miRNA: 3'- aGUUAG-ACGGgUAA-------GCGGuCGGUAAc -5'
miRNA: 3'- agUUAGaCGG-GUAAGCGguCGGUAac -5'
miRNA: 3'- aGUUAGAC-GGGU-AAGCGGUCGGUAac -5'
miRNA: 3'- -AGUUAGACGGGUAAGCGGUCGGUAAC- -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 | |||||||
| 27979 | 3' | -51.7 | NC_005886.2 | + | 3375 | 0.66 | 0.822231 |
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Target: 5'- gCAAUCgUGCCgGUUccugcacCGCCuGCCGUUa -3' miRNA: 3'- aGUUAG-ACGGgUAA-------GCGGuCGGUAAc -5' |
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| 27979 | 3' | -51.7 | NC_005886.2 | + | 42698 | 0.68 | 0.740034 |
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Target: 5'- -aGAUCgGCCgCGUUUGCguGCCAUa- -3' miRNA: 3'- agUUAGaCGG-GUAAGCGguCGGUAac -5' |
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| 27979 | 3' | -51.7 | NC_005886.2 | + | 22317 | 0.68 | 0.717777 |
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Target: 5'- gCGAUUUGaUCCGuUUCGUCAGCCGUc- -3' miRNA: 3'- aGUUAGAC-GGGU-AAGCGGUCGGUAac -5' |
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| 27979 | 3' | -51.7 | NC_005886.2 | + | 25732 | 1.08 | 0.001764 |
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Target: 5'- cUCAAUCUGCCCAUUCGCCAGCCAUUGc -3' miRNA: 3'- -AGUUAGACGGGUAAGCGGUCGGUAAC- -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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