Experiment: Stem-Atlantic
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 DZA65_RS02810 and DZA65_RS02820 are separated by 969 nucleotides DZA65_RS02820 and DZA65_RS02825 are separated by 163 nucleotides DZA65_RS02825 and DZA65_RS02830 are separated by 162 nucleotides
DZA65_RS02810: DZA65_RS02810 - transcriptional regulator, at 604,450 to 604,671
_RS02810
DZA65_RS02820: DZA65_RS02820 - tyrosine-type recombinase/integrase, at 605,641 to 606,900
_RS02820
DZA65_RS02825: DZA65_RS02825 - tRNA-Phe, at 607,064 to 607,139
_RS02825
DZA65_RS02830: DZA65_RS02830 - transcriptional regulator, at 607,302 to 607,877
_RS02830
Position (kb) 605
606
607 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 604.674 kb on + strand at 604.675 kb on - strand at 604.751 kb on - strand at 604.797 kb on + strand at 604.797 kb on + strand at 604.797 kb on + strand at 604.797 kb on + strand at 604.798 kb on - strand at 604.798 kb on - strand at 604.798 kb on - strand at 604.798 kb on - strand at 604.798 kb on - strand at 604.800 kb on + strand at 604.800 kb on + strand at 604.801 kb on - strand at 604.825 kb on + strand at 604.850 kb on + strand at 604.850 kb on + strand at 604.850 kb on + strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.851 kb on - strand at 604.865 kb on + strand at 604.865 kb on + strand at 604.865 kb on + strand at 604.865 kb on + strand at 604.937 kb on - strand at 604.937 kb on - strand at 604.989 kb on + strand at 604.990 kb on - strand at 604.990 kb on - strand at 605.073 kb on - strand at 605.091 kb on + strand at 605.092 kb on - strand at 605.113 kb on + strand at 605.113 kb on + strand at 605.114 kb on - strand at 605.114 kb on - strand at 605.114 kb on - strand at 605.114 kb on - strand at 605.145 kb on - strand at 605.162 kb on + strand at 605.163 kb on - strand at 605.163 kb on - strand at 605.207 kb on + strand at 605.207 kb on + strand at 605.208 kb on - strand at 605.208 kb on - strand at 605.263 kb on + strand at 605.263 kb on + strand at 605.264 kb on - strand at 605.405 kb on + strand at 605.438 kb on + strand at 605.438 kb on + strand at 605.438 kb on + strand at 605.457 kb on - strand at 605.512 kb on + strand at 605.513 kb on - strand at 605.513 kb on - strand at 605.561 kb on + strand at 605.561 kb on + strand at 605.561 kb on + strand at 605.561 kb on + strand at 605.561 kb on + strand at 605.562 kb on - strand at 605.562 kb on - strand at 605.582 kb on + strand at 605.582 kb on + strand at 605.583 kb on - strand at 605.583 kb on - strand at 605.583 kb on - strand at 605.583 kb on - strand at 605.616 kb on + strand at 605.617 kb on - strand at 605.617 kb on - strand at 605.617 kb on - strand at 605.653 kb on - strand at 605.767 kb on - strand, within DZA65_RS02820 at 605.767 kb on - strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.856 kb on + strand, within DZA65_RS02820 at 605.863 kb on + strand, within DZA65_RS02820 at 605.864 kb on - strand, within DZA65_RS02820 at 606.002 kb on - strand, within DZA65_RS02820 at 606.004 kb on + strand, within DZA65_RS02820 at 