Strain Fitness in Rahnella sp. WP5 around EX31_RS12600

Experiment: NL-CCM; Mixed culture; Herbiconiux sp. 11RBC 2:1 starting OD to Azospirillum

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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 ntEX31_RS12595 and EX31_RS12600 are separated by 23 nucleotidesEX31_RS12600 and EX31_RS12605 are separated by 247 nucleotides EX31_RS12595: EX31_RS12595 - type II and III secretion system protein, at 190,262 to 191,710 _RS12595 EX31_RS12600: EX31_RS12600 - pilus assembly protein, at 191,734 to 191,985 _RS12600 EX31_RS12605: EX31_RS12605 - type II secretion system protein, at 192,233 to 193,900 _RS12605 Position (kb) 191 192Strain fitness (log2 ratio) -2 -1 0 1at 190.735 kb on + strand, within EX31_RS12595at 190.735 kb on + strand, within EX31_RS12595at 190.736 kb on - strand, within EX31_RS12595at 190.736 kb on - strand, within EX31_RS12595at 190.736 kb on - strand, within EX31_RS12595at 190.745 kb on - strand, within EX31_RS12595at 190.752 kb on + strand, within EX31_RS12595at 190.752 kb on + strand, within EX31_RS12595at 190.753 kb on - strand, within EX31_RS12595at 190.764 kb on - strand, within EX31_RS12595at 190.764 kb on - strand, within EX31_RS12595at 190.823 kb on + strand, within EX31_RS12595at 190.824 kb on - strand, within EX31_RS12595at 190.828 kb on + strand, within EX31_RS12595at 190.828 kb on + strand, within EX31_RS12595at 190.829 kb on - strand, within EX31_RS12595at 190.829 kb on - strand, within EX31_RS12595at 190.843 kb on + strand, within EX31_RS12595at 190.843 kb on + strand, within EX31_RS12595at 190.843 kb on + strand, within EX31_RS12595at 190.844 kb on - strand, within EX31_RS12595at 190.844 kb on - strand, within EX31_RS12595at 190.871 kb on + strand, within EX31_RS12595at 190.871 kb on + strand, within EX31_RS12595at 190.871 kb on + strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.872 kb on - strand, within EX31_RS12595at 190.875 kb on + strand, within EX31_RS12595at 190.875 kb on + strand, within EX31_RS12595at 190.876 kb on - strand, within EX31_RS12595at 190.876 kb on - strand, within EX31_RS12595at 190.876 kb on - strand, within EX31_RS12595at 190.883 kb on - strand, within EX31_RS12595at 190.883 kb on - strand, within EX31_RS12595at 190.900 kb on - strand, within EX31_RS12595at 190.918 kb on + strand, within EX31_RS12595at 190.936 kb on + strand, within EX31_RS12595at 190.938 kb on + strand, within EX31_RS12595at 190.961 kb on - strand, within EX31_RS12595at 191.002 kb on + strand, within EX31_RS12595at 191.002 kb on + strand, within EX31_RS12595at 191.004 kb on + strand, within EX31_RS12595at 191.004 kb on + strand, within EX31_RS12595at 191.004 kb on + strand, within EX31_RS12595at 191.048 kb on - strand, within EX31_RS12595at 191.054 kb on - strand, within EX31_RS12595at 191.058 kb on + strand, within EX31_RS12595at 191.058 kb on + strand, within EX31_RS12595at 191.058 kb on + strand, within EX31_RS12595at 191.058 kb on + strand, within EX31_RS12595at 191.058 kb on + strand, within EX31_RS12595at 191.059 kb on - strand, within EX31_RS12595at 191.059 kb on - strand, within EX31_RS12595at 191.059 kb on - strand, within EX31_RS12595at 191.059 kb on - strand, within EX31_RS12595at 191.059 kb on - strand, within EX31_RS12595at 191.059 kb on - strand, within EX31_RS12595at 191.076 kb on + strand, within EX31_RS12595at 191.076 kb on + strand, within EX31_RS12595at 191.076 kb on + strand, within EX31_RS12595at 191.077 kb on - strand, within EX31_RS12595at 191.077 kb on - strand, within EX31_RS12595at 191.077 kb on - strand, within EX31_RS12595at 191.077 kb on - strand, within EX31_RS12595at 191.156 kb on - strand, within EX31_RS12595at 191.170 kb on + strand, within EX31_RS12595at 191.174 kb on + strand, within EX31_RS12595at 191.174 kb on + strand, within EX31_RS12595at 191.175 kb on - strand, within EX31_RS12595at 191.175 kb on - strand, within EX31_RS12595at 191.175 kb on - strand, within EX31_RS12595at 191.227 kb on + strand, within EX31_RS12595at 191.227 kb on + strand, within EX31_RS12595at 191.228 kb on - strand, within EX31_RS12595at 191.228 kb on - strand, within EX31_RS12595at 191.233 kb on - strand, within EX31_RS12595at 191.233 kb on - strand, within EX31_RS12595at 191.239 kb on + strand, within EX31_RS12595at 191.239 kb on + strand, within EX31_RS12595at 191.240 kb on - strand, within EX31_RS12595at 191.240 kb on - strand, within EX31_RS12595at 191.240 kb on - strand, within EX31_RS12595at 191.241 kb on + strand, within EX31_RS12595at 191.241 kb on + strand, within EX31_RS12595at 191.241 kb on + strand, within EX31_RS12595at 191.242 kb on - strand, within EX31_RS12595at 191.242 kb on - strand, within EX31_RS12595at 191.254 kb on + strand, within EX31_RS12595at 191.261 kb on - strand, within EX31_RS12595at 191.264 kb on - strand, within EX31_RS12595at 191.264 kb on - strand, within EX31_RS12595at 191.442 kb on - strand, within EX31_RS12595at 191.442 kb on - strand, within EX31_RS12595at 191.442 kb on - strand, within EX31_RS12595at 191.442 kb on - strand, within EX31_RS12595at 191.467 kb on + strand, within EX31_RS12595at 191.527 kb on - strand, within EX31_RS12595at 191.531 kb on + strand, within EX31_RS12595at 191.543 kb on + strand, within EX31_RS12595at 191.548 kb on - strand, within EX31_RS12595at 191.568 kb on + strandat 191.610 kb on - strandat 191.610 kb on - strandat 191.748 kb on + strandat 191.818 kb on + strand, within EX31_RS12600at 191.870 kb on + strand, within EX31_RS12600at 191.875 kb on + strand, within EX31_RS12600at 191.875 kb on + strand, within EX31_RS12600at 191.879 kb on + strand, within EX31_RS12600at 191.907 kb on + strand, within