Strain Fitness in Rhodanobacter denitrificans MT42 around LRK55_RS09005

Experiment: R2A with Nickel (II) chloride 1696 uM

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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 ntLRK55_RS08995 and LRK55_RS09000 are separated by 9 nucleotidesLRK55_RS09000 and LRK55_RS09005 are separated by 268 nucleotidesLRK55_RS09005 and LRK55_RS09010 overlap by 11 nucleotidesLRK55_RS09010 and LRK55_RS09015 overlap by 4 nucleotides LRK55_RS08995: LRK55_RS08995 - IS3 family transposase, at 1,971,444 to 1,972,459 _RS08995 LRK55_RS09000: LRK55_RS09000 - hypothetical protein, at 1,972,469 to 1,972,729 _RS09000 LRK55_RS09005: LRK55_RS09005 - AIPR family protein, at 1,972,998 to 1,974,791 _RS09005 LRK55_RS09010: LRK55_RS09010 - PD-(D/E)XK motif protein, at 1,974,781 to 1,975,776 _RS09010 LRK55_RS09015: LRK55_RS09015 - Z1 domain-containing protein, at 1,975,773 to 1,978,667 _RS09015 Position (kb) 1972 1973 1974 1975Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1972.470 kb on + strandat 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.556 kb on + strand, within LRK55_RS09000at 1972.557 kb on - strand, within LRK55_RS09000at 1972.557 kb on - strand, within LRK55_RS09000at 1972.557 kb on - strand, within LRK55_RS09000at 1972.622 kb on + strand, within LRK55_RS09000at 1972.654 kb on + strand, within LRK55_RS09000at 1972.654 kb on + strand, within LRK55_RS09000at 1972.654 kb on + strand, within LRK55_RS09000at 1972.655 kb on - strand, within LRK55_RS09000at 1972.655 kb on - strand, within LRK55_RS09000at 1972.733 kb on + strandat 1972.733 kb on + strandat 1972.733 kb on + strandat 1972.733 kb on + strandat 1972.733 kb on + strandat 1972.733 kb on + strandat 1972.734 kb on - strandat 1972.734 kb on - strandat 1972.734 kb on - strandat 1972.734 kb on - strandat 1972.737 kb on + strandat 1972.737 kb on + strandat 1972.737 kb on + strandat 1972.737 kb on + strandat 1972.737 kb on + strandat 1972.737 kb on + strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.738 kb on - strandat 1972.786 kb on + strandat 1972.786 kb on + strandat 1972.786 kb on + strandat 1972.786 kb on + strandat 1972.787 kb on - strandat 1972.787 kb on - strandat 1972.787 kb on - strandat 1972.808 kb on + strandat 1972.809 kb on - strandat 1972.872 kb on + strandat 1972.873 kb on - strandat 1972.880 kb on + strandat 1972.880 kb on + strandat 1972.881 kb on - strandat 1972.923 kb on + strandat 1972.924 kb on - strandat 1972.924 kb on - strandat 1972.952 kb on - strandat 1972.971 kb on + strandat 1973.046 kb on + strandat 1973.046 kb on + strandat 1973.047 kb on - strandat 1973.047 kb on - strandat 1973.047 kb on - strandat 1973.047 kb on - strandat 1973.105 kb on + strandat 1973.105 kb on + strandat 1973.106 kb on - strandat 1973.188 kb on - strand, within LRK55_RS09005at 1973.215 kb on + strand, within LRK55_RS09005at 1973.215 kb on + strand, within LRK55_RS09005at 1973.242 kb on + strand, within LRK55_RS09005at 1973.242 kb on + strand, within LRK55_RS09005at 1973.243 kb on - strand, within LRK55_RS09005at 1973.325 kb on + strand, within LRK55_RS09005at 1973.326 kb on - strand, within LRK55_RS09005at 1973.461 kb on + strand, within LRK55_RS09005at 1973.461 kb on + strand, within LRK55_RS09005at 1973.462 kb on - strand, within LRK55_RS09005at 1973.462 kb on - strand, within LRK55_RS09005at 1973.566 kb on + strand, within LRK55_RS09005at 1973.567 kb on - strand, within LRK55_RS09005at 1973.567 kb on - strand, within LRK55_RS09005at 1973.588 kb on - strand, within LRK55_RS09005at 1973.588 kb on - strand, within LRK55_RS09005at 1973.649 kb on - strand, within LRK55_RS09005at 1973.760 kb on + strand, within LRK55_RS09005at 1973.761 kb on - strand, within LRK55_RS09005at 1973.761 kb on - strand, within LRK55_RS09005at 1973.847 kb on + strand, within LRK55_RS09005at 1973.848 kb on - strand, within LRK55_RS09005at 1973.848 kb on - strand, within LRK55_RS09005at 1973.869 kb on + strand, within LRK55_RS09005at 1974.064 kb on + strand, within LRK55_RS09005at 1974.065 kb on - strand, within LRK55_RS09005at 1974.092 kb on + strand, within LRK55_RS09005at 1974.093 kb on - strand, within LRK55_RS09005at 1974.112 kb on + strand, within LRK55_RS09005at 1974.113 kb on - strand, within LRK55_RS09005at 1974.113 kb on - strand, within LRK55_RS09005at 1974.136 kb on + strand, within LRK55_RS09005at 1974.136 kb on + strand, within LRK55_RS09005at 1974.136 kb on + strand, within LRK55_RS09005at 1974.137 kb on - strand, within LRK55_RS09005at 1974.156 kb on - strand, within LRK55_RS09005at 1974.156 kb on - strand, within LRK55_RS09005at 1974.221 kb on - strand, within LRK55_RS09005at 1974.221 kb on - strand, within LRK55_RS09005at 1974.378 kb on + strand, within LRK55_RS09005at 1974.433 kb on + strand, within LRK55_RS09005at 1974.433 kb on + strand, within LRK55_RS09005at 1974.508 kb on + strand, within LRK55_RS09005at 1974.509 kb on - strand, within LRK55_RS09005at 1974.597 kb on - strand, within LRK55_RS09005at 1974.597 kb on - strand, within LRK55_RS09005at 1974.795 kb on + strandat 1974.869 kb on + strandat 1974.869 kb on + strandat 1974.870 kb on - strandat 1974.870 kb on - strandat 1974.938 kb on + strand, within LRK55_RS09010at 1974.974 kb on + strand, within LRK55_RS09010at 1974.974 kb on + strand, within LRK55_RS09010at 1974.974 kb on + strand, within LRK55_RS09010at 1974.974 kb on + strand, within LRK55_RS09010at 1974.974 kb on + strand, within LRK55_RS09010at 1974.975 kb on - strand, within LRK55_RS09010at 1974.975 kb on - strand, within LRK55_RS09010at 1974.975 kb on - strand, within LRK55_RS09010at 1974.975 kb on - strand, within LRK55_RS09010at 1974.975 kb on - strand, within LRK55_RS09010at 1974.975 kb on - strand, within LRK55_RS09010at 1974.999 kb on - strand, within LRK55_RS09010at 1975.294 kb on - strand, within LRK55_RS09010at 1975.455 kb on + strand, within LRK55_RS09010at 1975.456 kb on - strand, within LRK55_RS09010at 1975.519 kb on + strand, within LRK55_RS09010at 1975.519 kb on + strand, within LRK55_RS09010at 1975.520 kb on - strand, within LRK55_RS09010

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Nickel (II) chloride 1696 uM
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1,972,470 + -1.1
1,972,556 + LRK55_RS09000 0.33 -0.7
1,972,556 + LRK55_RS09000 0.33 +0.8
1,972,556 + LRK55_RS09000 0.33 -0.1
1,972,556 + LRK55_RS09000 0.33 +0.8
1,972,556 + LRK55_RS09000 0.33 -0.2
1,972,556 + LRK55_RS09000 0.33 -1.0
1,972,556 + LRK55_RS09000 0.33 -1.4
1,972,556 + LRK55_RS09000 0.33 +0.2
1,972,557 - LRK55_RS09000 0.34 -1.8
1,972,557 - LRK55_RS09000 0.34 -1.3
1,972,557 - LRK55_RS09000 0.34 -0.9
1,972,622 + LRK55_RS09000 0.59 -1.1
1,972,654 + LRK55_RS09000 0.71 -0.2
1,972,654 + LRK55_RS09000 0.71 +1.2
1,972,654 + LRK55_RS09000 0.71 +0.8
1,972,655 - LRK55_RS09000 0.71 -1.5
1,972,655 - LRK55_RS09000 0.71 +0.1
