miRNA: 3'- gCGACuAggCAGCAuCCACUgCCUCC- -5'
miRNA: 3'- gCGaCUAGGCAGCauCCaCugCCUCc -5'
miRNA: 3'- gCGaCUAGGCAGCAuccACUGCCUCC- -5'
miRNA: 3'- -GCGACUAGGCAGCAUCCACUGCCUCC- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 20465 | 3' | -54.8 | NC_004688.1 | + | 11649 | 0.69 | 0.809574 |
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Target: 5'- aGCUG-UuuGUUGUcGGUGA-GGAGGa -3' miRNA: 3'- gCGACuAggCAGCAuCCACUgCCUCC- -5' |
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| 20465 | 3' | -54.8 | NC_004688.1 | + | 74799 | 0.7 | 0.753651 |
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Target: 5'- aGCcGAUCUGUCGgcGG-GugGGGGu -3' miRNA: 3'- gCGaCUAGGCAGCauCCaCugCCUCc -5' |
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| 20465 | 3' | -54.8 | NC_004688.1 | + | 48036 | 0.76 | 0.398962 |
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Target: 5'- aGCaGGUCCGUCGU---UGGCGGAGGu -3' miRNA: 3'- gCGaCUAGGCAGCAuccACUGCCUCC- -5' |
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| 20465 | 3' | -54.8 | NC_004688.1 | + | 36675 | 1.1 | 0.00296 |
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Target: 5'- uCGCUGAUCCGUCGUAGGUGACGGAGGc -3' miRNA: 3'- -GCGACUAGGCAGCAUCCACUGCCUCC- -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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