Adding test data for fusion-report

CITATION.cff

@@ -0,0 +1,56 @@
+cff-version: 1.2.0
+message: "If you use `nf-core tools` in your work, please cite the `nf-core` publication"
+authors:
+  - family-names: Ewels
+    given-names: Philip
+  - family-names: Peltzer
+    given-names: Alexander
+  - family-names: Fillinger
+    given-names: Sven
+  - family-names: Patel
+    given-names: Harshil
+  - family-names: Alneberg
+    given-names: Johannes
+  - family-names: Wilm
+    given-names: Andreas
+  - family-names: Garcia
+    given-names: Maxime Ulysse
+  - family-names: Di Tommaso
+    given-names: Paolo
+  - family-names: Nahnsen
+    given-names: Sven
+title: "The nf-core framework for community-curated bioinformatics pipelines."
+version: 2.4.1
+doi: 10.1038/s41587-020-0439-x
+date-released: 2022-05-16
+url: https://github.com/nf-core/tools
+prefered-citation:
+  type: article
+  authors:
+    - family-names: Ewels
+      given-names: Philip
+    - family-names: Peltzer
+      given-names: Alexander
+    - family-names: Fillinger
+      given-names: Sven
+    - family-names: Patel
+      given-names: Harshil
+    - family-names: Alneberg
+      given-names: Johannes
+    - family-names: Wilm
+      given-names: Andreas
+    - family-names: Garcia
+      given-names: Maxime Ulysse
+    - family-names: Di Tommaso
+      given-names: Paolo
+    - family-names: Nahnsen
+      given-names: Sven
+  doi: 10.1038/s41587-020-0439-x
+  journal: nature biotechnology
+  start: 276
+  end: 278
+  title: "The nf-core framework for community-curated bioinformatics pipelines."
+  issue: 3
+  volume: 38
+  year: 2020
+  url: https://dx.doi.org/10.1038/s41587-020-0439-x

README.md

@@ -1,16 +1,4 @@
 # Modules Test Data
-
-This branch of the `nf-core/test-datasets` repository contains all data used for the individual module tests.
-There are three main directories: `generic`, `genomics` and `delete_me`. The first contains generic files, the second contains all datasets for genomics tools while the latter contains temporary datasets that will be deleted as better data gets available.
-
-## Adding New Data
-
-If you cannot find suitable test data on this repository, please contact us on the [nf-core Slack `#modules` channel](https://nfcore.slack.com/channels/modules) (you can join with [this invite](https://nf-co.re/join/slack)). The goal is to create a suitable, small test dataset that should be usable with the available test data and if possible be generated with modules available from `nf-core/modules`. If creating that test data is difficult but you want to add the module first, it is also possible to add a small subset to the `delete_me` folder to get your module tests running, and then add proper test data afterwards. This should be discussed on slack. In order to add test data. For a short description of the workflow for adding new data, have a look at [here](docs/ADD_NEW_DATA.md).
-
-### delete_me
-
-The `delete_me` folder does not adhere to a defined structure as data in this folder should be delete as fast as possible, whenever a more suitable dataset is found that can be added to any other folder.
-
 ### generic
 
 The `generic` folder contains generic files that currently cannot be associated to a genomics category. They are organised by their respective file extension. Also, it contains depreciated files which will be removed in the future and exchanged by files in `genomics`.

