miRNA: 3'- -GGUCgCGUACUGUuGCU------UGAAGCaGC- -5'
miRNA: 3'- gGUCG-------CGUACUGUUG------CUUGAAGCaGC- -5'
miRNA: 3'- -GGUCG-CGUa---CUG---------UUGCUUGA--AGCAGC- -5'
miRNA: 3'- -GGUCG--------CGUa---CugUUgCUUGA-----AGCAGC- -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 | |||||||
| 11977 | 3' | -49.4 | NC_003278.1 | + | 20064 | 0.66 | 0.915494 |
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Target: 5'- gCCGG-GCAUGGCGcCGAggaucuGCUUCG-CGu -3' miRNA: 3'- -GGUCgCGUACUGUuGCU------UGAAGCaGC- -5' |
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| 11977 | 3' | -49.4 | NC_003278.1 | + | 10462 | 0.66 | 0.921341 |
|
Target: 5'- gCGGCgucucgaGCAUGACGGCcucgguGGGCUUCGgCGg -3' miRNA: 3'- gGUCG-------CGUACUGUUG------CUUGAAGCaGC- -5' |
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| 11977 | 3' | -49.4 | NC_003278.1 | + | 1582 | 0.66 | 0.921975 |
|
Target: 5'- aUCAGCuGCGgauaGACccgcaggccGGCGAGCUggUCGUCGc -3' miRNA: 3'- -GGUCG-CGUa---CUG---------UUGCUUGA--AGCAGC- -5' |
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| 11977 | 3' | -49.4 | NC_003278.1 | + | 28456 | 0.66 | 0.921975 |
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Target: 5'- cCCAGCgucgaccuGCAggagGugAAgGAGCUguggaUCGUCGa -3' miRNA: 3'- -GGUCG--------CGUa---CugUUgCUUGA-----AGCAGC- -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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