miRNA: 3'- -GCCGCCAgu--GGa--------GCCACG----GGUCCUAg -5'
miRNA: 3'- -GCCGCCaGUGGagCCaCGGgUCCUag -5'
miRNA: 3'- gCC-GCCAGuGGAGCCaCGGgUCCuAG- -5'
miRNA: 3'- -GCCGCCaGUGGa--------------GCCa-----CGGGU--CCUAG- -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 | |||||||
| 23488 | 5' | -60.8 | NC_005259.1 | + | 66905 | 0.66 | 0.483498 |
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Target: 5'- aCGGCGGUagauCCggcagcgcgCGGUGCucgaCCGGGGUg -3' miRNA: 3'- -GCCGCCAgu--GGa--------GCCACG----GGUCCUAg -5' |
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| 23488 | 5' | -60.8 | NC_005259.1 | + | 20654 | 0.66 | 0.493225 |
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Target: 5'- uCGGCGG-CACCg-GG-GCCgAGGAc- -3' miRNA: 3'- -GCCGCCaGUGGagCCaCGGgUCCUag -5' |
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| 23488 | 5' | -60.8 | NC_005259.1 | + | 4752 | 0.66 | 0.50304 |
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Target: 5'- aGGcCGGUC-CCUCGG-GCC-GGGcUCa -3' miRNA: 3'- gCC-GCCAGuGGAGCCaCGGgUCCuAG- -5' |
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| 23488 | 5' | -60.8 | NC_005259.1 | + | 65136 | 0.66 | 0.513933 |
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Target: 5'- cCGGCGGcCACCcccgacaagucgaaaCGGgccaugGCCCGccGGGUCa -3' miRNA: 3'- -GCCGCCaGUGGa--------------GCCa-----CGGGU--CCUAG- -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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