miRNA: 3'- gaCGCGGAaa-CGa-----ACGUuaUGGCGGA- -5'
miRNA: 3'- -GACGCGGAaa-CGaaCGUua-UGGCGGa -5'
miRNA: 3'- -GAC-GCGGaaACGAACGUUAu-GGCGGa -5'
miRNA: 3'- gaCGCGGAaaCGa---ACGUUA--UGGCGGa -5'
miRNA: 3'- -GACGCGGAAACGAACGUUAUGGCGGA- -5'
Results 41 - 45 of 45 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 | |||||||
| 6744 | 3' | -52.8 | NC_001875.2 | + | 50149 | 0.71 | 0.76625 |
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Target: 5'- -aGCGCCUggcGCgccuucUGCAugGCCGCCUc -3' miRNA: 3'- gaCGCGGAaa-CGa-----ACGUuaUGGCGGA- -5' |
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| 6744 | 3' | -52.8 | NC_001875.2 | + | 92513 | 0.72 | 0.715211 |
|
Target: 5'- gCUGCGCCUgcaGCgcGCGcacGCCGCCg -3' miRNA: 3'- -GACGCGGAaa-CGaaCGUua-UGGCGGa -5' |
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| 6744 | 3' | -52.8 | NC_001875.2 | + | 41782 | 0.73 | 0.640758 |
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Target: 5'- cCUGaCGCCcaUGCUUGUGAUuuCCGCCg -3' miRNA: 3'- -GAC-GCGGaaACGAACGUUAu-GGCGGa -5' |
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| 6744 | 3' | -52.8 | NC_001875.2 | + | 121174 | 0.74 | 0.565889 |
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Target: 5'- -aGCGCCUgcGCcaagUGCAGUccGCCGCCc -3' miRNA: 3'- gaCGCGGAaaCGa---ACGUUA--UGGCGGa -5' |
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| 6744 | 3' | -52.8 | NC_001875.2 | + | 113231 | 1.09 | 0.004212 |
|
Target: 5'- gCUGCGCCUUUGCUUGCAAUACCGCCUg -3' miRNA: 3'- -GACGCGGAAACGAACGUUAUGGCGGA- -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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