Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,563,693 A→G 8.6% intergenic (+175/+94) glpD → / ← yzgL sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding/pseudogene, periplasmic solute binding protein homology

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,563,6930AG 8.6% 219.1 / 9.2 70intergenic (+175/+94)glpD/yzgLsn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding/pseudogene, periplasmic solute binding protein homology
Reads supporting (aligned to +/- strand):  ref base A (33/31);  new base G (3/3);  total (36/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.65e-01

CTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTAATGCGCCCAGCGCCAGCATAAAAATTT  >  NC_000913/3563592‑3563839
                                                                                                     |                                                                                                                                                  
cTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGTGCGCTTTGttca                                                                                                                                           >  4:928961/1‑108 (MQ=255)
cTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGTGCGCTTTGttca                                                                                                                                           <  3:928961/111‑4 (MQ=255)
 tACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGt                                                                                                                                              >  4:381371/1‑107 (MQ=255)
 tACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGt                                                                                                                                              <  3:381371/107‑1 (MQ=255)
       tATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTa                                                                                                                                    >  1:1041614/1‑111 (MQ=255)
       tATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTa                                                                                                                                    >  4:486829/1‑111 (MQ=255)
       tATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTa                                                                                                                                    <  3:486829/111‑1 (MQ=255)
       tATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTa                                                                                                                                    <  2:1041614/111‑1 (MQ=255)
         tCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACt                                                                                                                                                  <  2:357223/95‑1 (MQ=255)
         tCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACt                                                                                                                                                  >  1:357223/1‑95 (MQ=255)
          cAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACttt                                                                                                                           <  2:737589/117‑1 (MQ=255)
          cAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACttt                                                                                                                           >  1:737589/1‑117 (MQ=255)
          cAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGc                                                                                            >  3:703574/1‑148 (MQ=255)
                tACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGt                                                                                                                                              <  2:222269/92‑1 (MQ=255)
                tACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGt                                                                                                                                              >  1:222269/1‑92 (MQ=255)
                tACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTc                                                                                                                    >  1:68856/1‑118 (MQ=255)
                tACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTc                                                                                                                    <  2:68856/118‑1 (MQ=255)
                    tGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAAt                                                                                                                      >  1:939494/1‑112 (MQ=255)
                    tGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAAt                                                                                                                      <  2:939494/112‑1 (MQ=255)
                                 atatTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTc                                                                                                                    >  4:763617/1‑101 (MQ=255)
                                 atatTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTc                                                                                                                    <  3:763617/101‑1 (MQ=255)
                                    ttGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCa                                                                  <  4:703574/148‑1 (MQ=255)
                                     tGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCt                                                                                                                                <  3:263638/85‑1 (MQ=255)
                                     tGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCt                                                                                                                                >  4:263638/1‑85 (MQ=255)
                                     tGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTAc                                                                                                          <  1:705327/107‑1 (MQ=255)
                                     tGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTAc                                                                                                          >  2:705327/1‑107 (MQ=255)
                                         tttGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCa                                                                                                                   <  1:389152/94‑1 (MQ=255)
                                         tttGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCa                                                                                                                   >  2:389152/1‑94 (MQ=255)
                                               tGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATAcc                                                                                   <  3:425976/120‑1 (MQ=255)
                                               tGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATAcc                                                                                   >  4:425976/1‑120 (MQ=255)
                                                   cTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCa                                                                                                                   >  1:798028/1‑84 (MQ=255)
                                                   cTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCa                                                                                                                   <  2:798028/84‑1 (MQ=255)
                                                           ccAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACtt                                                                                                                                                 >  3:284921/1‑46 (MQ=255)
                                                           ccAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACtt                                                                                                                                                 <  4:284921/46‑1 (MQ=255)
                                                             aGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAg                                                                                                                  >  1:244989/1‑75 (MQ=255)
