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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 16332 | 5' | -52.9 | NC_004084.1 | + | 29063 | 0.66 | 0.88141 |
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Target: 5'- -aGGccGCGACCGcccgcUCGGGGgcgucGUCGCCg -3' miRNA: 3'- gcUCucUGCUGGU-----AGCCCUa----UAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 26756 | 0.66 | 0.857689 |
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Target: 5'- ----cGACGGCCAUCGaGAgGUCGCg -3' miRNA: 3'- gcucuCUGCUGGUAGCcCUaUAGCGg -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 5882 | 0.66 | 0.857689 |
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Target: 5'- gGAGcAGACcGCCA-CGGGG-AUCGUCc -3' miRNA: 3'- gCUC-UCUGcUGGUaGCCCUaUAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 50790 | 0.66 | 0.857689 |
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Target: 5'- cCGAcGAGACGaACC--CGGGA-AUCGUCc -3' miRNA: 3'- -GCU-CUCUGC-UGGuaGCCCUaUAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 9553 | 0.67 | 0.849305 |
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Target: 5'- uGGGAGuACGGCUA-CGaGGAgguaccggaGUCGCCg -3' miRNA: 3'- gCUCUC-UGCUGGUaGC-CCUa--------UAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 44220 | 0.67 | 0.840694 |
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Target: 5'- aCGAGcGGAUGGCCGacggcUGGGAgcUCGUCu -3' miRNA: 3'- -GCUC-UCUGCUGGUa----GCCCUauAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 27932 | 0.67 | 0.840694 |
|
Target: 5'- uGAGaAGACGACUAcUCGGGuaacugGUCGg- -3' miRNA: 3'- gCUC-UCUGCUGGU-AGCCCua----UAGCgg -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 41890 | 0.67 | 0.831866 |
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Target: 5'- gCGAGGagguccacGACGACCG-CGGcGcgcgAUCGCCu -3' miRNA: 3'- -GCUCU--------CUGCUGGUaGCC-Cua--UAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 47504 | 0.67 | 0.831866 |
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Target: 5'- gCGaAGAcGACGAacuccCCgAUCGGGAguacccgacgAUCGCCa -3' miRNA: 3'- -GC-UCU-CUGCU-----GG-UAGCCCUa---------UAGCGG- -5' |
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| 16332 | 5' | -52.9 | NC_004084.1 | + | 41084 | 0.72 | 0.528253 |
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Target: 5'- uCGAcGAGACGAUg--CGGGccGUCGCCg -3' miRNA: 3'- -GCU-CUCUGCUGguaGCCCuaUAGCGG- -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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