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 1,798,695 A→G 46.7% Q239R (CAA→CGA)  proV → glycine betaine transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,798,6950AG46.7% 11.6 / 111.1 77Q239R (CAA→CGA) proVglycine betaine transporter subunit
Reads supporting (aligned to +/- strand):  ref base A (27/14);  new base G (18/18);  total (45/32)
Fisher's exact test for biased strand distribution p-value = 1.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.31e-01

CCATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGTCCGT  >  minE/1798629‑1798765
                                                                  |                                                                      
ccATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAAt                                                                    <  1:1527309/71‑1 (MQ=255)
ccATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAAt                                                                    <  1:1522477/71‑1 (MQ=255)
   ttGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGt                                                                 >  1:2227055/1‑71 (MQ=255)
   ttGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGt                                                                 >  1:3183594/1‑71 (MQ=255)
   ttGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGt                                                                 >  1:1331186/1‑71 (MQ=255)
    tGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGt                                                                 >  1:1406018/1‑70 (MQ=255)
     gTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTg                                                                <  1:2667857/70‑1 (MQ=255)
     gTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTg                                                                <  1:64028/70‑1 (MQ=255)
       cTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:3278144/1‑71 (MQ=255)
         ttATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTg                                                           >  1:2568518/1‑71 (MQ=255)
         ttATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTg                                                           >  1:1192508/1‑71 (MQ=255)
          tATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             <  1:2936429/68‑1 (MQ=255)
          tATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             <  1:3352361/68‑1 (MQ=255)
           aTTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTgg                                                          >  1:3967490/1‑70 (MQ=255)
            tttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGa                                                               >  1:1845428/1‑64 (MQ=255)
            tttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGa                                                               >  1:2364337/1‑64 (MQ=255)
            tttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTgg                                                          <  1:3003627/69‑1 (MQ=255)
             ttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTa                                                        >  1:3277014/1‑70 (MQ=255)
             ttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTa                                                        >  1:2409456/1‑70 (MQ=255)
             ttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTa                                                        >  1:2005228/1‑70 (MQ=255)
             ttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAAAGGTGAAGTGGt                                                         >  1:2498712/1‑69 (MQ=255)
                ccACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTAc                                                       <  1:137285/68‑1 (MQ=255)
                   cGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCg                                                 >  1:2387071/1‑71 (MQ=255)
                    gATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGa                                                               <  1:1149186/56‑1 (MQ=255)
                       cTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGca                                              >  1:1550883/1‑70 (MQ=255)
                          gatgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCgg                                                <  1:319623/65‑1 (MQ=255)
                          gatgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCgg                                                <  1:2621928/65‑1 (MQ=255)
                          gatgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCgg                                                <  1:2884209/65‑1 (MQ=255)
                           atgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCgg                                                <  1:1617693/64‑1 (MQ=255)
                           atgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCg                                         <  1:104029/71‑1 (MQ=255)
                           atgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCg                                         <  1:3136899/71‑1 (MQ=255)
                           atgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCg                                         <  1:1757044/71‑1 (MQ=255)
                                gCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGa                                    <  1:3317401/71‑1 (MQ=255)
                                gCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGa                                    <  1:3877252/71‑1 (MQ=255)
                                gCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGa                                    <  1:3025946/71‑1 (MQ=255)
                                gCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATg                                     >  1:2654510/1‑70 (MQ=255)
                                gCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATg                                     >  1:407554/1‑70 (MQ=255)
                                 ccATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:2088603/1‑45 (MQ=255)
                                 ccATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:3241083/1‑45 (MQ=255)
                                 ccATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:477582/1‑45 (MQ=255)
                                 ccATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:612384/1‑45 (MQ=255)
                                 ccATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:680906/1‑45 (MQ=255)
                                 ccATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAg                                                             >  1:832916/1‑45 (MQ=255)
                                    tGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAAt                                 >  1:420572/1‑70 (MQ=255)
                                    tGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAAtt                                <  1:3492254/71‑1 (MQ=255)
                                     gCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGt                                                            >  1:1979076/1‑42 (MQ=255)
                                     gCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATtc                               >  1:958374/1‑71 (MQ=255)
                                     gCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATtc                               >  1:3180942/1‑71 (MQ=255)
                                      cGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGt                                                   >  1:1883565/1‑50 (MQ=255)
                                      cGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGt                                                   >  1:4092101/1‑50 (MQ=255)
                                      cGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGt                                                   >  1:389433/1‑50 (MQ=255)
                                         aTTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           >  1:2085225/1‑71 (MQ=255)
                                          ttGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaat                          <  1:849140/71‑1 (MQ=255)
                                          ttGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           >  1:450012/1‑70 (MQ=255)
                                          ttGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           >  1:4128320/1‑70 (MQ=255)
                                          ttGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           >  1:1220353/1‑70 (MQ=255)
                                             gCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaataa                        <  1:2121164/70‑1 (MQ=255)
                                                   gAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCGATAATCCGGCg                 <  1:771009/71‑1 (MQ=255)
                                                       tGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGcac                                             <  1:3302149/39‑1 (MQ=255)
                                                       tGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGcac                                             <  1:4198210/39‑1 (MQ=255)
                                                       tGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGcac                                             <  1:729728/39‑1 (MQ=255)
                                                       tGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaat                          >  1:4000810/1‑58 (MQ=255)
                                                        gCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATg             <  1:2669236/70‑1 (MQ=255)
                                                        gCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGaaa                                  >  1:122110/1‑49 (MQ=255)
                                                        gCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGaaa                                  >  1:2467481/1‑49 (MQ=255)
                                                          cATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGAtt          <  1:3360349/71‑1 (MQ=255)
                                                            ttATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTa         >  1:1460465/1‑70 (MQ=255)
                                                            ttATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTa         >  1:71615/1‑70 (MQ=255)
                                                            ttATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTAt        >  1:4099455/1‑71 (MQ=255)
                                                              aTGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGt      >  1:1356004/1‑71 (MQ=255)
                                                              aTGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGt      >  1:1752875/1‑71 (MQ=255)
                                                              aTGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGt      >  1:3384539/1‑71 (MQ=255)
                                                              aTGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGt      >  1:2824013/1‑71 (MQ=255)
                                                               tGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           <  1:3262711/49‑1 (MQ=255)
                                                               tGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           <  1:2458712/49‑1 (MQ=255)
                                                               tGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaa                           <  1:493585/49‑1 (MQ=255)
                                                                 cAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATGCTCaa                           <  1:4136575/47‑1 (MQ=255)
                                                                  aaaaTGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGTCCGt  <  1:1338732/71‑1 (MQ=255)
                                                                  |                                                                      
CCATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGTCCGT  >  minE/1798629‑1798765

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