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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 | |||||||
| 21988 | 5' | -59.4 | NC_004914.1 | + | 9636 | 0.66 | 0.499433 |
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Target: 5'- ---cGGUCCcuGUGGGCCUgcc-GGGCc -3' miRNA: 3'- uuguCCAGGu-CACCCGGGaguuCCCG- -5' |
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| 21988 | 5' | -59.4 | NC_004914.1 | + | 9132 | 0.66 | 0.469438 |
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Target: 5'- uGCAGGaCCAGguucaCCUCGGGGGCc -3' miRNA: 3'- uUGUCCaGGUCacccgGGAGUUCCCG- -5' |
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| 21988 | 5' | -59.4 | NC_004914.1 | + | 9511 | 0.69 | 0.343388 |
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Target: 5'- uGCAGGUCCAcaGGGUCCa-AAGGGa -3' miRNA: 3'- uUGUCCAGGUcaCCCGGGagUUCCCg -5' |
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| 21988 | 5' | -59.4 | NC_004914.1 | + | 9439 | 0.74 | 0.143963 |
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Target: 5'- uGCuGGUCCGGcaGGCCCgCAGGGGCc -3' miRNA: 3'- uUGuCCAGGUCacCCGGGaGUUCCCG- -5' |
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| 21988 | 5' | -59.4 | NC_004914.1 | + | 9348 | 0.77 | 0.098023 |
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Target: 5'- cAGCAGGUCCGGcUGGGCCg--AAGGGUg -3' miRNA: 3'- -UUGUCCAGGUC-ACCCGGgagUUCCCG- -5' |
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| 21988 | 5' | -59.4 | NC_004914.1 | + | 9591 | 0.8 | 0.05273 |
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Target: 5'- cGGCAGGcCCGGUGGGggcgaccggaCCUCAGGGGCc -3' miRNA: 3'- -UUGUCCaGGUCACCCg---------GGAGUUCCCG- -5' |
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| 21988 | 5' | -59.4 | NC_004914.1 | + | 8731 | 1.08 | 0.000472 |
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Target: 5'- aAACAGGUCCAGUGGGCCCUCAAGGGCc -3' miRNA: 3'- -UUGUCCAGGUCACCCGGGAGUUCCCG- -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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