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 1,933,759 G→A 23.4% N228N (AAC→AAT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,7590GA23.4% 205.3 / 58.6 111N228N (AAC→AAT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (35/50);  new base A (17/9);  total (52/59)
Fisher's exact test for biased strand distribution p-value = 4.27e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01

Only 100 of 118 total aligned reads displayed.

AGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTT  >  minE/1933689‑1933829
                                                                      |                                                                      
aGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg                                                                        >  1:97304/1‑71 (MQ=255)
aGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg                                                                        >  1:3754388/1‑71 (MQ=255)
 gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                                                                       <  1:5160679/71‑1 (MQ=255)
 gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                                                                       >  1:1466483/1‑71 (MQ=255)
    accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                                                                    <  1:1891689/71‑1 (MQ=255)
    accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                                                                    >  1:2121995/1‑71 (MQ=255)
      caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg                                                                  <  1:5127902/71‑1 (MQ=255)
       aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggt                                                                 >  1:768292/1‑71 (MQ=255)
        accaccAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggtg                                                                <  1:4447946/71‑1 (MQ=255)
        accaccAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg                                                                  >  1:1444606/1‑69 (MQ=255)
        acaaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTatgatg                                                                >  1:4548195/4‑71 (MQ=255)
        acaaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTatgatg                                                                >  1:4321830/4‑71 (MQ=255)
         caaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtgatgg                                                               >  1:1068133/3‑71 (MQ=255)
           accaGACGTTTCAGATACAGCTCCGGTGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                                              >  1:415251/1‑70 (MQ=255)
           accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACGTATCTAAATCCAGAGCATTATgatggg                                                              >  1:3721280/1‑70 (MQ=255)
           accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt                                                             <  1:2784532/71‑1 (MQ=255)
           accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                                              >  1:3398683/1‑70 (MQ=255)
           accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                                              >  1:829866/1‑70 (MQ=255)
           accaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATggtgggt                                                             <  1:3568469/71‑1 (MQ=255)
            ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt                                                             >  1:1133008/1‑70 (MQ=255)
            ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt                                                             >  1:739177/1‑70 (MQ=255)
            ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                                              >  1:4618509/1‑69 (MQ=255)
               gACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAAt                                                          >  1:3131719/1‑70 (MQ=255)
               gACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATa                                                         <  1:585195/71‑1 (MQ=255)
               gACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATa                                                         <  1:3421319/71‑1 (MQ=255)
                aCGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGtaataa                                                        <  1:1714656/71‑1 (MQ=255)
                  gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAc                                                      >  1:5113055/1‑71 (MQ=255)
                  gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAc                                                      <  1:4374755/71‑1 (MQ=255)
                      gAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACgg                                                    <  1:743625/69‑1 (MQ=255)
                      gAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACgg                                                    <  1:5619305/69‑1 (MQ=255)
                      gAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACgg                                                    <  1:4481914/69‑1 (MQ=255)
                         gTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                                                                    <  1:752053/50‑1 (MQ=255)
                         atACAGCTCCGGCGCGATACGCATATACATATCTAAATCCAGAGCATTAt                                                                    <  1:280149/49‑1 (MQ=255)
                         atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcgag                                               >  1:4868777/2‑69 (MQ=255)
                         atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcgag                                               >  1:2999489/2‑69 (MQ=255)
                         atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcgag                                               >  1:5531915/2‑69 (MQ=255)
                          tACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                                               >  1:1524639/1‑70 (MQ=255)
                          tACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                                               >  1:5297841/1‑70 (MQ=255)
                           aCAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg                                                                  >  1:1514538/1‑50 (MQ=255)
                           aCAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                                               >  1:4957127/1‑69 (MQ=255)
                            cAGTTCCGGTGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCa                                             <  1:2054571/70‑1 (MQ=255)
                            cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATaaa                                                       >  1:5344057/1‑60 (MQ=255)
                            cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAg                                            <  1:2744063/71‑1 (MQ=255)
                            cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAg                                            <  1:4187216/71‑1 (MQ=255)
                            cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAg                                            >  1:730371/1‑71 (MQ=255)
                            cAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGCGAGCa                                             <  1:1520136/70‑1 (MQ=255)
                            cAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGCGAGCa                                             <  1:3098146/70‑1 (MQ=255)
                              gTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCg                                          >  1:2763614/1‑71 (MQ=255)
                              gTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCg                                          <  1:1366105/71‑1 (MQ=255)
                               ttCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATa                                                         <  1:3277419/55‑1 (MQ=255)
