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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 23377 | 3' | -53.9 | NC_005259.1 | + | 953 | 0.69 | 0.671181 |
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Target: 5'- gUCGG-GCAGCUCgcgcaACGGCUcaacgGCGAc -3' miRNA: 3'- -AGCCuCGUCGAGa----UGCUGAaga--CGCU- -5' |
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| 23377 | 3' | -53.9 | NC_005259.1 | + | 3334 | 0.67 | 0.766583 |
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Target: 5'- cCGG-GCAGCUCUGCGuGCU-CgGCa- -3' miRNA: 3'- aGCCuCGUCGAGAUGC-UGAaGaCGcu -5' |
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| 23377 | 3' | -53.9 | NC_005259.1 | + | 53410 | 0.69 | 0.638322 |
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Target: 5'- cCGGGGCGGUUCUGCGuag-C-GCGAc -3' miRNA: 3'- aGCCUCGUCGAGAUGCugaaGaCGCU- -5' |
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| 23377 | 3' | -53.9 | NC_005259.1 | + | 58971 | 0.74 | 0.391594 |
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Target: 5'- gUCGG-GCAGCUCgucgGCGACg---GCGAg -3' miRNA: 3'- -AGCCuCGUCGAGa---UGCUGaagaCGCU- -5' |
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| 23377 | 3' | -53.9 | NC_005259.1 | + | 60075 | 0.72 | 0.508792 |
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Target: 5'- cUCGG-GCGGCUCgcCGACUuucUCgaugGCGAg -3' miRNA: 3'- -AGCCuCGUCGAGauGCUGA---AGa---CGCU- -5' |
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| 23377 | 3' | -53.9 | NC_005259.1 | + | 64770 | 0.66 | 0.805901 |
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Target: 5'- aCGGugcgccucGGCGGCccgCUGCGACUggCUGUGu -3' miRNA: 3'- aGCC--------UCGUCGa--GAUGCUGAa-GACGCu -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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