miRNA: 3'- ccCGugCCAGUCcuGCCUAG-------AGGGCa -5'
miRNA: 3'- -CCCGUGCCa-GU---CCUGcCUAGa--GGGCa -5'
miRNA: 3'- -CCCGUGCCa------GUCCUG---CCUagaGGGCa -5'
miRNA: 3'- -CCCGugCCA-GUCCUGCCu-AG--AGGGCa -5'
miRNA: 3'- ccCGUGCCag-UCCUGCCUAGaGGGCa -5'
Results 41 - 45 of 45 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 | |||||||
| 9372 | 5' | -59 | NC_002512.2 | + | 153294 | 0.66 | 0.896364 |
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Target: 5'- -cGCugGGUCGGucCGGGUCggccgguUCCCGc -3' miRNA: 3'- ccCGugCCAGUCcuGCCUAG-------AGGGCa -5' |
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| 9372 | 5' | -59 | NC_002512.2 | + | 191042 | 0.66 | 0.89698 |
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Target: 5'- gGGGCGCGGcgCAcguGGACcGGUCgcgCCUGg -3' miRNA: 3'- -CCCGUGCCa-GU---CCUGcCUAGa--GGGCa -5' |
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| 9372 | 5' | -59 | NC_002512.2 | + | 95267 | 0.66 | 0.903024 |
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Target: 5'- aGGGCACGGaguagacCAGGACgcaGGGgaaCCCGg -3' miRNA: 3'- -CCCGUGCCa------GUCCUG---CCUagaGGGCa -5' |
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| 9372 | 5' | -59 | NC_002512.2 | + | 180146 | 0.66 | 0.903024 |
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Target: 5'- cGGGC--GGUcCAGGACGGccUCcgUCCCGa -3' miRNA: 3'- -CCCGugCCA-GUCCUGCCu-AG--AGGGCa -5' |
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| 9372 | 5' | -59 | NC_002512.2 | + | 219942 | 0.66 | 0.903024 |
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Target: 5'- -cGCGCGGgggAGGGUGGAUCcCCCGg -3' miRNA: 3'- ccCGUGCCag-UCCUGCCUAGaGGGCa -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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