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
A6 F28 I1 R1 58 121.6 3649812 78.1% 2850503 56.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 1,892,019 +GC intergenic (‑437/+54) gudP ← / ← ygdL predicted D‑glucarate transporter/conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,892,0191.G100.0% 197.6 / NA 52intergenic (‑437/+54)gudP/ygdLpredicted D‑glucarate transporter/conserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (36/16);  total (36/16)
*minE1,892,0192.C100.0% 194.8 / NA 52intergenic (‑437/+54)gudP/ygdLpredicted D‑glucarate transporter/conserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (36/16);  total (36/16)

AGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCG  >  minE/1891968‑1892033
                                                    ||              
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:440865/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:3446968/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:2879639/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:3613707/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:2470020/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:3629960/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:3271211/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:159001/62‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:1546789/62‑1 (MQ=255)
 gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:2202610/61‑1 (MQ=255)
 gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:2284211/61‑1 (MQ=255)
 gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:3556437/61‑1 (MQ=255)
 gattcgattcAGCACCGATAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:301462/61‑1 (MQ=255)
  attcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:3003288/60‑1 (MQ=255)
   ttcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:2983737/59‑1 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:3239491/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:1043473/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:3091587/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:3384977/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:3227705/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:3218040/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:2786589/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc   >  1:754812/1‑61 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc    >  1:2484356/1‑60 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:348231/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3618967/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:558139/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:714418/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:810767/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:863683/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:90737/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3178726/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2492769/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:1057749/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:1157477/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:1681597/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:1706341/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:1880276/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2278309/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2448212/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3177305/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2513180/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2556628/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2590197/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2815896/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:2927111/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3012513/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3045479/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3105943/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:3128902/1‑62 (MQ=255)
      gattcAGCACCGCTAAAACGACATTCACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg  >  1:597039/1‑62 (MQ=255)
                        cGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca        <  1:1127480/38‑1 (MQ=25)
                                                    ||              
AGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCG  >  minE/1891968‑1892033

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