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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28192 | 5' | -53.6 | NC_005891.1 | + | 317 | 0.79 | 0.124279 |
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Target: 5'- uGCGCGCGUguuccuuuuuuACGCGUACGUGCGcGCGu -3' miRNA: 3'- gUGCGCGCG-----------UGUGUAUGCAUGCuCGU- -5' |
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| 28192 | 5' | -53.6 | NC_005891.1 | + | 33765 | 0.66 | 0.699762 |
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Target: 5'- uGCgGUGCGUACgACGgGCG-GCGAGCAu -3' miRNA: 3'- gUG-CGCGCGUG-UGUaUGCaUGCUCGU- -5' |
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| 28192 | 5' | -53.6 | NC_005891.1 | + | 39559 | 0.66 | 0.733037 |
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Target: 5'- aCACGaCGgGU-CGCGUACGUugGuuuGGCAa -3' miRNA: 3'- -GUGC-GCgCGuGUGUAUGCAugC---UCGU- -5' |
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| 28192 | 5' | -53.6 | NC_005891.1 | + | 24393 | 0.66 | 0.722037 |
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Target: 5'- aACGCGU-CAUGC-UugGUGCGGGUAg -3' miRNA: 3'- gUGCGCGcGUGUGuAugCAUGCUCGU- -5' |
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| 28192 | 5' | -53.6 | NC_005891.1 | + | 23183 | 0.7 | 0.486746 |
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Target: 5'- aCAUGUGUGCuCAUAUugGcauUACGGGCGa -3' miRNA: 3'- -GUGCGCGCGuGUGUAugC---AUGCUCGU- -5' |
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| 28192 | 5' | -53.6 | NC_005891.1 | + | 366 | 1 | 0.00409 |
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Target: 5'- aCACGCGCGCACACAUACGUACGAGg- -3' miRNA: 3'- -GUGCGCGCGUGUGUAUGCAUGCUCgu -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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