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 3,746,249 T→C A52A (GCA→GCG)  mdtL ← multidrug efflux system protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb3,746,2490TC100.0% 263.3 / NA 92A52A (GCA→GCG) mdtLmultidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (0/92);  total (0/92)

CAAATAACATCGCAGCTGCCATCCCCGCCAGATATACGGAGAACGCAATATGCAACTGCGCT  >  W3110S.gb/3746233‑3746294
                |                                             
cAAATAGCATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:502593/62‑1 (MQ=255)
cAAATAACATCGCAGGCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1282819/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:396388/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:58382/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:579448/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:561997/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:508391/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:49173/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:43067/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:425283/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:423159/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:40458/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:610413/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:394625/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:383912/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:356532/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:347347/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:32258/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:305910/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:267162/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:234652/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:226615/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:200090/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:855965/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:975504/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:939922/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:928512/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:921678/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:895253/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:895098/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:877570/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:877435/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:874680/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:862642/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:859127/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1078664/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:85509/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:852760/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:82393/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:819881/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:813062/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:812071/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:789951/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:728369/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:68605/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:668/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1152440/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1241083/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1239091/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1233195/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1232822/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1214908/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1212234/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1180724/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1180624/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1167680/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1160398/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:161478/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1152219/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:112289/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1114771/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1107723/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1099938/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1095780/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1092680/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1089491/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1087639/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1053358/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1270459/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:183298/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1437490/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1410818/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1394410/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1375562/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1372244/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1355073/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1341994/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1321969/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1315589/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1311380/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1308168/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1307906/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1306682/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1299423/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:129895/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1295591/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:128693/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:127114/62‑1 (MQ=255)
cAAATAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:1247207/62‑1 (MQ=255)
 aaaTAACATCGCAGCCGCCATCCCCTCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:159508/61‑1 (MQ=255)
 aaaTAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:833142/61‑1 (MQ=255)
   aTAACATCGCAGCCGCCATCCCCGCCAGATAAACGGAGAACGCAATATGCAACTGCGCt  <  1:990468/59‑1 (MQ=255)
                |                                             
CAAATAACATCGCAGCTGCCATCCCCGCCAGATATACGGAGAACGCAATATGCAACTGCGCT  >  W3110S.gb/3746233‑3746294

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A