Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS15945

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; day3

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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_RS15950 and HMPREF1058_RS15945 are separated by 242 nucleotidesHMPREF1058_RS15945 and HMPREF1058_RS15940 are separated by 104 nucleotides HMPREF1058_RS15950: HMPREF1058_RS15950 - TonB-dependent receptor, at 798,380 to 801,418 _RS15950 HMPREF1058_RS15945: HMPREF1058_RS15945 - helix-turn-helix domain-containing protein, at 801,661 to 804,480 _RS15945 HMPREF1058_RS15940: HMPREF1058_RS15940 - carboxylating nicotinate-nucleotide diphosphorylase, at 804,585 to 805,436 _RS15940 Position (kb) 801 802 803 804 805Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3 4 5 6at 800.689 kb on - strand, within HMPREF1058_RS15950at 800.726 kb on - strand, within HMPREF1058_RS15950at 800.803 kb on + strand, within HMPREF1058_RS15950at 800.912 kb on + strand, within HMPREF1058_RS15950at 800.912 kb on + strand, within HMPREF1058_RS15950at 800.983 kb on + strand, within HMPREF1058_RS15950at 800.993 kb on - strand, within HMPREF1058_RS15950at 801.079 kb on + strand, within HMPREF1058_RS15950at 801.079 kb on + strand, within HMPREF1058_RS15950at 801.092 kb on - strand, within HMPREF1058_RS15950at 801.092 kb on - strand, within HMPREF1058_RS15950at 801.094 kb on - strand, within HMPREF1058_RS15950at 801.102 kb on + strand, within HMPREF1058_RS15950at 801.102 kb on + strand, within HMPREF1058_RS15950at 801.102 kb on + strand, within HMPREF1058_RS15950at 801.103 kb on - strand, within HMPREF1058_RS15950at 801.251 kb on - strandat 801.269 kb on + strandat 801.270 kb on - strandat 801.276 kb on - strandat 801.329 kb on + strandat 801.330 kb on - strandat 801.331 kb on + strandat 801.332 kb on - strandat 801.370 kb on - strandat 801.392 kb on - strandat 801.476 kb on + strandat 801.477 kb on - strandat 801.510 kb on - strandat 801.587 kb on + strandat 801.679 kb on - strandat 801.680 kb on + strandat 801.680 kb on + strandat 801.683 kb on + strandat 801.686 kb on - strandat 801.686 kb on - strandat 801.687 kb on + strandat 801.690 kb on + strandat 801.691 kb on - strandat 801.734 kb on - strandat 801.784 kb on - strandat 801.844 kb on + strandat 801.907 kb on - strandat 801.907 kb on - strandat 801.929 kb on + strandat 801.930 kb on - strandat 801.942 kb on - strandat 801.980 kb on + strand, within HMPREF1058_RS15945at 801.983 kb on - strand, within HMPREF1058_RS15945at 802.026 kb on + strand, within HMPREF1058_RS15945at 802.027 kb on - strand, within HMPREF1058_RS15945at 802.056 kb on + strand, within HMPREF1058_RS15945at 802.056 kb on + strand, within HMPREF1058_RS15945at 802.057 kb on - strand, within HMPREF1058_RS15945at 802.057 kb