1,972,733 + +0.5
1,972,733 + +0.3
1,972,733 + -0.5
1,972,733 + +0.4
1,972,733 + -0.0
1,972,733 + +0.4
1,972,734 - +0.4
1,972,734 - -1.0
1,972,734 - -1.3
1,972,734 - -0.4
1,972,737 + -1.8
1,972,737 + -2.8
1,972,737 + -0.1
1,972,737 + -2.0
1,972,737 + -0.2
1,972,737 + +0.4
1,972,738 - +1.0
1,972,738 - +0.5
1,972,738 - +0.3
1,972,738 - -0.8
1,972,738 - -0.1
1,972,738 - +0.3
1,972,738 - -0.7
1,972,738 - +2.5
1,972,738 - +0.6
1,972,738 - -0.0
1,972,786 + -0.1
1,972,786 + -0.3
1,972,786 + -1.5
1,972,786 + -2.0
1,972,787 - -0.3
1,972,787 - -0.5
1,972,787 - +0.3
1,972,808 + -0.6
1,972,809 - -0.6
1,972,872 + -1.1
1,972,873 - -0.1
1,972,880 + +0.2
1,972,880 + -0.3
1,972,881 - +0.5
1,972,923 + +1.2
1,972,924 - -1.0
1,972,924 - +0.5
1,972,952 - -1.1
1,972,971 + +0.3
1,973,046 + +0.4
1,973,046 + -0.2
1,973,047 - -0.3
1,973,047 - -2.0
1,973,047 - -0.4
1,973,047 - +1.5
1,973,105 + +1.8
1,973,105 + +0.4
1,973,106 - -0.6
1,973,188 - LRK55_RS09005 0.11 +1.1
1,973,215 + LRK55_RS09005 0.12 +1.0
1,973,215 + LRK55_RS09005 0.12 -0.2
1,973,242 + LRK55_RS09005 0.14 -0.3
1,973,242 + LRK55_RS09005 0.14 +0.1
1,973,243 - LRK55_RS09005 0.14 -3.2
1,973,325 + LRK55_RS09005 0.18 +0.4
1,973,326 - LRK55_RS09005 0.18 +2.8
1,973,461 + LRK55_RS09005 0.26 +0.8
1,973,461 + LRK55_RS09005 0.26 -0.5
1,973,462 - LRK55_RS09005 0.26 -0.9
1,973,462 - LRK55_RS09005 0.26 -0.3
1,973,566 + LRK55_RS09005 0.32 -1.4
1,973,567 - LRK55_RS09005 0.32 +0.7
1,973,567 - LRK55_RS09005 0.32 +0.5
1,973,588 - LRK55_RS09005 0.33 -1.3
1,973,588 - LRK55_RS09005 0.33 +0.3
1,973,649 - LRK55_RS09005 0.36 +0.3
1,973,760 + LRK55_RS09005 0.42 -0.1
1,973,761 - LRK55_RS09005 0.43 +0.3
1,973,761 - LRK55_RS09005 0.43 -0.4
1,973,847 + LRK55_RS09005 0.47 +0.3
1,973,848 - LRK55_RS09005 0.47 +0.3
1,973,848 - LRK55_RS09005 0.47 -0.8
1,973,869 + LRK55_RS09005 0.49 -0.2
1,974,064 + LRK55_RS09005 0.59 +0.3
1,974,065 - LRK55_RS09005 0.59 -0.0
1,974,092 + LRK55_RS09005 0.61 -0.3
1,974,093 - LRK55_RS09005 0.61 +0.7
1,974,112 + LRK55_RS09005 0.62 +0.5
1,974,113 - LRK55_RS09005 0.62 +0.2
1,974,113 - LRK55_RS09005 0.62 -0.7
1,974,136 + LRK55_RS09005 0.63 -0.6
1,974,136 + LRK55_RS09005 0.63 -0.5
1,974,136 + LRK55_RS09005 0.63 +0.0
1,974,137 - LRK55_RS09005 0.63 +0.3
1,974,156 - LRK55_RS09005 0.65 -0.3
1,974,156 - LRK55_RS09005 0.65 +0.2
1,974,221 - LRK55_RS09005 0.68 +0.7
1,974,221 - LRK55_RS09005 0.68 -0.0
1,974,378 + LRK55_RS09005 0.77 +0.2
1,974,433 + LRK55_RS09005 0.80 -1.0
1,974,433 + LRK55_RS09005 0.80 -1.6
1,974,508 + LRK55_RS09005 0.84 -0.9
1,974,509 - LRK55_RS09005 0.84 +0.8
1,974,597 - LRK55_RS09005 0.89 +0.4
1,974,597 - LRK55_RS09005 0.89 +0.1
1,974,795 + -0.1
1,974,869 + +1.2
1,974,869 + -0.3
1,974,870 - +1.0
1,974,870 - +0.5
1,974,938 + LRK55_RS09010 0.16 -1.0
1,974,974 + LRK55_RS09010 0.19 +0.2
1,974,974 + LRK55_RS09010 0.19 +0.0
1,974,974 + LRK55_RS09010 0.19 -1.0
1,974,974 + LRK55_RS09010 0.19 +1.4
1,974,974 + LRK55_RS09010 0.19 +0.3
1,974,975 - LRK55_RS09010 0.19 +0.2
1,974,975 - LRK55_RS09010 0.19 -0.3
1,974,975 - LRK55_RS09010 0.19 -2.5
1,974,975 - LRK55_RS09010 0.19 +0.5
1,974,975 - LRK55_RS09010 0.19 +1.7
1,974,975 - LRK55_RS09010 0.19 -0.5
1,974,999 - LRK55_RS09010 0.22 +0.4
1,975,294 - LRK55_RS09010 0.52 -0.5
1,975,455 + LRK55_RS09010 0.68 -1.0
1,975,456 - LRK55_RS09010 0.68 +0.3
1,975,519 + LRK55_RS09010 0.74 +1.0
1,975,519 + LRK55_RS09010 0.74 -1.8
1,975,520 - LRK55_RS09010 0.74 +0.2

Or see this region's nucleotide sequence