Strain Fitness in Rahnella sp. WP5 around EX31_RS12585

Experiment: NL-CCM; low oxygen

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_RS12575 and EX31_RS12580 overlap by 4 nucleotidesEX31_RS12580 and EX31_RS12585 overlap by 19 nucleotidesEX31_RS12585 and EX31_RS12590 are separated by 4 nucleotidesEX31_RS12590 and EX31_RS12595 are separated by 18 nucleotides EX31_RS12575: EX31_RS12575 - Flp pilus assembly complex ATPase component, at 186,822 to 188,351 _RS12575 EX31_RS12580: EX31_RS12580 - hypothetical protein, at 188,348 to 188,851 _RS12580 EX31_RS12585: EX31_RS12585 - hypothetical protein, at 188,833 to 189,681 _RS12585 EX31_RS12590: EX31_RS12590 - hypothetical protein, at 189,686 to 190,243 _RS12590 EX31_RS12595: EX31_RS12595 - type II and III secretion system protein, at 190,262 to 191,710 _RS12595 Position (kb) 188 189 190Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 187.841 kb on + strand, within EX31_RS12575at 187.841 kb on + strand, within EX31_RS12575at 187.841 kb on + strand, within EX31_RS12575at 187.842 kb on - strand, within EX31_RS12575at 187.842 kb on - strand, within EX31_RS12575at 187.842 kb on - strand, within EX31_RS12575at 187.845 kb on - strand, within EX31_RS12575at 187.845 kb on - strand, within EX31_RS12575at 187.845 kb on - strand, within EX31_RS12575at 187.859 kb on + strand, within EX31_RS12575at 187.878 kb on + strand, within EX31_RS12575at 187.878 kb on + strand, within EX31_RS12575at 187.878 kb on + strand, within EX31_RS12575at 187.878 kb on + strand, within EX31_RS12575at 187.879 kb on - strand, within EX31_RS12575at 187.879 kb on - strand, within EX31_RS12575at 187.879 kb on - strand, within EX31_RS12575at 187.879 kb on - strand, within EX31_RS12575at 187.879 kb on - strand, within EX31_RS12575at 187.879 kb on - strand, within EX31_RS12575at 187.885 kb on + strand, within EX31_RS12575at 187.885 kb on + strand, within EX31_RS12575at 187.886 kb on - strand, within EX31_RS12575at 187.886 kb on - strand, within EX31_RS12575at 187.886 kb on - strand, within EX31_RS12575at 187.886 kb on - strand, within EX31_RS12575at 187.886 kb on - strand, within EX31_RS12575at 187.897 kb on - strand, within EX31_RS12575at 187.897 kb on - strand, within EX31_RS12575at 187.938 kb on + strand, within EX31_RS12575at 187.938 kb on + strand, within EX31_RS12575at 187.953 kb on + strand, within EX31_RS12575at 187.953 kb on + strand, within EX31_RS12575at 187.954 kb on - strand, within EX31_RS12575at 187.954 kb on - strand, within EX31_RS12575at 187.979 kb on + strand, within EX31_RS12575at 187.994 kb on + strand, within EX31_RS12575at 187.994 kb on + strand, within EX31_RS12575at 187.994 kb on + strand, within EX31_RS12575at 187.995 kb on - strand, within EX31_RS12575at 187.995 kb on - strand, within EX31_RS12575at 188.034 kb on + strand, within EX31_RS12575at 188.063 kb on + strand, within