Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS13515

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_RS13520 and HMPREF1058_RS13515 are separated by 219 nucleotidesHMPREF1058_RS13515 and HMPREF1058_RS13510 are separated by 53 nucleotides HMPREF1058_RS13520: HMPREF1058_RS13520 - 5-dehydro-4-deoxy-D-glucuronate isomerase, at 1,457,723 to 1,458,679 _RS13520 HMPREF1058_RS13515: HMPREF1058_RS13515 - MFS transporter, at 1,458,899 to 1,460,374 _RS13515 HMPREF1058_RS13510: HMPREF1058_RS13510 - AAA family ATPase, at 1,460,428 to 1,463,754 _RS13510 Position (kb) 1458 1459 1460 1461Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1457.903 kb on + strand, within HMPREF1058_RS13520at 1457.903 kb on + strand, within HMPREF1058_RS13520at 1457.904 kb on - strand, within HMPREF1058_RS13520at 1457.912 kb on + strand, within HMPREF1058_RS13520at 1457.924 kb on - strand, within HMPREF1058_RS13520at 1458.000 kb on - strand, within HMPREF1058_RS13520at 1458.036 kb on + strand, within HMPREF1058_RS13520at 1458.037 kb on - strand, within HMPREF1058_RS13520at 1458.061 kb on - strand, within HMPREF1058_RS13520at 1458.074 kb on + strand, within HMPREF1058_RS13520at 1458.086 kb on + strand, within HMPREF1058_RS13520at 1458.102 kb on - strand, within HMPREF1058_RS13520at 1458.105 kb on + strand, within HMPREF1058_RS13520at 1458.105 kb on + strand, within HMPREF1058_RS13520at 1458.139 kb on + strand, within HMPREF1058_RS13520at 1458.197 kb on + strand, within HMPREF1058_RS13520at 1458.197 kb on + strand, within HMPREF1058_RS13520at 1458.197 kb on + strand, within HMPREF1058_RS13520at 1458.198 kb on - strand, within HMPREF1058_RS13520at 1458.198 kb on - strand, within HMPREF1058_RS13520at 1458.198 kb on - strand, within HMPREF1058_RS13520at 1458.254 kb on + strand, within HMPREF1058_RS13520at 1458.308 kb on - strand, within HMPREF1058_RS13520at 1458.336 kb on + strand, within HMPREF1058_RS13520at 1458.337 kb on - strand, within HMPREF1058_RS13520at 1458.373 kb on - strand, within HMPREF1058_RS13520at 1458.437 kb on - strand, within HMPREF1058_RS13520at 1458.456 kb on - strand, within HMPREF1058_RS13520at 1458.602 kb on - strandat 1458.607 kb on + strandat 1458.638 kb on + strandat 1458.663 kb on - strandat 1458.670 kb on + strandat 1458.671 kb on - strandat 1458.677 kb on + strandat 1458.678 kb on - strandat 1458.678 kb on - strandat 1458.681 kb on + strandat 1458.681 kb on + strandat 1458.682 kb on - strandat 1458.689 kb on + strandat 1458.700 kb on - strandat 1458.809 kb on + strandat 1458.810 kb on - strandat 1458.841 kb on + strandat 1458.842 kb on - strandat 1458.842 kb on - strandat 1458.845 kb on + strandat 1458.892 kb on + strandat 1458.892 kb on + strandat 1458.986 kb on + strandat 1458.986 kb on + strandat 1459.069 kb on + strand, within HMPREF1058_RS13515at 