on - strand, within HMPREF1058_RS15945at 802.058 kb on + strand, within HMPREF1058_RS15945at 802.092 kb on + strand, within HMPREF1058_RS15945at 802.093 kb on - strand, within HMPREF1058_RS15945at 802.123 kb on + strand, within HMPREF1058_RS15945at 802.124 kb on - strand, within HMPREF1058_RS15945at 802.225 kb on - strand, within HMPREF1058_RS15945at 802.225 kb on - strand, within HMPREF1058_RS15945at 802.228 kb on + strand, within HMPREF1058_RS15945at 802.229 kb on - strand, within HMPREF1058_RS15945at 802.229 kb on - strand, within HMPREF1058_RS15945at 802.286 kb on + strand, within HMPREF1058_RS15945at 802.300 kb on + strand, within HMPREF1058_RS15945at 802.318 kb on + strand, within HMPREF1058_RS15945at 802.319 kb on - strand, within HMPREF1058_RS15945at 802.319 kb on - strand, within HMPREF1058_RS15945at 802.319 kb on - strand, within HMPREF1058_RS15945at 802.322 kb on + strand, within HMPREF1058_RS15945at 802.322 kb on + strand, within HMPREF1058_RS15945at 802.322 kb on + strand, within HMPREF1058_RS15945at 802.357 kb on + strand, within HMPREF1058_RS15945at 802.358 kb on - strand, within HMPREF1058_RS15945at 802.358 kb on - strand, within HMPREF1058_RS15945at 802.358 kb on - strand, within HMPREF1058_RS15945at 802.420 kb on + strand, within HMPREF1058_RS15945at 802.421 kb on - strand, within HMPREF1058_RS15945at 802.444 kb on - strand, within HMPREF1058_RS15945at 802.563 kb on + strand, within HMPREF1058_RS15945at 802.576 kb on + strand, within HMPREF1058_RS15945at 802.577 kb on - strand, within HMPREF1058_RS15945at 802.608 kb on + strand, within HMPREF1058_RS15945at 802.609 kb on - strand, within HMPREF1058_RS15945at 802.635 kb on + strand, within HMPREF1058_RS15945at 802.657 kb on + strand, within HMPREF1058_RS15945at 802.658 kb on - strand, within HMPREF1058_RS15945at 802.659 kb on + strand, within HMPREF1058_RS15945at 802.660 kb on - strand, within HMPREF1058_RS15945at 802.699 kb on - strand, within HMPREF1058_RS15945at 802.717 kb on + strand, within HMPREF1058_RS15945at 802.775 kb on - strand, within HMPREF1058_RS15945at 802.836 kb on + strand, within HMPREF1058_RS15945at 802.889 kb on + strand, within HMPREF1058_RS15945at 802.894 kb on - strand, within HMPREF1058_RS15945at 802.894 kb on - strand, within HMPREF1058_RS15945at 802.894 kb on - strand, within HMPREF1058_RS15945at 802.969 kb on + strand, within HMPREF1058_RS15945at 802.975 kb on + strand, within HMPREF1058_RS15945at 803.052 kb on - strand, within HMPREF1058_RS15945at 803.117 kb on - strand, within HMPREF1058_RS15945at 803.164 kb on + strand, within HMPREF1058_RS15945at 803.188 kb on - strand, within HMPREF1058_RS15945at 803.265 kb on + strand, within HMPREF1058_RS15945at 803.288 kb on - strand, within HMPREF1058_RS15945at 803.292 kb on + strand, within HMPREF1058_RS15945at 803.317 kb on - strand, within HMPREF1058_RS15945at 803.318 kb on + strand, within HMPREF1058_RS15945at 803.319 kb on - strand, within HMPREF1058_RS15945at 803.319 kb on - strand, within HMPREF1058_RS15945at 803.319 kb on - strand, within HMPREF1058_RS15945at 803.319 kb on - strand, within HMPREF1058_RS15945at 803.322 kb on + strand, within HMPREF1058_RS15945at 803.329 kb on + strand, within HMPREF1058_RS15945at 803.408 kb on - strand, within HMPREF1058_RS15945at 803.471 kb on + strand, within HMPREF1058_RS15945at 803.472 kb on - strand, within HMPREF1058_RS15945at 803.488 kb on - strand, within HMPREF1058_RS15945at 803.488 kb on - strand, within HMPREF1058_RS15945at 803.586 kb on - strand, within HMPREF1058_RS15945at 803.652 kb on + strand, within HMPREF1058_RS15945at 803.653 kb on - strand, within HMPREF1058_RS15945at 803.685 kb on + strand, within HMPREF1058_RS15945at 803.685 kb on + strand, within HMPREF1058_RS15945at 803.685 kb on + strand, within HMPREF1058_RS15945at 803.686 kb on - strand, within HMPREF1058_RS15945at 803.686 kb on - strand, within HMPREF1058_RS15945at 803.687 kb on + strand, within HMPREF1058_RS15945at 803.688 kb on - strand, within HMPREF1058_RS15945at 803.706 kb on + strand, within HMPREF1058_RS15945at 803.734 kb on - strand, within HMPREF1058_RS15945at 803.739 kb on - strand, within HMPREF1058_RS15945at 803.808 kb on + strand, within HMPREF1058_RS15945at 803.809 kb on - strand, within HMPREF1058_RS15945at 803.851 kb on + strand, within HMPREF1058_RS15945at 803.857 kb on - strand, within HMPREF1058_RS15945at 803.857 kb on - strand, within HMPREF1058_RS15945at 803.870 kb on + strand, within HMPREF1058_RS15945at 803.908 kb on - strand, within HMPREF1058_RS15945at 803.925 kb on - strand, within HMPREF1058_RS15945at 803.928 kb on + strand, within HMPREF1058_RS15945at 803.929 kb on - strand, within HMPREF1058_RS15945at 804.035 kb on - strand, within HMPREF1058_RS15945at 804.036 kb on + strand, within HMPREF1058_RS15945at 804.037 kb on - strand, within HMPREF1058_RS15945at 804.063 kb on + strand, within HMPREF1058_RS15945at 804.090 kb on - strand, within HMPREF1058_RS15945at 804.226 kb on - strandat 804.226 kb on - strandat 804.251 kb on + strandat 804.252 kb on - strandat 804.252 kb on - strandat 804.254 kb on - strandat 804.254 kb on - strandat 804.254 kb on - strandat 804.255 kb on + strandat 804.255 kb on + strandat 804.264 kb on - strandat 804.297 kb on + strandat 804.309 kb on - strandat 804.314 kb on + strandat 804.314 kb on + strandat 804.314 kb on + strandat 804.315 kb on - strandat 804.336 kb on - strandat 804.343 kb on - strandat 804.378 kb on - strandat 804.477 kb on - strandat 804.479 kb on - strandat 804.479 kb on - strandat 804.495 kb on + strandat 804.583 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; day3