EX31_RS12575at 188.063 kb on + strand, within EX31_RS12575at 188.063 kb on + strand, within EX31_RS12575at 188.111 kb on - strand, within EX31_RS12575at 188.122 kb on + strand, within EX31_RS12575at 188.122 kb on + strand, within EX31_RS12575at 188.204 kb on + strandat 188.204 kb on + strandat 188.204 kb on + strandat 188.204 kb on + strandat 188.205 kb on - strandat 188.242 kb on + strandat 188.243 kb on - strandat 188.243 kb on - strandat 188.313 kb on + strandat 188.327 kb on + strandat 188.327 kb on + strandat 188.327 kb on + strandat 188.328 kb on - strandat 188.334 kb on + strandat 188.335 kb on - strandat 188.406 kb on + strand, within EX31_RS12580at 188.407 kb on - strand, within EX31_RS12580at 188.407 kb on - strand, within EX31_RS12580at 188.451 kb on - strand, within EX31_RS12580at 188.513 kb on + strand, within EX31_RS12580at 188.513 kb on + strand, within EX31_RS12580at 188.551 kb on + strand, within EX31_RS12580at 188.551 kb on + strand, within EX31_RS12580at 188.552 kb on - strand, within EX31_RS12580at 188.552 kb on - strand, within EX31_RS12580at 188.560 kb on + strand, within EX31_RS12580at 188.627 kb on + strand, within EX31_RS12580at 188.653 kb on + strand, within EX31_RS12580at 188.653 kb on + strand, within EX31_RS12580at 188.653 kb on + strand, within EX31_RS12580at 188.695 kb on + strand, within EX31_RS12580at 188.695 kb on + strand, within EX31_RS12580at 188.696 kb on - strand, within EX31_RS12580at 188.728 kb on + strand, within EX31_RS12580at 188.729 kb on - strand, within EX31_RS12580at 188.729 kb on - strand, within EX31_RS12580at 188.729 kb on - strand, within EX31_RS12580at 188.729 kb on - strand, within EX31_RS12580at 188.729 kb on - strand, within EX31_RS12580at 188.729 kb on - strand, within EX31_RS12580at 188.780 kb on - strand, within EX31_RS12580at 188.948 kb on + strand, within EX31_RS12585at 188.948 kb on + strand, within EX31_RS12585at 188.949 kb on - strand, within EX31_RS12585at 188.953 kb on + strand, within EX31_RS12585at 188.954 kb on - strand, within EX31_RS12585at 188.954 kb on - strand, within EX31_RS12585at 188.959 kb on + strand, within EX31_RS12585at 189.010 kb on - strand, within EX31_RS12585at 189.049 kb on - strand, within EX31_RS12585at 189.143 kb on - strand, within EX31_RS12585at 189.470 kb on + strand, within EX31_RS12585at 189.473 kb on + strand, within EX31_RS12585at 189.473 kb on + strand, within EX31_RS12585at 189.555 kb on - strand, within EX31_RS12585at 189.555 kb on - strand, within EX31_RS12585at 189.560 kb on + strand, within EX31_RS12585at 189.560 kb on + strand, within EX31_RS12585at 189.560 kb on + strand, within EX31_RS12585at 189.561 kb on - strand, within EX31_RS12585at 189.566 kb on + strand, within EX31_RS12585at 189.676 kb on + strandat 189.705 kb on + strandat 189.821 kb on - strand, within EX31_RS12590at 189.867 kb on + strand, within