Strain Fitness in Shewanella oneidensis MR-1 around SO0888

Experiment: Gly-DL-Asp (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 ntSO_0887 and SO0888 are separated by 73 nucleotidesSO0888 and SO0889 are separated by 100 nucleotidesSO0889 and SO0890 are separated by 121 nucleotides SO_0887: SO_0887 - agmatine deiminase (RefSeq), at 915,983 to 917,095 _0887 SO0888: SO0888 - amidase family protein (NCBI ptt file), at 917,169 to 918,875 SO0888 SO0889: SO0889 - hypothetical protein (NCBI ptt file), at 918,976 to 919,188 SO0889 SO0890: SO0890 - hypothetical protein (NCBI ptt file), at 919,310 to 920,074 SO0890 Position (kb) 917 918 919Strain fitness (log2 ratio) -2 -1 0 1 2 3at 916.183 kb on + strand, within SO_0887at 916.191 kb on - strand, within SO_0887at 916.252 kb on - strand, within SO_0887at 916.296 kb on + strand, within SO_0887at 916.329 kb on + strand, within SO_0887at 916.329 kb on + strand, within SO_0887at 916.370 kb on + strand, within SO_0887at 916.459 kb on - strand, within SO_0887at 916.542 kb on - strand, within SO_0887at 916.555 kb on + strand, within SO_0887at 916.698 kb on + strand, within SO_0887at 916.698 kb on + strand, within SO_0887at 917.003 kb on + strandat 917.019 kb on - strandat 917.072 kb on + strandat 917.213 kb on + strandat 917.221 kb on - strandat 917.312 kb on + strandat 917.334 kb on - strandat 917.383 kb on + strand, within SO0888at 917.383 kb on + strand, within SO0888at 917.383 kb on + strand, within SO0888at 917.383 kb on + strand, within SO0888at 917.391 kb on - strand, within SO0888at 917.391 kb on - strand, within SO0888at 917.411 kb on - strand, within SO0888at 917.423 kb on - strand, within SO0888at 917.589 kb on + strand, within SO0888at 917.589 kb on + strand, within SO0888at 917.624 kb on + strand, within SO0888at 917.734 kb on + strand, within SO0888at 917.761 kb on + strand, within SO0888at 917.761 kb on + strand, within SO0888at 917.767 kb on - strand, within SO0888at 917.769 kb on - strand, within SO0888at 917.861 kb on + strand, within SO0888at 918.002 kb on + strand, within SO0888at 918.010 kb on - strand, within SO0888at 918.010 kb on - strand, within SO0888at 918.155 kb on - strand, within SO0888at 918.161 kb on - strand, within SO0888at 918.169 kb on + strand, within SO0888at 918.240 kb on + strand, within SO0888at 918.248 kb on - strand, within SO0888at 918.248 kb on - strand, within SO0888at 918.353 kb on - strand, within SO0888at 918.385 kb on + strand, within SO0888at 918.392 kb on + strand, within SO0888at 918.514 kb on + strand, within SO0888at 918.522 kb on - strand, within SO0888at 918.522 kb on - strand, within SO0888at 918.559 kb on + strand, within SO0888at 918.559 kb on + strand, within SO0888at 918.559 kb on + strand, within SO0888at 918.567 kb on - strand, within SO0888at 918.567 kb on - strand, within SO0888at 918.573 kb on + strand, within SO0888at 918.589 kb on - strand, within SO0888at 918.589 kb on - strand, within SO0888at 918.597 kb on + strand, within SO0888at 918.599 kb on - strand, within SO0888at 918.650 kb on + strand, within SO0888at 918.650 kb on + strand, within SO0888at 918.650 kb on + strand, within SO0888at 918.658 kb on - strand, within SO0888at 918.719 kb on + strandat 918.721 kb on - strandat 918.764 kb on - strandat 918.771 kb on + strandat 918.787 kb on + strandat 918.805 kb on - strandat 918.821 kb on + strandat 918.856 kb on + strandat 918.856 kb on + strandat 918.856 kb on + strandat 918.856 kb on + strandat 918.864 kb on - strandat 918.876 kb on + strandat 918.902 kb on + strandat 918.909 kb on - strandat 918.931 kb on + strandat 918.931 kb on + strandat 918.954 kb on + strandat 918.955 kb on + strandat 918.955 