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===Add Barcodes=== perl Probe2padlockFISSEQ_Oct2016_LungCancer_5or6cycle_V8.pl > padlockFile_0gap_LungCancer_V8.txt *4 fusion transcripts could not have padlock probes designed because the total length of arms > 51bp needed to fit in 195bp order **EZR-ROS1.E10R34.COSF1267 **TPM3-ROS1.T7R35.COSF1273 **LRIG3-ROS1.L16R35.COSF1269 **GOPC-ROS1.G8R35.COSF1139 **If we really need these they can be ordered individually from IDT *Not the same 6 cycle (4 'on' 2 'off') barcodes **Instead, this barcode can be fully decoded in 5 cycles and the 6th cycle is a redundant 'on' value *How to make this barcode? **Take 5 cycle (3 'on' 2'off') barcodes from decoding_linkers_5-cycles.txt **For each 5 cycle barcode add a '1', '2', or '3' to the end and alternate which one is added **Find the matching 6 cycle barcode in decoding_linkers_6-cycles_4-on.txt and use it to replace *New barcode file: decoding_linkers_5or6-cycles.txt *Each target has unique barcode
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