Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03380

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day6

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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 ntHMPREF1058_RS03385 and HMPREF1058_RS03380 are separated by 3 nucleotidesHMPREF1058_RS03380 and HMPREF1058_RS03375 are separated by 17 nucleotides HMPREF1058_RS03385: HMPREF1058_RS03385 - ATP-grasp domain-containing protein, at 290,647 to 291,852 _RS03385 HMPREF1058_RS03380: HMPREF1058_RS03380 - DegT/DnrJ/EryC1/StrS family aminotransferase, at 291,856 to 292,965 _RS03380 HMPREF1058_RS03375: HMPREF1058_RS03375 - lipopolysaccharide biosynthesis protein, at 292,983 to 294,416 _RS03375 Position (kb) 291 292 293Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 290.897 kb on + strand, within HMPREF1058_RS03385at 290.897 kb on + strand, within HMPREF1058_RS03385at 290.898 kb on - strand, within HMPREF1058_RS03385at 290.898 kb on - strand, within HMPREF1058_RS03385at 291.035 kb on + strand, within HMPREF1058_RS03385at 291.036 kb on - strand, within HMPREF1058_RS03385at 291.055 kb on + strand, within HMPREF1058_RS03385at 291.056 kb on - strand, within HMPREF1058_RS03385at 291.073 kb on - strand, within HMPREF1058_RS03385at 291.148 kb on - strand, within HMPREF1058_RS03385at 291.310 kb on - strand, within HMPREF1058_RS03385at 291.324 kb on + strand, within HMPREF1058_RS03385at 291.498 kb on + strand, within HMPREF1058_RS03385at 291.547 kb on + strand, within HMPREF1058_RS03385at 291.583 kb on - strand, within HMPREF1058_RS03385at 291.652 kb on + strand, within HMPREF1058_RS03385at 291.695 kb on - strand, within HMPREF1058_RS03385at 291.696 kb on + strand, within HMPREF1058_RS03385at 291.724 kb on - strand, within HMPREF1058_RS03385at 291.729 kb on + strand, within HMPREF1058_RS03385at 291.753 kb on - strandat 291.880 kb on - strandat 291.946 kb on - strandat 292.010 kb on - strand, within HMPREF1058_RS03380at 292.010 kb on - strand, within HMPREF1058_RS03380at 292.025 kb on + strand, within HMPREF1058_RS03380at 292.025 kb on + strand, within HMPREF1058_RS03380at 292.088 kb on + strand, within HMPREF1058_RS03380at 292.199 kb on - strand, within HMPREF1058_RS03380at 292.350 kb on + strand, within HMPREF1058_RS03380at 292.401 kb on + strand, within HMPREF1058_RS03380at 292.401 kb on + strand, within HMPREF1058_RS03380at 292.401 kb on + strand, within HMPREF1058_RS03380at 292.406 kb on + strand, within HMPREF1058_RS03380at 292.407 kb on - strand, within HMPREF1058_RS03380at 292.407 kb on - strand, within HMPREF1058_RS03380at 292.441 kb on - strand, within HMPREF1058_RS03380at 292.503 kb on - strand, within HMPREF1058_RS03380at 292.520 kb on + strand, within HMPREF1058_RS03380at 292.521 kb on - strand, within HMPREF1058_RS03380at 292.571 kb on - strand, within HMPREF1058_RS03380at 292.639 kb on - strand, within HMPREF1058_RS03380at 292.803 kb on + strand, within HMPREF1058_RS03380at 293.054 kb on - strandat 293.095 kb on + strandat 293.190 kb on - strand, within HMPREF1058_RS03375at 293.202 kb on + strand, within HMPREF1058_RS03375at 293.333 kb on + strand, within HMPREF1058_RS03375at 293.678 kb on + strand, within HMPREF1058_RS03375at 293.679 kb on - strand, within HMPREF1058_RS03375at 293.679 kb on - strand, within HMPREF1058_RS03375at 293.680 kb on + strand, within HMPREF1058_RS03375at 293.680 kb on + strand, within HMPREF1058_RS03375at 293.729 kb on - strand, within HMPREF1058_RS03375at 293.729 kb on - strand, within HMPREF1058_RS03375at 293.732 kb on + strand, within HMPREF1058_RS03375at 293.732 kb on + strand, within HMPREF1058_RS03375at 293.741 kb on - strand, within HMPREF1058_RS03375at 293.815 kb on + strand, within HMPREF1058_RS03375at 293.854 kb on - strand, within HMPREF1058_RS03375at 293.893 kb on - strand, within HMPREF1058_RS03375at 293.929 kb on - strand, within HMPREF1058_RS03375

