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
A5 F28 I2 R1 721 0.0 1472758 54.8% 807071 56.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 416,923 T→C T186T (ACT→ACC)  phoB → DNA‑binding response regulator in two‑component regulatory system with PhoR (or CreC)

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb416,9230TC100.0% 94.8 / NA 35T186T (ACT→ACC) phoBDNA‑binding response regulator in two‑component regulatory system with PhoR (or CreC)
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (35/0);  total (35/0)

ACGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACTAACG  >  W3110S.gb/416867‑416927
                                                        |    
aCGCATCCTGAGCGCTTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1196377/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:716418/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:479218/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:515832/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:526221/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:541350/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:565489/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:60729/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:635404/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:65212/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:410346/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:754298/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:774751/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:83268/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:870890/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:927659/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:940983/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:968233/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:165561/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1141472/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:117497/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1189355/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1205302/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1234061/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1309003/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1353763/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:155979/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:445115/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:229743/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:252670/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:264160/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:275257/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:367391/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:369620/1‑61 (MQ=255)
aCGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACCAACg  >  1:1135808/1‑61 (MQ=255)
                                                        |    
ACGCATCCTGAGCGCGTGTACAGCCGCGAGCAGCTGTTAAACCACGTCTGGGGAACTAACG  >  W3110S.gb/416867‑416927

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A