Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06835

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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_RS06840 and HMPREF1058_RS06835 are separated by 128 nucleotidesHMPREF1058_RS06835 and HMPREF1058_RS06830 are separated by 14 nucleotidesHMPREF1058_RS06830 and HMPREF1058_RS06825 are separated by 125 nucleotides HMPREF1058_RS06840: HMPREF1058_RS06840 - HpaII family restriction endonuclease, at 384,934 to 386,022 _RS06840 HMPREF1058_RS06835: HMPREF1058_RS06835 - alpha-amylase family protein, at 386,151 to 387,848 _RS06835 HMPREF1058_RS06830: HMPREF1058_RS06830 - patatin-like phospholipase family protein, at 387,863 to 388,648 _RS06830 HMPREF1058_RS06825: HMPREF1058_RS06825 - ACP S-malonyltransferase, at 388,774 to 389,661 _RS06825 Position (kb) 386 387 388Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 385.247 kb on + strand, within HMPREF1058_RS06840at 385.332 kb on + strand, within HMPREF1058_RS06840at 385.332 kb on + strand, within HMPREF1058_RS06840at 385.334 kb on + strand, within HMPREF1058_RS06840at 385.335 kb on - strand, within HMPREF1058_RS06840at 385.380 kb on + strand, within HMPREF1058_RS06840at 385.380 kb on + strand, within HMPREF1058_RS06840at 385.381 kb on - strand, within HMPREF1058_RS06840at 385.455 kb on + strand, within HMPREF1058_RS06840at 385.461 kb on - strand, within HMPREF1058_RS06840at 385.470 kb on + strand, within HMPREF1058_RS06840at 385.506 kb on + strand, within HMPREF1058_RS06840at 385.507 kb on - strand, within HMPREF1058_RS06840at 385.507 kb on - strand, within HMPREF1058_RS06840at 385.507 kb on - strandat 385.507 kb on - strand, within HMPREF1058_RS06840at 385.517 kb on + strand, within HMPREF1058_RS06840at 385.545 kb on + strand, within HMPREF1058_RS06840at 385.546 kb on - strand, within HMPREF1058_RS06840at 385.589 kb on + strand, within HMPREF1058_RS06840at 385.589 kb on + strand, within HMPREF1058_RS06840at 385.589 kb on + strand, within HMPREF1058_RS06840at 385.729 kb on - strand, within HMPREF1058_RS06840at 385.729 kb on - strand, within HMPREF1058_RS06840at 385.732 kb on + strand, within HMPREF1058_RS06840at 385.735 kb on + strand, within HMPREF1058_RS06840at 385.735 kb on + strand, within HMPREF1058_RS06840at 385.736 kb on - strand, within HMPREF1058_RS06840at 385.743 kb on + strand, within HMPREF1058_RS06840at 385.797 kb on - strand, within HMPREF1058_RS06840at 385.933 kb on - strandat 385.948 kb on + strandat 385.981 kb on + strandat 386.116 kb on + strandat 386.117 kb on - strandat 386.117 kb on - strandat 386.126 kb on - strandat 386.153 kb on - strandat 386.154 kb on + strandat 386.154 kb on + strandat 386.193 kb on + strandat 386.266 kb on + strandat 386.290 kb on - strandat 386.293 kb on + strandat 386.315 kb on + strandat 386.316 kb on - strandat 386.362 kb on - strand, within HMPREF1058_RS06835at 386.362 kb on - strand, within HMPREF1058_RS06835at 386.362 kb on - strand, within HMPREF1058_RS06835at 386.406 kb on - strand, within HMPREF1058_RS06835at 386.415 kb on - strand, within HMPREF1058_RS06835at 386.440 kb on + strand, within HMPREF1058_RS06835at 386.441 kb on - strand, within HMPREF1058_RS06835at 386.445 kb on + strand, within HMPREF1058_RS06835at 386.445 kb on + strand, within HMPREF1058_RS06835at 386.490 kb on + strand, within HMPREF1058_RS06835at 386.509 kb on + strand, within HMPREF1058_RS06835at 386.616 kb on - strand, within HMPREF1058_RS06835at 386.616 kb on - strand, within HMPREF1058_RS06835at 386.772 kb on + strand, within HMPREF1058_RS06835at 386.879 kb on + strand, within HMPREF1058_RS06835at 