Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,065,426	T→G	T129P (ACC→CCC)	rutF ←	pyrimidine utilization flavin reductase protein F

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,065,426	0	T	G	100.0%	257.1 / NA	68	T129P (ACC→CCC)	rutF	pyrimidine utilization flavin reductase protein F
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (35/33);  total (35/33)

TGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTGC  >  NZ_CP009273/1065341‑1065511                                                                                      |                                                                                      tGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCg                                                                                   >  2:1539555/1‑90 (MQ=255) tGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCg                                                                                   >  1:996316/1‑90 (MQ=255)   aTAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGAc                                                                                 <  1:454061/90‑1 (MQ=255)    tAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACg                                                                                >  2:2432453/1‑90 (MQ=255)       cttcGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTc                                                                             <  1:1708441/87‑1 (MQ=255)       cTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTc                                                                             <  2:2764202/90‑1 (MQ=255)       cTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTc                                                                             <  2:1605926/90‑1 (MQ=255)        tGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTca                                                                            <  1:472855/90‑1 (MQ=255)         gCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTcac                                                                           >  2:2254120/1‑90 (MQ=255)           gATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTcacca                                                                         >  2:1260536/1‑90 (MQ=255)             tCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCaccacc                                                                       <  1:2027881/90‑1 (MQ=255)                 aCCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGc                                                                   >  2:1663602/1‑90 (MQ=255)                         aGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACgg                                                           >  1:113613/1‑90 (MQ=255)                         aGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACgg                                                           >  1:1869743/1‑90 (MQ=255)                          gCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGc                                                          <  2:842438/90‑1 (MQ=255)                          gCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGc                                                          <  1:649019/90‑1 (MQ=255)                          gCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGc                                                          <  1:2485338/90‑1 (MQ=255)                            ccGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAg                                                        >  1:2265345/1‑90 (MQ=255)                              gTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTc                                                      <  1:513575/90‑1 (MQ=255)                              gTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTc                                                      >  1:2712476/1‑90 (MQ=255)                              gTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTc                                                      >  2:2824300/1‑90 (MQ=255)                              gTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTc                                                      <  1:785597/90‑1 (MQ=255)                               tAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCa                                                     >  1:491318/1‑90 (MQ=255)                               tAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCa                                                     >  1:83829/1‑90 (MQ=255)                                   gtgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACg                                                 >  2:1664030/1‑90 (MQ=255)                                   gtgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACg                                                 >  2:2640414/1‑90 (MQ=255)                                     gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa                                               >  2:2213396/1‑90 (MQ=255)                                     gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa                                               <  2:2097417/90‑1 (MQ=255)                                     gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa                                               >  1:2616294/1‑90 (MQ=255)                                     gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa                                               <  1:866805/90‑1 (MQ=255)                                        gtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAAcc                                            >  2:1659626/1‑90 (MQ=255)                                           tgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCaga                                         >  2:1070814/1‑90 (MQ=255)                                             aCGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGc                                       <  2:3017938/90‑1 (MQ=255)                                               gATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCct                                     <  2:2775966/90‑1 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGa                                                                                  >  1:716885/1‑42 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGa                                                                                  <  2:716885/42‑1 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACg                                                 <  2:447232/75‑1 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACg                                                 >  1:447232/1‑75 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCtt                                  >  1:1942794/1‑90 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCtt                                  >  2:1163781/1‑90 (MQ=255)                                                  gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCtt                                  >  1:880556/1‑90 (MQ=255)                                                        cTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGtt                            <  1:2432453/90‑1 (MQ=255)                                                            gATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCgg                        >  2:105017/1‑90 (MQ=255)                                                            gATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTAGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCgg                        >  2:1576937/1‑90 (MQ=255)                                                             aTGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCggg                       <  2:1209045/90‑1 (MQ=255)                                                              tGGCGCAAAACAGAATGTCGTGGGGGCCGACGCCCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGc                      <  2:2265345/90‑1 (MQ=255)                                                                gcgcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCAt                    >  1:2135531/1‑90 (MQ=255)                                                                 cgcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   <  2:296972/90‑1 (MQ=255)                                                                 cgcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   <  2:138796/90‑1 (MQ=255)                                                                 cgcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   <  2:2616294/90‑1 (MQ=255)                                                                  gcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATcc                  >  2:1403817/1‑90 (MQ=255)                                                                   cAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCg                 <  2:349778/90‑1 (MQ=255)                                                                     aaaCAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGt               <  1:1070814/90‑1 (MQ=255)                                                                         aGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCAcc           <  2:2135531/90‑1 (MQ=255)                                                                         aGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCAcc           <  2:1942794/90‑1 (MQ=255)                                                                          gAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   >  1:160994/1‑81 (MQ=255)                                                                          gAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   <  2:160994/81‑1 (MQ=255)                                                                               tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGa                                                >  1:2043780/1‑47 (MQ=255)                                                                               tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGa                                                <  2:2043780/47‑1 (MQ=255)                                                                               tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGa                                                >  2:437382/1‑47 (MQ=255)                                                                               tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGa                                                <  1:437382/47‑1 (MQ=255)                                                                               tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCct                                     <  2:2956615/58‑1 (MQ=255)                                                                               tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCct                                     >  1:2956615/1‑58 (MQ=255)                                                                                 gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   >  1:767333/1‑74 (MQ=255)                                                                                 gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                   <  2:767333/74‑1 (MQ=255)                                                                                 gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTg   >  2:2891333/1‑90 (MQ=255)                                                                                 gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTg   >  2:1916539/1‑90 (MQ=255)                                                                                  tGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTGc  <  2:1394954/90‑1 (MQ=255)                                                                                      |                                                                                      TGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTGC  >  NZ_CP009273/1065341‑1065511

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