miRNA: 3'- gaUGGAUcCGGUGGUaGGGGGcuCAG- -5'
miRNA: 3'- -GAUGGAUCCGg------UGGUAGGGG------GCUCAg -5'
miRNA: 3'- gaUGGAuCCGGUGGUAGGGGg--------CUCAG- -5'
miRNA: 3'- gaUGGaUCCGGUGGUa-----GGGGG-CUCaG- -5'
miRNA: 3'- -GAUGGAUCCGGUGGUAGGGGGCUCAG- -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 | |||||||
| 17588 | 3' | -58.3 | NC_004466.2 | + | 35155 | 0.68 | 0.382465 |
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Target: 5'- -aACCUGaGCCGCUA-CCCCCucGUCa -3' miRNA: 3'- gaUGGAUcCGGUGGUaGGGGGcuCAG- -5' |
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| 17588 | 3' | -58.3 | NC_004466.2 | + | 15093 | 0.68 | 0.356419 |
|
Target: 5'- aCUGCCUGGGCagccugaGCCAUUUCCucagcaCGAGUa -3' miRNA: 3'- -GAUGGAUCCGg------UGGUAGGGG------GCUCAg -5' |
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| 17588 | 3' | -58.3 | NC_004466.2 | + | 37976 | 0.69 | 0.300618 |
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Target: 5'- -aGCCUuGGCCAUCGUCUCCgucagguagGAGUCa -3' miRNA: 3'- gaUGGAuCCGGUGGUAGGGGg--------CUCAG- -5' |
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| 17588 | 3' | -58.3 | NC_004466.2 | + | 14235 | 0.71 | 0.258362 |
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Target: 5'- -aACCgAGGCCACCAccaccgCCCCCaGAGcCc -3' miRNA: 3'- gaUGGaUCCGGUGGUa-----GGGGG-CUCaG- -5' |
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| 17588 | 3' | -58.3 | NC_004466.2 | + | 681 | 1.09 | 0.000394 |
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Target: 5'- uCUACCUAGGCCACCAUCCCCCGAGUCu -3' miRNA: 3'- -GAUGGAUCCGGUGGUAGGGGGCUCAG- -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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