1459.069 kb on + strand, within HMPREF1058_RS13515at 1459.069 kb on + strand, within HMPREF1058_RS13515at 1459.087 kb on + strand, within HMPREF1058_RS13515at 1459.088 kb on - strand, within HMPREF1058_RS13515at 1459.090 kb on - strand, within HMPREF1058_RS13515at 1459.090 kb on - strand, within HMPREF1058_RS13515at 1459.234 kb on + strand, within HMPREF1058_RS13515at 1459.332 kb on + strand, within HMPREF1058_RS13515at 1459.367 kb on - strand, within HMPREF1058_RS13515at 1459.410 kb on - strand, within HMPREF1058_RS13515at 1459.438 kb on + strand, within HMPREF1058_RS13515at 1459.487 kb on + strand, within HMPREF1058_RS13515at 1459.498 kb on + strand, within HMPREF1058_RS13515at 1459.631 kb on + strand, within HMPREF1058_RS13515at 1459.631 kb on + strand, within HMPREF1058_RS13515at 1459.634 kb on - strand, within HMPREF1058_RS13515at 1459.783 kb on - strand, within HMPREF1058_RS13515at 1459.783 kb on - strand, within HMPREF1058_RS13515at 1459.814 kb on + strand, within HMPREF1058_RS13515at 1459.816 kb on + strand, within HMPREF1058_RS13515at 1459.828 kb on - strand, within HMPREF1058_RS13515at 1459.878 kb on + strand, within HMPREF1058_RS13515at 1459.879 kb on - strand, within HMPREF1058_RS13515at 1459.880 kb on + strand, within HMPREF1058_RS13515at 1459.880 kb on + strand, within HMPREF1058_RS13515at 1459.881 kb on - strand, within HMPREF1058_RS13515at 1459.888 kb on + strand, within HMPREF1058_RS13515at 1459.904 kb on + strand, within HMPREF1058_RS13515at 1459.924 kb on + strand, within HMPREF1058_RS13515at 1459.924 kb on + strand, within HMPREF1058_RS13515at 1459.937 kb on - strand, within HMPREF1058_RS13515at 1459.975 kb on + strand, within HMPREF1058_RS13515at 1459.976 kb on - strand, within HMPREF1058_RS13515at 1460.033 kb on + strand, within HMPREF1058_RS13515at 1460.039 kb on + strand, within HMPREF1058_RS13515at 1460.057 kb on - strand, within HMPREF1058_RS13515at 1460.113 kb on - strand, within HMPREF1058_RS13515at 1460.115 kb on + strand, within HMPREF1058_RS13515at 1460.123 kb on - strand, within HMPREF1058_RS13515at 1460.123 kb on - strand, within HMPREF1058_RS13515at 1460.123 kb on - strand, within HMPREF1058_RS13515at 1460.147 kb on - strand, within HMPREF1058_RS13515at 1460.155 kb on - strand, within HMPREF1058_RS13515at 1460.158 kb on + strand, within HMPREF1058_RS13515at 1460.158 kb on + strand, within HMPREF1058_RS13515at 1460.179 kb on + strand, within HMPREF1058_RS13515at 1460.181 kb on + strand, within HMPREF1058_RS13515at 1460.181 kb on + strand, within HMPREF1058_RS13515at 1460.181 kb on + strand, within HMPREF1058_RS13515at 1460.312 kb on + strandat 1460.313 kb on - strandat 1460.395 kb on + strandat 1460.477 kb on - strandat 1460.712 kb on + strandat 1460.713 kb on - strandat 1460.835 kb on - strand, within HMPREF1058_RS13510at 1460.884 