miRNA: 3'- -GUGCuCAAUAGCUCG-UUGaaGGUUUC- -5'
miRNA: 3'- -GUgCUCA------AUAGCUCGU--UGAAGGUuuc -5'
miRNA: 3'- gUGCUCAA----------UAgCUCG---UUGAAGGUUUC- -5'
miRNA: 3'- gUGCUCaaUAGCUCGU---UGAAGGUUuc -5'
miRNA: 3'- -GUGCUCAAUAGCUCGUUGAAGGUUUC- -5'
Results 1 - 5 of 5 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 | |||||||
| 32325 | 3' | -45.5 | NC_007024.1 | + | 42776 | 0.66 | 0.996529 |
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Target: 5'- gCAUG-GUUGUUGGGCcGAUggCCGAAGg -3' miRNA: 3'- -GUGCuCAAUAGCUCG-UUGaaGGUUUC- -5' |
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| 32325 | 3' | -45.5 | NC_007024.1 | + | 7232 | 0.7 | 0.969704 |
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Target: 5'- gCAgGAGUaggccuUGUUGAGCAagGCUUCCAc-- -3' miRNA: 3'- -GUgCUCA------AUAGCUCGU--UGAAGGUuuc -5' |
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| 32325 | 3' | -45.5 | NC_007024.1 | + | 44315 | 0.72 | 0.914164 |
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Target: 5'- uGCGAGUUcauaaugacaGUgGAGUccaAACUUCCGAGGa -3' miRNA: 3'- gUGCUCAA----------UAgCUCG---UUGAAGGUUUC- -5' |
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| 32325 | 3' | -45.5 | NC_007024.1 | + | 24707 | 0.76 | 0.769635 |
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Target: 5'- uGCGGGcgAUCGGGCGuagACUUCCAAu- -3' miRNA: 3'- gUGCUCaaUAGCUCGU---UGAAGGUUuc -5' |
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| 32325 | 3' | -45.5 | NC_007024.1 | + | 40471 | 1.09 | 0.010344 |
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Target: 5'- uCACGAGUUAUCGAGCAACUUCCAAAGu -3' miRNA: 3'- -GUGCUCAAUAGCUCGUUGAAGGUUUC- -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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