miRNA: 3'- caCGGCCA-------------UUGUCGC-GCa--UCAuCUUC- -5'
miRNA: 3'- caCGGCCauuGUCGC-GCAUCAUCUuc -5'
miRNA: 3'- caCGGCCaUUGUCGCGCAUcaUCUUc -5'
miRNA: 3'- caCGGCCaUUGUCGCGCa-----UCAUCUuc -5'
miRNA: 3'- -CACGGCCAUUGUCGCGCAUCAUCUUC- -5'
Results 21 - 25 of 25 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 | |||||||
| 24450 | 5' | -51.7 | NC_005264.1 | + | 72469 | 0.68 | 0.964835 |
|
Target: 5'- -cGCCGGUcggaucguguaccGGCAGCGuCGgcgGGUuGAAGa -3' miRNA: 3'- caCGGCCA-------------UUGUCGC-GCa--UCAuCUUC- -5' |
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| 24450 | 5' | -51.7 | NC_005264.1 | + | 137538 | 0.66 | 0.983498 |
|
Target: 5'- -gGUCGGccuCGGCGaCGUGGUAGGu- -3' miRNA: 3'- caCGGCCauuGUCGC-GCAUCAUCUuc -5' |
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| 24450 | 5' | -51.7 | NC_005264.1 | + | 111277 | 0.66 | 0.987051 |
|
Target: 5'- -cGUCGGcAACGGUGCGUAcgAGAAc -3' miRNA: 3'- caCGGCCaUUGUCGCGCAUcaUCUUc -5' |
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| 24450 | 5' | -51.7 | NC_005264.1 | + | 30852 | 0.66 | 0.989984 |
|
Target: 5'- -cGUCGGcGGCGGCGCGccgcccGGUAGGc- -3' miRNA: 3'- caCGGCCaUUGUCGCGCa-----UCAUCUuc -5' |
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| 24450 | 5' | -51.7 | NC_005264.1 | + | 75336 | 1.1 | 0.006607 |
|
Target: 5'- aGUGCCGGUAACAGCGCGUAGUAGAAGa -3' miRNA: 3'- -CACGGCCAUUGUCGCGCAUCAUCUUC- -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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