EX31_RS12600at 191.907 kb on + strand, within EX31_RS12600at 191.935 kb on - strand, within EX31_RS12600at 192.009 kb on + strandat 192.009 kb on + strandat 192.009 kb on + strandat 192.009 kb on + strandat 192.009 kb on + strandat 192.009 kb on + strandat 192.009 kb on + strandat 192.010 kb on - strandat 192.010 kb on - strandat 192.010 kb on - strandat 192.010 kb on - strandat 192.012 kb on + strandat 192.013 kb on - strandat 192.085 kb on + strandat 192.211 kb on + strandat 192.218 kb on + strandat 192.219 kb on - strandat 192.220 kb on + strandat 192.221 kb on - strandat 192.221 kb on - strandat 192.221 kb on - strandat 192.235 kb on - strandat 192.251 kb on + strandat 192.279 kb on - strandat 192.286 kb on + strandat 192.286 kb on + strandat 192.287 kb on - strandat 192.287 kb on - strandat 192.302 kb on + strandat 192.325 kb on + strandat 192.328 kb on + strandat 192.390 kb on + strandat 192.412 kb on + strand, within EX31_RS12605at 192.416 kb on - strand, within EX31_RS12605at 192.443 kb on + strand, within EX31_RS12605at 192.444 kb on - strand, within EX31_RS12605at 192.452 kb on + strand, within EX31_RS12605at 192.453 kb on - strand, within EX31_RS12605at 192.453 kb on - strand, within EX31_RS12605at 192.455 kb on + strand, within EX31_RS12605at 192.455 kb on + strand, within EX31_RS12605at 192.564 kb on - strand, within EX31_RS12605at 192.565 kb on + strand, within EX31_RS12605at 192.565 kb on + strand, within EX31_RS12605at 192.565 kb on + strand, within EX31_RS12605at 192.565 kb on + strand, within EX31_RS12605at 192.698 kb on - strand, within EX31_RS12605at 192.702 kb on + strand, within EX31_RS12605at 192.702 kb on + strand, within EX31_RS12605at 192.702 kb on + strand, within EX31_RS12605at 192.703 kb on - strand, within EX31_RS12605at 192.703 kb on - strand, within EX31_RS12605at 192.703 kb on - strand, within EX31_RS12605at 192.719 kb on - strand, within EX31_RS12605at 192.769 kb on - strand, within EX31_RS12605at 192.769 kb on - strand, within EX31_RS12605at 192.769 kb on - strand, within EX31_RS12605at 192.791 kb on + strand, within EX31_RS12605at 192.792 kb on - strand, within EX31_RS12605at 192.859 kb on + strand, within EX31_RS12605at 192.859 kb on + strand, within EX31_RS12605at 192.860 kb on - strand, within EX31_RS12605at 192.860 kb on - strand, within EX31_RS12605at 192.860 kb on - strand, within EX31_RS12605at 192.860 kb on - strand, within EX31_RS12605at 192.860 kb on - strand, within EX31_RS12605at 192.965 kb on - strand, within EX31_RS12605

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Per-strain Table

Position Strand Gene LocusTag Fraction NL-CCM; Mixed culture; Herbiconiux sp. 11RBC 2:1 starting OD to Azospirillum
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190,735 + EX31_RS12595 0.33 +0.2
190,735 + EX31_RS12595 0.33 +0.9
