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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
11874 | 3' | -58.4 | NC_003266.2 | + | 5625 | 1.11 | 0.000264 |
Target: 5'- uGGGACGCCGCGGUCCUCGUCGUAGAGg -3' miRNA: 3'- -CCCUGCGGCGCCAGGAGCAGCAUCUC- -5' |
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11874 | 3' | -58.4 | NC_003266.2 | + | 22661 | 0.68 | 0.367696 |
Target: 5'- cGGaAUGCCGCGGugcUCCUCGUUGa---- -3' miRNA: 3'- cCC-UGCGGCGCC---AGGAGCAGCaucuc -5' |
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11874 | 3' | -58.4 | NC_003266.2 | + | 10119 | 0.68 | 0.379887 |
Target: 5'- gGGGGCGCCGggcgcuaGGUCCUCGagcauggugcgguggUagcCGUAGAu -3' miRNA: 3'- -CCCUGCGGCg------CCAGGAGC---------------A---GCAUCUc -5' |
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11874 | 3' | -58.4 | NC_003266.2 | + | 9377 | 0.66 | 0.460425 |
Target: 5'- aGGugGCCcggGgGGUCCcCGUUGggcagGGAGa -3' miRNA: 3'- cCCugCGG---CgCCAGGaGCAGCa----UCUC- -5' |
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11874 | 3' | -58.4 | NC_003266.2 | + | 8882 | 0.67 | 0.412454 |
Target: 5'- aGGGCGCCGUGGUuuacagCCgCGUC-UGGAa -3' miRNA: 3'- cCCUGCGGCGCCA------GGaGCAGcAUCUc -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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