Strain Fitness in Shewanella oneidensis MR-1 around SO0960

Experiment: Paraquat dichloride 0.125 mg/ml

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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 ntpepA-1 and SO0960 are separated by 89 nucleotidesSO0960 and SO0961 are separated by 183 nucleotidesSO0961 and SO0962 are separated by 245 nucleotides SO0959: pepA-1 - cytosol aminopeptidase (NCBI ptt file), at 993,944 to 995,479 pepA-1 SO0960: SO0960 - hypothetical spermidine synthase (NCBI ptt file), at 995,569 to 996,312 SO0960 SO0961: SO0961 - conserved hypothetical protein (NCBI ptt file), at 996,496 to 996,948 SO0961 SO0962: SO0962 - conserved hypothetical protein (NCBI ptt file), at 997,194 to 997,718 SO0962 Position (kb) 995 996 997Strain fitness (log2 ratio) -1 0 1at 994.590 kb on + strand, within pepA-1at 994.603 kb on + strand, within pepA-1at 994.649 kb on + strand, within pepA-1at 994.657 kb on - strand, within pepA-1at 994.657 kb on - strand, within pepA-1at 994.703 kb on - strand, within pepA-1at 994.762 kb on + strand, within pepA-1at 994.770 kb on - strand, within pepA-1at 994.809 kb on - strand, within pepA-1at 994.844 kb on + strand, within pepA-1at 994.872 kb on + strand, within pepA-1at 995.019 kb on - strand, within pepA-1at 995.034 kb on - strand, within pepA-1at 995.034 kb on - strand, within pepA-1at 995.044 kb on + strand, within pepA-1at 995.044 kb on + strand, within pepA-1at 995.047 kb on - strand, within pepA-1at 995.052 kb on - strand, within pepA-1at 995.054 kb on + strand, within pepA-1at 995.132 kb on + strand, within pepA-1at 995.224 kb on + strand, within pepA-1at 995.232 kb on - strand, within pepA-1at 995.338 kb on + strandat 995.338 kb on + strandat 995.346 kb on + strandat 995.354 kb on - strandat 995.356 kb on + strandat 995.356 kb on + strandat 995.356 kb on + strandat 995.356 kb on + strandat 995.356 kb on + strandat 995.356 kb on + strandat 995.364 kb on - strandat 995.364 kb on - strandat 995.364 kb on - strandat 995.424 kb on + strandat 995.425 kb on + strandat 995.432 kb on - strandat 995.435 kb on + strandat 995.435 kb on + strandat 995.443 kb on - strandat 995.443 kb on - strandat 995.500 kb on - strandat 995.500 kb on - strandat 995.504 kb on + strandat 995.512 kb on - strandat 995.526 kb on + strandat 995.526 kb on + strandat 995.526 kb on + strandat 995.534 kb on - strandat 995.534 kb on - strandat 995.534 kb on - strandat 995.534 kb on - strandat 995.549 kb on - strandat 995.632 kb on + strandat 995.701 kb on + strand, within SO0960at 995.709 kb on - strand, within SO0960at 995.859 kb on + strand, within SO0960at 995.875 kb on - strand, within SO0960at 995.875 kb on - strand, within SO0960at 995.887 kb on + strand, within SO0960at 995.999 kb on + strand, within SO0960at 996.072 kb on + strand, within SO0960at 996.072 kb on + strand, within SO0960at 996.080 kb on - strand, within SO0960at 996.100 kb on + strand, within SO0960at 996.116 kb on + strand, within SO0960at 996.116 kb on + strand, within SO0960at 996.154 kb on - strand, within SO0960at 996.156 kb on + strand, within SO0960at 996.159 kb on + strand, within SO0960at 996.164 kb on - strand, within SO0960at 996.164 kb on - strand, within SO0960at 996.164 kb on - strand, within SO0960at 996.227 kb on - strand, within SO0960at 996.245 kb on + strandat 996.267 kb on + strandat 996.275 kb on - strandat 996.362 kb on - strandat 996.464 kb on + strandat 996.471 kb on - strandat 996.472 kb on - strandat 