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	1,933,738	G→A	24.8%	Y235Y (TAC→TAT)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,738	0	G	A	24.8%	225.7 / 73.8	129	Y235Y (TAC→TAT)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base G (41/56); new base A (21/11); total (62/67)
Fisher's exact test for biased strand distribution p-value = 2.57e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.32e-01

Only 100 of 131 total aligned reads displayed.

ATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCT  >  minE/1933670‑1933808

aTTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATa                                                                      <  1:4404712/71‑1 (MQ=255)

  ttCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                                                    >  1:2757169/1‑71 (MQ=255)

   tCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                                                    >  1:3019741/1‑70 (MQ=255)

   tCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACa                                                                    >  1:490592/1‑70 (MQ=255)

    cGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATg                                                                  >  1:2840604/1‑71 (MQ=255)

        tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc                                                                >  1:4741747/1‑69 (MQ=255)

          cacGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc                                                                >  1:5660354/1‑67 (MQ=255)

            cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                                                     >  1:1057842/1‑60 (MQ=255)

            cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                                                     >  1:2664894/1‑60 (MQ=255)

            cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTAc                                                                     >  1:2671457/1‑60 (MQ=255)

            cGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATc                                                          <  1:2306737/71‑1 (MQ=255)

             gCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATcc                                                         <  1:925502/71‑1 (MQ=255)

             gCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATcc                                                         <  1:3558803/71‑1 (MQ=255)

              cTCGAAGCCACCAACCACCTGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCa                                                        <  1:2373747/71‑1 (MQ=255)

                cGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa                                                                    >  1:935990/1‑57 (MQ=255)

                 gAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAg                                                       <  1:1307289/69‑1 (MQ=255)

                   aGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg                                                   >  1:97304/1‑71 (MQ=255)

                   aGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg                                                   >  1:3754388/1‑71 (MQ=255)

                    gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                                                  >  1:1466483/1‑71 (MQ=255)

                    gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                                                  <  1:5160679/71‑1 (MQ=255)

                    gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                                                  <  1:530615/71‑1 (MQ=255)

                     ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                                                              <  1:2140913/58‑1 (MQ=255)

                     ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                                                              <  1:307660/58‑1 (MQ=255)

                      caccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa                                                                      >  1:252778/1‑49 (MQ=255)

                       accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                                               >  1:2121995/1‑71 (MQ=255)

                         caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg                                             <  1:5127902/71‑1 (MQ=255)

                         caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATACAGCGCGTTAtgg                                             <  1:2083800/71‑1 (MQ=255)

                          aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAgc                                                      >  1:1710353/1‑61 (MQ=255)

                          aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggt                                            >  1:768292/1‑71 (MQ=255)

                           accaccAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggtg                                           <  1:4447946/71‑1 (MQ=255)

                           accaccAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg                                             >  1:1444606/1‑69 (MQ=255)

                           acaaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTatgatg                                           >  1:4321830/4‑71 (MQ=255)

                           acaaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTatgatg                                           >  1:4548195/4‑71 (MQ=255)

                            caaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtgatgg                                          >  1:1068133/3‑71 (MQ=255)

                             caccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                                                              >  1:1355163/1‑50 (MQ=255)

                              accaGACGTTTCAGATACAGCTCCGGTGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                         >  1:415251/1‑70 (MQ=255)

                              accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACGTATCTAAATCCAGAGCATTATgatggg                                         >  1:3721280/1‑70 (MQ=255)

                              accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt                                        <  1:2784532/71‑1 (MQ=255)

                              accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                         >  1:829866/1‑70 (MQ=255)

                              accaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                         >  1:3398683/1‑70 (MQ=255)

                              accaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATggtgggt                                        >  1:5677978/1‑71 (MQ=255)

                              accaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATggtgggt                                        <  1:3568469/71‑1 (MQ=255)

                               ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt                                        >  1:739177/1‑70 (MQ=255)

                               ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatgggt                                        >  1:1133008/1‑70 (MQ=255)

