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 F17 I0 R2 159 90.8 4763082 92.7% 4415377 60.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 753,855 T→C 6.2% N189S (AAC→AGC)  ycfT ← predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE753,8550TC 6.2% 284.3 / 8.6 96N189S (AAC→AGC) ycfTpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (39/51);  new base C (4/2);  total (43/53)
Fisher's exact test for biased strand distribution p-value = 4.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.15e-01

Only 100 of 103 total aligned reads displayed.

ACACAGGTCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGAATAGTG  >  minE/753786‑753924
                                                                     |                                                                     
acacAGGTCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGtt                                                                      <  1:42419/71‑1 (MQ=255)
acacAGGTCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGtt                                                                      <  1:1453156/71‑1 (MQ=255)
   caGGTCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGCTCAt                                                                   <  1:4479404/71‑1 (MQ=255)
     ggTCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGCTCATTc                                                                 >  1:2944975/1‑71 (MQ=255)
       tCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTccc                                                               <  1:4566496/71‑1 (MQ=255)
        cATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTccc                                                               >  1:3945359/1‑70 (MQ=255)
         attattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCcca                                                             >  1:117232/1‑71 (MQ=255)
         attattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCcca                                                             >  1:3212991/1‑71 (MQ=255)
          ttattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            <  1:467832/71‑1 (MQ=255)
          ttattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            <  1:4710797/71‑1 (MQ=255)
          ttattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            <  1:2974479/71‑1 (MQ=255)
          ttattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            <  1:3019613/71‑1 (MQ=255)
          ttattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            <  1:2699014/71‑1 (MQ=255)
           tattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            >  1:4685612/1‑70 (MQ=255)
           tattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            >  1:1270033/1‑70 (MQ=255)
           tattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            >  1:4681131/1‑70 (MQ=255)
           tattGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCccac                                                            >  1:4001859/1‑70 (MQ=255)
              tgttgCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACg                                                        >  1:1674900/1‑71 (MQ=255)
                ttgCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGc                                                      <  1:1526634/71‑1 (MQ=255)
                  gcgcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGt                                                    >  1:4037732/1‑71 (MQ=255)
                  gcgcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGt                                                    >  1:820383/1‑71 (MQ=255)
                  gcgcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGt                                                    >  1:4345129/1‑71 (MQ=255)
                  gcgcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGt                                                    >  1:1076666/1‑71 (MQ=255)
                   cgcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGt                                                    <  1:3762964/70‑1 (MQ=255)
                    gcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTgg                                                  >  1:1282408/1‑71 (MQ=255)
                    gcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTgg                                                  >  1:1255686/1‑71 (MQ=255)
                    gcCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTgg                                                  >  1:3417695/1‑71 (MQ=255)
                     ccAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTggg                                                 <  1:453857/71‑1 (MQ=255)
                     ccAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTggg                                                 <  1:2468917/71‑1 (MQ=255)
                     ccAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTggg                                                 <  1:2126938/71‑1 (MQ=255)
                     ccAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTggg                                                 <  1:434945/71‑1 (MQ=255)
                      cAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTggg                                                 <  1:3667320/70‑1 (MQ=255)
                      cAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGa                                                <  1:2589580/71‑1 (MQ=255)
                      cAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGa                                                <  1:3761500/71‑1 (MQ=255)
                      cAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGa                                                <  1:4715908/71‑1 (MQ=255)
                      cAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGa                                                <  1:4561737/71‑1 (MQ=255)
                      cAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGa                                                <  1:3929126/71‑1 (MQ=255)
                       aaaCCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGtt                                                                      <  1:3208064/48‑1 (MQ=255)
                          ccATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACg                                             <  1:3831948/70‑1 (MQ=255)
                          ccATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGa                                            <  1:747090/71‑1 (MQ=255)
                          ccATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGa                                            <  1:1761942/71‑1 (MQ=255)
                            aTGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGaaa                                          >  1:4380534/1‑71 (MQ=255)
                            aTGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGaaa                                          >  1:3818032/1‑71 (MQ=255)
                             tGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAt                                         >  1:1928249/1‑71 (MQ=255)
                               cgcCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAtt                                        <  1:3304933/70‑1 (MQ=255)
                               cgcCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAtt                                        <  1:4432637/70‑1 (MQ=255)
                               cgcCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAtt                                        <  1:4434497/70‑1 (MQ=255)
