miRNA: 3'- gGUUCAGAC-GGAcAGCaGCCgCUCCA- -5'
miRNA: 3'- -GGUUCa--GA-CGGAcaGCAGCCGCUCCA- -5'
miRNA: 3'- -GGUUcAGACGg------ACAGC---AGCCGCUCCa -5'
miRNA: 3'- -GgUUCAGa---CGGACagCAGCCGCUCCA- -5'
miRNA: 3'- -GGUUCAGACGGACAGCAGCCGCUCCA- -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 | |||||||
| 27229 | 5' | -56.5 | NC_005832.1 | + | 10971 | 0.67 | 0.790854 |
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Target: 5'- gCGGGUCUGaCCU-UUGcCGGgGAGGUg -3' miRNA: 3'- gGUUCAGAC-GGAcAGCaGCCgCUCCA- -5' |
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| 27229 | 5' | -56.5 | NC_005832.1 | + | 47136 | 0.69 | 0.651582 |
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Target: 5'- cCCAGGgcaCUcGCUUucCGUCGGCGGGGUc -3' miRNA: 3'- -GGUUCa--GA-CGGAcaGCAGCCGCUCCA- -5' |
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| 27229 | 5' | -56.5 | NC_005832.1 | + | 22702 | 0.71 | 0.528421 |
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Target: 5'- cCCAAaUCUGCacgagcaUGUCGuauUCGGCGGGGa -3' miRNA: 3'- -GGUUcAGACGg------ACAGC---AGCCGCUCCa -5' |
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| 27229 | 5' | -56.5 | NC_005832.1 | + | 65998 | 0.72 | 0.518461 |
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Target: 5'- cCgGAGUCauggGCUUGgaGUCGGCGGGGUa -3' miRNA: 3'- -GgUUCAGa---CGGACagCAGCCGCUCCA- -5' |
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| 27229 | 5' | -56.5 | NC_005832.1 | + | 91193 | 1.08 | 0.00207 |
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Target: 5'- gCCAAGUCUGCCUGUCGUCGGCGAGGUc -3' miRNA: 3'- -GGUUCAGACGGACAGCAGCCGCUCCA- -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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