Strain Fitness in Variovorax sp. SCN45 around GFF5325

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 2 mg/mL

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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 ntGFF5323 and GFF5324 are separated by 86 nucleotidesGFF5324 and GFF5325 are separated by 34 nucleotidesGFF5325 and GFF5326 overlap by 4 nucleotides GFF5323 - Type IV pilus biogenesis protein PilQ, at 199,660 to 201,840 GFF5323 GFF5324 - Shikimate kinase I (EC 2.7.1.71), at 201,927 to 202,412 GFF5324 GFF5325 - 3-dehydroquinate synthase (EC 4.2.3.4), at 202,447 to 203,556 GFF5325 GFF5326 - Deoxyguanosinetriphosphate triphosphohydrolase (EC 3.1.5.1), at 203,553 to 204,683 GFF5326 Position (kb) 202 203 204Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.546 kb on + strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.547 kb on - strand, within GFF5323at 201.675 kb on + strandat 201.675 kb on + strandat 201.675 kb on + strandat 201.675 kb on + strandat 201.676 kb on - strandat 201.676 kb on - strandat 201.676 kb on - strandat 201.737 kb on - strandat 201.737 kb on - strandat 201.784 kb on + strandat 201.798 kb on + strandat 201.798 kb on + strandat 201.799 kb on - strandat 201.817 kb on - strandat 201.852 kb on - strandat 201.999 kb on + strand, within GFF5324at 201.999 kb on + strand, within GFF5324at 202.155 kb on + strand, within GFF5324at 202.155 kb on + strand, within GFF5324at 202.278 kb on + strand, within GFF5324at 202.460 kb on + strandat 202.460 kb on + strandat 202.461 kb on - strandat 202.461 kb on - strandat 202.461 kb on - strandat 202.618 kb on + strand, within GFF5325at 202.826 kb on - strand, within GFF5325at 202.826 kb on - strand, within GFF5325at 202.946 kb on - strand, within GFF5325at 203.047 kb on + strand, within GFF5325at 203.047 kb on + strand, within GFF5325at 203.047 kb on + strand, within GFF5325at 203.248 kb on + strand, within GFF5325at 203.414 kb on - strand, within GFF5325at 203.568 kb on + strandat 203.568 kb on + strandat 203.568 kb on + strandat 203.568 kb on + strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.569 kb on - strandat 203.692 kb on - strand, within GFF5326at 203.971 kb on - strand, within GFF5326at 203.971 kb on - strand, within GFF5326at 203.971 kb on - strand, within GFF5326at 204.062 kb on + strand, within GFF5326at 204.063 kb on - strand, within GFF5326at 204.144 kb on + strand, within GFF5326at 204.144 kb on + strand, within GFF5326at 204.145 kb on - strand, within GFF5326at 204.282 kb on + strand, within GFF5326at 204.282 kb on + strand, within GFF5326at 204.282 kb on + strand, within GFF5326at 204.283 kb on - strand, within GFF5326at 204.283 kb on - strand, within GFF5326at 204.283 kb on - strand, within GFF5326at 204.318 kb on + strand, within GFF5326at 204.318 kb on + strand, within GFF5326at 204.319 kb on - strand, within GFF5326at 204.537 kb on + strand, within GFF5326at 204.537 kb on + strand, within GFF5326at 204.537 kb on + strand, within GFF5326at 204.537 kb on + strand, within GFF5326at 204.537 kb on + strand, within GFF5326at 204.538 kb on - strand, within GFF5326at 204.538 kb on - strand, within GFF5326at 204.538 kb on - strand, within GFF5326at 204.538 kb on - strand, within GFF5326

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 2 mg/mL
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201,546 + GFF5323 0.86 -1.0
201,546 + GFF5323 0.86 -0.9
201,546 + GFF5323 0.86 +0.0
201,546 + GFF5323 0.86 -0.3
201,546 + GFF5323 0.86 -1.5
201,546 + GFF5323 0.86 -2.0
201,546 + GFF5323 0.86 -0.7
201,546 + GFF5323 0.86 -1.5
201,546 + GFF5323 0.86 -1.0
201,547 - GFF5323 0.87 -0.5
201,547 - GFF5323 0.87 -0.4
201,547 - GFF5323 0.87 -0.6
201,547 - GFF5323 0.87 -0.5
201,547 - GFF5323 0.87 +0.0
201,547 - GFF5323 0.87 +0.7
201,547 - GFF5323 0.87 -0.6
201,547 - GFF5323 0.87 +0.8
201,547 - GFF5323 0.87 -0.9
201,675 + -2.5
201,675 + -1.0
201,675 + -0.1
201,675 + -0.6
201,676 - -0.4
201,676 - -1.0
201,676 - -1.5
201,737 - -3.7
201,737 - -2.8
201,784 + -1.5
201,798 + -4.3
201,798 + -3.3
201,799 - -3.6
201,817 - -0.7
201,852 - -0.7
201,999 + GFF5324 0.15 -2.5
201,999 + GFF5324 0.15 -0.7
202,155 + GFF5324 0.47 -1.7
202,155 + GFF5324 0.47 -3.3
202,278 + GFF5324 0.72 -0.7
202,460 + -0.4
202,460 + -0.8
202,461 - -0.7
202,461 - -0.2
202,461 - +0.5
202,618 + GFF5325 0.15 -1.0
202,826 - GFF5325 0.34 -0.7
202,826 - GFF5325 0.34 -1.2
202,946 - GFF5325 0.45 +0.0
203,047 + GFF5325 0.54 -1.9
203,047 + GFF5325 0.54 -1.2
203,047 + GFF5325 0.54 +1.6
203,248 + GFF5325 0.72 -1.2
203,414 - GFF5325 0.87 -1.7
203,568 + -1.2
203,568 + -0.4
203,568 + +0.8
203,568 + +0.3
203,569 - -0.1
203,569 - +0.0
203,569 - +0.3
203,569 - +0.2
203,569 - +0.0
203,569 - -0.3
203,569 - -1.9
203,569 - -0.0
203,692 - GFF5326 0.12 +0.0
203,971 - GFF5326 0.37 -2.7
203,971 - GFF5326 0.37 -0.1
203,971 - GFF5326 0.37 -0.5
204,062 + GFF5326 0.45 -0.0
204,063 - GFF5326 0.45 -2.0
204,144 + GFF5326 0.52 +0.3
204,144 + GFF5326 0.52 +0.6
204,145 - GFF5326 0.52 -0.3
204,282 + GFF5326 0.64 -1.3
204,282 + GFF5326 0.64 -0.1
204,282 + GFF5326 0.64 +0.7
204,283 - GFF5326 0.65 +0.6
204,283 - GFF5326 0.65 +1.4
204,283 - GFF5326 0.65 +1.6
204,318 + GFF5326 0.68 +0.6
204,318 + GFF5326 0.68 -0.1
204,319 - GFF5326 0.68 -0.0
204,537 + GFF5326 0.87 +0.4
204,537 + GFF5326 0.87 -0.3
204,537 + GFF5326 0.87 -0.6
204,537 + GFF5326 0.87 +0.8
204,537 + GFF5326 0.87 +0.5
204,538 - GFF5326 0.87 +1.3
204,538 - GFF5326 0.87 -0.3
204,538 - GFF5326 0.87 +1.1
204,538 - GFF5326 0.87 +0.0

Or see this region's nucleotide sequence