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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 | |||||||
| 132 | 5' | -55 | AC_000006.1 | + | 15541 | 1.1 | 0.000466 |
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Target: 5'- gCCGCGGCCAUCUCUAGCAUGACCAGAc -3' miRNA: 3'- -GGCGCCGGUAGAGAUCGUACUGGUCU- -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 7544 | 0.7 | 0.363852 |
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Target: 5'- cCCaCGGCCAUCUUUucgGGUGUGACgCAGu -3' miRNA: 3'- -GGcGCCGGUAGAGA---UCGUACUG-GUCu -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 6215 | 0.68 | 0.481061 |
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Target: 5'- gCCGCGGUUAUg-C-AGgGUGACCAGGu -3' miRNA: 3'- -GGCGCCGGUAgaGaUCgUACUGGUCU- -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 9982 | 0.67 | 0.546134 |
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Target: 5'- -aGCGGCCAgcgCUGG-GUGGCCGGc -3' miRNA: 3'- ggCGCCGGUagaGAUCgUACUGGUCu -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 10553 | 0.66 | 0.613762 |
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Target: 5'- gCCGCGGCCGUCc---GCGa-ACCGGGu -3' miRNA: 3'- -GGCGCCGGUAGagauCGUacUGGUCU- -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 18095 | 0.68 | 0.485288 |
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Target: 5'- gUGCuGGCCAUgUCUAGCacccgguugucgcccAcGGCCAGAg -3' miRNA: 3'- gGCG-CCGGUAgAGAUCG---------------UaCUGGUCU- -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 1809 | 0.68 | 0.460204 |
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Target: 5'- -gGUGGCCGagauUCagagaaUCUAGCA-GGCCAGAg -3' miRNA: 3'- ggCGCCGGU----AG------AGAUCGUaCUGGUCU- -5' |
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| 132 | 5' | -55 | AC_000006.1 | + | 4770 | 0.69 | 0.410274 |
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Target: 5'- aUCGgGGUCAUCUacGGCccGACCGGGu -3' miRNA: 3'- -GGCgCCGGUAGAgaUCGuaCUGGUCU- -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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