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Situation
REF AGCATGTTAGATAAGATAG-----------CTGTGCTAGTAGGCAGTCAGCGCCAT
READ AGCATGTTAGATAAGATAGCCCCCCCCCCCCTGTGCTAGTAGGCAGTCAGCGCCAT
Resulting alignments
Left
0 . : .
AGCATGTTAGATAAGATAG
|||||||||||||||||||
AGCATGTTAGATAAGATAG
Right
0 . : . : .
CTGTGCTAGTAGGCAGTCAGCGCCAT
||||||||||||||||||||||||||
CTGTGCTAGTAGGCAGTCAGCGCCAT
refSplitPosition == 19
readSplitLPosition == 19
readSplitRPosition == 30
Reference Left AGCATGTTAGATAAGATAG
Reference Right CTGTGCTAGTAGGCAGTCAGCGCCAT
Read Left AGCATGTTAGATAAGATAG
Read Center CCCCCCCCCCC
Read Right CTGTGCTAGTAGGCAGTCAGCGCCAT
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