Repeated Fusion epitopes in Neo output

[p-levy]

Hi,
I never really paid attention to this but is it normal to have some repeated lines in Neo output neo_data.tsv for SV-derived epitopes?

Here's an example:

NeId	VariantType	VariantInfo	VariantCopyNumber	CopyNumber	SubclonalLikelihood	GeneIdUp	GeneIdDown	GeneNameUp	GeneNameDown	ChrUp	ChrDown	OrientUp	OrientDown	UpstreamAA	DownstreamAA	NovelAA	NmdMin	NmdMax	CodingBasesLengthMin	CodingBasesLengthMax	FusedIntronLength	SkippedDonors	SkippedAcceptors	UpTranscripts	DownTranscripts	WildtypeAA	CodingBaseUpPosStart	CodingBaseUpPosEnd	CodingBasesUp	CodingBaseCigarUp	CodingBaseDownPosStart	CodingBaseDownPosEnd	CodingBasesDown	CodingBaseCigarDown
282	OUT_OF_FRAME_FUSION	22:18317553:-1;22:18836021:1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000197421	MICAL3	GGT3P	22	22	-1	1	LSSVLDTGAEEDVAS		RCGVSTAAGHRSGRTLVPHGGLPHHYLVQCEWLPGTF_	-1	-1	2915	2915	60752	4	0	ENST00000400561	ENST00000445651		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	18782259	18782304	AAGGGTCCTTCCTGAACGGTGACCTGCCGCTGTGCTGACACCACAC	46M
283	OUT_OF_FRAME_FUSION	22:18317553:-1;22:22984982:-1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000100121	MICAL3	GGTLC2	22	22	-1	-1	LSSVLDTGAEEDVAS		SFGSKVRSPVSEILFNDEMDDFSSPNITNEFGVPPSPANFIQPGKQPLSSMCPTIMVGQDGQVRMVVGAAGGTQITTATALICVTPFLPGRAHPAQPPSHADHTPMPQAIIYNLWFGYDVKRAVEEPRLHNQLLPNVTTVERNIDQAVTAALETRHHHTQIASTFIAVVQAIVRTAGGWAAASDSRKGGEPAGY_	-1	63	3386	3479	11277	4	0	ENST00000400561	ENST00000480559;ENST00000448514;ENST00000417145		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	22989224	22989269	CTTTGGCTCCAAGGTCCGCTCCCCGGTCAGCGAGATCCTGTTCAAT	46M
284	OUT_OF_FRAME_FUSION	22:18317553:-1;22:18836021:1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000197421	MICAL3	GGT3P	22	22	-1	1	LSSVLDTGAEEDVAS		RCGVSTAAGHRSGRTLVPHGGLPHHYLVQCEWLPGTF_	-1	-1	2915	2915	60752	4	0	ENST00000400561	ENST00000445651		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	18782259	18782304	AAGGGTCCTTCCTGAACGGTGACCTGCCGCTGTGCTGACACCACAC	46M
285	OUT_OF_FRAME_FUSION	22:18317553:-1;22:22984982:-1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000100121	MICAL3	GGTLC2	22	22	-1	-1	LSSVLDTGAEEDVAS		SFGSKVRSPVSEILFNDEMDDFSSPNITNEFGVPPSPANFIQPGKQPLSSMCPTIMVGQDGQVRMVVGAAGGTQITTATALICVTPFLPGRAHPAQPPSHADHTPMPQAIIYNLWFGYDVKRAVEEPRLHNQLLPNVTTVERNIDQAVTAALETRHHHTQIASTFIAVVQAIVRTAGGWAAASDSRKGGEPAGY_	-1	63	3386	3479	11277	4	0	ENST00000400561	ENST00000480559;ENST00000448514;ENST00000417145		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	22989224	22989269	CTTTGGCTCCAAGGTCCGCTCCCCGGTCAGCGAGATCCTGTTCAAT	46M
286	OUT_OF_FRAME_FUSION	22:18317553:-1;22:18836021:1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000197421	MICAL3	GGT3P	22	22	-1	1	LSSVLDTGAEEDVAS		RCGVSTAAGHRSGRTLVPHGGLPHHYLVQCEWLPGTF_	-1	-1	2915	2915	60752	4	0	ENST00000400561	ENST00000445651		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	18782259	18782304	AAGGGTCCTTCCTGAACGGTGACCTGCCGCTGTGCTGACACCACAC	46M
287	OUT_OF_FRAME_FUSION	22:18317553:-1;22:22984982:-1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000100121	MICAL3	GGTLC2	22	22	-1	-1	LSSVLDTGAEEDVAS		SFGSKVRSPVSEILFNDEMDDFSSPNITNEFGVPPSPANFIQPGKQPLSSMCPTIMVGQDGQVRMVVGAAGGTQITTATALICVTPFLPGRAHPAQPPSHADHTPMPQAIIYNLWFGYDVKRAVEEPRLHNQLLPNVTTVERNIDQAVTAALETRHHHTQIASTFIAVVQAIVRTAGGWAAASDSRKGGEPAGY_	-1	63	3386	3479	11277	4	0	ENST00000400561	ENST00000480559;ENST00000448514;ENST00000417145		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	22989224	22989269	CTTTGGCTCCAAGGTCCGCTCCCCGGTCAGCGAGATCCTGTTCAAT	46M
288	OUT_OF_FRAME_FUSION	22:18317553:-1;22:18836021:1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000197421	MICAL3	GGT3P	22	22	-1	1	LSSVLDTGAEEDVAS		RCGVSTAAGHRSGRTLVPHGGLPHHYLVQCEWLPGTF_	-1	-1	2915	2915	60752	4	0	ENST00000400561	ENST00000445651		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	18782259	18782304	AAGGGTCCTTCCTGAACGGTGACCTGCCGCTGTGCTGACACCACAC	46M
289	OUT_OF_FRAME_FUSION	22:18317553:-1;22:22984982:-1	9.7657	28.2000	0.0000	ENSG00000243156	ENSG00000100121	MICAL3	GGTLC2	22	22	-1	-1	LSSVLDTGAEEDVAS		SFGSKVRSPVSEILFNDEMDDFSSPNITNEFGVPPSPANFIQPGKQPLSSMCPTIMVGQDGQVRMVVGAAGGTQITTATALICVTPFLPGRAHPAQPPSHADHTPMPQAIIYNLWFGYDVKRAVEEPRLHNQLLPNVTTVERNIDQAVTAALETRHHHTQIASTFIAVVQAIVRTAGGWAAASDSRKGGEPAGY_	-1	63	3386	3479	11277	4	0	ENST00000400561	ENST00000480559;ENST00000448514;ENST00000417145		18324588	18324634	CTGCTGGCGACGTCCTCCTCGGCGCCCGTGTCCAGCACGCTGCTCAG	47M	22989224	22989269	CTTTGGCTCCAAGGTCCGCTCCCCGGTCAGCGAGATCCTGTTCAAT	46M

Thanks!
Pierre