606.005 kb on - strand, within DZA65_RS02820 at 606.005 kb on - strand at 606.005 kb on - strand, within DZA65_RS02820 at 606.010 kb on + strand, within DZA65_RS02820 at 606.010 kb on + strand, within DZA65_RS02820 at 606.011 kb on - strand, within DZA65_RS02820 at 606.011 kb on - strand, within DZA65_RS02820 at 606.011 kb on - strand, within DZA65_RS02820 at 606.175 kb on + strand, within DZA65_RS02820 at 606.175 kb on + strand, within DZA65_RS02820 at 606.176 kb on - strand, within DZA65_RS02820 at 606.176 kb on - strand, within DZA65_RS02820 at 606.207 kb on + strand, within DZA65_RS02820 at 606.207 kb on + strand, within DZA65_RS02820 at 606.207 kb on + strand, within DZA65_RS02820 at 606.207 kb on + strand, within DZA65_RS02820 at 606.208 kb on - strand, within DZA65_RS02820 at 606.265 kb on + strand, within DZA65_RS02820 at 606.265 kb on + strand, within DZA65_RS02820 at 606.266 kb on - strand, within DZA65_RS02820 at 606.266 kb on - strand, within DZA65_RS02820 at 606.300 kb on - strand, within DZA65_RS02820 at 606.373 kb on + strand, within DZA65_RS02820 at 606.380 kb on + strand, within DZA65_RS02820 at 606.409 kb on + strand, within DZA65_RS02820 at 606.409 kb on + strand, within DZA65_RS02820 at 606.612 kb on + strand, within DZA65_RS02820 at 606.613 kb on - strand, within DZA65_RS02820 at 606.613 kb on - strand, within DZA65_RS02820 at 606.682 kb on - strand, within DZA65_RS02820 at 606.682 kb on - strand, within DZA65_RS02820 at 606.682 kb on - strand, within DZA65_RS02820 at 606.682 kb on - strand, within DZA65_RS02820 at 606.776 kb on + strand at 606.776 kb on + strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.777 kb on - strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.780 kb on + strand at 606.781 kb on - strand at 606.781 kb on - strand at 606.781 kb on - strand at 606.781 kb on - strand at 606.781 kb on - strand at 606.781 kb on - strand at 606.781 kb on - strand at 606.821 kb on + strand at 606.822 kb on - strand at 606.822 kb on - strand at 606.823 kb on + strand at 606.823 kb on + strand at 606.823 kb on + strand at 606.823 kb on + strand at 606.823 kb on + strand at 606.824 kb on - strand at 606.824 kb on - strand at 606.824 kb on - strand at 606.848 kb on + strand at 606.848 kb on + strand at 606.848 kb on + strand at 606.849 kb on - strand at 606.849 kb on - strand at 606.856 kb on - strand at 606.914 kb on + strand at 606.914 kb on + strand at 606.914 kb on + strand at 606.915 kb on - strand at 606.943 kb on - strand at 606.991 kb on + strand at 607.038 kb on + strand at 607.039 kb on - strand at 607.041 kb on - strand at 607.041 kb on - strand at 607.244 kb on + strand at 607.341 kb on + strand at 607.341 kb on + strand at 607.341 kb on + strand at 607.341 kb on + strand at 607.342 kb on - strand at 607.342 kb on - strand at 607.344 kb on + strand at 607.344 kb on + strand at 607.344 kb on + strand at 607.344 kb on + strand at 607.344 kb on + strand at 607.345 kb on - strand at 607.345 kb on - strand at 607.345 kb on - strand at 607.345 kb on - strand at 607.345 