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Therefore it likely represents an insertion into the human lineage prior to human population subdivisions, rather than a deletion from the chimpanzee lineage.
Third, a multiple sequence alignment reveals a conserved motif (LMNNAEHIN in falcipain-2) in the plasmodial proteases falcipain-2, falcipain-3, and berghepain-2 that represents an insertion relative to the sequences of procathepsin K and procathepsin L (Fig. 1).
This long loop represents an insertion into the flavodoxin backbone.
In the same manner, "524.1m" represents an insertion of an A or C at position 524.1 as well as the non-insertion.
Hence, we suspect that the rhizoxin gene cluster might have been transferred from the megaplasmid to the chromosome, where it effectively represents an insertion of a genomic island.
RGP7 represents an insertion found only in the chromosomes of Kp13 and MGH 78578 and contains CDSs with conserved domains at their predicted protein sequence such as glycosyltransferase (KP05060), acyltransferase (KP05301), two-component histidine kinase sensor (KP05061, KP05062) and peptidase (KP05059).
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As noted, these residues represent an insertion relative to cathepsin L and cathepsin K.
In addition to these three fingerprint sequences for FMO (motifs 1 to 3 in Figure 2), we have identified another motif (motif 4 in Figure 2) representing an insertion of six amino acids that is most characteristic for these sequences in the PNO cluster of Arctiid sequences (Figure 4).
The lines separating neighboring stacks represent an insertion state.
This LSP really could represent an insertion, with genes encoding proteins involved in CoA energy metabolism and tetracycline-controlled transcriptional activation.
For example, a 10 kbp span in the reference with a sequence-length difference of 1 kbp could represent an insertion event of 2 kbp and a deletion event of 3 kbp.
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