190,736 - EX31_RS12595 0.33 -0.3
190,736 - EX31_RS12595 0.33 -1.7
190,736 - EX31_RS12595 0.33 +0.9
190,745 - EX31_RS12595 0.33 +0.5
190,752 + EX31_RS12595 0.34 +0.2
190,752 + EX31_RS12595 0.34 +0.6
190,753 - EX31_RS12595 0.34 +0.7
190,764 - EX31_RS12595 0.35 +0.7
190,764 - EX31_RS12595 0.35 +0.5
190,823 + EX31_RS12595 0.39 -0.1
190,824 - EX31_RS12595 0.39 -0.1
190,828 + EX31_RS12595 0.39 +0.4
190,828 + EX31_RS12595 0.39 +0.5
190,829 - EX31_RS12595 0.39 -0.2
190,829 - EX31_RS12595 0.39 +0.3
190,843 + EX31_RS12595 0.40 -1.3
190,843 + EX31_RS12595 0.40 -0.9
190,843 + EX31_RS12595 0.40 -0.3
190,844 - EX31_RS12595 0.40 +0.2
190,844 - EX31_RS12595 0.40 +0.3
190,871 + EX31_RS12595 0.42 -0.2
190,871 + EX31_RS12595 0.42 -1.3
190,871 + EX31_RS12595 0.42 +1.2
190,872 - EX31_RS12595 0.42 +0.0
190,872 - EX31_RS12595 0.42 -0.2
190,872 - EX31_RS12595 0.42 +0.6
190,872 - EX31_RS12595 0.42 +0.1
190,872 - EX31_RS12595 0.42 +0.1
190,872 - EX31_RS12595 0.42 +0.3
190,872 - EX31_RS12595 0.42 -0.5
190,872 - EX31_RS12595 0.42 -0.1
190,872 - EX31_RS12595 0.42 +0.1
190,872 - EX31_RS12595 0.42 -0.5
190,872 - EX31_RS12595 0.42 +0.6
190,872 - EX31_RS12595 0.42 -0.4
190,872 - EX31_RS12595 0.42 -0.1
190,872 - EX31_RS12595 0.42 -0.6
190,872 - EX31_RS12595 0.42 -0.6
190,875 + EX31_RS12595 0.42 -1.4
190,875 + EX31_RS12595 0.42 +0.4
190,876 - EX31_RS12595 0.42 +0.2
190,876 - EX31_RS12595 0.42 +1.5
190,876 - EX31_RS12595 0.42 -0.7
190,883 - EX31_RS12595 0.43 +1.1
190,883 - EX31_RS12595 0.43 -0.9
190,900 - EX31_RS12595 0.44 -0.2
190,918 + EX31_RS12595 0.45 -0.1
190,936 + EX31_RS12595 0.47 +0.2
190,938 + EX31_RS12595 0.47 +0.0
190,961 - EX31_RS12595 0.48 -0.3
191,002 + EX31_RS12595 0.51 -0.8
191,002 + EX31_RS12595 0.51 +1.4
191,004 + EX31_RS12595 0.51 +0.6
191,004 + EX31_RS12595 0.51 -2.3
191,004 + EX31_RS12595 0.51 -0.3
191,048 - EX31_RS12595 0.54 -0.2
191,054 - EX31_RS12595 0.55 -0.1
191,058 + EX31_RS12595 0.55 -1.2
191,058 + EX31_RS12595 0.55 -0.3
191,058 + EX31_RS12595 0.55 -0.1
191,058 + EX31_RS12595 0.55 -0.4
191,058 + EX31_RS12595 0.55 -1.0
191,059 - EX31_RS12595 0.55 +0.8
191,059 - EX31_RS12595 0.55 +0.0
191,059 - EX31_RS12595 0.55 +1.0
191,059 - EX31_RS12595 0.55 +1.0
191,059 - EX31_RS12595 0.55 -0.2
191,059 - EX31_RS12595 0.55 -0.2
191,076 + EX31_RS12595 0.56 -0.5
191,076 + EX31_RS12595 0.56 -0.5
191,076 + EX31_RS12595 0.56 +1.0
191,077 - EX31_RS12595 0.56 +0.5
191,077 - EX31_RS12595 0.56 +0.2
191,077 - EX31_RS12595 0.56 -1.0
191,077 - EX31_RS12595 0.56 +1.1
191,156 - EX31_RS12595 0.62 -0.0
191,170 + EX31_RS12595 0.63 -1.1
191,174 + EX31_RS12595 0.63 +0.7
191,174 + EX31_RS12595 0.63 -0.1
191,175 - EX31_RS12595 0.63 -0.1
191,175 - EX31_RS12595 0.63 -0.2
191,175 - EX31_RS12595 0.63 -0.8
191,227 + EX31_RS12595 0.67 -0.9
191,227 + EX31_RS12595 0.67 +1.7
191,228 - EX31_RS12595 0.67 -0.9
191,228 - EX31_RS12595 0.67 -0.8
