miRNA: 3'- -GCGUuaCGc--CA--UCGUCGAGUA---GACCG- -5'
miRNA: 3'- -GCGuuACGC-CAuCGUCGAGUAGa-------CCG- -5'
miRNA: 3'- gCGUUA----CGCCAUCGUcGAGUAGaCCG- -5'
miRNA: 3'- gCGUUa---CGCCauCGUCGAGUAGa--CCG- -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 | |||||||
| 33041 | 5' | -53.4 | NC_007497.1 | + | 13101 | 0.66 | 0.73199 |
|
Target: 5'- aCGCAcgGCaccGUcgAGCAGUUCAUgcgCUGGUu -3' miRNA: 3'- -GCGUuaCGc--CA--UCGUCGAGUA---GACCG- -5' |
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| 33041 | 5' | -53.4 | NC_007497.1 | + | 39487 | 0.67 | 0.664709 |
|
Target: 5'- aCGC--UGCGuGUuGCGGUUCAUCgcgaagcgGGCg -3' miRNA: 3'- -GCGuuACGC-CAuCGUCGAGUAGa-------CCG- -5' |
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| 33041 | 5' | -53.4 | NC_007497.1 | + | 34636 | 0.72 | 0.376378 |
|
Target: 5'- gGCGGUcgccGCGGUGGCGcCUCGUUcGGCg -3' miRNA: 3'- gCGUUA----CGCCAUCGUcGAGUAGaCCG- -5' |
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| 33041 | 5' | -53.4 | NC_007497.1 | + | 21555 | 0.76 | 0.206312 |
|
Target: 5'- gGCAGaggcGUGGgcGCAGCUCGUCgacGGCg -3' miRNA: 3'- gCGUUa---CGCCauCGUCGAGUAGa--CCG- -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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