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 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 608,091 T→C 42.4% E721E (GAA→GAG)  pflB ← pyruvate formate lyase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE608,0910TC42.4% 74.2 / 104.7 92E721E (GAA→GAG) pflBpyruvate formate lyase I
Reads supporting (aligned to +/- strand):  ref base T (35/18);  new base C (25/14);  total (60/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGA  >  minE/608023‑608159
                                                                    |                                                                    
gTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTc                                                                    <  1:2381112/71‑1 (MQ=255)
gTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTc                                                                    >  1:4713787/1‑71 (MQ=255)
 tCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTcc                                                                   <  1:1067665/71‑1 (MQ=255)
 tCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTcc                                                                   <  1:4341197/71‑1 (MQ=255)
   aGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCAt                                                                 >  1:4465790/1‑71 (MQ=255)
     cGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATcg                                                               >  1:2599153/1‑71 (MQ=255)
           gAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCa                                                                  >  1:3090896/1‑62 (MQ=255)
           gAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCg                                                          <  1:1841906/70‑1 (MQ=255)
              aCGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGagca                                                      <  1:2574704/71‑1 (MQ=255)
              aCGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGag                                                        >  1:4723853/1‑69 (MQ=255)
                   cggCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCAtt                                                 >  1:2496566/3‑71 (MQ=12)
                   cggCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCAt                                                  >  1:2145640/3‑70 (MQ=12)
                     gCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTc                                               >  1:3894100/1‑71 (MQ=16)
                      cGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCAt                                                                 >  1:4987806/1‑52 (MQ=255)
                      cGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCAttt                                                <  1:2534990/69‑1 (MQ=255)
                      cGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCa                                              >  1:686846/1‑71 (MQ=255)
                         aGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCga                                           >  1:611247/1‑70 (MQ=12)
                          gCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCgat                                          >  1:204410/1‑69 (MQ=12)
                             agagACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtc                                        <  1:3476824/70‑1 (MQ=9)
                             aGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtca                                       >  1:4707475/1‑71 (MQ=255)
                              gagacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcat                                      <  1:3047823/68‑1 (MQ=9)
                              gagacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcat                                      <  1:1208217/68‑1 (MQ=9)
                              gagacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcat                                      <  1:1890052/68‑1 (MQ=9)
                                tACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcatc                                     <  1:4459557/70‑1 (MQ=255)
                                tACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcatc                                     <  1:3986411/70‑1 (MQ=255)
                                gacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcatta                                    >  1:2583400/2‑69 (MQ=9)
                                 acacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtc                                        >  1:2752349/1‑66 (MQ=255)
                                 acacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCAc                                   >  1:125761/1‑71 (MQ=255)
                                 acacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCAc                                   >  1:378263/1‑71 (MQ=255)
                                  cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg                                  <  1:3994210/71‑1 (MQ=12)
                                  cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg                                  <  1:2610403/71‑1 (MQ=12)
                                  cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg                                  <  1:5515929/71‑1 (MQ=12)
                                  cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg                                  <  1:2878476/71‑1 (MQ=12)
                                  cacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACg                                  >  1:1900190/1‑71 (MQ=255)
                                    cGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGtt                                <  1:724340/71‑1 (MQ=255)
                                     ggATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGtt                                >  1:2256425/1‑70 (MQ=255)
                                      gATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTaa                              >  1:3215964/1‑71 (MQ=255)
                                          gTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTaa                              <  1:388756/67‑1 (MQ=255)
                                          gTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGt                           <  1:623050/70‑1 (MQ=255)
                                            cAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcatc                                     >  1:3268764/1‑58 (MQ=255)
                                            cAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGtt                          >  1:672858/1‑69 (MQ=255)
                                             aGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTaa                              >  1:5346504/1‑64 (MQ=255)
                                             aGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAg                       >  1:4238926/1‑71 (MQ=255)
                                                ttaggATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTg                    <  1:430491/68‑1 (MQ=255)
                                                  cGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTg                    <  1:3561424/69‑1 (MQ=255)
                                                  cGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCt                  <  1:2347595/71‑1 (MQ=255)
