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The process exploits the fact that DNA likes to exist in the form of a double-stranded molecule, with the sequence of chemical letters in one strand exactly matching a counterpart sequence in the other.
The replacement 144 151 aa of mouse SCARB2 in this region with the counterpart sequence from human SCARB2 confers EV71 infectivity (Chen et al., 2012).
We are acutely aware of the issue of selectivity of drug action for inhibitors targeting the MtbPRPPase, as the mycobacterial enzyme shares a significant degree of sequence identity with human counterpart (sequence identity of 44%).
Interestingly, only the highly conserved MtrA domain in mtrA-2 is overwritten by copying the counterpart sequence from mtrA-1.
In some cases, miRBase did not have the corresponding mouse counterpart sequence, even though a homologue is predicted to be encoded in the mouse genome (e.g. rno-mir-664).
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Dr. J. Craig Venter of Celera Genomics, who led the private sector's counterpart sequencing project, was no less extravagant in his assessment, declaring, "It will change science and our view of ourselves as we go forward".
Class A comprised sRNAs that had their star counterpart sequenced; class B contained sRNAs that had been sequenced more than 5 times but were not supported by star counterparts; class C included rare sRNAs represented by less than five reads in the sequenced set (Fig. 4).
The sequences of the HSY and the corresponding X were highly repetitive as 77% of the HSY and 64% of the X counterpart sequences were found to be repetitive, of which the major repeat element was Ty3-gypsy.
Pseudocode and further explanation of SRI-generator is provided for the reader as an additional file [see Additional file 2]. Figure 2A C demonstrate the distribution of strong local SS in human 5'-UTR, 3'-UTR and intronic sequences and in their corresponding randomized counterpart sequences.
To investigate if misannotation might be responsible for these absences, these DMG sequences were extended by 3 kb at both the 5' and 3' ends to generate a counterpart DMG+ sequence set.
However, it is not trivial to identify archaeal and eukaryote RNA counterparts using sequence data alone.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com