Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS05065

Experiment: Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, non-filtered; 1X

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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 ntHSERO_RS05055 and HSERO_RS05060 are separated by 23 nucleotidesHSERO_RS05060 and HSERO_RS05065 are separated by 3 nucleotidesHSERO_RS05065 and HSERO_RS05070 overlap by 4 nucleotides HSERO_RS05055: HSERO_RS05055 - cyclase, at 1,116,903 to 1,117,718 _RS05055 HSERO_RS05060: HSERO_RS05060 - cupin, at 1,117,742 to 1,118,332 _RS05060 HSERO_RS05065: HSERO_RS05065 - 2-keto-4-pentenoate hydratase, at 1,118,336 to 1,119,319 _RS05065 HSERO_RS05070: HSERO_RS05070 - UDP-glucose 4-epimerase, at 1,119,316 to 1,120,278 _RS05070 Position (kb) 1118 1119 1120Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1117.359 kb on + strand, within HSERO_RS05055at 1117.379 kb on + strand, within HSERO_RS05055at 1117.434 kb on + strand, within HSERO_RS05055at 1117.456 kb on + strand, within HSERO_RS05055at 1117.533 kb on + strand, within HSERO_RS05055at 1117.711 kb on - strandat 1117.747 kb on - strandat 1117.792 kb on - strandat 1117.920 kb on + strand, within HSERO_RS05060at 1118.046 kb on + strand, within HSERO_RS05060at 1118.054 kb on - strand, within HSERO_RS05060at 1118.074 kb on - strand, within HSERO_RS05060at 1118.074 kb on - strand, within HSERO_RS05060at 1118.074 kb on - strand, within HSERO_RS05060at 1118.215 kb on + strand, within HSERO_RS05060at 1118.215 kb on - strand, within HSERO_RS05060at 1118.218 kb on - strand, within HSERO_RS05060at 1118.220 kb on + strand, within HSERO_RS05060at 1118.238 kb on - strand, within HSERO_RS05060at 1118.307 kb on + strandat 1118.399 kb on - strandat 1118.448 kb on - strand, within HSERO_RS05065at 1118.733 kb on - strand, within HSERO_RS05065at 1118.783 kb on + strand, within HSERO_RS05065at 1118.810 kb on + strandat 1118.818 kb on - strand, within HSERO_RS05065at 1118.829 kb on + strand, within HSERO_RS05065at 1118.855 kb on - strand, within HSERO_RS05065at 1118.905 kb on + strand, within HSERO_RS05065at 1119.128 kb on + strand, within HSERO_RS05065at 1119.446 kb on - strand, within HSERO_RS05070at 1119.451 kb on - strand, within HSERO_RS05070at 1119.526 kb on - strand, within HSERO_RS05070at 1119.661 kb on + strand, within HSERO_RS05070at 1119.750 kb on - strand, within HSERO_RS05070at 1119.852 kb on + strand, within HSERO_RS05070at 1119.876 kb on - strand, within HSERO_RS05070at 1119.905 kb on - strand, within HSERO_RS05070at 1119.983 kb on - strand, within HSERO_RS05070at 1120.035 kb on - strand, within HSERO_RS05070at 1120.042 kb on + strand, within HSERO_RS05070at 1120.053 kb on + strand, within HSERO_RS05070at 1120.061 kb on - strand, within HSERO_RS05070at 1120.061 kb on - strand, within HSERO_RS05070at 1120.211 kb on + strandat 1120.237 kb on + strandat 1120.237 kb on + strandat 1120.274 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, non-filtered; 1X
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1,117,359 + HSERO_RS05055 0.56 -1.0
1,117,379 + HSERO_RS05055 0.58 +0.5
1,117,434 + HSERO_RS05055 0.65 -0.2
1,117,456 + HSERO_RS05055 0.68 -0.4
1,117,533 + HSERO_RS05055 0.77 +0.4
1,117,711 - +1.4
1,117,747 - -0.8
1,117,792 - +1.8
1,117,920 + HSERO_RS05060 0.30 +0.1
1,118,046 + HSERO_RS05060 0.51 -0.1
1,118,054 - HSERO_RS05060 0.53 +0.7
1,118,074 - HSERO_RS05060 0.56 +0.4
1,118,074 - HSERO_RS05060 0.56 -0.1
1,118,074 - HSERO_RS05060 0.56 +0.2
1,118,215 + HSERO_RS05060 0.80 -0.5
1,118,215 - HSERO_RS05060 0.80 -0.6
1,118,218 - HSERO_RS05060 0.81 -0.3
1,118,220 + HSERO_RS05060 0.81 -0.2
1,118,238 - HSERO_RS05060 0.84 +3.1
1,118,307 + -0.2
1,118,399 - -0.0
1,118,448 - HSERO_RS05065 0.11 +1.1
1,118,733 - HSERO_RS05065 0.40 -0.2
1,118,783 + HSERO_RS05065 0.45 +0.5
1,118,810 + -1.8
1,118,818 - HSERO_RS05065 0.49 +0.0
1,118,829 + HSERO_RS05065 0.50 +1.4
1,118,855 - HSERO_RS05065 0.53 +1.1
1,118,905 + HSERO_RS05065 0.58 -0.4
1,119,128 + HSERO_RS05065 0.80 +1.2
1,119,446 - HSERO_RS05070 0.13 +0.7
1,119,451 - HSERO_RS05070 0.14 +0.4
1,119,526 - HSERO_RS05070 0.22 +0.9
1,119,661 + HSERO_RS05070 0.36 -0.2
1,119,750 - HSERO_RS05070 0.45 +0.9
1,119,852 + HSERO_RS05070 0.56 +1.0
1,119,876 - HSERO_RS05070 0.58 -1.1
1,119,905 - HSERO_RS05070 0.61 -0.5
1,119,983 - HSERO_RS05070 0.69 +0.6
1,120,035 - HSERO_RS05070 0.75 -0.1
1,120,042 + HSERO_RS05070 0.75 +0.6
1,120,053 + HSERO_RS05070 0.77 -1.0
1,120,061 - HSERO_RS05070 0.77 +0.4
1,120,061 - HSERO_RS05070 0.77 -0.1
1,120,211 + -0.0
1,120,237 + +0.4
1,120,237 + -0.3
1,120,274 + -0.2

Or see this region's nucleotide sequence