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800,689 - HMPREF1058_RS15950 0.76 +0.5
800,726 - HMPREF1058_RS15950 0.77 -0.6
800,803 + HMPREF1058_RS15950 0.80 -0.3
800,912 + HMPREF1058_RS15950 0.83 -1.8
800,912 + HMPREF1058_RS15950 0.83 +0.2
800,983 + HMPREF1058_RS15950 0.86 +0.2
800,993 - HMPREF1058_RS15950 0.86 +1.6
801,079 + HMPREF1058_RS15950 0.89 +0.8
801,079 + HMPREF1058_RS15950 0.89 +1.8
801,092 - HMPREF1058_RS15950 0.89 -0.9
801,092 - HMPREF1058_RS15950 0.89 +1.4
801,094 - HMPREF1058_RS15950 0.89 +1.6
801,102 + HMPREF1058_RS15950 0.90 +0.0
801,102 + HMPREF1058_RS15950 0.90 -1.4
801,102 + HMPREF1058_RS15950 0.90 -2.1
801,103 - HMPREF1058_RS15950 0.90 +3.0
801,251 - -0.4
801,269 + -2.8
801,270 - -1.0
801,276 - +0.7
801,329 + -0.8
801,330 - -2.4
801,331 + -0.8
801,332 - +5.0
801,370 - -1.4
801,392 - -0.8
801,476 + -0.4
801,477 - -1.5
801,510 - -0.1
801,587 + -1.8
801,679 - -1.3
801,680 + +0.6
801,680 + +1.4
801,683 + -0.4
801,686 - +2.0
801,686 - -0.4
801,687 + +2.0
801,690 + +1.1
801,691 - -5.1
801,734 - -0.8
801,784 - +0.2
801,844 + +0.6
801,907 - -0.8
801,907 - -1.3
801,929 + -1.1
801,930 - -0.6
801,942 - -2.1
801,980 + HMPREF1058_RS15945 0.11 +0.2
801,983 - HMPREF1058_RS15945 0.11 -2.4
802,026 + HMPREF1058_RS15945 0.13 +0.5
802,027 - HMPREF1058_RS15945 0.13 -0.2
802,056 + HMPREF1058_RS15945 0.14 +0.1
802,056 + HMPREF1058_RS15945 0.14 +0.5
802,057 - HMPREF1058_RS15945 0.14 -1.8
802,057 - HMPREF1058_RS15945 0.14 +1.1
802,058 + HMPREF1058_RS15945 0.14 +0.2
802,092 + HMPREF1058_RS15945 0.15 +0.8
802,093 - HMPREF1058_RS15945 0.15 +0.2
802,123 + HMPREF1058_RS15945 0.16 -1.2
802,124 - HMPREF1058_RS15945 0.16 -0.4
802,225 - HMPREF1058_RS15945 0.20 +0.7
802,225 - HMPREF1058_RS15945 0.20 +6.0
802,228 + HMPREF1058_RS15945 0.20 -0.5
802,229 - HMPREF1058_RS15945 0.20 -0.6
802,229 - HMPREF1058_RS15945 0.20 +5.0
802,286 + HMPREF1058_RS15945 0.22 +0.9
802,300 + HMPREF1058_RS15945 0.23 -0.9
802,318 + HMPREF1058_RS15945 0.23 +2.6
802,319 - HMPREF1058_RS15945 0.23 -4.0
802,319 - HMPREF1058_RS15945 0.23 +5.0
802,319 - HMPREF1058_RS15945 0.23 +2.0
802,322 + HMPREF1058_RS15945 0.23 -0.5
802,322 + HMPREF1058_RS15945 0.23 +1.8
802,322 + HMPREF1058_RS15945 0.23 -3.4
802,357 + HMPREF1058_RS15945 0.25 +0.3
802,358 - HMPREF1058_RS15945 0.25 +0.1
802,358 - HMPREF1058_RS15945 0.25 +1.0
802,358 - HMPREF1058_RS15945 0.25 +0.5
802,420 + HMPREF1058_RS15945 0.27 +1.5
802,421 - HMPREF1058_RS15945 0.27 +1.0
802,444 - HMPREF1058_RS15945 0.28 -0.4
802,563 + HMPREF1058_RS15945 0.32 -2.1
802,576 + HMPREF1058_RS15945 0.32 -0.2
802,577 - HMPREF1058_RS15945 0.32 +0.3
802,608 + HMPREF1058_RS15945 0.34 +1.6
802,609 - HMPREF1058_RS15945 0.34 +0.8
802,635 + HMPREF1058_RS15945 0.35 -1.4
802,657 + HMPREF1058_RS15945 0.35 -2.4
