miRNA: 3'- aUACAAaaCGGUCU--UAAAGGA----ACCGg -5'
miRNA: 3'- aUACA--AAACGGUCuuaaaGGAACCGg -5'
miRNA: 3'- -AUACA--------------AAACGGUcUUAAA-GGAA-CCGG- -5'
miRNA: 3'- auACAaaac--GGUCUUAAAGGAACCGG- -5'
miRNA: 3'- -AUACAAAACGGUCUUAAAGGAACCGG- -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 |
| Predicted miRNA align pattern | |||||||
| 32580 | 3' | -45 | NC_007151.1 | + | 31663 | 0.7 | 0.99787 |
|
Target: 5'- gAUGUUcgGUCAGGucGUUUCCUcuagUGGCa -3' miRNA: 3'- aUACAAaaCGGUCU--UAAAGGA----ACCGg -5' |
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| 32580 | 3' | -45 | NC_007151.1 | + | 49874 | 0.7 | 0.998556 |
|
Target: 5'- aAUGUacUUUGCCAGcg---CCUUGGUa -3' miRNA: 3'- aUACA--AAACGGUCuuaaaGGAACCGg -5' |
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| 32580 | 3' | -45 | NC_007151.1 | + | 2265 | 0.66 | 0.999974 |
|
Target: 5'- uUGUGUcuccauacggacacUUUGCCA-AAUUUaCCUUcGGCCa -3' miRNA: 3'- -AUACA--------------AAACGGUcUUAAA-GGAA-CCGG- -5' |
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| 32580 | 3' | -45 | NC_007151.1 | + | 71697 | 0.83 | 0.647224 |
|
Target: 5'- -uUGUgaaucaCCAGAGUUUCCUUGGCCc -3' miRNA: 3'- auACAaaac--GGUCUUAAAGGAACCGG- -5' |
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| 32580 | 3' | -45 | NC_007151.1 | + | 124959 | 1.13 | 0.016072 |
|
Target: 5'- gUAUGUUUUGCCAGAAUUUCCUUGGCCg -3' miRNA: 3'- -AUACAAAACGGUCUUAAAGGAACCGG- -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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