miRNA: 3'- aaGUG-GGUgC-CGCCcCA--UCGCGCCGC- -5'
miRNA: 3'- aAGUGGgUGC---------CGCC-CCAUcGCGCCGC- -5'
miRNA: 3'- aagUGGGUgC-CGCC-CCa-UCGCGCCGc -5'
miRNA: 3'- aAGUGGGU--GCC-GCC-CCA---------------UCGCGCCGC- -5'
Results 21 - 24 of 24 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 | |||||||
| 28171 | 5' | -63.4 | NC_005887.1 | + | 37425 | 0.66 | 0.246551 |
|
Target: 5'- -gCACgCCAgGuGCGGaGUggAGCGCGGCGc -3' miRNA: 3'- aaGUG-GGUgC-CGCCcCA--UCGCGCCGC- -5' |
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| 28171 | 5' | -63.4 | NC_005887.1 | + | 39394 | 0.68 | 0.185832 |
|
Target: 5'- gUCGCCgGCGaggauggucGCGGcGGUGcCGCGGCGc -3' miRNA: 3'- aAGUGGgUGC---------CGCC-CCAUcGCGCCGC- -5' |
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| 28171 | 5' | -63.4 | NC_005887.1 | + | 41603 | 0.68 | 0.171726 |
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Target: 5'- --gGCCCAgGuGCGGcGGccGGCGCGGCc -3' miRNA: 3'- aagUGGGUgC-CGCC-CCa-UCGCGCCGc -5' |
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| 28171 | 5' | -63.4 | NC_005887.1 | + | 41781 | 0.72 | 0.088014 |
|
Target: 5'- aUCGCCCAucUGGcCGGcGGUcuucgcgcuguauccGGCGCGGCGc -3' miRNA: 3'- aAGUGGGU--GCC-GCC-CCA---------------UCGCGCCGC- -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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