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 I3 R2 489 0.0 1652083 58.3% 963164 55.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 411,271 C→T P145P (CCG→CCA)  araJ ← predicted transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb411,2710CT100.0% 204.5 / NA 74P145P (CCG→CCA) araJpredicted transporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (0/74);  total (0/74)

AATACGTTCCCAGCGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCCGC  >  W3110S.gb/411258‑411318
             |                                               
aaTACGTT‑CCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1118722/60‑1 (MQ=255)
 aTACGTTCTCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:254641/60‑1 (MQ=255)
 aTACGTTCCCAGTGTAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:17922/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCTCGGAAACCATCCCTGc  <  1:987843/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:300214/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:546027/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:543523/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:52300/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:481538/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:422926/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:416760/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:40494/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:355838/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:339782/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:59286/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:285091/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:26856/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1039282/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:195145/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:749545/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:994200/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:984419/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:93414/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:925152/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:875901/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:863184/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:823604/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:78172/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:564994/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:717995/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:713566/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:71241/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:711335/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:705373/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:62350/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:225244/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1212290/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1303231/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1297472/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1288004/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1270996/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1266850/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1245616/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:12249/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1218482/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:178913/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:117944/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1158242/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1142112/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1135579/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1134452/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1132519/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1078270/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:190818/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1650581/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1451498/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1506511/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:15083/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1538161/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1646931/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1548780/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1305113/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1615744/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1608465/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATACCTGc  <  1:1424188/60‑1 (MQ=255)
 aTACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGGCATCCCGGAAACCATCCCTGc  <  1:354937/60‑1 (MQ=255)
  tACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:286491/59‑1 (MQ=255)
  tACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1560583/59‑1 (MQ=255)
  tACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:390087/59‑1 (MQ=255)
  tACGTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:110088/59‑1 (MQ=255)
  tACGTTCCCAGTGGAATGCCCAGCAAATTCTCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1091413/59‑1 (MQ=255)
   aCGGTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:581194/58‑1 (MQ=255)
     gTTCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:963381/56‑1 (MQ=255)
       tCCCAGTGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCTGc  <  1:1399267/54‑1 (MQ=255)
             |                                               
AATACGTTCCCAGCGGAATGCCCAGCAAATTGGCGACTGTCATCCCGGAAACCATCCCCGC  >  W3110S.gb/411258‑411318

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