kb on + strandat 918.955 kb on + strandat 918.955 kb on + strandat 918.955 kb on + strandat 918.955 kb on + strandat 918.955 kb on + strandat 918.963 kb on - strandat 918.963 kb on - strandat 918.963 kb on - strandat 918.963 kb on - strandat 918.963 kb on - strandat 919.065 kb on + strand, within SO0889at 919.065 kb on + strand, within SO0889at 919.065 kb on + strand, within SO0889at 919.065 kb on + strand, within SO0889at 919.065 kb on + strand, within SO0889at 919.065 kb on + strand, within SO0889at 919.065 kb on + strand, within SO0889at 919.067 kb on - strand, within SO0889at 919.073 kb on - strand, within SO0889at 919.073 kb on - strand, within SO0889at 919.073 kb on - strand, within SO0889at 919.073 kb on - strand, within SO0889at 919.073 kb on - strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on + strand, within SO0889at 919.075 kb on - strand, within SO0889at 919.078 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.083 kb on - strand, within SO0889at 919.101 kb on + strand, within SO0889at 919.120 kb on + strand, within SO0889at 919.163 kb on + strand, within SO0889at 919.176 kb on + strandat 919.192 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.223 kb on + strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.231 kb on - strandat 919.240 kb on - strandat 919.266 kb on - strandat 919.352 kb on - strandat 919.358 kb on + strandat 919.366 kb on - strandat 919.382 kb on + strandat 919.510 kb on - strand, within SO0890at 919.514 kb on - strand, within SO0890at 919.515 kb on + strand, within SO0890at 919.515 kb on + strand, within SO0890at 919.515 kb on + strand, within SO0890at 919.516 kb on - strand, within SO0890at 919.516 kb on - strand, within SO0890at 919.523 kb on - strand, within SO0890at 919.523 kb on - strand, within SO0890at 919.574 kb on + strand, within SO0890at 919.586 kb on - strand, within SO0890at 919.593 kb on - strand, within SO0890at 919.610 kb on + strand, within SO0890at 919.656 kb on + strand, within SO0890at 919.666 kb on + strand, within SO0890at 919.674 kb on - strand, within SO0890at 919.687 kb on + strand, within SO0890at 919.687 kb on + strand, within SO0890at 919.687 kb on + strand, within SO0890at 919.687 kb on + strand, within SO0890at 919.695 kb on - strand, within SO0890at 919.726 kb on + strand, within SO0890at 919.754 kb on + strand, within SO0890at 919.754 kb on + strand, within SO0890at 919.754 kb on + strand, within SO0890at 919.762 kb on - strand, within SO0890at 919.762 kb on - strand, within SO0890at 919.762 kb on - strand, within SO0890at 919.832 kb on - strand, within SO0890at 919.854 kb on - strand, within SO0890at 919.857 kb on + strand, within SO0890

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Per-strain Table

Position Strand Gene LocusTag Fraction Gly-DL-Asp (C)
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916,183 + SO_0887 0.18 +1.6
916,191 - SO_0887 0.19 +0.5
916,252 - SO_0887 0.24 +1.2
916,296 + SO_0887 0.28 +2.0
916,329 + SO_0887 0.31 +2.4
916,329 + SO_0887 0.31 +0.9
916,370 + SO_0887 0.35 +0.7
916,459 - SO_0887 0.43 +0.6
916,542 - SO_0887 0.50 -0.2
916,555 + SO_0887 0.51 +1.0
916,698 + SO_0887 0.64 +1.5
916,698 + SO_0887 0.64 +0.6
917,003 + +1.6
917,019 - +1.1
917,072 + +1.0
917,213 + -1.2
917,221 - -1.0
917,312 + +0.8
917,334 - +0.3
917,383 + SO0888 0.13 -0.6
917,383 + SO0888 0.13 +0.9
917,383 + SO0888 0.13 -0.0
917,383 + SO0888 0.13 -0.5
917,391 - SO0888 0.13 +0.6
917,391 - SO0888 0.13 +2.3
917,411 - SO0888 0.14 +1.4
917,423 - SO0888 0.15 -0.4
917,589 + SO0888 0.25 -0.2
917,589 + SO0888 0.25 +1.0
917,624 + SO0888 0.27 -0.1
917,734 + SO0888 0.33 +0.7
917,761 + SO0888 0.35 -0.4
917,761 + SO0888 0.35 -0.4