996.504 kb on + strandat 996.504 kb on + strandat 996.504 kb on + strandat 996.507 kb on - strandat 996.512 kb on - strandat 996.512 kb on - strandat 996.512 kb on - strandat 996.512 kb on - strandat 996.512 kb on - strandat 996.572 kb on + strand, within SO0961at 996.587 kb on + strand, within SO0961at 996.595 kb on - strand, within SO0961at 996.602 kb on + strand, within SO0961at 996.650 kb on - strand, within SO0961at 996.668 kb on + strand, within SO0961at 996.676 kb on - strand, within SO0961at 996.676 kb on - strand, within SO0961at 996.731 kb on - strand, within SO0961at 996.731 kb on - strand, within SO0961at 996.733 kb on - strand, within SO0961at 996.758 kb on - strand, within SO0961at 996.765 kb on - strand, within SO0961at 996.824 kb on - strand, within SO0961at 996.979 kb on - strandat 997.141 kb on - strandat 997.164 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Paraquat dichloride 0.125 mg/ml
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994,590 + pepA-1 SO0959 0.42 +0.2
994,603 + pepA-1 SO0959 0.43 -1.1
994,649 + pepA-1 SO0959 0.46 -0.4
994,657 - pepA-1 SO0959 0.46 +0.3
994,657 - pepA-1 SO0959 0.46 +0.4
994,703 - pepA-1 SO0959 0.49 +0.2
994,762 + pepA-1 SO0959 0.53 -0.2
994,770 - pepA-1 SO0959 0.54 +0.0
994,809 - pepA-1 SO0959 0.56 +0.8
994,844 + pepA-1 SO0959 0.59 +0.5
994,872 + pepA-1 SO0959 0.60 +0.6
995,019 - pepA-1 SO0959 0.70 -0.3
995,034 - pepA-1 SO0959 0.71 -0.3
995,034 - pepA-1 SO0959 0.71 +0.2
995,044 + pepA-1 SO0959 0.72 +0.1
995,044 + pepA-1 SO0959 0.72 -0.1
995,047 - pepA-1 SO0959 0.72 +0.0
995,052 - pepA-1 SO0959 0.72 +0.1
995,054 + pepA-1 SO0959 0.72 -0.0
995,132 + pepA-1 SO0959 0.77 -0.3
995,224 + pepA-1 SO0959 0.83 +0.2
995,232 - pepA-1 SO0959 0.84 +0.5
995,338 + -1.1
995,338 + +0.4
995,346 + -0.2
995,354 - -0.1
995,356 + +1.3
995,356 + -0.2
995,356 + +0.1
995,356 + +0.1
995,356 + +0.5
995,356 + +0.2
995,364 - -0.6
995,364 - +0.2
995,364 - -0.3
995,424 + -0.7
995,425 + +0.0
995,432 - -0.2
995,435 + +0.3
995,435 + -0.1
995,443 - +0.6
995,443 - -0.1
995,500 - -1.0
995,500 - +0.9
995,504 + -0.1
995,512 - -0.1
995,526 + +0.2
995,526 + +0.4
995,526 + +0.2
995,534 - -0.6
995,534 - +0.7
995,534 - -0.1
995,534 - +0.0
995,549 - +0.1
995,632 + +0.4
995,701 + SO0960 0.18 +0.5
995,709 - SO0960 0.19 -0.3
995,859 + SO0960 0.39 -1.4
995,875 - SO0960 0.41 +0.1
995,875 - SO0960 0.41 +0.1
995,887 + SO0960 0.43 -0.2
995,999 + SO0960 0.58 +0.9
996,072 + SO0960 0.68 -0.1
996,072 + SO0960 0.68 -0.7
996,080 - SO0960 0.69 -0.3
996,100 + SO0960 0.71 +0.0
996,116 + SO0960 0.74 +0.2
996,116 + SO0960 0.74 +0.0
996,154 - SO0960 0.79 +0.2
996,156 + SO0960 0.79 +1.6
996,159 + SO0960 0.79 +1.1
996,164 - SO0960 0.80 -1.0
996,164 - SO0960 0.80 -0.3
996,164 - SO0960 0.80 +1.0
996,227 - SO0960 0.88 +0.5
996,245 + -0.2
996,267 + +0.4
996,275 - +0.1
996,362 - +0.2
996,464 + -1.5
996,471 - +0.0
996,472 - -0.0
996,504 + -0.1
996,504 + -0.1
996,504 + +0.7
996,507 - +0.0
996,512 - +0.3
996,512 - +0.0
996,512 - +0.0
996,512 - -0.6
996,512 - -0.0
996,572 + SO0961 0.17 -0.0
996,587 + SO0961 0.20 -1.0
996,595 - SO0961 0.22 +0.4
996,602 + SO0961 0.23 +0.3
996,650 - SO0961 0.34 +0.9
996,668 + SO0961 0.38 +0.1
996,676 - SO0961 0.40 +0.2
996,676 - SO0961 0.40 +0.2
996,731 - SO0961 0.52 +1.0
996,731 - SO0961 0.52 +0.4
996,733 - SO0961 0.52 -0.3
996,758 - SO0961 0.58 +0.6
996,765 - SO0961 0.59 +0.3
996,824 - SO0961 0.72 -0.2
996,979 - -0.3
997,141 - -0.1
997,164 + +0.1

Or see this region's nucleotide sequence