miRNA: 3'- -GCGuaGGUCAGACAAaac-CGUAGacu -5'
miRNA: 3'- gCGUAG-----GUCa-----GACAAAACCgUAGACU- -5'
miRNA: 3'- gCGU-AGGUC---AGACAAAACCGUagacu -5'
miRNA: 3'- -GCGUAGGUCAGACAAAACCGUAGACU- -5'
miRNA: 3'- -GCGUAGGUCAGACAAAACCGUAGACU- -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 | |||||||
| 9592 | 3' | -49.2 | NC_002577.1 | + | 78998 | 0.68 | 0.990352 |
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Target: 5'- cCGCggCCGGUCUGUUguucGCGUCa-- -3' miRNA: 3'- -GCGuaGGUCAGACAAaac-CGUAGacu -5' |
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| 9592 | 3' | -49.2 | NC_002577.1 | + | 80962 | 0.69 | 0.981862 |
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Target: 5'- gGCGUCgcuauCAGcggcugCUGUUUUGGgAUCUGAa -3' miRNA: 3'- gCGUAG-----GUCa-----GACAAAACCgUAGACU- -5' |
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| 9592 | 3' | -49.2 | NC_002577.1 | + | 148821 | 0.69 | 0.97964 |
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Target: 5'- gGCAcUCCAGauaUCUGUUUUGGCAc---- -3' miRNA: 3'- gCGU-AGGUC---AGACAAAACCGUagacu -5' |
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| 9592 | 3' | -49.2 | NC_002577.1 | + | 5732 | 1.11 | 0.009657 |
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Target: 5'- aCGCAUCCAGUCUGUUUUGGCAUCUGAg -3' miRNA: 3'- -GCGUAGGUCAGACAAAACCGUAGACU- -5' |
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| 9592 | 3' | -49.2 | NC_002577.1 | + | 127881 | 1.11 | 0.009657 |
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Target: 5'- aCGCAUCCAGUCUGUUUUGGCAUCUGAg -3' miRNA: 3'- -GCGUAGGUCAGACAAAACCGUAGACU- -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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