miRNA: 3'- -GCGGGagCUUGUACAa----GACgACCUGg -5'
miRNA: 3'- -GCGGGAGcUUGUacaaGACGA-CCUGG- -5'
miRNA: 3'- gCGGGAGCUuGUACAA-Ga--CGACCUGG- -5'
miRNA: 3'- gCGGGAgCUUGUacaaGACGACCuGG- -5'
miRNA: 3'- -GCGGGAGCUUGUACAAGACGACCUGG- -5'
Results 21 - 25 of 25 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 | |||||||
| 19012 | 3' | -53.2 | NC_004684.1 | + | 37269 | 0.71 | 0.583055 |
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Target: 5'- cCGCCCgaGGACAUGUccgagCUGgUGGACa -3' miRNA: 3'- -GCGGGagCUUGUACAa----GACgACCUGg -5' |
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| 19012 | 3' | -53.2 | NC_004684.1 | + | 39583 | 0.74 | 0.418907 |
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Target: 5'- cCGCCCUC-AACAg---CUGCUcGGGCCa -3' miRNA: 3'- -GCGGGAGcUUGUacaaGACGA-CCUGG- -5' |
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| 19012 | 3' | -53.2 | NC_004684.1 | + | 48027 | 0.75 | 0.400352 |
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Target: 5'- uGUCCUCGGcCAUGUUgCgccGCUGGAUCa -3' miRNA: 3'- gCGGGAGCUuGUACAA-Ga--CGACCUGG- -5' |
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| 19012 | 3' | -53.2 | NC_004684.1 | + | 13162 | 0.76 | 0.323636 |
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Target: 5'- uGCCCUgGAACAg---CUGCUGG-CCg -3' miRNA: 3'- gCGGGAgCUUGUacaaGACGACCuGG- -5' |
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| 19012 | 3' | -53.2 | NC_004684.1 | + | 44620 | 1.13 | 0.0012 |
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Target: 5'- aCGCCCUCGAACAUGUUCUGCUGGACCu -3' miRNA: 3'- -GCGGGAGCUUGUACAAGACGACCUGG- -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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