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 DDA3937_RS04020 and DDA3937_RS04025 are separated by 2 nucleotides DDA3937_RS04025 and DDA3937_RS04030 overlap by 4 nucleotides DDA3937_RS04030 and DDA3937_RS04035 are separated by 2 nucleotides
DDA3937_RS04020: DDA3937_RS04020 - P-type conjugative transfer protein TrbL, at 897,335 to 898,498
_RS04020
DDA3937_RS04025: DDA3937_RS04025 - conjugal transfer protein TrbF, at 898,501 to 899,205
_RS04025
DDA3937_RS04030: DDA3937_RS04030 - P-type conjugative transfer protein TrbG, at 899,202 to 900,098
_RS04030
DDA3937_RS04035: DDA3937_RS04035 - TrbI/VirB10 family protein, at 900,101 to 901,339
_RS04035
Position (kb) 899
900
901 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 898.228 kb on + strand, within DDA3937_RS04020 at 898.229 kb on - strand, within DDA3937_RS04020 at 898.288 kb on + strand, within DDA3937_RS04020 at 898.289 kb on - strand, within DDA3937_RS04020 at 898.377 kb on + strand, within DDA3937_RS04020 at 898.377 kb on + strand, within DDA3937_RS04020 at 898.378 kb on - strand, within DDA3937_RS04020 at 898.424 kb on - strand at 898.528 kb on + strand at 898.528 kb on + strand at 898.559 kb on - strand at 898.559 kb on - strand at 898.711 kb on + strand, within DDA3937_RS04025 at 898.712 kb on - strand, within DDA3937_RS04025 at 898.712 kb on - strand, within DDA3937_RS04025 at 898.771 kb on + strand, within DDA3937_RS04025 at 898.771 kb on + strand, within DDA3937_RS04025 at 898.771 kb on + strand, within DDA3937_RS04025 at 898.772 kb on - strand, within DDA3937_RS04025 at 898.772 kb on - strand at 898.799 kb on - strand, within DDA3937_RS04025 at 898.799 kb on - strand, within DDA3937_RS04025 at 898.815 kb on + strand, within DDA3937_RS04025 at 898.815 kb on + strand, within DDA3937_RS04025 at 898.879 kb on + strand, within DDA3937_RS04025 at 898.879 kb on + strand, within DDA3937_RS04025 at 898.880 kb on - strand, within DDA3937_RS04025 at 898.885 kb on + strand, within DDA3937_RS04025 at 898.885 kb on + strand, within DDA3937_RS04025 at 898.885 kb on + strand, within DDA3937_RS04025 at 898.886 kb on - strand, within DDA3937_RS04025 at 898.886 kb on - strand, within DDA3937_RS04025 at 898.887 kb on + strand, within DDA3937_RS04025 at 898.888 kb on - strand, within DDA3937_RS04025 at 898.922 kb on - strand, within DDA3937_RS04025 at 899.147 kb on - strand at 899.149 kb on - strand at 899.217 kb on + strand at 899.218 kb on - strand at 899.218 kb on - strand at 899.218 kb on - strand at 899.218 kb on - strand at 899.220 kb on + strand at 899.222 kb on - strand at 899.235 kb on + strand at 899.236 kb on - strand at 899.236 kb on - strand at 899.327 kb on + strand, within DDA3937_RS04030 at 899.327 kb on + strand, within DDA3937_RS04030 at 899.327 kb on + strand, within DDA3937_RS04030 at 899.344 kb on + strand, within DDA3937_RS04030 at 899.344 kb on + strand, within DDA3937_RS04030 at 899.469 kb on + strand, within DDA3937_RS04030 at 899.469 kb on + strand, within DDA3937_RS04030 at 899.469 kb on + strand, within DDA3937_RS04030 at 899.470 kb on - strand, within DDA3937_RS04030 at 899.470 kb on - strand, within DDA3937_RS04030 at 899.480 kb on + strand at 899.481 kb on - strand, within DDA3937_RS04030 at 899.481 kb on - strand, within DDA3937_RS04030 at 899.552 kb on + strand, within DDA3937_RS04030 at 899.576 kb on + strand, within DDA3937_RS04030 at 899.577 kb on - strand, within DDA3937_RS04030 at 899.613 kb on - strand, within DDA3937_RS04030 at 899.613 kb on - strand, within DDA3937_RS04030 at 899.679 kb on + strand, within DDA3937_RS04030 at 899.679 kb on + strand, within DDA3937_RS04030 at 899.679 kb on + strand, within DDA3937_RS04030 at 899.679 kb on + strand, within DDA3937_RS04030 at 899.680 kb on - strand, within DDA3937_RS04030 at 899.680 kb on - strand, within DDA3937_RS04030 at 899.680 kb on - strand, within DDA3937_RS04030 at 899.736 kb on + strand, within DDA3937_RS04030 at 899.892 kb on + strand, within DDA3937_RS04030 at 899.892 kb on + strand, within DDA3937_RS04030 at 899.892 kb on + strand, within DDA3937_RS04030 at 899.892 kb on + strand, within DDA3937_RS04030 at 899.893 kb on - strand, within DDA3937_RS04030 at 899.893 kb on - strand, within DDA3937_RS04030 at 899.893 kb on - strand, within DDA3937_RS04030 at 899.893 kb on - strand, within DDA3937_RS04030 at 899.893 kb on - strand, within DDA3937_RS04030 at 899.980 kb on - strand, within DDA3937_RS04030 at 899.997 kb on + strand, within DDA3937_RS04030 at 899.997 kb on + strand, within DDA3937_RS04030 at 899.997 kb on + strand, within DDA3937_RS04030 at 899.998 kb on - strand, within DDA3937_RS04030 at 899.998 kb on - strand, within DDA3937_RS04030 at 899.998 kb on - strand at 900.000 kb on + strand, within DDA3937_RS04030 at 900.000 kb on + strand, within DDA3937_RS04030 at 900.000 kb on + strand, within DDA3937_RS04030 at 900.000 kb on + strand, within DDA3937_RS04030 at 900.000 kb on + strand at 900.000 kb on + strand, within DDA3937_RS04030 at 900.000 kb on + strand, within DDA3937_RS04030 at 900.000 kb on + strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.001 kb on - strand, within DDA3937_RS04030 at 900.072 kb on - strand at 900.100 kb on + strand at 900.100 kb on + strand at 900.101 kb on - strand at 900.101 kb on - strand at 900.101 kb on - strand at 900.101 kb on - strand at 900.273 kb on + strand, within DDA3937_RS04035 at 900.274 kb on - strand, within DDA3937_RS04035 at 900.274 kb on - strand, within DDA3937_RS04035 at 900.274 kb on - strand, within DDA3937_RS04035 at 900.274 kb on - strand, within DDA3937_RS04035 at 900.296 kb on - strand, within DDA3937_RS04035 at 900.317 kb on + strand, within DDA3937_RS04035 at 900.318 kb on - strand, within DDA3937_RS04035 at 900.318 kb on - strand, within DDA3937_RS04035 at 900.318 kb on - strand, within DDA3937_RS04035 at 