
# These tag definitions are set and used by mira, miraEST and EdIt
#
# Add these lines to the file $STADENROOT/tables/GTAGDB
#  so that GAP4 also knows them the next time you start

"Strong Repeat Marker in Consensus":id="SRMc":bg=OrangeRed
"Strong Repeat Marker in Read":id="SRMr":bg=OrangeRed
"Weak Repeat Marker in Consensus":id="WRMc":bg=Orange
"Weak Repeat Marker in Read":id="WRMr":bg=Orange
"Old Repeat Marker Base":id="ORMB":bg=orange1
"Carbon Copy Repeat Marker in Read":id="CRMr":bg=palegoldenrod
"Masked Nasty Repeat":id="MNRr":bg=black:fg=white

"Unsure in read":id="UNSr":bg=Yellow
"Unsure in consensus":id="UNSc":bg=Yellow

"IUPAC code consensus":id="IUPc":bg=royalblue3
"Missing coverage in consensus":id="MCVc":bg=firebrick3

"SNP inteR Organism on Read":id="SROr":bg=DarkTurquoise
"SNP inteR Organism on Consensus":id="SROc":bg=DarkTurquoise
"SNP intrA Organism on Read":id="SAOr":bg=SeaGreen
"SNP intrA Organism on Consensus":id="SAOc":bg=SeaGreen
"SNP Intra- and inter Organism on Read":id="SIOr":bg=PaleGreen
"SNP Intra- and inter Organism on Consensus":id="SIOc":bg=PaleGreen

"EdIt: insertion":id="ED_I":bg=pink
"EdIt: deletion":id="ED_D":bg=pink
"EdIt: base change":id="ED_C":bg=pink

"Pyrosequencing Suspicious HomoPolymer":id="PSHP":bg=orange1
"Dubious Gap Position on Consensus":id="DGPc":bg=orange1
"Sequencing Type Mismatch Solved":id="STMS":bg=lightblue
"Sequencing Type Mismatch Unresolved":id="STMU":bg=lightblue

# HAsh Frequency tags
"HAF no info":id="HAF0":bg=grey
"HAF singlet":id="HAF1":bg=white
"HAF below avg":id="HAF2":bg=palegreen1
"HAF avg":id="HAF3":bg=Green
"HAF above avg":id="HAF4":bg=yellow2
"HAF rept":id="HAF5":bg=red
"HAF heavy rept":id="HAF6":bg=indianred4
"HAF crazy rept":id="HAF7":bg=red4


# other tags, mostly for development & debugging
"454 edit, qual too high":id="Q454":bg=yellow
"454 cons calc: problem":id="P454":bg=yellow
"454 test tag":id="T454":bg=yellow
"454 hypothesis tag":id="H454":bg=green


"454 read edit, tricky":id="R454":bg=green
"Edit single discr., no HAF tag":id="ESDN":bg=green
