
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| 32273 | 3' | -44.2 | NC_007023.1 | + | 104488 | 0.69 | 0.999922 |
|
Target: 5'- gUGAAUACCGCAUAUuccccaguuGGUUUggUUUUg -3' miRNA: 3'- aACUUAUGGCGUAUGu--------CCAAAa-GAAG- -5' |
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| 32273 | 3' | -44.2 | NC_007023.1 | + | 11483 | 0.71 | 0.999059 |
|
Target: 5'- -cGAAUACCGcCAUcACGGGUUUgg-UCg -3' miRNA: 3'- aaCUUAUGGC-GUA-UGUCCAAAagaAG- -5' |
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| 32273 | 3' | -44.2 | NC_007023.1 | + | 34147 | 1.1 | 0.036832 |
|
Target: 5'- uUUGAAUACCGCAUACAGGUUUUCUUCg -3' miRNA: 3'- -AACUUAUGGCGUAUGUCCAAAAGAAG- -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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