Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	232,840	T→A	V96E (GTG→GAG)	dnaQ →	DNA polymerase III subunit epsilon

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	232,840	0	T	A	100.0%	142.9 / NA	37	V96E (GTG→GAG)	dnaQ	DNA polymerase III subunit epsilon
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (17/20);  total (17/20)

GTATTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGTGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGAAGACCAATACT  >  NZ_CP009273/232753‑232922                                                                                        |                                                                                   gTATTGCCGATTAATTTTTGCTCGATAAGCCCCCGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  <  2:902542/90‑1 (MQ=255) gTATTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  >  1:110566/1‑90 (MQ=255) gTATTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  <  2:625091/90‑1 (MQ=255) gTATTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  <  2:329316/90‑1 (MQ=255) gTATTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  <  2:16056/90‑1 (MQ=255)   aTTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATc                                                                                <  1:852644/90‑1 (MQ=255)    ttGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATcc                                                                               >  2:332961/1‑90 (MQ=255)      gCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCAt                                                                             >  1:406544/1‑90 (MQ=255)      gCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCAt                                                                             >  1:909291/1‑90 (MQ=255)      gCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCAt                                                                             >  1:641513/1‑90 (MQ=255)         gATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAAc                                                                          >  2:211296/1‑90 (MQ=255)           tGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGc                                                                        <  2:484166/90‑1 (MQ=255)           tGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGc                                                                        >  1:363620/1‑90 (MQ=255)             aaTTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAg                                                                      <  1:191624/90‑1 (MQ=255)                      tCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGata                                                             <  1:302986/90‑1 (MQ=255)                      tCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGata                                                             >  1:323469/1‑90 (MQ=255)                        gATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATc                                                           <  2:82206/90‑1 (MQ=255)                        gATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTGCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATc                                                           <  2:387136/90‑1 (MQ=255)                          tAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCgg                                                         <  2:853847/90‑1 (MQ=255)                                cACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTAt                                                   <  2:406544/90‑1 (MQ=255)                                cACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTAt                                                   <  1:441002/90‑1 (MQ=255)                                 aCGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  >  2:863948/1‑58 (MQ=255)                                 aCGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGgaga                                                                                  <  1:863948/58‑1 (MQ=255)                                 aCGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATg                                                  >  1:608355/1‑90 (MQ=255)                                 aCGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATg                                                  <  2:724005/90‑1 (MQ=255)                                             gTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGttt                                      <  1:489326/90‑1 (MQ=255)                                                  cGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGtt                                 <  2:247545/90‑1 (MQ=255)                                                                aCTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGata                   >  2:673820/1‑90 (MQ=255)                                                                 cTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGatat                  <  1:332961/90‑1 (MQ=255)                                                                 cTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGatat                  <  1:815968/90‑1 (MQ=255)                                                                 cTATATTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGatat                  >  1:510426/1‑90 (MQ=255)                                                                  tataTTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATAtt                 >  1:845264/1‑90 (MQ=255)                                                                     atTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCg              >  1:435309/1‑90 (MQ=255)                                                                     atTCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCCTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCg              >  1:684374/1‑90 (MQ=255)                                                                      ttCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGa             <  1:235077/90‑1 (MQ=255)                                                                      ttCGCGGCGCGGAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGa             <  1:334732/90‑1 (MQ=255)                                                                        cgcggcgcggAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAgcgc                       >  2:656071/1‑78 (MQ=255)                                                                        cgcggcgcggAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAgcgc                       <  1:656071/78‑1 (MQ=255)                                                                         gcggcgcggAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGAAGa          >  2:693522/1‑90 (MQ=255)                                                                         gcggcgcggAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGAAGa          >  1:635392/1‑90 (MQ=255)                                                                         gcggcgcggAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCCTTATGGACTACGAGTTTTCGt                                  <  2:49397/66‑1 (MQ=255)                                                                         gcggcgcggAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCCTTATGGACTACGAGTTTTCGt                                  >  1:49397/1‑66 (MQ=255)                                                                                 gAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGAAGACCAATACt  <  2:641513/90‑1 (MQ=255)                                                                                 gAGTTGGAGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGAAGACCAATACt  <  2:823775/90‑1 (MQ=255)                                                                                        |                                                                                   GTATTGCCGATGAATTTTTGCTCGATAAGCCCACGTTTGCCGAAGTAGCCGATGAGTTCATGGACTATATTCGCGGCGCGGAGTTGGTGATCCATAACGCAGCGTTCGATATCGGCTTTATGGACTACGAGTTTTCGTTGCTTAAGCGCGATATTCCGAAGACCAATACT  >  NZ_CP009273/232753‑232922

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