miRNA: 3'- gUGA--UGuCUCUCGUGGaa-UUCGauag -5'
miRNA: 3'- -GUGaUGUCUCUCGUGGaauUCGAUAg -5'
miRNA: 3'- -GUGA---UGUCUCUCGUGGAAUUC-GA-------UAG- -5'
miRNA: 3'- gUGAUGUCUCUCg-UGGAa--UUCGauAG- -5'
miRNA: 3'- gUGaUGUcUCUCGUGGAAU--------------UCGAUag -5'
Results 21 - 25 of 25 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 | |||||||
| 9477 | 5' | -47.9 | NC_002531.1 | + | 56993 | 0.66 | 0.998487 |
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Target: 5'- aGCUugGCuGAGAGCACCccgGGGCa--- -3' miRNA: 3'- gUGA--UGuCUCUCGUGGaa-UUCGauag -5' |
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| 9477 | 5' | -47.9 | NC_002531.1 | + | 8926 | 0.66 | 0.998487 |
|
Target: 5'- cCAC-ACAGGGGGCAUU---GGCUGUg -3' miRNA: 3'- -GUGaUGUCUCUCGUGGaauUCGAUAg -5' |
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| 9477 | 5' | -47.9 | NC_002531.1 | + | 58493 | 0.66 | 0.998736 |
|
Target: 5'- aCACUuuuAUGGGGGGCAUCUUGGGgCUugcuccaGUCg -3' miRNA: 3'- -GUGA---UGUCUCUCGUGGAAUUC-GA-------UAG- -5' |
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| 9477 | 5' | -47.9 | NC_002531.1 | + | 87264 | 0.66 | 0.998761 |
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Target: 5'- aGCUACAGAGAGgaGCCUaaaAAGU--UCa -3' miRNA: 3'- gUGAUGUCUCUCg-UGGAa--UUCGauAG- -5' |
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| 9477 | 5' | -47.9 | NC_002531.1 | + | 81903 | 0.65 | 0.998926 |
|
Target: 5'- gGCcGCAaAGAGCGCCUUAaccacucgagucauGGCUAg- -3' miRNA: 3'- gUGaUGUcUCUCGUGGAAU--------------UCGAUag -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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