                               ctCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGCGAGCa                                             <  1:2434266/66‑1 (MQ=255)
                                tCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCgg                                         >  1:1682187/1‑70 (MQ=255)
                                tCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCgg                                         >  1:3631966/1‑70 (MQ=255)
                                 ccGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGc                                        <  1:3232740/70‑1 (MQ=255)
                                 ccGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGCGAGCAga                                           >  1:2668014/1‑66 (MQ=255)
                                  cGGCGCGATTCGCAGGTACATGTCGAGATCCAGCGCGt                                                                       <  1:1514816/38‑1 (MQ=255)
                                  cGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                                                                       <  1:4096482/38‑1 (MQ=255)
                                  cGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCAc                                      >  1:37593/1‑71 (MQ=255)
                                  cGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtgg                                                                  >  1:5159091/1‑43 (MQ=16)
                                  cGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtga                                                                  >  1:4880795/1‑42 (MQ=16)
                                  cGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcga                                                <  1:4585500/61‑2 (MQ=255)
                                    gcgcGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAc                                                  <  1:2283399/57‑1 (MQ=255)
                                     cgcgATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGCTAAACGGACGCGCAGCGGCACCGc                                   <  1:5365137/71‑1 (MQ=255)
                                        gATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                                                                    <  1:2186273/35‑1 (MQ=255)
                                        gATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAg                                <  1:1766010/71‑1 (MQ=255)
                                        gATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAg                                <  1:1173550/71‑1 (MQ=255)
                                        gATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAg                                <  1:1631914/71‑1 (MQ=255)
                                         aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACg                                                     <  1:2549212/49‑1 (MQ=255)
                                         aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACg                                                     <  1:886589/49‑1 (MQ=255)
                                         aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACgcgc                                              >  1:2779726/1‑56 (MQ=255)
                                         aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAgg                               >  1:4510568/1‑71 (MQ=255)
                                         aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAgg                               >  1:2634568/1‑71 (MQ=255)
                                          tACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGa                                                           >  1:5393793/1‑42 (MQ=255)
                                          tACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGa                                                           >  1:4060995/1‑42 (MQ=255)
                                          tACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGcc                                  <  1:3841223/67‑1 (MQ=255)
                                          tACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAggg                              <  1:182418/71‑1 (MQ=255)
                                            cGCAGGTACATGTCGAGATCCAGCGCGTTATTGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGa                             <  1:827530/70‑1 (MQ=255)
                                            cGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCa                                 >  1:2929089/1‑66 (MQ=255)
                                            cGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGa                             <  1:3943651/70‑1 (MQ=255)
                                             gCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCa                                       <  1:211022/59‑1 (MQ=255)
                                               aGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCAc                         <  1:1902217/71‑1 (MQ=255)
                                                ggTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACg                                                     <  1:167878/42‑1 (MQ=255)
                                                 gTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCt                       <  1:2411358/71‑1 (MQ=255)
                                                  tACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACgcgc                                              <  1:4856365/47‑1 (MQ=255)
                                                  tACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTg                      >  1:3909127/1‑71 (MQ=255)
                                                    cATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAAc                                                      <  1:196368/37‑1 (MQ=255)
                                                     aTGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGcat                   >  1:3289528/1‑71 (MQ=255)
                                                     aTGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGca                    >  1:5083439/1‑70 (MQ=255)
                                                      tGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                                               <  1:1338097/42‑1 (MQ=255)
                                                      tGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGcatc                  <  1:2953586/71‑1 (MQ=255)
                                                          gagaTCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCt                       >  1:2118789/1‑62 (MQ=255)
                                                          gagaTCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCg              >  1:1910079/1‑71 (MQ=255)
                                                           agaTCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGc                                        >  1:5679920/1‑44 (MQ=255)
                                                             aTCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGc            >  1:218407/1‑70 (MQ=255)
                                                               ccAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCAcc                        >  1:4806698/1‑56 (MQ=255)
                                                                 aGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTc       <  1:299525/71‑1 (MQ=255)
                                                                  gcgcGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTc       >  1:1235064/1‑70 (MQ=255)
                                                                    gcgTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCaa     <  1:4238244/70‑1 (MQ=255)
                                                                     cgTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACt   >  1:3994413/1‑71 (MQ=255)
                                                                      gTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACtt  >  1:4633813/1‑71 (MQ=255)
                                                                      |                                                                      
AGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTT  >  minE/1933689‑1933829

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