                                                             aGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAg                                                                                                                  <  2:244989/75‑1 (MQ=255)
                                                             aGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCACCGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCgaga                                         >  4:686248/1‑148 (MQ=255)
                                                                 aaGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAAtt                                                                                                                     <  4:438698/68‑1 (MQ=255)
                                                                 aaGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAAtt                                                                                                                     >  3:438698/1‑68 (MQ=255)
                                                                     cGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGt                                                                             <  1:39026/104‑1 (MQ=255)
                                                                     cGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGt                                                                             >  2:39026/1‑104 (MQ=255)
                                                                       ttCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGtt                                                          >  2:352479/1‑121 (MQ=255)
                                                                       ttCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGtt                                                          <  1:352479/121‑1 (MQ=255)
                                                                          aCGTCGCATCCGGCATGAACAAAGCGCACTTTGTGAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTaa                            <  3:686248/148‑1 (MQ=255)
                                                                          aCGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTccc                                                       <  4:585311/121‑1 (MQ=255)
                                                                          aCGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTccc                                                       >  3:585311/1‑121 (MQ=255)
                                                                           cGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGc                                                                                                  <  1:1006031/77‑1 (MQ=255)
                                                                           cGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGc                                                                                                  >  2:1006031/1‑77 (MQ=255)
                                                                           cGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGtt                                                          >  3:1013909/1‑117 (MQ=255)
                                                                           cGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGtt                                                          <  4:1013909/117‑1 (MQ=255)
                                                                           cGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTcc                                                        >  3:685458/1‑119 (MQ=255)
                                                                           cGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTcc                                                        <  4:685458/119‑1 (MQ=255)
                                                                             tCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCgaga                                         <  1:692875/132‑1 (MQ=255)
                                                                             tCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCgaga                                         >  2:692875/1‑132 (MQ=255)
                                                                              cGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGcc                                                                                           >  4:897135/1‑81 (MQ=255)
                                                                              cGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGcc                                                                                           <  3:897135/81‑1 (MQ=255)
                                                                                  tCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTc                                                                                                                    <  2:825967/52‑1 (MQ=255)
                                                                                  tCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTc                                                                                                                    >  1:825967/1‑52 (MQ=255)
                                                                                  tCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCaa                                                                                <  2:566982/88‑1 (MQ=255)
                                                                                  tCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCaa                                                                                >  1:566982/1‑88 (MQ=255)
                                                                                       cATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACtttt                                                                                                                          >  2:25372/1‑41 (MQ=255)
                                                                                       cATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACtttt                                                                                                                          <  1:25372/41‑1 (MQ=255)
                                                                                          tgaCAAAGTGCGCTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACaaa                                                                       <  2:415167/87‑1 (MQ=255)
                                                                                          tgaCAAAGTGCGCTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACaaa                                                                       >  1:415167/3‑89 (MQ=255)
                                                                                            aCAAAGTGCGCTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATa                                                                                     <  4:549548/73‑1 (MQ=255)
                                                                                            aCAAAGTGCGCTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATa                                                                                     >  3:549548/1‑73 (MQ=255)
                                                                                             cAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTAATGCGCCCAGCGCCAGCATa         >  2:651099/1‑148 (MQ=255)
                                                                                              aaaGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTAATGCGCCCAGCGCCAGCATaa        >  3:623242/1‑148 (MQ=255)
                                                                                                  cgcACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTAATGCGCCCAGCGCCAGCATAAAAAt    >  3:339365/1‑148 (MQ=255)
                                                                                                    cACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTAATGCGCCCAGCGCCAGCATAAAAAttt  <  4:623242/148‑1 (MQ=255)
                                                                                                     |                                                                                                                                                  
CTACGCTTATCAGGCCTACGTGGTTTATGCAATATATTGAATTTGCATGGTCTTGTAGGCCAGATAAGACGTTCACGTCGCATCCGGCATGAACAAAGCGCACTTTGTCAAAAATCTAACCTACTTTTTAATTCAGGGAATTACCGCAAAGCCCACGCCATCATACCCAACGTAACAAAACTCAGGCACGTTCCCCACTCGCCCCGAGAAAAATAGCATTAATGCGCCCAGCGCCAGCATAAAAATTT  >  NC_000913/3563592‑3563839

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: