Strain Fitness in Rahnella sp. WP5 around EX31_RS00965

Experiment: Ammonium chloride (N); ShewMM media; no shaking

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntEX31_RS00955 and EX31_RS00960 are separated by 52 nucleotidesEX31_RS00960 and EX31_RS00965 are separated by 12 nucleotidesEX31_RS00965 and EX31_RS00970 overlap by 10 nucleotidesEX31_RS00970 and EX31_RS00975 are separated by 3 nucleotides EX31_RS00955: EX31_RS00955 - type VI secretion system tube protein Hcp, at 207,459 to 207,950 _RS00955 EX31_RS00960: EX31_RS00960 - hypothetical protein, at 208,003 to 208,419 _RS00960 EX31_RS00965: EX31_RS00965 - type VI secretion system baseplate subunit TssF, at 208,432 to 210,234 _RS00965 EX31_RS00970: EX31_RS00970 - type VI secretion system baseplate subunit TssG, at 210,225 to 211,172 _RS00970 EX31_RS00975: EX31_RS00975 - type VI secretion system tip protein VgrG, at 211,176 to 213,089 _RS00975 Position (kb) 208 209 210 211Strain fitness (log2 ratio) -2 -1 0 1 2 3at 207.432 kb on - strandat 207.435 kb on + strandat 207.435 kb on + strandat 207.436 kb on - strandat 207.456 kb on - strandat 207.508 kb on + strandat 207.508 kb on + strandat 207.509 kb on - strand, within EX31_RS00955at 207.656 kb on + strand, within EX31_RS00955at 207.656 kb on + strand, within EX31_RS00955at 207.657 kb on - strand, within EX31_RS00955at 207.657 kb on - strand, within EX31_RS00955at 207.677 kb on + strand, within EX31_RS00955at 207.677 kb on + strand, within EX31_RS00955at 207.768 kb on + strand, within EX31_RS00955at 207.768 kb on + strand, within EX31_RS00955at 207.847 kb on + strand, within EX31_RS00955at 207.848 kb on - strand, within EX31_RS00955at 207.872 kb on + strand, within EX31_RS00955at 207.941 kb on + strandat 207.988 kb on + strandat 207.999 kb on - strandat 208.100 kb on + strand, within EX31_RS00960at 208.173 kb on + strand, within EX31_RS00960at 208.173 kb on + strand, within EX31_RS00960at 208.173 kb on + strand, within EX31_RS00960at 208.207 kb on - strand, within EX31_RS00960at 208.233 kb on + strand, within EX31_RS00960at 208.259 kb on + strand, within EX31_RS00960at 208.259 kb on + strand, within EX31_RS00960at 208.338 kb on + strand, within EX31_RS00960at 208.431 kb on - strandat 208.456 kb on + strandat 208.551 kb on + strandat 208.582 kb on - strandat 208.635 kb on + strand, within EX31_RS00965at 208.659 kb on - strand, within EX31_RS00965at 208.712 kb on + strand, within EX31_RS00965at 208.781 kb on + strand, within EX31_RS00965at 208.781 kb on + strand, within EX31_RS00965at 208.781 kb on + strand, within EX31_RS00965at 208.781 kb on + strand, within EX31_RS00965at 208.782 kb on - strand, within EX31_RS00965at 208.782 kb on - strand, within EX31_RS00965at 208.782 kb on - strand, within EX31_RS00965at 208.782 kb on - strand, within EX31_RS00965at 208.783 kb on + strand, within EX31_RS00965at 208.783 kb on + strand, within EX31_RS00965at 208.783 kb on + strand, within EX31_RS00965at 208.784 kb on - strand, within EX31_RS00965at 208.784 kb on - strand, within EX31_RS00965at 208.784 kb on - strand, within EX31_RS00965at 208.828 kb on + strand, within