1.1 --- a/doc/last-dotplot.txt Tue Jul 16 07:51:22 2019 +0900
1.2 +++ b/doc/last-dotplot.txt Wed Aug 21 14:32:10 2019 +0900
1.3 @@ -137,8 +137,8 @@
1.4 --rmsk1=FILE
1.5 Read repeat annotations for the 1st genome, in RepeatMasker .out
1.6 or rmsk.txt format. The color is pale purple for "low
1.7 - complexity" and "simple repeats", else pale red for "+" strand
1.8 - and pale blue for "-" strand.
1.9 + complexity", "simple repeats", and "satellites", else pale red
1.10 + for "+" strand and pale blue for "-" strand.
1.11 --rmsk2=FILE
1.12 Read repeat annotations for the 2nd genome.
1.13
2.1 --- a/scripts/last-dotplot Tue Jul 16 07:51:22 2019 +0900
2.2 +++ b/scripts/last-dotplot Wed Aug 21 14:32:10 2019 +0900
2.3 @@ -647,10 +647,10 @@
2.4 beg = int(fields[5]) - 1
2.5 end = int(fields[6])
2.6 strand = fields[8]
2.7 - repeatClass = fields[10]
2.8 + repeatClass = fields[10].split("/")[0]
2.9 else:
2.10 continue
2.11 - if repeatClass in ("Low_complexity", "Simple_repeat"):
2.12 + if repeatClass in ("Low_complexity", "Simple_repeat", "Satellite"):
2.13 yield 200, "#fbf", seqName, beg, end
2.14 elif (strand == "+") != rangeDict[seqName][0][2]:
2.15 yield 100, "#ffe8e8", seqName, beg, end