Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF4040

Experiment: Ying_Others16 rep A; time point 3

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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 ntGFF4038 and GFF4039 are separated by 1 nucleotidesGFF4039 and GFF5790 are separated by 110 nucleotidesGFF5790 and GFF4040 are separated by 76 nucleotidesGFF4040 and GFF4041 are separated by 137 nucleotidesGFF4041 and GFF4042 overlap by 68 nucleotidesGFF4042 and GFF4043 are separated by 135 nucleotides GFF4038 - TRAP-type uncharacterized transport system, fused permease component, at 956,086 to 958,668 GFF4038 GFF4039 - Asp/Glu racemase, at 958,670 to 959,317 GFF4039 GFF5790 - tRNA-Leu-TAG, at 959,428 to 959,511 GFF5790 GFF4040 - Cell division trigger factor (EC 5.2.1.8), at 959,588 to 960,898 GFF4040 GFF4041 - hypothetical protein, at 961,036 to 961,155 GFF4041 GFF4042 - ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92), at 961,088 to 961,705 GFF4042 GFF4043 - ATP-dependent Clp protease ATP-binding subunit ClpX, at 961,841 to 963,106 GFF4043 Position (kb) 959 960 961Strain fitness (log2 ratio) -1 0 1 2 3 4 5 6 7at 958.853 kb on + strand, within GFF4039at 958.854 kb on - strand, within GFF4039at 958.854 kb on - strand, within GFF4039at 958.854 kb on - strand, within GFF4039at 959.348 kb on - strandat 959.395 kb on + strandat 959.421 kb on - strandat 959.462 kb on + strand, within GFF5790at 959.463 kb on - strand, within GFF5790at 959.574 kb on + strandat 959.574 kb on + strandat 959.574 kb on + strandat 959.574 kb on + strandat 959.574 kb on + strandat 959.575 kb on - strandat 959.575 kb on - strandat 959.766 kb on - strand, within GFF4040at 959.777 kb on + strand, within GFF4040at 959.777 kb on + strand, within GFF4040at 959.777 kb on + strand, within GFF4040at 959.777 kb on + strand, within GFF4040at 959.777 kb on + strand, within GFF4040at 959.777 kb on + strand, within GFF4040at 959.778 kb on - strand, within GFF4040at 959.921 kb on + strand, within GFF4040at 959.921 kb on + strand, within GFF4040at 959.921 kb on + strand, within GFF4040at 959.922 kb on - strand, within GFF4040at 959.922 kb on - strand, within GFF4040at 959.922 kb on - strand, within GFF4040at 959.922 kb on - strand, within GFF4040at 960.254 kb on + strand, within GFF4040at 960.255 kb on - strand, within GFF4040at 960.255 kb on - strand, within GFF4040at 960.734 kb on + strand, within GFF4040at 960.734 kb on + strand, within GFF4040at 960.734 kb on + strand, within GFF4040at 960.735 kb on - strand, within GFF4040at 960.735 kb on - strand, within GFF4040at 960.735 kb on - strand, within GFF4040at 960.765 kb on - strand, within GFF4040at 961.047 kb on + strandat 961.047 kb on + strandat 961.047 kb on + strandat 961.048 kb on - strand, within GFF4041at 961.048 kb on - strand, within GFF4041at 961.048 kb on - strand, within GFF4041at 961.048 kb on - strand, within GFF4041at 961.052 kb on + strand, within GFF4041at 961.052 kb on + strand, within GFF4041at 961.052 kb on + strand, within GFF4041at 961.052 kb on + strand, within GFF4041at 961.052 kb on + strand, within GFF4041at 961.052 kb on + strand, within GFF4041at 961.053 kb on - strand, within GFF4041at 961.053 kb on - strand, within GFF4041at 961.053 kb on - strand, within GFF4041at 961.053 kb on - strand, within GFF4041at 961.053 kb on - strand, within GFF4041at 961.058 kb on + strand, within GFF4041at 961.058 kb on + strand, within GFF4041at 961.059 kb on - strand, within GFF4041at 961.163 kb on + strand, within GFF4042at 961.164 kb on - strand, within GFF4042at 961.164 kb on - strand, within GFF4042at 961.172 kb on + strand, within GFF4042at 961.172 kb on + strand, within GFF4042at 961.239 kb on + strand, within GFF4042at 961.239 