Table 3

Effect of vector forms in different trimming programs

    Trimming Programs

SeqClean

cross_match

LUCY2

LUCY2(qul)


CVS

# resulting ESTsa

14729

14870

14817

14808

# removed ESTs

306

165

218

227

# incompletely trimmed ESTs

1128

586

155

156

% contamination

7.50%

3.90%

1.03%

1.04%

average length of trimmed ESTs

551.4 ± 163.4

560.7 ± 175.4

546.3 ± 176.7

539.7 ± 175.6


RVS

# resulting ESTsa

14825

14870

14793

14785

# removed ESTs

210

165

242

250

# incompletely trimmed ESTs

12

637

190

193

% contamination

0.08%

4.14%

1.26%

1.28%

average length of trimmed ESTs

543.0 ± 172.1

563.5 ± 171.8

546.9 ± 176.7

540.1 ± 175.6


a number of ESTs whose length is equal to or greater than 100 bases after being processed by a vector trimming program as indicated

Chen et al. BMC Genomics 2007 8:416   doi:10.1186/1471-2164-8-416

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