breseq  version 0.39.0  
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
MC JC 1,299,499 Δ1,199 bp insH21 insH21
JC JC 1,995,620 IS5 (–) +4 bp intergenic (‑261/‑32) uvrY ← / → yecU DNA‑binding transcriptional activator UvrY/protein YecU
RA 2,173,363 Δ2 bp intergenic (‑490/+918) gatD ← / ← gatB galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component
RA 3,089,711 C→T intergenic (+33/‑44) galP → / → yggI galactose:H(+) symporter/protein YggI
MC JC 3,090,302 Δ695 bp [endA] [endA]
RA 3,091,006 +C coding (660/708 nt) endA → DNA‑specific endonuclease I
RA 3,560,455 +G intergenic (+589/+167) rtcR → / ← glpG DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
MC JC 4,583,432 Δ3,267 bp coding (64‑3330/3513 nt) hsdR ← type I restriction enzyme EcoKI endonuclease subunit

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 164550 164696 147 2 [1] [1] 2 hrpB/mrcB RNA‑dependent NTPase HrpB/peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB
* * ÷ NC_000913 257908 258678 771 6 [0] [1] 2 insB9–[crl] insB9,insA9,[crl]
* * ÷ NC_000913 286326 286333 8 2 [0] [1] 2 yagG putative D‑xylonate transporter YagG
* * ÷ NC_000913 348383 348415 33 2 [0] [1] 2 prpR DNA‑binding transcriptional dual regulator PrpR
* * ÷ NC_000913 624580 624635 56 2 [1] [1] 2 fepB/entC ferric enterobactin ABC transporter periplasmic binding protein/isochorismate synthase EntC
* * ÷ NC_000913 807269 807328 60 2 [1] [1] 2 [ybhC] [ybhC]
* * ÷ NC_000913 987059 987093 35 2 [1] [1] 2 ompF/asnS outer membrane porin F/asparagine‑‑tRNA ligase
* * ÷ NC_000913 1185907 1186008 102 3 [1] [1] 2 pepT peptidase T
* * ÷ NC_000913 1301104 1301250 147 2 [1] [1] 2 [oppA] [oppA]
* * ÷ NC_000913 1317776 1317787 12 2 [1] [0] 3 trpB tryptophan synthase subunit beta
* * ÷ NC_000913 1350094 1350206 113 2 [1] [1] 2 [yciW] [yciW]
* * ÷ NC_000913 1575415 1575459 45 2 [0] [1] 2 yddB putative TonB‑dependent receptor YddB
* * ÷ NC_000913 1601790 1601809 20 2 [1] [1] 2 lsrA Autoinducer‑2 ABC transporter ATP binding subunit
* * ÷ NC_000913 1658218 1658271 54 2 [1] [1] 2 ynfE putative selenate reductase YnfE
* * ÷ NC_000913 1731014 1731055 42 2 [1] [1] 3 lhr ATP‑dependent helicase Lhr
* * ÷ NC_000913 1732478 1732505 28 2 [0] [1] 2 lhr ATP‑dependent helicase Lhr
* * ÷ NC_000913 1978493 1979316 824 2 [0] [1] 2 insB5–insA5 insB5,insA5
* * ÷ NC_000913 2506784 2506826 43 2 [1] [1] 2 fryC putative PTS enzyme IIC component FryC
* * ÷ NC_000913 2641470 2641501 32 2 [1] [1] 3 ispG (E)‑4‑hydroxy‑3‑methylbut‑2‑enyl‑diphosphate synthase (flavodoxin)
* * ÷ NC_000913 2649829 2649952 124 2 [1] [1] 2 yfhM alpha2‑macroglobulin
* * ÷ NC_000913 3006704 3006815 112 2 [1] [1] 2 ygeW putative carbamoyltransferase YgeW
* * ÷ NC_000913 3009658 3009697 40 2 [1] [1] 2 ygeY putative peptidase YgeY
* * ÷ NC_000913 3057998 3058028 31 2 [1] [1] 2 serA phosphoglycerate dehydrogenase
* * ÷ NC_000913 3208771 3208804 34 2 [1] [1] 2 ttdT L‑tartrate:succinate antiporter
* * ÷ NC_000913 3230487 3230542 56 2 [1] [0] 2 ygjK glycoside hydrolase
* * ÷ NC_000913 3239580 3239729 150 2 [1] [1] 2 alx/sstT putative membrane‑bound redox modulator Alx/serine/threonine:Na(+) symporter
* * ÷ NC_000913 3253795 3253885 91 2 [1] [1] 3 yhaJ DNA‑binding transcriptional activator YhaJ
* * ÷ NC_000913 3423873–3424231 3424408–3424239 9–536 2 [1] [1] 2 [rrlD] [rrlD]
* * ÷ NC_000913 3532078 3532102 25 2 [1] [0] 2 yhgE putative transport protein YhgE
* * ÷ NC_000913 3646377 3646446 70 2 [1] [1] 2 gor glutathione reductase (NADPH)
* * ÷ NC_000913 4003299 4003376 78 2 [1] [1] 2 rarD putative transporter RarD
* * ÷ NC_000913 4018328 4018382 55 2 [1] [1] 2 rmuC putative recombination limiting protein RmuC
* * ÷ NC_000913 4058545 4058560 16 3 [1] [1] 2 bipA 50S ribosomal subunit assembly factor BipA
* * ÷ NC_000913 4070452 4070554 103 2 [1] [1] 2 [yihS] [yihS]
* * ÷ NC_000913 4461292 4461349 58 2 [1] [1] 2 nrdD anaerobic ribonucleoside‑triphosphate reductase
* * ÷ NC_000913 4550564 4550607 44 2 [1] [0] 2 gntP fructuronate transporter

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 2579070 (0.000)6 (0.640) 5/302 0.4 100% intergenic (+8/+16) crl/insB9 RNA polymerase holoenzyme assembly factor Crl/IS1 family transposase B
?NC_000913 258684 = 0 (0.000)pseudogene (9/331 nt) crl RNA polymerase holoenzyme assembly factor Crl