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day6
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290,897 + HMPREF1058_RS03385 0.21 -1.6
290,897 + HMPREF1058_RS03385 0.21 -1.1
290,898 - HMPREF1058_RS03385 0.21 -1.5
290,898 - HMPREF1058_RS03385 0.21 -0.9
291,035 + HMPREF1058_RS03385 0.32 -1.3
291,036 - HMPREF1058_RS03385 0.32 -3.1
291,055 + HMPREF1058_RS03385 0.34 -0.0
291,056 - HMPREF1058_RS03385 0.34 +0.3
291,073 - HMPREF1058_RS03385 0.35 -1.1
291,148 - HMPREF1058_RS03385 0.42 -1.6
291,310 - HMPREF1058_RS03385 0.55 -3.4
291,324 + HMPREF1058_RS03385 0.56 -0.7
291,498 + HMPREF1058_RS03385 0.71 +0.1
291,547 + HMPREF1058_RS03385 0.75 +0.3
291,583 - HMPREF1058_RS03385 0.78 -1.3
291,652 + HMPREF1058_RS03385 0.83 -1.3
291,695 - HMPREF1058_RS03385 0.87 -2.8
291,696 + HMPREF1058_RS03385 0.87 -1.7
291,724 - HMPREF1058_RS03385 0.89 -1.5
291,729 + HMPREF1058_RS03385 0.90 +0.7
291,753 - +0.7
291,880 - +0.7
291,946 - -1.1
292,010 - HMPREF1058_RS03380 0.14 -0.4
292,010 - HMPREF1058_RS03380 0.14 -0.7
292,025 + HMPREF1058_RS03380 0.15 -0.4
292,025 + HMPREF1058_RS03380 0.15 -2.3
292,088 + HMPREF1058_RS03380 0.21 +0.2
292,199 - HMPREF1058_RS03380 0.31 -2.8
292,350 + HMPREF1058_RS03380 0.45 -0.5
292,401 + HMPREF1058_RS03380 0.49 +0.3
292,401 + HMPREF1058_RS03380 0.49 -1.3
292,401 + HMPREF1058_RS03380 0.49 -0.6
292,406 + HMPREF1058_RS03380 0.50 +0.3
292,407 - HMPREF1058_RS03380 0.50 -0.5
292,407 - HMPREF1058_RS03380 0.50 -2.3
292,441 - HMPREF1058_RS03380 0.53 -0.5
292,503 - HMPREF1058_RS03380 0.58 +0.4
292,520 + HMPREF1058_RS03380 0.60 +0.1
292,521 - HMPREF1058_RS03380 0.60 -2.0
292,571 - HMPREF1058_RS03380 0.64 +1.6
292,639 - HMPREF1058_RS03380 0.71 -0.4
292,803 + HMPREF1058_RS03380 0.85 -0.6
293,054 - +1.3
293,095 + -2.8
293,190 - HMPREF1058_RS03375 0.14 +1.9
293,202 + HMPREF1058_RS03375 0.15 +1.1
293,333 + HMPREF1058_RS03375 0.24 +0.6
293,678 + HMPREF1058_RS03375 0.48 -0.4
293,679 - HMPREF1058_RS03375 0.49 +1.1
293,679 - HMPREF1058_RS03375 0.49 -1.3
293,680 + HMPREF1058_RS03375 0.49 +0.1
293,680 + HMPREF1058_RS03375 0.49 +0.1
293,729 - HMPREF1058_RS03375 0.52 +0.3
293,729 - HMPREF1058_RS03375 0.52 +1.2
293,732 + HMPREF1058_RS03375 0.52 -0.8
293,732 + HMPREF1058_RS03375 0.52 +2.4
293,741 - HMPREF1058_RS03375 0.53 -1.7
293,815 + HMPREF1058_RS03375 0.58 +1.7
293,854 - HMPREF1058_RS03375 0.61 -2.5
293,893 - HMPREF1058_RS03375 0.63 +0.3
293,929 - HMPREF1058_RS03375 0.66 +1.7

Or see this region's nucleotide sequence