kb on - strand at 607.395 kb on + strand, within DZA65_RS02830 at 607.395 kb on + strand, within DZA65_RS02830 at 607.440 kb on + strand, within DZA65_RS02830 at 607.440 kb on + strand, within DZA65_RS02830 at 607.441 kb on - strand, within DZA65_RS02830 at 607.441 kb on - strand, within DZA65_RS02830 at 607.441 kb on - strand, within DZA65_RS02830 at 607.490 kb on + strand, within DZA65_RS02830 at 607.490 kb on + strand, within DZA65_RS02830 at 607.490 kb on + strand, within DZA65_RS02830 at 607.491 kb on - strand, within DZA65_RS02830 at 607.491 kb on - strand, within DZA65_RS02830 at 607.491 kb on - strand, within DZA65_RS02830 at 607.495 kb on + strand, within DZA65_RS02830 at 607.495 kb on + strand, within DZA65_RS02830 at 607.495 kb on + strand, within DZA65_RS02830 at 607.496 kb on - strand, within DZA65_RS02830 at 607.496 kb on - strand, within DZA65_RS02830 at 607.496 kb on - strand, within DZA65_RS02830 at 607.496 kb on - strand, within DZA65_RS02830 at 607.496 kb on - strand, within DZA65_RS02830 at 607.501 kb on + strand, within DZA65_RS02830 at 607.502 kb on - strand, within DZA65_RS02830 at 607.630 kb on + strand, within DZA65_RS02830 at 607.631 kb on - strand, within DZA65_RS02830 at 607.635 kb on + strand, within DZA65_RS02830 at 607.636 kb on - strand, within DZA65_RS02830 at 607.686 kb on - strand, within DZA65_RS02830 at 607.694 kb on + strand, within DZA65_RS02830 at 607.694 kb on + strand, within DZA65_RS02830 at 607.694 kb on + strand, within DZA65_RS02830 at 607.694 kb on + strand, within DZA65_RS02830 at 607.694 kb on + strand, within DZA65_RS02830 at 607.694 kb on + strand, within DZA65_RS02830 at 607.695 kb on - strand, within DZA65_RS02830 at 607.695 kb on - strand, within DZA65_RS02830 at 607.695 kb on - strand, within DZA65_RS02830 at 607.695 kb on - strand, within DZA65_RS02830 at 607.695 kb on - strand, within DZA65_RS02830 at 607.715 kb on - strand, within DZA65_RS02830 at 607.729 kb on + strand, within DZA65_RS02830 at 607.729 kb on + strand, within DZA65_RS02830 at 607.729 kb on + strand, within DZA65_RS02830 at 607.730 kb on - strand, within DZA65_RS02830 at 607.779 kb on + strand, within DZA65_RS02830 at 607.779 kb on + strand, within DZA65_RS02830 at 607.780 kb on - strand, within DZA65_RS02830 at 607.780 kb on - strand, within DZA65_RS02830 at 607.780 kb on - strand, within DZA65_RS02830 at 607.780 kb on - strand, within DZA65_RS02830 at 607.803 kb on - strand, within DZA65_RS02830 at 607.889 kb on + strand at 607.889 kb on + strand at 607.889 kb on + strand at 607.889 kb on + strand at 607.889 kb on + strand at 607.889 kb on + strand at 607.890 kb on - strand at 607.890 kb on - strand at 607.890 kb on - strand at 607.890 kb on - strand at 607.890 kb on - strand at 607.890 kb on - strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.893 kb on + strand at 607.894 kb on - strand at 607.894 kb on - strand at 607.894 kb on - strand at 607.894 kb on - strand at 607.894 kb on - strand at 607.894 kb on - strand at 607.894 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction Stem-Atlantic remove 604,674 + -1.8 604,675 - +1.2 604,751 - +0.4 604,797 + +0.2 604,797 + -1.6 604,797 + -1.4 604,797 + +1.4 604,798 - -0.3 604,798 - -0.2 604,798 - +0.2 604,798 - +0.0 604,798 - +0.3 604,800 + +2.0 604,800 + +1.7 604,801 - -0.1 604,825 + +0.4 604,850 + +1.4 604,850 + +0.6 604,850 + -0.1 604,851 - +0.0 604,851 - +2.0 604,851 - +2.0 604,851 - +2.0 604,851 - +0.7 604,851 - +0.7 604,851 - +0.6 604,851 - +0.7 604,865 + +0.2 604,865 + +0.8 604,865 + +0.8 604,865 + -1.0 604,937 - +0.6 604,937 - +0.5 604,989 + -1.1 604,990 - -0.8 604,990 - +2.0 605,073 - -0.6 605,091 + -1.0 605,092 - +0.6 605,113 + +2.6 605,113 + -0.3 605,114 - +0.0 605,114 - +0.0 605,114 - -0.8 605,114 - -0.4 605,145 - +1.0 605,162 + -2.7 605,163 - -2.0 605,163 - +1.8 605,207 + +1.1 605,207 + -1.2 605,208 - +0.5 605,208 - -0.4 605,263 + +1.0 605,263 + -0.3 605,264 - +0.2 605,405 + +0.0 605,438 + +0.0 605,438 + +0.4 605,438 + -1.9 605,457 - -0.6 605,512 + +0.7 605,513 - -0.7 605,513 - -2.3 605,561 + -0.0 605,561 + +1.0 605,561 + -1.6 605,561 + +0.4 605,561 + +1.0 605,562 - +0.6 605,562 - -1.0 605,582 + -0.1 605,582 + +0.6 605,583 - -0.5 605,583 - -1.8 605,583 - -0.8 605,583 - +1.4 605,616 + +1.6 605,617 - -1.0 605,617 - -0.1 605,617 - +0.9 605,653 - +0.8 605,767 - DZA65_RS02820 0.10 +0.9 605,767 - DZA65_RS02820 0.10 +0.4 605,856 + DZA65_RS02820 0.17 -1.0 605,856 + DZA65_RS02820 0.17 +0.2 605,856 + DZA65_RS02820 0.17 +0.4 605,856 + DZA65_RS02820 0.17 +0.8 605,856 + DZA65_RS02820 0.17 -0.8 605,856 + DZA65_RS02820 0.17 +0.9 605,856 + DZA65_RS02820 0.17 +0.8 605,856 + DZA65_RS02820 0.17 -1.0 605,863 + DZA65_RS02820 0.18 +0.3 605,864 - DZA65_RS02820 0.18 -0.3 606,002 - DZA65_RS02820 0.29 +0.6 606,004 + DZA65_RS02820 0.29 +2.6 606,005 - DZA65_RS02820 0.29 -2.1 606,005 - +0.2 606,005 - DZA65_RS02820 0.29 -1.0 606,010 + DZA65_RS02820 0.29 +1.0 606,010 + DZA65_RS02820 0.29 +0.7 606,011 - DZA65_RS02820 0.29 +0.6 606,011 - DZA65_RS02820 0.29 +1.6 606,011 - DZA65_RS02820 0.29 -0.8 606,175 + DZA65_RS02820 0.42 -1.6 606,175 + DZA65_RS02820 0.42 -0.4 606,176 - DZA65_RS02820 0.42 -2.1 606,176 - DZA65_RS02820 0.42 -0.2 606,207 + DZA65_RS02820 0.45 -0.5 606,207 + DZA65_RS02820 0.45 -1.3 606,207 + DZA65_RS02820 0.45 -1.6 606,207 + DZA65_RS02820 0.45 +0.0 606,208 - DZA65_RS02820 0.45 +0.8 606,265 + DZA65_RS02820 0.50 +1.3 606,265 + DZA65_RS02820 0.50 -0.3 606,266 - DZA65_RS02820 0.50 +1.0 606,266 - DZA65_RS02820 0.50 +0.4 606,300 - DZA65_RS02820 0.52 +1.4 606,373 + DZA65_RS02820 0.58 +0.3 606,380 + DZA65_RS02820 0.59 -0.1 606,409 + DZA65_RS02820 0.61 +0.3 606,409 + DZA65_RS02820 0.61 -0.6 606,612 + DZA65_RS02820 0.77 -1.0 606,613 - DZA65_RS02820 0.77 +0.0 606,613 - DZA65_RS02820 0.77 -0.6 606,682 - DZA65_RS02820 0.83 +0.2 606,682 - DZA65_RS02820 0.83 +0.3 606,682 - DZA65_RS02820 0.83 +0.6 606,682 - DZA65_RS02820 0.83 -0.2 606,776 + +2.3 606,776 + +0.2 606,777 - -0.6 606,777 - +0.3 606,777 - -1.3 606,777 - -0.6 606,777 - +0.8 606,777 - -1.0 606,777 - -1.2 606,777 - -0.2 606,780 + +0.4 606,780 + -0.6 606,780 + -0.1 606,780 + +3.0 606,780 + -0.8 606,780 + -0.5 606,780 + +1.0 606,780 + +1.0 606,780 + -2.0 606,780 + +1.7 606,781 - -1.8 606,781 - -3.1 606,781 - +0.0 606,781 - +0.4 606,781 - +0.6 606,781 - +3.3 606,781 - +1.4 606,821 + -1.0 606,822 - -0.0 606,822 - +1.6 606,823 + -1.0 606,823 + -1.6 606,823 + -0.1 606,823 + -1.0 606,823 + +0.3 606,824 - +0.1 606,824 - -0.4 606,824 - +1.0 606,848 + +0.0 606,848 + -2.0 606,848 + -0.6 606,849 - +0.3 606,849 - +0.0 606,856 - +0.7 606,914 + +2.0 606,914 + -0.6 606,914 + -0.6 606,915 - +0.0 606,943 - -0.6 606,991 + -1.5 607,038 + +0.2 607,039 - -0.4 607,041 - +1.0 607,041 - -0.8 607,244 + -1.4 607,341 + -0.4 607,341 + +0.0 607,341 + +0.6 607,341 + -0.2 607,342 - +0.2 607,342 - -1.7 607,344 + +0.6 607,344 + +1.5 607,344 + +1.9 607,344 + -0.6 607,344 + -0.6 607,345 - +0.0 607,345 - -0.6 607,345 - +1.3 607,345 - -2.0 607,345 - -1.4 607,395 + DZA65_RS02830 0.16 -0.4 607,395 + DZA65_RS02830 0.16 +0.0 607,440 + DZA65_RS02830 0.24 +1.0 607,440 + DZA65_RS02830 0.24 -0.8 607,441 - DZA65_RS02830 0.24 +0.3 607,441 - DZA65_RS02830 0.24 -1.4 607,441 - DZA65_RS02830 0.24 +0.8 607,490 + DZA65_RS02830 0.33 -1.6 607,490 + DZA65_RS02830 0.33 -0.8 607,490 + DZA65_RS02830 0.33 -0.2 607,491 - DZA65_RS02830 0.33 +0.6 607,491 - DZA65_RS02830 0.33 +1.0 607,491 - DZA65_RS02830 0.33 +0.3 607,495 + DZA65_RS02830 0.34 +0.4 607,495 + DZA65_RS02830 0.34 +2.3 607,495 + DZA65_RS02830 0.34 +0.3 607,496 - DZA65_RS02830 0.34 -0.7 607,496 - DZA65_RS02830 0.34 -1.6 607,496 - DZA65_RS02830 0.34 -2.3 607,496 - DZA65_RS02830 0.34 -2.0 607,496 - DZA65_RS02830 0.34 -1.9 607,501 + DZA65_RS02830 0.35 -0.5 607,502 - DZA65_RS02830 0.35 -1.5 607,630 + DZA65_RS02830 0.57 +0.9 607,631 - DZA65_RS02830 0.57 +2.8 607,635 + DZA65_RS02830 0.58 +0.3 607,636 - DZA65_RS02830 0.58 -0.0 607,686 - DZA65_RS02830 0.67 -0.6 607,694 + DZA65_RS02830 0.68 +1.0 607,694 + DZA65_RS02830 0.68 -0.6 607,694 + DZA65_RS02830 0.68 -0.9 607,694 + DZA65_RS02830 0.68 +0.0 607,694 + DZA65_RS02830 0.68 -0.7 607,694 + DZA65_RS02830 0.68 -0.2 607,695 - DZA65_RS02830 0.68 -1.8 607,695 - DZA65_RS02830 0.68 -1.3 607,695 - DZA65_RS02830 0.68 +0.7 607,695 - DZA65_RS02830 0.68 +0.0 607,695 - DZA65_RS02830 0.68 -0.6 607,715 - DZA65_RS02830 0.72 +0.0 607,729 + DZA65_RS02830 0.74 -1.6 607,729 + DZA65_RS02830 0.74 -2.0 607,729 + DZA65_RS02830 0.74 -0.2 607,730 - DZA65_RS02830 0.74 -2.6 607,779 + DZA65_RS02830 0.83 +2.2 607,779 + DZA65_RS02830 0.83 -1.6 607,780 - DZA65_RS02830 0.83 +0.2 607,780 - DZA65_RS02830 0.83 -0.3 607,780 - DZA65_RS02830 0.83 +0.0 607,780 - DZA65_RS02830 0.83 +1.6 607,803 - DZA65_RS02830 0.87 -0.4 607,889 + -1.1 607,889 + +0.2 607,889 + -1.8 607,889 + -1.0 607,889 + -0.3 607,889 + +0.5 607,890 - -1.8 607,890 - +2.5 607,890 - +1.5 607,890 - -0.6 607,890 - -0.6 607,890 - +1.0 607,893 + +0.0 607,893 + -1.4 607,893 + +0.8 607,893 + -0.6 607,893 + -0.3 607,893 + +1.0 607,893 + -0.8 607,893 + +0.5 607,893 + +0.2 607,893 + -2.0 607,894 - -2.0 607,894 - +1.8 607,894 - -2.0 607,894 - +0.3 607,894 - +0.0 607,894 - -1.3 607,894 - +1.3
Or see this region's nucleotide sequence