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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 | |||||||
| 1308 | 5' | -59.9 | NC_001331.1 | + | 5858 | 1.11 | 1.3e-05 |
|
Target: 5'- gUCAUCCAGCGGUCGGCCCGUCUCGCCc -3' miRNA: 3'- -AGUAGGUCGCCAGCCGGGCAGAGCGG- -5' |
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| 1308 | 5' | -59.9 | NC_001331.1 | + | 198 | 0.73 | 0.024819 |
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Target: 5'- gCGUCCAGCagGGUCGGCUCGauguuguaUUCGCUg -3' miRNA: 3'- aGUAGGUCG--CCAGCCGGGCa-------GAGCGG- -5' |
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| 1308 | 5' | -59.9 | NC_001331.1 | + | 4902 | 0.68 | 0.05966 |
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Target: 5'- aCAUCCAGCGcGauaugcacagcugcUUGGUUgGUCUCGCa -3' miRNA: 3'- aGUAGGUCGC-C--------------AGCCGGgCAGAGCGg -5' |
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| 1308 | 5' | -59.9 | NC_001331.1 | + | 344 | 0.68 | 0.060244 |
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Target: 5'- --cUUgGGCGGUCGGCgCCaucggCUUGCCg -3' miRNA: 3'- aguAGgUCGCCAGCCG-GGca---GAGCGG- -5' |
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| 1308 | 5' | -59.9 | NC_001331.1 | + | 3270 | 0.68 | 0.064285 |
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Target: 5'- cCAUggGGCGGUCGGCCgCGUgg-GCCg -3' miRNA: 3'- aGUAggUCGCCAGCCGG-GCAgagCGG- -5' |
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| 1308 | 5' | -59.9 | NC_001331.1 | + | 4299 | 0.66 | 0.104044 |
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Target: 5'- cCggCCGGCGGcgCGGCCCGcccCUCa-- -3' miRNA: 3'- aGuaGGUCGCCa-GCCGGGCa--GAGcgg -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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