Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS13930

Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet

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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.

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500 ntRPSI07_RS13925 and RPSI07_RS13930 are separated by 3 nucleotidesRPSI07_RS13930 and RPSI07_RS13935 are separated by 3 nucleotidesRPSI07_RS13935 and RPSI07_RS13940 overlap by 14 nucleotidesRPSI07_RS13940 and RPSI07_RS13945 overlap by 7 nucleotides RPSI07_RS13925: RPSI07_RS13925 - type II secretion system F family protein, at 1,305,548 to 1,306,741 _RS13925 RPSI07_RS13930: RPSI07_RS13930 - type II secretion system protein GspG, at 1,306,745 to 1,307,179 _RS13930 RPSI07_RS13935: RPSI07_RS13935 - type II secretion system protein, at 1,307,183 to 1,307,647 _RS13935 RPSI07_RS13940: RPSI07_RS13940 - prepilin-type N-terminal cleavage/methylation domain-containing protein, at 1,307,634 to 1,308,020 _RS13940 RPSI07_RS13945: RPSI07_RS13945 - type II secretion system protein, at 1,308,014 to 1,308,490 _RS13945 Position (kb) 1306 1307 1308Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5 6at 1305.906 kb on + strand, within RPSI07_RS13925at 1305.986 kb on + strand, within RPSI07_RS13925at 1305.987 kb on - strand, within RPSI07_RS13925at 1306.164 kb on + strand, within RPSI07_RS13925at 1306.165 kb on - strand, within RPSI07_RS13925at 1306.191 kb on + strand, within RPSI07_RS13925at 1306.191 kb on + strand, within RPSI07_RS13925at 1306.191 kb on + strand, within RPSI07_RS13925at 1306.191 kb on + strand, within RPSI07_RS13925at 1306.192 kb on - strand, within RPSI07_RS13925at 1306.192 kb on - strand, within RPSI07_RS13925at 1306.209 kb on - strand, within RPSI07_RS13925at 1306.209 kb on - strand, within RPSI07_RS13925at 1306.305 kb on + strand, within RPSI07_RS13925at 1306.438 kb on - strand, within RPSI07_RS13925at 1306.450 kb on - strand, within RPSI07_RS13925at 1306.801 kb on - strand, within RPSI07_RS13930at 1306.815 kb on + strand, within RPSI07_RS13930at 1306.877 kb on + strand, within RPSI07_RS13930at 1306.894 kb on - strand, within RPSI07_RS13930at 1307.064 kb on + strand, within RPSI07_RS13930at 1307.079 kb on + strand, within RPSI07_RS13930at 1307.080 kb on - strand, within RPSI07_RS13930at 1307.132 kb on - strand, within RPSI07_RS13930at 1307.223 kb on + strandat 1307.224 kb on - strandat 1307.265 kb on + strand, within RPSI07_RS13935at 1307.298 kb on + strand, within RPSI07_RS13935at 1307.299 kb on - strand, within RPSI07_RS13935at 1307.299 kb on - strand, within RPSI07_RS13935at 1307.299 kb on - strand, within RPSI07_RS13935at 1307.469 kb on + strand, within RPSI07_RS13935at 1307.469 kb on + strand, within RPSI07_RS13935at 1307.470 kb on - strand, within RPSI07_RS13935at 1307.470 kb on - strand, within RPSI07_RS13935at 1307.472 kb on + strand, within RPSI07_RS13935at 1307.472 kb on + strand, within RPSI07_RS13935at 1307.472 kb on + strand, within RPSI07_RS13935at 1307.473 kb on + strand, within RPSI07_RS13935at 1307.473 kb on - strand, within RPSI07_RS13935at 1307.473 kb on - strand, within RPSI07_RS13935at 1307.475 kb on + strand, within RPSI07_RS13935at 1307.475 kb on + strand, within RPSI07_RS13935at 1307.475 kb on + strand, within RPSI07_RS13935at 1307.475 kb on + strand, within RPSI07_RS13935at 1307.475 kb on + strand, within RPSI07_RS13935at 1307.476 kb on - strand, within RPSI07_RS13935at 1307.476 kb on - strand, within RPSI07_RS13935at 1307.476 kb on - strand, within RPSI07_RS13935at 1307.589 kb on - strand, within RPSI07_RS13935at 1307.616 kb on + strandat 1307.647 kb on + strandat 1307.647 kb on + strandat 1307.647 kb on + strandat 1307.782 kb on + strand, within RPSI07_RS13940at 1307.782 kb on + strand, within RPSI07_RS13940at 1307.837 kb on - strand, within RPSI07_RS13940at 1307.837 kb on - strand, within RPSI07_RS13940at 1307.839 kb on + strand, within RPSI07_RS13940at 1307.839 kb on + strand, within RPSI07_RS13940at 1307.839 kb on + strand, within RPSI07_RS13940at 1307.839 kb on + strand, within RPSI07_RS13940at 1307.840 kb on - strand, within RPSI07_RS13940at 1307.840 kb on - strand, within RPSI07_RS13940at 1307.840 kb on - strand, within RPSI07_RS13940at 1307.840 kb on - strand, within RPSI07_RS13940at 1307.918 kb on - strand, within RPSI07_RS13940at 1308.027 kb on + strandat 1308.027 kb on + strandat 1308.028 kb on - strandat 1308.075 kb on + strand, within RPSI07_RS13945at 1308.075 kb on + strand, within RPSI07_RS13945at 1308.075 kb on + strand, within RPSI07_RS13945at 1308.075 kb on + strand, within RPSI07_RS13945at 1308.075 kb on + strand, within RPSI07_RS13945at 1308.075 kb on + strand, within RPSI07_RS13945at 1308.117 kb on + strand, within RPSI07_RS13945at 1308.118 kb on - strand, within RPSI07_RS13945