EX31_RS12590at 190.119 kb on + strand, within EX31_RS12590at 190.119 kb on + strand, within EX31_RS12590at 190.119 kb on + strand, within EX31_RS12590at 190.120 kb on - strand, within EX31_RS12590at 190.120 kb on - strand, within EX31_RS12590at 190.123 kb on + strand, within EX31_RS12590at 190.123 kb on + strand, within EX31_RS12590at 190.124 kb on - strand, within EX31_RS12590at 190.124 kb on - strand, within EX31_RS12590at 190.124 kb on - strand, within EX31_RS12590at 190.124 kb on - strand, within EX31_RS12590at 190.124 kb on - strand, within EX31_RS12590at 190.140 kb on - strand, within EX31_RS12590at 190.141 kb on + strand, within EX31_RS12590at 190.142 kb on - strand, within EX31_RS12590at 190.161 kb on + strand, within EX31_RS12590at 190.216 kb on + strandat 190.234 kb on + strandat 190.234 kb on + strandat 190.234 kb on + strandat 190.235 kb on - strandat 190.238 kb on + strandat 190.239 kb on - strandat 190.284 kb on + strandat 190.288 kb on - strandat 190.349 kb on + strandat 190.349 kb on + strandat 190.349 kb on + strandat 190.350 kb on - strandat 190.360 kb on - strandat 190.393 kb on - strandat 190.409 kb on + strand, within EX31_RS12595at 190.410 kb on - strand, within EX31_RS12595at 190.414 kb on + strand, within EX31_RS12595at 190.414 kb on + strand, within EX31_RS12595at 190.415 kb on - strand, within EX31_RS12595at 190.415 kb on - strand, within EX31_RS12595at 190.415 kb on - strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.490 kb on + strand, within EX31_RS12595at 190.491 kb on - strand, within EX31_RS12595at 190.491 kb on - strand, within EX31_RS12595at 190.491 kb on - strand, within EX31_RS12595at 190.491 kb on - strand, within EX31_RS12595at 190.492 kb on + strand, within EX31_RS12595at 190.492 kb on + strand, within EX31_RS12595at 190.493 kb on - strand, within EX31_RS12595at 190.493 kb on - strand, within EX31_RS12595at 190.493 kb on - strand, within EX31_RS12595at 190.499 kb on + strand, within EX31_RS12595at 190.514 kb on - strand, within EX31_RS12595at 190.561 kb on + strand, within EX31_RS12595at 190.561 kb on + strand, within EX31_RS12595at 190.564 kb on + strand, within EX31_RS12595at 190.564 kb on + strand, within EX31_RS12595at 190.565 kb on - strand, within EX31_RS12595at 190.567 kb on + strand, within EX31_RS12595at 190.567 kb on + strand, within EX31_RS12595at 190.568 kb on - strand, within EX31_RS12595at 190.568 kb on - strand, within EX31_RS12595at 190.568 kb on - strand, within EX31_RS12595at 190.659 kb on + strand, within EX31_RS12595at 190.659 kb on + strand, within EX31_RS12595at 190.659 kb on + strand, within EX31_RS12595at 190.659 kb on + strand, within EX31_RS12595at 190.660 kb on - strand, within EX31_RS12595at 190.660 kb on - strand, within EX31_RS12595

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction NL-CCM; low oxygen
remove
