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 4,153,383 T→C Q82R (CAG→CGG)  yhfK ← conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb4,153,3830TC100.0% 479.4 / NA 164Q82R (CAG→CGG) yhfKconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (0/164);  total (0/164)

Only 100 of 164 total aligned reads displayed.

AAGGGCAGGGGAACATCTTTTGCCAGTAGTAGCTGTGTCA  >  W3110S.gb/4153350‑4153389
                                 |      
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:388499/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:539406/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:531117/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:512950/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:485003/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:481483/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:461979/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:452897/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:450208/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:450107/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:435741/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:413904/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:551038/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:382551/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:375204/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:353916/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:33330/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:33179/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:321960/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:297541/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:294202/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:287594/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1001544/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:261182/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:745049/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:977206/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:953754/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:944984/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:924723/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:902720/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:866022/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:830024/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:826371/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:793748/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:754532/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:753432/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:287219/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:732623/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:722123/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:712834/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:698422/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:678392/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:669081/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:652247/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:622022/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:597677/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:596985/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:582594/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1209848/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1352470/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1334431/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1309266/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1292142/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1289380/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1281837/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1252018/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1245108/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1240420/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1225982/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1210276/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:240176/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1194029/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1186492/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:116120/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1150066/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1143453/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1069830/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1065156/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1022414/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1012691/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1001727/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1399163/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:221865/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:21510/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:208040/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1633331/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1618822/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1603273/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1587150/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1581313/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1569356/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1554578/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1550182/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1510106/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1383510/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1414348/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1425929/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:145366/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1467849/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1479463/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1496083/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1501227/40‑1 (MQ=37)
aaGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1524727/40‑1 (MQ=37)
aaGGGCAGGGGAACATCATTTGCCAGTAGCACCCGTGTCa  <  1:741787/40‑1 (MQ=25)
 aGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:601858/39‑1 (MQ=37)
 aGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:596049/39‑1 (MQ=37)
 aGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:871495/39‑1 (MQ=37)
 aGGGCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1017988/39‑1 (MQ=37)
    gCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:1061881/36‑1 (MQ=25)
    gCAGGGGAACATCTTTTGCCAGTAGCACCCGTGTCa  <  1:249429/36‑1 (MQ=25)
                                 |      
AAGGGCAGGGGAACATCTTTTGCCAGTAGTAGCTGTGTCA  >  W3110S.gb/4153350‑4153389

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