Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	362,884	A→G	L99S (TTA→TCA)	lacY ←	lactose permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	362,884	0	A	G	98.6%	249.8 / ‑5.0	70	L99S (TTA→TCA)	lacY	lactose permease
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (33/36);  total (33/37)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

CTCAATAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTAACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTGTCA  >  NC_000913/362790‑362979                                                                                               |                                                                                                ctcAATAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGt                                                                                            >  1:1155633/1‑100 (MQ=255)   cAATAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTgg                                                                                          >  2:1006773/1‑100 (MQ=255)   cAATAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTgg                                                                                          >  1:1490275/1‑100 (MQ=255)   cAATAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTAATAAAATGTTGTATTGTaa                                                                                                >  1:1880083/1‑94 (MQ=255)    aaTAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGc                                                                                         >  2:977064/1‑100 (MQ=255)     aTAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGcc                                                                                        <  1:1175768/100‑1 (MQ=255)       aaaTGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCg                                                                                      >  1:147698/1‑100 (MQ=255)        aaTGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGa                                                                                     >  1:1838174/1‑100 (MQ=255)          tGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAg                                                                                   <  1:1033826/100‑1 (MQ=255)          tGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAg                                                                                   <  2:1088785/100‑1 (MQ=255)          tGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAg                                                                                   <  2:1353086/100‑1 (MQ=255)           gCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGa                                                                                  <  2:374795/100‑1 (MQ=255)              tctACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATaa                                                                               <  1:1098524/100‑1 (MQ=255)               ctACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATaaa                                                                              >  2:981897/1‑100 (MQ=255)               ctACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATaaa                                                                              >  1:1058864/1‑100 (MQ=255)                  ctgctgGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAAt                                                                           >  1:532441/1‑100 (MQ=255)                  ctgctgGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAAt                                                                           <  1:1550131/100‑1 (MQ=255)                   tgctgGCGCACCGGAGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATa                                                                          <  1:572788/100‑1 (MQ=255)                    gctgGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATaa                                                                         <  1:490843/100‑1 (MQ=255)                     ctgGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATaaa                                                                        <  1:1814760/100‑1 (MQ=255)                     ctgGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATaaa                                                                        <  1:119214/100‑1 (MQ=255)                       ggCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCCCCTATCGCTCCTACTAAAATTTTGTATTGTAACAGTGGCCCGAAGATAAAAATaaa                                                                        <  1:1713517/98‑1 (MQ=255)                       ggCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGa                                                                      <  1:1734910/100‑1 (MQ=255)                         cgcACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAAc                                                                    >  2:463960/1‑100 (MQ=255)                         cgcACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAAc                                                                    >  1:1165681/1‑100 (MQ=255)                         cgcACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAAc                                                                    <  1:567378/100‑1 (MQ=255)                         cgcACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAAc                                                                    >  2:464285/1‑100 (MQ=255)                           cACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACgg                                                                  >  2:1687206/1‑100 (MQ=255)                             ccGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGgcg                                                                <  2:1430882/100‑1 (MQ=255)                             ccGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGgcg                                                                <  2:1939176/100‑1 (MQ=255)                             ccGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGgcg                                                                >  1:1535403/1‑100 (MQ=255)                                   ttAAAACAAAAGCCTAGATAAATATCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACa                                                          >  1:400027/1‑100 (MQ=255)                                   ttAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACa                                                          <  2:168384/100‑1 (MQ=255)                                   ttAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACa                                                          <  1:1687196/100‑1 (MQ=255)                                    tAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACAt                                                         >  2:1222800/1‑100 (MQ=255)                                       aaCAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCAc                                                      <  2:285143/100‑1 (MQ=255)                                        aCAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACt                                                     >  2:1444677/1‑100 (MQ=255)                                             aGCCTAGATAAATACCACCACCAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACAt                                                <  1:646190/100‑1 (MQ=255)                                              gCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATg                                               <  2:1100547/100‑1 (MQ=255)                                                 tAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCg                                            >  1:316938/1‑100 (MQ=255)                                                  gatctaaTACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCgg                                           <  2:1856985/95‑1 (MQ=255)                                                  aGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCgg                                           <  2:1174429/100‑1 (MQ=255)                                                     tAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGtaa                                        >  2:1857079/1‑100 (MQ=255)                                                     tAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGtaa                                        >  2:1067826/1‑100 (MQ=255)                                                      aaaTACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGtaat                                       <  1:1006772/100‑1 (MQ=255)                                                       aaTACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCggagatc                                      >  1:1856973/1‑95 (MQ=255)                                                       aaTACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGtaata                                      <  1:1848515/100‑1 (MQ=255)                                                        aTACCACCAACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGtaataa                                     <  1:1883655/100‑1 (MQ=255)                                                           ncaccaACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCAGGTAATAATcc                                  >  1:1656550/2‑100 (MQ=255)                                                           ccaccaACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATcc                                  >  2:306444/1‑100 (MQ=255)                                                            caccaACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCca                                 >  2:375275/1‑100 (MQ=255)                                                            caccaACAATCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCca                                 >  1:679555/1‑100 (MQ=255)                                                                  caaTCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCAcagcag                           <  2:211537/100‑1 (MQ=255)                                                                  caaTCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCAcagcag                           <  1:1731137/100‑1 (MQ=255)                                                                  caaTCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCAcagcag                           <  2:1792037/100‑1 (MQ=255)                                                                  caaTCGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCAcagcag                           <  1:1794249/100‑1 (MQ=255)                                                                      cGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTAt                       >  1:1066992/1‑100 (MQ=255)                                                                      cGATCCTACTAAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATAACTAACATGCCGGTAATAATCCACAGAAGGTa                        >  1:467418/1‑99 (MQ=255)                                                                      cGATCCTACTAAAATGTTGTATTGTGACAGTAGCCCGAACATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCAcagcag                           <  1:1243424/96‑1 (MQ=255)                                                                           ctactaAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTgcg                  <  1:1442174/100‑1 (MQ=255)                                                                            tactaAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTgcgc                 <  2:1155635/100‑1 (MQ=255)                                                                             actaAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCa                >  1:1253136/1‑100 (MQ=255)                                                                              ctaAAATGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAg               >  1:205657/1‑100 (MQ=255)                                                                              ctaAAATGTCGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAg               >  2:632846/1‑100 (MQ=255)                                                                                aaaaTGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGcc             >  1:790890/1‑100 (MQ=255)                                                                                aaaaTGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGcc             >  2:724022/1‑100 (MQ=255)                                                                                 aaaTGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGccc            <  2:532443/100‑1 (MQ=255)                                                                                   aTGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGa          <  2:1385984/100‑1 (MQ=255)                                                                                   aTGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGa          >  2:90871/1‑100 (MQ=255)                                                                                   aTGTTGTATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGa          <  2:1386028/100‑1 (MQ=255)                                                                                    tgttgtATTGTGACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAg         <  2:316940/100‑1 (MQ=255)                                                                                       tgtattgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGttt      >  2:1871851/1‑100 (MQ=255)                                                                                       tgtattgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGttt      >  2:1786025/1‑100 (MQ=255)                                                                                        gtattgtgACAGTGGCCCGAAGATAAGAATAAAGAACGGCGCAAACATCACTAACATGCCTGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGtt       <  1:994043/98‑1 (MQ=255)                                                                                        gtattgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTg     >  2:295059/1‑100 (MQ=255)                                                                                        gtattgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTg     <  1:544981/100‑1 (MQ=255)                                                                                        gtattgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTg     <  1:1006005/100‑1 (MQ=255)                                                                                          attgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGttt      >  1:738210/1‑97 (MQ=255)                                                                                          attgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTGTc   >  1:1467375/1‑100 (MQ=255)                                                                                          attgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTGTc   <  2:498005/100‑1 (MQ=255)                                                                                          attgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTGTc   >  2:1407762/1‑100 (MQ=255)                                                                                           ttgtgACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTGTCa  <  2:407227/100‑1 (MQ=255)                                                                                               |                                                                                                CTCAATAAATGCCTCTACTGCTGGCGCACCGGCGTTAAAACAAAAGCCTAGATAAATACCACCAACAATCGATCCTACTAAAATGTTGTATTGTAACAGTGGCCCGAAGATAAAAATAAAGAACGGCGCAAACATCACTAACATGCCGGTAATAATCCACAGCAGGTATTTGCGCAGCCCGAGTTTGTCA  >  NC_000913/362790‑362979

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