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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 608,157 G→A 16.4% S699S (TCC→TCT) ‡ pflB ← pyruvate formate lyase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE608,1570GA16.4% 281.4 / 40.2 116S699S (TCC→TCT) ‡pflBpyruvate formate lyase I
Reads supporting (aligned to +/- strand):  ref base G (42/55);  new base A (2/17);  total (44/72)
Fisher's exact test for biased strand distribution p-value = 8.54e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.59e-01

Only 100 of 123 total aligned reads displayed.

GTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCGTCGTCTT  >  minE/608088‑608224
                                                                     |                                                                   
gTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCgatg                                                                     >  1:1553947/1‑70 (MQ=255)
 ttttCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCgatgga                                                                   >  1:1659397/1‑71 (MQ=255)
   ttCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCgatggat                                                                  >  1:1977977/1‑70 (MQ=255)
    tCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGc                                                                >  1:3689004/1‑71 (MQ=255)
     ccATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTGAGGTGCTGACCACCTTCGATGGATGc                                                                <  1:3419300/70‑1 (MQ=255)
      cATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCtt                                                              >  1:3171065/1‑71 (MQ=255)
       aTCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTc                                                             >  1:350886/1‑71 (MQ=255)
        tCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCg                                                            >  1:136118/1‑71 (MQ=255)
            gTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCgtggt                                                        >  1:2158204/1‑71 (MQ=255)
               gAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTc                                                             <  1:37952/63‑1 (MQ=255)
               gAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGtggtgg                                                      <  1:1775066/70‑1 (MQ=255)
               cagcagcATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGa                                                     <  1:1307701/70‑1 (MQ=255)
               cagcagcATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGa                                                     <  1:1099635/70‑1 (MQ=255)
                agcagcATTTCCCGATTCATTACGTTGACGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGaa                                                    <  1:2845961/71‑1 (MQ=12)
                    gcaTTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTaa                                                >  1:690240/1‑71 (MQ=255)
                    gcaTTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTaa                                                >  1:686513/1‑71 (MQ=255)
                       tttCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCgtggt                                                        <  1:3859320/60‑1 (MQ=255)
                        ttCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccat                                            >  1:1077683/1‑71 (MQ=255)
                          cACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCgtggt                                                        >  1:923323/1‑57 (MQ=255)
                           aCGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatcc                                          <  1:597418/70‑1 (MQ=255)
                           aCGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatcc                                          <  1:1859894/70‑1 (MQ=255)
                            cGGTTCATCACGTTAACGTTCAGGTGCTTACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatccat                                        <  1:3467065/71‑1 (MQ=255)
                            cGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatccat                                        <  1:103763/71‑1 (MQ=255)
                              gTTCATCACGTTAACGTTCAGGTTCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCa                                      <  1:1865490/71‑1 (MQ=255)
                              gTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatccat                                        >  1:2550594/1‑69 (MQ=255)
                              gTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCa                                      <  1:743175/71‑1 (MQ=255)
                              gTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCa                                      <  1:3007658/71‑1 (MQ=255)
                              gTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCa                                      <  1:1093349/71‑1 (MQ=255)
                               ttCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCa                                      <  1:400357/70‑1 (MQ=255)
                                 catcaCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAc                                   >  1:2114380/1‑71 (MQ=255)
                                 catcaCGTTAACGATCAGGTGCTGACCACCTACgatgga                                                                   >  1:2430576/1‑39 (MQ=37)
                                  atcaCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAc                                   <  1:1054824/70‑1 (MQ=255)
                                   ttacgttgacgttgAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGccg                                 <  1:3135964/69‑2 (MQ=255)
                                    tacgttgacgttgAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGaa                                                    >  1:556602/2‑51 (MQ=255)
                                    caCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAg                                                   >  1:3902437/1‑52 (MQ=255)
                                     aCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccagc                               >  1:2987300/1‑71 (MQ=255)
                                     aCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccagc                               >  1:21870/1‑71 (MQ=255)
                                     aCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccagc                               >  1:1065758/1‑71 (MQ=255)
                                     aCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccag                                >  1:462972/1‑70 (MQ=255)
                                     aCGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccag                                <  1:1483649/70‑1 (MQ=255)
                                      cGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGaa                                                    >  1:2506238/1‑49 (MQ=255)
                                       gTTGACGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACccatccag                                        <  1:3062689/60‑2 (MQ=255)
                                       gTTGACGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACccatccag                                        <  1:2263703/60‑2 (MQ=255)
                                       gTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccagcca                             <  1:1102502/71‑1 (MQ=255)
                                       gTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccagcca                             <  1:1246005/71‑1 (MQ=255)
                                       gTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAccagcca                             <  1:10364/71‑1 (MQ=255)
                                        ttAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGt                                                  <  1:2996603/49‑1 (MQ=255)