386.889 kb on + strand, within HMPREF1058_RS06835at 386.889 kb on + strand, within HMPREF1058_RS06835at 386.889 kb on + strand, within HMPREF1058_RS06835at 386.895 kb on - strand, within HMPREF1058_RS06835at 386.895 kb on - strand, within HMPREF1058_RS06835at 386.900 kb on - strand, within HMPREF1058_RS06835at 386.908 kb on - strand, within HMPREF1058_RS06835at 386.918 kb on - strand, within HMPREF1058_RS06835at 386.919 kb on + strand, within HMPREF1058_RS06835at 386.919 kb on + strand, within HMPREF1058_RS06835at 386.920 kb on - strand, within HMPREF1058_RS06835at 386.957 kb on - strand, within HMPREF1058_RS06835at 386.971 kb on + strand, within HMPREF1058_RS06835at 386.972 kb on - strand, within HMPREF1058_RS06835at 387.177 kb on + strand, within HMPREF1058_RS06835at 387.178 kb on - strand, within HMPREF1058_RS06835at 387.270 kb on + strand, within HMPREF1058_RS06835at 387.335 kb on - strand, within HMPREF1058_RS06835at 387.338 kb on - strand, within HMPREF1058_RS06835at 387.397 kb on - strand, within HMPREF1058_RS06835at 387.550 kb on - strand, within HMPREF1058_RS06835at 387.550 kb on - strand, within HMPREF1058_RS06835at 387.550 kb on - strand, within HMPREF1058_RS06835at 387.575 kb on - strand, within HMPREF1058_RS06835at 387.597 kb on + strand, within HMPREF1058_RS06835at 387.597 kb on + strand, within HMPREF1058_RS06835at 387.598 kb on - strand, within HMPREF1058_RS06835at 387.671 kb on + strand, within HMPREF1058_RS06835at 387.813 kb on + strandat 387.820 kb on + strandat 387.821 kb on - strandat 387.821 kb on - strandat 387.828 kb on - strandat 387.920 kb on - strandat 387.973 kb on - strand, within HMPREF1058_RS06830at 388.087 kb on + strand, within HMPREF1058_RS06830at 388.089 kb on + strand, within HMPREF1058_RS06830at 388.188 kb on - strand, within HMPREF1058_RS06830at 388.188 kb on - strand, within HMPREF1058_RS06830at 388.191 kb on + strand, within HMPREF1058_RS06830at 388.191 kb on + strand, within HMPREF1058_RS06830at 388.191 kb on + strand, within HMPREF1058_RS06830at 388.194 kb on + strand, within HMPREF1058_RS06830at 388.194 kb on + strand, within HMPREF1058_RS06830at 388.194 kb on + strand, within HMPREF1058_RS06830at 388.199 kb on - strand, within HMPREF1058_RS06830at 388.199 kb on - strand, within HMPREF1058_RS06830at 388.199 kb on - strand, within HMPREF1058_RS06830at 388.234 kb on + strand, within HMPREF1058_RS06830at 388.318 kb on + strand, within HMPREF1058_RS06830at 388.319 kb on - strand, within HMPREF1058_RS06830at 388.388 kb on - strand, within HMPREF1058_RS06830at 388.494 kb on + strand, within HMPREF1058_RS06830at 388.494 kb on + strand, within HMPREF1058_RS06830at 388.535 kb on + strand, within HMPREF1058_RS06830at 388.573 kb on + strandat 388.631 kb on - strandat 388.632 kb on + strandat 388.664 kb on - strandat 388.729 kb on - strandat 388.743 kb on + strandat 388.754 kb on + strandat 388.755 kb on - strandat 388.757 kb on + strandat 388.758 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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385,247 + HMPREF1058_RS06840 0.29 +1.6
385,332 + HMPREF1058_RS06840 0.37 +0.5
385,332 + HMPREF1058_RS06840 0.37 +0.4
385,334 + HMPREF1058_RS06840 0.37 -0.5
385,335 - HMPREF1058_RS06840 0.37 +1.1
385,380 + HMPREF1058_RS06840 0.41 +1.2
385,380 + HMPREF1058_RS06840 0.41 -0.2
385,381 - HMPREF1058_RS06840 0.41 -0.9
385,455 + HMPREF1058_RS06840 0.48 -0.6
385,461 - HMPREF1058_RS06840 0.48 -0.9
385,470 + HMPREF1058_RS06840 0.49 -0.8
385,506 + HMPREF1058_RS06840 0.53 +1.7
385,507 - HMPREF1058_RS06840 0.53 +1.5
385,507 - HMPREF1058_RS06840 0.53 -2.0
385,507 - +1.6
