Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F57 I1 R1 57 77.8 3221608 98.5% 3173283 146.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
MC JC NC_002947_CJ‑RC 4,879,568 Δ167,714 bp [puuE][PP_4449] 164 genes

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ NC_002947_CJ‑RC 4879568 5047281 167714 76 [0] [0] 76 [puuE]–[PP_4449] [puuE],pucL,allA,PP_4289,uacT,PP_4291,PP_4293,yedI,PP_4295,PP_4296,gcl,hyi,glxR,ttuD,pyk,PP_4302,PP_4303,PP_4304,sbp‑I,PP_4306,PP_4307,PP_4308,PP_4309,PP_4310,PP_4311,PP_4312,PP_4313,PP_4314,PP_4315,PP_4316,PP_4317,PP_4318,PP_4319,cycH,ccmH,ccmG,ccmF,ccmE,ccmD,ccmC,ccmB,ccmA,PP_4328,PP_4329,PP_4330,PP_4331,PP_4332,PP_4333,PP_4334,PP_4335,PP_4336,cheBA,cheA,cheZ,cheY,fliA,PP_4342,flhF,flhA,PP_4345,ddlA,PP_4348,PP_4349,PP_4350,PP_5673,flhB,fliR,fliQ,fliP,fliO,fliN,fliM,fliL,fliK,PP_4362,PP_4363,PP_4364,fliJ,fliI,fliH,fliG,fliF,fliE,atoC,fleS,fleQ,fliT,fliS,fliD,PP_4377,fliC,PP_4379,flgL,flgK,flgJ,flgI,flgH,flgG,flgF,PP_4387,flgE,flgD,flgC,flgB,cheR,PP_4393,flgA,flgM,PP_4396,ycgR,PP_4398,PP_4399,bkdR,bkdAA,bkdAB,bkdB,lpdV,PP_4405,PP_4406,PP_4407,PP_4409,PP_4410,PP_5674,PP_4411,PP_4412,PP_4413,PP_4415,PP_5675,PP_5676,PP_5677,PP_5678,PP_4418,insN,PP_4420,PP_5679,PP_4421,gabD‑II,PP_4423,PP_4424,PP_4425,PP_4426,PP_4427,PP_4428,PP_4429,PP_4430,ocd,PP_4432,PP_4433,dadA‑I,PP_4435,PP_4437,PP_4438,PP_4439,PP_4441,PP_4442,PP_4443,PP_4444,PP_4445,PP_4446,PP_5680,PP_4447,PP_4448,PP_5681,[PP_4449]

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947_CJ‑RC = 48795670 (0.000)76 (0.990) 63/292 0.2 100% coding (513/927 nt) puuE allantoinase
?NC_002947_CJ‑RC 5047282 = 0 (0.000)coding (55/255 nt) PP_4449 hypothetical protein

GATK/CNVnator alignment

N/A