Strain Fitness in Desulfovibrio vulgaris Hildenborough JW710 around DVUA0121

Experiment: Formate/Acetate-Sulfate (60/5-30 mM)

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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 ntDVUA0119.1 and DVUA0120 are separated by 12 nucleotidesDVUA0120 and DVUA0121 are separated by 1 nucleotidesDVUA0121 and yscR overlap by 4 nucleotidesyscR and DVUA0123 are separated by 30 nucleotides DVUA0119.1: DVUA0119.1 - SEED: Type III secretion spans bacterial envelope protein (YscO), at 158,959 to 159,453 DVUA0119.1 DVUA0120: DVUA0120 - type III secretion protein, putative (TIGR), at 159,466 to 160,158 DVUA0120 DVUA0121: DVUA0121 - type III secretion system protein, YopQ family (TIGR), at 160,160 to 161,614 DVUA0121 DVUA0122: yscR - type III secretion system protein, YscR family (TIGR), at 161,611 to 162,261 yscR DVUA0123: DVUA0123 - anti-anti-sigma factor (TIGR), at 162,292 to 162,627 DVUA0123 Position (kb) 160 161 162Strain fitness (log2 ratio) -1 0 1 2 3 4at 159.162 kb on + strand, within DVUA0119.1at 159.163 kb on + strand, within DVUA0119.1at 159.163 kb on + strand, within DVUA0119.1at 159.170 kb on - strand, within DVUA0119.1at 159.227 kb on - strand, within DVUA0119.1at 159.373 kb on - strand, within DVUA0119.1at 159.414 kb on + strandat 159.422 kb on - strandat 159.440 kb on + strandat 159.521 kb on + strandat 159.589 kb on - strand, within DVUA0120at 159.626 kb on + strand, within DVUA0120at 159.752 kb on + strand, within DVUA0120at 159.767 kb on + strand, within DVUA0120at 159.920 kb on - strand, within DVUA0120at 159.943 kb on + strand, within DVUA0120at 159.967 kb on + strand, within DVUA0120at 160.040 kb on + strand, within DVUA0120at 160.165 kb on - strandat 160.192 kb on + strandat 160.192 kb on + strandat 160.200 kb on - strandat 160.330 kb on + strand, within DVUA0121at 160.330 kb on + strand, within DVUA0121at 160.372 kb on + strand, within DVUA0121at 160.402 kb on - strand, within DVUA0121at 160.406 kb on + strand, within DVUA0121at 160.438 kb on - strand, within DVUA0121at 160.445 kb on - strand, within DVUA0121at 160.447 kb on + strand, within DVUA0121at 160.496 kb on + strand, within DVUA0121at 160.588 kb on + strand, within DVUA0121at 160.596 kb on - strand, within DVUA0121at 160.596 kb on - strand, within DVUA0121at 160.596 kb on - strand, within DVUA0121at 160.623 kb on - strand, within DVUA0121at 160.690 kb on + strand, within DVUA0121at 160.840 kb on - strand, within DVUA0121at 160.900 kb on - strand, within DVUA0121at 160.926 kb on - strand, within DVUA0121at 160.957 kb on + strand, within DVUA0121at 161.053 kb on + strand, within DVUA0121at 161.073 kb on - strand, within DVUA0121at 161.099 kb on + strand, within DVUA0121at 161.163 kb on + strand, within DVUA0121at 161.297 kb on + strand, within DVUA0121at 161.454 kb on - strand, within DVUA0121at 161.485 kb on + strandat 161.485 kb on + strandat 161.511 kb on + strandat 161.525 kb on + strandat 161.533 kb on - strandat 161.603 kb on - strandat 161.625 kb on - strandat 161.643 kb on + strandat 161.655 kb on + strandat 161.660 kb on + strandat 161.678 kb on - strand, within yscRat 161.697 kb on + strand, within yscRat 161.718 kb on - strand, within yscRat 161.783 kb on + strand, within yscRat 161.828 kb on + strand, within yscRat 161.858 kb on + strand, within yscRat 161.877 kb on - strand, within yscRat 161.898 kb on - strand, within yscRat 161.909 kb on - strand, within yscRat 161.959 kb on + strand, within yscRat 161.980 kb on - strand, within yscRat 162.011 kb on - strand, within yscRat 162.093 kb on + strand, within yscRat 162.094 kb on + strand, within yscRat 162.116 kb on + strand, within yscRat 162.174 kb on - strand, within yscRat 162.243 kb on + strandat 162.251 kb on - strandat 162.280 kb on + strandat 162.380 kb on + strand, within DVUA0123at 162.402 kb on - strand, within DVUA0123at 162.450 kb on - strand, within DVUA0123at 162.491 kb on - strand, within DVUA0123at 162.543 kb on + strand, within DVUA0123

