Strain Fitness in Shewanella oneidensis MR-1 around SO0949

Experiment: casaminos (C)

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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 ntSO0948 and brnQ are separated by 611 nucleotidesbrnQ and xerD are separated by 80 nucleotides SO0948: SO0948 - conserved hypothetical protein (NCBI ptt file), at 983,738 to 984,400 SO0948 SO0949: brnQ - branched-chain amino acid transport system II carrier protein BrnQ (NCBI ptt file), at 985,012 to 986,400 brnQ SO0950: xerD - integrase/recombinase XerD (NCBI ptt file), at 986,481 to 987,383 xerD Position (kb) 985 986 987Strain fitness (log2 ratio) -2 -1 0 1at 984.013 kb on - strand, within SO0948at 984.045 kb on + strand, within SO0948at 984.181 kb on + strand, within SO0948at 984.181 kb on + strand, within SO0948at 984.189 kb on - strand, within SO0948at 984.189 kb on - strand, within SO0948at 984.195 kb on - strand, within SO0948at 984.195 kb on - strand, within SO0948at 984.210 kb on - strand, within SO0948at 984.229 kb on - strand, within SO0948at 984.243 kb on + strand, within SO0948at 984.259 kb on + strand, within SO0948at 984.274 kb on + strand, within SO0948at 984.279 kb on + strand, within SO0948at 984.282 kb on - strand, within SO0948at 984.287 kb on - strand, within SO0948at 984.319 kb on - strand, within SO0948at 984.345 kb on + strandat 984.345 kb on + strandat 984.345 kb on + strandat 984.345 kb on + strandat 984.345 kb on + strandat 984.353 kb on - strandat 984.353 kb on - strandat 984.355 kb on + strandat 984.391 kb on - strandat 984.395 kb on - strandat 984.415 kb on - strandat 984.430 kb on + strandat 984.438 kb on - strandat 984.455 kb on - strandat 984.629 kb on - strandat 985.153 kb on + strand, within brnQat 985.161 kb on - strand, within brnQat 985.167 kb on - strand, within brnQat 985.202 kb on - strand, within brnQat 985.202 kb on - strand, within brnQat 985.203 kb on - strand, within brnQat 985.206 kb on + strand, within brnQat 985.297 kb on + strand, within brnQat 985.327 kb on - strand, within brnQat 985.329 kb on - strand, within brnQat 985.329 kb on - strand, within brnQat 985.478 kb on + strand, within brnQat 985.619 kb on + strand, within brnQat 985.627 kb on + strand, within brnQat 985.627 kb on + strand, within brnQat 985.627 kb on + strand, within brnQat 985.727 kb on - strand, within brnQat 985.730 kb on + strand, within brnQat 985.912 kb on + strand, within brnQat 986.149 kb on - strand, within brnQat 986.184 kb on + strand, within brnQat 986.205 kb on + strand, within brnQat 986.333 kb on + strandat 986.333 kb on + strandat 986.341 kb on - strandat 986.341 kb on - strandat 986.341 kb on - strandat 986.341 kb on - strandat 986.400 kb on + strandat 986.541 kb on + strandat 986.555 kb on - strandat 986.561 kb on + strandat 986.614 kb on + strand, within xerDat 986.622 kb on - strand, within xerDat 986.622 kb on - strand, within xerDat 986.704 kb on - strand, within xerDat 986.704 kb on - strand, within xerDat 986.762 kb on + strand, within xerDat 986.794 kb on + strand, within xerDat 986.818 kb on - strand, within xerDat 986.841 kb on - strand, within