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Figure 10 | BMC Bioinformatics

Figure 10

From: RISCI - Repeat Induced Sequence Changes Identifier: a comprehensive, comparative genomics-based, in silico subtractive hybridization pipeline to identify repeat induced sequence changes in closely related genomes

Figure 10

Misannotation because of sequencing gaps. Since a certain amount of sequence information at the orthologous locus is missing and substituted by approximate number of Ns, only partial matches for the upstream and downstream sequences are obtained resulting in false annotation by RISCI. From left to right - Pink line - upstream flank, blue arrows - Target site duplication sequence, Green line - repeat sequence, dotted lines- poly (A) tails, orange line - downstream flank. DSSFC - downstream sequence subject first coordinate, Query1 - 5' or upstream flank with 50 bp repeat overhang, Query2 - 3' or downstream flank with 50 bp repeat overhang, RM - RepeatMasker start and end coordinates, USSLC - upstream sequence subject last coordinate.

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