917,767 - SO0888 0.35 +1.9
917,769 - SO0888 0.35 +0.1
917,861 + SO0888 0.41 +0.6
918,002 + SO0888 0.49 +0.1
918,010 - SO0888 0.49 +0.3
918,010 - SO0888 0.49 +1.8
918,155 - SO0888 0.58 +0.0
918,161 - SO0888 0.58 +0.6
918,169 + SO0888 0.59 -0.2
918,240 + SO0888 0.63 +0.2
918,248 - SO0888 0.63 +0.0
918,248 - SO0888 0.63 -0.1
918,353 - SO0888 0.69 -0.7
918,385 + SO0888 0.71 -0.4
918,392 + SO0888 0.72 -1.9
918,514 + SO0888 0.79 -0.3
918,522 - SO0888 0.79 +2.3
918,522 - SO0888 0.79 +0.7
918,559 + SO0888 0.81 +0.9
918,559 + SO0888 0.81 +0.7
918,559 + SO0888 0.81 -0.0
918,567 - SO0888 0.82 +0.7
918,567 - SO0888 0.82 +0.4
918,573 + SO0888 0.82 -2.5
918,589 - SO0888 0.83 +0.5
918,589 - SO0888 0.83 +0.3
918,597 + SO0888 0.84 -0.3
918,599 - SO0888 0.84 +0.0
918,650 + SO0888 0.87 -0.9
918,650 + SO0888 0.87 -1.0
918,650 + SO0888 0.87 +0.4
918,658 - SO0888 0.87 +0.9
918,719 + -0.3
918,721 - +0.4
918,764 - -0.1
918,771 + +0.3
918,787 + +1.1
918,805 - +1.4
918,821 + +0.2
918,856 + +1.3
918,856 + +0.3
918,856 + +0.8
918,856 + -0.2
918,864 - -1.2
918,876 + +0.8
918,902 + +0.5
918,909 - -0.2
918,931 + +1.0
918,931 + +1.9
918,954 + -0.1
918,955 + -1.0
918,955 + +0.3
918,955 + +0.1
918,955 + -0.8
918,955 + +0.1
918,955 + -0.7
918,955 + +0.5
918,963 - +0.4
918,963 - +2.3
918,963 - +0.4
918,963 - +3.2
918,963 - +1.0
919,065 + SO0889 0.42 -0.4
919,065 + SO0889 0.42 +0.6
919,065 + SO0889 0.42 -0.3
919,065 + SO0889 0.42 +1.0
919,065 + SO0889 0.42 +0.1
919,065 + SO0889 0.42 -0.3
919,065 + SO0889 0.42 +0.0
919,067 - SO0889 0.43 +0.7
919,073 - SO0889 0.46 +0.4
919,073 - SO0889 0.46 +0.6
919,073 - SO0889 0.46 +2.0
919,073 - SO0889 0.46 +0.8
919,073 - SO0889 0.46 -0.1
919,075 + SO0889 0.46 -0.7
919,075 + SO0889 0.46 -0.1
919,075 + SO0889 0.46 +0.5
919,075 + SO0889 0.46 +2.1
919,075 + SO0889 0.46 +0.9
919,075 + SO0889 0.46 +0.0
919,075 + SO0889 0.46 -0.3
919,075 + SO0889 0.46 -0.5
919,075 + SO0889 0.46 -0.2
919,075 - SO0889 0.46 +0.7
919,078 - SO0889 0.48 +1.3
919,083 - SO0889 0.50 -0.1
919,083 - SO0889 0.50 -0.9
919,083 - SO0889 0.50 -1.2
919,083 - SO0889 0.50 +0.5
919,083 - SO0889 0.50 +0.4
919,083 - SO0889 0.50 -0.6
919,083 - SO0889 0.50 +0.6
919,083 - SO0889 0.50 +0.1
919,083 - SO0889 0.50 -0.7
919,083 - SO0889 0.50 -0.2
919,083 - SO0889 0.50 +0.2
919,083 - SO0889 0.50 -0.9
919,083 - SO0889 0.50 -1.9
919,101 + SO0889 0.59 +1.6
919,120 + SO0889 0.68 +0.4
919,163 + SO0889 0.88 -0.9
919,176 + +1.5
919,192 + +0.6
919,223 + -1.0
919,223 + +0.8
919,223 + +0.4
919,223 + +0.3
919,223 + +1.7
919,223 + +0.1
919,223 + -0.5
919,223 + -0.5
919,223 + -0.1
919,223 + +0.6
919,223 + -0.2
919,231 - -0.5
919,231 - +0.3
919,231 - +0.4
919,231 - +0.2
919,231 - +0.0
919,231 - -0.7
919,231 - +0.5
919,231 - -1.4
919,231 - -0.5
919,240 - +0.7
919,266 - +0.6
919,352 - -0.3
919,358 + -0.0
919,366 - +0.5
919,382 + +0.4
919,510 - SO0890 0.26 +0.3
919,514 - SO0890 0.27 -0.2
919,515 + SO0890 0.27 +0.4
919,515 + SO0890 0.27 +0.2
919,515 + SO0890 0.27 +0.1
919,516 - SO0890 0.27 -0.7
919,516 - SO0890 0.27 +0.1
919,523 - SO0890 0.28 +0.2
919,523 - SO0890 0.28 -0.0
919,574 + SO0890 0.35 -0.1
919,586 - SO0890 0.36 -0.2
919,593 - SO0890 0.37 +0.7
919,610 + SO0890 0.39 -0.5
919,656 + SO0890 0.45 +0.4
919,666 + SO0890 0.47 +0.5
919,674 - SO0890 0.48 -0.9
919,687 + SO0890 0.49 +0.8
919,687 + SO0890 0.49 -0.6
919,687 + SO0890 0.49 -1.7
919,687 + SO0890 0.49 -0.3
919,695 - SO0890 0.50 -0.5
919,726 + SO0890 0.54 -0.2
919,754 + SO0890 0.58 -0.2
919,754 + SO0890 0.58 -0.6
919,754 + SO0890 0.58 -0.1
919,762 - SO0890 0.59 +0.1
919,762 - SO0890 0.59 +0.4
919,762 - SO0890 0.59 -0.7
919,832 - SO0890 0.68 -0.3
919,854 - SO0890 0.71 +0.7
919,857 + SO0890 0.72 -0.0

Or see this region's nucleotide sequence