miRNA: 3'- -CCGUCU---UGGCG-UAGCAGuACCGGGgG- -5'
miRNA: 3'- -CCGUCUUGGCGUAg-CAGuacCGGGGG- -5'
miRNA: 3'- cCGUCUugG---CGUAGC------------AGUACCGGGGg -5'
miRNA: 3'- cCGUCU----UgGCGUAGCAGua-------CCGG-GGG- -5'
miRNA: 3'- -CCGUCUUgGCGUAG-CAGUACCGGgGG- -5'
Results 21 - 25 of 25 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 | |||||||
| 30919 | 5' | -56.7 | NC_006552.1 | + | 48438 | 0.71 | 0.411185 |
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Target: 5'- cGGCGGAcacACUGCuGUCGUC-UGGCUCgCu -3' miRNA: 3'- -CCGUCU---UGGCG-UAGCAGuACCGGGgG- -5' |
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| 30919 | 5' | -56.7 | NC_006552.1 | + | 58958 | 0.71 | 0.393274 |
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Target: 5'- cGGCGGAACUGUGUagGUC---GCCCCCu -3' miRNA: 3'- -CCGUCUUGGCGUAg-CAGuacCGGGGG- -5' |
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| 30919 | 5' | -56.7 | NC_006552.1 | + | 64579 | 0.71 | 0.384511 |
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Target: 5'- uGCAGAugCacaGCGUCGacgugguacuggUCAUGGCCCUg -3' miRNA: 3'- cCGUCUugG---CGUAGC------------AGUACCGGGGg -5' |
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| 30919 | 5' | -56.7 | NC_006552.1 | + | 54117 | 0.72 | 0.375877 |
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Target: 5'- cGCAGGcucuGgCGCAUCGUCugagcgccgGGCCgCCCg -3' miRNA: 3'- cCGUCU----UgGCGUAGCAGua-------CCGG-GGG- -5' |
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| 30919 | 5' | -56.7 | NC_006552.1 | + | 24246 | 0.75 | 0.249748 |
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Target: 5'- cGGCGGAA-CGCAUCgGUUGUGGUCgCCg -3' miRNA: 3'- -CCGUCUUgGCGUAG-CAGUACCGGgGG- -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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