miRNA: 3'- -CUGCCGc----CCAU----ACGGGac---CuuUACCU- -5'
miRNA: 3'- -CUGCCGCC-C--AUaCGGGACCUUuaCCu -5'
miRNA: 3'- -CUGCCGC-CCAua---CGGgACCu--UUACCU- -5'
miRNA: 3'- cugCCG--CCCA-UACGGGACCUUUaCCU- -5'
miRNA: 3'- -CUGCCGCCCAUACGGGACCUUUACCU- -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 | |||||||
| 23081 | 3' | -55.7 | NC_005178.1 | + | 36532 | 0.66 | 0.576082 |
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Target: 5'- gGACGGCcgagcGGUAgccuUGCCCgcuacGggGUGGAg -3' miRNA: 3'- -CUGCCGc----CCAU----ACGGGac---CuuUACCU- -5' |
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| 23081 | 3' | -55.7 | NC_005178.1 | + | 16376 | 0.66 | 0.542678 |
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Target: 5'- gGGCGGCGGcGccUAcGCCCUGGGGcaGGu -3' miRNA: 3'- -CUGCCGCC-C--AUaCGGGACCUUuaCCu -5' |
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| 23081 | 3' | -55.7 | NC_005178.1 | + | 28149 | 0.7 | 0.353006 |
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Target: 5'- gGACGGUGcGGUucuugGCCgUGGuguAGUGGAu -3' miRNA: 3'- -CUGCCGC-CCAua---CGGgACCu--UUACCU- -5' |
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| 23081 | 3' | -55.7 | NC_005178.1 | + | 30088 | 0.73 | 0.2152 |
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Target: 5'- --aGGCcaGGGUgAUGCCCUGGAAGcGGGu -3' miRNA: 3'- cugCCG--CCCA-UACGGGACCUUUaCCU- -5' |
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| 23081 | 3' | -55.7 | NC_005178.1 | + | 4292 | 1.08 | 0.000574 |
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Target: 5'- uGACGGCGGGUAUGCCCUGGAAAUGGAu -3' miRNA: 3'- -CUGCCGCCCAUACGGGACCUUUACCU- -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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