Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol
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 RPSI07_RS22340 and RPSI07_RS22345 are separated by 81 nucleotides RPSI07_RS22345 and RPSI07_RS22350 are separated by 4 nucleotides RPSI07_RS22350 and RPSI07_RS22355 are separated by 34 nucleotides RPSI07_RS22355 and RPSI07_RS22360 overlap by 4 nucleotides
RPSI07_RS22340: RPSI07_RS22340 - cytochrome c oxidase subunit 3, at 3,174,542 to 3,175,402
_RS22340
RPSI07_RS22345: RPSI07_RS22345 - DUF2970 domain-containing protein, at 3,175,484 to 3,175,696
_RS22345
RPSI07_RS22350: RPSI07_RS22350 - cytochrome c oxidase assembly protein, at 3,175,701 to 3,176,309
_RS22350
RPSI07_RS22355: RPSI07_RS22355 - hypothetical protein, at 3,176,344 to 3,176,538
_RS22355
RPSI07_RS22360: RPSI07_RS22360 - cytochrome c oxidase subunit I, at 3,176,535 to 3,178,139
_RS22360
Position (kb) 3175
3176 Strain fitness (log2 ratio) -2
-1
0
1 at 3174.544 kb on - strand at 3174.544 kb on - strand at 3174.552 kb on + strand at 3174.553 kb on - strand at 3174.564 kb on + strand at 3174.565 kb on - strand at 3174.565 kb on - strand at 3174.565 kb on - strand at 3174.744 kb on + strand, within RPSI07_RS22340 at 3174.744 kb on + strand, within RPSI07_RS22340 at 3174.745 kb on - strand, within RPSI07_RS22340 at 3174.745 kb on - strand, within RPSI07_RS22340 at 3174.745 kb on - strand, within RPSI07_RS22340 at 3174.745 kb on - strand, within RPSI07_RS22340 at 3174.781 kb on - strand, within RPSI07_RS22340 at 3174.792 kb on + strand, within RPSI07_RS22340 at 3174.792 kb on + strand, within RPSI07_RS22340 at 3174.792 kb on + strand, within RPSI07_RS22340 at 3174.792 kb on + strand, within RPSI07_RS22340 at 3174.792 kb on + strand, within RPSI07_RS22340 at 3174.792 kb on + strand, within RPSI07_RS22340 at 3174.793 kb on - strand, within RPSI07_RS22340 at 3174.793 kb on - strand, within RPSI07_RS22340 at 3174.793 kb on - strand, within RPSI07_RS22340 at 3174.793 kb on - strand, within RPSI07_RS22340 at 3174.793 kb on - strand, within RPSI07_RS22340 at 3174.793 kb on - strand, within RPSI07_RS22340 at 3174.799 kb on - strand, within RPSI07_RS22340 at 3174.799 kb on - strand, within RPSI07_RS22340 at 3174.799 kb on - strand, within RPSI07_RS22340 at 3175.083 kb on + strand, within RPSI07_RS22340 at 3175.084 kb on - strand, within RPSI07_RS22340 at 3175.179 kb on + strand, within RPSI07_RS22340 at 3175.179 kb on + strand, within RPSI07_RS22340 at 3175.180 kb on - strand, within RPSI07_RS22340 at 3175.180 kb on - strand, within RPSI07_RS22340 at 3175.371 kb on + strand at 3175.371 kb on + strand at 3175.372 kb on - strand at 3175.424 kb on - strand at 3175.766 kb on - strand, within RPSI07_RS22350 at 3175.973 kb on - strand, within RPSI07_RS22350 at 3176.096 kb on + strand, within RPSI07_RS22350 at 3176.170 kb on + strand, within RPSI07_RS22350 at 3176.400 kb on + strand, within RPSI07_RS22355 at 3176.680 kb on + strand at 3176.680 kb on + strand at 3176.680 kb on + strand at 3176.681 kb on - strand at 3176.681 kb on - strand at 3176.681 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol remove 3,174,544 - -1.0 3,174,544 - -0.2 3,174,552 + +0.4 3,174,553 - +1.0 3,174,564 + -0.2 3,174,565 - +0.1 3,174,565 - +0.1 3,174,565 - -1.0 3,174,744 + RPSI07_RS22340 0.23 -0.1 3,174,744 + RPSI07_RS22340 0.23 -0.3 3,174,745 - RPSI07_RS22340 0.24 -0.9 3,174,745 - RPSI07_RS22340 0.24 -0.6 3,174,745 - RPSI07_RS22340 0.24 +0.0 3,174,745 - RPSI07_RS22340 0.24 -1.3 3,174,781 - RPSI07_RS22340 0.28 -1.0 3,174,792 + RPSI07_RS22340 0.29 +0.4 3,174,792 + RPSI07_RS22340 0.29 -1.3 3,174,792 + RPSI07_RS22340 0.29 +0.5 3,174,792 + RPSI07_RS22340 0.29 -0.8 3,174,792 + RPSI07_RS22340 0.29 +1.0 3,174,792 + RPSI07_RS22340 0.29 -0.6 3,174,793 - RPSI07_RS22340 0.29 -1.0 3,174,793 - RPSI07_RS22340 0.29 +1.0 3,174,793 - RPSI07_RS22340 0.29 -1.0 3,174,793 - RPSI07_RS22340 0.29 -0.0 3,174,793 - RPSI07_RS22340 0.29 +0.0 3,174,793 - RPSI07_RS22340 0.29 -0.6 3,174,799 - RPSI07_RS22340 0.30 -0.6 3,174,799 - RPSI07_RS22340 0.30 -0.8 3,174,799 - RPSI07_RS22340 0.30 -0.6 3,175,083 + RPSI07_RS22340 0.63 -1.3 3,175,084 - RPSI07_RS22340 0.63 -0.6 3,175,179 + RPSI07_RS22340 0.74 +0.3 3,175,179 + RPSI07_RS22340 0.74 -0.4 3,175,180 - RPSI07_RS22340 0.74 +1.0 3,175,180 - RPSI07_RS22340 0.74 +0.0 3,175,371 + -0.9 3,175,371 + -0.6 3,175,372 - +0.0 3,175,424 - +0.4 3,175,766 - RPSI07_RS22350 0.11 -0.9 3,175,973 - RPSI07_RS22350 0.45 -0.0 3,176,096 + RPSI07_RS22350 0.65 -1.0 3,176,170 + RPSI07_RS22350 0.77 -1.9 3,176,400 + RPSI07_RS22355 0.29 +0.4 3,176,680 + +1.0 3,176,680 + +1.0 3,176,680 + -0.5 3,176,681 - -0.1 3,176,681 - +0.8 3,176,681 - -0.2
Or see this region's nucleotide sequence