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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 | |||||||
| 9395 | 5' | -55.6 | NC_002513.1 | + | 9848 | 1.1 | 0.000317 |
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Target: 5'- cUAAGGCCCACAUGGCUGCGGCAAACCu -3' miRNA: 3'- -AUUCCGGGUGUACCGACGCCGUUUGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 8817 | 0.67 | 0.428368 |
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Target: 5'- --cGGCCCGCGuuuUGGacccuuaUGCGGUcAGCUa -3' miRNA: 3'- auuCCGGGUGU---ACCg------ACGCCGuUUGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 14706 | 0.66 | 0.52424 |
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Target: 5'- ---uGCCCuuuCAcGGCUGCGGac-GCCa -3' miRNA: 3'- auucCGGGu--GUaCCGACGCCguuUGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 15406 | 0.66 | 0.491238 |
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Target: 5'- gGAGugcGCUUGCGUGGCgcUGCGaCAAACCg -3' miRNA: 3'- aUUC---CGGGUGUACCG--ACGCcGUUUGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 26327 | 0.66 | 0.480451 |
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Target: 5'- gGAGGUgCGCAagUGGCUGUuacuuGGC--ACCa -3' miRNA: 3'- aUUCCGgGUGU--ACCGACG-----CCGuuUGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 172 | 0.67 | 0.44881 |
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Target: 5'- aAAGGUCCGCAguGCUGCGuCAucacguGCCa -3' miRNA: 3'- aUUCCGGGUGUacCGACGCcGUu-----UGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 9001 | 0.67 | 0.408485 |
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Target: 5'- -cAGGCCgauGCGUGGCUuugGGCGGACUa -3' miRNA: 3'- auUCCGGg--UGUACCGAcg-CCGUUUGG- -5' |
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| 9395 | 5' | -55.6 | NC_002513.1 | + | 4186 | 0.73 | 0.1844 |
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Target: 5'- --cGGaCCCAC-UGGUUGUGGUAAAUCu -3' miRNA: 3'- auuCC-GGGUGuACCGACGCCGUUUGG- -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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