                               cgcCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTa                                       <  1:1217904/71‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:1011149/54‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:4015359/54‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:1213611/54‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:3562776/54‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:3335244/54‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:481789/54‑1 (MQ=255)
                                  cAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCg                                                     <  1:2026324/54‑1 (MQ=255)
                                        tGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCcaca                              >  1:2094153/1‑71 (MQ=255)
                                            ataaGGCAAAATGCGGATCACACTGTTAATTCCCCACCACGCCGTggg                                                 >  1:4223541/1‑48 (MQ=255)
                                             taaGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTa                                       <  1:2416880/57‑1 (MQ=255)
                                             taaGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTa                                       <  1:4244816/57‑1 (MQ=255)
                                             taaGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTcag                         >  1:633782/1‑71 (MQ=255)
                                             taaGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTca                          >  1:2145599/1‑70 (MQ=255)
                                                ggCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTcagcag                      <  1:3659420/71‑1 (MQ=255)
                                                ggCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTcagcag                      <  1:876011/71‑1 (MQ=255)
                                                ggCAAATTGCGGATCACACTCTTCATTCCCCACCACGGCg                                                     <  1:4045863/40‑1 (MQ=255)
                                                   aaaTTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGa                                                <  1:2595069/42‑1 (MQ=255)
                                                     aTTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaa                 <  1:3691277/71‑1 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTgg                                                  >  1:4008144/1‑37 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAtt                                        >  1:3577395/1‑47 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTaa                                      >  1:4023846/1‑49 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:4227119/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:2017879/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:818759/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:1512310/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:871089/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:3599214/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaa                >  1:4543976/1‑71 (MQ=255)
                                                      ttGCGGATCACACTGTTCATTCCCCACAACGGCGTGGGAACGAAATTaa                                      >  1:778605/1‑49 (MQ=255)
                                                        gCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGaa                                           >  1:547699/1‑42 (MQ=255)
                                                        gCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGaa                                           >  1:920285/1‑42 (MQ=255)
                                                        gCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGaa                                           >  1:2895979/1‑42 (MQ=255)
                                                        gCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaac               <  1:744638/70‑1 (MQ=255)
                                                        gCGGATCACACTGCTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaac               <  1:105096/70‑1 (MQ=255)
                                                        gCGGATCACACTGCTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTacaaac               >  1:405767/1‑70 (MQ=255)
                                                         cGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAttt                                        <  1:4041600/44‑1 (MQ=255)
                                                         cGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAtt                                        <  1:3407579/44‑1 (MQ=255)
                                                         cGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAAtt                                        <  1:276147/44‑1 (MQ=255)
                                                            aTCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGc          <  1:1886749/71‑1 (MQ=255)
                                                             tCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCg         <  1:2220141/71‑1 (MQ=255)
                                                             tCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCg         <  1:1640875/71‑1 (MQ=255)
                                                             tCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCg         <  1:456617/71‑1 (MQ=255)
                                                              cacaCTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCg         >  1:3482847/1‑70 (MQ=255)
                                                               acacTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGaa       <  1:4752788/71‑1 (MQ=255)
                                                               acacTGCTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTcagca                       >  1:3955864/1‑55 (MQ=255)
                                                               acacTGCTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTcagca                       >  1:1309462/1‑55 (MQ=255)
                                                                cacTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGaa       >  1:1638417/1‑70 (MQ=255)
                                                                   tGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGaa       <  1:1078002/67‑1 (MQ=255)
                                                                     ttCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGAATAGt   <  1:632706/69‑1 (MQ=255)
                                                                     ttCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGAATAGt   <  1:208154/69‑1 (MQ=255)
                                                                     ttCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGAATAGt   <  1:1704415/69‑1 (MQ=255)
                                                                     ttCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGAATAGTg  <  1:258984/70‑1 (MQ=255)
                                                                     |                                                                     
ACACAGGTCATTATTGTTGCGCCAAACCATGCGCCAAGGCTGTAATAAGGCAAATTGCGGATCACACTGTTCATTCCCCACCACGGCGTGGGAACGAAATTAACCGCCACACTCAGCAGTACAAACAAGGCGAATAGTG  >  minE/753786‑753924

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A