data/generic/tsv/arriba.tsv

@@ -0,0 +1,15 @@
+#gene1	gene2	strand1(gene/fusion)	strand2(gene/fusion)	breakpoint1	breakpoint2	site1	site2	type	direction1	direction2	split_reads1	split_reads2	discordant_mates	coverage1	coverage2	confidence	closest_genomic_breakpoint1	closest_genomic_breakpoint2	filters	fusion_transcript	reading_frame	peptide_sequence	read_identifiers
+FGFR3	TACC3	+/+	+/+	4:1806934	4:1727977	splice-site	CDS	duplication	downstream	upstream	88	97	300	245	418	high	.	.	duplicates(82),low_entropy(8),mismappers(2),mismatches(3)	CTGACAAGGACCTGTCGGACCTGGTGTCTGAGATGGAGATGATGAAGATGATCGGGAAACACAAAAACATCATCAACCTGCTGGGCGCCTGCACGCAGGGC...GCtAAGGGTAACCTGCGGGAGTTTCTGCGGGCGCGGCGGCCCCCGGGCCTGGACTACTCCTTCGACACCTGCAAGCCGCCCGAGGAGCAGCTCACCTTCAA...GGACAACGTGATGAAGATCGCAGACTTCGGGCTGGCCCGGGACGTGCACAACCTCGACTACTACAAGAAGACaACCAAC___GGCCGGCTGCCCGTGAAGTGGATGGCGCCTGAGGCCTTGTTTGACCGAGTCTACACTCACCAGAGTGACGT___CTGGTCCTTTGGGGTCCTGCTCTGGGAGATCTTCACGCTGGGGGGCTCCCCGTACCCCGGCATCCCTGTGGAGGAGCTCTTCAAGCTGCTGAAGGAGGGCCACCGCATGGACAAGCCCGCCAACTGCACACACGACCT___GTACATGATCATGCGGGAGTGCTGGCATGCCGCGCCCTCCCAGAGGCCCACCTTCAAGCAGCTGGTGGAGGACCTGGACCGTGTCCTTACCGTGACGTCCACCGAC|ACAGAAGAGTGACACCCGCCTCTGAGACCCTAGAAGACCCTTGCAGGACAGAGTCCCAGCACAAAGCGGAGACTCCGCACGGAGCCGAGGAAGAATGCAAAGCGGAGACTCCGCACGGAGCCGAGGAGGAATGCCGGCACGGTGGGGTCTGTGCTCCCGCAGCAGTGGCCACTTCGCCTCCTGGTGCAATCCCTAAGGAAGCCTGCGGAGGAGCACCCCTGCAGGGTCTGCCTGGCGAAGCCCTGGGCTGCCCTGCGGGTGTGGGCACCCCCGTGCCAGCAGATGGCACTCAGACCCTTACCTGTGCACACACCTCTGCTCCTGAGAGCACAGCCCCAACCAACCACCTGGTGGCTGGCAGGGCCATGACCCTGAGTCCTCAGGAAGAAGTGGCTGCAGGCCAAATGGCCAGCTCCTCGAGGAGCGGACCTGTAAAACTAGAATTTGATGTATCTGATGGCGCCACCAGCAAAAGGGCACCCCCACCAAGGAGACTGGGAGAGAGGTCCGGCCTCAAGCCTCCCTTGAGGAAAGCAGCAGTGAGGCAGCAAAAGGCCCCGCAGGAGGTGGAGGAGGACGACGGTAGGAGCGGAGCAGGAGAGGACCCCCCCATGCCAGCTTCTCGGGGCTCTTACCACCTCGACTGGGACAAAATGGATGACCCAAAC	out-of-frame	DNVMKIADFGLARDVHNLDYYKKTTNGRLPVKWMAPEALFDRVYTHQSDVWSFGVLLWEIFTLGGSPYPGIPVEELFKLLKEGHRMDKPANCTHDLYMIMRECWHAAPSQRPTFKQLVEDLDRVLTVTSTD|tee*	.
