Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS12660

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_RS12650 and RPSI07_RS12655 overlap by 4 nucleotidesRPSI07_RS12655 and RPSI07_RS12660 are separated by 6 nucleotidesRPSI07_RS12660 and RPSI07_RS12665 are separated by 162 nucleotidesRPSI07_RS12665 and RPSI07_RS12670 are separated by 13 nucleotidesRPSI07_RS12670 and RPSI07_RS12675 are separated by 173 nucleotides RPSI07_RS12650: RPSI07_RS12650 - quinolinate synthase NadA, at 1,029,662 to 1,030,810 _RS12650 RPSI07_RS12655: RPSI07_RS12655 - nicotinate-nucleotide diphosphorylase (carboxylating), at 1,030,807 to 1,031,694 _RS12655 RPSI07_RS12660: RPSI07_RS12660 - L-aspartate oxidase, at 1,031,701 to 1,033,302 _RS12660 RPSI07_RS12665: RPSI07_RS12665 - 50S ribosomal protein L33, at 1,033,465 to 1,033,635 _RS12665 RPSI07_RS12670: RPSI07_RS12670 - 50S ribosomal protein L28, at 1,033,649 to 1,033,882 _RS12670 RPSI07_RS12675: RPSI07_RS12675 - JAB domain-containing protein, at 1,034,056 to 1,034,730 _RS12675 Position (kb) 1031 1032 1033 1034Strain fitness (log2 ratio) -2 -1 0 1 2at 1030.708 kb on + strandat 1030.708 kb on + strandat 1030.709 kb on - strandat 1031.290 kb on + strand, within RPSI07_RS12655at 1031.290 kb on + strand, within RPSI07_RS12655at 1031.290 kb on + strand, within RPSI07_RS12655at 1031.291 kb on - strand, within RPSI07_RS12655at 1031.291 kb on - strand, within RPSI07_RS12655at 1031.291 kb on - strand, within RPSI07_RS12655at 1031.336 kb on - strand, within RPSI07_RS12655at 1031.671 kb on + strandat 1031.672 kb on - strandat 1031.672 kb on - strandat 1031.692 kb on + strandat 1031.692 kb on + strandat 1031.693 kb on - strandat 1031.775 kb on - strandat 1031.897 kb on + strand, within RPSI07_RS12660at 1031.897 kb on + strand, within RPSI07_RS12660at 1031.898 kb on - strand, within RPSI07_RS12660at 1031.964 kb on + strand, within RPSI07_RS12660at 1031.981 kb on + strand, within RPSI07_RS12660at 1031.981 kb on + strand, within RPSI07_RS12660at 1031.982 kb on - strand, within RPSI07_RS12660at 1031.982 kb on - strand, within RPSI07_RS12660at 1031.982 kb on - strand, within RPSI07_RS12660at 1032.197 kb on + strand, within RPSI07_RS12660at 1032.197 kb on + strand, within RPSI07_RS12660at 1032.197 kb on + strand, within RPSI07_RS12660at 1032.218 kb on + strand, within RPSI07_RS12660at 1032.275 kb on + strand, within RPSI07_RS12660at 1032.275 kb on + strand, within RPSI07_RS12660at 1032.275 kb on + strand, within RPSI07_RS12660at 1032.275 kb on + strand, within RPSI07_RS12660at 1032.275 kb on + strand, within RPSI07_RS12660at 1032.276 kb on - strand, within RPSI07_RS12660at 1032.276 kb on - strand, within RPSI07_RS12660at 1032.401 kb on + strand, within RPSI07_RS12660at 1032.401 kb on + strand, within RPSI07_RS12660at 1032.401 kb on + strand, within RPSI07_RS12660at 1032.402 kb on - strand, within RPSI07_RS12660at 1032.402 kb on - strand, within RPSI07_RS12660at 1032.584 kb on + strand, within RPSI07_RS12660at 1032.692 kb on + strand, within RPSI07_RS12660at 1032.692 kb on + strand, within RPSI07_RS12660at 1032.693 kb on - strand, within RPSI07_RS12660at 1032.693 kb on - strand, within RPSI07_RS12660at 1032.698 kb on + strand, within RPSI07_RS12660at 1032.699 kb on - strand, within RPSI07_RS12660at 1032.782 kb on + strand, within RPSI07_RS12660at 1032.783 kb on - strand, within RPSI07_RS12660at 1032.783 kb on - strand, within RPSI07_RS12660at 1032.883 kb on + strand, within RPSI07_RS12660at 1032.884 kb on - strand, within RPSI07_RS12660at 1033.376 kb on + strandat 1033.376 kb on + strandat 1033.376 kb on + strandat 1033.376 kb on + strandat 1033.377 kb on - strandat 1033.467 kb on - strandat 1033.487 kb on + strand, within RPSI07_RS12665at 1033.647 kb on - strandat 1033.650 kb on + strandat 1034.058 kb on - strandat 1034.095 kb on - strandat 1034.095 kb on - strandat 1034.243 kb on + strand, within RPSI07_RS12675at 1034.243 kb on + strand, within RPSI07_RS12675at 1034.243 kb on + strand, within RPSI07_RS12675at 1034.244 kb on - strand, within RPSI07_RS12675

