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 F21 I0 R2 316 65.6 5147759 97.4% 5013917 60.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 2,936,230 C→T 34.6% A46V (GCC→GTC)  fucK → L‑fuculokinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,936,2300CT34.6% 94.6 / 78.5 81A46V (GCC→GTC) fucKL‑fuculokinase
Reads supporting (aligned to +/- strand):  ref base C (23/30);  new base T (11/17);  total (34/47)
Fisher's exact test for biased strand distribution p-value = 8.15e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01

GCGACCAATGTCAGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATTTTGCAACGCTTT  >  W3110S.gb/2936160‑2936297
                                                                      |                                                                   
gcgACCAATGTCAGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGc                                                                     <  1:1945996/71‑1 (MQ=255)
gcgAACAATGTCAGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGc                                                                     <  1:3485048/71‑1 (MQ=255)
          tCAGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGatat                                                            <  1:3702487/70‑1 (MQ=255)
          tCAGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATc                                                           >  1:1796543/1‑71 (MQ=255)
            aGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATcgc                                                         <  1:2617840/71‑1 (MQ=255)
              ggCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATcgc                                                         <  1:269994/69‑1 (MQ=255)
                   tCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGaa                                                  <  1:744600/71‑1 (MQ=255)
                   tCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGaa                                                  <  1:221669/71‑1 (MQ=255)
                   tCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGaa                                                  <  1:336630/71‑1 (MQ=255)
                     gcgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGaaaa                                                >  1:1543264/1‑71 (MQ=255)
                     gcgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGaaaa                                                >  1:3388827/1‑71 (MQ=255)
                     gcgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGaaaa                                                >  1:3453652/1‑71 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGAAaac                                               <  1:2814571/71‑1 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:2749697/71‑1 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:3373095/71‑1 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:621756/71‑1 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:865112/71‑1 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:4069356/71‑1 (MQ=255)
                      cgGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:4426463/71‑1 (MQ=255)
                         ttAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATcgc                                                         <  1:4325363/58‑1 (MQ=255)
                         ttAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATcgc                                                         <  1:1871157/58‑1 (MQ=255)
                           aaTCGGCAGGGCAAAATTGTTGCCCGCGCCTCACCGCCTAATGTCAGCGATATCGCGATGGAAAACAacac                                          >  1:436518/1‑71 (MQ=255)
                           aaTCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGa                                                               >  1:2032796/1‑50 (MQ=255)
                           aaTCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGa                                                               >  1:4514192/1‑50 (MQ=255)
                             tCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAacac                                          <  1:1943083/69‑1 (MQ=255)
                             tCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaacaa                                             >  1:1266240/1‑66 (MQ=255)
                               ggCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGa                                                   <  1:3755822/58‑1 (MQ=255)
                               ggCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAacac                                          >  1:2690461/1‑67 (MQ=255)
                               ggCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAacac                                          >  1:2834694/1‑67 (MQ=255)
                               ggCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAacac                                          >  1:1763642/1‑67 (MQ=255)
                               ggCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTgg                                      >  1:2700830/1‑71 (MQ=255)
                               ggCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTgg                                      >  1:4709436/1‑71 (MQ=255)
                                  aGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCa                                                                   >  1:3665224/1‑39 (MQ=255)
                                  aGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCAc                                   <  1:4920055/71‑1 (MQ=255)
                                    ggCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGc                                                                 <  1:3602663/39‑1 (MQ=255)
                                    ggCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaacaac                                            <  1:931879/60‑1 (MQ=255)
                                    ggCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:1606864/57‑1 (MQ=255)
                                    ggCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCAc                                   <  1:1007986/69‑1 (MQ=255)
                                     gCAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCTCGAt                                                      <  1:2898453/49‑1 (MQ=255)
                                      cAAAATTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGt                               >  1:1873671/1‑71 (MQ=255)
                                      cAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGaaaa                                                >  1:3687510/1‑54 (MQ=255)
