miRNA: 3'- gaUGGCAaGCUuGGUCCGCA---AUAAgC- -5'
miRNA: 3'- -GAUGGCaAGCU--UGGUCCGcaauaagc -5'
miRNA: 3'- -GAUGGCAagCUUGGUCCGCA--------AuaAGC- -5'
miRNA: 3'- gaUGGCAAgCUUGGUC--CGCA---AUAAGC- -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 | |||||||
| 10922 | 5' | -48.4 | NC_002794.1 | + | 65428 | 0.67 | 0.999386 |
|
Target: 5'- -gGCCGUcUGGuCCAGGCGUccgUGUUgGg -3' miRNA: 3'- gaUGGCAaGCUuGGUCCGCA---AUAAgC- -5' |
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| 10922 | 5' | -48.4 | NC_002794.1 | + | 138045 | 0.67 | 0.999505 |
|
Target: 5'- cCUGCCGcUCGAcgGCCAGGCc------- -3' miRNA: 3'- -GAUGGCaAGCU--UGGUCCGcaauaagc -5' |
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| 10922 | 5' | -48.4 | NC_002794.1 | + | 63398 | 0.68 | 0.998636 |
|
Target: 5'- uCUACUGUg-GAACCGGGUGUcgucucagUcgUCGa -3' miRNA: 3'- -GAUGGCAagCUUGGUCCGCA--------AuaAGC- -5' |
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| 10922 | 5' | -48.4 | NC_002794.1 | + | 105194 | 0.72 | 0.97325 |
|
Target: 5'- -cGCCGUUgGGGCCGGccGCGUggcUGUUCGu -3' miRNA: 3'- gaUGGCAAgCUUGGUC--CGCA---AUAAGC- -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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