miRNA: 3'- uAUGACC----------CCGUAUGGGucGACGGAUc -5'
miRNA: 3'- uaUGACCCCG--------UAUgGGUCgACGGauc -5'
miRNA: 3'- uaUGACCCCGU--------AUGGGUCGaCG---GAUC- -5'
miRNA: 3'- uaugaCCCCGuAUGGGUCGACGgauc -5'
miRNA: 3'- -UAUGACCCCGUAUGGGUCGACGGAUC- -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 | |||||||
| 9495 | 5' | -56.6 | NC_002531.1 | + | 21526 | 0.66 | 0.808667 |
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Target: 5'- uUACUGGaguggccucuGGCAUGCUCccCUGCCUAa -3' miRNA: 3'- uAUGACC----------CCGUAUGGGucGACGGAUc -5' |
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| 9495 | 5' | -56.6 | NC_002531.1 | + | 121285 | 0.67 | 0.771137 |
|
Target: 5'- -aGCUGGGGUcuaucagcGUGgCCAGgUGCCg-- -3' miRNA: 3'- uaUGACCCCG--------UAUgGGUCgACGGauc -5' |
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| 9495 | 5' | -56.6 | NC_002531.1 | + | 32495 | 0.68 | 0.690411 |
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Target: 5'- -aGCUGGGGCAgggaguguUGCUCAGCaGCucaCUAGc -3' miRNA: 3'- uaUGACCCCGU--------AUGGGUCGaCG---GAUC- -5' |
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| 9495 | 5' | -56.6 | NC_002531.1 | + | 112573 | 0.71 | 0.533654 |
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Target: 5'- ----gGGGGC-UGCCCAGCUGCa--- -3' miRNA: 3'- uaugaCCCCGuAUGGGUCGACGgauc -5' |
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| 9495 | 5' | -56.6 | NC_002531.1 | + | 64314 | 1.06 | 0.002691 |
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Target: 5'- uAUACUGGGGCAUACCCAGCUGCCUAGc -3' miRNA: 3'- -UAUGACCCCGUAUGGGUCGACGGAUC- -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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