385,507 - HMPREF1058_RS06840 0.53 +0.1
385,517 + HMPREF1058_RS06840 0.54 -0.4
385,545 + HMPREF1058_RS06840 0.56 +0.4
385,546 - HMPREF1058_RS06840 0.56 +1.3
385,589 + HMPREF1058_RS06840 0.60 -2.0
385,589 + HMPREF1058_RS06840 0.60 +0.6
385,589 + HMPREF1058_RS06840 0.60 +0.5
385,729 - HMPREF1058_RS06840 0.73 -0.0
385,729 - HMPREF1058_RS06840 0.73 -1.2
385,732 + HMPREF1058_RS06840 0.73 -0.3
385,735 + HMPREF1058_RS06840 0.74 +0.8
385,735 + HMPREF1058_RS06840 0.74 -1.3
385,736 - HMPREF1058_RS06840 0.74 -0.4
385,743 + HMPREF1058_RS06840 0.74 +1.8
385,797 - HMPREF1058_RS06840 0.79 -0.2
385,933 - +1.6
385,948 + +0.1
385,981 + +0.6
386,116 + +1.6
386,117 - -0.3
386,117 - +1.0
386,126 - +0.8
386,153 - -1.0
386,154 + -1.4
386,154 + +0.4
386,193 + -3.2
386,266 + -5.1
386,290 - -5.5
386,293 + -3.8
386,315 + -3.7
386,316 - -3.2
386,362 - HMPREF1058_RS06835 0.12 -2.0
386,362 - HMPREF1058_RS06835 0.12 -3.6
386,362 - HMPREF1058_RS06835 0.12 -2.6
386,406 - HMPREF1058_RS06835 0.15 -2.3
386,415 - HMPREF1058_RS06835 0.16 -3.2
386,440 + HMPREF1058_RS06835 0.17 -3.9
386,441 - HMPREF1058_RS06835 0.17 -1.0
386,445 + HMPREF1058_RS06835 0.17 -1.0
386,445 + HMPREF1058_RS06835 0.17 -5.0
386,490 + HMPREF1058_RS06835 0.20 -3.0
386,509 + HMPREF1058_RS06835 0.21 -0.0
386,616 - HMPREF1058_RS06835 0.27 -3.7
386,616 - HMPREF1058_RS06835 0.27 -1.0
386,772 + HMPREF1058_RS06835 0.37 -2.3
386,879 + HMPREF1058_RS06835 0.43 -1.6
386,889 + HMPREF1058_RS06835 0.43 -2.8
386,889 + HMPREF1058_RS06835 0.43 -2.1
386,889 + HMPREF1058_RS06835 0.43 -5.0
386,895 - HMPREF1058_RS06835 0.44 -1.6
386,895 - HMPREF1058_RS06835 0.44 -2.3
386,900 - HMPREF1058_RS06835 0.44 -2.6
386,908 - HMPREF1058_RS06835 0.45 -2.0
386,918 - HMPREF1058_RS06835 0.45 -3.0
386,919 + HMPREF1058_RS06835 0.45 -4.0
386,919 + HMPREF1058_RS06835 0.45 -3.0
386,920 - HMPREF1058_RS06835 0.45 -1.6
386,957 - HMPREF1058_RS06835 0.47 -1.0
386,971 + HMPREF1058_RS06835 0.48 -4.0
386,972 - HMPREF1058_RS06835 0.48 -2.0
387,177 + HMPREF1058_RS06835 0.60 -2.8
387,178 - HMPREF1058_RS06835 0.60 -5.5
387,270 + HMPREF1058_RS06835 0.66 -2.3
387,335 - HMPREF1058_RS06835 0.70 -2.3
387,338 - HMPREF1058_RS06835 0.70 -2.8
387,397 - HMPREF1058_RS06835 0.73 -0.0
387,550 - HMPREF1058_RS06835 0.82 -4.2
387,550 - HMPREF1058_RS06835 0.82 -3.3
387,550 - HMPREF1058_RS06835 0.82 -2.6
387,575 - HMPREF1058_RS06835 0.84 -0.0
387,597 + HMPREF1058_RS06835 0.85 -4.0
387,597 + HMPREF1058_RS06835 0.85 -1.0
387,598 - HMPREF1058_RS06835 0.85 -3.0
387,671 + HMPREF1058_RS06835 0.90 -0.0
387,813 + -3.0
387,820 + -1.6
387,821 - -3.6
387,821 - -1.6
387,828 - -3.3
387,920 - +0.7
387,973 - HMPREF1058_RS06830 0.14 +0.4
388,087 + HMPREF1058_RS06830 0.28 -2.3
388,089 + HMPREF1058_RS06830 0.29 -0.0
388,188 - HMPREF1058_RS06830 0.41 -0.3
388,188 - HMPREF1058_RS06830 0.41 +3.3
388,191 + HMPREF1058_RS06830 0.42 -1.0
388,191 + HMPREF1058_RS06830 0.42 -3.5
388,191 + HMPREF1058_RS06830 0.42 -4.3
388,194 + HMPREF1058_RS06830 0.42 -2.3
388,194 + HMPREF1058_RS06830 0.42 -5.0
388,194 + HMPREF1058_RS06830 0.42 -2.0
388,199 - HMPREF1058_RS06830 0.43 +1.3
388,199 - HMPREF1058_RS06830 0.43 +1.4
388,199 - HMPREF1058_RS06830 0.43 +1.3
388,234 + HMPREF1058_RS06830 0.47 -1.6
388,318 + HMPREF1058_RS06830 0.58 -1.8
388,319 - HMPREF1058_RS06830 0.58 +0.7
388,388 - HMPREF1058_RS06830 0.67 +0.7
388,494 + HMPREF1058_RS06830 0.80 -4.2
388,494 + HMPREF1058_RS06830 0.80 -2.8
388,535 + HMPREF1058_RS06830 0.85 -1.0
388,573 + -2.0
388,631 - +1.7
388,632 + -2.3
388,664 - -0.0
388,729 - +1.6
388,743 + -0.1
388,754 + +0.6
388,755 - -0.3
388,757 + -0.2
388,758 - +1.7

Or see this region's nucleotide sequence