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 49,905 T→G L28R (CTC→CGC)  folA → type 3 dihydrofolate reductase
MC JC 2,399,465 Δ7 bp coding (650‑656/939 nt) lrhA ← transcriptional regulator LrhA
RA 3,754,231 G→T R127S (CGC→AGC)  selA ← L‑seryl‑tRNA(Sec) selenium transferase

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 356981 357576 596 3 [0] [1] 2 [lacA] [lacA]
* * ÷ NZ_CP009273 428529 428567 39 2 [1] [1] 3 nrdR transcriptional regulator NrdR
* * ÷ NZ_CP009273 879787 879802 16 2 [1] [0] 2 mdfA multidrug efflux MFS transporter MdfA
* * ÷ NZ_CP009273 903029 903048 20 2 [1] [0] 2 ybjT SDR family oxidoreductase
* * ÷ NZ_CP009273 1066281 1066285 5 2 [0] [0] 2 rutE malonic semialdehyde reductase
* * ÷ NZ_CP009273 1172066 1172084 19 2 [1] [1] 3 [lolC]–[lolD] [lolC],[lolD]
* * ÷ NZ_CP009273 1193243 1193270 28 2 [1] [1] 2 BW25113_RS05920 hypothetical protein
* * ÷ NZ_CP009273 1206663 1206671 9 2 [0] [1] 2 mcrA/BW25113_RS23640 5‑methylcytosine‑specific endonuclease McrA/isocitrate/isopropylmalate family dehydrogenase
* * ÷ NZ_CP009273 1214934 1215024 91 3 [1] [1] 2 BW25113_RS06070/BW25113_RS25990 hypothetical protein/autotransporter outer membrane beta‑barrel domain‑containing protein
* * ÷ NZ_CP009273 1225871 1225995 125 2 [0] [1] 2 hlyE/umuD hemolysin HlyE/translesion error‑prone DNA polymerase V autoproteolytic subunit
* * ÷ NZ_CP009273 1297652 1297657 6 2 [1] [0] 2 oppB oligopeptide ABC transporter permease OppB
* * ÷ NZ_CP009273 1446140 1446163 24 2 [1] [1] 3 paaZ phenylacetic acid degradation bifunctional protein PaaZ
* * ÷ NZ_CP009273 1524400 1524409 10 2 [1] [1] 2 BW25113_RS26145 hypothetical protein
* * ÷ NZ_CP009273 2097490 2097580 91 2 [1] [1] 2 wbbK glycosyltransferase family 1 protein
* * ÷ NZ_CP009273 3629106 3629352 247 19 [0] [1] 2 [yhiM] [yhiM]
* * ÷ NZ_CP009273 3629396 3629453 58 2 [1] [0] 2 yhiM/yhiN DUF2776 domain‑containing protein/NAD(P)/FAD‑dependent oxidoreductase
* * ÷ NZ_CP009273 3629537 3629655 119 2 [0] [1] 2 [yhiN] [yhiN]
* * ÷ NZ_CP009273 3629746 3630039 294 2 [1] [1] 2 yhiN NAD(P)/FAD‑dependent oxidoreductase
* * ÷ NZ_CP009273 3630337 3630935 599 2 [0] [1] 3 [yhiN] [yhiN]
* * ÷ NZ_CP009273 3631020 3631139 120 2 [0] [0] 2 pitA inorganic phosphate transporter PitA
* * ÷ NZ_CP009273 3631229 3631703 475 2 [0] [1] 2 pitA inorganic phosphate transporter PitA
* * ÷ NZ_CP009273 3631794 3631942 149 2 [1] [1] 3 pitA inorganic phosphate transporter PitA
* * ÷ NZ_CP009273 3632058 3632231 174 2 [1] [1] 2 pitA inorganic phosphate transporter PitA
* * ÷ NZ_CP009273 3632350 3632452 103 2 [1] [1] 2 pitA inorganic phosphate transporter PitA
* * ÷ NZ_CP009273 3632574 3633914 1341 2 [0] [0] 2 uspB–uspA uspB,uspA
* * ÷ NZ_CP009273 3633967 3634671 705 2 [0] [0] 2 BW25113_RS26225–[dtpB] BW25113_RS26225,BW25113_RS26230,[dtpB]
* * ÷ NZ_CP009273 3634744 3634899 156 3 [1] [0] 2 dtpB dipeptide/tripeptide permease DtpB
* * ÷ NZ_CP009273 3635022 3635307 286 2 [1] [1] 2 dtpB dipeptide/tripeptide permease DtpB
* * ÷ NZ_CP009273 3635461 3635613 153 2 [1] [1] 2 dtpB dipeptide/tripeptide permease DtpB
* * ÷ NZ_CP009273 3635704 3635770 67 2 [1] [1] 2 [rsmJ] [rsmJ]
* * ÷ NZ_CP009273 3636066 3636143 78 2 [1] [1] 3 rsmJ 16S rRNA (guanine(1516)‑N(2))‑methyltransferase RsmJ
* * ÷ NZ_CP009273 3636706 3637157 452 2 [0] [1] 2 prlC oligopeptidase A
* * ÷ NZ_CP009273 3637325 3637665 341 2 [1] [1] 2 prlC oligopeptidase A
* * ÷ NZ_CP009273 3637695 3638254 560 2 [1] [1] 2 prlC oligopeptidase A
* * ÷ NZ_CP009273 3638499 3638605 107 2 [1] [1] 3 [prlC] [prlC]
* * ÷ NZ_CP009273 3638679 3638835 157 2 [0] [0] 2 [rlmJ] [rlmJ]
* * ÷ NZ_CP009273 3638926 3639299 374 2 [0] [1] 2 rlmJ 23S rRNA (adenine(2030)‑N(6))‑methyltransferase
* * ÷ NZ_CP009273 3639353 3639448 96 2 [1] [0] 2 rlmJ 23S rRNA (adenine(2030)‑N(6))‑methyltransferase
* * ÷ NZ_CP009273 3639595 3640091 497 2 [1] [1] 2 [gorA] [gorA]
* * ÷ NZ_CP009273 3640156 3640271 116 2 [1] [1] 2 gorA glutathione‑disulfide reductase
* * ÷ NZ_CP009273 3640343 3640412 70 2 [1] [1] 3 gorA glutathione‑disulfide reductase
* * ÷ NZ_CP009273 3640636 3640786 151 2 [1] [1] 2 gorA glutathione‑disulfide reductase
* * ÷ NZ_CP009273 3640877 3641036 160 2 [1] [0] 2 [gorA] [gorA]
* * ÷ NZ_CP009273 3641131 3641298 168 2 [1] [0] 2 [dinQ] [dinQ]
* * ÷ NZ_CP009273 3641356 3641431 76 2 [0] [1] 2 dinQ/arsR hypothetical protein/As(III)‑sensing metalloregulatory transcriptional repressor ArsR
* * ÷ NZ_CP009273 3641449 3641584 136 2 [1] [0] 2 dinQ/arsR hypothetical protein/As(III)‑sensing metalloregulatory transcriptional repressor ArsR
* * ÷ NZ_CP009273 3641634 3641644 11 2 [0] [1] 2 dinQ/arsR hypothetical protein/As(III)‑sensing metalloregulatory transcriptional repressor ArsR
* * ÷ NZ_CP009273 3642116 3642729 614 2 [0] [1] 2 [arsR]–[arsB] [arsR],[arsB]
* * ÷ NZ_CP009273 3642820 3643266 447 3 [0] [1] 2 arsB arsenite/antimonite:H(+) antiporter ArsB
* * ÷ NZ_CP009273 3643342 3643429 88 2 [1] [1] 2 arsB arsenite/antimonite:H(+) antiporter ArsB
* * ÷ NZ_CP009273 3643520 3643682 163 2 [1] [1] 2 [arsB]–[arsC] [arsB],[arsC]
* * ÷ NZ_CP009273 3643789 3643800 12 2 [1] [0] 2 arsC glutaredoxin‑dependent arsenate reductase
* * ÷ NZ_CP009273 3643967 3644056 90 2 [1] [1] 2 [arsC] [arsC]
* * ÷ NZ_CP009273 3644147 3644420 274 2 [1] [1] 2 arsC/BW25113_RS18155 glutaredoxin‑dependent arsenate reductase/hypothetical protein
* * ÷ NZ_CP009273 3644511 3644557 47 2 [1] [1] 3 arsC/BW25113_RS18155 glutaredoxin‑dependent arsenate reductase/hypothetical protein
* * ÷ NZ_CP009273 3644698 3645028 331 3 [1] [1] 2 BW25113_RS18155 hypothetical protein
* * ÷ NZ_CP009273 3645081 3645238 158 2 [1] [1] 3 BW25113_RS18155 hypothetical protein
* * ÷ NZ_CP009273 3645388 3646508–3645392 5–1121 2 [0] [1] 2 [BW25113_RS18155]–[BW25113_RS18160] [BW25113_RS18155],[BW25113_RS18160]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =NA (NA)42 (1.900) 25/170 0.0 NA intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 NA (NA)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 1203246 =8 (0.360)8 (0.450) 7/138 0.8 62.8% coding (290/630 nt) BW25113_RS05990 hypothetical protein
?NZ_CP009273 1205075 = 3 (0.170)coding (40/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 1391494NA (NA)15 (0.690) 11/168 0.6 100% intergenic (+145/‑128) BW25113_RS06980/ynaJ IS5‑like element IS5 family transposase/DUF2534 family protein
?NZ_CP009273 1972747 = 0 (0.000)intergenic (‑293/‑487) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
* ? NZ_CP009273 = 19727510 (0.000)27 (1.220) 16/170 0.3 100% intergenic (‑297/‑483) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
?NZ_CP009273 = 2283592 NA (NA)intergenic (‑68/‑387) BW25113_RS11435/narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
* ? NZ_CP009273 = 36291050 (0.000)17 (0.780) 13/168 0.4 100% coding (905/1053 nt) yhiM DUF2776 domain‑containing protein
?NZ_CP009273 3645397 = NA (NA)pseudogene (747/747 nt) BW25113_RS18155 hypothetical protein
* ? NZ_CP009273 = 45325079 (0.410)7 (0.350) 6/152 1.0 26.4% intergenic (+57/‑425) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 = 4532803 31 (1.570)intergenic (+353/‑129) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA