miRNA: 3'- cuCUGuCCGaGCGGCG----------UGGACuaGCG- -5'
miRNA: 3'- cuCUGUCCgAGCGGcGUgGACUAGCG- -5'
miRNA: 3'- -CUCuGUCCg--AGCGG--CGUGG-ACUAGCG- -5'
miRNA: 3'- cUCUGuCCGAGCGGCGUGGacUAGCg -5'
miRNA: 3'- cUCUGuCCGAGCGGC-GUGGaCUaGCG- -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 |
| Predicted miRNA align pattern | |||||||
| 12956 | 3' | -57.7 | NC_003387.1 | + | 3545 | 0.68 | 0.442222 |
|
Target: 5'- -cGAC-GGC-CGCCGCcugcgcgaccGCCUGcgCGCu -3' miRNA: 3'- cuCUGuCCGaGCGGCG----------UGGACuaGCG- -5' |
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| 12956 | 3' | -57.7 | NC_003387.1 | + | 10253 | 0.68 | 0.442222 |
|
Target: 5'- -cGGCGGGaUCGCC-CGgUUGGUCGCg -3' miRNA: 3'- cuCUGUCCgAGCGGcGUgGACUAGCG- -5' |
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| 12956 | 3' | -57.7 | NC_003387.1 | + | 9395 | 0.68 | 0.451932 |
|
Target: 5'- cGAG-CAGGaaaUUGCCcgGCGCUgUGAUCGCg -3' miRNA: 3'- -CUCuGUCCg--AGCGG--CGUGG-ACUAGCG- -5' |
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| 12956 | 3' | -57.7 | NC_003387.1 | + | 24704 | 0.67 | 0.471694 |
|
Target: 5'- aGGAUcGGCUUGCCGCGCUc-GUCGg -3' miRNA: 3'- cUCUGuCCGAGCGGCGUGGacUAGCg -5' |
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| 12956 | 3' | -57.7 | NC_003387.1 | + | 12303 | 0.66 | 0.586879 |
|
Target: 5'- cGGGCcGGUUCGCCGuCGCC-GA-CGUa -3' miRNA: 3'- cUCUGuCCGAGCGGC-GUGGaCUaGCG- -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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