kb on - strand, within HMPREF1058_RS13510at 1460.902 kb on + strand, within HMPREF1058_RS13510at 1460.902 kb on + strand, within HMPREF1058_RS13510at 1460.951 kb on + strand, within HMPREF1058_RS13510at 1460.951 kb on + strand, within HMPREF1058_RS13510at 1461.012 kb on + strand, within HMPREF1058_RS13510at 1461.012 kb on + strandat 1461.013 kb on - strand, within HMPREF1058_RS13510at 1461.013 kb on - strand, within HMPREF1058_RS13510at 1461.085 kb on - strand, within HMPREF1058_RS13510at 1461.166 kb on - strand, within HMPREF1058_RS13510at 1461.166 kb on - strand, within HMPREF1058_RS13510at 1461.274 kb on + strand, within HMPREF1058_RS13510at 1461.281 kb on - strand, within HMPREF1058_RS13510at 1461.344 kb on + strand, within HMPREF1058_RS13510at 1461.345 kb on - strand, within HMPREF1058_RS13510at 1461.346 kb on + strand, within HMPREF1058_RS13510at 1461.346 kb on + strand, within HMPREF1058_RS13510at 1461.347 kb on - strand, within HMPREF1058_RS13510

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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1,457,903 + HMPREF1058_RS13520 0.19 -0.4
1,457,903 + HMPREF1058_RS13520 0.19 +0.4
1,457,904 - HMPREF1058_RS13520 0.19 -1.0
1,457,912 + HMPREF1058_RS13520 0.20 -1.0
1,457,924 - HMPREF1058_RS13520 0.21 +3.5
1,458,000 - HMPREF1058_RS13520 0.29 +0.8
1,458,036 + HMPREF1058_RS13520 0.33 -1.1
1,458,037 - HMPREF1058_RS13520 0.33 +0.5
1,458,061 - HMPREF1058_RS13520 0.35 -1.5
1,458,074 + HMPREF1058_RS13520 0.37 -1.2
1,458,086 + HMPREF1058_RS13520 0.38 +1.5
1,458,102 - HMPREF1058_RS13520 0.40 -1.2
1,458,105 + HMPREF1058_RS13520 0.40 -1.8
1,458,105 + HMPREF1058_RS13520 0.40 -0.8
1,458,139 + HMPREF1058_RS13520 0.43 -0.5
1,458,197 + HMPREF1058_RS13520 0.50 -0.1
1,458,197 + HMPREF1058_RS13520 0.50 -0.4
1,458,197 + HMPREF1058_RS13520 0.50 +0.2
1,458,198 - HMPREF1058_RS13520 0.50 -0.6
1,458,198 - HMPREF1058_RS13520 0.50 +0.9
1,458,198 - HMPREF1058_RS13520 0.50 +2.1
1,458,254 + HMPREF1058_RS13520 0.55 -0.2
1,458,308 - HMPREF1058_RS13520 0.61 +1.4
1,458,336 + HMPREF1058_RS13520 0.64 +2.1
1,458,337 - HMPREF1058_RS13520 0.64 -0.1
1,458,373 - HMPREF1058_RS13520 0.68 +1.8
1,458,437 - HMPREF1058_RS13520 0.75 -2.5
1,458,456 - HMPREF1058_RS13520 0.77 -0.2
1,458,602 - +0.0
1,458,607 + -0.4
1,458,638 + -1.4
1,458,663 - +1.2
1,458,670 + +0.3
1,458,671 - -0.2
1,458,677 + +0.9
1,458,678 - -2.1
1,458,678 - +0.9
1,458,681 + +0.6
1,458,681 + +0.8
1,458,682 - +2.1
1,458,689 + +1.2
1,458,700 - +1.0
1,458,809 + +1.4
1,458,810 - -1.5
1,458,841 + +0.4
1,458,842 - +1.1
1,458,842 - -0.7
1,458,845 + +0.1
1,458,892 + +1.1
1,458,892 + +1.0
1,458,986 + -0.2
1,458,986 + -1.0
1,459,069 + HMPREF1058_RS13515 0.12 -0.7
1,459,069 + HMPREF1058_RS13515 0.12 -1.1
1,459,069 + HMPREF1058_RS13515 0.12 +2.0
1,459,087 + HMPREF1058_RS13515 0.13 +0.5
