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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 | |||||||
| 22485 | 3' | -48.5 | NC_005066.1 | + | 83563 | 0.67 | 0.99886 |
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Target: 5'- -gUGAUCGGuGCAAGaucCAGAUCCGCa -3' miRNA: 3'- agAUUGGUUcUGUUCa--GUCUAGGCGg -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 66297 | 0.67 | 0.998616 |
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Target: 5'- -aUAACCAuguGuACGAGUCAGAgagCgGUCa -3' miRNA: 3'- agAUUGGUu--C-UGUUCAGUCUa--GgCGG- -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 58886 | 0.67 | 0.998328 |
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Target: 5'- gCUAGCagguugGAGACAAGgaAGAUUCGCUa -3' miRNA: 3'- aGAUUGg-----UUCUGUUCagUCUAGGCGG- -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 87695 | 0.68 | 0.997147 |
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Target: 5'- gCUcGCCAccauaaGGAUAcauGGUCAGAUCCGgUg -3' miRNA: 3'- aGAuUGGU------UCUGU---UCAGUCUAGGCgG- -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 118281 | 0.68 | 0.995628 |
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Target: 5'- cCUGugCAAGAuagauauuuccguucCAAGUgaaAGAUCCGUCu -3' miRNA: 3'- aGAUugGUUCU---------------GUUCAg--UCUAGGCGG- -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 135742 | 0.71 | 0.977343 |
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Target: 5'- aUCUAuacuuCCGAGAUGAGgaaGGuuUCCGCCa -3' miRNA: 3'- -AGAUu----GGUUCUGUUCag-UCu-AGGCGG- -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 116776 | 0.76 | 0.83095 |
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Target: 5'- gUUAGCCAGuucgcGGCAAGuuuUCAGAUCCGCa -3' miRNA: 3'- aGAUUGGUU-----CUGUUC---AGUCUAGGCGg -5' |
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| 22485 | 3' | -48.5 | NC_005066.1 | + | 96757 | 1.13 | 0.009408 |
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Target: 5'- aUCUAACCAAGACAAGUCAGAUCCGCCc -3' miRNA: 3'- -AGAUUGGUUCUGUUCAGUCUAGGCGG- -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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