Experiment: PDB
Only strains with sufficient reads to estimate fitness are shown,
but the strain fitness values are still rather noisy and may be biased towards zero.
Strains near the edge of a gene are not shown as being associated with that
gene (they are in grey).
Strains in the central 10-90% of a gene are color coded by the insertion's strand.
Usually, "+" means that the selectable marker is encoded on the forward strand,
i.e., transcribed rightward.
500 nt DDA3937_RS05040 and DDA3937_RS05045 are separated by 171 nucleotides DDA3937_RS05045 and DDA3937_RS05050 are separated by 352 nucleotides DDA3937_RS05050 and DDA3937_RS05055 are separated by 113 nucleotides DDA3937_RS05055 and DDA3937_RS05060 are separated by 1 nucleotides
DDA3937_RS05040: DDA3937_RS05040 - cysteine desulfurase CsdA, at 1,126,834 to 1,128,039
_RS05040
DDA3937_RS05045: DDA3937_RS05045 - YgdI/YgdR family lipoprotein, at 1,128,211 to 1,128,432
_RS05045
DDA3937_RS05050: DDA3937_RS05050 - transcriptional regulator GcvA, at 1,128,785 to 1,129,711
_RS05050
DDA3937_RS05055: DDA3937_RS05055 - DUF423 domain-containing protein, at 1,129,825 to 1,130,211
_RS05055
DDA3937_RS05060: DDA3937_RS05060 - 23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM, at 1,130,213 to 1,131,313
_RS05060
Position (kb) 1128
1129
1130 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 1127.912 kb on + strand, within DDA3937_RS05040 at 1127.912 kb on + strand, within DDA3937_RS05040 at 1127.913 kb on - strand, within DDA3937_RS05040 at 1127.913 kb on - strand, within DDA3937_RS05040 at 1127.915 kb on + strand at 1127.915 kb on + strand, within DDA3937_RS05040 at 1127.915 kb on + strand, within DDA3937_RS05040 at 1127.916 kb on - strand, within DDA3937_RS05040 at 1127.916 kb on - strand at 1127.975 kb on + strand at 1128.095 kb on + strand at 1128.169 kb on + strand at 1128.170 kb on - strand at 1128.210 kb on + strand at 1128.231 kb on + strand at 1128.280 kb on + strand, within DDA3937_RS05045 at 1128.280 kb on + strand, within DDA3937_RS05045 at 1128.280 kb on + strand, within DDA3937_RS05045 at 1128.281 kb on - strand, within DDA3937_RS05045 at 1128.281 kb on - strand, within DDA3937_RS05045 at 1128.362 kb on - strand, within DDA3937_RS05045 at 1128.373 kb on + strand, within DDA3937_RS05045 at 1128.373 kb on + strand, within DDA3937_RS05045 at 1128.374 kb on - strand, within DDA3937_RS05045 at 1128.394 kb on - strand, within DDA3937_RS05045 at 1128.451 kb on + strand at 1128.451 kb on + strand at 1128.452 kb on - strand at 1128.452 kb on - strand at 1128.492 kb on - strand at 1128.526 kb on - strand at 1128.542 kb on - strand at 1128.542 kb on - strand at 1128.574 kb on - strand at 1128.582 kb on - strand at 