miRNA: 3'- -GGuGAGGGGAACCUGaaaCUGGGUcg -5'
miRNA: 3'- -GGUGAGGggAACCUGAaACUGGG-----------UCG- -5'
miRNA: 3'- gGUGaGGGGAACCugAAACU--------GGGUCG- -5'
miRNA: 3'- -GGUGAGGGGAACCUGAAACUGGGUCG- -5'
Results 1 - 4 of 4 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 | |||||||
| 4352 | 5' | -53.6 | NC_001720.1 | + | 5329 | 0.68 | 0.634414 |
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Target: 5'- gCUcCUCCCCUUGGACgc-GAUCUAu- -3' miRNA: 3'- -GGuGAGGGGAACCUGaaaCUGGGUcg -5' |
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| 4352 | 5' | -53.6 | NC_001720.1 | + | 613 | 0.7 | 0.534159 |
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Target: 5'- uUCACUCCaaUUGGACUcUGACUCcgaaaaguaguAGCa -3' miRNA: 3'- -GGUGAGGggAACCUGAaACUGGG-----------UCG- -5' |
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| 4352 | 5' | -53.6 | NC_001720.1 | + | 34340 | 0.75 | 0.26976 |
|
Target: 5'- aCACgCCUCUUGGugUUUGAacaggcauCCCAGUa -3' miRNA: 3'- gGUGaGGGGAACCugAAACU--------GGGUCG- -5' |
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| 4352 | 5' | -53.6 | NC_001720.1 | + | 5225 | 1.15 | 0.000435 |
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Target: 5'- aCCACUCCCCUUGGACUUUGACCCAGCg -3' miRNA: 3'- -GGUGAGGGGAACCUGAAACUGGGUCG- -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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