Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS13305

Experiment: Arabinoxylan (Rye Flour) 2.5 mg/ml (C)

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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_RS13320 and HMPREF1058_RS13315 overlap by 1 nucleotidesHMPREF1058_RS13315 and HMPREF1058_RS13310 are separated by 15 nucleotidesHMPREF1058_RS13310 and HMPREF1058_RS13305 are separated by 5 nucleotidesHMPREF1058_RS13305 and HMPREF1058_RS13300 are separated by 2 nucleotides HMPREF1058_RS13320: HMPREF1058_RS13320 - NADH-quinone oxidoreductase subunit NuoH, at 1,530,228 to 1,531,304 _RS13320 HMPREF1058_RS13315: HMPREF1058_RS13315 - NADH-quinone oxidoreductase subunit I, at 1,531,304 to 1,531,756 _RS13315 HMPREF1058_RS13310: HMPREF1058_RS13310 - NADH-quinone oxidoreductase subunit J, at 1,531,772 to 1,532,275 _RS13310 HMPREF1058_RS13305: HMPREF1058_RS13305 - NADH-quinone oxidoreductase subunit NuoK, at 1,532,281 to 1,532,589 _RS13305 HMPREF1058_RS13300: HMPREF1058_RS13300 - NADH-quinone oxidoreductase subunit L, at 1,532,592 to 1,534,493 _RS13300 Position (kb) 1532 1533Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1531.289 kb on + strandat 1531.325 kb on + strandat 1531.325 kb on + strandat 1531.326 kb on - strandat 1531.326 kb on - strandat 1531.329 kb on + strandat 1531.329 kb on + strandat 1531.329 kb on + strandat 1531.355 kb on - strand, within HMPREF1058_RS13315at 1531.359 kb on + strand, within HMPREF1058_RS13315at 1531.359 kb on + strand, within HMPREF1058_RS13315at 1531.499 kb on - strand, within HMPREF1058_RS13315at 1531.507 kb on + strand, within HMPREF1058_RS13315at 1531.507 kb on + strand, within HMPREF1058_RS13315at 1531.639 kb on + strand, within HMPREF1058_RS13315at 1531.639 kb on + strand, within HMPREF1058_RS13315at 1531.640 kb on - strand, within HMPREF1058_RS13315at 1531.772 kb on - strandat 1531.791 kb on + strandat 1531.908 kb on - strand, within HMPREF1058_RS13310at 1531.922 kb on + strand, within HMPREF1058_RS13310at 1531.923 kb on - strand, within HMPREF1058_RS13310at 1531.955 kb on + strandat 1531.967 kb on - strand, within HMPREF1058_RS13310at 1531.979 kb on + strand, within HMPREF1058_RS13310at 1531.980 kb on - strand, within HMPREF1058_RS13310at 1531.983 kb on + strand, within HMPREF1058_RS13310at 1531.983 kb on + strand, within HMPREF1058_RS13310at 1531.987 kb on + strand, within HMPREF1058_RS13310at 1531.995 kb on + strand, within HMPREF1058_RS13310at 1531.996 kb on - strand, within HMPREF1058_RS13310at 1532.060 kb on - strand, within HMPREF1058_RS13310at 1532.066 kb on - strand, within HMPREF1058_RS13310at 1532.066 kb on - strand, within HMPREF1058_RS13310at 1532.068 kb on + strand, within HMPREF1058_RS13310at 1532.068 kb on + strandat 1532.069 kb on - strand, within HMPREF1058_RS13310at 1532.195 kb on + strand, within HMPREF1058_RS13310at 1532.226 kb on + strandat 1532.230 kb on - strandat 1532.281 kb on - strandat 1532.339 kb on - strand, within HMPREF1058_RS13305at 1532.339 kb on - strand, within HMPREF1058_RS13305at 1532.511 kb on - strand, within HMPREF1058_RS13305at 1532.536 kb on + strand, within HMPREF1058_RS13305at 1532.600 kb on + strandat 1532.601 kb on - strandat 1532.606 kb on - strandat 1532.608 kb on + strandat 1532.608 kb on + strandat 1532.608 kb on + strandat 1532.657 kb on + strandat 1532.663 kb on + strandat 1532.799 kb on - strand, within HMPREF1058_RS13300at 1532.834 kb on + strand, within HMPREF1058_RS13300at 1532.834 kb on + strand, within HMPREF1058_RS13300at 1532.909 kb on - strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.912 kb on + strand, within HMPREF1058_RS13300at 1532.913 kb on - strand, within HMPREF1058_RS13300at 1532.913 kb on - strand, within HMPREF1058_RS13300at 1532.913 kb on - strand, within HMPREF1058_RS13300at 1532.916 kb on + strand, within HMPREF1058_RS13300at 1532.973 kb on - strand, within HMPREF1058_RS13300at 1533.005 kb on - strand, within HMPREF1058_RS13300at 1533.007 kb on + strand, within HMPREF1058_RS13300at 1533.008 kb on - strand, within HMPREF1058_RS13300at 1533.030 kb on + strand, within HMPREF1058_RS13300at 1533.030 kb on + strand, within HMPREF1058_RS13300at 1533.049 kb on + strand, within HMPREF1058_RS13300at 1533.068 kb on - strand, within HMPREF1058_RS13300at 1533.068 kb on - strand, within HMPREF1058_RS13300at 1533.125 kb on + strand, within HMPREF1058_RS13300at 1533.126 kb on - strand, within HMPREF1058_RS13300at 1533.175 kb on - strand, within HMPREF1058_RS13300at 1533.183 kb on + strand, within HMPREF1058_RS13300at 1533.239 kb on + strand, within HMPREF1058_RS13300at 1533.239 kb on + strand, within HMPREF1058_RS13300at 1533.245 kb on - strand, within HMPREF1058_RS13300at 1533.376 kb on + strand, within HMPREF1058_RS13300at 1533.377 kb on - strand, within HMPREF1058_RS13300at 1533.388 kb on + strand, within HMPREF1058_RS13300at 1533.390 kb on + strand, within HMPREF1058_RS13300at 1533.391 kb on - strand, within HMPREF1058_RS13300at 1533.404 kb on + strand, within HMPREF1058_RS13300at 1533.456 kb on + strand, within HMPREF1058_RS13300at 1533.456 kb on + strand, within HMPREF1058_RS13300at 1533.456 kb on + strand, within HMPREF1058_RS13300at 1533.456 kb on + strand, within HMPREF1058_RS13300at 1533.457 kb on - strand, within HMPREF1058_RS13300at 1533.457 kb on - strand, within HMPREF1058_RS13300at 1533.541 kb on + strand, within HMPREF1058_RS13300at 1533.557 kb on + strand, within HMPREF1058_RS13300at 1533.582 kb on - strand, within HMPREF1058_RS13300

