miRNA: 3'- guCUUCAUGCGGCuGUCCG--GCCu--CCu -5'
miRNA: 3'- -GUCUUCa--UGCGGCUGUcCGGCCuCCU- -5'
miRNA: 3'- gUCUUCA-------UGCGGCU--------GUCCGGCCU---CCu -5'
miRNA: 3'- -GUCUUCAUGCGGCUGUCCGGCCUCCU- -5'
Results 1 - 4 of 4 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 | |||||||
| 21993 | 3' | -57.4 | NC_004914.1 | + | 55944 | 0.66 | 0.631667 |
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Target: 5'- -uGGAGUACGCCG-CGGGCaaCGGugcGGc -3' miRNA: 3'- guCUUCAUGCGGCuGUCCG--GCCu--CCu -5' |
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| 21993 | 3' | -57.4 | NC_004914.1 | + | 59178 | 0.67 | 0.57811 |
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Target: 5'- cCAGGAGagcGCGCUGGCGuGCUGG-GGAa -3' miRNA: 3'- -GUCUUCa--UGCGGCUGUcCGGCCuCCU- -5' |
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| 21993 | 3' | -57.4 | NC_004914.1 | + | 21296 | 0.69 | 0.464183 |
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Target: 5'- gAGAAGUggcgcguACGCCGGaugaaaauCAGGCCGGAcguGGu -3' miRNA: 3'- gUCUUCA-------UGCGGCU--------GUCCGGCCU---CCu -5' |
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| 21993 | 3' | -57.4 | NC_004914.1 | + | 21607 | 1.08 | 0.000823 |
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Target: 5'- gCAGAAGUACGCCGACAGGCCGGAGGAa -3' miRNA: 3'- -GUCUUCAUGCGGCUGUCCGGCCUCCU- -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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