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Table 1 Results of structural agreement of overlapping loci in the hetgla2 genome sequence

From: FRAMA: from RNA-seq data to annotated mRNA assemblies

 

Recovereda

Identicalb

Matchingb

Otherb

TCUR (loci: 136)

 TFRAMA

129; 94.9 %

100; 77.5 %

15; 11.6 %

14; 10.9 %

 TGNOMON

135; 99.3 %

114; 84.4 %

8; 5.9 %

13; 9.6 %

 TKIM

122; 89.7 %

50; 41.0 %

16; 13.1 %

56; 45.9 %

 TGENSCAN

133; 97.8 %

13; 9.8 %

6; 4.5 %

114; 85.7 %

TGNOMON (loci: 19,746)

 TFRAMA

14,387; 72.9 %

8463; 58.8 %

2127; 14.8 %

3797; 26.4 %

 TKIM

14,933; 75.6 %

5382; 36.0 %

2647; 17.7 %

6904; 46.2 %

 TGENSCAN

16,082; 81.4 %

1584; 9.8 %

1044; 6.5 %

13,454; 83.7 %

  1. Each orthologous set of transcripts was compared to TCUR and TGNOMON, after filtering of alignments with perfectly aligned CDS (>99 % recovered in genome). CDSs are considered overlapping if they share nucleotides on the same strand. CDS overlap cases were classified to the following categories: identical (identical exons), matching (shared exons), or ‘other’ (unequal number of exons)
  2. aNumber of overlapping loci and their proportion of the loci in reference
  3. bNumber of identical, matching and other transcript models and their proportion of the loci in overlap
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BMC Genomics

ISSN: 1471-2164

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