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Table 3 Identification of potential RDs for lineage classification in Mtb lineages without existing RD markers

From: In silico region of difference (RD) analysis of Mycobacterium tuberculosis complex from sequence reads using RD-Analyzer

Lineage Sample size RD detected Performance
No. Start End Length (bp) Sensitivity Specificity
Lineage 4.3.4.2.1 15 1 164,942 165,740 799 100 % (15/15) 100 % (102/102)
Lineage 4.6.1.2 11 1 2,902,556 2,904,328 1,773 100 % (11/11) 97.17 % (103/106)
2 2,265,142 2,266,241 1,100 100 % (11/11) 98.11 % (104/106)
3 1,190,141 1,190,733 593   
4 2,634,174 2,634,542 369   
5 3,594,343 3,594,407 65   
Lineage 4.6.2.2 4 1 1,897,554 1,900,204 2,651 100 % (4/4) 99.12 % (112/113)
2 3,785,220 3,785,638 419   
3 3,905,337 3,905,721 385   
4 3,742,614 3,742,895 282   
Lineage 4.4.1.1 4 1 2,025,760 2,028,437 2,678 100 % (4/4) 99.12 % (112/113)
2 3,123,673 3,125,705 2,033 100 % (4/4) 99.12 % (112/113)
3 3,112,311 3,112,459 149   
4 1,313,135 1,313,278 144   
5 3,377,623 3,377,670 48   
  1. Note Bold letters refer to the potential RD markers whose sensitivity and specificity for classification have been assessed. The start and end positions correspond to the genomic positions of Mtb H37Rv genome