Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091373,4130AC38.9% 82.3 / 16.0 55V370G (GTG→GGG) thiPthiamine/thiamine pyrophosphate ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base A (25/8);  new base C (0/21);  total (25/30)
Fisher's exact test for biased strand distribution p-value = 1.12e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GATCGCCATTAACGCATTGGTGAAAATCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCTGCCACAGCACCGGTTGTGCCAGCAC  >  NC_000913/73271‑73561
                                                                                                                                                 |                                                                                                                                                    
gATCGCCATTAACGCATTGGTGAAAATCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGAccc                                                                                                                                              >  1:152714/1‑151 (MQ=255)
gATCGCCATTAACGCATTGGTGAAAATCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGAccc                                                                                                                                              <  2:1094402/151‑1 (MQ=255)
    gCCATTAACGCATTGGTGAAAATCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGCGTTGTTGAGCAGGAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGcc                                                                                                                                           >  1:272454/1‑150 (MQ=255)
     ccATTAACGCATTGGTGAAAATCACAATCCCGTCGGCAGATGGTGGCAGCCCGATAGTGTTTTGGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCCCCAGCACCTGACCCGCCa                                                                                                                                          <  2:843154/150‑1 (MQ=255)
             gCATTGGTGAAAATCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCt                                                                                                                                 >  1:1137063/1‑151 (MQ=255)
                  ggTGAAAATCAAAATGCCGTCAGCAGTTTGGGGCAGGCCGATAGTTTTTTTGAGAAGAAAAAAGAAGCCGTTAGCCAGCACAACCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCcg                                                                                                                             <  2:48332/150‑1 (MQ=255)
                  ggTAAAAAACAAAGTGCCGCAAGCAGTTTGGGCAAGGCCGATCGGGTAGTTGAGAAGAAAAAAGAAGCGGGTAGCCACCACAACCCCGGGCATGGCGAGGATCAACATGCCCCTCATCCCCAGCACCTGACCCGCCAGCATTTTCTg                                                                                                                                <  2:67649/147‑1 (MQ=255)
                    ataaaaACACAGTGCCGAAAGGGGAGTGTGGCAGGCCAATAGTGTTTTGGAGAAGTAACAAGACGCGGGTACCCTTCCCATCCCCCGGCTGGTGGAGGACCAAACGGCCGCCTCTCCCCACCACCGCAGCCGCCAGCATTTTCTGCcgcg                                                                                                                           <  2:1110955/148‑1 (MQ=255)
                       aaaTCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGccc                                                                                                                        >  2:6362/1‑150 (MQ=255)
                         aTCACAATGCCGTCAGCAGATTGTGGCAGGCGGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCa                                                                                                                     <  1:168428/151‑1 (MQ=255)
                                tGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTcgc                                                                                                               >  2:1003589/1‑150 (MQ=255)
                                ggctgTCACCATATTGTGGCGGGCCAATTGTTTTTTTGCGCAGTAAAAAAGGACCGGTGCCCCTCACCCCCCCGGTCCTGGCGGGTAACACTGTGCCACCCATCCCCACCATCCTTCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTcg                                                                                                                <  2:1144546/145‑1 (MQ=255)
                                 gCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTcgcg                                                                                                              >  2:28764/1‑150 (MQ=255)
                                  ccGTCAGCAGATTGGGGCAGGCCGATAGTGTTGTTGAGCAGAAAAAAGAAGCCGGTAGCCAGCACAACCCCCGGCATGGCGAGGATCAACATGCCGCTCATCCCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGAc                                                                                                            <  1:896626/151‑1 (MQ=255)
                                   cgtgggaagATTGTGGCGGGCGGTAAGTGTTTTTGACCGTAAAAAAGAAGCCGGTAGCCACCCCAATCCCCGGCTGGGCGAGGTTAAACTTGCCGCTCTTCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCa                                                                                                                     <  1:693579/134‑1 (MQ=255)
                                    gTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTg                                                                                                          >  1:510821/1‑151 (MQ=255)
                                     tCAGCAGATTGTGGCAGGCCGATAGTGCTGTTGAGCAGTAAAAAGAAGCCGGGAGCCAGCACAATCCCCGGCGTGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGc                                                                                                         >  2:235639/1‑151 (MQ=255)
                                           gATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCAGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCAt                                                                                                    >  2:494429/1‑150 (MQ=255)
                                             ttGTGGCGGGCCGATAGTTTTGTTGAGCATAAAAAAGAAGCCGGTAGCCAGCACAACCCCCGGCATGGCGAGGATCAACATGCCGCTCATCCCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCAt                                                                                                    <  1:432071/148‑1 (MQ=255)
                                             ttGGGGCAGGCGGTTAGTTTTGTGGAGCATAAAAAAGAGCCCGGTACCCACCACACCCCCCGGCATGGGGAGGATCACCATGCCGCTCATCTCCAGCCCCTAACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCAt                                                                                                    <  2:1016551/148‑1 (MQ=255)
                                                 ggcgggcgGATAGTGTTGTGGAGCAGAAAAAAGAGGCCGGTAGCCACCACAACCCCGGGCAGGGCGAGGATCAACATGCCGCTCATCCCCAGCCCCGGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTg                                                                                                          <  2:628521/138‑1 (MQ=255)
                                                 ggCAGGCCGATAGTGTTTTTGAGCAGAAAAAAGAAGCCGGTACCCAGCACAATCCCCGGCTTGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATagca                                                                                                <  1:410629/148‑1 (MQ=255)
                                                 ggCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCAGGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATagcagc                                                                                              <  1:581268/150‑1 (MQ=255)
                                                         gATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTc                                                                                     >  2:1097362/1‑151 (MQ=255)
                                                             gtgtTGTTGAGCAAAAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCCCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCa                                                                                    <  1:1083606/148‑1 (MQ=255)
                                                               gttgttGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACt                                                                               >  2:819128/1‑151 (MQ=255)
