Strain Fitness in Shewanella oneidensis MR-1 around SO0108

Experiment: ShewMM_MES_buffer

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntfdhD and SO0108 are separated by 125 nucleotidesSO0108 and SO0109 overlap by 1 nucleotidesSO0109 and SO0110 are separated by 92 nucleotides SO0107: fdhD - formate dehydrogenase accessory protein FdhD (NCBI ptt file), at 117,785 to 118,621 fdhD SO0108: SO0108 - hypothetical transporter component (NCBI ptt file), at 118,747 to 119,961 SO0108 SO0109: SO0109 - conserved hypothetical protein (NCBI ptt file), at 119,961 to 120,194 SO0109 SO0110: SO0110 - hypothetical protease (NCBI ptt file), at 120,287 to 121,630 SO0110 Position (kb) 118 119 120Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 117.895 kb on + strand, within fdhDat 117.901 kb on - strand, within fdhDat 117.970 kb on - strand, within fdhDat 118.039 kb on - strand, within fdhDat 118.080 kb on + strand, within fdhDat 118.119 kb on + strand, within fdhDat 118.127 kb on - strand, within fdhDat 118.147 kb on - strand, within fdhDat 118.152 kb on - strand, within fdhDat 118.228 kb on + strand, within fdhDat 118.248 kb on + strand, within fdhDat 118.256 kb on - strand, within fdhDat 118.256 kb on - strand, within fdhDat 118.256 kb on - strand, within fdhDat 118.292 kb on - strand, within fdhDat 118.311 kb on - strand, within fdhDat 118.328 kb on + strand, within fdhDat 118.333 kb on + strand, within fdhDat 118.430 kb on + strand, within fdhDat 118.519 kb on + strand, within fdhDat 118.526 kb on - strand, within fdhDat 118.564 kb on + strandat 118.635 kb on - strandat 118.644 kb on - strandat 118.865 kb on - strandat 118.947 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 119.063 kb on - strand, within SO0108at 119.069 kb on + strand, within SO0108at 119.083 kb on + strand, within SO0108at 119.096 kb on - strand, within SO0108at 119.137 kb on + strand, within SO0108at 119.394 kb on - strand, within SO0108at 119.399 kb on + strand, within SO0108at 119.416 kb on + strand, within SO0108at 119.417 kb on - strand, within SO0108at 119.424 kb on - strand, within SO0108at 119.429 kb on - strand, within SO0108at 119.443 kb on - strand, within SO0108at 119.458 kb on + strand, within SO0108at 119.499 kb on - strand, within SO0108at 119.501 kb on - strand, within SO0108at 119.512 kb on + strand, within SO0108at 119.606 kb on - strand, within SO0108at 119.622 kb on + strand, within SO0108at 119.648 kb on + strand, within SO0108at 119.653 kb on + strand, within SO0108at 119.693 kb on - strand, within SO0108at 119.720 kb on + strand, within SO0108at 119.725 kb on + strand, within SO0108at 119.733 kb on - strand, within SO0108at 119.744 kb on + strand, within SO0108at 119.752 kb on - strand, within SO0108at 119.779 kb on + strand, within SO0108at 119.787 kb on - strand, within SO0108at 119.787 kb on - strand, within SO0108at 119.787 kb on - strand, within SO0108at 119.806 kb on - strand, within SO0108at 119.807 kb on + strand, within SO0108at 119.807 kb on + strand, within SO0108at 119.807 kb on + strand, within SO0108at 119.807 kb on + strand, within SO0108at 119.807 kb on + strand, within SO0108at 119.815 kb on - strand, within SO0108at 119.815 kb on - strand, within SO0108at 119.815 kb on - strand, within SO0108at 119.815 kb on - strand, within SO0108at 119.815 kb on - strand, within SO0108at 120.005 kb on + strand, within SO0109at 120.013 kb on - strand, within SO0109at 120.013 kb on - strand, within SO0109at 120.039 kb on - strand, within SO0109at 120.088 kb on + strand, within SO0109at 120.096 kb on - strand, within SO0109at 120.096 kb on - strand, within SO0109at 120.133 kb on + strand, within SO0109at 120.141 kb on + strand, within SO0109at 120.141 kb on + strand, within SO0109at 120.141 kb on + strand, within SO0109at 120.141 kb on + strand, within SO0109at 120.188 kb on + strandat 120.196 kb on - strandat 120.196 kb on - strandat 120.351 kb on + strandat 120.351 kb on + strandat 120.351 kb on + strandat 120.351 kb on + strandat 120.351 kb on + strandat 120.359 kb on - strandat 120.359 kb on - strandat 120.359 kb on - strandat 120.388 kb on + strandat 120.388 kb on + strandat 120.447 kb on + strand, within SO0110at 120.447 kb on + strand, within SO0110at 120.455 kb on - strand, within SO0110at 120.463 kb on - strand, within SO0110at 120.512 kb on + strand, within SO0110at 120.632 kb on + strand, within SO0110at 120.745 kb on - strand, within SO0110at 120.768 kb on - strand, within SO0110at 120.790 kb on - strand, within SO0110at 120.833 kb on - strand, within SO0110at 120.848 kb on - strand, within SO0110at 120.851 kb on + strand, within SO0110at 120.864 kb on - strand, within SO0110at 120.881 kb on - strand, within SO0110at 120.897 kb on + strand, within SO0110at 120.900 kb on - strand, within SO0110at 120.900 kb on - strand, within SO0110

