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 F28 I1 R2 146 74.7 3299319 84.8% 2797822 66.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 2,207,601 A→T intergenic (‑291/+139) tldD ← / ← yhdP predicted peptidase/conserved membrane protein, predicted transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,207,6010AT100.0% 47.7 / NA 20intergenic (‑291/+139)tldD/yhdPpredicted peptidase/conserved membrane protein, predicted transporter
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (0/20);  total (0/20)

TTCCGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGCC  >  minE/2207582‑2207652
                   |                                                   
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:2462054/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:834969/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:790964/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:596948/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:3271502/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:3211855/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:3101805/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:3008769/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:2935773/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:1005802/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:2293680/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:2261964/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:1951447/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:1924085/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:173538/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:1320879/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:1087200/71‑1 (MQ=21)
ttCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCCGCCGGATGCGGCGTGAACGcc  <  1:1891246/71‑1 (MQ=11)
 tCCGTTTGTAGGCCTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:3080763/70‑1 (MQ=25)
              cTGATTAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGcc  <  1:2353612/57‑1 (MQ=255)
                   |                                                   
TTCCGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGCCGGATGCGGCGTGAACGCC  >  minE/2207582‑2207652

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A