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Table 4 Motifs in C6706 and CV2 as determined by SMRT sequencing

From: A mobile restriction modification system consisting of methylases on the IncA/C plasmid

Types Motif nGenomea m6A m4C Modified_base Undetected modification sites
C6707 CV2 C6707 CV2 C6707 CV2 C6707 CV2 C6707 CV2
Common (6 types) AAGNNNNNNCATC 454 532 452 (99.6%) 528 (99.2%) 0 0 1 (0.2%) 0 1 (0.2%) 4 (0.8%)
AKDTRGCA 386 476 181 (46.9%) 244 (51.3%) 0 0 168 (43.5%) 186 (39.1%) 37 (9.6%) 46 (9.7%)
AKGYANYA 755 456 300 (39.7%) 171 (37.5%) 0 0 260 (34.4%) 93 (20.4%) 195 (25.8%) 192 (42.1%)
GATC 37,401 34,375 37,070 (99.1%) 33,991 (98.9%) 0 0 71 (0.2%) 95 (0.3%) 260 (0.7%) 289 (0.8%)
GATGNNNNNNCTT 613 562 609 (99.3%) 558 (99.3%) 0 0 4 (0.7%) 3 (0.5%) 0 1 (0.2%)
TNNNNNNH 348,498 334,917 0 0 0 0 220,207 (63.2%) 213,464 (63.7%) 128,291 (36.8%) 121,453 (36.3%)
C6707 specific (5 types) AGKNNNNW 5445 0 2795 (51.33%) 0 0 0 1727 (31.7%) 0 923 (17.0%) 0
GADNDGCG 2993 0 0 0 0 0 1403 (46.9%) 0 1590 (53.1%) 0
GARVNNDG 13,031 0 0 0 0 0 8830 (67.8%) 0 4201 (32.2%) 0
TVVVNNDG 26,727 0 0 0 0 0 15,684 (58.7%) 0 11,043 (41.3%) 0
DCAGVHRNG 1490 0 0 0 476 (31.9%) 0 665 (44.6%) 0 349 (23.4%) 0
CV2 specific (4 types) ABNBMVBW 0 10,259 0 6318 (61.8%) 0 0 0 2596 (25.3%) 0 1345 (13.1%)
GANNDBBG 0 14,158 0 0 0 0 0 8130 (57.4%) 0 6028 (42.6%)
GARVNRNG 0 7699 0 0 0 0 0 4448 (57.8%) 0 3251 (42.2%)
TNVVNNDG 0 27,441 0 0 0 0 0 16,388 (59.7%) 0 11,053 (40.3%)
  1. a Number of this motif in the reference sequence genome