miRNA: 3'- -CCAU-UUCUGCC-UGG------------ACCGGCAUUUCU- -5'
miRNA: 3'- ccauUUCUGCCU---GGACCGGCaUUUCU- -5'
miRNA: 3'- ccaUUUCugCCU--GGACCGGCauUUCU- -5'
miRNA: 3'- ccaUUUCUGCC-----------UGGACCGGCAUU--UCU- -5'
miRNA: 3'- -CCAUUUCUGCCUGGACCGGCAUUUCU- -5'
Results 41 - 45 of 45 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 | |||||||
| 27066 | 3' | -49.7 | NC_005832.1 | + | 41065 | 0.75 | 0.707126 |
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Target: 5'- gGGUAcGGGACGGcAUCaaaguaaaacgaUGGCCGUAAAGAc -3' miRNA: 3'- -CCAU-UUCUGCC-UGG------------ACCGGCAUUUCU- -5' |
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| 27066 | 3' | -49.7 | NC_005832.1 | + | 47914 | 0.76 | 0.696466 |
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Target: 5'- ---cGAGGCGGAgguCCUGGCCGaGAGGGg -3' miRNA: 3'- ccauUUCUGCCU---GGACCGGCaUUUCU- -5' |
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| 27066 | 3' | -49.7 | NC_005832.1 | + | 56534 | 0.77 | 0.620727 |
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Target: 5'- --gGGAGugGGGuuCCUGGCCGgcAGGAg -3' miRNA: 3'- ccaUUUCugCCU--GGACCGGCauUUCU- -5' |
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| 27066 | 3' | -49.7 | NC_005832.1 | + | 66883 | 0.77 | 0.59903 |
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Target: 5'- --gGGAGACGGgaggaaggggcACCUGGCCGUAGugGGAc -3' miRNA: 3'- ccaUUUCUGCC-----------UGGACCGGCAUU--UCU- -5' |
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| 27066 | 3' | -49.7 | NC_005832.1 | + | 41000 | 1.12 | 0.005657 |
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Target: 5'- uGGUAAAGACGGACCUGGCCGUAAAGAu -3' miRNA: 3'- -CCAUUUCUGCCUGGACCGGCAUUUCU- -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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