                               ccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATgatggg                                         >  1:4618509/1‑69 (MQ=255)

                               ccaGACGCTTGAGGTACAGTTCTGGCGCGAAACGCAGGTACa                                                                    >  1:5536718/1‑42 (MQ=38)

                                 aGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGa                                      >  1:1790977/1‑70 (MQ=255)

                                  gACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAAt                                     >  1:3131719/1‑70 (MQ=255)

                                   aCGTTTCAGATACAGCTCCGGCGCGATACGCAGATa                                                                      <  1:3392935/36‑1 (MQ=16)

                                         gAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACgg                               <  1:743625/69‑1 (MQ=255)

                                         gAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACgg                               <  1:5619305/69‑1 (MQ=255)

                                         gAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACgg                               <  1:4481914/69‑1 (MQ=255)

                                          agatACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcg                            <  1:4996120/68‑1 (MQ=255)

                                            atACAGCTCCGGCGCGATACGCATATACATATCTAAATCCAGAGCATTAt                                               <  1:280149/49‑1 (MQ=255)

                                            atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAt                                               <  1:4654202/49‑1 (MQ=255)

                                            atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcgag                          >  1:4868777/2‑69 (MQ=255)

                                            atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcgag                          >  1:5531915/2‑69 (MQ=255)

                                            atACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGcgag                          >  1:2999489/2‑69 (MQ=255)

                                             tACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                          >  1:1524639/1‑70 (MQ=255)

                                             tACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                          >  1:5297841/1‑70 (MQ=255)

                                             tACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACgcgc                         <  1:3213693/71‑1 (MQ=255)

                                              aCAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAcgcg                          >  1:4957127/1‑69 (MQ=255)

                                               cAGTTCCGGTGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCa                        <  1:2054571/70‑1 (MQ=255)

                                               cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCa                                                        <  1:1493471/38‑1 (MQ=255)

                                               cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCa                                                        <  1:5547392/38‑1 (MQ=255)

                                               cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATaaa                                  >  1:5344057/1‑60 (MQ=255)

                                               cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAg                       <  1:4187216/71‑1 (MQ=255)

                                               cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAg                       <  1:2744063/71‑1 (MQ=255)

                                               cAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAg                       >  1:730371/1‑71 (MQ=255)

                                               cAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAATAAACGGGCGAGCa                        <  1:1520136/70‑1 (MQ=255)

                                                 gTTCCGGCGCGATACGCAGGTACATGTCGAGATCCa                                                        <  1:2269693/36‑1 (MQ=255)

                                                 gTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCg                     <  1:1366105/71‑1 (MQ=255)

                                                 gTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCg                     >  1:2763614/1‑71 (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)

                                                     cGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCAc                 >  1:37593/1‑71 (MQ=255)

                                                     cGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtgg                                             >  1:5159091/1‑43 (MQ=16)

                                                       gcgcGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGAc                             <  1:2283399/57‑1 (MQ=255)

                                                           gATACGCAGGTACATGTCGAGATCCAGCGCGTTAt                                               <  1:2186273/35‑1 (MQ=255)

                                                           gATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAg           <  1:1766010/71‑1 (MQ=255)

                                                           gATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAg           <  1:1631914/71‑1 (MQ=255)

                                                           gATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAg           <  1:1173550/71‑1 (MQ=255)

                                                            aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACg                                <  1:2549212/49‑1 (MQ=255)

                                                            aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAgg          >  1:4510568/1‑71 (MQ=255)

                                                            aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAgg          >  1:4463565/1‑71 (MQ=255)

                                                            aTACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAgg          >  1:3536593/1‑71 (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)

                                                                  aGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCAc    <  1:1902217/71‑1 (MQ=255)

                                                                   ggTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACg                                <  1:167878/42‑1 (MQ=255)

ATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATAAACGGACGCGCAGCGGCACCGCCAGGGATCACCT  >  minE/1933670‑1933808

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