miRNA: 3'- uaCCGGaaCGUGGUC----CUGAGC--UGGUC- -5'
miRNA: 3'- uaCCGGaAC-GUGGUCcUGAGC--UGGUC- -5'
miRNA: 3'- uaCCGGaaCGuGGUCCUGAGCUGGUc -5'
miRNA: 3'- uAC-CGGaa-CGUGGUCC--UGAGCUGGUC- -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 | |||||||
| 26720 | 5' | -57.6 | NC_005808.1 | + | 27700 | 0.68 | 0.338953 |
|
Target: 5'- -aGGCCgcGCGCCGGcagcGGCUCGccGCCGGu -3' miRNA: 3'- uaCCGGaaCGUGGUC----CUGAGC--UGGUC- -5' |
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| 26720 | 5' | -57.6 | NC_005808.1 | + | 25312 | 0.69 | 0.330688 |
|
Target: 5'- -cGGCCcUGcCACCGGcGCUCGucGCCGGg -3' miRNA: 3'- uaCCGGaAC-GUGGUCcUGAGC--UGGUC- -5' |
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| 26720 | 5' | -57.6 | NC_005808.1 | + | 17104 | 0.69 | 0.330688 |
|
Target: 5'- -cGGCCggGCcUUGGGGCUUGACCAc -3' miRNA: 3'- uaCCGGaaCGuGGUCCUGAGCUGGUc -5' |
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| 26720 | 5' | -57.6 | NC_005808.1 | + | 11267 | 0.71 | 0.230529 |
|
Target: 5'- uUGcGCUgcgGCGCUGGGacGCUCGGCCAGg -3' miRNA: 3'- uAC-CGGaa-CGUGGUCC--UGAGCUGGUC- -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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