miRNA: 3'- -UCUACugCCACCCuuaguACu-GGGUG- -5'
miRNA: 3'- uCUACUG------------CCACCCUu--AGUACUGGG---UG- -5'
miRNA: 3'- -UCUAcuGCCACC-CuuAGUACU--GGGUG- -5'
miRNA: 3'- -UCUACUGCCACCCUUAGUACUGGGUG- -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 | |||||||
| 10215 | 5' | -52.6 | NC_002665.1 | + | 86462 | 0.67 | 0.916439 |
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Target: 5'- uAGAUGugGGUGGGu----UGuuCCCAUu -3' miRNA: 3'- -UCUACugCCACCCuuaguACu-GGGUG- -5' |
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| 10215 | 5' | -52.6 | NC_002665.1 | + | 70050 | 0.71 | 0.739306 |
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Target: 5'- uGGUGACaguggcccaaaaGGUGGGAuuuUUAUGACCCcugGCa -3' miRNA: 3'- uCUACUG------------CCACCCUu--AGUACUGGG---UG- -5' |
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| 10215 | 5' | -52.6 | NC_002665.1 | + | 104818 | 0.73 | 0.633579 |
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Target: 5'- aAGGUccCGGUGGuGggUCAUGAuuCCCACc -3' miRNA: 3'- -UCUAcuGCCACC-CuuAGUACU--GGGUG- -5' |
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| 10215 | 5' | -52.6 | NC_002665.1 | + | 104964 | 1.09 | 0.004019 |
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Target: 5'- cAGAUGACGGUGGGAAUCAUGACCCACc -3' miRNA: 3'- -UCUACUGCCACCCUUAGUACUGGGUG- -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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