1,459,088 - HMPREF1058_RS13515 0.13 +0.4
1,459,090 - HMPREF1058_RS13515 0.13 -1.0
1,459,090 - HMPREF1058_RS13515 0.13 +0.1
1,459,234 + HMPREF1058_RS13515 0.23 -1.1
1,459,332 + HMPREF1058_RS13515 0.29 +0.2
1,459,367 - HMPREF1058_RS13515 0.32 -0.4
1,459,410 - HMPREF1058_RS13515 0.35 +1.3
1,459,438 + HMPREF1058_RS13515 0.37 +1.4
1,459,487 + HMPREF1058_RS13515 0.40 -2.0
1,459,498 + HMPREF1058_RS13515 0.41 -0.2
1,459,631 + HMPREF1058_RS13515 0.50 -0.6
1,459,631 + HMPREF1058_RS13515 0.50 +1.3
1,459,634 - HMPREF1058_RS13515 0.50 -0.7
1,459,783 - HMPREF1058_RS13515 0.60 -0.0
1,459,783 - HMPREF1058_RS13515 0.60 +0.0
1,459,814 + HMPREF1058_RS13515 0.62 -2.4
1,459,816 + HMPREF1058_RS13515 0.62 -0.5
1,459,828 - HMPREF1058_RS13515 0.63 +0.0
1,459,878 + HMPREF1058_RS13515 0.66 +0.2
1,459,879 - HMPREF1058_RS13515 0.66 +1.2
1,459,880 + HMPREF1058_RS13515 0.66 -1.6
1,459,880 + HMPREF1058_RS13515 0.66 -0.4
1,459,881 - HMPREF1058_RS13515 0.67 +2.8
1,459,888 + HMPREF1058_RS13515 0.67 +2.4
1,459,904 + HMPREF1058_RS13515 0.68 -1.6
1,459,924 + HMPREF1058_RS13515 0.69 +1.2
1,459,924 + HMPREF1058_RS13515 0.69 +0.0
1,459,937 - HMPREF1058_RS13515 0.70 -0.3
1,459,975 + HMPREF1058_RS13515 0.73 +0.6
1,459,976 - HMPREF1058_RS13515 0.73 -0.3
1,460,033 + HMPREF1058_RS13515 0.77 +3.4
1,460,039 + HMPREF1058_RS13515 0.77 +0.8
1,460,057 - HMPREF1058_RS13515 0.78 +0.0
1,460,113 - HMPREF1058_RS13515 0.82 +0.1
1,460,115 + HMPREF1058_RS13515 0.82 -0.2
1,460,123 - HMPREF1058_RS13515 0.83 +1.4
1,460,123 - HMPREF1058_RS13515 0.83 +0.6
1,460,123 - HMPREF1058_RS13515 0.83 +0.8
1,460,147 - HMPREF1058_RS13515 0.85 +0.9
1,460,155 - HMPREF1058_RS13515 0.85 +2.4
1,460,158 + HMPREF1058_RS13515 0.85 -0.1
1,460,158 + HMPREF1058_RS13515 0.85 +0.2
1,460,179 + HMPREF1058_RS13515 0.87 -1.1
1,460,181 + HMPREF1058_RS13515 0.87 -0.0
1,460,181 + HMPREF1058_RS13515 0.87 -2.7
1,460,181 + HMPREF1058_RS13515 0.87 +0.5
1,460,312 + -2.0
1,460,313 - -3.0
1,460,395 + +0.4
1,460,477 - -0.4
1,460,712 + -1.8
1,460,713 - -1.8
1,460,835 - HMPREF1058_RS13510 0.12 -1.2
1,460,884 - HMPREF1058_RS13510 0.14 -1.2
1,460,902 + HMPREF1058_RS13510 0.14 -1.7
1,460,902 + HMPREF1058_RS13510 0.14 +0.8
1,460,951 + HMPREF1058_RS13510 0.16 -0.8
1,460,951 + HMPREF1058_RS13510 0.16 +1.1
1,461,012 + HMPREF1058_RS13510 0.18 +1.4
1,461,012 + -1.2
1,461,013 - HMPREF1058_RS13510 0.18 -0.9
1,461,013 - HMPREF1058_RS13510 0.18 +2.6
1,461,085 - HMPREF1058_RS13510 0.20 +0.8
1,461,166 - HMPREF1058_RS13510 0.22 +0.1
1,461,166 - HMPREF1058_RS13510 0.22 +2.6
1,461,274 + HMPREF1058_RS13510 0.25 -0.2
1,461,281 - HMPREF1058_RS13510 0.26 +1.0
1,461,344 + HMPREF1058_RS13510 0.28 +1.5
1,461,345 - HMPREF1058_RS13510 0.28 +0.4
1,461,346 + HMPREF1058_RS13510 0.28 -0.4
1,461,346 + HMPREF1058_RS13510 0.28 +0.5
1,461,347 - HMPREF1058_RS13510 0.28 +1.8

Or see this region's nucleotide sequence