Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*ACB1435,530,4210AC46.4% 50.4 / 20.6 56intergenic (‑53/+102)livH_5/braC_2High‑affinity branched‑chain amino acidtransport system permease protein LivH/Leucine‑, isoleucine‑, valine‑, threonine‑, and alanine‑binding protein
Reads supporting (aligned to +/- strand):  ref base A (9/21);  new base C (26/0);  total (35/21)
Fisher's exact test for biased strand distribution p-value = 1.58e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GTAGCCGATGGCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTGGGCCCGAGCAACCGCCCGGGCCGCGGGCCGTTGTTATTTTTGTTTTTCCAGCTGGTGGTATT  >  ACB143/5530291‑5530551
                                                                                                                                   |                                                                                                                                  
gtAGCCGATGGCGATCAGGCCATAGGCCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCtgt                                                                                                                               >  1:153340/1‑136 (MQ=255)
    ccGATGGCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCGGGGCg                                                                                                                            >  3:333773/1‑135 (MQ=255)
       aTGGCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGc                                                                                                                        >  6:4861/1‑136 (MQ=255)
       aTGGCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCGGTGCGGGGc                                                                                                                        >  8:13108/1‑136 (MQ=255)
         ggCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATACCGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGccc                                                                                                                      <  2:256036/136‑1 (MQ=255)
         ggCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGccc                                                                                                                      <  6:170599/136‑1 (MQ=255)
         ggCGAACAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCCGGAAAAAA‑CCATCCAAAACCCAACCTCACCTCATTCAGATTGCACGAGCCCCGCCCCCGGCGCGGGCCACCTGTGCGGGGccc                                                                                                                      <  1:211452/136‑1 (MQ=255)
          gCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGccc                                                                                                                      <  1:3766/135‑1 (MQ=255)
          gCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGGGCGGGGCCCt                                                                                                                     >  6:368249/1‑136 (MQ=255)
          gCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCCACCACGGCGCGGGCCACCTGTGCGGGGccc                                                                                                                      <  6:325442/135‑1 (MQ=255)
            gATCAGGCCATAGACCGCCCCGAGGGTCAGGCCGTGGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCGGATTGAGATTGCACGAGCGCCGACCCCGGCGCGGGCCCCCGGTGCGGGGgccgc                                                                                                                    >  4:217940/1‑133 (MQ=255)
            gATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGCCCAGTTGCTGCAGGAAAATA‑CCCTCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCACAGTGCGGGGCCCTcg                                                                                                                   >  6:180866/1‑136 (MQ=255)
            gATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCAGTGGGGGGGCcgcg                                                                                                                   >  5:235576/1‑136 (MQ=255)
            gATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CAATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCAGTGCCGGGCCCTcg                                                                                                                   >  5:285099/1‑136 (MQ=255)
               cAGGCCATAGACCGACCCGAGGGGCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCCCCTGATTGAGATTGCACGACCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTcgca                                                                                                                 <  3:286355/135‑1 (MQ=255)
                   ccATAGACCGACGCTAGTGTCAGGCCGTTGACCAGTTGCGGCATGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCTACCACGGCGCGGGCCACCTGTGCGGGGCCCTcgcagcgca                                                                                                            <  1:307855/136‑1 (MQ=255)
                        gaccgcccCGCGGGTCTGGCCGTTGACCAGTTGCTGCAGTAAAATA‑CCATCCATAACCAAAGCACACGTGATTGAGATTGCACGCGCGCCGACCCGGGGGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACt                                                                                                       <  6:330194/136‑1 (MQ=255)
                        gaccgaccCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCAGTGCCGGGCCCTcgcagcgcagcc                                                                                                         >  1:286429/1‑132 (MQ=255)
                         accgcccCGCGGGTCTGGCCGTTTACCAGTTGCTCACGCAAAATA‑CAAACCTAACCGCACTCTCACCTCATGCAGAGTCACCGCCCGCCGACCCGGGGTCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACt                                                                                                       <  4:195295/135‑1 (MQ=255)
                               ccGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCGGTGGGGGGGCCGCGCCGCGCCGGACagtggcg                                                                                                 >  6:225702/1‑132 (MQ=255)
                               ccGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGCCCTCGCAGCGCAGAACtgtg                                                                                                    >  6:220220/1‑132 (MQ=255)
                               ccGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGCCCGCGCCGCGCAGAACTGTGCa                                                                                                  >  4:227046/1‑134 (MQ=255)
                               ccGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCAGTGCGGGGCCCTCGCCGCGCCCAACtgttcca                                                                                                 >  4:296862/1‑131 (MQ=255)
                               ccGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACtgtg                                                                                                    >  7:339995/1‑132 (MQ=255)
                               ccGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGCCGCGGGCCCCCAGTGCGGGGCCCTCGCACCCCAGAAATGTGGAg                                                                                                 >  8:196642/1‑135 (MQ=255)
                                cGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCTGTGCGGGGGCCTCGCAGCGCCGCACTGTGcggcg                                                                                               >  5:111871/1‑132 (MQ=255)
                                cGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCAGTGGGGGGGCCGCGCCGCGCAGCACtggggagc                                                                                                >  3:157111/1‑129 (MQ=255)
                                cGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGCCCTCGCCGCGCAGAACTGTGCAGa                                                                                                >  5:85570/1‑135 (MQ=255)
