miRNA: 3'- cgGGACCAGGauUGCCCGGAGGuccc -5'
miRNA: 3'- cGGGACCAGGauuGCCCGGaGGu-----------CCC- -5'
miRNA: 3'- -CGGGACCAGGAUUGCCCGGAGGUCCC- -5'
Results 21 - 23 of 23 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 | |||||||
| 9449 | 5' | -60 | NC_002531.1 | + | 117890 | 0.7 | 0.51303 |
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Target: 5'- -aCCUGGUCCgcAUGGGCCUUCu--- -3' miRNA: 3'- cgGGACCAGGauUGCCCGGAGGuccc -5' |
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| 9449 | 5' | -60 | NC_002531.1 | + | 119280 | 0.7 | 0.47377 |
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Target: 5'- cCCCUGGUCCcu-CGGGCC-CCucuugagcaccuGGGc -3' miRNA: 3'- cGGGACCAGGauuGCCCGGaGGu-----------CCC- -5' |
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| 9449 | 5' | -60 | NC_002531.1 | + | 109974 | 1.1 | 0.000905 |
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Target: 5'- gGCCCUGGUCCUAACGGGCCUCCAGGGc -3' miRNA: 3'- -CGGGACCAGGAUUGCCCGGAGGUCCC- -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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