EX31_RS00965at 208.828 kb on + strand, within EX31_RS00965at 208.860 kb on + strand, within EX31_RS00965at 208.910 kb on + strand, within EX31_RS00965at 209.001 kb on + strand, within EX31_RS00965at 209.001 kb on + strand, within EX31_RS00965at 209.001 kb on + strand, within EX31_RS00965at 209.058 kb on + strand, within EX31_RS00965at 209.059 kb on - strand, within EX31_RS00965at 209.076 kb on + strand, within EX31_RS00965at 209.076 kb on + strand, within EX31_RS00965at 209.077 kb on - strand, within EX31_RS00965at 209.077 kb on - strand, within EX31_RS00965at 209.079 kb on - strand, within EX31_RS00965at 209.274 kb on - strand, within EX31_RS00965at 209.295 kb on - strand, within EX31_RS00965at 209.453 kb on + strand, within EX31_RS00965at 209.453 kb on + strand, within EX31_RS00965at 209.509 kb on + strand, within EX31_RS00965at 209.509 kb on + strand, within EX31_RS00965at 209.509 kb on + strand, within EX31_RS00965at 209.571 kb on + strand, within EX31_RS00965at 209.571 kb on + strand, within EX31_RS00965at 209.571 kb on + strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.572 kb on - strand, within EX31_RS00965at 209.615 kb on + strand, within EX31_RS00965at 209.615 kb on + strand, within EX31_RS00965at 209.615 kb on + strand, within EX31_RS00965at 209.615 kb on + strand, within EX31_RS00965at 209.616 kb on - strand, within EX31_RS00965at 209.616 kb on - strand, within EX31_RS00965at 209.616 kb on - strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.868 kb on + strand, within EX31_RS00965at 209.869 kb on - strand, within EX31_RS00965at 209.869 kb on - strand, within EX31_RS00965at 209.869 kb on - strand, within EX31_RS00965at 209.869 kb on - strand, within EX31_RS00965at 209.869 kb on - strand, within EX31_RS00965at 210.054 kb on - strandat 210.089 kb on - strandat 210.130 kb on + strandat 210.130 kb on + strandat 210.130 kb on + strandat 210.130 kb on + strandat 210.130 kb on + strandat 210.131 kb on - strandat 210.159 kb on - strandat 210.232 kb on + strandat 210.233 kb on - strandat 210.233 kb on - strandat 210.233 kb on - strandat 210.233 kb on - strandat 210.284 kb on - strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.319 kb on + strandat 210.320 kb on - strand, within EX31_RS00970at 210.320 kb on - strand, within EX31_RS00970at 210.386 kb on + strand, within EX31_RS00970at 210.475 kb on + strand, within EX31_RS00970at 210.477 kb on + strand, within EX31_RS00970at 210.477 kb on + strand, within EX31_RS00970at 210.478 kb on - strand, within EX31_RS00970at 210.478 kb on - strand, within EX31_RS00970at 210.478 kb on - strand, within EX31_RS00970at 210.501 kb on + strand, within EX31_RS00970at 210.501 kb on + strand, within EX31_RS00970at 210.559 kb on + strand, within EX31_RS00970at 210.559 kb on + strand, within EX31_RS00970at 210.559 kb on + strand, within EX31_RS00970at 210.560 kb on - strand, within EX31_RS00970at 210.560 kb on - strand, within EX31_RS00970at 210.560 kb on - strand, within EX31_RS00970at 210.563 kb on + strand, within EX31_RS00970at 210.563 kb on + strand, within EX31_RS00970at 210.591 kb on + strand, within EX31_RS00970at 210.592 