                                        ttAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTaa                                                >  1:1356578/1‑51 (MQ=255)
                                        ttAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAc                                   >  1:3383687/1‑64 (MQ=255)
                                         tAACGTTCAGGTGCTGACCACCTTCGTTGGATGCtt                                                              <  1:2838288/36‑1 (MQ=255)
                                         tAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAc                                               >  1:448236/1‑51 (MQ=255)
                                          aaCGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatcc                                          >  1:1893065/1‑55 (MQ=255)
                                           aCGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGtt                         <  1:3703610/71‑1 (MQ=255)
                                           aCGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGtt                         >  1:1799271/1‑71 (MQ=255)
                                            cGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTg                        <  1:3223304/71‑1 (MQ=255)
                                            cGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTg                        <  1:2821012/71‑1 (MQ=255)
                                            cGTTGAGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTg                        <  1:668188/71‑1 (MQ=255)
                                            cGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTg                        <  1:2482210/71‑1 (MQ=255)
                                             gTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGtt                         >  1:3239501/1‑69 (MQ=255)
                                              ttCAGGTGCTGACCACCTTCGATGGATGCTTCgtgg                                                         <  1:2320480/36‑1 (MQ=255)
                                              ttCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAAccatccat                                        <  1:1175710/53‑1 (MQ=255)
                                              ttCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGAc                                   <  1:3874000/58‑1 (MQ=255)
                                               tCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTc                     >  1:1994647/1‑71 (MQ=255)
                                                gaGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTGGttt                    >  1:2508660/2‑69 (MQ=255)
                                                cAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTc                     <  1:3159160/70‑1 (MQ=255)
                                                cAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    >  1:401254/1‑71 (MQ=255)
                                                cAGGTGCTGACCACCTTCGATGGATGCTTCGTGGT‑GAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    >  1:2402537/1‑70 (MQ=255)
                                                 aGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTGGtttt                   <  1:942347/71‑1 (MQ=255)
                                                 aGGTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTGGtttt                   <  1:2231230/71‑1 (MQ=255)
                                                 aGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    <  1:2362760/70‑1 (MQ=255)
                                                 aGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    <  1:2804426/70‑1 (MQ=255)
                                                 aGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    <  1:2689224/70‑1 (MQ=255)
                                                 aGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    <  1:180736/70‑1 (MQ=255)
                                                 aGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCt                    <  1:2700611/70‑1 (MQ=255)
                                                 aGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAACCTGGCTGGTCt                    <  1:3119832/70‑1 (MQ=255)
                                                  ggTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTGGTTTTa                  <  1:3409193/71‑1 (MQ=255)
                                                  ggTGTTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACCCATCCAGCAGGCCGACAAGGTTGGTTTTa                  <  1:3824925/71‑1 (MQ=255)
                                                   gtgtTGACCGCCTTCGACATCCGCTTCGTGGTGGAAATACccatcca                                         <  1:2149349/47‑1 (MQ=255)
                                                   gTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAc                 <  1:1614315/71‑1 (MQ=255)
                                                   gTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAc                 <  1:1993034/71‑1 (MQ=255)
                                                   gTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAc                 >  1:923689/1‑71 (MQ=255)
                                                   gTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAc                 <  1:1251432/71‑1 (MQ=255)
                                                     gCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACg                >  1:2724014/1‑70 (MQ=255)
                                                         accaccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAAc             <  1:3631156/69‑1 (MQ=255)
                                                         accaccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACt            >  1:1538295/1‑70 (MQ=255)
                                                          ccaccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAc                 >  1:1479166/1‑64 (MQ=255)
                                                          ccaccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAc                 >  1:2649502/1‑64 (MQ=255)
                                                          ccaccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTtc          >  1:2907297/1‑71 (MQ=255)
                                                           caccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTtcg         >  1:2952013/1‑71 (MQ=255)
                                                             ccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTtcgtc       <  1:2284422/71‑1 (MQ=255)
                                                             ccTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTtcgtc       <  1:924198/71‑1 (MQ=255)
                                                                tCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCgtcgtc    >  1:3731260/1‑71 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTAGGAACTTcgtcgt     <  1:2293151/69‑1 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTcgtcgt     <  1:474139/69‑1 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCgtcgtc    <  1:1797071/70‑1 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCgtcgtc    <  1:3724881/70‑1 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCGTCGTCt   >  1:3396910/1‑71 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCGTCGTCt   >  1:1495472/1‑71 (MQ=255)
                                                                 cGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCGTCGTCt   >  1:3120132/1‑71 (MQ=255)
                                                                  gatggatgCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCGTCGTCtt  >  1:3933899/1‑71 (MQ=255)
                                                                     |                                                                   
GTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAACGTTCAGGTGCTGACCACCTTCGATGGATGCTTCGTGGTGGAAGTAACCATCCATCAGACCAGCCAGGTTGGTCTTACGAACTTCGTCGTCTT  >  minE/608088‑608224

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A