miRNA: 3'- gC-CCGGauAACGCU-CGA---UCG-GUAUGG- -5'
miRNA: 3'- gCCCGGAua-ACgCUCG---AUCGGUA------UGG- -5'
miRNA: 3'- -GCCCGGAUAAcGCuCGaUCGGuAUGG- -5'
miRNA: 3'- gCCCGGAuaaCGCUCGa-----UCGGUAuGG- -5'
miRNA: 3'- gCCCGGAuAA-CGCUCGau------CGGUAUGG- -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 |
| Predicted miRNA align pattern | |||||||
| 22299 | 5' | -53.7 | NC_005045.1 | + | 40333 | 0.68 | 0.600052 |
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Target: 5'- gGcGGCCc-UUGCGAcGCUcccGGCcCAUGCCg -3' miRNA: 3'- gC-CCGGauAACGCU-CGA---UCG-GUAUGG- -5' |
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| 22299 | 5' | -53.7 | NC_005045.1 | + | 26820 | 0.7 | 0.478919 |
|
Target: 5'- gGGGCCUuggUG-GAGCcggUGGCCAUgacagcGCCg -3' miRNA: 3'- gCCCGGAua-ACgCUCG---AUCGGUA------UGG- -5' |
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| 22299 | 5' | -53.7 | NC_005045.1 | + | 5131 | 0.72 | 0.353262 |
|
Target: 5'- cCGGGCCUAUUaCGuGCgGGCCuUACUc -3' miRNA: 3'- -GCCCGGAUAAcGCuCGaUCGGuAUGG- -5' |
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| 22299 | 5' | -53.7 | NC_005045.1 | + | 20050 | 0.77 | 0.187189 |
|
Target: 5'- aGGGCCUua-GCGAGCcgcuggAGCCAUuCCa -3' miRNA: 3'- gCCCGGAuaaCGCUCGa-----UCGGUAuGG- -5' |
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| 22299 | 5' | -53.7 | NC_005045.1 | + | 18099 | 0.66 | 0.713233 |
|
Target: 5'- aGGGCCUcUUcGUGGGCgaucugcuGCUGUAUCa -3' miRNA: 3'- gCCCGGAuAA-CGCUCGau------CGGUAUGG- -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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