Experiment: NL-CCM; Mixed culture; Sphingobium sp. HT1-2 2:1 starting OD to Azospirillum
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 EX31_RS01415 and EX31_RS01420 overlap by 4 nucleotides EX31_RS01420 and EX31_RS01425 are separated by 192 nucleotides
EX31_RS01415: EX31_RS01415 - virulence factor SrfB, at 315,168 to 318,140
_RS01415
EX31_RS01420: EX31_RS01420 - virulence factor, at 318,137 to 320,512
_RS01420
EX31_RS01425: EX31_RS01425 - class I fructose-bisphosphate aldolase, at 320,705 to 321,754
_RS01425
Position (kb) 318
319
320
321 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 317.147 kb on + strand, within EX31_RS01415 at 317.147 kb on + strand, within EX31_RS01415 at 317.148 kb on - strand, within EX31_RS01415 at 317.148 kb on - strand, within EX31_RS01415 at 317.412 kb on - strand, within EX31_RS01415 at 317.412 kb on - strand, within EX31_RS01415 at 317.546 kb on + strand, within EX31_RS01415 at 317.546 kb on + strand, within EX31_RS01415 at 317.546 kb on + strand, within EX31_RS01415 at 317.546 kb on + strand, within EX31_RS01415 at 317.546 kb on + strand, within EX31_RS01415 at 317.547 kb on - strand, within EX31_RS01415 at 317.668 kb on + strand, within EX31_RS01415 at 317.668 kb on + strand, within EX31_RS01415 at 317.669 kb on - strand, within EX31_RS01415 at 317.685 kb on + strand, within EX31_RS01415 at 317.685 kb on + strand, within EX31_RS01415 at 317.686 kb on - strand, within EX31_RS01415 at 317.686 kb on - strand, within EX31_RS01415 at 317.735 kb on + strand, within EX31_RS01415 at 317.768 kb on + strand, within EX31_RS01415 at 317.808 kb on + strand, within EX31_RS01415 at 317.808 kb on + strand, within EX31_RS01415 at 317.904 kb on + strand at 317.905 kb on - strand at 317.906 kb on + strand at 317.907 kb on - strand at 317.907 kb on - strand at 318.021 kb on - strand at 318.086 kb on + strand at 318.086 kb on + strand at 318.086 kb on + strand at 318.087 kb on - strand at 318.128 kb on - strand at 318.428 kb on + strand, within EX31_RS01420 at 318.428 kb on + strand, within EX31_RS01420 at 318.429 kb on - strand, within EX31_RS01420 at 318.633 kb on - strand, within EX31_RS01420 at 318.673 kb on + strand, within EX31_RS01420 at 318.716 kb on - strand, within EX31_RS01420 at 318.794 kb on + strand, within EX31_RS01420 at 318.906 kb on - strand, within EX31_RS01420 at 319.122 kb on + strand, within EX31_RS01420 at 319.122 kb on + strand, within EX31_RS01420 at 319.123 kb on - strand, within EX31_RS01420 at 319.171 kb on - strand, within EX31_RS01420 at 319.269 kb on - strand, within EX31_RS01420 at 319.269 kb on - strand, within EX31_RS01420 at 319.269 kb on - strand, within EX31_RS01420 at 319.358 kb on + strand, within EX31_RS01420 at 319.555 kb on + strand, within EX31_RS01420 at 319.556 kb on - strand, within EX31_RS01420 at 319.617 kb on + strand, within EX31_RS01420 at 319.804 kb on + strand, within EX31_RS01420 at 319.804 kb on + strand, within EX31_RS01420 at 319.805 kb on - strand, within EX31_RS01420 at 319.805 kb on - strand, within EX31_RS01420 at 319.805 kb on - strand, within EX31_RS01420 at 319.882 kb on + strand, within EX31_RS01420 at 319.896 kb on + strand, within EX31_RS01420 at 320.132 kb on - strand, within EX31_RS01420 at 320.272 kb on + strand, within EX31_RS01420 at 320.273 kb on - strand, within EX31_RS01420 at 320.379 kb on - strand at 320.492 kb on - strand at 320.492 kb on - strand at 320.510 kb on + strand at 320.510 kb on + strand at 320.511 kb on - strand at 320.514 kb on - strand at 320.554 kb on + strand at 320.596 kb on - strand at 320.636 kb on - strand at 320.637 kb on + strand at 320.637 kb on + strand at 320.637 kb on + strand at 320.638 kb on - strand at 320.638 kb on - strand at 320.638 kb on - strand at 320.641 kb on + strand at 320.641 kb on + strand at 320.642 kb on - strand at 320.658 kb on - strand at 320.658 kb on - strand at 320.704 kb on + strand at 320.705 kb on - strand at 320.714 kb on - strand at 320.719 kb on + strand at 320.720 kb on - strand at 320.787 kb on + strand at 320.787 kb on + strand at 320.787 kb on + strand at 320.788 kb on - strand at 320.788 kb on - strand at 320.789 kb on + strand at 320.789 kb on + strand at 320.789 kb on + strand at 320.789 kb on + strand at 320.789 kb on + strand at 320.790 kb on - strand at 320.790 kb on - strand at 320.790 kb on - strand at 320.873 kb on + strand, within EX31_RS01425 at 320.874 kb on - strand, within EX31_RS01425 at 320.975 kb on + strand, within EX31_RS01425 at 321.126 kb on - strand, within EX31_RS01425 at 321.126 kb on - strand, within EX31_RS01425 at 321.137 kb on + strand, within EX31_RS01425 at 321.137 kb on + strand, within EX31_RS01425 at 321.137 kb on + strand, within EX31_RS01425 at 321.138 kb on - strand, within EX31_RS01425 at 321.138 kb on - strand, within EX31_RS01425 at 321.153 kb on - strand, within EX31_RS01425 at 321.153 kb on - strand, within EX31_RS01425 at 321.240 kb on + strand, within EX31_RS01425 at 321.241 kb on - strand, within EX31_RS01425 at 321.241 kb on - strand, within EX31_RS01425 at 321.241 kb on - strand, within EX31_RS01425 at 321.305 kb on + strand, within EX31_RS01425 at 321.434 kb on - strand, within EX31_RS01425 at 321.434 kb on - strand, within EX31_RS01425
Per-strain Table
