miRNA: 3'- gUGUUCu---------CGC-GCGUC-CCACAGUGacu -5'
miRNA: 3'- gUGUUCu--CGCGCGUC-CCACa------GUGACU- -5'
miRNA: 3'- gUGUUCUCGCgCG-------UCCCa-----CAGUGACU- -5'
miRNA: 3'- -GUGUUCUCGCGCGUCCCACAGUGACU- -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 | |||||||
| 24964 | 5' | -55.4 | NC_005284.1 | + | 12266 | 0.66 | 0.695958 |
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Target: 5'- gGCGAGuucgugguccGCGcCGCAGuGGUGUCGCa-- -3' miRNA: 3'- gUGUUCu---------CGC-GCGUC-CCACAGUGacu -5' |
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| 24964 | 5' | -55.4 | NC_005284.1 | + | 7800 | 0.68 | 0.57443 |
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Target: 5'- gACGAGccuGCGUGCAGcGGUGcugaaccCGCUGAc -3' miRNA: 3'- gUGUUCu--CGCGCGUC-CCACa------GUGACU- -5' |
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| 24964 | 5' | -55.4 | NC_005284.1 | + | 14182 | 0.69 | 0.477539 |
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Target: 5'- gGCGAGAGCG-GCcccccaaAGGGgcggccGUCGCUGAc -3' miRNA: 3'- gUGUUCUCGCgCG-------UCCCa-----CAGUGACU- -5' |
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| 24964 | 5' | -55.4 | NC_005284.1 | + | 49060 | 1.08 | 0.000991 |
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Target: 5'- gCACAAGAGCGCGCAGGGUGUCACUGAc -3' miRNA: 3'- -GUGUUCUCGCGCGUCCCACAGUGACU- -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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