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
A2 F8 I0 R2 296 77.6 4260404 88.1% 3753415 61.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,467,238 G→T 31.8% L234L (CTG→CTT)  atpA → F1 sector of membrane‑bound ATP synthase, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,467,2380GT31.8% 185.6 / 61.8 91L234L (CTG→CTT) atpAF1 sector of membrane‑bound ATP synthase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base G (31/31);  new base T (20/9);  total (51/40)
Fisher's exact test for biased strand distribution p-value = 1.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.67e-01

Only 100 of 102 total aligned reads displayed.

ACTGGAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTGAAGA  >  minE/2467169‑2467300
                                                                     |                                                              
aCTGGAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCGGctgcactgc                                                               <  1:1457026/71‑1 (MQ=255)
aCTGGAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGctgcactgc                                                               <  1:3763096/71‑1 (MQ=255)
aCTGGAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGctgcactgc                                                               <  1:2078160/71‑1 (MQ=255)
    gAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAAt                                                            <  1:651226/70‑1 (MQ=255)
    gAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCaa                                                             <  1:2587196/69‑1 (MQ=255)
    gAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCaa                                                             <  1:910515/69‑1 (MQ=255)
             ggCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCAcc                                                  >  1:841852/1‑71 (MQ=255)
              gcgcACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCg                                                 >  1:1819538/1‑71 (MQ=255)
              gcgcACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCg                                                 >  1:1422778/1‑71 (MQ=255)
              gcgcACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCg                                                 >  1:2071935/1‑71 (MQ=255)
               cgcACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCg                                                 <  1:1645944/70‑1 (MQ=255)
                 cACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTAt                                              >  1:1944221/1‑71 (MQ=255)
                 cACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTAt                                              >  1:324364/1‑71 (MQ=255)
                 cACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTAt                                              >  1:329395/1‑71 (MQ=255)
                   cTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCt                                                        <  1:346826/59‑1 (MQ=255)
                   cTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCt                                                        <  1:1404249/59‑1 (MQ=255)
                   cTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCt                                                        <  1:1751288/59‑1 (MQ=255)
                   cTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCt                                                        <  1:521817/59‑1 (MQ=255)
                     ggCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCg                                          >  1:840124/1‑71 (MQ=255)
                     ggCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCg                                          >  1:2012809/1‑71 (MQ=255)
                     ggCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCg                                          >  1:239618/1‑71 (MQ=255)
                     ggCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCg                                          >  1:140612/1‑71 (MQ=255)
                      gCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCgg                                         >  1:4116786/1‑71 (MQ=255)
                        tAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGtt                                       >  1:3476065/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:2857749/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:2687832/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:1974123/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:3592584/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:2778842/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:3307786/1‑71 (MQ=255)
                          acacCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTgc                                     >  1:1350256/1‑71 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:1891614/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:4183529/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:1017322/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:1539419/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:841429/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:891659/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcgc                                   <  1:875959/71‑1 (MQ=255)
                            acCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcg                                    >  1:1942187/1‑70 (MQ=255)
                             ccATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCa                                  <  1:3014775/71‑1 (MQ=255)
                               aTCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAAt                                <  1:388076/71‑1 (MQ=255)
                               aTCGTAGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAAAACCTGGCACCGTATGCCGGTTGCGCAAt                                >  1:1332785/1‑71 (MQ=255)
                                tCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATg                               <  1:2095779/71‑1 (MQ=255)
                                tCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATg                               <  1:576098/71‑1 (MQ=255)
                                tCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCg                                                 <  1:1245687/53‑1 (MQ=255)
                                  gTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATAcc                                                         >  1:1111477/1‑43 (MQ=255)
                                  gTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATgg                              <  1:1024242/70‑1 (MQ=255)
                                    tgtgGTAGCAACCGCGTCTGAATCCGctgcactgc                                                               <  1:1103210/35‑1 (MQ=255)
                                    tgtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGc                            >  1:1422916/1‑70 (MQ=255)