1128.668 kb on + strand at 1128.668 kb on + strand at 1128.668 kb on + strand at 1128.669 kb on - strand at 1128.669 kb on - strand at 1128.670 kb on + strand at 1128.670 kb on + strand at 1128.671 kb on - strand at 1128.671 kb on - strand at 1128.671 kb on - strand at 1128.671 kb on - strand at 1128.671 kb on - strand at 1128.674 kb on + strand at 1128.674 kb on + strand at 1128.674 kb on + strand at 1128.675 kb on - strand at 1128.675 kb on - strand at 1128.704 kb on + strand at 1128.705 kb on - strand at 1128.706 kb on + strand at 1128.744 kb on + strand at 1128.751 kb on + strand at 1128.768 kb on + strand at 1128.769 kb on - strand at 1128.784 kb on + strand at 1128.873 kb on + strand at 1128.874 kb on - strand at 1129.003 kb on + strand, within DDA3937_RS05050 at 1129.143 kb on - strand, within DDA3937_RS05050 at 1129.162 kb on + strand, within DDA3937_RS05050 at 1129.162 kb on + strand, within DDA3937_RS05050 at 1129.163 kb on - strand, within DDA3937_RS05050 at 1129.266 kb on - strand, within DDA3937_RS05050 at 1129.274 kb on + strand, within DDA3937_RS05050 at 1129.274 kb on + strand, within DDA3937_RS05050 at 1129.351 kb on + strand, within DDA3937_RS05050 at 1129.352 kb on - strand, within DDA3937_RS05050 at 1129.391 kb on + strand, within DDA3937_RS05050 at 1129.391 kb on + strand, within DDA3937_RS05050 at 1129.392 kb on - strand at 1129.420 kb on + strand, within DDA3937_RS05050 at 1129.421 kb on - strand, within DDA3937_RS05050 at 1129.564 kb on - strand, within DDA3937_RS05050 at 1129.564 kb on - strand, within DDA3937_RS05050 at 1129.564 kb on - strand, within DDA3937_RS05050 at 1129.814 kb on + strand at 1129.815 kb on - strand at 1129.815 kb on - strand at 1129.848 kb on - strand at 1129.848 kb on - strand at 1129.848 kb on - strand at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.871 kb on + strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.872 kb on - strand, within DDA3937_RS05055 at 1129.873 kb on + strand, within DDA3937_RS05055 at 1129.873 kb on + strand, within DDA3937_RS05055 at 1129.873 kb on + strand, within DDA3937_RS05055 at 1129.873 kb on + strand, within DDA3937_RS05055 at 1129.874 kb on - strand, within DDA3937_RS05055 at 1129.874 kb on - strand, within DDA3937_RS05055 at 1129.874 kb on - strand, within DDA3937_RS05055 at 1129.874 kb on - strand, within DDA3937_RS05055 at 1129.874 kb on - strand, within DDA3937_RS05055 at 1129.960 kb on + strand, within DDA3937_RS05055 at 1129.987 kb on - strand, within DDA3937_RS05055 at 1130.061 kb on + strand, within DDA3937_RS05055 at 1130.087 kb on - strand, within DDA3937_RS05055 at 1130.120 kb on + strand, within DDA3937_RS05055 at 1130.120 kb on + strand, within DDA3937_RS05055 