xerDat 986.861 kb on + strand, within xerDat 986.875 kb on + strand, within xerDat 986.880 kb on + strand, within xerDat 986.880 kb on + strand, within xerDat 986.883 kb on - strand, within xerDat 986.883 kb on - strand, within xerDat 986.920 kb on + strand, within xerDat 986.925 kb on + strand, within xerDat 986.973 kb on - strand, within xerDat 986.983 kb on + strand, within xerDat 987.013 kb on - strand, within xerDat 987.049 kb on - strand, within xerDat 987.227 kb on - strand, within xerDat 987.284 kb on - strand, within xerDat 987.312 kb on + strandat 987.360 kb on - strandat 987.377 kb on + strandat 987.385 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction casaminos (C)
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984,013 - SO0948 0.41 +0.4
984,045 + SO0948 0.46 +1.2
984,181 + SO0948 0.67 -0.3
984,181 + SO0948 0.67 -0.5
984,189 - SO0948 0.68 +0.5
984,189 - SO0948 0.68 -1.5
984,195 - SO0948 0.69 +0.4
984,195 - SO0948 0.69 +0.6
984,210 - SO0948 0.71 +0.8
984,229 - SO0948 0.74 +0.2
984,243 + SO0948 0.76 -0.5
984,259 + SO0948 0.79 -0.4
984,274 + SO0948 0.81 -0.6
984,279 + SO0948 0.82 +0.4
984,282 - SO0948 0.82 -0.2
984,287 - SO0948 0.83 +0.5
984,319 - SO0948 0.88 +0.9
984,345 + +0.2
984,345 + -0.2
984,345 + -0.0
984,345 + +0.6
984,345 + -0.2
984,353 - -0.3
984,353 - -0.5
984,355 + -0.0
984,391 - +0.2
984,395 - -0.1
984,415 - -0.0
984,430 + +0.1
984,438 - +0.1
984,455 - +0.2
984,629 - +0.8
985,153 + brnQ SO0949 0.10 -0.5
985,161 - brnQ SO0949 0.11 -0.7
985,167 - brnQ SO0949 0.11 -0.8
985,202 - brnQ SO0949 0.14 -0.7
985,202 - brnQ SO0949 0.14 -0.8
985,203 - brnQ SO0949 0.14 -0.8
985,206 + brnQ SO0949 0.14 -0.5
985,297 + brnQ SO0949 0.21 -0.8
985,327 - brnQ SO0949 0.23 -0.0
985,329 - brnQ SO0949 0.23 -1.1
985,329 - brnQ SO0949 0.23 -0.9
985,478 + brnQ SO0949 0.34 -0.1
985,619 + brnQ SO0949 0.44 -0.3
985,627 + brnQ SO0949 0.44 -0.8
985,627 + brnQ SO0949 0.44 -1.3
985,627 + brnQ SO0949 0.44 -0.1
985,727 - brnQ SO0949 0.51 -1.0
985,730 + brnQ SO0949 0.52 -0.7
985,912 + brnQ SO0949 0.65 -0.8
986,149 - brnQ SO0949 0.82 -0.7
986,184 + brnQ SO0949 0.84 -0.9
986,205 + brnQ SO0949 0.86 -0.3
986,333 + -1.2
986,333 + -1.1
986,341 - -0.3
986,341 - +0.2
986,341 - -1.6
986,341 - -0.2
986,400 + +0.1
986,541 + -1.8
986,555 - -0.1
986,561 + +0.5
986,614 + xerD SO0950 0.15 -0.6
986,622 - xerD SO0950 0.16 -0.3
986,622 - xerD SO0950 0.16 -0.4
986,704 - xerD SO0950 0.25 -0.6
986,704 - xerD SO0950 0.25 -1.3
986,762 + xerD SO0950 0.31 -1.4
986,794 + xerD SO0950 0.35 +0.1
986,818 - xerD SO0950 0.37 -2.1
986,841 - xerD SO0950 0.40 -0.5
986,861 + xerD SO0950 0.42 -0.4
986,875 + xerD SO0950 0.44 -1.1
986,880 + xerD SO0950 0.44 -1.3
986,880 + xerD SO0950 0.44 -0.7
986,883 - xerD SO0950 0.45 -0.3
986,883 - xerD SO0950 0.45 -0.8
986,920 + xerD SO0950 0.49 -0.9
986,925 + xerD SO0950 0.49 -0.7
986,973 - xerD SO0950 0.54 -0.7
986,983 + xerD SO0950 0.56 -0.2
987,013 - xerD SO0950 0.59 -1.4
987,049 - xerD SO0950 0.63 +0.5
987,227 - xerD SO0950 0.83 -0.4
987,284 - xerD SO0950 0.89 -0.7
987,312 + -0.7
987,360 - -1.2
987,377 + -0.2
987,385 - +0.9

Or see this region's nucleotide sequence