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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 | |||||||
| 28365 | 3' | -58.3 | NC_005946.1 | + | 35463 | 0.67 | 0.639213 |
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Target: 5'- cGGCCGCUgUGGACuCUgggUCAGAcGCUGc -3' miRNA: 3'- -CCGGCGAgGCCUGcGG---AGUUU-CGACa -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 35940 | 0.67 | 0.690656 |
|
Target: 5'- cGGCCGCcgCCaGGGC-CCUCGcAGCgGg -3' miRNA: 3'- -CCGGCGa-GG-CCUGcGGAGUuUCGaCa -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 20870 | 0.68 | 0.587618 |
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Target: 5'- aGGCCGC-CgCGGugGCCcugagggcaAAGGCUGc -3' miRNA: 3'- -CCGGCGaG-GCCugCGGag-------UUUCGACa -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 58102 | 0.68 | 0.628873 |
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Target: 5'- uGGCCGCggcgCCGGGCaugccugcCCUCAAGaccugcucGCUGa -3' miRNA: 3'- -CCGGCGa---GGCCUGc-------GGAGUUU--------CGACa -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 21911 | 0.69 | 0.526846 |
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Target: 5'- gGGCCGUcaCCGGACugguCCUCAAcgucGCUGUg -3' miRNA: 3'- -CCGGCGa-GGCCUGc---GGAGUUu---CGACA- -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 54248 | 0.69 | 0.536832 |
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Target: 5'- aGGCCGCUCUaGuccaACGCCUCAuagAGGCa-- -3' miRNA: 3'- -CCGGCGAGGcC----UGCGGAGU---UUCGaca -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 43712 | 0.7 | 0.468577 |
|
Target: 5'- uGCCaGCUCCGGcuUGCCUCc--GCUGUa -3' miRNA: 3'- cCGG-CGAGGCCu-GCGGAGuuuCGACA- -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 68950 | 0.71 | 0.459183 |
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Target: 5'- gGGCgGCUCUGGugGuCCUCAgcauccuuuGAGCg-- -3' miRNA: 3'- -CCGgCGAGGCCugC-GGAGU---------UUCGaca -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 23114 | 0.75 | 0.256197 |
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Target: 5'- --aCGCcCCuGGCGCCUCAAAGCUGUu -3' miRNA: 3'- ccgGCGaGGcCUGCGGAGUUUCGACA- -5' |
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| 28365 | 3' | -58.3 | NC_005946.1 | + | 23156 | 1.08 | 0.001267 |
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Target: 5'- uGGCCGCUCCGGACGCCUCAAAGCUGUu -3' miRNA: 3'- -CCGGCGAGGCCUGCGGAGUUUCGACA- -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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