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 2,513,256 T→A T29S (ACC→TCC)  ypdG ← predicted enzyme IIC component of PTS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,513,2560TA100.0% 329.7 / NA 115T29S (ACC→TCC) ypdGpredicted enzyme IIC component of PTS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (0/115);  total (0/115)

Only 100 of 115 total aligned reads displayed.

TGAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGTTTTAGAGGCCTGCGG  >  W3110S.gb/2513209‑2513271
                                               |               
tGAAATCCCTGACATCACATGCTGC‑‑GAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:454376/61‑1 (MQ=255)
 gAAATCCCTTACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:62053/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGTCCTGCgg  <  1:904832/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:234815/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:510290/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:483323/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:465847/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:451520/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:447050/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:393949/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:347394/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:282259/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:247461/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:512172/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:203892/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:199634/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:194647/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1005442/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:18408/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1644065/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1636800/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1604319/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1591158/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:674848/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:977947/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:955680/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:948252/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:901080/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:845503/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:82853/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:818096/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:78679/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:778738/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:678994/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:511247/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:637859/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:637281/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:637237/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:611116/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:607209/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:560995/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:558689/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:512670/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:184501/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1125972/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1333404/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1316606/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1290634/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1250234/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1201780/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1189028/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1187570/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1174760/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1169726/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1167816/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1553038/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:111747/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1082047/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1069300/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1062546/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1042089/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1022961/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1016963/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1009478/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1005964/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1439587/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1554847/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:154593/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:153182/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1518969/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1511698/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1510978/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:150052/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1493115/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1450744/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1391957/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1422081/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1414391/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1407667/62‑1 (MQ=255)
 gAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTACAGGCCTGCgg  <  1:79100/62‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAATCTGGATTTAGAGGCCTGCgg  <  1:487095/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:413852/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1336580/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1012635/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:859321/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1323395/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:577600/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1255918/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:736959/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:360387/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:308655/61‑1 (MQ=255)
  aaaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1421568/61‑1 (MQ=255)
   aaTCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1443873/60‑1 (MQ=255)
         tGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:934661/54‑1 (MQ=255)
          gACATCACATGCTTCGGGAGTTCACCCCAGAAGGTGGATTTAGAGGCCTGCgg  <  1:520752/53‑1 (MQ=255)
               cacaTGCTGCGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1038676/48‑1 (MQ=255)
                     ctgcGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:539349/42‑1 (MQ=255)
                     ctgcGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1394389/42‑1 (MQ=255)
                        cGGGAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:1018915/39‑1 (MQ=255)
                           gAGTTCACCCCAGAAGCTGGATTTAGAGGCCTGCgg  <  1:347347/36‑1 (MQ=255)
                                               |               
TGAAATCCCTGACATCACATGCTGCGGGAGTTCACCCCAGAAGCTGGTTTTAGAGGCCTGCGG  >  W3110S.gb/2513209‑2513271

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