miRNA: 3'- -UC-CAGCCGUUCCA---CCg-----GUUUGCUGac -5'
miRNA: 3'- ucCAGCCGU-----------UCC-----ACCGGUUuGCUGAC- -5'
miRNA: 3'- -UCCagCCGUUCCaCCGg---UUUGCUGac -5'
miRNA: 3'- uccaGCCG-------UUCCACCGGUUUGCUgac -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 | |||||||
| 10571 | 3' | -55.4 | NC_002687.1 | + | 66038 | 0.68 | 0.954219 |
|
Target: 5'- gGGuGUCGGCAAGGUaauGGaaaccaCGAACGAUg- -3' miRNA: 3'- -UC-CAGCCGUUCCA---CCg-----GUUUGCUGac -5' |
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| 10571 | 3' | -55.4 | NC_002687.1 | + | 37731 | 0.71 | 0.866345 |
|
Target: 5'- -cGUCGGCAaacauccccugGGGaacuuUGGCCGAcCGACUGg -3' miRNA: 3'- ucCAGCCGU-----------UCC-----ACCGGUUuGCUGAC- -5' |
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| 10571 | 3' | -55.4 | NC_002687.1 | + | 25689 | 0.66 | 0.980174 |
|
Target: 5'- cAGGagGGUAAGGaGGCgcaaGAACGACg- -3' miRNA: 3'- -UCCagCCGUUCCaCCGg---UUUGCUGac -5' |
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| 10571 | 3' | -55.4 | NC_002687.1 | + | 6489 | 0.67 | 0.975452 |
|
Target: 5'- ---aUGGCuaagcugGAGGUGGCCGAACGAg-- -3' miRNA: 3'- uccaGCCG-------UUCCACCGGUUUGCUgac -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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