kb on - strand, within EX31_RS00970at 210.592 kb on - strand, within EX31_RS00970at 210.600 kb on + strand, within EX31_RS00970at 210.854 kb on + strand, within EX31_RS00970at 210.854 kb on + strand, within EX31_RS00970at 210.854 kb on + strand, within EX31_RS00970at 210.854 kb on + strand, within EX31_RS00970at 210.854 kb on + strand, within EX31_RS00970at 210.854 kb on + strand, within EX31_RS00970at 210.855 kb on - strand, within EX31_RS00970at 210.855 kb on - strand, within EX31_RS00970at 210.855 kb on - strand, within EX31_RS00970at 210.855 kb on - strand, within EX31_RS00970at 211.005 kb on + strand, within EX31_RS00970at 211.005 kb on + strand, within EX31_RS00970at 211.005 kb on + strand, within EX31_RS00970at 211.005 kb on + strand, within EX31_RS00970at 211.005 kb on + strand, within EX31_RS00970at 211.006 kb on - strand, within EX31_RS00970at 211.006 kb on - strand, within EX31_RS00970at 211.006 kb on - strand, within EX31_RS00970at 211.006 kb on - strand, within EX31_RS00970at 211.100 kb on + strandat 211.136 kb on + strandat 211.187 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Ammonium chloride (N); ShewMM media; no shaking
remove
207,432 - +0.2
207,435 + -0.0
207,435 + -0.5
207,436 - -0.5
207,456 - +0.1
207,508 + -0.1
207,508 + -1.4
207,509 - EX31_RS00955 0.10 +0.9
207,656 + EX31_RS00955 0.40 -0.2
207,656 + EX31_RS00955 0.40 +0.9
207,657 - EX31_RS00955 0.40 -1.1
207,657 - EX31_RS00955 0.40 -0.7
207,677 + EX31_RS00955 0.44 -0.2
207,677 + EX31_RS00955 0.44 -0.7
207,768 + EX31_RS00955 0.63 +0.7
207,768 + EX31_RS00955 0.63 +1.0
207,847 + EX31_RS00955 0.79 +0.5
207,848 - EX31_RS00955 0.79 -0.0
207,872 + EX31_RS00955 0.84 -1.0
207,941 + -0.5
207,988 + +0.3
207,999 - -0.7
208,100 + EX31_RS00960 0.23 +0.7
208,173 + EX31_RS00960 0.41 -0.2
208,173 + EX31_RS00960 0.41 +0.9
208,173 + EX31_RS00960 0.41 +0.6
208,207 - EX31_RS00960 0.49 +1.3
208,233 + EX31_RS00960 0.55 -0.2
208,259 + EX31_RS00960 0.61 +0.1
208,259 + EX31_RS00960 0.61 +0.1
208,338 + EX31_RS00960 0.80 -2.4
208,431 - +0.1
208,456 + +0.2
208,551 + +2.1
208,582 - -2.1
208,635 + EX31_RS00965 0.11 -0.8
208,659 - EX31_RS00965 0.13 -1.4
208,712 + EX31_RS00965 0.16 -0.4
208,781 + EX31_RS00965 0.19 +1.0
208,781 + EX31_RS00965 0.19 +0.1
208,781 + EX31_RS00965 0.19 -0.9
208,781 + EX31_RS00965 0.19 +0.0
208,782 - EX31_RS00965 0.19 -0.7
208,782 - EX31_RS00965 0.19 +1.8
208,782 - EX31_RS00965 0.19 -0.5
208,782 - EX31_RS00965 0.19 +0.6
208,783 + EX31_RS00965 0.19 -1.9
208,783 + EX31_RS00965 0.19 -1.4
208,783 + EX31_RS00965 0.19 -0.6
208,784 - EX31_RS00965 0.20 +1.8
208,784 - EX31_RS00965 0.20 +0.9
208,784 - EX31_RS00965 0.20 -0.6
208,828 + EX31_RS00965 0.22 -0.2
208,828 + EX31_RS00965 0.22 -2.4
208,860 + EX31_RS00965 0.24 +0.6
208,910 + EX31_RS00965 0.27 +1.2
209,001 + EX31_RS00965 0.32 -1.5
209,001 + EX31_RS00965 0.32 -0.4
209,001 + EX31_RS00965 0.32 +1.3
209,058 + EX31_RS00965 0.35 +1.5
209,059 - EX31_RS00965 0.35 -0.7
209,076 + EX31_RS00965 0.36 +2.1
209,076 + EX31_RS00965 0.36 -2.4
209,077 - EX31_RS00965 0.36 +0.0
209,077 - EX31_RS00965 0.36 +0.3
209,079 - EX31_RS00965 0.36 -0.2
209,274 - EX31_RS00965 0.47 -0.3