                                        aaaTTGTTGCCCGCGCCTCAACGCCTAATGTCAGc                                                                 <  1:3591565/35‑1 (MQ=255)
                                        aaaTTGTTGCCCGCGCCTCAACGCCTAATGTCAGc                                                                 <  1:2866784/35‑1 (MQ=255)
                                        aaaTTGTTGCCCGCGCCTCAACGCCTAATGTCAGc                                                                 <  1:2089705/35‑1 (MQ=255)
                                        aaaTTGTTGCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGaa                                                  <  1:288755/50‑1 (MQ=255)
                                           ttgttgCGCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGc                                     >  1:5008784/1‑60 (MQ=255)
                                           ttgttgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCt                          >  1:4997646/1‑71 (MQ=255)
                                           ttgttgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCt                          >  1:413431/1‑71 (MQ=255)
                                            tgttgCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGa                                                       >  1:130375/1‑41 (MQ=255)
                                            tgttgCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGa                                                       >  1:750270/1‑41 (MQ=255)
                                            tgttgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaacaac                                            <  1:3308223/52‑1 (MQ=255)
                                            tgttgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaacaac                                            <  1:690028/52‑1 (MQ=255)
                                             gttgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGaaaa                                                >  1:1334854/1‑47 (MQ=255)
                                             gttgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCtt                         <  1:234911/70‑1 (MQ=255)
                                             gttgCCCGCCCCTCAACGCCTAATGCCTGCGATATCGCGATGGAAAACAACACCTGGCACCAGTTGTCtt                         <  1:3046501/70‑1 (MQ=255)
                                              ttgCCCGCGCCTCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       <  1:257982/71‑1 (MQ=255)
                                               tgCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAg                      >  1:2851486/1‑71 (MQ=255)
                                                gCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAacac                                          >  1:3331170/1‑50 (MQ=255)
                                                  ccGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:2131951/43‑1 (MQ=255)
                                                  ccGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:4706983/43‑1 (MQ=255)
                                                  ccGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAaac                                               <  1:3380859/43‑1 (MQ=255)
                                                     cgcCTCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCa                <  1:1978701/71‑1 (MQ=255)
                                                        cTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCAttt             <  1:2657029/71‑1 (MQ=255)
                                                         tCAACGCCTAATTTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       <  1:4735777/60‑1 (MQ=255)
                                                         tCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       <  1:2702183/60‑1 (MQ=255)
                                                         tCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCAtttt            >  1:3980708/1‑71 (MQ=255)
                                                         tCAACGCCTAATGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCAtttt            >  1:2597123/1‑71 (MQ=255)
                                                         tCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       <  1:4958157/60‑1 (MQ=255)
                                                          cAACGCCTAATGTCAGCGATATCGCGATGGAAaac                                               <  1:5052723/35‑1 (MQ=255)
                                                          cAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       >  1:937509/1‑59 (MQ=255)
                                                          cAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       >  1:4619382/1‑59 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAaacaac                                            <  1:3773969/37‑1 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAaacaac                                            <  1:2567960/37‑1 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGa                     >  1:3219298/1‑60 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGa                     >  1:1683477/1‑60 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCAtttt            <  1:534878/69‑1 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATTTTg           >  1:2615704/1‑70 (MQ=255)
                                                           aaCGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATATTg           >  1:76378/1‑70 (MQ=255)
                                                                   aTGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTa                       <  1:3765145/50‑1 (MQ=255)
                                                                   aTGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATTTTg           >  1:1263648/1‑62 (MQ=255)
                                                                   aTGTCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATTTTGCAACGCttt  >  1:608961/1‑71 (MQ=255)
                                                                   aTGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCtt                         <  1:2524817/48‑1 (MQ=255)
                                                                   aTGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATTTTGCAACGCt    <  1:4741437/69‑1 (MQ=255)
                                                                      |                                                                   
GCGACCAATGTCAGGGCCATCGCGGTTAATCGGCAGGGCAAAATTGTTGCCCGCGCCTCAACGCCTAATGCCAGCGATATCGCGATGGAAAACAACACCTGGCACCAGTGGTCTTTAGACGCCATTTTGCAACGCTTT  >  W3110S.gb/2936160‑2936297

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A