                                cGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCGGGGCGGGGGCCGCGCAGCGCCGAACTGGGCAgg                                                                                                >  7:337133/1‑134 (MQ=255)
                                 gAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCGGTGCGGGGGCCTCGCAGCGCAGAACGGTGGCGATc                                                                                              >  1:212216/1‑136 (MQ=255)
                                 gAGGGTATGGCTTTTGACATGTTGCTGCAGGAAAAAA‑CCAACAAAACCTCATTCTACCCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGAt                                                                                               <  4:302726/135‑1 (MQ=255)
                                      tCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGa                                                                                         <  1:23718/136‑1 (MQ=255)
                                       ctggCCGTGGACCAGTTGCTGCAGTAAAATA‑CCATCCATACCGCACTCTCACCTGATGGAGATTGAACGAGCCCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGa                                                                                         <  4:36072/133‑1 (MQ=255)
                                       cAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGa                                                                                         <  4:68456/135‑1 (MQ=255)
                                        aGGCCGTTGACCAGTTGCTGCAGGAAAAAA‑CCATCCAAAACGCAATCTCACCTGATTGATATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAAt                                                                                       <  7:57548/136‑1 (MQ=255)
                                           ccGTTGACCAGTTGGTTCAGGAAAATA‑CAATCCATAACGCAATCTCACCTGTTTGAGATTGCACGAGCGCCGACAACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATaaa                                                                                    <  5:146509/136‑1 (MQ=255)
                                           ccGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATaaa                                                                                    >  1:269097/1‑136 (MQ=255)
                                              ttGACCTGTTGCTGCAGTAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCCCGGGGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGAc                                                                                 <  5:358871/136‑1 (MQ=255)
                                                 aCCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAgg                                                                              >  7:103283/1‑136 (MQ=255)
                                                  ccAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAgg                                                                              >  7:75329/1‑135 (MQ=255)
                                                      ttGCTTCAGTAAAAAC‑CCTTCCAAAACGCAATCTCACCTGATTGAGATTGCAGGAGCGCCGACCCCGGCGCGGGCCACCTGGGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTAcc                                                                          <  8:51954/135‑1 (MQ=255)
                                                       tgctgcAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACcgc                                                                        >  8:260391/1‑136 (MQ=255)
                                                         ctgcAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTTCAGAAAGACGAATAAAAACATGTAACGCgg                                                                      >  2:265344/1‑136 (MQ=255)
                                                           gccagtaaaTACCCATCCATAACGCAAACTAACCTGATTTTGATTGAACTCCGCCCCACACCGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACAGTGCAGATCTACGAATAAAGACTGGTACCGCggg                                                                     <  6:274805/130‑1 (MQ=255)
                                                           gcAGTAAAATA‑CCATCCATAACGCAATCTCACCTGATTGTGATTGCACGAGCGCCGCCCCCGGGGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCggg                                                                     <  6:102109/135‑1 (MQ=255)
                                                              ggAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCGGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCtt                                                                 >  7:286551/1‑136 (MQ=255)
                                                                 aaaTA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCCGTGCGGGGCCCGCCCCGCGCCGCACAGTGCAGAACTACGAAAAAAAACAGGGACCGCcgggggtgg                                                               >  3:60988/1‑130 (MQ=255)
                                                                        catccatAACGCAATCTCACCTTATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCCGTGCGGGGCCCACGCCGCGCCCCAAAGGGTAGAAAAAAGAATAAAAAAACGTACCGCCGGGGCTGGGCCCgcc                                                        >  8:323880/1‑134 (MQ=255)
                                                                             atAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCAGTGCGGGGCCCTAGCAGCGGAGAACTGTGCACATCAACGAATAAAGACAGGTACCGAGGGGCTTGGGCCCGCGCacac                                                   >  1:369852/1‑133 (MQ=255)
                                                                             atAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCAGTTCGGGGCCCTCGCAGCGCAGAACTGTTCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTTGGCCCGAGCAAcc                                                   >  8:109341/1‑136 (MQ=255)
                                                                                  gCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTGGGCCCGAGCAACCGCCcg                                              >  1:255475/1‑136 (MQ=255)
                                                                                       ctcACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTGGGCCCGAGCAACCGCCcgggccg                                         >  1:29631/1‑136 (MQ=255)
                                                                                        tcACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGGCCCCAGTGGGGGGCCCGCCCCCCCCCCAACGGTGCCGCTCGACGAATAAAAACACGGAACCCCGGGCGTGGGGCCGCCCAACCGCCccgggcg                                         >  4:140504/1‑135 (MQ=255)
                                                                                              gATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCCCCGGTGCGGGGCCCGCGCCACGCAGAACGGGGCAGCACTAAGAAAAAAGACAGGTACAGCCGGGCGTGTGCCCGGCCAAACCCCcccgccgcgggccg                                  >  2:215495/1‑136 (MQ=255)
                                                                                                            gcgcgcCGCCCCCGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTGGGCCCGAGCAACCGCCCGGGCCGCGGGCCGTTGTTATTTTTGtt                    <  6:342760/134‑1 (MQ=255)
                                                                                                                              gggCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTGGGCCCGAGCAACCGCCCGGGCCGCGGGCCGTTGTTATTTTTGTTTTTCCAGCTGGTGGTAtt  <  1:75771/136‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                  
GTAGCCGATGGCGATCAGGCCATAGACCGACCCGAGGGTCAGGCCGTTGACCAGTTGCTGCAGGAAAATA‑CCATCCATAACGCAATCTCACCTGATTGAGATTGCACGAGCGCCGACCACGGCGCGGGCCACCTGTGCGGGGCCCTCGCAGCGCAGAACTGTGCAGATCTACGAATAAAGACAGGTACCGCGGGGCTTGGGCCCGAGCAACCGCCCGGGCCGCGGGCCGTTGTTATTTTTGTTTTTCCAGCTGGTGGTATT  >  ACB143/5530291‑5530551

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