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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 28358 | 5' | -53.6 | NC_005946.1 | + | 39201 | 0.66 | 0.936325 |
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Target: 5'- gACUUUCUGGGAGACUuucUCCCa----- -3' miRNA: 3'- -UGAGAGGCCUUCUGAu--AGGGcuucca -5' |
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| 28358 | 5' | -53.6 | NC_005946.1 | + | 36480 | 0.67 | 0.872742 |
|
Target: 5'- aACUCUCCGGggGuCcugGUCCCaaacGGcAGGg -3' miRNA: 3'- -UGAGAGGCCuuCuGa--UAGGG----CU-UCCa -5' |
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| 28358 | 5' | -53.6 | NC_005946.1 | + | 39004 | 0.67 | 0.894458 |
|
Target: 5'- gACUUUCUGGGAGACUuucUCaCUGGAGa- -3' miRNA: 3'- -UGAGAGGCCUUCUGAu--AG-GGCUUCca -5' |
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| 28358 | 5' | -53.6 | NC_005946.1 | + | 90681 | 0.67 | 0.901206 |
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Target: 5'- gGCUCUCCugagcagcGGGAGGCccuugGUCUCG-AGGUc -3' miRNA: 3'- -UGAGAGG--------CCUUCUGa----UAGGGCuUCCA- -5' |
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| 28358 | 5' | -53.6 | NC_005946.1 | + | 23066 | 0.74 | 0.506431 |
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Target: 5'- ----cCCGGAGGACccggagGUCCCGGAGGUc -3' miRNA: 3'- ugagaGGCCUUCUGa-----UAGGGCUUCCA- -5' |
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| 28358 | 5' | -53.6 | NC_005946.1 | + | 19963 | 1.07 | 0.004566 |
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Target: 5'- gACUCUCCGGAAGACUAUCCCGAAGGUc -3' miRNA: 3'- -UGAGAGGCCUUCUGAUAGGGCUUCCA- -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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