Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01465

Experiment: Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)

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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_RS01475 and HMPREF1058_RS01470 are separated by 26 nucleotidesHMPREF1058_RS01470 and HMPREF1058_RS01465 are separated by 19 nucleotidesHMPREF1058_RS01465 and HMPREF1058_RS01460 are separated by 124 nucleotides HMPREF1058_RS01475: HMPREF1058_RS01475 - hypothetical protein, at 117,169 to 117,375 _RS01475 HMPREF1058_RS01470: HMPREF1058_RS01470 - hypothetical protein, at 117,402 to 117,959 _RS01470 HMPREF1058_RS01465: HMPREF1058_RS01465 - putative transporter, at 117,979 to 119,667 _RS01465 HMPREF1058_RS01460: HMPREF1058_RS01460 - acyl-CoA carboxylase subunit beta, at 119,792 to 121,324 _RS01460 Position (kb) 117 118 119 120Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 117.013 kb on + strandat 117.161 kb on + strandat 117.164 kb on + strandat 117.164 kb on + strandat 117.190 kb on - strand, within HMPREF1058_RS01475at 117.295 kb on + strand, within HMPREF1058_RS01475at 117.295 kb on + strand, within HMPREF1058_RS01475at 117.350 kb on - strand, within HMPREF1058_RS01475at 117.377 kb on + strandat 117.512 kb on + strand, within HMPREF1058_RS01470at 117.513 kb on - strand, within HMPREF1058_RS01470at 117.513 kb on - strand, within HMPREF1058_RS01470at 117.617 kb on - strand, within HMPREF1058_RS01470at 117.621 kb on + strand, within HMPREF1058_RS01470at 117.662 kb on + strand, within HMPREF1058_RS01470at 117.698 kb on + strand, within HMPREF1058_RS01470at 117.709 kb on + strand, within HMPREF1058_RS01470at 117.711 kb on + strand, within HMPREF1058_RS01470at 117.711 kb on + strand, within HMPREF1058_RS01470at 117.712 kb on - strand, within HMPREF1058_RS01470at 117.733 kb on - strand, within HMPREF1058_RS01470at 117.806 kb on - strand, within HMPREF1058_RS01470at 117.806 kb on - strand, within HMPREF1058_RS01470at 117.832 kb on + strand, within HMPREF1058_RS01470at 117.832 kb on + strand, within HMPREF1058_RS01470at 117.916 kb on - strandat 117.927 kb on + strandat 118.113 kb on + strandat 118.148 kb on + strand, within HMPREF1058_RS01465at 118.152 kb on - strand, within HMPREF1058_RS01465at 118.223 kb on + strand, within HMPREF1058_RS01465at 118.227 kb on + strand, within HMPREF1058_RS01465at 118.239 kb on - strand, within HMPREF1058_RS01465at 118.356 kb on - strand, within HMPREF1058_RS01465at 118.423 kb on + strand, within HMPREF1058_RS01465at 118.470 kb on + strand, within HMPREF1058_RS01465at 118.482 kb on + strand, within HMPREF1058_RS01465at 118.490 kb on - strand, within HMPREF1058_RS01465at 118.594 kb on + strand, within HMPREF1058_RS01465at 118.727 kb on - strand, within HMPREF1058_RS01465at 118.762 kb on - strand, within HMPREF1058_RS01465at 118.819 kb on - strand, within HMPREF1058_RS01465at 118.869 kb on + strand, within HMPREF1058_RS01465at 118.874 kb on - strand, within HMPREF1058_RS01465at 118.966 kb on + strand, within HMPREF1058_RS01465at 118.966 kb on + strand, within HMPREF1058_RS01465at 118.991 kb on - strand, within HMPREF1058_RS01465at 119.094 kb on + strand, within HMPREF1058_RS01465at 119.095 kb on - strand, within HMPREF1058_RS01465at 119.163 kb on - strand, within HMPREF1058_RS01465at 119.188 kb on + strand, within HMPREF1058_RS01465at 119.189 kb on - strand, within HMPREF1058_RS01465at 119.198 kb on - strand, within HMPREF1058_RS01465at 119.320 kb on + strand, within HMPREF1058_RS01465at 119.611 kb on + strandat 119.667 kb on + strandat 119.667 kb on + strandat 119.668 kb on - strandat 119.804 kb on - strandat 119.872 kb on + strandat 119.967 kb on - strand, within HMPREF1058_RS01460at 120.102 kb on + strand, within HMPREF1058_RS01460at 120.132 kb on - strand, within HMPREF1058_RS01460at 120.152 kb on - strand, within HMPREF1058_RS01460

