miRNA: 3'- gCUGUUGC-AUCUG-------CACCGGGCCAagg -5'
miRNA: 3'- -GCUGUUGCauCU-GCACCGGGcCaaGG- -5'
miRNA: 3'- -GCUGUUgCaUCUGCACCGGGCCaAGG- -5'
miRNA: 3'- -GCUGUUGC--AUCUGCACCGG--------GCCAA-GG- -5'
miRNA: 3'- -GCUGUUGCAUCUGCACCGGGCCAAGG- -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 | |||||||
| 7245 | 3' | -53.9 | NC_001900.1 | + | 5050 | 0.72 | 0.446115 |
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Target: 5'- uGAUGACGaUGGACauccccgGUGGCCCGGUg-- -3' miRNA: 3'- gCUGUUGC-AUCUG-------CACCGGGCCAagg -5' |
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| 7245 | 3' | -53.9 | NC_001900.1 | + | 27021 | 0.74 | 0.355431 |
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Target: 5'- gCGACGAUGgcGAcCGUGGCCCuGagCCg -3' miRNA: 3'- -GCUGUUGCauCU-GCACCGGGcCaaGG- -5' |
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| 7245 | 3' | -53.9 | NC_001900.1 | + | 5887 | 0.75 | 0.292193 |
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Target: 5'- uCGGCAAgGaAGAUGUGGUCUGGaUCCu -3' miRNA: 3'- -GCUGUUgCaUCUGCACCGGGCCaAGG- -5' |
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| 7245 | 3' | -53.9 | NC_001900.1 | + | 20500 | 0.75 | 0.292193 |
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Target: 5'- aCGACGGCGagUGGGCGUGGCUgaagcggaCGGUUgCCc -3' miRNA: 3'- -GCUGUUGC--AUCUGCACCGG--------GCCAA-GG- -5' |
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| 7245 | 3' | -53.9 | NC_001900.1 | + | 2139 | 1.12 | 0.00089 |
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Target: 5'- cCGACAACGUAGACGUGGCCCGGUUCCu -3' miRNA: 3'- -GCUGUUGCAUCUGCACCGGGCCAAGG- -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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