                                                  cGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCt                  >  1:4815554/1‑71 (MQ=255)
                                                   ggATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCa                        <  1:684597/64‑1 (MQ=255)
                                                   ggATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTg                 <  1:4759502/71‑1 (MQ=255)
                                                   ggATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTgtt                  <  1:1529062/70‑3 (MQ=255)
                                                    gATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGa                >  1:352683/1‑71 (MQ=12)
                                                    gATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGa                >  1:5338729/1‑71 (MQ=12)
                                                     atatTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTg                    <  1:5669114/66‑1 (MQ=255)
                                                      tatTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcat                                      >  1:3001888/1‑47 (MQ=255)
                                                      tatTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGAc                             >  1:28388/1‑56 (MQ=255)
                                                      tatTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGacc              >  1:3784295/1‑71 (MQ=12)
                                                       atTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCt                  >  1:223045/1‑66 (MQ=255)
                                                       atTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGacca             >  1:762954/1‑71 (MQ=255)
                                                       atTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGaccg             >  1:4047357/1‑70 (MQ=255)
                                                       atTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGaccg             >  1:3157662/1‑70 (MQ=255)
                                                       atTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGaccg             >  1:2994233/1‑70 (MQ=255)
                                                       atTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGacc              >  1:4518422/1‑70 (MQ=255)
                                                        tttttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGtt                                         >  1:4697980/1‑42 (MQ=255)
                                                        tttttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCa                        >  1:1148539/1‑59 (MQ=255)
                                                        tttttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGaccac            >  1:4866991/1‑71 (MQ=255)
                                                        tttttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGacc              <  1:1020302/69‑1 (MQ=255)
                                                         ttttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCa                                              <  1:659991/36‑1 (MQ=255)
                                                         ttttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCAc                                             >  1:4531187/1‑37 (MQ=255)
                                                         ttttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCAc                                             >  1:1687938/1‑37 (MQ=255)
                                                         ttttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGaccgcc           >  1:2690368/1‑71 (MQ=255)
                                                          tttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACg                                            >  1:5128369/1‑37 (MQ=255)
                                                          tttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTg                 >  1:1028818/1‑64 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTgt                   >  1:4919348/1‑61 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTgt                   >  1:2252157/1‑61 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGaccgcc           <  1:41402/70‑1 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGaccgcc           <  1:1711094/70‑1 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCt          >  1:4776960/1‑71 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCt          >  1:4862636/1‑71 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCt          >  1:5486463/1‑71 (MQ=255)
                                                          tttCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCt          >  1:3596185/1‑71 (MQ=255)
                                                           ttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACg                                            >  1:4524001/1‑36 (MQ=255)
                                                           ttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACg                                            >  1:3913732/1‑36 (MQ=255)
                                                           ttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcat                                      >  1:422474/1‑42 (MQ=255)
                                                           ttCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcat                                      >  1:2108252/1‑42 (MQ=255)
                                                            tCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTc        >  1:894824/1‑71 (MQ=12)
                                                            tCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTc        >  1:4702231/1‑71 (MQ=12)
                                                            tCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTc        >  1:2933824/1‑71 (MQ=12)
                                                            tCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTc        >  1:2940340/1‑71 (MQ=12)
                                                             ccGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGtt                                <  1:3789738/46‑1 (MQ=255)
                                                             ccGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTc        <  1:1375712/70‑1 (MQ=255)
                                                                ggTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGa                >  1:3606674/1‑59 (MQ=255)
                                                                ggTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGa                >  1:4418540/1‑59 (MQ=255)
                                                                  ttttCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCgatgga  >  1:4004942/1‑71 (MQ=255)
                                                                    ttCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCga      >  1:1784602/1‑65 (MQ=255)
                                                                    |                                                                    
GTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGA  >  minE/608023‑608159

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