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Table 3 Detected neck modules in the phages classified in Aclame

From: Automated classification of tailed bacteriophages according to their neck organization

  Type 1 with 4 head-to-tail connection proteins (Ad1, Hc1, Tc1, Ne1) Type 1 with 2 or 3 head-to-tail connection proteins (and only 1 in brackets) Type 2 with 3 head-to-tail connection proteins (and only 1 in brackets) Type 3 with 2 head-to-tail connection proteins (and only 1 in brackets) Type 4 with an Ad4 head-to-tail connection protein Number of classified phages Percentage in Aclame
Siphoviridae 126 30     156/169 92
Myoviridae 17 21(+7) 16(+1)    62/72 86
Podoviridae     44(+3) 10 57/58 98
Unassigned 15 3   6 0 24/29 83
Total 158 61 17 53 10 299/328 91
  1. The 299 phages in which neck proteins could be detected are detailed. The distribution of the neck proteins in each phage was interpreted in order to assign a neck architecture (or Type) to the phage. From the neck architecture and the presence or absence of a sheath protein, the morphology of the phage (Siphoviridae, Myoviridae or Podoviridae) could be deduced. For most phages, the morphology obtained from our analysis fits with that proposed by the NCBI (the 4 exceptions are discussed in the text and considered in this table as unassigned by NCBI). To highlight the consistency between our classification and that of the NCBI, we present in the following table the number of Aclame phages as a function of their proposed neck architecture (columns) and NCBI morphological class (lines). More details about the proteins detected for each phage can be found in the Additional file 2: Table S1 and on the Virfam webserver.