187,841 + EX31_RS12575 0.67 +0.0
187,841 + EX31_RS12575 0.67 +0.4
187,841 + EX31_RS12575 0.67 +0.1
187,842 - EX31_RS12575 0.67 -0.4
187,842 - EX31_RS12575 0.67 +0.2
187,842 - EX31_RS12575 0.67 -1.1
187,845 - EX31_RS12575 0.67 +0.1
187,845 - EX31_RS12575 0.67 -0.9
187,845 - EX31_RS12575 0.67 +0.4
187,859 + EX31_RS12575 0.68 +0.2
187,878 + EX31_RS12575 0.69 -0.6
187,878 + EX31_RS12575 0.69 +0.1
187,878 + EX31_RS12575 0.69 +0.2
187,878 + EX31_RS12575 0.69 +0.1
187,879 - EX31_RS12575 0.69 -0.3
187,879 - EX31_RS12575 0.69 +0.0
187,879 - EX31_RS12575 0.69 -0.8
187,879 - EX31_RS12575 0.69 -0.8
187,879 - EX31_RS12575 0.69 +0.5
187,879 - EX31_RS12575 0.69 -0.8
187,885 + EX31_RS12575 0.69 -0.2
187,885 + EX31_RS12575 0.69 +0.0
187,886 - EX31_RS12575 0.70 -1.0
187,886 - EX31_RS12575 0.70 -2.5
187,886 - EX31_RS12575 0.70 -0.5
187,886 - EX31_RS12575 0.70 -0.3
187,886 - EX31_RS12575 0.70 -0.4
187,897 - EX31_RS12575 0.70 +0.6
187,897 - EX31_RS12575 0.70 -0.1
187,938 + EX31_RS12575 0.73 +0.1
187,938 + EX31_RS12575 0.73 -0.2
187,953 + EX31_RS12575 0.74 +0.0
187,953 + EX31_RS12575 0.74 -1.1
187,954 - EX31_RS12575 0.74 -0.3
187,954 - EX31_RS12575 0.74 -2.5
187,979 + EX31_RS12575 0.76 -1.4
187,994 + EX31_RS12575 0.77 -0.4
187,994 + EX31_RS12575 0.77 +0.1
187,994 + EX31_RS12575 0.77 +0.3
187,995 - EX31_RS12575 0.77 -1.1
187,995 - EX31_RS12575 0.77 -0.3
188,034 + EX31_RS12575 0.79 +0.0
188,063 + EX31_RS12575 0.81 +0.6
188,063 + EX31_RS12575 0.81 +0.3
188,063 + EX31_RS12575 0.81 +0.4
188,111 - EX31_RS12575 0.84 +0.1
188,122 + EX31_RS12575 0.85 -1.6
188,122 + EX31_RS12575 0.85 -0.2
188,204 + +0.9
188,204 + +1.7
188,204 + +0.2
188,204 + -3.2
188,205 - -0.6
188,242 + -0.1
188,243 - -0.1
188,243 - +0.4
188,313 + -0.5
188,327 + +0.1
188,327 + -0.8
188,327 + -0.1
188,328 - +0.5
188,334 + -0.5
188,335 - +0.7
188,406 + EX31_RS12580 0.12 -0.6
188,407 - EX31_RS12580 0.12 -0.3
188,407 - EX31_RS12580 0.12 +0.0
188,451 - EX31_RS12580 0.20 -0.3
188,513 + EX31_RS12580 0.33 +0.3
188,513 + EX31_RS12580 0.33 -0.3
188,551 + EX31_RS12580 0.40 -0.5
188,551 + EX31_RS12580 0.40 +0.6
188,552 - EX31_RS12580 0.40 -0.2
188,552 - EX31_RS12580 0.40 +0.5
188,560 + EX31_RS12580 0.42 -1.0
188,627 + EX31_RS12580 0.55 +0.9
188,653 + EX31_RS12580 0.61 -0.0
188,653 + EX31_RS12580 0.61 -0.2
188,653 + EX31_RS12580 0.61 -0.4
188,695 + EX31_RS12580 0.69 +0.0
188,695 + EX31_RS12580 0.69 -0.2
188,696 - EX31_RS12580 0.69 +0.4
188,728 + EX31_RS12580 0.75 +0.0
188,729 - EX31_RS12580 0.76 +0.3
188,729 - EX31_RS12580 0.76 +0.6
188,729 - EX31_RS12580 0.76 +0.1
188,729 - EX31_RS12580 0.76 -0.2
188,729 - EX31_RS12580 0.76 +0.2
188,729 - EX31_RS12580 0.76 -0.0
188,780 - EX31_RS12580 0.86 -0.6
188,948 + EX31_RS12585 0.14 -0.8
188,948 + EX31_RS12585 0.14 -0.4
188,949 - EX31_RS12585 0.14 -1.6
188,953 + EX31_RS12585 0.14 -2.1
188,954 - EX31_RS12585 0.14 -0.2
188,954 - EX31_RS12585 0.14 +0.5
