Primary allele Genotyping summary
CAG repeats{A1_CAG}
CCG repeats{A1_CCG}
Intervening status{A1_STRUCTURELABEL}
Intervening structure{A1_STRUCTURE}
Intervening sequence{A1_INTERVENING}
Backwards slippage ratio{A1_SLIPPAGE}
Somatic mosaicism score{A1_MOSAICISM}
ScaleHD confidence{A1_CONFIDENCE}

Secondary allele Genotyping summary
CAG repeats{A2_CAG}
CCG repeats{A2_CCG}
Intervening status{A2_STRUCTURELABEL}
Intervening structure{A2_STRUCTURE}
Intervening sequence{A2_INTERVENING}
Backwards slippage ratio{A2_SLIPPAGE}
Somatic mosaicism score{A2_MOSAICISM}
ScaleHD confidence{A2_CONFIDENCE}

• {ID} CCG distribution


• {ID} CAG distribution(s)


• {ID} SNP Calling results

SNP Calling Value
Primary allele call{A1_SNP}
Primary call score{A1_CALLSCORE}
Secondary allele call{A2_SNP}
Secondary call score{A2_CALLSCORE}

• {ID} ScaleHD Analysis flag status

Flag title Value
Exception raised{SHDFLAG_EXCEPTION}
Homozygous haplotype{SHDFLAG_HZYG}
Neighbouring peaks{SHDFLAG_NEIGHBOUR}
Diminished peak presence{SHDFLAG_DIMINISH}
Novel atypical allele structure{SHDFLAG_NOVELATYP}
Alignment warning{SHDFLAG_ALNWARN}
Atypical alignment warning{SHDFLAG_ATYPALIGNWARN}
CCG Rewritten{SHDFLAG_CCGREWR}
CCG Zygosity rewritten{SHDFLAG_CCGZYG_REWR}
CCG Uncertainty{SHDFLAG_CCGUNCERTAIN}
CCT Uncertainty{SHDFLAG_CCTUNCERTAIN}
SVM Failure{SHDFLAG_SVMFAIL}
Differential confusion{SHDFLAG_DIFFCONFUSE}
Missed expansion{SHDFLAG_MISSEDEXP}
Heuristic filter success{SHDFLAG_FILTERPASS}
Peak inspection warning{SHDFLAG_PEAKINSPECT}
Low distribution reads{SHDFLAG_LOWDISTREADS}
Low allele-peak reads{SHDFLAG_LOWPEAKREADS}