+FIP1L1	PDGFRA	+/+	+/+	4:53425965	4:54274925	splice-site	CDS	deletion	downstream	upstream	31	74	16	45	122	high	.	.	duplicates(19),inconsistently_clipped(1),low_entropy(2)	GGgAGAGTTTATGGAACTACAG___GGACAAAAGTCAAAGGAGTAtACCTTGATGCACCTGGAAGCATTAATGGAGTTCCACTCTTAGAGGTAGATTTGGATTC...CTG___GTGCTGATCTTTCTGATTATTTTAATTATGGGTTTAATGAAGATACCTGGAAAGCTTACTGTGAAAAACAAAAGAGGATACGAATGGGACTTGAAGTTATACCAGTAACCTCTACTACAAATAAAATTACG___GTACAGCAGGGAAGAACTGGAAACTCAGAGAAAGAAACTGCCCTTCCATCTACAAAAGCTGAGTTTACTTCTCCTCCTTCTTTGTTCAAGACTGGGCTTCCACCGAGCAG___...GGGAGGGCCGAATCACCTGATCTAAG___GAGATTACCTGGGGCAATTGATGTTATCGGTCAGACTATAACTATCAGCCGAGTAGAAGGCAGGCGACGGGCAAATGAGAACAGCAACATACAG|CTGCCTTATGACTCAAGATGGGAGTTTCCAAGAGATGGACTAGTGCTTG___GTCGGGTCTTGGGGTCTGGAGCGTTTGGGAAGGTGGTTGAAGGAACAGCCTATGGATTAAGCCGGTCCCAACCTGTCATGAAAGTTGCAGTGAAGATGCTAAAAC___CCACGGCCAGATCCAGTGAAAAACAAGCTCTCATGTCTGAACTGAAGATAATGACTCACCTGGGGCCACATTTGAACATTGTAAACTTGCTGGGAGCCTGCACCAAGTCAG___GCCCCATTTACATCATCACAGAGTATTGCTTCTATGGAGATTTGGTCAACTATTTGCATAAGAATAGGGATAGCTTCCTGAGCCACCACCCAGAGAAGCCAAAGAAAGAGCTGGATATCTTTGGATTGAACCCTGCTGATGAAAGCACACGGAG___CTATGTTATTTTATCTTTTGAAAACAATGGTGACTACATGGACATGAAGC...CTGATACTACACAGTATGTCCCCATGCTAGAAAGGAAAGAGGTTTCTAAATATTCCGACATCCAGAGATCACTCTATGATCGTCCAGCCTCATATAAGAAGAAATCTATGTTAG___ACTCAGAAGTCAAAAAC	in-frame	GRAESPDLRRLPGAIDVIGQTITISRVEGRRRANENSNIQ|LPYDSRWEFPRDGLVLGRVLGSGAFGKVVEGTAYGLSRSQPVMKVAVKMLKPTARSSEKQALMSELKIMTHLGPHLNIVNLLGACTKSGPIYIITEYCFYGDLVNYLHKNRDSFLSHHPEKPKKELDIFGLNPADESTRSYVILSFENNGDYMDMK	.
+GOPC	ROS1	-/-	-/-	6:117566854	6:117321394	splice-site	splice-site	deletion/read-through	upstream	downstream	35	16	26	123	145	high	.	.	duplicates(77),low_entropy(4),mismatches(1)	CACAAAACTGTGATCCGAGCCTGCAGAGGACGTAATGACTTGAAACGACCAATGCAAGCACCACCAGGCaAT___GATCAAGATTCCCTAAAGAAAAGCCAAGG...TTCTCCTCCTTAAGGAAGATCATGAAGGCCTTGGCATTTCAATTACA___GGTGGGAAAGAACATGGTGTTCCAATCCTCATCTCTGAGATCCATCCGGGGCAACCTGCTGATAGATGCGGAGGGCTGCACGTTGGGGATGCTATTTTGGCAGTCAACGGAGTTAACCTAAGGGACACAAAGCATAAAGAAGCTGTAACTATTCTTTCTCAGCAG___AGAGGAGAGATTGAATTTGAAGTAGTTTATGTGGCTCCTGAAGTGGATTCTGATGATGAAAACGTAGAGTATGAAGATGAGAGTGGACATCGTTACCGTTTGTACCTTGATGAGTTAGAAGGAGGTGGTAACCCTGGTGCTAGTTGCAAAGACACAAGTGGGGAAATCAAAGTATTACAAG|TCTGGCATAGAAGATTAAAGAATCAAAAAAGTGCCAAGGAAGGGGTGACAGTGCTTATAAACGAAGACAAAGAGTTGGCTGAGCTGCGAGGTCTGGCAGCCGGAGTAGGCCTGGCTAATGCCTGCTATGCAATACA___TACTCTTCCAACCCAAGAGGAGATTGAAAATCTTCCTGCCTTCCCTCGGGAAAAACTGACTCTGCGTCTCTTGCTGGGAAGTGGAGCCTTTGGAGAAGTGTATGAAGGAACAGCAGTGGACATCTTAGGAGTTGGAAGTtGAGAAATCAAAGTAGCAGTGAAG___ACTTTGAAGAAGtGTTC...TCTGCTtAATGAACCCCAATtCATTATCCTGGAACTGATGGAGGGAGGAGACCTTCTTACTTATTTGCGTAAAGCCCGGATGGCAACG___TTTTATGGTCC	in-frame	LLLKEDHEGLGISITGGKEHGVPILISEIHPGQPADRCGGLHVGDAILAVNGVNLRDTKHKEAVTILSQQRGEIEFEVVYVAPEVDSDDENVEYEDESGHRYRLYLDELEGGGNPGASCKDTSGEIKVLQ|vWHRRLKNQKSAKEGVTVLINEDKELAELRGLAAGVGLANACYAIHTLPTQEEIENLPAFPREKLTLRLLLGSGAFGEVYEGTAVDILGVGS*	.
