Strain Fitness in Shewanella oneidensis MR-1 around SO0959

Experiment: LB

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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 ntahpC and pepA-1 are separated by 341 nucleotidespepA-1 and SO0960 are separated by 89 nucleotides SO0958: ahpC - alkyl hydroperoxide reductase, C subunit (NCBI ptt file), at 993,033 to 993,602 ahpC 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 Position (kb) 993 994 995 996Strain fitness (log2 ratio) -2 -1 0 1at 992.999 kb on + strandat 993.050 kb on + strandat 993.050 kb on + strandat 993.058 kb on - strandat 993.062 kb on + strandat 993.087 kb on + strandat 993.134 kb on - strand, within ahpCat 993.136 kb on + strand, within ahpCat 993.171 kb on + strand, within ahpCat 993.230 kb on - strand, within ahpCat 993.242 kb on + strand, within ahpCat 993.242 kb on + strand, within ahpCat 993.250 kb on - strand, within ahpCat 993.250 kb on - strand, within ahpCat 993.257 kb on - strand, within ahpCat 993.356 kb on - strand, within ahpCat 993.395 kb on + strand, within ahpCat 993.441 kb on + strand, within ahpCat 993.549 kb on - strandat 993.590 kb on - strandat 993.682 kb on - strandat 993.684 kb on - strandat 993.784 kb on + strandat 993.921 kb on - strandat 993.970 kb on + strandat 994.068 kb on + strandat 994.076 kb on - strandat 994.076 kb on - strandat 994.130 kb on + strand, within pepA-1at 994.234 kb on + strand, within pepA-1at 994.298 kb on - strand, within pepA-1at 994.391 kb on + strand, within pepA-1at 994.431 kb on - strand, within pepA-1at 994.559 kb on + strand, within pepA-1at 994.567 kb on - strand, within pepA-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 - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction LB
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992,999 + -0.7
993,050 + -0.5
993,050 + -1.0
993,058 - -0.7
993,062 + -0.4
993,087 + +0.9
993,134 - ahpC SO0958 0.18 -0.1
993,136 + ahpC SO0958 0.18 -0.5
993,171 + ahpC SO0958 0.24 -1.0
993,230 - ahpC SO0958 0.35 -0.4
993,242 + ahpC SO0958 0.37 -0.4
993,242 + ahpC SO0958 0.37 -0.1
993,250 - ahpC SO0958 0.38 +0.0
993,250 - ahpC SO0958 0.38 -0.1
993,257 - ahpC SO0958 0.39 -0.2
993,356 - ahpC SO0958 0.57 +0.2
993,395 + ahpC SO0958 0.64 -0.4
993,441 + ahpC SO0958 0.72 +0.6
993,549 - -0.3
993,590 - -0.3
993,682 - -1.3
993,684 - -0.6
993,784 + -2.4
993,921 - +1.4
993,970 + +1.2
994,068 + -0.1
994,076 - +0.6
994,076 - -0.5
994,130 + pepA-1 SO0959 0.12 +0.2
994,234 + pepA-1 SO0959 0.19 -0.8
994,298 - pepA-1 SO0959 0.23 +0.6
994,391 + pepA-1 SO0959 0.29 +0.7
994,431 - pepA-1 SO0959 0.32 -0.2
994,559 + pepA-1 SO0959 0.40 +0.1
994,567 - pepA-1 SO0959 0.41 +0.3
994,590 + pepA-1 SO0959 0.42 -0.4
994,603 + pepA-1 SO0959 0.43 +1.0
994,649 + pepA-1 SO0959 0.46 +0.8
994,657 - pepA-1 SO0959 0.46 +0.6
994,657 - pepA-1 SO0959 0.46 +0.4
994,703 - pepA-1 SO0959 0.49 +0.3
994,762 + pepA-1 SO0959 0.53 +0.3
994,770 - pepA-1 SO0959 0.54 -0.2
994,809 - pepA-1 SO0959 0.56 -0.7
994,844 + pepA-1 SO0959 0.59 -0.1
994,872 + pepA-1 SO0959 0.60 +0.3
995,019 - pepA-1 SO0959 0.70 +0.2
995,034 - pepA-1 SO0959 0.71 +0.4
995,034 - pepA-1 SO0959 0.71 -0.4
995,044 + pepA-1 SO0959 0.72 -0.0
995,044 + pepA-1 SO0959 0.72 +0.4
995,047 - pepA-1 SO0959 0.72 -0.6
995,052 - pepA-1 SO0959 0.72 -0.2
995,054 + pepA-1 SO0959 0.72 -0.6
995,132 + pepA-1 SO0959 0.77 +0.1
995,224 + pepA-1 SO0959 0.83 +0.2
995,232 - pepA-1 SO0959 0.84 +0.4
995,338 + -0.4
995,338 + -0.3
995,346 + +0.0
995,354 - +0.0
995,356 + -1.4
995,356 + +0.1
995,356 + +0.1
995,356 + +0.4
995,356 + +0.6
995,356 + +0.0
995,364 - -0.1
995,364 - +0.3
995,364 - -0.1
995,424 + -0.2
995,425 + +0.2
995,432 - -0.5
995,435 + +0.6
995,435 + -0.3
995,443 - -0.0
995,443 - +0.4
995,500 - +0.2
995,500 - -0.4
995,504 + +0.4
995,512 - +0.3
995,526 + -0.5
995,526 + -1.0
995,526 + -0.1
995,534 - -1.0
995,534 - -0.2
995,534 - +0.1
995,534 - -0.0
995,549 - -0.2
995,632 + +1.6
995,701 + SO0960 0.18 +0.2
995,709 - SO0960 0.19 +0.1
995,859 + SO0960 0.39 -0.2
995,875 - SO0960 0.41 -0.8
995,875 - SO0960 0.41 +0.2
995,887 + SO0960 0.43 -0.3
995,999 + SO0960 0.58 -0.4
996,072 + SO0960 0.68 -0.3
996,072 + SO0960 0.68 +0.1
996,080 - SO0960 0.69 -0.1
996,100 + SO0960 0.71 +0.3
996,116 + SO0960 0.74 +0.3
996,116 + SO0960 0.74 +0.1
996,154 - SO0960 0.79 -0.1
996,156 + SO0960 0.79 +0.0
996,159 + SO0960 0.79 +0.5
996,164 - SO0960 0.80 +0.3
996,164 - SO0960 0.80 -0.1
996,164 - SO0960 0.80 +0.0
996,227 - SO0960 0.88 +0.4
996,245 + -0.3
996,267 + -0.4
996,275 - +0.5
996,362 - +0.1
996,464 + -0.4
996,471 - -0.2
996,472 - +0.5

Or see this region's nucleotide sequence