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Table 1 Comparison of the results of the preselection and selection processes using the Galaxy and the TRIP tools

From: TRIP - T cell receptor/immunoglobulin profiler

  T3396 GALAXY % T3396 TRIP % T3397 GALAXY % T3397 TRIP % T3404 GALAXY % T3404 TRIP %
Total reads of raw data 348529 100 348529 100 372814 100 372814 100 296088 100 296088 100
Functional TRBV 340758 97.8 346629 99.5 367404 98.5 372014 99.8 289175 97.7 295277 99.7
filter out 1878 0.5 1900 0.5 796 0.2 800 0.2 772 0.3 811 0.3
Not Containing X,#,* 329344 94.5 335215 96.2 357235 95.8 361845 97.1 282510 95.4 288612 97.5
filter out 11414 3.3 11414 3.3 10169 2.7 10169 2.7 6665 2.3 6665 2.3
Productive 327600 94.0 326112 93.6 355740 95.4 354355 95.0 281129 94.9 279632 94.4
filter out 1744 0.5 9103 2.6 1495 0.4 7490 2.0 1381 0.5 8980 3.0
CDR3 landmarks C-F 325771 93.5 324289 93.0 354103 95.0 352725 94.6 279885 94.5 278396 94.0
filter out 1829 0.5 1823 0.5 1637 0.4 1630 0.4 1244 0.4 1236 0.4
Identity >= 95.0% 323109 92.7 321692 92.3 351084 94.2 349736 93.8 277287 93.7 275844 93.2
filter out 2662 0.8 2597 0.7 3019 0.8 2989 0.8 2598 0.9 2552 0.9
Total filter out 25420 7.3 26837 7.7 21730 5.8 23078 6.2 18801 6.3 20244 6.8
Total filter in 323109 92.7 321692 92.3 351084 94.2 349736 93.8 277287 93.7 275844 93.2
Number of Clonotypes 22743   22392   14359   14190   34304   33938  
Dominant Clonotype TRBV4-1 CASSTTGTVDEKLFF TRBV4-1 CASSTTGTVDEKLFF TRBV4-1 CASSTTGTVDEKLFF TRBV4-1 CASSTTGTVDEKLFF TRBV28 CASSPPDTGELFF TRBV28 CASSPPDTGELFF
Dominant Clonotype Freq.   8.5   8.5093   14.8   14.8632   23.1   23.1