kb on + strand, within GFF4042at 961.240 kb on - strand, within GFF4042at 961.240 kb on - strand, within GFF4042at 961.298 kb on + strand, within GFF4042at 961.298 kb on + strand, within GFF4042at 961.299 kb on - strand, within GFF4042at 961.299 kb on - strand, within GFF4042at 961.299 kb on - strand, within GFF4042at 961.628 kb on + strand, within GFF4042at 961.631 kb on + strand, within GFF4042at 961.632 kb on - strand, within GFF4042at 961.658 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.802 kb on + strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.803 kb on - strandat 961.814 kb on + strandat 961.814 kb on + strandat 961.814 kb on + strandat 961.815 kb on - strandat 961.815 kb on - strandat 961.815 kb on - strandat 961.815 kb on - strandat 961.815 kb on - strandat 961.815 kb on - strandat 961.840 kb on + strandat 961.840 kb on + strandat 961.840 kb on + strandat 961.880 kb on + strandat 961.880 kb on + strandat 961.881 kb on - strandat 961.881 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Others16 rep A; time point 3
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958,853 + GFF4039 0.28 +0.6
958,854 - GFF4039 0.28 +0.5
958,854 - GFF4039 0.28 +0.2
958,854 - GFF4039 0.28 -0.3
959,348 - +1.6
959,395 + +0.0
959,421 - +0.7
959,462 + GFF5790 0.40 +0.4
959,463 - GFF5790 0.42 +1.2
959,574 + +0.4
959,574 + -0.7
959,574 + -0.5
959,574 + +0.6
959,574 + -0.3
959,575 - +0.0
959,575 - +0.9
959,766 - GFF4040 0.14 -0.8
959,777 + GFF4040 0.14 +0.9
959,777 + GFF4040 0.14 -0.8
959,777 + GFF4040 0.14 +1.0
959,777 + GFF4040 0.14 +0.6
959,777 + GFF4040 0.14 +1.0
959,777 + GFF4040 0.14 +0.8
959,778 - GFF4040 0.14 +1.2
959,921 + GFF4040 0.25 +0.6
959,921 + GFF4040 0.25 +0.7
959,921 + GFF4040 0.25 +0.6
959,922 - GFF4040 0.25 +2.0
959,922 - GFF4040 0.25 +1.9
959,922 - GFF4040 0.25 +1.3
959,922 - GFF4040 0.25 +0.8
960,254 + GFF4040 0.51 +0.1
960,255 - GFF4040 0.51 +0.8
960,255 - GFF4040 0.51 +1.8
960,734 + GFF4040 0.87 +2.3
960,734 + GFF4040 0.87 +0.9
960,734 + GFF4040 0.87 +1.1
960,735 - GFF4040 0.87 +1.1
960,735 - GFF4040 0.87 +0.6
960,735 - GFF4040 0.87 +1.1
960,765 - GFF4040 0.90 +1.5
961,047 + -0.4
961,047 + +0.0
961,047 + -0.5
961,048 - GFF4041 0.10 -0.3
961,048 - GFF4041 0.10 -0.7
961,048 - GFF4041 0.10 +0.3
961,048 - GFF4041 0.10 -0.5
961,052 + GFF4041 0.13 -0.6
961,052 + GFF4041 0.13 +0.4
961,052 + GFF4041 0.13 +0.1
961,052 + GFF4041 0.13 -0.7
961,052 + GFF4041 0.13 -0.2
961,052 + GFF4041 0.13 -0.1
961,053 - GFF4041 0.14 +3.6
961,053 - GFF4041 0.14 +4.3
961,053 - GFF4041 0.14 +3.7
961,053 - GFF4041 0.14 +4.0
961,053 - GFF4041 0.14 +2.7
961,058 + GFF4041 0.18 -0.4
961,058 + GFF4041 0.18 +0.0
961,059 - GFF4041 0.19 +2.4
961,163 + GFF4042 0.12 +4.3
961,164 - GFF4042 0.12 +7.0
961,164 - GFF4042 0.12 +5.7
961,172 + GFF4042 0.14 +4.3
961,172 + GFF4042 0.14 +4.6
961,239 + GFF4042 0.24 +4.6
961,239 + GFF4042 0.24 +5.2
961,240 - GFF4042 0.25 +3.7
961,240 - GFF4042 0.25 +4.1
961,298 + GFF4042 0.34 +1.6
961,298 + GFF4042 0.34 +2.6
961,299 - GFF4042 0.34 +4.2
961,299 - GFF4042 0.34 +5.1
961,299 - GFF4042 0.34 +3.8
961,628 + GFF4042 0.87 +2.5
961,631 + GFF4042 0.88 +4.5
961,632 - GFF4042 0.88 +4.6
961,658 + +3.4
961,802 + -1.2
961,802 + -1.5
961,802 + -0.4
961,802 + -0.2
961,802 + -0.6
961,802 + -1.1
961,802 + -0.7
961,802 + +0.1
961,802 + -1.1
961,802 + -1.1
961,803 - -0.6
961,803 - +2.5
961,803 - -0.3
961,803 - -0.1
961,803 - -0.5
961,803 - -0.3
961,803 - +2.1
961,803 - -0.4
961,803 - -0.7
961,814 + -1.0
961,814 + -1.0
961,814 + +0.7
961,815 - +2.5
961,815 - +3.0
961,815 - +2.7
961,815 - +1.9
961,815 - +2.8
961,815 - +2.1
961,840 + +2.0
961,840 + +2.0
961,840 + +1.9
961,880 + +1.8
961,880 + +2.2
961,881 - +1.9
961,881 - +2.0

Or see this region's nucleotide sequence