at 1130.121 kb on - strand, within DDA3937_RS05055 at 1130.121 kb on - strand, within DDA3937_RS05055 at 1130.121 kb on - strand at 1130.121 kb on - strand, within DDA3937_RS05055 at 1130.121 kb on - strand, within DDA3937_RS05055 at 1130.121 kb on - strand, within DDA3937_RS05055 at 1130.169 kb on - strand, within DDA3937_RS05055 at 1130.174 kb on + strand at 1130.175 kb on - strand at 1130.187 kb on - strand at 1130.192 kb on + strand at 1130.209 kb on + strand at 1130.209 kb on + strand at 1130.210 kb on - strand at 1130.210 kb on - strand at 1130.210 kb on - strand at 1130.210 kb on - strand at 1130.210 kb on - strand at 1130.219 kb on - strand at 1130.219 kb on - strand at 1130.219 kb on - strand at 1130.232 kb on - strand at 1130.291 kb on + strand at 1130.291 kb on + strand at 1130.292 kb on - strand at 1130.292 kb on - strand at 1130.292 kb on - strand at 1130.293 kb on + strand at 1130.293 kb on + strand at 1130.293 kb on + strand at 1130.293 kb on + strand at 1130.294 kb on - strand at 1130.294 kb on - strand at 1130.294 kb on - strand at 1130.294 kb on - strand at 1130.294 kb on - strand at 1130.301 kb on - strand at 1130.333 kb on + strand, within DDA3937_RS05060 at 1130.334 kb on - strand, within DDA3937_RS05060 at 1130.389 kb on - strand, within DDA3937_RS05060 at 1130.389 kb on - strand, within DDA3937_RS05060 at 1130.389 kb on - strand, within DDA3937_RS05060 at 1130.427 kb on + strand, within DDA3937_RS05060 at 1130.428 kb on - strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.661 kb on + strand, within DDA3937_RS05060 at 1130.662 kb on - strand, within DDA3937_RS05060 at 1130.662 kb on - strand, within DDA3937_RS05060 at 1130.662 kb on - strand, within DDA3937_RS05060 at 1130.662 kb on - strand, within DDA3937_RS05060 at 1130.662 kb on - strand, within DDA3937_RS05060 at 1130.687 kb on + strand, within DDA3937_RS05060 at 1130.687 kb on + strand, within DDA3937_RS05060 at 1130.687 kb on + strand, within DDA3937_RS05060 at 1130.688 kb on - strand, within DDA3937_RS05060 at 1130.688 kb on - strand, within DDA3937_RS05060 at 1130.696 kb on + strand, within DDA3937_RS05060 at 1130.702 kb on + strand, within DDA3937_RS05060 at 1130.703 kb on - strand, within DDA3937_RS05060 at 1130.703 kb on - strand, within DDA3937_RS05060 at 1130.711 kb on - strand, within DDA3937_RS05060
Per-strain Table
