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
A2 F11 I4 R1 74 758.2 33768536 99.3% 33532156 136.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
MC JC AE015451_phaM1 3,366,695 Δ15,777 bp [PP_2964 CDS (putative transposase)]–[PP_2984 CDS (conserved protein of unknown function)] 20 genes

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ AE015451_phaM1 3366695 3382471 15777 758 [0] [0] 751 [PP_2964 CDS (putative transposase)]–[PP_2984 CDS (conserved protein of unknown function)] [PP_2964 CDS (putative transposase)],tnpC CDS (putative tnpA repressor TnpC),PP_2968 CDS (putative nickel_cobalt transporter_ high‑affinity),csoR CDS (putative repressor of copper utilisation proteins),PP_2970 CDS (conserved exported protein of unknown function),PP_2971 CDS (transposase),PP_2972 CDS (conserved protein of unknown function),dgkA‑II CDS (diacylglycerol kinase),PP_2974 CDS (putative sulfatase),PP_2975 CDS (Insertion element ISR1 uncharacterized 10 kDa protein A3),PP_2976 CDS (putative transposase),PP_mr38 ncRNA (ALIL regulatory region),tnpB CDS (Tn4652_ transposase subunit B),PP_2978 CDS (conserved protein of unknown function),PP_2979 CDS (conserved protein of unknown function),PP_2980 CDS (conserved protein of unknown function),tnpS CDS (putative cointegrate resolution protein S),tnpT‑I CDS (putative cointegrate resolution protein T Tn4652),PP_2983 CDS (conserved protein of unknown function),[PP_2984 CDS (conserved protein of unknown function)]

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? AE015451_phaM1 = 33666940 (0.000)745 (0.990) 119/268 0.3 100% intergenic (+360/‑1) PP_2962 CDS (Alcohol dehydrogenase_ zinc‑containing)/PP_2964 CDS (putative transposase) –/–
?AE015451_phaM1 3382472 = 0 (0.000)intergenic (+1/‑28) PP_2984 CDS (conserved protein of unknown function)/PP_5545 CDS (protein of unknown function) –/–

GATK/CNVnator alignment

N/A