miRNA: 3'- gGCUGGUCGa-GGUCUGCC-CU-GAAGUG- -5'
miRNA: 3'- -GGCU---GGUCGAGGUCUgCCCUGa---------AGUG- -5'
miRNA: 3'- gGCUGg--UCGAGGUCUGC-CCUGAAGuG- -5'
miRNA: 3'- -GGCUGGUCGAGGUCUGCCCUGAAGUG- -5'
Results 21 - 24 of 24 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 | |||||||
| 1346 | 3' | -56.1 | NC_001335.1 | + | 45548 | 0.72 | 0.314725 |
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Target: 5'- aCGGUCAGCgaCCAGACGGuGAuCUUCACu -3' miRNA: 3'- gGCUGGUCGa-GGUCUGCC-CU-GAAGUG- -5' |
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| 1346 | 3' | -56.1 | NC_001335.1 | + | 47707 | 0.73 | 0.292288 |
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Target: 5'- aCCGAggcUCGGCUCCAGA-GGGACcacaucaucgUCACg -3' miRNA: 3'- -GGCU---GGUCGAGGUCUgCCCUGa---------AGUG- -5' |
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| 1346 | 3' | -56.1 | NC_001335.1 | + | 13905 | 0.76 | 0.183363 |
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Target: 5'- aCGACaugGGUUCCAGACGuGGACUUC-Cg -3' miRNA: 3'- gGCUGg--UCGAGGUCUGC-CCUGAAGuG- -5' |
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| 1346 | 3' | -56.1 | NC_001335.1 | + | 11230 | 1.11 | 0.000618 |
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Target: 5'- gCCGACCAGCUCCAGACGGGACUUCACu -3' miRNA: 3'- -GGCUGGUCGAGGUCUGCCCUGAAGUG- -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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