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 1,933,708 C→T 12.0% K245K (AAG→AAA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,7080CT12.0% 224.6 / 17.0 83K245K (AAG→AAA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base C (38/35);  new base T (7/3);  total (45/38)
Fisher's exact test for biased strand distribution p-value = 3.32e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-01

CGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATA  >  minE/1933638‑1933774
                                                                      |                                                                  
cGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGc                                                                    >  1:2166419/1‑71 (MQ=255)
 ggAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCt                                                                   >  1:1701368/1‑71 (MQ=255)
 ggAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCt                                                                   >  1:2088152/1‑71 (MQ=255)
  gAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCtt                                                                  >  1:2154592/1‑71 (MQ=255)
         cTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTAc                                                           <  1:2315807/71‑1 (MQ=255)
          ttCATTACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATa                                                            >  1:3514976/1‑69 (MQ=255)
           tcattACGGAAGTTACGGTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAg                                                         >  1:3712641/4‑71 (MQ=255)
            cGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGt                                                        >  1:2433687/1‑71 (MQ=255)
              ttACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCt                                                                   <  1:3123190/58‑1 (MQ=255)
              ttACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTc                                                      <  1:1908235/71‑1 (MQ=255)
                aCGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTcc                                                     <  1:495593/70‑1 (MQ=255)
                  ggAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgc                                                  >  1:623995/1‑71 (MQ=255)
                   gAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcg                                                 <  1:792838/71‑1 (MQ=255)
                    aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCTGACGCTTGAGGTACAGTTCCGgcgc                                                <  1:2946860/71‑1 (MQ=255)
                    aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc                                                >  1:3912495/1‑71 (MQ=255)
                    aaGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc                                                >  1:2645146/1‑71 (MQ=255)
                     aGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGgcgc                                                >  1:1843283/1‑70 (MQ=255)
                      gTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACAAGACGCTTGAGGTACAGTTCCGGCGCGa                                              >  1:1364136/1‑71 (MQ=255)
                         aCGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATAc                                           >  1:3718751/1‑71 (MQ=255)
                          cGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATAc                                           <  1:1133437/70‑1 (MQ=255)
                          cGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACg                                          <  1:616068/71‑1 (MQ=255)
                           ggTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACg                                          >  1:1168678/1‑70 (MQ=255)
                            gTTGATTTCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCa                                        <  1:1078146/71‑1 (MQ=255)
                             ttGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGc                                         <  1:3474315/69‑1 (MQ=255)
                             ttGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAg                                       >  1:3080684/1‑71 (MQ=255)
                             ttGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAg                                       >  1:3582482/1‑71 (MQ=255)
                                aTTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa                                    >  1:3416192/1‑71 (MQ=255)
                                aTTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa                                    <  1:2983683/71‑1 (MQ=255)
                                 tttCGAATACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATa                                    >  1:911576/1‑70 (MQ=255)
                                  ttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTcc                                                     >  1:1181936/1‑52 (MQ=255)
                                  ttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa                                  >  1:1290634/1‑71 (MQ=255)
                                  ttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa                                  >  1:1286058/1‑71 (MQ=255)
                                  ttCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACa                                  >  1:3801662/1‑71 (MQ=255)
                                    cGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACAt                                 <  1:3335801/70‑1 (MQ=255)
                                    cGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACAt                                 <  1:638973/70‑1 (MQ=255)
                                    cGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATg                                >  1:1181427/1‑71 (MQ=255)
                                     gAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGt                               >  1:587896/1‑71 (MQ=255)
                                     gAATACACGCTCGAAGCCACCAACCACCAGACGCTT‑AGGTACAGTTCCGgcgc                                                <  1:339026/53‑1 (MQ=255)
                                      aaTACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGt                               <  1:1217053/70‑1 (MQ=255)
                                        tACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATcta                            <  1:2333770/71‑3 (MQ=255)
                                        tACCCGTTCAAAACCGCCTACAACCAGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATct                             >  1:1983765/1‑69 (MQ=255)
                                        tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAg                                                         <  1:3768193/42‑1 (MQ=255)