+GOPC	ROS1	-/-	-/-	6:117566854	6:117320030	splice-site	splice-site	deletion/read-through	upstream	downstream	1	0	8	123	29	low	.	.	mismatches(1)	CGGAGTTAACCTAAGGGACACAAAGCATAAAGAAGCTGTAACTATTCTTTCTCAGCAG___AGAGGAGAGATTGAATTTGAAGTAGTTTATGTGGCTCCTGAAGTGGATTCTGATGATGAAAACGTAGAGTATGAAGATGAGAGTGGACATCGTTACCGTTTGTACCTTGATGAGTTAGAAGGAGGTGGTAACCCTGGTGCTAGTTGCAAAGACACAAGTGGGGAAATCAAAGTATTACAAG|TACTCTTCCAACCCAAGAGGAGATTGAAAATCTTCCTGCCTTCCCTCGGGAAAAACTGACTCTGCGTCTCTTGCTGGGAAGTGGAGCCTTTGGAGAAGTGTATGAAGGAACAGCAGTGGACATCTTAGGAGTTGGAAGTGGAGAAATCAAAGTAGCAGTGAAG___ACTTTGAAGAAGGGTTCCACAGACCAGGAGAAGATTGAATTCCTGAAGGAGGCACATCTGATGAG___CAAATTTAATCATCC	out-of-frame	GVNLRDTKHKEAVTILSQQRGEIEFEVVYVAPEVDSDDENVEYEDESGHRYRLYLDELEGGGNPGASCKDTSGEIKVLQ|vlfqpkrrlkiflpslgkn*	.
+HOOK3	RET	+/+	+/+	8:42968214	10:43116584	splice-site	splice-site	translocation	downstream	upstream	9	1	2	35	7	high	.	.	.	AGATCGACGTGCTGAG___ACATTCTTCTGATAAAGTATCTAAACTAGAAGGTCAAGTAGAATCTTATAAAAAGAAGCTAGAAGACCTTGGTGATTTAAGGCGGCAGGTTAAACTCTTAGAAGAGAAGAATACCATGTATATGCAGAATACTGTCAGTCTAGAGGAAGAGTTAAGAAAGGCCAACGCAGCGCGAAGTCAACTTGAAACCTACAAGAGACAG|GAGGATCCAAAGTGGGAATTCCCTCGGAAGAACTTGGTTCTTGGAAAAACTCTAGGAGAAGGCGAATTTGGAAAAGTGGTCAAGGCAACGGCCTTCCATCTGAAAGGCAGAGCAGGGTACACCACGGTGGCCGTGAAGATGCTGAAAG___AGAACGCCTCCCCGAGTGAGCTGCGgGACCTGCTGTCAGAGTTCAAC	in-frame	IDVLRHSSDKVSKLEGQVESYKKKLEDLGDLRRQVKLLEEKNTMYMQNTVSLEEELRKANAARSQLETYKRQ|EDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRAGYTTVAVKMLKENASPSELRDLLSEF	.
