Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS09680

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day5

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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_RS09685 and HMPREF1058_RS09680 are separated by 141 nucleotidesHMPREF1058_RS09680 and HMPREF1058_RS09675 are separated by 66 nucleotidesHMPREF1058_RS09675 and HMPREF1058_RS09670 are separated by 32 nucleotides HMPREF1058_RS09685: HMPREF1058_RS09685 - tetratricopeptide repeat protein, at 821,145 to 822,821 _RS09685 HMPREF1058_RS09680: HMPREF1058_RS09680 - site-specific tyrosine recombinase XerD, at 822,963 to 823,904 _RS09680 HMPREF1058_RS09675: HMPREF1058_RS09675 - type II 3-dehydroquinate dehydratase, at 823,971 to 824,393 _RS09675 HMPREF1058_RS09670: HMPREF1058_RS09670 - pyruvate kinase, at 824,426 to 825,889 _RS09670 Position (kb) 822 823 824Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2at 821.985 kb on - strand, within HMPREF1058_RS09685at 822.026 kb on - strand, within HMPREF1058_RS09685at 822.026 kb on - strand, within HMPREF1058_RS09685at 822.041 kb on + strand, within HMPREF1058_RS09685at 822.079 kb on + strand, within HMPREF1058_RS09685at 822.080 kb on - strand, within HMPREF1058_RS09685at 822.182 kb on - strand, within HMPREF1058_RS09685at 822.340 kb on + strand, within HMPREF1058_RS09685at 822.416 kb on + strand, within HMPREF1058_RS09685at 822.416 kb on + strand, within HMPREF1058_RS09685at 822.417 kb on - strand, within HMPREF1058_RS09685at 822.421 kb on + strand, within HMPREF1058_RS09685at 822.488 kb on - strand, within HMPREF1058_RS09685at 822.529 kb on + strand, within HMPREF1058_RS09685at 822.530 kb on - strand, within HMPREF1058_RS09685at 822.675 kb on - strandat 822.805 kb on + strandat 822.806 kb on - strandat 822.821 kb on + strandat 822.825 kb on + strandat 822.825 kb on + strandat 822.825 kb on + strandat 822.826 kb on - strandat 822.861 kb on + strandat 822.863 kb on + strandat 822.899 kb on - strandat 822.913 kb on + strandat 822.914 kb on - strandat 822.915 kb on + strandat 822.915 kb on + strandat 822.915 kb on + strandat 822.916 kb on - strandat 822.916 kb on - strandat 822.983 kb on + strandat 823.039 kb on - strandat 823.055 kb on + strandat 823.100 kb on + strand, within HMPREF1058_RS09680at 823.100 kb on + strand, within HMPREF1058_RS09680at 823.101 kb on - strand, within HMPREF1058_RS09680at 823.101 kb on - strand, within HMPREF1058_RS09680at 823.101 kb on - strand, within HMPREF1058_RS09680at 823.101 kb on - strandat 823.321 kb on + strand, within HMPREF1058_RS09680at 823.355 kb on + strand, within HMPREF1058_RS09680at 823.377 kb on - strand, within HMPREF1058_RS09680at 823.469 kb on - strand, within HMPREF1058_RS09680at 823.543 kb on - strand, within HMPREF1058_RS09680at 823.810 kb on + strandat 823.810 kb on + strandat 823.811 kb on - strandat 823.819 kb on - strandat 823.856 kb on - strandat 823.959 kb on + strandat 823.964 kb on + strandat 823.966 kb on + strandat 823.997 kb on + strandat 824.078 kb on + strand, within HMPREF1058_RS09675at 824.193 kb on + strand, within HMPREF1058_RS09675at 824.195 kb on + strand, within HMPREF1058_RS09675at 824.201 kb on + strand, within HMPREF1058_RS09675at 824.201 kb on + strand, within HMPREF1058_RS09675at 824.201 kb on + strand, within HMPREF1058_RS09675at 824.400 kb on + strandat 824.409 kb on + strandat 824.409 kb on + strandat 824.425 kb on + strandat 824.512 kb on + strandat 824.734 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day5
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821,985 - HMPREF1058_RS09685 0.50 -4.9
822,026 - HMPREF1058_RS09685 0.53 -1.8
822,026 - HMPREF1058_RS09685 0.53 -1.2
822,041 + HMPREF1058_RS09685 0.53 -3.2
822,079 + HMPREF1058_RS09685 0.56 -2.6
822,080 - HMPREF1058_RS09685 0.56 -2.6
822,182 - HMPREF1058_RS09685 0.62 -3.7
822,340 + HMPREF1058_RS09685 0.71 -2.2
822,416 + HMPREF1058_RS09685 0.76 -4.1
822,416 + HMPREF1058_RS09685 0.76 -6.6
822,417 - HMPREF1058_RS09685 0.76 -4.0
822,421 + HMPREF1058_RS09685 0.76 -4.6
822,488 - HMPREF1058_RS09685 0.80 -3.7
822,529 + HMPREF1058_RS09685 0.83 -4.8
822,530 - HMPREF1058_RS09685 0.83 -4.6
822,675 - -4.0
822,805 + -2.2
822,806 - -4.2
822,821 + -4.6
822,825 + -3.4
822,825 + -4.2
822,825 + -1.2
822,826 - -3.2
822,861 + -2.8
822,863 + -4.6
822,899 - -0.8
822,913 + -3.1
822,914 - -2.6
822,915 + -4.1
822,915 + -1.8
822,915 + -2.6
822,916 - -2.6
822,916 - -2.0
822,983 + -1.8
823,039 - -0.8
823,055 + -2.6
823,100 + HMPREF1058_RS09680 0.15 -2.1
823,100 + HMPREF1058_RS09680 0.15 -2.6
823,101 - HMPREF1058_RS09680 0.15 -0.2
823,101 - HMPREF1058_RS09680 0.15 -1.8
823,101 - HMPREF1058_RS09680 0.15 -1.8
823,101 - -0.2
823,321 + HMPREF1058_RS09680 0.38 -0.2
823,355 + HMPREF1058_RS09680 0.42 -2.6
823,377 - HMPREF1058_RS09680 0.44 -3.2
823,469 - HMPREF1058_RS09680 0.54 -1.8
823,543 - HMPREF1058_RS09680 0.62 -4.1
823,810 + -3.6
823,810 + -3.0
823,811 - -0.7
823,819 - -1.9
823,856 - -1.3
823,959 + +1.9
823,964 + +1.7
823,966 + +0.8
823,997 + -2.3
824,078 + HMPREF1058_RS09675 0.25 -3.5
824,193 + HMPREF1058_RS09675 0.52 +0.5
824,195 + HMPREF1058_RS09675 0.53 -1.8
824,201 + HMPREF1058_RS09675 0.54 -3.6
824,201 + HMPREF1058_RS09675 0.54 -3.3
824,201 + HMPREF1058_RS09675 0.54 -4.2
824,400 + -1.0
824,409 + -0.3
824,409 + -2.3
824,425 + -1.3
824,512 + -1.8
824,734 + -1.3

Or see this region's nucleotide sequence