miRNA: 3'- cGCACCCGuGAGCCUaagaAGuaCCG- -5'
miRNA: 3'- cgCACCCGUGagccUAAG--------AAGUACCG- -5'
miRNA: 3'- cGCaCCCGUgAGCCUAAGAAGUa---CCG- -5'
miRNA: 3'- -CGCAC-CCGUGAGC-CuaAGAAGuAC-CG- -5'
miRNA: 3'- -CGCACCCGUGAGCCUAAGAAGUACCG- -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 | |||||||
| 22079 | 5' | -52.4 | NC_004927.1 | + | 34920 | 0.66 | 0.931622 |
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Target: 5'- uCGUGGGUcUUCGGAg---UCccGGCg -3' miRNA: 3'- cGCACCCGuGAGCCUaagaAGuaCCG- -5' |
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| 22079 | 5' | -52.4 | NC_004927.1 | + | 74428 | 0.66 | 0.900925 |
|
Target: 5'- -gGUGGGCACgcucAUUCgugccgauUUCAUGGCg -3' miRNA: 3'- cgCACCCGUGagccUAAG--------AAGUACCG- -5' |
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| 22079 | 5' | -52.4 | NC_004927.1 | + | 4190 | 0.68 | 0.846985 |
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Target: 5'- cCG-GGGCG-UCGGGUUCUUCGcuuaGGUg -3' miRNA: 3'- cGCaCCCGUgAGCCUAAGAAGUa---CCG- -5' |
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| 22079 | 5' | -52.4 | NC_004927.1 | + | 60864 | 0.72 | 0.601155 |
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Target: 5'- uGCGUGcGGCGCUUGaGggUCUUC-UGaGCa -3' miRNA: 3'- -CGCAC-CCGUGAGC-CuaAGAAGuAC-CG- -5' |
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| 22079 | 5' | -52.4 | NC_004927.1 | + | 48043 | 1.15 | 0.001207 |
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Target: 5'- gGCGUGGGCACUCGGAUUCUUCAUGGCa -3' miRNA: 3'- -CGCACCCGUGAGCCUAAGAAGUACCG- -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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