191,233 - EX31_RS12595 0.67 -0.0
191,233 - EX31_RS12595 0.67 -0.3
191,239 + EX31_RS12595 0.67 +0.4
191,239 + EX31_RS12595 0.67 -2.5
191,240 - EX31_RS12595 0.67 -1.1
191,240 - EX31_RS12595 0.67 -0.7
191,240 - EX31_RS12595 0.67 -0.3
191,241 + EX31_RS12595 0.68 +0.1
191,241 + EX31_RS12595 0.68 +0.4
191,241 + EX31_RS12595 0.68 -0.6
191,242 - EX31_RS12595 0.68 -2.7
191,242 - EX31_RS12595 0.68 -1.5
191,254 + EX31_RS12595 0.68 +0.4
191,261 - EX31_RS12595 0.69 -0.5
191,264 - EX31_RS12595 0.69 +0.1
191,264 - EX31_RS12595 0.69 -0.6
191,442 - EX31_RS12595 0.81 +0.1
191,442 - EX31_RS12595 0.81 +0.9
191,442 - EX31_RS12595 0.81 +0.4
191,442 - EX31_RS12595 0.81 -0.1
191,467 + EX31_RS12595 0.83 +0.8
191,527 - EX31_RS12595 0.87 +0.1
191,531 + EX31_RS12595 0.88 -1.2
191,543 + EX31_RS12595 0.88 +0.1
191,548 - EX31_RS12595 0.89 +0.7
191,568 + -0.3
191,610 - -0.9
191,610 - -1.9
191,748 + +0.9
191,818 + EX31_RS12600 0.33 +1.1
191,870 + EX31_RS12600 0.54 +1.4
191,875 + EX31_RS12600 0.56 +0.0
191,875 + EX31_RS12600 0.56 -0.4
191,879 + EX31_RS12600 0.58 +1.3
191,907 + EX31_RS12600 0.69 +0.7
191,907 + EX31_RS12600 0.69 +0.4
191,935 - EX31_RS12600 0.80 -0.1
192,009 + -0.3
192,009 + -0.2
192,009 + -1.2
192,009 + -0.7
192,009 + +0.7
192,009 + +0.6
192,009 + -0.9
192,010 - -0.5
192,010 - +0.1
192,010 - -1.2
192,010 - +0.1
192,012 + +0.1
192,013 - +0.5
192,085 + +0.1
192,211 + +1.3
192,218 + +0.6
192,219 - +1.0
192,220 + +0.2
192,221 - -0.7
192,221 - +0.9
192,221 - -1.0
192,235 - +1.2
192,251 + +0.2
192,279 - -0.4
192,286 + -0.8
192,286 + -0.5
192,287 - -0.8
192,287 - +0.3
192,302 + +0.2
192,325 + +0.2
192,328 + +0.3
192,390 + +0.1
192,412 + EX31_RS12605 0.11 -0.2
192,416 - EX31_RS12605 0.11 -0.4
192,443 + EX31_RS12605 0.13 -0.3
192,444 - EX31_RS12605 0.13 +1.6
192,452 + EX31_RS12605 0.13 -0.4
192,453 - EX31_RS12605 0.13 +0.4
192,453 - EX31_RS12605 0.13 +0.5
192,455 + EX31_RS12605 0.13 +0.3
192,455 + EX31_RS12605 0.13 +0.5
192,564 - EX31_RS12605 0.20 -0.1
192,565 + EX31_RS12605 0.20 +0.6
192,565 + EX31_RS12605 0.20 +1.5
192,565 + EX31_RS12605 0.20 -0.0
192,565 + EX31_RS12605 0.20 +0.2
192,698 - EX31_RS12605 0.28 -0.2
192,702 + EX31_RS12605 0.28 -0.2
192,702 + EX31_RS12605 0.28 +0.2
192,702 + EX31_RS12605 0.28 -0.9
192,703 - EX31_RS12605 0.28 -1.3
192,703 - EX31_RS12605 0.28 +0.3
192,703 - EX31_RS12605 0.28 +0.2
192,719 - EX31_RS12605 0.29 -0.1
192,769 - EX31_RS12605 0.32 +0.3
192,769 - EX31_RS12605 0.32 -1.3
192,769 - EX31_RS12605 0.32 +0.3
192,791 + EX31_RS12605 0.33 -0.8
192,792 - EX31_RS12605 0.34 +0.7
192,859 + EX31_RS12605 0.38 -1.0
192,859 + EX31_RS12605 0.38 +0.3
192,860 - EX31_RS12605 0.38 +0.4
192,860 - EX31_RS12605 0.38 -0.2
192,860 - EX31_RS12605 0.38 -0.2
192,860 - EX31_RS12605 0.38 +0.7
192,860 - EX31_RS12605 0.38 +0.3
192,965 - EX31_RS12605 0.44 -0.0

Or see this region's nucleotide sequence