miRNA: 3'- aaAAGCUGUUGUG--------ACAGCuaggCCGC- -5'
miRNA: 3'- aaaAGCUGuUGUGAcAGCUA-------GGCCGC- -5'
miRNA: 3'- aaaAGCUGU--UGUGACAgCUAGGcCGC- -5'
miRNA: 3'- aaaaGCUGUUGU---------GACAGCUa---GGCCGC- -5'
miRNA: 3'- -AAAAGCUGUUGUGACAGCUAGGCCGC- -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 | |||||||
| 24864 | 3' | -50.7 | NC_005284.1 | + | 48395 | 0.67 | 0.865434 |
|
Target: 5'- -aUUCGGCAGCACugcagcaaUGUCGuauaGGCGa -3' miRNA: 3'- aaAAGCUGUUGUG--------ACAGCuaggCCGC- -5' |
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| 24864 | 3' | -50.7 | NC_005284.1 | + | 31961 | 0.67 | 0.872851 |
|
Target: 5'- --aUCGGC-ACGCUcUCGAUauggaaaCCGGCGa -3' miRNA: 3'- aaaAGCUGuUGUGAcAGCUA-------GGCCGC- -5' |
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| 24864 | 3' | -50.7 | NC_005284.1 | + | 16728 | 0.67 | 0.896712 |
|
Target: 5'- --aUCGGCAcgAUGCUGU-GAUCCaGCGa -3' miRNA: 3'- aaaAGCUGU--UGUGACAgCUAGGcCGC- -5' |
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| 24864 | 3' | -50.7 | NC_005284.1 | + | 25397 | 0.66 | 0.923437 |
|
Target: 5'- ---cCGACGACGaaacaaggcUUGUCGAgcgaCUGGCGg -3' miRNA: 3'- aaaaGCUGUUGU---------GACAGCUa---GGCCGC- -5' |
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| 24864 | 3' | -50.7 | NC_005284.1 | + | 23477 | 1.07 | 0.004213 |
|
Target: 5'- gUUUUCGACAACACUGUCGAUCCGGCGu -3' miRNA: 3'- -AAAAGCUGUUGUGACAGCUAGGCCGC- -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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