D29 was recently (2017) resequenced and found to have some discrepancies with the original published sequence. This sequencing project yielded 7 differences:
D29 “wt" vs (D29 new!!!)
12442 (12433) 100% C to A
23910 (23901) 100% G to A
31726 (31717) 100% T to C
36667 (36658 ) 100% C to A
43657 (43648 ) 100% A to T
47438 (47429) 95% T to C
47936-47937 (47927-47928 ) 100% G addition
The original sequence has the 3' overhang on both ends, so the overlap on the left end has been removed from the original sequence.
It is going into GenBank with a length of 49,127.

Numbering of genes and some gene calls have been made to coincide with published data. The numbering was an original attempt to keep genes numbered as they were in phage L5.

There are instances where one might call additional small genes (<40 amino acids). We are choosing to stay consistent with the published literature.

The papers to review for this cluster are numerous. Two stand out as relevant: Genome Structure of Mycobacteriophage D29: Implications for Phage Evolution (1998 ) and Expression and evolutionary patterns of mycobacteriophage D29 and its temperate close relatives (2017).
Edited 23 Jun, 2021 20:22
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