802,658 - HMPREF1058_RS15945 0.35 -1.4
802,659 + HMPREF1058_RS15945 0.35 -0.8
802,660 - HMPREF1058_RS15945 0.35 +0.8
802,699 - HMPREF1058_RS15945 0.37 +0.3
802,717 + HMPREF1058_RS15945 0.37 -0.4
802,775 - HMPREF1058_RS15945 0.40 -0.5
802,836 + HMPREF1058_RS15945 0.42 +0.2
802,889 + HMPREF1058_RS15945 0.44 +1.6
802,894 - HMPREF1058_RS15945 0.44 +2.0
802,894 - HMPREF1058_RS15945 0.44 +0.5
802,894 - HMPREF1058_RS15945 0.44 -2.4
802,969 + HMPREF1058_RS15945 0.46 -2.4
802,975 + HMPREF1058_RS15945 0.47 -0.0
803,052 - HMPREF1058_RS15945 0.49 +1.9
803,117 - HMPREF1058_RS15945 0.52 -2.7
803,164 + HMPREF1058_RS15945 0.53 -1.2
803,188 - HMPREF1058_RS15945 0.54 +0.9
803,265 + HMPREF1058_RS15945 0.57 -0.8
803,288 - HMPREF1058_RS15945 0.58 -0.8
803,292 + HMPREF1058_RS15945 0.58 -0.4
803,317 - HMPREF1058_RS15945 0.59 +3.2
803,318 + HMPREF1058_RS15945 0.59 -1.1
803,319 - HMPREF1058_RS15945 0.59 -4.3
803,319 - HMPREF1058_RS15945 0.59 -1.8
803,319 - HMPREF1058_RS15945 0.59 +0.2
803,319 - HMPREF1058_RS15945 0.59 +0.2
803,322 + HMPREF1058_RS15945 0.59 -2.6
803,329 + HMPREF1058_RS15945 0.59 +0.2
803,408 - HMPREF1058_RS15945 0.62 -0.8
803,471 + HMPREF1058_RS15945 0.64 +0.3
803,472 - HMPREF1058_RS15945 0.64 +1.2
803,488 - HMPREF1058_RS15945 0.65 +2.1
803,488 - HMPREF1058_RS15945 0.65 +4.1
803,586 - HMPREF1058_RS15945 0.68 +1.3
803,652 + HMPREF1058_RS15945 0.71 -1.4
803,653 - HMPREF1058_RS15945 0.71 +1.2
803,685 + HMPREF1058_RS15945 0.72 +1.1
803,685 + HMPREF1058_RS15945 0.72 -5.1
803,685 + HMPREF1058_RS15945 0.72 -1.4
803,686 - HMPREF1058_RS15945 0.72 +1.2
803,686 - HMPREF1058_RS15945 0.72 +0.2
803,687 + HMPREF1058_RS15945 0.72 -1.0
803,688 - HMPREF1058_RS15945 0.72 -0.4
803,706 + HMPREF1058_RS15945 0.73 -0.1
803,734 - HMPREF1058_RS15945 0.74 -1.1
803,739 - HMPREF1058_RS15945 0.74 -0.8
803,808 + HMPREF1058_RS15945 0.76 -2.1
803,809 - HMPREF1058_RS15945 0.76 -0.9
803,851 + HMPREF1058_RS15945 0.78 -3.3
803,857 - HMPREF1058_RS15945 0.78 +1.3
803,857 - HMPREF1058_RS15945 0.78 -1.8
803,870 + HMPREF1058_RS15945 0.78 +0.1
803,908 - HMPREF1058_RS15945 0.80 +0.5
803,925 - HMPREF1058_RS15945 0.80 +1.8
803,928 + HMPREF1058_RS15945 0.80 -1.0
803,929 - HMPREF1058_RS15945 0.80 +0.2
804,035 - HMPREF1058_RS15945 0.84 +0.6
804,036 + HMPREF1058_RS15945 0.84 -0.8
804,037 - HMPREF1058_RS15945 0.84 -0.0
804,063 + HMPREF1058_RS15945 0.85 +0.7
804,090 - HMPREF1058_RS15945 0.86 -0.6
804,226 - +0.6
804,226 - -0.1
804,251 + -0.9
804,252 - -0.8
804,252 - +0.4
804,254 - -0.8
804,254 - +2.4
804,254 - +2.0
804,255 + -0.5
804,255 + -2.3
804,264 - +0.5
804,297 + +1.4
804,309 - -1.1
804,314 + -1.1
804,314 + -0.4
804,314 + +1.9
804,315 - -0.5
804,336 - -0.8
804,343 - +1.7
804,378 - -1.6
804,477 - -3.0
804,479 - -1.0
804,479 - -0.6
804,495 + -0.1
804,583 + -0.5

Or see this region's nucleotide sequence