miRNA: 3'- -UUUUGagcCAG-----GUGUUGAAACACUUG- -5'
miRNA: 3'- uuuuGAGCCAG-----GUGUUGAAAcACUUG- -5'
miRNA: 3'- -UUUUGAGCCAggUGUUGaaa------CACUUG- -5'
miRNA: 3'- -UUUUGAGCCAGGUGUUGAaaCACUUG- -5'
miRNA: 3'- -UUUUGAGCCAGGUGUUGAAACACUUG- -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 | |||||||
| 22490 | 3' | -45.7 | NC_005068.1 | + | 10187 | 0.66 | 0.99977 |
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Target: 5'- cAAGAUga-GUCacaugCACAACUUUGUGAACg -3' miRNA: 3'- -UUUUGagcCAG-----GUGUUGAAACACUUG- -5' |
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| 22490 | 3' | -45.7 | NC_005068.1 | + | 33467 | 0.67 | 0.999233 |
|
Target: 5'- ---cCUCGGUCguauaCACAACUUUuUGAAUg -3' miRNA: 3'- uuuuGAGCCAG-----GUGUUGAAAcACUUG- -5' |
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| 22490 | 3' | -45.7 | NC_005068.1 | + | 23492 | 0.73 | 0.95071 |
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Target: 5'- gGAGACUCGGUuuGCGGCgguaaaggaGUGGGCg -3' miRNA: 3'- -UUUUGAGCCAggUGUUGaaa------CACUUG- -5' |
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| 22490 | 3' | -45.7 | NC_005068.1 | + | 10253 | 0.98 | 0.08651 |
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Target: 5'- cAAAACUCGGUCCACAACUccGUGAACg -3' miRNA: 3'- -UUUUGAGCCAGGUGUUGAaaCACUUG- -5' |
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| 22490 | 3' | -45.7 | NC_005068.1 | + | 10213 | 1.1 | 0.017335 |
|
Target: 5'- cAAAACUCGGUCCACAACUUUGUGAACa -3' miRNA: 3'- -UUUUGAGCCAGGUGUUGAAACACUUG- -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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