188,959 + EX31_RS12585 0.15 +0.3
189,010 - EX31_RS12585 0.21 -1.3
189,049 - EX31_RS12585 0.25 -0.1
189,143 - EX31_RS12585 0.37 +0.1
189,470 + EX31_RS12585 0.75 +0.4
189,473 + EX31_RS12585 0.75 -1.5
189,473 + EX31_RS12585 0.75 -0.7
189,555 - EX31_RS12585 0.85 +0.2
189,555 - EX31_RS12585 0.85 -0.4
189,560 + EX31_RS12585 0.86 +0.0
189,560 + EX31_RS12585 0.86 -0.4
189,560 + EX31_RS12585 0.86 -0.5
189,561 - EX31_RS12585 0.86 -0.2
189,566 + EX31_RS12585 0.86 -1.3
189,676 + +0.4
189,705 + -0.7
189,821 - EX31_RS12590 0.24 -0.1
189,867 + EX31_RS12590 0.32 +0.2
190,119 + EX31_RS12590 0.78 -0.6
190,119 + EX31_RS12590 0.78 -0.1
190,119 + EX31_RS12590 0.78 +1.2
190,120 - EX31_RS12590 0.78 -0.5
190,120 - EX31_RS12590 0.78 -0.2
190,123 + EX31_RS12590 0.78 -0.7
190,123 + EX31_RS12590 0.78 -0.7
190,124 - EX31_RS12590 0.78 -0.3
190,124 - EX31_RS12590 0.78 -1.7
190,124 - EX31_RS12590 0.78 +0.0
190,124 - EX31_RS12590 0.78 +0.9
190,124 - EX31_RS12590 0.78 -0.1
190,140 - EX31_RS12590 0.81 -0.5
190,141 + EX31_RS12590 0.82 -0.3
190,142 - EX31_RS12590 0.82 -1.0
190,161 + EX31_RS12590 0.85 +0.2
190,216 + -1.8
190,234 + +0.9
190,234 + -1.1
190,234 + -0.1
190,235 - +0.6
190,238 + -0.6
190,239 - -0.5
190,284 + -0.9
190,288 - -0.3
190,349 + -0.3
190,349 + -0.3
190,349 + +0.1
190,350 - +0.3
190,360 - -0.2
190,393 - -0.1
190,409 + EX31_RS12595 0.10 +0.1
190,410 - EX31_RS12595 0.10 -0.4
190,414 + EX31_RS12595 0.10 +0.4
190,414 + EX31_RS12595 0.10 +0.4
190,415 - EX31_RS12595 0.11 -0.5
190,415 - EX31_RS12595 0.11 -0.1
190,415 - EX31_RS12595 0.11 +0.7
190,490 + EX31_RS12595 0.16 -0.1
190,490 + EX31_RS12595 0.16 +0.0
190,490 + EX31_RS12595 0.16 +0.3
190,490 + EX31_RS12595 0.16 +0.3
190,490 + EX31_RS12595 0.16 -0.7
190,490 + EX31_RS12595 0.16 -1.1
190,490 + EX31_RS12595 0.16 -0.3
190,490 + EX31_RS12595 0.16 -0.2
190,490 + EX31_RS12595 0.16 +0.0
190,490 + EX31_RS12595 0.16 +0.5
190,490 + EX31_RS12595 0.16 -2.2
190,490 + EX31_RS12595 0.16 +0.2
190,491 - EX31_RS12595 0.16 -0.4
190,491 - EX31_RS12595 0.16 -0.9
190,491 - EX31_RS12595 0.16 +0.2
190,491 - EX31_RS12595 0.16 -0.6
190,492 + EX31_RS12595 0.16 -1.7
190,492 + EX31_RS12595 0.16 -0.9
190,493 - EX31_RS12595 0.16 -1.0
190,493 - EX31_RS12595 0.16 -0.2
190,493 - EX31_RS12595 0.16 +0.3
190,499 + EX31_RS12595 0.16 -0.3
190,514 - EX31_RS12595 0.17 -1.1
190,561 + EX31_RS12595 0.21 +1.0
190,561 + EX31_RS12595 0.21 +0.3
190,564 + EX31_RS12595 0.21 -0.4
190,564 + EX31_RS12595 0.21 -0.1
190,565 - EX31_RS12595 0.21 +0.1
190,567 + EX31_RS12595 0.21 -0.3
190,567 + EX31_RS12595 0.21 -0.8
190,568 - EX31_RS12595 0.21 -0.3
190,568 - EX31_RS12595 0.21 +0.2
190,568 - EX31_RS12595 0.21 -0.1
190,659 + EX31_RS12595 0.27 +2.1
190,659 + EX31_RS12595 0.27 -0.0
190,659 + EX31_RS12595 0.27 -0.0
190,659 + EX31_RS12595 0.27 -0.2
190,660 - EX31_RS12595 0.27 +0.1
190,660 - EX31_RS12595 0.27 +1.3

Or see this region's nucleotide sequence