miRNA: 3'- cGGUGGC---------------CGGGGUGGGGuACGACGGu -5'
miRNA: 3'- -CGGUGgCCGG-GGuGGGGUACGa-----CGGu -5'
miRNA: 3'- -CGGUGGCc-----GGGG-----UGGGGUaCGaCGGU- -5'
miRNA: 3'- -CGGuGGCCGggGUGGGGUaCgaCGGu -5'
miRNA: 3'- -CGGUGGCCGGGGUGGGGUACGACGGU- -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 |
| Predicted miRNA align pattern | |||||||
| 13448 | 5' | -63.9 | NC_003409.1 | + | 124373 | 0.7 | 0.313397 |
|
Target: 5'- uCCACCGucuccugcuccugcuGUUCCACCCCcUGCUGCUc -3' miRNA: 3'- cGGUGGC---------------CGGGGUGGGGuACGACGGu -5' |
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| 13448 | 5' | -63.9 | NC_003409.1 | + | 51997 | 0.69 | 0.331762 |
|
Target: 5'- cGCCACaGGCCaCC-CCCCGUGCgacugaGCUu -3' miRNA: 3'- -CGGUGgCCGG-GGuGGGGUACGa-----CGGu -5' |
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| 13448 | 5' | -63.9 | NC_003409.1 | + | 105045 | 0.68 | 0.417947 |
|
Target: 5'- aGCCACCGcccacuCCCCcggcgACCCCAgGC-GCCAc -3' miRNA: 3'- -CGGUGGCc-----GGGG-----UGGGGUaCGaCGGU- -5' |
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| 13448 | 5' | -63.9 | NC_003409.1 | + | 24264 | 0.68 | 0.417947 |
|
Target: 5'- aGCC-CCGGCagCACCCCA-GgaGCCc -3' miRNA: 3'- -CGGuGGCCGggGUGGGGUaCgaCGGu -5' |
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| 13448 | 5' | -63.9 | NC_003409.1 | + | 115438 | 1.09 | 0.000448 |
|
Target: 5'- gGCCACCGGCCCCACCCCAUGCUGCCAg -3' miRNA: 3'- -CGGUGGCCGGGGUGGGGUACGACGGU- -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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