+ETV6	NTRK3	+/+	-/-	12:11869969	15:87940753	splice-site	splice-site	translocation	downstream	downstream	5	4	2	81	7	high	.	.	.	CATGCACCCTCTGATCCTGAACCCCCGGCACTCCGTGGATTTCAAACAGTCCAGGCTCTCCGAGGACGGGCTGCATAGGGAAGGGAAGCCCATCAACCTCTCTCATCGGGAAGACCTGGCTTACATGAACCACATCATGGTCTCTGTCTCCCCGCCTGAAGAGCACGCCATGCCCATTGGGAGAATAGCAG|ATGTGCAGCACATTAAGAGGAGAGACATCGTGCTGAAGCGAGAACTGGGTGAGGGAGCCTTTGGAAAGGTCTTCCTGGCCGAGTGCTACAACCTCAGCCCGACCAAGGACAAGATGCTTGTGGCTGTGAAG___GCCCTGAAGGATCCCACCCTGGCTGCCCG...GCTGCTCACCAACCTGCAGCATGAGCACATTGTCAAGTTCTATGGAGTGTGCGGCGATGGGGACCCCCTCATCATGGTCTTTGAATACATGAAGCATGGAG	in-frame	MHPLILNPRHSVDFKQSRLSEDGLHREGKPINLSHREDLAYMNHIMVSVSPPEEHAMPIGRIA|dVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAA	.
+EWSR1	ATF1	+/+	+/+	22:29287134	12:50814280	splice-site	splice-site	translocation	downstream	upstream	5	5	1	1089	142	high	.	.	.	TGCACCTCCATCCTACCCTCCTACCAG___CTATTCCTCTACACAGCCGACTAGTTATGATCAGAGCAGTTACTCTCAGCAGAACACCTATGGGCAACCGAGCAGCTATGGACAGCAGAGTAGCTATGGTCAACAAAGCAGCTATGGGCAGCAGCCTCCCACTAGTTACCCACCCCAAACTGGATCCTACAGCCAAGCTCCAAGTCAATATAGCCAACAGAGCAGCAGCTACGGGCAGCAGA|CTGCATCAGGAGATATGCAAACATATCAGATCCGAACTACACCTTCAGCTACTTCTCTGCCACAAACTGTGGTGATGACATCTCCTGTGACTCTCACCTCTCAGACAACTAAGACAGATGACCCCCAATTGAAAAGAGAAATAAGGTTAATGAAAAAC	in-frame	APPSYPPTSYSSTQPTSYDQSSYSQQNTYGQPSSYGQQSSYGQQSSYGQQPPTSYPPQTGSYSQAPSQYSQQSSSYGQQ|tASGDMQTYQIRTTPSATSLPQTVVMTSPVTLTSQTTKTDDPQLKREIRLMK	.
+AKAP9	BRAF	+/+	-/-	7:92003235	7:140787584	splice-site	splice-site	inversion	downstream	downstream	2	3	4	48	34	high	.	.	.	GTGATACTCAAGTAAGCTCTTTATTAGATGGAGTTGTGACCATGACAAGCAGGGGTGCTGAAGGATCAGTTTCTAAAGTAAATAAAAGTTTTGGTGAAGAATCAAAAATAATGGTGGAAGATAAAGTTTCTTTTGAAAATATGACTGTTGGAGAAGAAAGTAAGCAAGAACAGTTGATTTTGGATCACTTACCATCTGTAACAAAGGAATCATCACTTAGAGCAACTCAACCAAGTGAAAATGATAAACTTCAGAAAGAACTCAATGTACTTAAATCAGAACAG|GACTTGATTAGAGACCAAGGATTTCGTGGTGATGGAG___GATCAACCACAGGTTTGTCTGCTACCCCCCCTGCCTCATTACCTGGCTCACTAACTAACGTGAAAGCCTTACAGAAATCTCCAGGACCTCAGCGAGAAAGGAAGTCATCTTCATCCTCAGAAGACAGGAATCGAATG___AAAACACTTGGTAGACGGGACTCGAGTGATGATTGG	in-frame	DTQVSSLLDGVVTMTSRGAEGSVSKVNKSFGEESKIMVEDKVSFENMTVGEESKQEQLILDHLPSVTKESSLRATQPSENDKLQKELNVLKSEQ|DLIRDQGFRGDGGSTTGLSATPPASLPGSLTNVKALQKSPGPQRERKSSSSSEDRNRMKTLGRRDSSDD	.