Position Strand Gene LocusTag Fraction NL-CCM; Mixed culture; Sphingobium sp. HT1-2 2:1 starting OD to Azospirillum remove 317,147 + EX31_RS01415 0.67 -1.6 317,147 + EX31_RS01415 0.67 +1.2 317,148 - EX31_RS01415 0.67 +1.0 317,148 - EX31_RS01415 0.67 +0.5 317,412 - EX31_RS01415 0.75 +0.9 317,412 - EX31_RS01415 0.75 -1.2 317,546 + EX31_RS01415 0.80 +0.2 317,546 + EX31_RS01415 0.80 -1.6 317,546 + EX31_RS01415 0.80 +1.0 317,546 + EX31_RS01415 0.80 +2.2 317,546 + EX31_RS01415 0.80 +0.6 317,547 - EX31_RS01415 0.80 -0.2 317,668 + EX31_RS01415 0.84 -0.6 317,668 + EX31_RS01415 0.84 -0.1 317,669 - EX31_RS01415 0.84 +0.7 317,685 + EX31_RS01415 0.85 -0.4 317,685 + EX31_RS01415 0.85 +0.5 317,686 - EX31_RS01415 0.85 +0.2 317,686 - EX31_RS01415 0.85 +0.4 317,735 + EX31_RS01415 0.86 +0.7 317,768 + EX31_RS01415 0.87 +2.2 317,808 + EX31_RS01415 0.89 -1.1 317,808 + EX31_RS01415 0.89 +0.4 317,904 + -2.1 317,905 - -0.8 317,906 + -0.4 317,907 - -0.8 317,907 - -0.9 318,021 - +1.7 318,086 + -0.2 318,086 + -0.3 318,086 + +3.4 318,087 - -0.1 318,128 - -0.1 318,428 + EX31_RS01420 0.12 +0.6 318,428 + EX31_RS01420 0.12 -0.6 318,429 - EX31_RS01420 0.12 -0.4 318,633 - EX31_RS01420 0.21 -1.8 318,673 + EX31_RS01420 0.23 +0.6 318,716 - EX31_RS01420 0.24 -2.9 318,794 + EX31_RS01420 0.28 -0.3 318,906 - EX31_RS01420 0.32 +0.2 319,122 + EX31_RS01420 0.41 -0.1 319,122 + EX31_RS01420 0.41 +1.7 319,123 - EX31_RS01420 0.41 -0.7 319,171 - EX31_RS01420 0.44 +0.4 319,269 - EX31_RS01420 0.48 +0.2 319,269 - EX31_RS01420 0.48 +1.0 319,269 - EX31_RS01420 0.48 -2.4 319,358 + EX31_RS01420 0.51 -1.5 319,555 + EX31_RS01420 0.60 +1.1 319,556 - EX31_RS01420 0.60 -0.4 319,617 + EX31_RS01420 0.62 +0.6 319,804 + EX31_RS01420 0.70 +0.1 319,804 + EX31_RS01420 0.70 +0.8 319,805 - EX31_RS01420 0.70 +0.9 319,805 - EX31_RS01420 0.70 -0.3 319,805 - EX31_RS01420 0.70 -0.3 319,882 + EX31_RS01420 0.73 -0.0 319,896 + EX31_RS01420 0.74 -1.9 320,132 - EX31_RS01420 0.84 -1.5 320,272 + EX31_RS01420 0.90 -1.5 320,273 - EX31_RS01420 0.90 -0.5 320,379 - +0.6 320,492 - -0.9 320,492 - -0.4 320,510 + +0.4 320,510 + -0.3 320,511 - -0.2 320,514 - +0.4 320,554 + +0.0 320,596 - +0.1 320,636 - +0.7 320,637 + -0.4 320,637 + -0.6 320,637 + +0.1 320,638 - -1.7 320,638 - +0.9 320,638 - +0.9 320,641 + -1.2 320,641 + -0.0 320,642 - -0.1 320,658 - +0.3 320,658 - -3.1 320,704 + -1.4 320,705 - -1.2 320,714 - +0.3 320,719 + +0.7 320,720 - -0.9 320,787 + +0.1 320,787 + -0.7 320,787 + +1.4 320,788 - +1.3 320,788 - +1.1 320,789 + +1.3 320,789 + +0.6 320,789 + +1.2 320,789 + -2.1 320,789 + -0.3 320,790 - +0.5 320,790 - -1.5 320,790 - -0.3 320,873 + EX31_RS01425 0.16 -0.3 320,874 - EX31_RS01425 0.16 -0.9 320,975 + EX31_RS01425 0.26 +1.9 321,126 - EX31_RS01425 0.40 -0.5 321,126 - EX31_RS01425 0.40 -0.6 321,137 + EX31_RS01425 0.41 -1.2 321,137 + EX31_RS01425 0.41 -0.7 321,137 + EX31_RS01425 0.41 -0.9 321,138 - EX31_RS01425 0.41 -0.0 321,138 - EX31_RS01425 0.41 -2.8 321,153 - EX31_RS01425 0.43 +0.7 321,153 - EX31_RS01425 0.43 +0.0 321,240 + EX31_RS01425 0.51 +0.3 321,241 - EX31_RS01425 0.51 -0.5 321,241 - EX31_RS01425 0.51 -0.9 321,241 - EX31_RS01425 0.51 +0.0 321,305 + EX31_RS01425 0.57 +1.0 321,434 - EX31_RS01425 0.69 +0.1 321,434 - EX31_RS01425 0.69 -0.7
Or see this region's nucleotide sequence