breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 749,443 G→A A161V (GCC→GTC)  gltA ← citrate synthase
MC JC 1,605,880 Δ9,701 bp [yneF]eamA [yneF], yneG, glsB, sad, yneJ, yneK, ydeA, marC, marR, marA, marB, eamA
RA 4,029,087 A→T noncoding (197/1542 nt) rrsA → 16S ribosomal RNA of rrnA operon

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ CP009273 80475 80684 210 8 [6] [7] 8 leuL/leuO leu operon leader peptide/global transcription factor
* * ÷ CP009273 290523 290658 136 9 [7] [7] 9 yagM/yagN CP4‑6 prophage; uncharacterized protein/CP4‑6 prophage; uncharacterized protein
* * ÷ CP009273 295775 295852 78 8 [7] [7] 8 paoC PaoABC aldehyde oxidoreductase, Moco‑containing subunit
* * ÷ CP009273 729480 729604 125 13 [6] [7] 8 [ybfB]–[rhsO] [ybfB],[rhsO]
* * ÷ CP009273 808453 808638 186 8 [7] [7] 9 bioD/uvrB dethiobiotin synthetase/excinulease of nucleotide excision repair, DNA damage recognition component
* * ÷ CP009273 1192947 1193323 377 8 [6] [7] 9 [ymfD]–[ymfE] [ymfD],[ymfE]
* * ÷ CP009273 1207350 1207965 616 9 [7] [7] 9 [iraM] [iraM]
* * ÷ CP009273 1524229 1524695 467 8 [6] [6] 8 [ydcD] [ydcD]
* * ÷ CP009273 1972847 1972922 76 9 [7] [6] 8 flhD/uspC flagellar class II regulon transcriptional activator, with FlhC/universal stress protein
* * ÷ CP009273 1981893 1982202 310 10 [7] [7] 8 [yecR]–[ftnA] [yecR],[ftnA]
* * ÷ CP009273 2050156 2050300 145 8 [7] [7] 9 amn/yeeN AMP nucleosidase/UPF0082 family protein
* * ÷ CP009273 2096855 2097103 249 11 [7] [7] 9 [wbbL]–[wbbK] [wbbL],[wbbK]
* * ÷ CP009273 2097172 2097625 454 9 [7] [6] 8 wbbK lipopolysaccharide biosynthesis protein
* * ÷ CP009273 2099526 2099759 234 9 [6] [7] 9 [wbbI]–[wbbH] [wbbI],[wbbH]
* * ÷ CP009273 2144425 2144594 170 8 [7] [5] 8 [yegI] [yegI]
* * ÷ CP009273 2462758 2463234 477 11 [7] [6] 8 gtrS serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage
* * ÷ CP009273 2768211 2768465 255 12 [6] [6] 8 [yfjW] [yfjW]
* * ÷ CP009273 2790481 2790582 102 8 [7] [7] 8 [ygaV] [ygaV]
* * ÷ CP009273 2798140 2798330 191 8 [6] [7] 9 [proV] [proV]
* * ÷ CP009273 2897078 2897265 188 8 [7] [5] 8 ygcE/queE putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
* * ÷ CP009273 2975660 2975792 133 9 [7] [7] 11 araE/kduD arabinose transporter/hexuronate dehydrogenase; hexuronate utilization in high osmolarity
* * ÷ CP009273 2988524 2988838 315 9 [5] [6] 8 [ygeN] [ygeN]
* * ÷ CP009273 2988962 2989393 432 9 [7] [7] 11 [ygeN]–[ygeO] [ygeN],ygeN,[ygeO]
* * ÷ CP009273 3246068 3246223 156 8 [7] [7] 8 yhaH/yhaI DUF805 family inner membrane protein/DUF805 family inner membrane protein
* * ÷ CP009273 3262242 3262386 145 8 [6] [7] 8 yhaC pentapetide repeats‑related protein
* * ÷ CP009273 3575932 3576502 571 8 [7] [6] 8 [yhhZ]–[yrhA] [yhhZ],[yrhA]
* * ÷ CP009273 3577869 3578000 132 9 [7] [7] 9 yrhA/yrhB pseudogene, interrupted by IS1E/stable heat shock chaperone
* * ÷ CP009273 3761713 3761890 178 8 [6] [4] 8 yibG TPR‑like repeat protein
* * ÷ CP009273 3763029 3763270 242 9 [7] [5] 11 [yibV]–yibV [yibV],yibV
* * ÷ CP009273 3791394 3791620 227 8 [6] [5] 9 [waaL]–[waaU] [waaL],[waaU]
* * ÷ CP009273 3792359 3792910 552 8 [6] [3] 9 [waaU]–[waaZ] [waaU],[waaZ]
* * ÷ CP009273 3797791 3798512 722 8 [6] [7] 8 [waaS] [waaS]
* * ÷ CP009273 4294326 4294447 122 8 [7] [7] 8 [yjcS] [yjcS]
* * ÷ CP009273 4466465 4466930 466 8 [7] [7] 8 yjgL uncharacterized protein
* * ÷ CP009273 4531457 4531779 323 8 [7] [7] 8 fimB/fimE tyrosine recombinase/inversion of on/off regulator of fimA/tyrosine recombinase/inversion of on/off regulator of fimA
* * ÷ CP009273 4592938 4593143 206 8 [6] [7] 8 yjjP/yjjQ pseudogene, premature stop codon, putative structural protein/putative transcriptional regulator

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 360104 =31 (0.770)36 (0.890) 24/386 0.6 53.7% intergenic (‑38/+557) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 = 360286 31 (0.770)intergenic (‑220/+375) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
* ? CP009273 1203246 =45 (1.110)14 (0.380) 14/354 1.3 33.6% coding (290/630 nt) stfP e14 prophage; uncharacterized protein
?CP009273 1205075 = 14 (0.380)pseudogene (1/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related