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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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1,030,708 + +0.3
1,030,708 + +0.4
1,030,709 - -0.1
1,031,290 + RPSI07_RS12655 0.54 +1.0
1,031,290 + RPSI07_RS12655 0.54 -0.6
1,031,290 + RPSI07_RS12655 0.54 -0.8
1,031,291 - RPSI07_RS12655 0.55 -1.1
1,031,291 - RPSI07_RS12655 0.55 -0.2
1,031,291 - RPSI07_RS12655 0.55 -1.2
1,031,336 - RPSI07_RS12655 0.60 -0.4
1,031,671 + -1.3
1,031,672 - -0.5
1,031,672 - +0.4
1,031,692 + -0.5
1,031,692 + +0.7
1,031,693 - +0.0
1,031,775 - +1.0
1,031,897 + RPSI07_RS12660 0.12 +1.0
1,031,897 + RPSI07_RS12660 0.12 +0.1
1,031,898 - RPSI07_RS12660 0.12 +0.0
1,031,964 + RPSI07_RS12660 0.16 +2.0
1,031,981 + RPSI07_RS12660 0.17 -0.6
1,031,981 + RPSI07_RS12660 0.17 +1.3
1,031,982 - RPSI07_RS12660 0.18 -0.2
1,031,982 - RPSI07_RS12660 0.18 -0.4
1,031,982 - RPSI07_RS12660 0.18 -1.1
1,032,197 + RPSI07_RS12660 0.31 +1.0
1,032,197 + RPSI07_RS12660 0.31 +1.0
1,032,197 + RPSI07_RS12660 0.31 +1.0
1,032,218 + RPSI07_RS12660 0.32 +0.7
1,032,275 + RPSI07_RS12660 0.36 +0.0
1,032,275 + RPSI07_RS12660 0.36 -0.6
1,032,275 + RPSI07_RS12660 0.36 +0.1
1,032,275 + RPSI07_RS12660 0.36 -0.9
1,032,275 + RPSI07_RS12660 0.36 +0.2
1,032,276 - RPSI07_RS12660 0.36 -0.2
1,032,276 - RPSI07_RS12660 0.36 -0.3
1,032,401 + RPSI07_RS12660 0.44 +0.4
1,032,401 + RPSI07_RS12660 0.44 +0.3
1,032,401 + RPSI07_RS12660 0.44 -1.3
1,032,402 - RPSI07_RS12660 0.44 +0.5
1,032,402 - RPSI07_RS12660 0.44 +1.0
1,032,584 + RPSI07_RS12660 0.55 -0.5
1,032,692 + RPSI07_RS12660 0.62 -1.0
1,032,692 + RPSI07_RS12660 0.62 -0.5
1,032,693 - RPSI07_RS12660 0.62 +0.6
1,032,693 - RPSI07_RS12660 0.62 +0.1
1,032,698 + RPSI07_RS12660 0.62 -0.4
1,032,699 - RPSI07_RS12660 0.62 -1.4
1,032,782 + RPSI07_RS12660 0.67 +0.3
1,032,783 - RPSI07_RS12660 0.68 -0.5
1,032,783 - RPSI07_RS12660 0.68 +1.0
1,032,883 + RPSI07_RS12660 0.74 +0.2
1,032,884 - RPSI07_RS12660 0.74 -0.3
1,033,376 + -1.8
1,033,376 + -0.6
1,033,376 + -2.3
1,033,376 + +1.0
1,033,377 - -0.2
1,033,467 - +1.6
1,033,487 + RPSI07_RS12665 0.13 +1.0
1,033,647 - +1.0
1,033,650 + -0.6
1,034,058 - -0.2
1,034,095 - -0.0
1,034,095 - +0.5
1,034,243 + RPSI07_RS12675 0.28 -0.5
1,034,243 + RPSI07_RS12675 0.28 -0.5
1,034,243 + RPSI07_RS12675 0.28 -0.7
1,034,244 - RPSI07_RS12675 0.28 +0.2

Or see this region's nucleotide sequence