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Per-strain Table

Position Strand Gene LocusTag Fraction Formate/Acetate-Sulfate (60/5-30 mM)
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159,162 + DVUA0119.1 0.41 +0.3
159,163 + DVUA0119.1 0.41 -0.8
159,163 + DVUA0119.1 0.41 -0.2
159,170 - DVUA0119.1 0.43 -0.2
159,227 - DVUA0119.1 0.54 -0.1
159,373 - DVUA0119.1 0.84 -0.1
159,414 + -0.4
159,422 - -0.6
159,440 + -0.2
159,521 + -1.1
159,589 - DVUA0120 0.18 -0.1
159,626 + DVUA0120 0.23 -0.3
159,752 + DVUA0120 0.41 -0.2
159,767 + DVUA0120 0.43 -0.2
159,920 - DVUA0120 0.66 +0.4
159,943 + DVUA0120 0.69 +0.7
159,967 + DVUA0120 0.72 +0.7
160,040 + DVUA0120 0.83 -0.3
160,165 - -0.2
160,192 + -0.4
160,192 + -1.1
160,200 - +0.8
160,330 + DVUA0121 0.12 +1.0
160,330 + DVUA0121 0.12 -0.3
160,372 + DVUA0121 0.15 +0.2
160,402 - DVUA0121 0.17 -0.6
160,406 + DVUA0121 0.17 +0.0
160,438 - DVUA0121 0.19 +4.4
160,445 - DVUA0121 0.20 +0.7
160,447 + DVUA0121 0.20 +0.3
160,496 + DVUA0121 0.23 -0.0
160,588 + DVUA0121 0.29 +0.2
160,596 - DVUA0121 0.30 +0.0
160,596 - DVUA0121 0.30 -0.9
160,596 - DVUA0121 0.30 -0.0
160,623 - DVUA0121 0.32 +0.2
160,690 + DVUA0121 0.36 -0.6
160,840 - DVUA0121 0.47 +0.9
160,900 - DVUA0121 0.51 -0.1
160,926 - DVUA0121 0.53 +0.6
160,957 + DVUA0121 0.55 +0.5
161,053 + DVUA0121 0.61 +1.0
161,073 - DVUA0121 0.63 +0.3
161,099 + DVUA0121 0.65 -0.4
161,163 + DVUA0121 0.69 -0.1
161,297 + DVUA0121 0.78 +0.5
161,454 - DVUA0121 0.89 +0.4
161,485 + -0.3
161,485 + -1.0
161,511 + +0.6
161,525 + -0.6
161,533 - +0.4
161,603 - +0.1
161,625 - -0.1
161,643 + +0.8
161,655 + -0.3
161,660 + +0.0
161,678 - yscR DVUA0122 0.10 -0.2
161,697 + yscR DVUA0122 0.13 -1.0
161,718 - yscR DVUA0122 0.16 -0.3
161,783 + yscR DVUA0122 0.26 +0.2
161,828 + yscR DVUA0122 0.33 -0.9
161,858 + yscR DVUA0122 0.38 -0.1
161,877 - yscR DVUA0122 0.41 +0.1
161,898 - yscR DVUA0122 0.44 -0.4
161,909 - yscR DVUA0122 0.46 +1.0
161,959 + yscR DVUA0122 0.53 +0.0
161,980 - yscR DVUA0122 0.57 -0.1
162,011 - yscR DVUA0122 0.61 -0.4
162,093 + yscR DVUA0122 0.74 -0.6
162,094 + yscR DVUA0122 0.74 -0.4
162,116 + yscR DVUA0122 0.78 +0.2
162,174 - yscR DVUA0122 0.86 -0.3
162,243 + +0.1
162,251 - +0.0
162,280 + -0.3
162,380 + DVUA0123 0.26 -1.0
162,402 - DVUA0123 0.33 +0.1
162,450 - DVUA0123 0.47 -0.5
162,491 - DVUA0123 0.59 -1.0
162,543 + DVUA0123 0.75 -0.5

Or see this region's nucleotide sequence