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• Sample ID: sample in which the fusion event was identified;
• Chromosome 1: chromosome hosting the first (left part ) segment of the fusion transcript;
• Start Stop 1: end  end of the first (left) segment
• Stop 1:
• of the fusion transcript;
• Chromosome 2: chromosome hosting the second (right) part of the fusion transcript;
• Start 2:
• Stop 2: 
• Score: fusion score as defined in the original TopHat-Fusion report (3);
• Type1: genomic section of the left-hand part of the fusion beginning of the second (right) segment of the fusion transcript;
• Gene1: gene on the left side of the fusion;
• Transcript1: affected transcript of the Gene1;
• Type2: genomic section of the right-hand part Gene2: gene on the right side of the fusion;
• Gene2: gene on the right side of the fusion;
• Transcript2: affected transcript of the Gene2
Loci: coordinates of the fusion event (a dash indicates genes on different chromosomes, while a colon indicates that both genes are on the same chromosome with the distance between the parts being given after the colon);
• Strands: orientation of the two chromosomes (e.g. ff indicates that both chromosomes are in forwarding direction);
• Spanning reads: the number of reads spanning the fusionSpanning reads: number of reads which were unaligned during the initial phase of TopHat and where only one mate is used as evidence of the fusion event;
• Mate Pairs: number of reads which were unaligned during the initial phase of TopHat and where both mates are used as evidence of the fusion event;
• Spanning mate pairs: number of reads where both mates were aligned during the initial phase of TopHat, but their pairing is discordant (e.g. different chromosomes, different orientation etc.);
• Contradicting reads: number of reads which do not support the fusion;
• Left bases: number of bases on the left side of the fusion;
• Right bases: number of bases on the right side of the fusion.
  
  

All the columns can be sorted by using the arrow buttons () in column headers, while the type-in boxes can be used for searching.

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