900.318 kb on - strand, within DDA3937_RS04035 at 900.318 kb on - strand, within DDA3937_RS04035 at 900.319 kb on + strand, within DDA3937_RS04035 at 900.319 kb on + strand, within DDA3937_RS04035 at 900.320 kb on - strand, within DDA3937_RS04035 at 900.371 kb on + strand, within DDA3937_RS04035 at 900.371 kb on + strand, within DDA3937_RS04035 at 900.403 kb on - strand, within DDA3937_RS04035 at 900.494 kb on + strand, within DDA3937_RS04035 at 900.495 kb on - strand, within DDA3937_RS04035 at 900.632 kb on - strand, within DDA3937_RS04035 at 900.794 kb on - strand, within DDA3937_RS04035 at 900.905 kb on + strand, within DDA3937_RS04035 at 900.905 kb on + strand, within DDA3937_RS04035 at 900.906 kb on - strand, within DDA3937_RS04035 at 900.906 kb on - strand, within DDA3937_RS04035 at 900.924 kb on - strand, within DDA3937_RS04035 at 901.022 kb on + strand, within DDA3937_RS04035 at 901.092 kb on + strand, within DDA3937_RS04035 at 901.092 kb on + strand, within DDA3937_RS04035 at 901.093 kb on - strand at 901.093 kb on - strand, within DDA3937_RS04035
Per-strain Table
Position Strand Gene LocusTag Fraction Stem-Atlantic remove 898,228 + DDA3937_RS04020 0.77 -1.8 898,229 - DDA3937_RS04020 0.77 +1.5 898,288 + DDA3937_RS04020 0.82 -2.4 898,289 - DDA3937_RS04020 0.82 +3.7 898,377 + DDA3937_RS04020 0.90 -1.6 898,377 + DDA3937_RS04020 0.90 +0.2 898,378 - DDA3937_RS04020 0.90 -0.0 898,424 - +0.9 898,528 + +2.4 898,528 + +0.6 898,559 - -1.6 898,559 - -0.3 898,711 + DDA3937_RS04025 0.30 -2.0 898,712 - DDA3937_RS04025 0.30 -1.0 898,712 - DDA3937_RS04025 0.30 -0.2 898,771 + DDA3937_RS04025 0.38 +1.5 898,771 + DDA3937_RS04025 0.38 +0.7 898,771 + DDA3937_RS04025 0.38 +2.0 898,772 - DDA3937_RS04025 0.38 +3.6 898,772 - -2.1 898,799 - DDA3937_RS04025 0.42 -0.7 898,799 - DDA3937_RS04025 0.42 +0.1 898,815 + DDA3937_RS04025 0.45 -1.6 898,815 + DDA3937_RS04025 0.45 +0.3 898,879 + DDA3937_RS04025 0.54 -0.4 898,879 + DDA3937_RS04025 0.54 +0.5 898,880 - DDA3937_RS04025 0.54 -1.6 898,885 + DDA3937_RS04025 0.54 -0.2 898,885 + DDA3937_RS04025 0.54 -1.6 898,885 + DDA3937_RS04025 0.54 -0.6 898,886 - DDA3937_RS04025 0.55 +0.7 898,886 - DDA3937_RS04025 0.55 -0.5 898,887 + DDA3937_RS04025 0.55 +1.6 898,888 - DDA3937_RS04025 0.55 -0.2 898,922 - DDA3937_RS04025 0.60 -0.8 899,147 - +0.8 899,149 - +0.7 899,217 + +0.2 899,218 - +0.6 899,218 - +1.1 899,218 - -0.1 899,218 - +4.2 899,220 + -0.6 899,222 - +1.4 899,235 + +0.2 899,236 - -0.2 899,236 - +0.4 899,327 + DDA3937_RS04030 0.14 -1.0 899,327 + DDA3937_RS04030 0.14 +1.8 899,327 + DDA3937_RS04030 0.14 -0.7 899,344 + DDA3937_RS04030 0.16 -1.0 899,344 + DDA3937_RS04030 0.16 -2.0 899,469 + DDA3937_RS04030 0.30 -2.3 899,469 + DDA3937_RS04030 0.30 +0.1 899,469 + DDA3937_RS04030 0.30 -0.8 899,470 - DDA3937_RS04030 0.30 -0.2 899,470 - DDA3937_RS04030 0.30 -0.1 899,480 + +0.0 899,481 - DDA3937_RS04030 0.31 +0.3 899,481 - DDA3937_RS04030 0.31 -0.2 899,552 + DDA3937_RS04030 0.39 +0.1 899,576 + DDA3937_RS04030 0.42 +1.3 899,577 - DDA3937_RS04030 0.42 +0.0 899,613 - DDA3937_RS04030 0.46 -0.0 899,613 - DDA3937_RS04030 0.46 +0.4 899,679 + DDA3937_RS04030 0.53 -0.6 899,679 + DDA3937_RS04030 0.53 +2.1 899,679 + DDA3937_RS04030 0.53 -1.2 899,679 + DDA3937_RS04030 0.53 -0.6 899,680 - DDA3937_RS04030 0.53 -0.8 899,680 - DDA3937_RS04030 0.53 -3.7 899,680 - DDA3937_RS04030 0.53 -4.6 899,736 + DDA3937_RS04030 0.60 -2.1 899,892 + DDA3937_RS04030 0.77 -0.5 899,892 + DDA3937_RS04030 0.77 -1.2 899,892 + DDA3937_RS04030 0.77 -1.8 899,892 + DDA3937_RS04030 0.77 -0.2 899,893 - DDA3937_RS04030 0.77 +0.4 899,893 - DDA3937_RS04030 0.77 -1.0 899,893 - DDA3937_RS04030 0.77 +0.0 899,893 - DDA3937_RS04030 0.77 -0.1 899,893 - DDA3937_RS04030 0.77 -2.0 899,980 - DDA3937_RS04030 0.87 +0.5 899,997 + DDA3937_RS04030 0.89 -1.4 899,997 + DDA3937_RS04030 0.89 -0.3 899,997 + DDA3937_RS04030 0.89 -2.0 899,998 - DDA3937_RS04030 0.89 -0.6 899,998 - DDA3937_RS04030 0.89 -2.2 899,998 - +1.4 900,000 + DDA3937_RS04030 0.89 +0.0 900,000 + DDA3937_RS04030 0.89 -0.3 900,000 + DDA3937_RS04030 0.89 -1.1 900,000 + DDA3937_RS04030 0.89 -0.6 900,000 + -1.0 900,000 + DDA3937_RS04030 0.89 -1.4 900,000 + DDA3937_RS04030 0.89 -1.2 900,000 + DDA3937_RS04030 0.89 -2.8 900,001 - DDA3937_RS04030 0.89 -2.1 900,001 - DDA3937_RS04030 0.89 -0.0 900,001 - DDA3937_RS04030 0.89 -1.2 900,001 - DDA3937_RS04030 0.89 -0.1 900,001 - DDA3937_RS04030 0.89 -1.1 900,001 - DDA3937_RS04030 0.89 +0.4 900,001 - DDA3937_RS04030 0.89 +0.2 900,001 - DDA3937_RS04030 0.89 +0.7 900,001 - DDA3937_RS04030 0.89 +0.2 900,001 - DDA3937_RS04030 0.89 -0.9 900,072 - +0.0 900,100 + -1.4 900,100 + -0.4 900,101 - +0.0 900,101 - -0.4 900,101 - +3.8 900,101 - -0.4 900,273 + DDA3937_RS04035 0.14 +3.0 900,274 - DDA3937_RS04035 0.14 -0.8 900,274 - DDA3937_RS04035 0.14 +0.2 900,274 - DDA3937_RS04035 0.14 +1.4 900,274 - DDA3937_RS04035 0.14 -1.7 900,296 - DDA3937_RS04035 0.16 -1.9 900,317 + DDA3937_RS04035 0.17 -0.8 900,318 - DDA3937_RS04035 0.18 -1.2 900,318 - DDA3937_RS04035 0.18 -4.3 900,318 - DDA3937_RS04035 0.18 -1.6 900,318 - DDA3937_RS04035 0.18 -0.2 900,318 - DDA3937_RS04035 0.18 -2.7 900,319 + DDA3937_RS04035 0.18 +2.0 900,319 + DDA3937_RS04035 0.18 +3.6 900,320 - DDA3937_RS04035 0.18 +0.2 900,371 + DDA3937_RS04035 0.22 -2.1 900,371 + DDA3937_RS04035 0.22 +1.4 900,403 - DDA3937_RS04035 0.24 +0.8 900,494 + DDA3937_RS04035 0.32 +1.0 900,495 - DDA3937_RS04035 0.32 +0.1 900,632 - DDA3937_RS04035 0.43 -1.9 900,794 - DDA3937_RS04035 0.56 +0.4 900,905 + DDA3937_RS04035 0.65 +0.3 900,905 + DDA3937_RS04035 0.65 -2.2 900,906 - DDA3937_RS04035 0.65 -0.5 900,906 - DDA3937_RS04035 0.65 -2.2 900,924 - DDA3937_RS04035 0.66 +0.0 901,022 + DDA3937_RS04035 0.74 +1.0 901,092 + DDA3937_RS04035 0.80 -0.0 901,092 + DDA3937_RS04035 0.80 +0.4 901,093 - -0.2 901,093 - DDA3937_RS04035 0.80 +3.0
Or see this region's nucleotide sequence