                                        tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTc                              >  1:1214196/1‑69 (MQ=255)
                                        tACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                            <  1:86483/71‑1 (MQ=255)
                                         acacGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa                                    <  1:2422356/62‑1 (MQ=255)
                                          cacGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCgaga                          <  1:3669173/71‑1 (MQ=255)
                                             gCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATcc                       <  1:1093881/71‑1 (MQ=255)
                                             gCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATc                        >  1:893998/1‑70 (MQ=255)
                                               tCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCg                                                    <  1:2364790/40‑1 (MQ=255)
                                               tCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAg                     >  1:571229/1‑71 (MQ=255)
                                                cGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCgaga                          >  1:126340/1‑65 (MQ=255)
                                                   aGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGcgcg                 >  1:2184303/1‑71 (MQ=255)
                                                    gCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                <  1:2949407/71‑1 (MQ=255)
                                                     ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATa                                            >  1:3723678/1‑42 (MQ=255)
                                                     ccaccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGt                >  1:3802675/1‑70 (MQ=255)
                                                      caccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAg                                       <  1:1007358/46‑1 (MQ=255)
                                                      caccaACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAg                                       <  1:3878224/46‑1 (MQ=255)
                                                       accaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATAc                                           <  1:489179/41‑1 (MQ=255)
                                                        ccaaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGAt                         <  1:2319111/58‑1 (MQ=255)
                                                         caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg           >  1:1888811/1‑71 (MQ=255)
                                                         caaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtgg           <  1:2314149/71‑1 (MQ=255)
                                                          aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCgaga                          >  1:3477225/1‑55 (MQ=255)
                                                          aaccaCCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAAGTACATGTCGAGATCCAGCGCGTTAtggt          >  1:2978053/1‑71 (MQ=255)
                                                           accaccAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtg            >  1:135577/1‑68 (MQ=255)
                                                            ccaccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggtgg        <  1:2897533/71‑1 (MQ=255)
                                                            ccaccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggtgg        <  1:1134267/71‑1 (MQ=255)
                                                            ccaccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAtggtgg        <  1:2061418/71‑1 (MQ=255)
                                                            caaccaGACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTAtgatgg        >  1:1558106/3‑71 (MQ=255)
                                                               ccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCg                             >  1:1844443/1‑47 (MQ=255)
                                                               ccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCg                             >  1:3657825/1‑47 (MQ=255)
                                                               ccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATggtgggt      >  1:3460855/1‑70 (MQ=255)
                                                               ccaGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATggtgggt      >  1:3239038/1‑70 (MQ=255)
                                                                caGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTa                                    <  1:1366743/39‑1 (MQ=255)
                                                                caGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGa    >  1:446239/1‑71 (MQ=255)
                                                                 aGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCAAGCGCGTTATGGTGGGTGa    >  1:3154480/1‑70 (MQ=255)
                                                                  gACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAAt   >  1:649542/1‑70 (MQ=255)
                                                                  gACGTTTCAGATACAGCTCCGGCGCGATACGCAGATACATATCTAAATCCAGAGCATTATGATGGGTAAt   >  1:97730/1‑70 (MQ=255)
                                                                  gACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCga                            <  1:2850073/45‑1 (MQ=255)
                                                                   aCGTTTCAGATACAGCTCCGGCGCGATACGCAGATACAt                                 <  1:770260/39‑1 (MQ=16)
                                                                   aCGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATa  >  1:2535162/1‑70 (MQ=255)
                                                                     gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt             <  1:3002532/57‑1 (MQ=255)
                                                                     gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt             <  1:654660/57‑1 (MQ=255)
                                                                     gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt             <  1:3047046/57‑1 (MQ=255)
                                                                     gCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTAt             <  1:3645636/57‑1 (MQ=255)
                                                                      |                                                                  
CGGAAATACCTTCGTTACGGAAGTTACGGTTGATTTCGAATACACGCTCGAAGCCACCAACCACCAGACGCTTGAGGTACAGTTCCGGCGCGATACGCAGGTACATGTCGAGATCCAGCGCGTTATGGTGGGTGATA  >  minE/1933638‑1933774

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