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
A1 F28 I3 R1 178 99.0 1887089 95.3% 1798395 63.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 2,159,910 C→T D837D (GAC→GAT)  mdtB → multidrug efflux system, subunit B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,159,9100CT100.0% 239.0 / NA 64D837D (GAC→GAT) mdtBmultidrug efflux system, subunit B
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (0/64);  total (0/64)

TAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGACACCGAAAAGACGCTGAATCTGCCGG  >  W3110S.gb/2159871‑2159935
                                       |                         
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:561058/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1010306/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1797157/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:200495/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:207954/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:232284/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:241423/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:282591/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:321438/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:339958/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:353742/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:400604/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:456478/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:513668/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:524601/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:537452/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1767539/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:633531/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:639387/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:639753/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:680197/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:684069/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:686099/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:718121/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:889540/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:905638/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:941412/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:951644/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:952472/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:960340/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:965137/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:979820/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1722703/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1032777/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1041612/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1074867/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1084955/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1097023/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1106817/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1130352/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1162157/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1192755/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1254556/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1286650/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1297855/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1301433/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:13265/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1366062/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1383456/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1387536/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1729626/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:143670/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1438429/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:144368/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1571221/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1477947/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1504139/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1538781/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1557426/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1546552/65‑1 (MQ=255)
tAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCCGAATCTGCCgg  <  1:626676/65‑1 (MQ=255)
 aaCTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1152552/64‑1 (MQ=255)
 aaCTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1413854/64‑1 (MQ=255)
               cGATGCGGTGCAGGCGATTATGGATACCGAAAAGACGCTGAATCTGCCgg  <  1:1087180/50‑1 (MQ=255)
                                       |                         
TAACTATTCGCTGGGCGATGCGGTGCAGGCGATTATGGACACCGAAAAGACGCTGAATCTGCCGG  >  W3110S.gb/2159871‑2159935

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