+BRD4	NUTM1	-/-	+/+	19:15254152	15:34347969	splice-site	splice-site	translocation	upstream	upstream	2	5	1	101	10	high	.	.	.	AGGAAACCTCAAG___CTGAGAAAGTTGATGTGATTGCCGGCTCCTCCAAGATGAAGGGCTTCTCGTCCTCAGAGTCGGAGAGCTCCAGTGAGTCCAGCTCCTCTGACAGCGAAGACTCCGAAACAG|CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGCCCtGTCTCCATCCCCTGCACTTCCCTTTCTCCCACCAACTTCTGACCCACCAGACCACCCACCCAGGGAGCCACCTCCACAGCCCATCATGCCTTCAGTATTCTCTCCAGACAACCCTCT	in-frame	RKPQAEKVDVIAGSSKMKGFSSSESESSSESSSSDSEDSET|aSALPGPDMSMKPSAAlSPSPALPFLPPTSDPPDHPPREPPPQPIMPSVFSPDNP	.
+EML4	ALK	+/+	-/-	2:42301394	2:29223584	splice-site	5'UTR	inversion	downstream	downstream	1	3	3	71	7	high	.	.	mismatches(1)	TGAAAAGCCAAAATTTGTGCAGTGTTTAGCATTCTTGGGGAATGGAGATGTTCTTACTGGAGACTCAGGTGGAGTCATGCTTATATGGAGCAAAACTACTGTAGAGCCCACACCTGGGAAAGGACCTAAAt___GTGTATATaAAATCAGCAAACtAATCAAAGCTCATGAT...GTTCACACTTTGTCAGATGAGAAATGGGATGTTATTAACTGGAGGAGGGAAAGACAGAAAAATAATTCTGTGGGATCATGATCTGAATCCTGAAAGAGAAATAGAGtT|TAGTGCTTCAAGGGCCAGGCTGCCAGGCCATGTTGCAGCTGACCACCCACCTGCAGTGTACCGCCGGAAGCACCAGGAGCTGCAAGCCATGCAGATGGAGCTGCAGAGCCCTGAGTACAAGCTGAGCAAGCTCCGCACCTCGACCATCATGACCGACTACAACCCCAACTACTGCTTTGCTGGCAAGACC	in-frame	FTLCQMRNGMLLTGGGKDRKIILWDHDLNPEREIEf|sasrarlpghvaadhppavyrrkhqelqaMQMELQSPEYKLSKLRTSTIMTDYNPNYCFAGK	.
+CD74	ROS1	-/-	-/-	5:150404680	6:117324415	splice-site	splice-site	translocation	upstream	downstream	2	3	0	8	6	high	.	.	low_entropy(1)	CCTGAAGGTGTACCCGCCACTGAAGGGGAGCTTCCCGGAGAACCTGAGACACCTTAAGAACACCATGGAGACCATAGACTGGAAG___GTCTTTGAGAGCTGGATGCACCATTGGCTCCTGTTTGAAATGAGCAGGCACTCCTTGGAGCAAAAGCCCACTGACGCTCCACCGAAAG|ATGATTTTTGGATACCAGAAACAAGTTTCATACTTACTATTATAGTTGGAATATTTCTGGTTGTTACAATCCCACTGACCTTTG___TCTGGCATAGAAGATTAAAGAATCAAAAAAGTGCCAAGGAAGGGGTGACAGTGCTTATAAACGAAGACAAAGAGTTGGCTGAGCTGCGAGGTCTGGCAGCCGGAGTAGGCCTGGCTAATGCCTGCTATGCAATACA___TACTCTTCCAACCCAAGAGGAG	in-frame	LKVYPPLKGSFPENLRHLKNTMETIDWKVFESWMHHWLLFEMSRHSLEQKPTDAPPK|dDFWIPETSFILTIIVGIFLVVTIPLTFVWHRRLKNQKSAKEGVTVLINEDKELAELRGLAAGVGLANACYAIHTLPTQE	.