                                                               gttgtgGAGCAGAAAAAAGAAGCCGGTGGCCAGCACAACCCCCGGCTTGGCGAGGATAAACAGGCCGCTCATCCCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAg                                                                                   <  2:261554/147‑1 (MQ=255)
                                                                   ttgGGCAGAAAAAAGAAGCCGGTACCCACCACAACCCCCGGCATGGGGAGGATCAACAGGCCGCTCATCCCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTAc                                                                             <  1:850557/149‑1 (MQ=255)
                                                                     gAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGcac                                                                         >  2:796957/1‑151 (MQ=255)
                                                                     gAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCAGGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCGGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGc                                                                           <  1:220380/149‑1 (MQ=255)
                                                                     aaaaataaaaaaaaaGCCGTCCGCCAGCACACCCCCGGACTTGCCAGGAATAAACTGCCCGCGCATTTCCAGCTCCCGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGca                                                                          <  2:176375/143‑1 (MQ=255)
                                                                       gCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGcaca                                                                        >  2:16431/1‑150 (MQ=255)
                                                                       cgggaaaaaaGAAGCGGCTGGCAAGCACATCCCCGGCAAGGGCGAGGACAAAATCGCCATAATTCCACAGCCCCAGGCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACt                                                                               <  2:594251/138‑1 (MQ=255)
                                                                            aaaaaGAACCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCCCCACCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATacac                                                                  <  1:901197/151‑1 (MQ=255)
                                                                             aaaaGAACCCGGTAGCCAGCACAACCCCCGGCATGGCGAGGATCAACAGGCCGCTCACCCCCAGCACCGACCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACAcc                                                                 <  1:364546/151‑1 (MQ=255)
                                                                                   agCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTgccgc                                                           >  2:1051114/1‑151 (MQ=255)
                                                                                    gCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTgccgcc                                                          >  1:1098422/1‑151 (MQ=255)
                                                                                     ccGGTAGCCGCCACAATCCCCGTGATGGCGGGGACAACCATGCCGACCATCACCAGCCCCGGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCa                                                         <  2:441474/151‑1 (MQ=255)
                                                                                     ccGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCa                                                         <  1:1075900/151‑1 (MQ=255)
                                                                                         tAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAgcgc                                                     >  1:468534/1‑151 (MQ=255)
                                                                                          aGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAgcgc                                                     >  2:1096079/1‑150 (MQ=255)
                                                                                            ccaccaCAACCCCGGGCAGGGCGAGCACCAACATCCCCCCCTCCCCCGCCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAgcgc                                                     <  2:416524/148‑1 (MQ=255)
                                                                                              aGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTCCGCACAATACACCTGCCGCCAGCGCAATAc                                                >  1:690113/1‑151 (MQ=255)
                                                                                                   accccccGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGc                                              <  1:1152297/145‑1 (MQ=255)
                                                                                                   aaTCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAAc                                           >  2:1062964/1‑151 (MQ=255)
                                                                                                      cccgGGCAGGGCGAGAATCAACATGCCGCTCACCTCCAGCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAg                                        <  1:743023/151‑1 (MQ=255)
                                                                                                               tGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCcac                                  >  2:615945/1‑149 (MQ=255)
                                                                                                                ggggAGGATCAACAGGCCGCTCATCCCCAGCCCCGGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCcaca                                 <  2:875541/146‑1 (MQ=255)
                                                                                                                ggCGAGGACCAACAGGCCGCTCACCCCCAGCCCCGGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCcac                                  <  2:98919/148‑1 (MQ=255)
                                                                                                                  cGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAgcgc                             >  2:224410/1‑151 (MQ=255)
                                                                                                                     ggATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCTg                          >  2:210607/1‑151 (MQ=255)
                                                                                                                     ggATCAACATGCCGCTCATCCCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCt                           <  1:471050/150‑1 (MQ=255)
                                                                                                                                   cGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCTGCCACAGCACCgg              >  1:161948/1‑151 (MQ=255)
                                                                                                                                    gCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCTGCCACAGCACCGGt             >  1:1046588/1‑151 (MQ=255)
                                                                                                                                               gCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCTGCCACAGCACCGGTTGTGCCAGCAc  >  2:370543/1‑151 (MQ=255)
                                                                                                                                                 |                                                                                                                                                    
GATCGCCATTAACGCATTGGTGAAAATCACAATGCCGTCAGCAGATTGTGGCAGGCCGATAGTGTTGTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCACAATACACCTGCCGCCAGCGCAATACGCAACGAGGTCCACAGCGCCTGCCACAGCACCGGTTGTGCCAGCAC  >  NC_000913/73271‑73561

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: