Experiment: Rhamnogalacturonan from soy bean pectic fibre 5 mg/ml (C)
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.
500 nt HMPREF1058_RS01395 and HMPREF1058_RS01390 overlap by 8 nucleotides HMPREF1058_RS01390 and HMPREF1058_RS01385 overlap by 19 nucleotides HMPREF1058_RS01385 and HMPREF1058_RS01380 are separated by 35 nucleotides HMPREF1058_RS01380 and HMPREF1058_RS01375 are separated by 116 nucleotides
HMPREF1058_RS01395: HMPREF1058_RS01395 - cobyric acid synthase, at 138,766 to 140,256
_RS01395
HMPREF1058_RS01390: HMPREF1058_RS01390 - pyridoxal phosphate-dependent class II aminotransferase, at 140,249 to 141,259
_RS01390
HMPREF1058_RS01385: HMPREF1058_RS01385 - cobalamin biosynthesis protein CobD, at 141,241 to 142,173
_RS01385
HMPREF1058_RS01380: HMPREF1058_RS01380 - tRNA-Gly, at 142,209 to 142,281
_RS01380
HMPREF1058_RS01375: HMPREF1058_RS01375 - site-specific integrase, at 142,398 to 143,615
_RS01375
Position (kb) 141
142
143 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1 at 140.276 kb on + strand at 140.282 kb on + strand at 140.320 kb on + strand at 140.381 kb on - strand, within HMPREF1058_RS01390 at 140.402 kb on + strand, within HMPREF1058_RS01390 at 140.578 kb on + strand, within HMPREF1058_RS01390 at 140.590 kb on + strand, within HMPREF1058_RS01390 at 140.591 kb on - strand, within HMPREF1058_RS01390 at 140.591 kb on - strand, within HMPREF1058_RS01390 at 140.597 kb on - strand at 140.597 kb on - strand, within HMPREF1058_RS01390 at 140.697 kb on + strand, within HMPREF1058_RS01390 at 140.697 kb on + strand, within HMPREF1058_RS01390 at 140.856 kb on - strand, within HMPREF1058_RS01390 at 140.858 kb on - strand, within HMPREF1058_RS01390 at 140.946 kb on - strand, within HMPREF1058_RS01390 at 140.988 kb on + strand, within HMPREF1058_RS01390 at 141.068 kb on - strand, within HMPREF1058_RS01390 at 141.068 kb on - strand, within HMPREF1058_RS01390 at 141.193 kb on + strand at 141.249 kb on - strand at 141.418 kb on - strand, within HMPREF1058_RS01385 at 141.418 kb on - strand, within HMPREF1058_RS01385 at 141.537 kb on + strand, within HMPREF1058_RS01385 at 141.544 kb on - strand, within HMPREF1058_RS01385 at 141.555 kb on - strand, within HMPREF1058_RS01385 at 141.621 kb on - strand, within HMPREF1058_RS01385 at 141.717 kb on - strand, within HMPREF1058_RS01385 at 141.759 kb on + strand, within HMPREF1058_RS01385 at 141.759 kb on + strand, within HMPREF1058_RS01385 at 141.772 kb on - strand, within HMPREF1058_RS01385 at 141.789 kb on - strand, within HMPREF1058_RS01385 at 141.795 kb on + strand, within HMPREF1058_RS01385 at 141.934 kb on + strand, within HMPREF1058_RS01385 at 141.935 kb on - strand, within HMPREF1058_RS01385 at 141.935 kb on - strand, within HMPREF1058_RS01385 at 142.042 kb on + strand, within HMPREF1058_RS01385 at 142.053 kb on + strand, within HMPREF1058_RS01385 at 142.053 kb on + strand, within HMPREF1058_RS01385 at 142.063 kb on - strand, within HMPREF1058_RS01385 at 142.095 kb on + strand at 142.110 kb on - strand at 142.110 kb on - strand at 142.139 kb on + strand at 142.178 kb on + strand at 142.302 kb on - strand at 142.412 kb on + strand at 142.412 kb on + strand at 142.582 kb on - strand, within HMPREF1058_RS01375 at 142.595 kb on + strand, within HMPREF1058_RS01375 at 142.659 kb on + strand, within HMPREF1058_RS01375 at 142.746 kb on + strand, within HMPREF1058_RS01375 at 142.748 kb on + strand, within HMPREF1058_RS01375 at 142.778 kb on + strand, within HMPREF1058_RS01375 at 142.802 kb on + strand, within HMPREF1058_RS01375 at 142.849 kb on + strand, within HMPREF1058_RS01375 at 142.872 kb on + strand, within HMPREF1058_RS01375 at 142.948 kb on - strand, within HMPREF1058_RS01375 at 142.953 kb on - strand, within HMPREF1058_RS01375 at 142.980 kb on - strand, within HMPREF1058_RS01375 at 143.027 kb on - strand, within HMPREF1058_RS01375 at 143.031 kb on - strand, within HMPREF1058_RS01375 at 143.106 kb on + strand, within HMPREF1058_RS01375 at 143.107 kb on - strand, within HMPREF1058_RS01375 at 143.128 kb on + strand, within HMPREF1058_RS01375 at 143.128 kb on + strand, within HMPREF1058_RS01375 at 143.143 kb on - strand, within HMPREF1058_RS01375
Per-strain Table
Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 5 mg/ml (C) remove 140,276 + -1.7 140,282 + -1.2 140,320 + -2.3 140,381 - HMPREF1058_RS01390 0.13 +0.3 140,402 + HMPREF1058_RS01390 0.15 -2.6 140,578 + HMPREF1058_RS01390 0.33 -2.2 140,590 + HMPREF1058_RS01390 0.34 -0.9 140,591 - HMPREF1058_RS01390 0.34 -2.2 140,591 - HMPREF1058_RS01390 0.34 -2.7 140,597 - +1.0 140,597 - HMPREF1058_RS01390 0.34 -2.4 140,697 + HMPREF1058_RS01390 0.44 -0.4 140,697 + HMPREF1058_RS01390 0.44 -0.3 140,856 - HMPREF1058_RS01390 0.60 -2.3 140,858 - HMPREF1058_RS01390 0.60 -2.0 140,946 - HMPREF1058_RS01390 0.69 -1.6 140,988 + HMPREF1058_RS01390 0.73 -1.2 141,068 - HMPREF1058_RS01390 0.81 -1.1 141,068 - HMPREF1058_RS01390 0.81 -0.4 141,193 + -0.3 141,249 - -1.1 141,418 - HMPREF1058_RS01385 0.19 -1.8 141,418 - HMPREF1058_RS01385 0.19 -2.0 141,537 + HMPREF1058_RS01385 0.32 -1.8 141,544 - HMPREF1058_RS01385 0.32 -0.7 141,555 - HMPREF1058_RS01385 0.34 -0.9 141,621 - HMPREF1058_RS01385 0.41 -1.4 141,717 - HMPREF1058_RS01385 0.51 -3.6 141,759 + HMPREF1058_RS01385 0.56 +0.4 141,759 + HMPREF1058_RS01385 0.56 -4.1 141,772 - HMPREF1058_RS01385 0.57 -0.9 141,789 - HMPREF1058_RS01385 0.59 +0.6 141,795 + HMPREF1058_RS01385 0.59 -2.6 141,934 + HMPREF1058_RS01385 0.74 -2.1 141,935 - HMPREF1058_RS01385 0.74 -0.6 141,935 - HMPREF1058_RS01385 0.74 -1.5 142,042 + HMPREF1058_RS01385 0.86 -3.7 142,053 + HMPREF1058_RS01385 0.87 -2.8 142,053 + HMPREF1058_RS01385 0.87 -4.3 142,063 - HMPREF1058_RS01385 0.88 -1.1 142,095 + -2.8 142,110 - -2.0 142,110 - -1.0 142,139 + -2.9 142,178 + +0.7 142,302 - +0.1 142,412 + +0.2 142,412 + -0.6 142,582 - HMPREF1058_RS01375 0.15 -1.2 142,595 + HMPREF1058_RS01375 0.16 +0.7 142,659 + HMPREF1058_RS01375 0.21 -0.9 142,746 + HMPREF1058_RS01375 0.29 +1.4 142,748 + HMPREF1058_RS01375 0.29 -1.1 142,778 + HMPREF1058_RS01375 0.31 +1.3 142,802 + HMPREF1058_RS01375 0.33 +0.2 142,849 + HMPREF1058_RS01375 0.37 +0.8 142,872 + HMPREF1058_RS01375 0.39 -0.4 142,948 - HMPREF1058_RS01375 0.45 -0.9 142,953 - HMPREF1058_RS01375 0.46 +0.1 142,980 - HMPREF1058_RS01375 0.48 +0.9 143,027 - HMPREF1058_RS01375 0.52 +0.1 143,031 - HMPREF1058_RS01375 0.52 -0.2 143,106 + HMPREF1058_RS01375 0.58 -1.7 143,107 - HMPREF1058_RS01375 0.58 +0.4 143,128 + HMPREF1058_RS01375 0.60 +1.2 143,128 + HMPREF1058_RS01375 0.60 -0.6 143,143 - HMPREF1058_RS01375 0.61 +0.6
Or see this region's nucleotide sequence