Strain Fitness in Pseudomonas fluorescens FW300-N1B4 around Pf1N1B4_1080

Experiment: N2E2wt with N1B4m denitrifying repA

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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 ntPf1N1B4_1078 and Pf1N1B4_1079 overlap by 1 nucleotidesPf1N1B4_1079 and Pf1N1B4_1080 are separated by 209 nucleotidesPf1N1B4_1080 and Pf1N1B4_1081 are separated by 79 nucleotidesPf1N1B4_1081 and Pf1N1B4_1082 are separated by 54 nucleotidesPf1N1B4_1082 and Pf1N1B4_1083 are separated by 2 nucleotides Pf1N1B4_1078 - LptA, protein essential for LPS transport across the periplasm, at 1,210,749 to 1,211,240 _1078 Pf1N1B4_1079 - Lipopolysaccharide ABC transporter, ATP-binding protein LptB, at 1,211,240 to 1,211,965 _1079 Pf1N1B4_1080 - RNA polymerase sigma-54 factor RpoN, at 1,212,175 to 1,213,644 _1080 Pf1N1B4_1081 - Ribosome hibernation protein YhbH, at 1,213,724 to 1,214,032 _1081 Pf1N1B4_1082 - PTS IIA-like nitrogen-regulatory protein PtsN, at 1,214,087 to 1,214,509 _1082 Pf1N1B4_1083 - Hypothetical ATP-binding protein UPF0042, contains P-loop, at 1,214,512 to 1,215,369 _1083 Position (kb) 1212 1213 1214Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 1211.964 kb on - strandat 1211.964 kb on - strandat 1211.964 kb on - strandat 1212.009 kb on - strandat 1212.027 kb on + strandat 1212.027 kb on + strandat 1212.028 kb on - strandat 1212.033 kb on + strandat 1212.033 kb on + strandat 1212.034 kb on - strandat 1212.044 kb on - strandat 1212.044 kb on - strandat 1212.044 kb on - strandat 1212.071 kb on - strandat 1212.071 kb on - strandat 1212.103 kb on + strandat 1212.131 kb on + strandat 1212.139 kb on + strandat 1213.696 kb on + strandat 1213.696 kb on + strandat 1213.723 kb on + strandat 1213.723 kb on + strandat 1213.723 kb on + strandat 1213.778 kb on + strandat 1213.778 kb on + strand, within Pf1N1B4_1081at 1213.778 kb on + strand, within Pf1N1B4_1081at 1213.888 kb on + strand, within Pf1N1B4_1081at 1213.888 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strandat 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strandat 1213.934 kb on + strandat 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strandat 1213.934 kb on + strand, within Pf1N1B4_1081

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Per-strain Table

Position Strand Gene LocusTag Fraction N2E2wt with N1B4m denitrifying repA
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1,211,964 - -2.3
1,211,964 - -2.8
1,211,964 - -0.7
1,212,009 - +0.7
1,212,027 + -0.2
1,212,027 + -1.8
1,212,028 - -2.3
1,212,033 + -0.6
1,212,033 + +0.7
1,212,034 - -1.6
1,212,044 - +0.7
1,212,044 - -1.9
1,212,044 - -2.0
1,212,071 - +0.7
1,212,071 - +0.7
1,212,103 + +0.7
1,212,131 + -0.9
1,212,139 + -2.6
1,213,696 + +0.7
1,213,696 + -1.8
1,213,723 + +0.7
1,213,723 + +1.3
1,213,723 + -0.7
1,213,778 + -0.3
1,213,778 + Pf1N1B4_1081 0.17 +0.7
1,213,778 + Pf1N1B4_1081 0.17 -2.8
1,213,888 + Pf1N1B4_1081 0.53 -2.3
1,213,888 + Pf1N1B4_1081 0.53 +0.7
1,213,934 + -0.3
1,213,934 + Pf1N1B4_1081 0.68 -3.2
1,213,934 + Pf1N1B4_1081 0.68 -2.6
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + Pf1N1B4_1081 0.68 -4.2
1,213,934 + Pf1N1B4_1081 0.68 -1.8
1,213,934 + Pf1N1B4_1081 0.68 -4.2
1,213,934 + Pf1N1B4_1081 0.68 -1.1
1,213,934 + Pf1N1B4_1081 0.68 -1.5
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + -1.9
1,213,934 + -1.8
1,213,934 + Pf1N1B4_1081 0.68 -2.1
1,213,934 + Pf1N1B4_1081 0.68 -4.3
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + Pf1N1B4_1081 0.68 -0.9
1,213,934 + Pf1N1B4_1081 0.68 -2.8
1,213,934 + Pf1N1B4_1081 0.68 +0.7
1,213,934 + +0.7
1,213,934 + Pf1N1B4_1081 0.68 -0.2

Or see this region's nucleotide sequence