miRNA: 3'- caCGGUUAUGGAgUag--UGGUUGGGga -5'
miRNA: 3'- caCGGUuaUGgAGUAGUGGU-----UGG-GGA- -5'
miRNA: 3'- -CACGGUUa-----UGgAGUaGUGGUUGGGGa -5'
miRNA: 3'- caCGg-UUAUGGAgUAGUGGuuGGGGa -5'
miRNA: 3'- -CACGGUUAUGGAGUAGUGGUUGGGGA- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 33221 | 5' | -52.9 | NC_007523.1 | + | 2432 | 0.66 | 0.174093 |
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Target: 5'- -gGCCAAUACCUgAagaaGCUGACCCg- -3' miRNA: 3'- caCGGUUAUGGAgUag--UGGUUGGGga -5' |
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| 33221 | 5' | -52.9 | NC_007523.1 | + | 2325 | 0.67 | 0.137162 |
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Target: 5'- -aGCCGccGCgUCGUCACCAccaucACCgCCUg -3' miRNA: 3'- caCGGUuaUGgAGUAGUGGU-----UGG-GGA- -5' |
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| 33221 | 5' | -52.9 | NC_007523.1 | + | 1635 | 0.68 | 0.119428 |
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Target: 5'- uGUGCCGAcgaagcAUgUCGcCGCCGACCCCc -3' miRNA: 3'- -CACGGUUa-----UGgAGUaGUGGUUGGGGa -5' |
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| 33221 | 5' | -52.9 | NC_007523.1 | + | 4538 | 0.72 | 0.052743 |
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Target: 5'- -aGCagAAUGCCUgGUCACCggUCCCg -3' miRNA: 3'- caCGg-UUAUGGAgUAGUGGuuGGGGa -5' |
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| 33221 | 5' | -52.9 | NC_007523.1 | + | 2141 | 1.07 | 0.000057 |
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Target: 5'- gGUGCCAAUACCUCAUCACCAACCCCUc -3' miRNA: 3'- -CACGGUUAUGGAGUAGUGGUUGGGGA- -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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