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Per-strain Table

Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet
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1,305,906 + RPSI07_RS13925 0.30 -0.1
1,305,986 + RPSI07_RS13925 0.37 +0.8
1,305,987 - RPSI07_RS13925 0.37 +0.9
1,306,164 + RPSI07_RS13925 0.52 +0.1
1,306,165 - RPSI07_RS13925 0.52 -0.3
1,306,191 + RPSI07_RS13925 0.54 -0.5
1,306,191 + RPSI07_RS13925 0.54 -2.0
1,306,191 + RPSI07_RS13925 0.54 -2.3
1,306,191 + RPSI07_RS13925 0.54 +0.3
1,306,192 - RPSI07_RS13925 0.54 +2.0
1,306,192 - RPSI07_RS13925 0.54 -0.7
1,306,209 - RPSI07_RS13925 0.55 +0.0
1,306,209 - RPSI07_RS13925 0.55 -0.4
1,306,305 + RPSI07_RS13925 0.63 +0.2
1,306,438 - RPSI07_RS13925 0.75 -0.9
1,306,450 - RPSI07_RS13925 0.76 +0.2
1,306,801 - RPSI07_RS13930 0.13 -0.6
1,306,815 + RPSI07_RS13930 0.16 +0.6
1,306,877 + RPSI07_RS13930 0.30 -1.3
1,306,894 - RPSI07_RS13930 0.34 -0.0
1,307,064 + RPSI07_RS13930 0.73 +2.2
1,307,079 + RPSI07_RS13930 0.77 +1.9
1,307,080 - RPSI07_RS13930 0.77 -1.1
1,307,132 - RPSI07_RS13930 0.89 -0.4
1,307,223 + -0.3
1,307,224 - -0.1
1,307,265 + RPSI07_RS13935 0.18 +5.8
1,307,298 + RPSI07_RS13935 0.25 -0.4
1,307,299 - RPSI07_RS13935 0.25 +0.4
1,307,299 - RPSI07_RS13935 0.25 +0.1
1,307,299 - RPSI07_RS13935 0.25 -0.1
1,307,469 + RPSI07_RS13935 0.62 +0.5
1,307,469 + RPSI07_RS13935 0.62 +0.4
1,307,470 - RPSI07_RS13935 0.62 -0.3
1,307,470 - RPSI07_RS13935 0.62 +0.9
1,307,472 + RPSI07_RS13935 0.62 -1.1
1,307,472 + RPSI07_RS13935 0.62 +0.8
1,307,472 + RPSI07_RS13935 0.62 +2.2
1,307,473 + RPSI07_RS13935 0.62 -1.0
1,307,473 - RPSI07_RS13935 0.62 +0.1
1,307,473 - RPSI07_RS13935 0.62 +0.7
1,307,475 + RPSI07_RS13935 0.63 +0.6
1,307,475 + RPSI07_RS13935 0.63 +1.2
1,307,475 + RPSI07_RS13935 0.63 -1.0
1,307,475 + RPSI07_RS13935 0.63 +0.4
1,307,475 + RPSI07_RS13935 0.63 +0.6
1,307,476 - RPSI07_RS13935 0.63 +0.2
1,307,476 - RPSI07_RS13935 0.63 -1.6
1,307,476 - RPSI07_RS13935 0.63 -0.4
1,307,589 - RPSI07_RS13935 0.87 -1.0
1,307,616 + -0.2
1,307,647 + -0.3
1,307,647 + +0.9
1,307,647 + +0.0
1,307,782 + RPSI07_RS13940 0.38 +0.2
1,307,782 + RPSI07_RS13940 0.38 -1.4
1,307,837 - RPSI07_RS13940 0.52 +0.9
1,307,837 - RPSI07_RS13940 0.52 +0.1
1,307,839 + RPSI07_RS13940 0.53 +0.6
1,307,839 + RPSI07_RS13940 0.53 +0.9
1,307,839 + RPSI07_RS13940 0.53 -0.8
1,307,839 + RPSI07_RS13940 0.53 -3.3
1,307,840 - RPSI07_RS13940 0.53 -0.3
1,307,840 - RPSI07_RS13940 0.53 -0.9
1,307,840 - RPSI07_RS13940 0.53 -1.3
1,307,840 - RPSI07_RS13940 0.53 -1.1
1,307,918 - RPSI07_RS13940 0.73 +0.3
1,308,027 + +1.5
1,308,027 + +0.6
1,308,028 - +1.1
1,308,075 + RPSI07_RS13945 0.13 -0.8
1,308,075 + RPSI07_RS13945 0.13 -0.8
1,308,075 + RPSI07_RS13945 0.13 -0.4
1,308,075 + RPSI07_RS13945 0.13 +1.4
1,308,075 + RPSI07_RS13945 0.13 +1.7
1,308,075 + RPSI07_RS13945 0.13 +0.3
1,308,117 + RPSI07_RS13945 0.22 +1.3
1,308,118 - RPSI07_RS13945 0.22 +2.8

Or see this region's nucleotide sequence