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
A6 F11 I4 R1 73 908.3 39027734 99.3% 38754539 136.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
MC JC AE015451_phaM1 3,412,992 Δ35,612 bp [PP_3026 CDS (putative Phage recombinase)]–PP_5557 CDS (protein of unknown function) 47 genes

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ AE015451_phaM1 3412992 3448603 35612 1224 [0] [0] 1229 [PP_3026 CDS (putative Phage recombinase)]–PP_5557 CDS (protein of unknown function) [PP_3026 CDS (putative Phage recombinase)],PP_3027 CDS (conserved protein of unknown function),PP_3028 CDS (conserved protein of unknown function),PP_3029 CDS (DNA cytosine methyltransferase family protein),PP_3030 CDS (conserved exported protein of unknown function),prtN CDS (Transcription regulatory protein PrtN),PP_3032 CDS (DNA‑binding protein Roi‑related protein),PP_5552 CDS (conserved protein of unknown function),PP_5553 CDS (conserved protein of unknown function),PP_3033 CDS (putative transcriptional repressor_ CI_C2 family),PP_3034 CDS (putative Regulator protein),PP_3035 CDS (conserved protein of unknown function),PP_5554 CDS (protein of unknown function),PP_3036 CDS (conserved protein of unknown function),PP_5555 CDS (conserved protein of unknown function),PP_3037 CDS (C4‑type zinc finger protein_ DksA_TraR family),PP_3038 CDS (Pyocin R2_PP_ traC domain protein),PP_3039 CDS (conserved protein of unknown function),PP_3040 CDS (Pyocin R2_PP_ holin),PP_3041 CDS (conserved protein of unknown function),PP_3042 CDS (putative Terminase_ large subunit),PP_3043 CDS (conserved protein of unknown function),PP_3044 CDS (Phage portal protein_ lambda family),PP_3045 CDS (putative ClpP protease),PP_3046 CDS (conserved protein of unknown function),PP_3047 CDS (conserved protein of unknown function),PP_3048 CDS (conserved protein of unknown function),PP_3049 CDS (conserved protein of unknown function),PP_3050 CDS (conserved protein of unknown function),gpV CDS (Pyocin R2_PP_ tail spike protein),PP_3052 CDS (conserved protein of unknown function),gpW CDS (Pyocin R2_PP_ baseplate protein),gpJ CDS (Pyocin R2_PP_ baseplate_tail fiber protein),gpI CDS (Pyocin R2_PP_ tail formation protein),PP_3056 CDS (putative Pyocin R2_PP_ tail fiber protein),PP_3057 CDS (putative pectinesterase),PP_3058 CDS (conserved protein of unknown function),PP_3059 CDS (putative tail sheath protein),PP_3060 CDS (putative tail sheath protein),PP_3061 CDS (conserved protein of unknown function),PP_3062 CDS (putative Pyocin R2_PP_ tail length determination protein),gpU CDS (Pyocin R2_PP_ tail formation protein),PP_3064 CDS (Phage tail protein),gpD CDS (Pyocin R2_PP_ tail formation),PP_3066 CDS (Pyocin R2_PP_ lytic enzyme),PP_5556 CDS (putative bacteriophage lysis protein),PP_5557 CDS (protein of unknown function)

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? AE015451_phaM1 = 34129910 (0.000)1198 (1.360) 141/262 0.0 100% coding (1/1626 nt) PP_3026 CDS (putative Phage recombinase)
?AE015451_phaM1 3448604 = 0 (0.000)intergenic (‑472/‑199) PP_5557 CDS (protein of unknown function)/PP_3067 CDS (conserved protein of unknown function) –/–

GATK/CNVnator alignment

N/A