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction ShewMM_MES_buffer
remove
117,895 + fdhD SO0107 0.13 -0.6
117,901 - fdhD SO0107 0.14 -0.5
117,970 - fdhD SO0107 0.22 -0.1
118,039 - fdhD SO0107 0.30 -0.1
118,080 + fdhD SO0107 0.35 +0.7
118,119 + fdhD SO0107 0.40 +0.7
118,127 - fdhD SO0107 0.41 +0.0
118,147 - fdhD SO0107 0.43 +0.1
118,152 - fdhD SO0107 0.44 +0.4
118,228 + fdhD SO0107 0.53 -0.7
118,248 + fdhD SO0107 0.55 +0.4
118,256 - fdhD SO0107 0.56 +0.5
118,256 - fdhD SO0107 0.56 -0.5
118,256 - fdhD SO0107 0.56 -0.4
118,292 - fdhD SO0107 0.61 +0.0
118,311 - fdhD SO0107 0.63 -0.6
118,328 + fdhD SO0107 0.65 -0.7
118,333 + fdhD SO0107 0.65 -0.4
118,430 + fdhD SO0107 0.77 -0.7
118,519 + fdhD SO0107 0.88 -0.9
118,526 - fdhD SO0107 0.89 -1.0
118,564 + +0.7
118,635 - -0.3
118,644 - +0.1
118,865 - -1.3
118,947 + SO0108 0.16 +0.8
118,969 + SO0108 0.18 +0.0
118,969 + SO0108 0.18 +1.6
118,969 + SO0108 0.18 +0.2
118,969 + SO0108 0.18 -0.4
118,969 + SO0108 0.18 +1.0
118,969 + SO0108 0.18 +0.4
118,969 + SO0108 0.18 +0.2
118,969 + SO0108 0.18 +0.2
118,969 + SO0108 0.18 -0.9
118,969 + SO0108 0.18 +1.3
118,969 + SO0108 0.18 +0.8
118,977 - SO0108 0.19 -0.1
118,977 - SO0108 0.19 -0.2
118,977 - SO0108 0.19 -0.8
118,977 - SO0108 0.19 -1.7
118,977 - SO0108 0.19 +0.1
118,977 - SO0108 0.19 +0.3
118,977 - SO0108 0.19 -0.2
118,977 - SO0108 0.19 +0.3
118,977 - SO0108 0.19 +2.3
119,063 - SO0108 0.26 +0.6
119,069 + SO0108 0.27 +0.5
119,083 + SO0108 0.28 +0.8
119,096 - SO0108 0.29 +1.4
119,137 + SO0108 0.32 -0.0
119,394 - SO0108 0.53 +0.9
119,399 + SO0108 0.54 +0.6
119,416 + SO0108 0.55 +0.9
119,417 - SO0108 0.55 +0.1
119,424 - SO0108 0.56 +0.6
119,429 - SO0108 0.56 +0.5
119,443 - SO0108 0.57 -0.2
119,458 + SO0108 0.59 +0.8
119,499 - SO0108 0.62 -0.3
119,501 - SO0108 0.62 -0.2
119,512 + SO0108 0.63 +0.2
119,606 - SO0108 0.71 +0.2
119,622 + SO0108 0.72 -0.5
119,648 + SO0108 0.74 +0.2
119,653 + SO0108 0.75 +0.2
119,693 - SO0108 0.78 -0.3
119,720 + SO0108 0.80 -0.9
119,725 + SO0108 0.80 +0.2
119,733 - SO0108 0.81 -0.3
119,744 + SO0108 0.82 +0.5
119,752 - SO0108 0.83 +0.4
119,779 + SO0108 0.85 -1.0
119,787 - SO0108 0.86 +0.8
119,787 - SO0108 0.86 -0.4
119,787 - SO0108 0.86 +0.1
119,806 - SO0108 0.87 +0.7
119,807 + SO0108 0.87 -0.3
119,807 + SO0108 0.87 +0.4
119,807 + SO0108 0.87 +0.0
119,807 + SO0108 0.87 -0.7
119,807 + SO0108 0.87 +0.3
119,815 - SO0108 0.88 -0.1
119,815 - SO0108 0.88 -0.3
119,815 - SO0108 0.88 +0.8
119,815 - SO0108 0.88 -0.4
119,815 - SO0108 0.88 +0.2
120,005 + SO0109 0.19 +0.3
120,013 - SO0109 0.22 -0.7
120,013 - SO0109 0.22 -0.6
120,039 - SO0109 0.33 -0.6
120,088 + SO0109 0.54 -0.2
120,096 - SO0109 0.58 +0.1
120,096 - SO0109 0.58 +0.9
120,133 + SO0109 0.74 -0.2
120,141 + SO0109 0.77 -0.5
120,141 + SO0109 0.77 -0.0
120,141 + SO0109 0.77 +0.6
120,141 + SO0109 0.77 +0.6
120,188 + -1.4
120,196 - +0.3
120,196 - -0.3
120,351 + +1.2
120,351 + +0.3
120,351 + -0.1
120,351 + +0.3
120,351 + -3.2
120,359 - +0.7
120,359 - +0.1
120,359 - +0.4
120,388 + +0.1
120,388 + -1.6
120,447 + SO0110 0.12 -0.5
120,447 + SO0110 0.12 -0.9
120,455 - SO0110 0.12 +0.6
120,463 - SO0110 0.13 -0.3
120,512 + SO0110 0.17 +0.2
120,632 + SO0110 0.26 -0.1
120,745 - SO0110 0.34 +0.9
120,768 - SO0110 0.36 -0.2
120,790 - SO0110 0.37 +1.3
120,833 - SO0110 0.41 +0.4
120,848 - SO0110 0.42 -0.3
120,851 + SO0110 0.42 -0.9
120,864 - SO0110 0.43 +0.1
120,881 - SO0110 0.44 -0.2
120,897 + SO0110 0.45 -0.2
120,900 - SO0110 0.46 -0.3
120,900 - SO0110 0.46 -0.2

Or see this region's nucleotide sequence