miRNA: 3'- cuACGCACaCCUACGggCCaGACCuG- -5'
miRNA: 3'- cUACGCaCACCuACG---------------GGCCAGA-CCUG- -5'
miRNA: 3'- cuaCGCaCACCu-------ACGGGCCAGACcUG- -5'
miRNA: 3'- cuaCG-CACACCUACGGGcCAGA-------CCUG- -5'
miRNA: 3'- -CUACGCACACCUACGGGCCAGACCUG- -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 | |||||||
| 23304 | 3' | -57.3 | NC_005259.1 | + | 60250 | 0.66 | 0.655767 |
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Target: 5'- -uUGCGUGcGGGUGCaaGG-CUGGcCa -3' miRNA: 3'- cuACGCACaCCUACGggCCaGACCuG- -5' |
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| 23304 | 3' | -57.3 | NC_005259.1 | + | 8228 | 0.67 | 0.616994 |
|
Target: 5'- cGUGCG-GUGG-UGCcgacacccugccuuaCCGGUCUuGGGCg -3' miRNA: 3'- cUACGCaCACCuACG---------------GGCCAGA-CCUG- -5' |
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| 23304 | 3' | -57.3 | NC_005259.1 | + | 31278 | 0.69 | 0.467104 |
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Target: 5'- --gGCG-GUGGcgagaucuUGCCCGGUCUGcGCa -3' miRNA: 3'- cuaCGCaCACCu-------ACGGGCCAGACcUG- -5' |
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| 23304 | 3' | -57.3 | NC_005259.1 | + | 19973 | 0.71 | 0.36537 |
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Target: 5'- --gGCgGUGUGGGUGCCC-GUCUacaacgaGGACg -3' miRNA: 3'- cuaCG-CACACCUACGGGcCAGA-------CCUG- -5' |
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| 23304 | 3' | -57.3 | NC_005259.1 | + | 17909 | 1.08 | 0.000839 |
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Target: 5'- cGAUGCGUGUGGAUGCCCGGUCUGGACc -3' miRNA: 3'- -CUACGCACACCUACGGGCCAGACCUG- -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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