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 1,826,294 A→C 27.2% S10R (AGT→AGG) ‡ hydN ← formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,826,2940AC27.2% 160.0 / 107.8 136S10R (AGT→AGG) ‡hydNformate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit
Reads supporting (aligned to +/- strand):  ref base A (62/37);  new base C (17/20);  total (79/57)
Fisher's exact test for biased strand distribution p-value = 1.18e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 138 total aligned reads displayed.

ATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATACATT  >  minE/1826224‑1826362
                                                                      |                                                                    
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTa                                                                      >  1:1894282/1‑71 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTa                                                                      <  1:1973093/71‑1 (MQ=255)
     caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc                                                                 <  1:1102946/68‑1 (MQ=255)
     caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc                                                                 <  1:4541114/68‑1 (MQ=255)
     caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc                                                                 <  1:3192130/68‑1 (MQ=255)
      aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgca                                                                >  1:649410/3‑70 (MQ=255)
      aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc                                                                 <  1:2550428/68‑1 (MQ=255)
       gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt                                                                    >  1:4059290/1‑66 (MQ=255)
       atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat                                                               >  1:4393609/2‑69 (MQ=255)
       atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat                                                               >  1:1623890/2‑69 (MQ=255)
       atCCTGAATCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat                                                               <  1:1165970/70‑3 (MQ=255)
          cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg                                                            >  1:880577/1‑71 (MQ=255)
          cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg                                                            >  1:4335482/1‑71 (MQ=255)
          cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg                                                            >  1:1523518/1‑69 (MQ=255)
            gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt                                                                    >  1:3681554/1‑61 (MQ=255)
            gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt                                                                    >  1:3799546/1‑61 (MQ=255)
            gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc                                                           >  1:5298515/1‑70 (MQ=255)
            gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc                                                           >  1:4850430/1‑70 (MQ=255)
             aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa                                                         >  1:5036326/1‑71 (MQ=255)
             aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa                                                          >  1:3737640/1‑70 (MQ=255)
             aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg                                                                  >  1:515577/1‑62 (MQ=255)
             aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc                                                           <  1:602642/69‑1 (MQ=255)
             aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc                                                           <  1:1264433/69‑1 (MQ=255)
             aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc                                                           <  1:4796910/69‑1 (MQ=255)
             aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc                                                           <  1:3267245/69‑1 (MQ=255)
             aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCa                                                          <  1:3064599/70‑1 (MQ=255)
                   atgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCACCCGATACATTTCGTCGCATCCGCaataata                                                    >  1:4067795/2‑69 (MQ=255)
                   atgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAataa                                                      <  1:2683741/67‑3 (MQ=255)
                     gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac                                                 >  1:3092677/1‑70 (MQ=255)
                     gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac                                                 >  1:1356230/1‑70 (MQ=255)
                      atgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc                                                >  1:860411/1‑71 (MQ=255)
                      atgaGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc                                                >  1:2564220/1‑71 (MQ=255)
                       tgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACg                                               >  1:1061345/1‑71 (MQ=255)
                         agaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt                                             >  1:4197328/1‑71 (MQ=255)
                          gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt                                             >  1:3715697/1‑70 (MQ=255)
                           aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtc                                           <  1:1646897/71‑1 (MQ=255)
                           aaaCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg                                                            <  1:5528802/54‑1 (MQ=255)
                             actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat                                         >  1:1878049/4‑71 (MQ=255)
                             actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat                                         <  1:846580/68‑1 (MQ=255)
                             aCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa                                                          >  1:1485272/1‑54 (MQ=255)
                              ctgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatg                                        <  1:437939/69‑2 (MQ=255)
                              ctgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatg                                        <  1:363866/69‑2 (MQ=255)
                               tgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAat                                                        <  1:863635/53‑1 (MQ=255)
                                gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatgat                                      >  1:3055161/1‑68 (MQ=255)
                                gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatgat                                      >  1:3596661/1‑68 (MQ=255)
                                gcgcAAGCCACTTCACAGGTACGGCAACCGATACAATTCGTCGCATCCGCAATAATAAACCgg                                              >  1:2367061/1‑63 (MQ=255)
                                acgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcatca                                       >  1:4714803/2‑70 (MQ=255)
