Experiment: Upstate
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_RS02475 and DDA3937_RS21815 are separated by 105 nucleotides DDA3937_RS21815 and DDA3937_RS02480 are separated by 367 nucleotides DDA3937_RS02480 and DDA3937_RS02485 are separated by 717 nucleotides
DDA3937_RS02475: DDA3937_RS02475 - Tar ligand binding domain-containing protein, at 547,421 to 549,139
_RS02475
DDA3937_RS21815: DDA3937_RS21815 - cupin, at 549,245 to 549,349
_RS21815
DDA3937_RS02480: DDA3937_RS02480 - flagellar protein FlhE, at 549,717 to 550,139
_RS02480
DDA3937_RS02485: DDA3937_RS02485 - bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase, at 550,857 to 551,480
_RS02485
Position (kb) 549
550
551 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4
5 at 548.890 kb on + strand, within DDA3937_RS02475 at 548.896 kb on + strand, within DDA3937_RS02475 at 548.909 kb on - strand, within DDA3937_RS02475 at 549.162 kb on - strand at 549.162 kb on - strand at 549.185 kb on + strand at 549.186 kb on - strand at 549.186 kb on - strand at 549.186 kb on - strand at 549.249 kb on + strand at 549.249 kb on + strand at 549.249 kb on + strand at 549.249 kb on + strand at 549.250 kb on - strand at 549.250 kb on - strand at 549.250 kb on - strand at 549.298 kb on + strand, within DDA3937_RS21815 at 549.433 kb on + strand at 549.441 kb on - strand at 549.443 kb on + strand at 549.479 kb on + strand at 549.483 kb on + strand at 549.561 kb on + strand at 549.562 kb on - strand at 549.562 kb on - strand at 549.563 kb on + strand at 549.564 kb on - strand at 549.599 kb on - strand at 549.626 kb on + strand at 549.634 kb on + strand at 549.671 kb on + strand at 549.677 kb on + strand at 549.715 kb on - strand at 549.719 kb on - strand at 549.729 kb on + strand at 549.729 kb on + strand at 549.866 kb on + strand, within DDA3937_RS02480 at 549.866 kb on + strand, within DDA3937_RS02480 at 549.867 kb on - strand, within DDA3937_RS02480 at 549.867 kb on - strand, within DDA3937_RS02480 at 550.011 kb on - strand, within DDA3937_RS02480 at 550.018 kb on + strand, within DDA3937_RS02480 at 550.018 kb on + strand, within DDA3937_RS02480 at 550.018 kb on + strand, within DDA3937_RS02480 at 550.018 kb on + strand, within DDA3937_RS02480 at 550.048 kb on + strand, within DDA3937_RS02480 at 550.048 kb on + strand, within DDA3937_RS02480 at 550.049 kb on - strand, within DDA3937_RS02480 at 550.049 kb on - strand, within DDA3937_RS02480 at 550.141 kb on + strand at 550.141 kb on + strand at 550.142 kb on - strand at 550.145 kb on + strand at 550.146 kb on - strand at 550.181 kb on + strand at 550.182 kb on - strand at 550.185 kb on + strand at 550.210 kb on + strand at 550.256 kb on + strand at 550.335 kb on + strand at 550.349 kb on + strand at 550.350 kb on - strand at 550.350 kb on - strand at 550.368 kb on + strand at 550.388 kb on + strand at 550.388 kb on + strand at 550.388 kb on + strand at 550.390 kb on + strand at 550.390 kb on + strand at 550.391 kb on - strand at 550.391 kb on - strand at 550.391 kb on - strand at 550.426 kb on + strand at 550.447 kb on - strand at 550.451 kb on - strand at 550.544 kb on + strand at 550.544 kb on + strand at 550.544 kb on + strand at 550.545 kb on - strand at 550.583 kb on + strand at 550.693 kb on + strand at 550.694 kb on - strand at 550.721 kb on + strand at 550.725 kb on + strand at 550.726 kb on - strand at 550.728 kb on + strand at 550.740 kb on - strand at 550.783 kb on + strand at 550.828 kb on - strand at 550.828 kb on - strand at 550.828 kb on - strand at 550.828 kb on - strand at 550.844 kb on + strand at 550.845 kb on - strand at 550.926 kb on + strand, within DDA3937_RS02485 at 550.926 kb on + strand, within DDA3937_RS02485 