miRNA: 3'- cGCGcauCCguCGGCACGGUAGGCGu -5'
miRNA: 3'- -CGCG----CAUCC---GUCGGCACGGU---AGGCGU- -5'
miRNA: 3'- -CGCGCa--UCCGuCGGCA-CGGUAG-GCGU- -5'
miRNA: 3'- -CGCGCAUCCG----UCGGCACgGUaGGCGU- -5'
miRNA: 3'- -CGCGCAUCCGUCGGCACGGUAGGCGU- -5'
Results 61 - 65 of 65 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 | |||||||
| 24678 | 3' | -59.7 | NC_005264.1 | + | 135109 | 0.72 | 0.397293 |
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Target: 5'- cUGCu--GGguGCCGUGCCGUUCGCc -3' miRNA: 3'- cGCGcauCCguCGGCACGGUAGGCGu -5' |
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| 24678 | 3' | -59.7 | NC_005264.1 | + | 83859 | 0.73 | 0.372951 |
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Target: 5'- aGCGCauacGUAGGgcuCGGCCGUGCCGaacUUCGCGc -3' miRNA: 3'- -CGCG----CAUCC---GUCGGCACGGU---AGGCGU- -5' |
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| 24678 | 3' | -59.7 | NC_005264.1 | + | 11648 | 0.73 | 0.372951 |
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Target: 5'- aGCGCGgcaGGGCuGCUGUcGUCGUCgCGCAa -3' miRNA: 3'- -CGCGCa--UCCGuCGGCA-CGGUAG-GCGU- -5' |
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| 24678 | 3' | -59.7 | NC_005264.1 | + | 34144 | 0.74 | 0.320208 |
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Target: 5'- gGCGCGUAGGCuucgGGUCGUGgUA-CCGCGc -3' miRNA: 3'- -CGCGCAUCCG----UCGGCACgGUaGGCGU- -5' |
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| 24678 | 3' | -59.7 | NC_005264.1 | + | 110267 | 1.1 | 0.00119 |
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Target: 5'- cGCGCGUAGGCAGCCGUGCCAUCCGCAc -3' miRNA: 3'- -CGCGCAUCCGUCGGCACGGUAGGCGU- -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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