                                acgcACGCTACTTCACAGGTACGGCAACCAATACAATTACTCCCGTCAGCa                                                          >  1:1079576/2‑51 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc                                                                 <  1:975174/43‑1 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc                                                                 <  1:1759731/43‑1 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc                                                                 <  1:3769048/43‑1 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt                                                               >  1:2429850/1‑45 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt                                                               >  1:4551204/1‑45 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt                                                               >  1:2350963/1‑45 (MQ=255)
                                 cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa                                                 >  1:2286834/1‑59 (MQ=255)
                                  gcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgatg                                                    <  1:227899/55‑1 (MQ=255)
                                  gcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataataa                                                   <  1:3399526/56‑3 (MQ=255)
                                  gcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataataa                                                   <  1:2872217/56‑3 (MQ=255)
                                   cACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt                                   <  1:4459305/71‑1 (MQ=255)
                                    aCGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtc                                  <  1:1406533/71‑1 (MQ=255)
                                        tACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt                                   >  1:2931810/1‑66 (MQ=255)
                                          cTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata                                                    <  1:683848/47‑2 (MQ=255)
                                          cTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata                                                    <  1:3698722/47‑2 (MQ=255)
                                          cTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata                                                    <  1:1849232/47‑2 (MQ=255)
                                          cTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa                                                 >  1:2833369/1‑50 (MQ=255)
                                          cTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGc                            <  1:4611331/71‑1 (MQ=255)
                                           ttCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc                                                <  1:780530/50‑1 (MQ=255)
                                            tCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaa                                                         >  1:1186528/1‑40 (MQ=255)
                                             cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACgg                                              >  1:2277003/1‑50 (MQ=255)
                                             cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACgg                                              >  1:1649699/1‑50 (MQ=255)
                                             cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACTGTTCATCAAATTCTCCAGCAAt                         >  1:2634725/1‑71 (MQ=255)
                                             cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCaa                          >  1:761459/1‑70 (MQ=255)
                                             cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt                         >  1:4893344/1‑71 (MQ=255)
                                             cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt                         >  1:3200815/1‑71 (MQ=255)
                                              acaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCGAGCAAt                         <  1:4551119/70‑1 (MQ=255)
                                              acaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt                         <  1:1570595/70‑1 (MQ=255)
                                                aGGTACGGCAACCGATACATTTCGTCGCATCCGCAat                                                        >  1:2481015/1‑37 (MQ=16)
                                                 ggTACGGCAACCAATACATTTACTCGCGTCAGCAatgat                                                     >  1:4438090/1‑39 (MQ=255)
                                                 ggTACGGCAACCAATACATTTACTCGCGTCAGCAatgat                                                     >  1:3002386/1‑39 (MQ=255)
                                                 ggTACGGCAACCAATACATTTACTCGCGTCAGCAatgat                                                     >  1:4887213/1‑39 (MQ=255)
                                                   tACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt                   <  1:3427/71‑1 (MQ=255)
                                                    aCGGCAACCAATACATTTACTCGCGTCAGCAAttatga                                                   <  1:4235802/38‑1 (MQ=255)
                                                    aCGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt                   <  1:3380428/70‑1 (MQ=255)
                                                     cGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGtt                  <  1:2694846/70‑1 (MQ=255)
                                                      ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGAc                      <  1:2180224/65‑1 (MQ=255)
                                                      ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGAc                      <  1:266824/65‑1 (MQ=255)
                                                       gCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTaa                >  1:3059631/1‑70 (MQ=255)
                                                          aCCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATgcg            >  1:5187152/1‑71 (MQ=255)
                                                            cAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGcc          >  1:3609962/1‑71 (MQ=255)
                                                              aTACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt                   <  1:4153070/60‑1 (MQ=255)
                                                              aTACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGa        >  1:533537/1‑71 (MQ=255)
                                                              aTACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGa        >  1:5391877/1‑71 (MQ=255)
                                                                aCATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATa      >  1:3074050/1‑71 (MQ=255)
                                                                 cATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtct                                 >  1:5587444/1‑43 (MQ=255)
                                                                 cATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTcc                               >  1:2136589/1‑45 (MQ=255)
                                                                  aTTTACTCGCGTCAGCAATGATGAAACGGTTCATCaaa                                     <  1:4338875/38‑1 (MQ=255)
                                                                  aTTTACTCGCGTCAGCAATGATGAAACGGTTCATCaaa                                     <  1:3890578/38‑1 (MQ=255)
                                                                    ttACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt                                   >  1:3844548/1‑38 (MQ=255)
                                                                    ttACTCGCGTCAGCAATGATGAAACGGTTCATCAAAt                                    >  1:4324407/1‑37 (MQ=255)
                                                                    ttACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATACAtt  >  1:1775688/1‑71 (MQ=255)
                                                                      |                                                                    
ATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATACATT  >  minE/1826224‑1826362

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