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Per-strain Table

Position Strand Gene LocusTag Fraction Arabinoxylan (Rye Flour) 2.5 mg/ml (C)
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1,531,289 + -0.5
1,531,325 + +0.4
1,531,325 + +0.9
1,531,326 - -1.3
1,531,326 - +0.5
1,531,329 + -2.4
1,531,329 + +1.1
1,531,329 + -0.5
1,531,355 - HMPREF1058_RS13315 0.11 -0.9
1,531,359 + HMPREF1058_RS13315 0.12 +0.2
1,531,359 + HMPREF1058_RS13315 0.12 -1.4
1,531,499 - HMPREF1058_RS13315 0.43 +0.6
1,531,507 + HMPREF1058_RS13315 0.45 -0.1
1,531,507 + HMPREF1058_RS13315 0.45 -2.5
1,531,639 + HMPREF1058_RS13315 0.74 +0.0
1,531,639 + HMPREF1058_RS13315 0.74 -3.2
1,531,640 - HMPREF1058_RS13315 0.74 +0.3
1,531,772 - -1.4
1,531,791 + -0.4
1,531,908 - HMPREF1058_RS13310 0.27 -0.6
1,531,922 + HMPREF1058_RS13310 0.30 -1.6
1,531,923 - HMPREF1058_RS13310 0.30 -0.3
1,531,955 + -0.3
1,531,967 - HMPREF1058_RS13310 0.39 +0.1
1,531,979 + HMPREF1058_RS13310 0.41 +0.9
1,531,980 - HMPREF1058_RS13310 0.41 -0.8
1,531,983 + HMPREF1058_RS13310 0.42 +0.4
1,531,983 + HMPREF1058_RS13310 0.42 +2.1
1,531,987 + HMPREF1058_RS13310 0.43 -1.2
1,531,995 + HMPREF1058_RS13310 0.44 -1.0
1,531,996 - HMPREF1058_RS13310 0.44 -0.3
1,532,060 - HMPREF1058_RS13310 0.57 +0.5
1,532,066 - HMPREF1058_RS13310 0.58 +1.5
1,532,066 - HMPREF1058_RS13310 0.58 +1.9
1,532,068 + HMPREF1058_RS13310 0.59 +0.9
1,532,068 + +1.7
1,532,069 - HMPREF1058_RS13310 0.59 -0.3
1,532,195 + HMPREF1058_RS13310 0.84 -0.9
1,532,226 + -0.0
1,532,230 - +0.3
1,532,281 - -0.8
1,532,339 - HMPREF1058_RS13305 0.19 -1.0
1,532,339 - HMPREF1058_RS13305 0.19 -0.1
1,532,511 - HMPREF1058_RS13305 0.74 -3.7
1,532,536 + HMPREF1058_RS13305 0.83 -1.0
1,532,600 + +2.0
1,532,601 - +1.8
1,532,606 - -1.4
1,532,608 + -1.1
1,532,608 + -0.8
1,532,608 + +0.2
1,532,657 + +0.4
1,532,663 + -1.0
1,532,799 - HMPREF1058_RS13300 0.11 +0.2
1,532,834 + HMPREF1058_RS13300 0.13 -0.9
1,532,834 + HMPREF1058_RS13300 0.13 +0.3
1,532,909 - HMPREF1058_RS13300 0.17 -0.1
1,532,912 + HMPREF1058_RS13300 0.17 -2.7
1,532,912 + HMPREF1058_RS13300 0.17 -1.4
1,532,912 + HMPREF1058_RS13300 0.17 -1.7
1,532,912 + HMPREF1058_RS13300 0.17 -2.6
1,532,912 + HMPREF1058_RS13300 0.17 -2.9
1,532,912 + HMPREF1058_RS13300 0.17 +0.7
1,532,912 + HMPREF1058_RS13300 0.17 +1.4
1,532,913 - HMPREF1058_RS13300 0.17 +0.7
1,532,913 - HMPREF1058_RS13300 0.17 +0.4
1,532,913 - HMPREF1058_RS13300 0.17 +2.1
1,532,916 + HMPREF1058_RS13300 0.17 -1.7
1,532,973 - HMPREF1058_RS13300 0.20 +0.6
1,533,005 - HMPREF1058_RS13300 0.22 -0.3
1,533,007 + HMPREF1058_RS13300 0.22 -0.7
1,533,008 - HMPREF1058_RS13300 0.22 -1.4
1,533,030 + HMPREF1058_RS13300 0.23 -0.2
1,533,030 + HMPREF1058_RS13300 0.23 +0.6
1,533,049 + HMPREF1058_RS13300 0.24 +0.2
1,533,068 - HMPREF1058_RS13300 0.25 -0.9
1,533,068 - HMPREF1058_RS13300 0.25 +2.0
1,533,125 + HMPREF1058_RS13300 0.28 +1.1
1,533,126 - HMPREF1058_RS13300 0.28 -1.5
1,533,175 - HMPREF1058_RS13300 0.31 -1.6
1,533,183 + HMPREF1058_RS13300 0.31 -2.0
1,533,239 + HMPREF1058_RS13300 0.34 -1.5
1,533,239 + HMPREF1058_RS13300 0.34 -1.1
1,533,245 - HMPREF1058_RS13300 0.34 -0.1
1,533,376 + HMPREF1058_RS13300 0.41 -2.3
1,533,377 - HMPREF1058_RS13300 0.41 -2.0
1,533,388 + HMPREF1058_RS13300 0.42 -0.6
1,533,390 + HMPREF1058_RS13300 0.42 -0.9
1,533,391 - HMPREF1058_RS13300 0.42 +0.8
1,533,404 + HMPREF1058_RS13300 0.43 +1.6
1,533,456 + HMPREF1058_RS13300 0.45 -0.4
1,533,456 + HMPREF1058_RS13300 0.45 -0.7
1,533,456 + HMPREF1058_RS13300 0.45 +1.9
1,533,456 + HMPREF1058_RS13300 0.45 -1.2
1,533,457 - HMPREF1058_RS13300 0.45 +0.6
1,533,457 - HMPREF1058_RS13300 0.45 -2.3
1,533,541 + HMPREF1058_RS13300 0.50 +0.7
1,533,557 + HMPREF1058_RS13300 0.51 +0.3
1,533,582 - HMPREF1058_RS13300 0.52 -0.8

Or see this region's nucleotide sequence