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
A1 F28 I1 R2 328 63.0 4687567 98.0% 4593815 65.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 4,103,846 T→C Y5H (TAC→CAC)  ompR → DNA‑binding response regulator in two‑component regulatory system with EnvZ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb4,103,8460TC100.0% 399.5 / NA 113Y5H (TAC→CAC) ompRDNA‑binding response regulator in two‑component regulatory system with EnvZ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (71/42);  total (71/42)

Only 100 of 113 total aligned reads displayed.

GCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAAC  >  W3110S.gb/4103779‑4103912
                                                                   |                                                                  
gCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCAc                                                                  <  1:3650479/70‑1 (MQ=255)
    ttttAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGa                                                              <  1:4342722/70‑1 (MQ=255)
    ttttAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGa                                                              <  1:2954322/70‑1 (MQ=255)
            aTACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggtgg                                                     >  1:4142155/1‑71 (MQ=255)
             tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTggtggt                                                    >  1:2074235/1‑71 (MQ=255)
              acacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggt                                                       >  1:1483425/1‑67 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGAt                                                             >  1:2690706/1‑60 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:2777882/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:2553604/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   <  1:3694284/70‑1 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:255939/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:3229509/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:3870930/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:3878603/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:1036658/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:2328456/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:2600352/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:3394191/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:2049750/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   <  1:4194158/70‑1 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:4684036/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:3392145/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:777422/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc                                                   >  1:735373/1‑70 (MQ=255)
               cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCg                                                  >  1:3265796/1‑71 (MQ=255)
                 cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGAt                                                <  1:1751302/71‑1 (MQ=255)
                    ttACAAATTGTT‑CGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgac                                             <  1:3716659/70‑1 (MQ=255)
                     tACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGa                                                 >  1:4297343/1‑66 (MQ=255)
                      aCAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgac                                             <  1:265005/69‑1 (MQ=255)
                      aCAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgac                                             <  1:27694/69‑1 (MQ=255)
                       cAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:1918022/70‑1 (MQ=255)
                       cAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:4641233/70‑1 (MQ=255)
                       cAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:3446790/70‑1 (MQ=255)
                       cAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:125519/70‑1 (MQ=255)
                           ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATgc                                      <  1:2747060/71‑1 (MQ=255)
                            tgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATgcg                                     >  1:1320722/1‑71 (MQ=255)
                             gttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACa                                         >  1:4608086/1‑66 (MQ=255)
                             gttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATgcgc                                    >  1:2659581/1‑71 (MQ=255)
                                gCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCtg                                 >  1:2375138/1‑71 (MQ=255)
                                     ccTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           >  1:150210/1‑56 (MQ=255)
                                     ccTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcgtgc                            >  1:2610995/1‑71 (MQ=255)
                                           ggAGTAAAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGAt                                                <  1:1186032/45‑1 (MQ=255)
                                               tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGAt                                                <  1:1499605/41‑1 (MQ=255)
                                               tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:3671662/46‑1 (MQ=255)
                                               tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:1723461/46‑1 (MQ=255)
                                               tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:834141/46‑1 (MQ=255)
                                               tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           <  1:1882091/46‑1 (MQ=255)
                                               tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATgc                                      <  1:2374910/51‑1 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACa                                         >  1:2555304/1‑46 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACa                                         >  1:3170591/1‑46 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcgt                              >  1:2634436/1‑57 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:2816366/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:503956/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:512385/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:577515/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:984701/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:1609265/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:2446639/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:2542632/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:226758/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:1992492/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:2641021/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:1795568/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:1723485/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg                >  1:1096457/1‑71 (MQ=255)
                                                 caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTCCGCTGCTGGAACg                >  1:4493294/1‑71 (MQ=255)
                                                 caaacaaTG‑AAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               >  1:1949135/1‑71 (MQ=255)
                                                  aaacaaTGCAAGAGAACCACAAGATTCTGGTTGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:1262483/71‑1 (MQ=255)
                                                  aaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:804468/71‑1 (MQ=255)
                                                  aaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:3941092/71‑1 (MQ=255)
                                                  aaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:2394207/71‑1 (MQ=255)
                                                   aacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGtt              <  1:1133115/71‑1 (MQ=255)
                                                    acaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTa             <  1:683980/71‑1 (MQ=255)
                                                     caaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAt            <  1:3897708/71‑1 (MQ=255)
                                                      aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATgacgac                                          >  1:3338253/1‑40 (MQ=255)
                                                      aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACa                                         >  1:396737/1‑41 (MQ=255)
                                                      aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGa                   >  1:302705/1‑63 (MQ=255)
                                                      aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtc           >  1:4667867/1‑71 (MQ=255)
                                                      aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtc           >  1:808408/1‑71 (MQ=255)
                                                       aTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:3529590/66‑1 (MQ=255)
                                                       aTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtct          <  1:114833/71‑1 (MQ=255)
                                                        tGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           >  1:3255566/1‑37 (MQ=255)
                                                        tGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga                                           >  1:4180847/1‑37 (MQ=255)
                                                        tGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGAGCTGCTGGAACGTTAtct          >  1:2581472/1‑70 (MQ=255)
                                                         gCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               >  1:3519612/1‑64 (MQ=255)
                                                         gCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCa        >  1:3463105/1‑71 (MQ=255)
                                                         gCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCa        >  1:1427438/1‑71 (MQ=255)
                                                         gCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCa        >  1:1862564/1‑71 (MQ=255)
                                                         gCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCa        >  1:2450137/1‑71 (MQ=255)
                                                          cAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc       >  1:3256903/1‑71 (MQ=255)
                                                          cAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc       >  1:488644/1‑71 (MQ=255)
                                                          cAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc       >  1:2444734/1‑71 (MQ=255)
                                                          cAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc       >  1:3753572/1‑71 (MQ=255)
                                                          cAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc       >  1:2841769/1‑71 (MQ=255)
                                                           aaGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCa        <  1:1885111/69‑1 (MQ=255)
                                                            agagAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:4038661/61‑1 (MQ=255)
                                                            agagAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:3263896/61‑1 (MQ=255)
                                                              agaACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt               <  1:1120956/59‑1 (MQ=255)
                                                               gaACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGaa   >  1:269020/1‑70 (MQ=255)
                                                               gaACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAAc  <  1:3346292/71‑1 (MQ=255)
                                                                   |                                                                  
GCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAAC  >  W3110S.gb/4103779‑4103912

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