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
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117,013 + -1.0
117,161 + -0.8
117,164 + +1.3
117,164 + +0.9
117,190 - HMPREF1058_RS01475 0.10 +0.0
117,295 + HMPREF1058_RS01475 0.61 -1.1
117,295 + HMPREF1058_RS01475 0.61 -0.2
117,350 - HMPREF1058_RS01475 0.87 -0.6
117,377 + +0.3
117,512 + HMPREF1058_RS01470 0.20 +1.7
117,513 - HMPREF1058_RS01470 0.20 +1.9
117,513 - HMPREF1058_RS01470 0.20 -1.9
117,617 - HMPREF1058_RS01470 0.39 -2.2
117,621 + HMPREF1058_RS01470 0.39 +0.8
117,662 + HMPREF1058_RS01470 0.47 -0.8
117,698 + HMPREF1058_RS01470 0.53 -2.1
117,709 + HMPREF1058_RS01470 0.55 +0.9
117,711 + HMPREF1058_RS01470 0.55 -1.8
117,711 + HMPREF1058_RS01470 0.55 +1.0
117,712 - HMPREF1058_RS01470 0.56 -0.5
117,733 - HMPREF1058_RS01470 0.59 +1.9
117,806 - HMPREF1058_RS01470 0.72 +1.0
117,806 - HMPREF1058_RS01470 0.72 -0.3
117,832 + HMPREF1058_RS01470 0.77 -0.1
117,832 + HMPREF1058_RS01470 0.77 -2.8
117,916 - +0.2
117,927 + +0.5
118,113 + -0.3
118,148 + HMPREF1058_RS01465 0.10 -1.7
118,152 - HMPREF1058_RS01465 0.10 -2.0
118,223 + HMPREF1058_RS01465 0.14 +1.0
118,227 + HMPREF1058_RS01465 0.15 +0.6
118,239 - HMPREF1058_RS01465 0.15 -1.6
118,356 - HMPREF1058_RS01465 0.22 -2.5
118,423 + HMPREF1058_RS01465 0.26 -0.4
118,470 + HMPREF1058_RS01465 0.29 -0.8
118,482 + HMPREF1058_RS01465 0.30 -2.1
118,490 - HMPREF1058_RS01465 0.30 -0.8
118,594 + HMPREF1058_RS01465 0.36 -0.6
118,727 - HMPREF1058_RS01465 0.44 -1.6
118,762 - HMPREF1058_RS01465 0.46 -0.6
118,819 - HMPREF1058_RS01465 0.50 -1.3
118,869 + HMPREF1058_RS01465 0.53 +0.9
118,874 - HMPREF1058_RS01465 0.53 -0.3
118,966 + HMPREF1058_RS01465 0.58 +0.9
118,966 + HMPREF1058_RS01465 0.58 +0.3
118,991 - HMPREF1058_RS01465 0.60 -1.7
119,094 + HMPREF1058_RS01465 0.66 +0.4
119,095 - HMPREF1058_RS01465 0.66 -1.2
119,163 - HMPREF1058_RS01465 0.70 -0.9
119,188 + HMPREF1058_RS01465 0.72 -0.4
119,189 - HMPREF1058_RS01465 0.72 -2.0
119,198 - HMPREF1058_RS01465 0.72 -1.1
119,320 + HMPREF1058_RS01465 0.79 -1.4
119,611 + -0.1
119,667 + +1.0
119,667 + -0.5
119,668 - +0.2
119,804 - -1.0
119,872 + +1.9
119,967 - HMPREF1058_RS01460 0.11 -0.3
120,102 + HMPREF1058_RS01460 0.20 -0.3
120,132 - HMPREF1058_RS01460 0.22 -0.7
120,152 - HMPREF1058_RS01460 0.23 -0.6

Or see this region's nucleotide sequence