209,295 - EX31_RS00965 0.48 +0.5
209,453 + EX31_RS00965 0.57 +0.4
209,453 + EX31_RS00965 0.57 -0.7
209,509 + EX31_RS00965 0.60 -1.3
209,509 + EX31_RS00965 0.60 -0.9
209,509 + EX31_RS00965 0.60 -0.8
209,571 + EX31_RS00965 0.63 +1.4
209,571 + EX31_RS00965 0.63 -0.5
209,571 + EX31_RS00965 0.63 +0.5
209,572 - EX31_RS00965 0.63 -1.0
209,572 - EX31_RS00965 0.63 +0.5
209,572 - EX31_RS00965 0.63 -0.5
209,572 - EX31_RS00965 0.63 -0.2
209,572 - EX31_RS00965 0.63 +0.8
209,572 - EX31_RS00965 0.63 -0.0
209,572 - EX31_RS00965 0.63 +0.5
209,615 + EX31_RS00965 0.66 -0.8
209,615 + EX31_RS00965 0.66 -0.2
209,615 + EX31_RS00965 0.66 -0.3
209,615 + EX31_RS00965 0.66 -1.6
209,616 - EX31_RS00965 0.66 +0.3
209,616 - EX31_RS00965 0.66 +0.9
209,616 - EX31_RS00965 0.66 +0.1
209,868 + EX31_RS00965 0.80 -0.0
209,868 + EX31_RS00965 0.80 +0.1
209,868 + EX31_RS00965 0.80 +0.9
209,868 + EX31_RS00965 0.80 +1.1
209,868 + EX31_RS00965 0.80 -0.9
209,868 + EX31_RS00965 0.80 -2.4
209,868 + EX31_RS00965 0.80 +0.3
209,868 + EX31_RS00965 0.80 -1.5
209,868 + EX31_RS00965 0.80 -1.6
209,868 + EX31_RS00965 0.80 -0.2
209,868 + EX31_RS00965 0.80 +1.3
209,869 - EX31_RS00965 0.80 +0.0
209,869 - EX31_RS00965 0.80 -0.7
209,869 - EX31_RS00965 0.80 -1.1
209,869 - EX31_RS00965 0.80 -0.3
209,869 - EX31_RS00965 0.80 +2.1
210,054 - +0.8
210,089 - -0.5
210,130 + -0.0
210,130 + -0.0
210,130 + -0.6
210,130 + -0.1
210,130 + +1.2
210,131 - +0.7
210,159 - +1.1
210,232 + -0.9
210,233 - +0.5
210,233 - -0.1
210,233 - +2.1
210,233 - +0.5
210,284 - +1.1
210,319 + -0.2
210,319 + +0.0
210,319 + +0.4
210,319 + -0.5
210,319 + -2.7
210,319 + -1.4
210,319 + -1.7
210,319 + +0.6
210,319 + -1.0
210,320 - EX31_RS00970 0.10 -2.2
210,320 - EX31_RS00970 0.10 +0.6
210,386 + EX31_RS00970 0.17 +1.3
210,475 + EX31_RS00970 0.26 +1.5
210,477 + EX31_RS00970 0.27 +0.3
210,477 + EX31_RS00970 0.27 -0.1
210,478 - EX31_RS00970 0.27 +0.4
210,478 - EX31_RS00970 0.27 -1.1
210,478 - EX31_RS00970 0.27 -0.5
210,501 + EX31_RS00970 0.29 +0.2
210,501 + EX31_RS00970 0.29 +1.1
210,559 + EX31_RS00970 0.35 +2.4
210,559 + EX31_RS00970 0.35 -0.2
210,559 + EX31_RS00970 0.35 -1.6
210,560 - EX31_RS00970 0.35 -0.3
210,560 - EX31_RS00970 0.35 +0.1
210,560 - EX31_RS00970 0.35 +0.6
210,563 + EX31_RS00970 0.36 -0.6
210,563 + EX31_RS00970 0.36 +1.1
210,591 + EX31_RS00970 0.39 +0.1
210,592 - EX31_RS00970 0.39 +0.4
210,592 - EX31_RS00970 0.39 -1.2
210,600 + EX31_RS00970 0.40 -0.3
210,854 + EX31_RS00970 0.66 +2.1
210,854 + EX31_RS00970 0.66 +1.5
210,854 + EX31_RS00970 0.66 +0.2
210,854 + EX31_RS00970 0.66 -0.9
210,854 + EX31_RS00970 0.66 -0.6
210,854 + EX31_RS00970 0.66 -0.2
210,855 - EX31_RS00970 0.66 +0.7
210,855 - EX31_RS00970 0.66 +1.2
210,855 - EX31_RS00970 0.66 +0.4
210,855 - EX31_RS00970 0.66 +0.1
211,005 + EX31_RS00970 0.82 -0.7
211,005 + EX31_RS00970 0.82 -0.4
211,005 + EX31_RS00970 0.82 -0.4
211,005 + EX31_RS00970 0.82 -0.8
211,005 + EX31_RS00970 0.82 +0.3
211,006 - EX31_RS00970 0.82 +0.8
211,006 - EX31_RS00970 0.82 +3.3
211,006 - EX31_RS00970 0.82 +0.5
211,006 - EX31_RS00970 0.82 +1.2
211,100 + +0.9
211,136 + +0.6
211,187 - -2.1

Or see this region's nucleotide sequence