miRNA: 3'- -GAGGUACCCaGCCgCUGCCaca-ACau -5'
miRNA: 3'- gaGGUaCCCAGcCGCU---GCCACAACAU- -5'
miRNA: 3'- gaGGUACC-CAGCCGCU---GCCACAaCAU- -5'
miRNA: 3'- -GAGGUACCCAGCCGCUGCCACAACAU- -5'
Results 1 - 4 of 4 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 | |||||||
| 20432 | 5' | -56 | NC_004688.1 | + | 92361 | 0.66 | 0.860847 |
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Target: 5'- cCUCCGUGGG-CGG-GGCGGgcagUGg- -3' miRNA: 3'- -GAGGUACCCaGCCgCUGCCaca-ACau -5' |
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| 20432 | 5' | -56 | NC_004688.1 | + | 40007 | 0.68 | 0.72388 |
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Target: 5'- -aCCAgGGGUCuGUGGuuuCGGUGUUGUGg -3' miRNA: 3'- gaGGUaCCCAGcCGCU---GCCACAACAU- -5' |
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| 20432 | 5' | -56 | NC_004688.1 | + | 20459 | 0.73 | 0.458842 |
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Target: 5'- -aUCAUGGuGUCGGCGAcguCGGUGUcGUAc -3' miRNA: 3'- gaGGUACC-CAGCCGCU---GCCACAaCAU- -5' |
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| 20432 | 5' | -56 | NC_004688.1 | + | 18514 | 1.07 | 0.002673 |
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Target: 5'- cCUCCAUGGGUCGGCGACGGUGUUGUAa -3' miRNA: 3'- -GAGGUACCCAGCCGCUGCCACAACAU- -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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