Experiment: SMSA with Ralstonia_antibiotic_mix
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_RS08695 and RPSI07_RS08700 are separated by 16 nucleotides RPSI07_RS08700 and RPSI07_RS08705 are separated by 289 nucleotides RPSI07_RS08705 and RPSI07_RS08710 are separated by 119 nucleotides RPSI07_RS08710 and RPSI07_RS08715 are separated by 275 nucleotides
RPSI07_RS08695: RPSI07_RS08695 - peptidase M20, at 187,722 to 188,996
_RS08695
RPSI07_RS08700: RPSI07_RS08700 - hypothetical protein, at 189,013 to 189,480
_RS08700
RPSI07_RS08705: RPSI07_RS08705 - arsenate reductase (glutaredoxin), at 189,770 to 190,126
_RS08705
RPSI07_RS08710: RPSI07_RS08710 - hypothetical protein, at 190,246 to 190,515
_RS08710
RPSI07_RS08715: RPSI07_RS08715 - exonuclease, at 190,791 to 191,486
_RS08715
Position (kb) 189
190
191 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 188.820 kb on + strand, within RPSI07_RS08695 at 188.820 kb on + strand, within RPSI07_RS08695 at 188.821 kb on - strand, within RPSI07_RS08695 at 188.838 kb on + strand, within RPSI07_RS08695 at 188.839 kb on - strand, within RPSI07_RS08695 at 188.839 kb on - strand, within RPSI07_RS08695 at 188.839 kb on - strand, within RPSI07_RS08695 at 188.868 kb on + strand, within RPSI07_RS08695 at 188.869 kb on - strand at 189.066 kb on - strand, within RPSI07_RS08700 at 189.066 kb on - strand, within RPSI07_RS08700 at 189.066 kb on - strand, within RPSI07_RS08700 at 189.537 kb on + strand at 189.537 kb on + strand at 189.537 kb on + strand at 189.537 kb on + strand at 189.538 kb on - strand at 189.538 kb on - strand at 189.538 kb on - strand at 189.538 kb on - strand at 189.779 kb on + strand at 189.779 kb on + strand at 189.779 kb on + strand at 189.779 kb on + strand at 189.780 kb on - strand at 189.872 kb on + strand, within RPSI07_RS08705 at 189.873 kb on - strand, within RPSI07_RS08705 at 189.968 kb on + strand, within RPSI07_RS08705 at 189.969 kb on - strand, within RPSI07_RS08705 at 190.124 kb on + strand at 190.124 kb on + strand at 190.125 kb on - strand at 190.488 kb on + strand, within RPSI07_RS08710 at 190.488 kb on + strand, within RPSI07_RS08710 at 190.489 kb on - strand at 190.521 kb on + strand at 190.522 kb on - strand at 190.522 kb on - strand at 190.522 kb on - strand at 190.574 kb on + strand at 190.575 kb on - strand at 190.575 kb on - strand at 190.575 kb on - strand at 190.577 kb on - strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.612 kb on + strand at 190.613 kb on - strand at 190.613 kb on - strand at 190.613 kb on - strand at 190.613 kb on - strand at 190.613 kb on - strand at 190.613 kb on - strand at 190.613 kb on - strand at 190.680 kb on + strand at 190.680 kb on + strand at 190.680 kb on + strand at 190.680 kb on + strand at 190.680 kb on + strand at 190.681 kb on - strand at 190.910 kb on + strand, within RPSI07_RS08715 at 190.910 kb on + strand, within RPSI07_RS08715 at 190.911 kb on - strand, within RPSI07_RS08715 at 191.056 kb on + strand, within RPSI07_RS08715 at 191.059 kb on + strand, within RPSI07_RS08715 at 191.060 kb on - strand, within RPSI07_RS08715
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 188,820 + RPSI07_RS08695 0.86 -0.5 188,820 + RPSI07_RS08695 0.86 -0.4 188,821 - RPSI07_RS08695 0.86 -1.3 188,838 + RPSI07_RS08695 0.88 -1.9 188,839 - RPSI07_RS08695 0.88 +0.7 188,839 - RPSI07_RS08695 0.88 -2.9 188,839 - RPSI07_RS08695 0.88 -0.4 188,868 + RPSI07_RS08695 0.90 -0.3 188,869 - -0.2 189,066 - RPSI07_RS08700 0.11 -0.6 189,066 - RPSI07_RS08700 0.11 +2.9 189,066 - RPSI07_RS08700 0.11 +0.0 189,537 + +0.9 189,537 + -0.3 189,537 + -1.0 189,537 + -0.5 189,538 - -1.9 189,538 - +0.7 189,538 - -1.1 189,538 - -1.1 189,779 + +0.5 189,779 + -0.8 189,779 + -0.5 189,779 + -2.4 189,780 - -0.7 189,872 + RPSI07_RS08705 0.29 -1.0 189,873 - RPSI07_RS08705 0.29 +0.1 189,968 + RPSI07_RS08705 0.55 -0.5 189,969 - RPSI07_RS08705 0.56 +0.3 190,124 + -0.6 190,124 + -0.8 190,125 - +2.3 190,488 + RPSI07_RS08710 0.90 -0.5 190,488 + RPSI07_RS08710 0.90 -0.6 190,489 - -0.4 190,521 + +2.0 190,522 - -0.5 190,522 - -0.3 190,522 - -0.7 190,574 + -0.4 190,575 - -1.2 190,575 - -1.0 190,575 - -0.5 190,577 - +0.4 190,612 + -1.1 190,612 + +0.6 190,612 + -1.7 190,612 + +0.3 190,612 + -2.5 190,612 + +0.1 190,612 + -0.2 190,612 + +0.5 190,613 - -0.5 190,613 - +1.0 190,613 - -0.1 190,613 - -1.6 190,613 - -1.7 190,613 - -0.3 190,613 - +1.3 190,680 + +0.1 190,680 + +0.3 190,680 + +0.2 190,680 + -0.6 190,680 + +1.6 190,681 - +0.5 190,910 + RPSI07_RS08715 0.17 -1.3 190,910 + RPSI07_RS08715 0.17 +1.5 190,911 - RPSI07_RS08715 0.17 +0.3 191,056 + RPSI07_RS08715 0.38 +1.3 191,059 + RPSI07_RS08715 0.39 +0.5 191,060 - RPSI07_RS08715 0.39 +0.2
Or see this region's nucleotide sequence