Read alignment evidence...
  seq id position change freq score reads annotation genes product
*REL6063,357,0100C→T26.7% 18.347intergenic (‑343/‑131)rrsD/yrdA16S ribosomal RNA/hypothetical protein
Reads supporting (aligned to +/- strand):  new base (0/12):  ref base (17/16):  total (17/30)

AATTTTTTGCACAAGTATTTTTTTGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCACCCTTTTTGCTGCAATC  >  REL606/3356975‑3357044
                                     |                                   
aaTTTTTTGCACAAGTATTTTTTTGA.TCTTT.TTTTc                                     <  1:6539204/36‑1 (MQ=255)
 aTTTTTTGCACAAGTATTTTTTTGA.TCTTT.TTTTC.t                                   >  1:7042572/1‑36 (MQ=255)
 aTTTTTTGCACAAGTATGGTTTTGA.TCTTT.TTTTC.t                                   <  1:3828889/36‑1 (MQ=25)
  ttttttGCACAAGTATTTTTTTGA.TCTTT.TTTTC.tg                                  <  1:6446157/36‑1 (MQ=255)
   tttttGCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgt                                 >  1:3508622/1‑36 (MQ=255)
    ttttGCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgtt                                >  1:7406358/1‑36 (MQ=255)
       tGCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgtttgt                             <  1:313966/36‑1 (MQ=255)
        gCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgtttgtt                            >  1:4219664/1‑36 (MQ=255)
        gCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgtttgtt                            <  1:1120976/36‑1 (MQ=255)
        gCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgtttgtt                            <  1:1817832/36‑1 (MQ=255)
        gCACAAGTATTTTTTTGA.TCTTT.TTTTC.tgtttgtt                            >  1:1955608/1‑36 (MQ=255)
         cacaAGTATTTTTTTGA.TCTTT.TTTTC.TGTttgttg                           <  1:5600427/36‑1 (MQ=255)
           cgaGTATTTTTTTGA.TCTTT.TTTTC.TGTTTgttgtt                         <  1:2529049/34‑1 (MQ=255)
           caAGTATTTTTTTGA.TCTTT.TTTTC.TGTTTgttgtt                         >  1:3889518/1‑36 (MQ=255)
           caAGTATTTTTTTGA.TCTTT.TTTTC.TGTTTgttgtt                         >  1:6703481/1‑36 (MQ=255)
            aaGTATTTTTTTGA.TCTTT.TTTTC.TGTTTGTTGttt                        >  1:7117565/1‑36 (MQ=255)
            aaGTATTTTTTTGA.TCTTT.TTTTC.TGTTTGTTGttt                        >  1:5644610/1‑36 (MQ=255)
              ttttttttttGT.TTTCT.TTTGT.TGTTTTTTTtcttt                      <  1:6569860/33‑1 (MQ=0)
              ttttttttttGT.TATTT.TTTTT.TTTCTGTTTttttt                      <  1:6640479/33‑1 (MQ=2)
              ttttttttgtGT.TTTGT.TTTTT.TGTTTGTTGttttt                      <  1:6580415/33‑1 (MQ=9)
              tgttttttttTT.TCTGT.TTTT..TTTTCTTTGtttttt                     <  1:6808247/33‑1 (MQ=2)
              tattttttttGG.TTTTT.TTTTC.TGTTTTTTCctttt                      >  1:6183110/4‑36 (MQ=0)
              gTATTTTTTTCA.TCTTT.TTTTC.TGTTTGTTGttttt                      >  1:5769633/1‑36 (MQ=255)
               tATTATTTTG..TTTTT.TTTTT.TTTTTGTTGttttttt                    <  1:6530525/36‑2 (MQ=2)
               gtttttcttGA.TCTTT.TTTTT.TTTTTTTTTtttttt                     <  1:3730625/34‑1 (MQ=16)
               cggtttttcTA.TTTTT.TTTGT.TTTTTGTTGtttttt                     <  1:7356480/33‑1 (MQ=2)
                tgttttttGT.GTTTT.TGTTT.TTTTTTTTCTGTTTTc                    <  1:7218782/34‑1 (MQ=2)
                tgttttgtGG.TTTTT.TTTTT.TTTTTTTTCtgttttg                    <  1:6934186/34‑2 (MQ=2)
                ctttatttGT.TTTTT.TTTGT.TGTTTTTTTttttttt                    <  1:7282917/35‑2 (MQ=0)
                aTTTTTTTGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTc                    <  1:5228470/36‑1 (MQ=255)
                 tttttttTT.TTTTG.TTTTCTTTTTTGTTGttttttt                    <  1:6778929/36‑2 (MQ=2)
                 tttttttTT.TCTTT.TGTTG.TTTTTTTTTttattttt                   <  1:6894655/36‑3 (MQ=9)
                 tttttttGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCa                   <  1:4721504/36‑1 (MQ=255)
                 gtttgttGC.TTTTG.TTTTT.TCTTTGTTGtttttttt                   <  1:7162548/35‑3 (MQ=0)
                  ttttttTT.TATTT.TTTTC.TGTTTTTATttttttttt                  <  1:6778955/36‑4 (MQ=2)
                  ttttttGA.TCTTTCTAGTC.TCTTTTTTTtttttttt                   <  1:7172177/36‑3 (MQ=0)
                  ctttttGAGTTTTT.TTTTT.TTTTTGTTGtttttttt                   <  1:6628095/35‑3 (MQ=2)
                   tttttGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCatc                 >  1:6709941/1‑34 (MQ=255)
                   tttttGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCAcc                 >  1:6700900/1‑36 (MQ=255)
                   tttttGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCAcc                 >  1:4581517/1‑36 (MQ=255)
                       tGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCACCCttt             >  1:2114620/1‑36 (MQ=255)
                       tGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCACCCttt             <  1:5206217/36‑1 (MQ=255)
                             ttt.tttgT.TGTTTTTTCTTTTGTTTCCTTTTTttct        <  1:7338538/36‑1 (MQ=2)
                              tt.ttttC.TGTTTGTTGTTTTTTCACCCTTTTtgttg       >  1:294242/1‑36 (MQ=255)
                              tt.ttttC.TGTTTGTTGTTTTTTCACCCTTTTtgctg       <  1:6873788/36‑1 (MQ=255)
                                   ttC.TGTTTGTTGTTTTTTCACCCTTTTTGCTGCAAt   >  1:4111708/1‑36 (MQ=255)
                                   ttC.TGTTTGTTGTTTTTTCACCCTTTTTGCTGCAAt   <  1:2541083/36‑1 (MQ=255)
                                    tC.TGTTTGTTGTTTTTTCGCCCTTTTTGCTGCAATc  <  1:879231/36‑1 (MQ=255)
                                     |                                   
AATTTTTTGCACAAGTATTTTTTTGA.TCTTT.TTTTC.TGTTTGTTGTTTTTTCACCCTTTTTGCTGCAATC  >  REL606/3356975‑3357044

Base quality scores:  ATCG  < 3 ≤  ATCG  < 6 ≤  ATCG  < 12 ≤  ATCG  < 24 ≤  ATCG  < 32 ≤  ATCG