miRNA: 3'- -UGU-GCUGaUGGCcg--UGGCCGCCCGuc -5'
miRNA: 3'- -UGUGCUGa-UGG-------------CCGUGGC------CGCCCGUC- -5'
miRNA: 3'- -UGUGCUGa----UGGcCGUGGCCGCC--CGUc -5'
miRNA: 3'- -UGUGCuGaUGGCCGU-GGCCGCcCGUc -5'
miRNA: 3'- -UG-UGCUGaugGCCGUGgCCGC--CCGUC- -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 | |||||||
| 24110 | 3' | -61.1 | NC_005263.2 | + | 28787 | 0.7 | 0.22525 |
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Target: 5'- gACAuCGACcACCGcacaGCCGGCGGGCc- -3' miRNA: 3'- -UGU-GCUGaUGGCcg--UGGCCGCCCGuc -5' |
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| 24110 | 3' | -61.1 | NC_005263.2 | + | 5226 | 0.69 | 0.236392 |
|
Target: 5'- cGCGCGGCacGCCauugacgcgaucaGGCGCCGucaucaGCGGGCGGu -3' miRNA: 3'- -UGUGCUGa-UGG-------------CCGUGGC------CGCCCGUC- -5' |
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| 24110 | 3' | -61.1 | NC_005263.2 | + | 28934 | 0.69 | 0.255558 |
|
Target: 5'- cGCGCGGCcacgaGCC-GCGCCGGCGGauGCAc -3' miRNA: 3'- -UGUGCUGa----UGGcCGUGGCCGCC--CGUc -5' |
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| 24110 | 3' | -61.1 | NC_005263.2 | + | 37933 | 0.68 | 0.2753 |
|
Target: 5'- gGCGCG-CcGCCGGCAgCCGGUGcGCAa -3' miRNA: 3'- -UGUGCuGaUGGCCGU-GGCCGCcCGUc -5' |
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| 24110 | 3' | -61.1 | NC_005263.2 | + | 24538 | 0.66 | 0.401042 |
|
Target: 5'- gGCaACGGCgg-CGGCGCgGGCGgcGGCGGc -3' miRNA: 3'- -UG-UGCUGaugGCCGUGgCCGC--CCGUC- -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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