+TMPRSS2	ETV1	-/-	-/-	21:41494375	7:13935838	CDS	CDS	translocation	upstream	downstream	3	7	3	7	114	medium	.	.	mismatches(1)	ATGGCTTTGAACTCA___GGGTCACCACCAGCTATTGGACCTTACTATGAAAACCATGGATACCAACCGGAAAACCCCTATCCCGCACAGCCCACTGTGGTCCCCACTGTCTACGAGGTGCATCCGGCTCAGTACTACCCGTCCCCCGTGCCCCAGTACGCCCCGAGGGTCCTGACGCAGGCTTCCAACCCCGTCGTCTGCACGCAGCCCAAATCCCCATCC|AGCACGCCAGTGTCCCCACTGCATCATGCATCTCCAAACTCAACTCATACACCGAAACCTGACCGGGCCTTCCCAGCTCACCTCCCTCCATCGCAGTCCATACCAGATAGCAGCTACCCCATGGACCACAG___ATTTCGCCGCCAGCTTTCTGAACCCTGTAACTCCTTTCCTCCTTTGCCGACGATGCCAAGGGAAGGACGTCCTATGTACCAACGCCAGATGTCTGAGCCAAACATCC	in-frame	MALNSGSPPAIGPYYENHGYQPENPYPAQPTVVPTVYEVHPAQYYPSPVPQYAPRVLTQASNPVVCTQPKSPS|STPVSPLHHASPNSTHTPKPDRAFPAHLPPSQSIPDSSYPMDHRFRRQLSEPCNSFPPLPTMPREGRPMYQRQMSEPNI	.
+EWSR1	FLI1	+/+	+/+	22:29287134	11:128807180	splice-site	splice-site	translocation	downstream	upstream	3	3	3	1089	23	medium	.	.	.	CTAGTCAACCTCAATCTAGCACAGGGGGTTACAACCAGCCCAGCCTAGGATATGGACAGAGTAACTACAGTTATCCCCAGGTACCTGGGAGCTACCCCATG...CTACACAGCCGACTAGTTATGATCAGAGCAGTTACTCTCAGCAGAACACCTATGGGCAACCGAGCAGCTATGGACAGCAGAGTAGCTATGGTCAACAAAGCAGCTATGGGCAGCAGCCTCCCACTAGTTACCCACCCCAAACTGGATCCTACAGCCAAGCTCCAAGTCAATATAGCCAACAGAGCAGCAGCTACGGGCAGCAGA|GTCCTCCCCTTGGAGGGGCACAAACGATCAGTAAGAATACAGAGCAACGGCCCCAGCCAG___ATCCGTATCAGATCCTGGGCCCGACCAGCAGTCGCCTAGCCAACCCTG___GAAGCGGGCAGATCCAGCTGTGGCAATTCCTCCTGGAGCTGCTCTCCGACAGCGCCAACGCCAGCTGTATCACCTGGGAGGGGACCAACGGGGAG	in-frame	TQPTSYDQSSYSQQNTYGQPSSYGQQSSYGQQSSYGQQPPTSYPPQTGSYSQAPSQYSQQSSSYGQQ|sPPLGGAQTISKNTEQRPQPDPYQILGPTSSRLANPGSGQIQLWQFLLELLSDSANASCITWEGTNG	.
+BRD4(1122),BRD4-1(2233)	NUTM1	-/-	+/+	19:15254152	15:34347969	splice-site	splice-site	translocation	upstream	upstream	2	5	1	101	10	high	.	.	.	AGGAAACCTCAAG___CTGAGAAAGTTGATGTGATTGCCGGCTCCTCCAAGATGAAGGGCTTCTCGTCCTCAGAGTCGGAGAGCTCCAGTGAGTCCAGCTCCTCTGACAGCGAAGACTCCGAAACAG|CATCTGCATTGCCGGGACCGGATATGAGCATGAAACCTAGTGCCGCCCtGTCTCCATCCCCTGCACTTCCCTTTCTCCCACCAACTTCTGACCCACCAGACCACCCACCCAGGGAGCCACCTCCACAGCCCATCATGCCTTCAGTATTCTCTCCAGACAACCCTCT	in-frame	RKPQAEKVDVIAGSSKMKGFSSSESESSSESSSSDSEDSET|aSALPGPDMSMKPSAAlSPSPALPFLPPTSDPPDHPPREPPPQPIMPSVFSPDNP	.