Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06365

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9

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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_RS06370 and HMPREF1058_RS06365 are separated by 257 nucleotidesHMPREF1058_RS06365 and HMPREF1058_RS06360 are separated by 36 nucleotides HMPREF1058_RS06370: HMPREF1058_RS06370 - glutamate decarboxylase, at 496,022 to 497,470 _RS06370 HMPREF1058_RS06365: HMPREF1058_RS06365 - MFS transporter, at 497,728 to 498,918 _RS06365 HMPREF1058_RS06360: HMPREF1058_RS06360 - DMT family transporter, at 498,955 to 499,869 _RS06360 Position (kb) 497 498 499Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 496.782 kb on + strand, within HMPREF1058_RS06370at 496.812 kb on - strand, within HMPREF1058_RS06370at 496.932 kb on - strand, within HMPREF1058_RS06370at 497.008 kb on + strand, within HMPREF1058_RS06370at 497.008 kb on + strand, within HMPREF1058_RS06370at 497.083 kb on + strand, within HMPREF1058_RS06370at 497.083 kb on + strand, within HMPREF1058_RS06370at 497.170 kb on + strand, within HMPREF1058_RS06370at 497.220 kb on + strand, within HMPREF1058_RS06370at 497.221 kb on - strandat 497.271 kb on + strand, within HMPREF1058_RS06370at 497.406 kb on + strandat 497.458 kb on + strandat 497.459 kb on - strandat 497.632 kb on - strandat 497.632 kb on - strandat 497.632 kb on - strandat 497.735 kb on + strandat 497.766 kb on + strandat 497.774 kb on + strandat 497.775 kb on - strandat 497.778 kb on + strandat 497.778 kb on + strandat 497.780 kb on + strandat 497.979 kb on - strand, within HMPREF1058_RS06365at 498.205 kb on + strand, within HMPREF1058_RS06365at 498.322 kb on - strand, within HMPREF1058_RS06365at 498.426 kb on + strand, within HMPREF1058_RS06365at 498.494 kb on + strand, within HMPREF1058_RS06365at 498.540 kb on + strand, within HMPREF1058_RS06365at 498.571 kb on + strand, within HMPREF1058_RS06365at 498.571 kb on + strand, within HMPREF1058_RS06365at 498.571 kb on + strand, within HMPREF1058_RS06365at 498.572 kb on - strand, within HMPREF1058_RS06365at 498.594 kb on - strand, within HMPREF1058_RS06365at 498.681 kb on + strand, within HMPREF1058_RS06365at 498.856 kb on - strandat 498.917 kb on - strandat 498.926 kb on - strandat 498.934 kb on - strandat 498.937 kb on - strandat 498.941 kb on + strandat 498.941 kb on + strandat 498.954 kb on + strandat 499.018 kb on - strandat 499.085 kb on + strand, within HMPREF1058_RS06360at 499.116 kb on + strand, within HMPREF1058_RS06360at 499.168 kb on - strand, within HMPREF1058_RS06360at 499.182 kb on - strand, within HMPREF1058_RS06360at 499.186 kb on - strand, within HMPREF1058_RS06360at 499.190 kb on - strand, within HMPREF1058_RS06360at 499.190 kb on - strand, within HMPREF1058_RS06360at 499.190 kb on - strand, within HMPREF1058_RS06360at 499.269 kb on + strand, within HMPREF1058_RS06360at 499.269 kb on + strand, within HMPREF1058_RS06360at 499.270 kb on - strand, within HMPREF1058_RS06360at 499.270 kb on - strand, within HMPREF1058_RS06360at 499.365 kb on - strand, within HMPREF1058_RS06360at 499.383 kb on + strand, within HMPREF1058_RS06360at 499.482 kb on - strand, within HMPREF1058_RS06360at 499.508 kb on + strand, within HMPREF1058_RS06360at 499.579 kb on - strand, within HMPREF1058_RS06360at 499.579 kb on - strand, within HMPREF1058_RS06360at 499.654 kb on + strand, within HMPREF1058_RS06360at 499.658 kb on + strand, within HMPREF1058_RS06360at 499.701 kb on - strand, within HMPREF1058_RS06360at 499.718 kb on + strand, within HMPREF1058_RS06360at 499.718 kb on + strand, within HMPREF1058_RS06360at 499.719 kb on - strand, within HMPREF1058_RS06360at 499.719 kb on - strand, within HMPREF1058_RS06360at 499.829 kb on + strandat 499.842 kb on + strandat 499.867 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9
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496,782 + HMPREF1058_RS06370 0.52 +0.5
496,812 - HMPREF1058_RS06370 0.55 -2.9
496,932 - HMPREF1058_RS06370 0.63 +0.0
497,008 + HMPREF1058_RS06370 0.68 -0.7
497,008 + HMPREF1058_RS06370 0.68 -0.4
497,083 + HMPREF1058_RS06370 0.73 +0.0
497,083 + HMPREF1058_RS06370 0.73 -1.8
497,170 + HMPREF1058_RS06370 0.79 -2.5
497,220 + HMPREF1058_RS06370 0.83 -2.0
497,221 - +0.4
497,271 + HMPREF1058_RS06370 0.86 -0.6
497,406 + +0.8
497,458 + -0.0
497,459 - +0.2
497,632 - +1.8
497,632 - +0.6
497,632 - +1.1
497,735 + -2.4
497,766 + +0.5
497,774 + +0.6
497,775 - +0.5
497,778 + -0.5
497,778 + +0.2
497,780 + +2.2
497,979 - HMPREF1058_RS06365 0.21 -1.6
498,205 + HMPREF1058_RS06365 0.40 -0.4
498,322 - HMPREF1058_RS06365 0.50 +0.3
498,426 + HMPREF1058_RS06365 0.59 -0.7
498,494 + HMPREF1058_RS06365 0.64 -0.2
498,540 + HMPREF1058_RS06365 0.68 -0.6
498,571 + HMPREF1058_RS06365 0.71 +0.8
498,571 + HMPREF1058_RS06365 0.71 -1.4
498,571 + HMPREF1058_RS06365 0.71 +1.7
498,572 - HMPREF1058_RS06365 0.71 -0.3
498,594 - HMPREF1058_RS06365 0.73 +0.7
498,681 + HMPREF1058_RS06365 0.80 +2.0
498,856 - +0.6
498,917 - -0.8
498,926 - +0.9
498,934 - -1.2
498,937 - +0.2
498,941 + +0.3
498,941 + -1.4
498,954 + +0.2
499,018 - -0.2
499,085 + HMPREF1058_RS06360 0.14 -0.4
499,116 + HMPREF1058_RS06360 0.18 +1.4
499,168 - HMPREF1058_RS06360 0.23 +1.4
499,182 - HMPREF1058_RS06360 0.25 -1.2
499,186 - HMPREF1058_RS06360 0.25 -2.3
499,190 - HMPREF1058_RS06360 0.26 +0.4
499,190 - HMPREF1058_RS06360 0.26 -1.3
499,190 - HMPREF1058_RS06360 0.26 -1.3
499,269 + HMPREF1058_RS06360 0.34 +0.3
499,269 + HMPREF1058_RS06360 0.34 +0.6
499,270 - HMPREF1058_RS06360 0.34 -0.7
499,270 - HMPREF1058_RS06360 0.34 +1.8
499,365 - HMPREF1058_RS06360 0.45 -0.4
499,383 + HMPREF1058_RS06360 0.47 -0.4
499,482 - HMPREF1058_RS06360 0.58 -0.8
499,508 + HMPREF1058_RS06360 0.60 +0.4
499,579 - HMPREF1058_RS06360 0.68 -2.0
499,579 - HMPREF1058_RS06360 0.68 -0.4
499,654 + HMPREF1058_RS06360 0.76 +0.3
499,658 + HMPREF1058_RS06360 0.77 -1.4
499,701 - HMPREF1058_RS06360 0.82 +0.8
499,718 + HMPREF1058_RS06360 0.83 -1.7
499,718 + HMPREF1058_RS06360 0.83 -2.5
499,719 - HMPREF1058_RS06360 0.83 -0.8
499,719 - HMPREF1058_RS06360 0.83 -3.8
499,829 + -1.2
499,842 + +1.5
499,867 + -0.9

Or see this region's nucleotide sequence