Position Strand Gene LocusTag Fraction PDB remove 1,127,912 + DDA3937_RS05040 0.89 -0.4 1,127,912 + DDA3937_RS05040 0.89 -0.7 1,127,913 - DDA3937_RS05040 0.89 -0.4 1,127,913 - DDA3937_RS05040 0.89 +0.6 1,127,915 + +0.9 1,127,915 + DDA3937_RS05040 0.90 +0.5 1,127,915 + DDA3937_RS05040 0.90 -0.4 1,127,916 - DDA3937_RS05040 0.90 +0.1 1,127,916 - +0.3 1,127,975 + +0.1 1,128,095 + -2.2 1,128,169 + -3.5 1,128,170 - +0.9 1,128,210 + +0.6 1,128,231 + +0.8 1,128,280 + DDA3937_RS05045 0.31 +2.0 1,128,280 + DDA3937_RS05045 0.31 +0.5 1,128,280 + DDA3937_RS05045 0.31 -0.4 1,128,281 - DDA3937_RS05045 0.32 -1.5 1,128,281 - DDA3937_RS05045 0.32 -0.1 1,128,362 - DDA3937_RS05045 0.68 +1.3 1,128,373 + DDA3937_RS05045 0.73 -2.0 1,128,373 + DDA3937_RS05045 0.73 -1.1 1,128,374 - DDA3937_RS05045 0.73 -2.8 1,128,394 - DDA3937_RS05045 0.82 -1.4 1,128,451 + -2.7 1,128,451 + +0.3 1,128,452 - -2.1 1,128,452 - +0.7 1,128,492 - +0.3 1,128,526 - -0.9 1,128,542 - -0.7 1,128,542 - -0.4 1,128,574 - -1.1 1,128,582 - -1.6 1,128,668 + -1.3 1,128,668 + -0.7 1,128,668 + +0.7 1,128,669 - +0.3 1,128,669 - +0.3 1,128,670 + -1.0 1,128,670 + -1.1 1,128,671 - +1.9 1,128,671 - +1.9 1,128,671 - -1.3 1,128,671 - +0.3 1,128,671 - -1.8 1,128,674 + -1.4 1,128,674 + -0.4 1,128,674 + -0.1 1,128,675 - +0.6 1,128,675 - -0.4 1,128,704 + -0.9 1,128,705 - +0.9 1,128,706 + -0.9 1,128,744 + -2.7 1,128,751 + -2.1 1,128,768 + -2.9 1,128,769 - -0.9 1,128,784 + -0.1 1,128,873 + -1.3 1,128,874 - -1.4 1,129,003 + DDA3937_RS05050 0.24 +0.0 1,129,143 - DDA3937_RS05050 0.39 -2.6 1,129,162 + DDA3937_RS05050 0.41 -0.4 1,129,162 + DDA3937_RS05050 0.41 -0.9 1,129,163 - DDA3937_RS05050 0.41 -1.9 1,129,266 - DDA3937_RS05050 0.52 -1.6 1,129,274 + DDA3937_RS05050 0.53 -1.6 1,129,274 + DDA3937_RS05050 0.53 +0.3 1,129,351 + DDA3937_RS05050 0.61 +0.3 1,129,352 - DDA3937_RS05050 0.61 -0.9 1,129,391 + DDA3937_RS05050 0.65 -1.3 1,129,391 + DDA3937_RS05050 0.65 -0.4 1,129,392 - +1.9 1,129,420 + DDA3937_RS05050 0.69 -0.1 1,129,421 - DDA3937_RS05050 0.69 -2.9 1,129,564 - DDA3937_RS05050 0.84 -0.9 1,129,564 - DDA3937_RS05050 0.84 +1.9 1,129,564 - DDA3937_RS05050 0.84 -1.3 1,129,814 + -1.0 1,129,815 - -1.2 1,129,815 - +0.9 1,129,848 - -0.3 1,129,848 - -0.9 1,129,848 - +3.2 1,129,871 + DDA3937_RS05055 0.12 -2.5 1,129,871 + DDA3937_RS05055 0.12 +0.4 1,129,871 + DDA3937_RS05055 0.12 -0.2 1,129,871 + DDA3937_RS05055 0.12 -0.0 1,129,871 + DDA3937_RS05055 0.12 +1.9 1,129,871 + DDA3937_RS05055 0.12 +0.0 1,129,871 + +2.9 1,129,871 + DDA3937_RS05055 0.12 -0.7 1,129,871 + DDA3937_RS05055 0.12 -0.3 1,129,871 + DDA3937_RS05055 0.12 +0.9 1,129,871 + DDA3937_RS05055 0.12 -1.0 1,129,872 - DDA3937_RS05055 0.12 +0.4 1,129,872 - DDA3937_RS05055 0.12 -0.9 1,129,872 - DDA3937_RS05055 0.12 -1.4 1,129,872 - DDA3937_RS05055 0.12 -0.7 1,129,872 - DDA3937_RS05055 0.12 -1.8 1,129,872 - DDA3937_RS05055 0.12 -0.7 1,129,872 - DDA3937_RS05055 0.12 -1.3 1,129,872 - DDA3937_RS05055 0.12 -0.1 1,129,872 - DDA3937_RS05055 0.12 +0.1 1,129,872 - DDA3937_RS05055 0.12 -2.3 1,129,872 - DDA3937_RS05055 0.12 -2.2 1,129,872 - DDA3937_RS05055 