miRNA: 3'- -AAGgGGGuCCcgC-GGCCGUUCCC-GGc -5'
miRNA: 3'- aAGGGGGUCCCGC----------GGCCGuuC-CCGGc -5'
miRNA: 3'- aaGGggGUCCCGCG----------GCCGUUCCCGGC- -5'
miRNA: 3'- aaGgGGGUCCCGCgGCCGuUCCCGgc -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 | |||||||
| 23109 | 3' | -66.9 | NC_005178.1 | + | 15340 | 0.68 | 0.106084 |
|
Target: 5'- gUUCgCCCuGGuaGgCCGGCAAGGGaCCa -3' miRNA: 3'- -AAGgGGGuCCcgC-GGCCGUUCCC-GGc -5' |
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| 23109 | 3' | -66.9 | NC_005178.1 | + | 7758 | 0.68 | 0.103225 |
|
Target: 5'- gUCCUCCAGGGCGgaguccagucCUGGUgcGaGGCCa -3' miRNA: 3'- aAGGGGGUCCCGC----------GGCCGuuC-CCGGc -5' |
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| 23109 | 3' | -66.9 | NC_005178.1 | + | 4119 | 0.7 | 0.074144 |
|
Target: 5'- -gCCagCAGGGUGUgggucuacgaCGGCGAGGGCCGc -3' miRNA: 3'- aaGGggGUCCCGCG----------GCCGUUCCCGGC- -5' |
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| 23109 | 3' | -66.9 | NC_005178.1 | + | 23444 | 0.71 | 0.053014 |
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Target: 5'- -aCgCCCAGGGCGaCGGCcAGGGCg- -3' miRNA: 3'- aaGgGGGUCCCGCgGCCGuUCCCGgc -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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