                                    tgtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGc                            >  1:3725458/1‑70 (MQ=255)
                                    tgtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGc                            >  1:4185923/1‑70 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:911092/70‑1 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           >  1:3608909/1‑70 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:3880238/70‑1 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:2679771/70‑1 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           >  1:1188285/1‑70 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:1971633/70‑1 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTTCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           >  1:226786/1‑70 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:3946444/70‑1 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:1555517/70‑1 (MQ=255)
                                     gtgGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCg                           <  1:2289288/70‑1 (MQ=255)
                                      tgGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGaa                         <  1:4145336/71‑1 (MQ=255)
                                           gCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACtt                    <  1:1896420/71‑1 (MQ=255)
                                                cgcgTCTGAATCCGCTGCACTGCTATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTg               <  1:1146822/71‑1 (MQ=255)
                                                 gcgTTTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGa              >  1:2257971/1‑71 (MQ=255)
                                                 gcgTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGa              >  1:1586812/1‑71 (MQ=255)
                                                 gcgTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGa              >  1:3432602/1‑71 (MQ=255)
                                                 gcgTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGa              >  1:2355702/1‑71 (MQ=255)
                                                 gcgTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGa              >  1:1430379/1‑71 (MQ=255)
                                                 gcgTCTGAATCCGCTGCACTGCAATACATGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGa              >  1:3038994/1‑71 (MQ=255)
                                                 gcgTATGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTgcg                                    >  1:1493939/1‑49 (MQ=255)
                                                    tCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcg           <  1:1822876/71‑1 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGt                <  1:1451654/65‑1 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGt                <  1:1467246/65‑1 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGt                <  1:1977171/65‑1 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGt                <  1:3757514/65‑1 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGt                <  1:3937916/65‑1 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgc          >  1:281662/1‑71 (MQ=255)
                                                     cTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgc          >  1:1370656/1‑71 (MQ=255)
                                                      tGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgcg         >  1:1549545/1‑71 (MQ=255)
                                                      tGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgcg         >  1:1577478/1‑71 (MQ=255)
                                                      tGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgcg         >  1:3620530/1‑71 (MQ=255)
                                                      tGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgcg         >  1:2188546/1‑71 (MQ=255)
                                                      tGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgcg         >  1:85034/1‑71 (MQ=255)
                                                       gAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACcgcg         >  1:3098957/1‑70 (MQ=255)
                                                            cGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTg      >  1:530729/1‑68 (MQ=255)
                                                            cGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTg      >  1:2557654/1‑68 (MQ=255)
                                                            cGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTg      >  1:1915195/1‑68 (MQ=255)
                                                            cGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTg      >  1:3054082/1‑68 (MQ=255)
                                                            cGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTg      >  1:2978178/1‑68 (MQ=255)
                                                            cGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTg      >  1:2550827/1‑68 (MQ=255)
                                                             gCTGCACTGCAATACCTGGCACCGTATGCCGGTTTCGCAATGGGCGAATACTTCCGTGACCGCGGTGAAGa  <  1:4107455/71‑1 (MQ=255)
                                                             gCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTGAAGa  <  1:1811087/71‑1 (MQ=255)
                                                              ctgcacttcaATACCTGGCACCGTATGCCGGTTGCGCa                                  <  1:310693/38‑1 (MQ=255)
                                                                 cactgcaATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCgg        >  1:3853650/1‑61 (MQ=255)
                                                                 cactgcaATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCgg        >  1:3505785/1‑61 (MQ=255)
                                                                 cactgcaATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCgg        >  1:2368552/1‑61 (MQ=255)
                                                                 cactgcaATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCgg        >  1:2435545/1‑61 (MQ=255)
                                                                     gcaATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTGAAGa  >  1:3819661/1‑63 (MQ=255)
                                                                     gcaATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTGAAGa  >  1:1996713/1‑63 (MQ=255)
                                                                     |                                                              
ACTGGAAGAGCACGGCGCACTGGCTAACACCATCGTTGTGGTAGCAACCGCGTCTGAATCCGCTGCACTGCAATACCTGGCACCGTATGCCGGTTGCGCAATGGGCGAATACTTCCGTGACCGCGGTGAAGA  >  minE/2467169‑2467300

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