0.12 +0.3 1,129,872 - DDA3937_RS05055 0.12 -1.0 1,129,872 - DDA3937_RS05055 0.12 +0.5 1,129,872 - DDA3937_RS05055 0.12 -1.8 1,129,872 - DDA3937_RS05055 0.12 -1.5 1,129,873 + DDA3937_RS05055 0.12 +0.2 1,129,873 + DDA3937_RS05055 0.12 -0.4 1,129,873 + DDA3937_RS05055 0.12 +3.0 1,129,873 + DDA3937_RS05055 0.12 -1.1 1,129,874 - DDA3937_RS05055 0.13 -0.1 1,129,874 - DDA3937_RS05055 0.13 -0.3 1,129,874 - DDA3937_RS05055 0.13 -0.1 1,129,874 - DDA3937_RS05055 0.13 +0.3 1,129,874 - DDA3937_RS05055 0.13 -3.0 1,129,960 + DDA3937_RS05055 0.35 +1.2 1,129,987 - DDA3937_RS05055 0.42 -2.1 1,130,061 + DDA3937_RS05055 0.61 -0.7 1,130,087 - DDA3937_RS05055 0.68 -1.7 1,130,120 + DDA3937_RS05055 0.76 -1.4 1,130,120 + DDA3937_RS05055 0.76 -0.0 1,130,121 - DDA3937_RS05055 0.76 -0.9 1,130,121 - DDA3937_RS05055 0.76 -2.3 1,130,121 - +1.3 1,130,121 - DDA3937_RS05055 0.76 -3.0 1,130,121 - DDA3937_RS05055 0.76 +1.4 1,130,121 - DDA3937_RS05055 0.76 +1.6 1,130,169 - DDA3937_RS05055 0.89 -1.7 1,130,174 + -1.1 1,130,175 - -0.9 1,130,187 - -1.8 1,130,192 + -1.4 1,130,209 + +0.3 1,130,209 + -1.6 1,130,210 - -3.5 1,130,210 - +0.3 1,130,210 - -1.2 1,130,210 - -1.9 1,130,210 - -2.3 1,130,219 - +0.2 1,130,219 - -0.1 1,130,219 - -2.4 1,130,232 - +0.3 1,130,291 + +1.6 1,130,291 + -1.4 1,130,292 - -2.0 1,130,292 - +1.7 1,130,292 - -0.1 1,130,293 + -1.1 1,130,293 + -0.6 1,130,293 + -2.9 1,130,293 + -1.4 1,130,294 - -0.4 1,130,294 - -0.3 1,130,294 - -0.7 1,130,294 - -2.0 1,130,294 - +0.1 1,130,301 - -0.1 1,130,333 + DDA3937_RS05060 0.11 -3.3 1,130,334 - DDA3937_RS05060 0.11 -0.2 1,130,389 - DDA3937_RS05060 0.16 -0.9 1,130,389 - DDA3937_RS05060 0.16 -0.7 1,130,389 - DDA3937_RS05060 0.16 +3.2 1,130,427 + DDA3937_RS05060 0.19 -2.0 1,130,428 - DDA3937_RS05060 0.20 -0.4 1,130,661 + DDA3937_RS05060 0.41 +0.9 1,130,661 + DDA3937_RS05060 0.41 -1.3 1,130,661 + DDA3937_RS05060 0.41 +1.7 1,130,661 + DDA3937_RS05060 0.41 +1.9 1,130,661 + DDA3937_RS05060 0.41 -0.4 1,130,661 + DDA3937_RS05060 0.41 -0.8 1,130,661 + DDA3937_RS05060 0.41 -1.1 1,130,661 + DDA3937_RS05060 0.41 -1.7 1,130,661 + DDA3937_RS05060 0.41 -0.4 1,130,662 - DDA3937_RS05060 0.41 -1.1 1,130,662 - DDA3937_RS05060 0.41 -2.9 1,130,662 - DDA3937_RS05060 0.41 -2.8 1,130,662 - DDA3937_RS05060 0.41 -0.7 1,130,662 - DDA3937_RS05060 0.41 -0.9 1,130,687 + DDA3937_RS05060 0.43 +0.7 1,130,687 + DDA3937_RS05060 0.43 -0.9 1,130,687 + DDA3937_RS05060 0.43 -2.0 1,130,688 - DDA3937_RS05060 0.43 -0.1 1,130,688 - DDA3937_RS05060 0.43 -1.6 1,130,696 + DDA3937_RS05060 0.44 +1.2 1,130,702 + DDA3937_RS05060 0.44 +0.3 1,130,703 - DDA3937_RS05060 0.45 -1.8 1,130,703 - DDA3937_RS05060 0.45 -0.1 1,130,711 - DDA3937_RS05060 0.45 -0.8
Or see this region's nucleotide sequence