at 550.927 kb on - strand, within DDA3937_RS02485 at 550.927 kb on - strand, within DDA3937_RS02485 at 550.928 kb on + strand, within DDA3937_RS02485 at 550.941 kb on + strand, within DDA3937_RS02485 at 550.941 kb on + strand, within DDA3937_RS02485 at 550.941 kb on + strand, within DDA3937_RS02485 at 550.941 kb on + strand, within DDA3937_RS02485 at 550.941 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.943 kb on + strand, within DDA3937_RS02485 at 550.944 kb on - strand, within DDA3937_RS02485 at 550.944 kb on - strand, within DDA3937_RS02485 at 551.095 kb on - strand, within DDA3937_RS02485 at 551.095 kb on - strand, within DDA3937_RS02485 at 551.095 kb on - strand, within DDA3937_RS02485 at 551.095 kb on - strand, within DDA3937_RS02485 at 551.095 kb on - strand, within DDA3937_RS02485
Per-strain Table
Position Strand Gene LocusTag Fraction Upstate remove 548,890 + DDA3937_RS02475 0.85 -0.8 548,896 + DDA3937_RS02475 0.86 -0.3 548,909 - DDA3937_RS02475 0.87 -1.4 549,162 - -0.5 549,162 - -1.3 549,185 + -0.2 549,186 - -1.5 549,186 - -0.5 549,186 - -1.3 549,249 + -0.8 549,249 + -0.4 549,249 + +0.6 549,249 + -0.6 549,250 - +0.3 549,250 - -1.3 549,250 - -0.1 549,298 + DDA3937_RS21815 0.50 -0.7 549,433 + -0.2 549,441 - +0.4 549,443 + -0.6 549,479 + +1.2 549,483 + +0.8 549,561 + -1.2 549,562 - -1.2 549,562 - +0.0 549,563 + -0.9 549,564 - +0.0 549,599 - -0.2 549,626 + +0.8 549,634 + -0.7 549,671 + -1.2 549,677 + -1.7 549,715 - -0.0 549,719 - -0.8 549,729 + -2.1 549,729 + -0.2 549,866 + DDA3937_RS02480 0.35 +0.4 549,866 + DDA3937_RS02480 0.35 -0.8 549,867 - DDA3937_RS02480 0.35 -0.8 549,867 - DDA3937_RS02480 0.35 +3.5 550,011 - DDA3937_RS02480 0.70 +0.7 550,018 + DDA3937_RS02480 0.71 +0.4 550,018 + DDA3937_RS02480 0.71 -0.2 550,018 + DDA3937_RS02480 0.71 -0.9 550,018 + DDA3937_RS02480 0.71 -2.1 550,048 + DDA3937_RS02480 0.78 +1.0 550,048 + DDA3937_RS02480 0.78 +0.7 550,049 - DDA3937_RS02480 0.78 -2.4 550,049 - DDA3937_RS02480 0.78 +1.8 550,141 + +0.4 550,141 + -0.6 550,142 - -1.6 550,145 + +0.7 550,146 - +0.0 550,181 + +0.0 550,182 - +0.1 550,185 + -0.9 550,210 + -0.6 550,256 + -0.6 550,335 + +0.6 550,349 + -0.8 550,350 - -0.4 550,350 - +0.6 550,368 + -1.0 550,388 + -0.7 550,388 + +0.2 550,388 + +0.1 550,390 + -0.2 550,390 + +0.5 550,391 - -0.5 550,391 - -0.1 550,391 - +0.6 550,426 + -1.4 550,447 - +1.4 550,451 - -0.7 550,544 + -0.6 550,544 + +0.4 550,544 + -0.6 550,545 - +0.5 550,583 + +0.2 550,693 + -2.8 550,694 - -0.6 550,721 + +0.2 550,725 + -0.3 550,726 - -0.9 550,728 + -0.6 550,740 - -0.8 550,783 + +0.8 550,828 - -1.6 550,828 - -0.0 550,828 - +0.4 550,828 - -1.1 550,844 + +0.4 550,845 - +5.4 550,926 + DDA3937_RS02485 0.11 +0.8 550,926 + DDA3937_RS02485 0.11 -0.4 550,927 - DDA3937_RS02485 0.11 -0.2 550,927 - DDA3937_RS02485 0.11 -1.3 550,928 + DDA3937_RS02485 0.11 +1.1 550,941 + DDA3937_RS02485 0.13 -0.6 550,941 + DDA3937_RS02485 0.13 +2.8 550,941 + DDA3937_RS02485 0.13 -2.1 550,941 + DDA3937_RS02485 0.13 +1.0 550,941 + DDA3937_RS02485 0.13 +0.1 550,943 + DDA3937_RS02485 0.14 -0.2 550,943 + DDA3937_RS02485 0.14 +0.4 550,943 + DDA3937_RS02485 0.14 -0.2 550,943 + DDA3937_RS02485 0.14 -0.9 550,943 + DDA3937_RS02485 0.14 -0.6 550,943 + DDA3937_RS02485 0.14 -0.9 550,943 + DDA3937_RS02485 0.14 +0.9 550,943 + DDA3937_RS02485 0.14 +1.2 550,943 + DDA3937_RS02485 0.14 +0.4 550,943 + DDA3937_RS02485 0.14 +0.2 550,943 + DDA3937_RS02485 0.14 -0.3 550,944 - DDA3937_RS02485 0.14 -1.8 550,944 - DDA3937_RS02485 0.14 -0.3 551,095 - DDA3937_RS02485 0.38 +0.6 551,095 - DDA3937_RS02485 0.38 -0.2 551,095 - DDA3937_RS02485 0.38 -0.4 551,095 - DDA3937_RS02485 0.38 -0.4 551,095 - DDA3937_RS02485 0.38 +0.3
Or see this region's nucleotide sequence