Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009273	2,420,353	A→C	intergenic (‑86/+135)	hisJ ← / ← argT	histidine/lysine/arginine/ornithine transporter subunit/lysine/arginine/ornithine transporter subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,420,353	0	A	C	100.0%	162.1 / NA	51	intergenic (‑86/+135)	hisJ/argT	histidine/lysine/arginine/ornithine transporter subunit/lysine/arginine/ornithine transporter subunit
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (32/19);  total (32/19)

GCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAAAATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATGCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACGTATCAGT  >  CP009273/2420230‑2420492                                                                                                                            |                                                                                                                                            gCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTTTTTTTTTTTTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTTCACTTATCGTGCCATACAATTGACCATCAAGGCAACATATCCCGCCCAGTTAGACg                                                                                                                         >  2:172174/1‑144 (MQ=255) gCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAATCTTTTTATAGGGAATATTTACAGGTGTGTTCCACTTATCGTGCCATAAAATTGACCATCAAAGCAACATACCCCGCCCCGttcgccc                                                                                                                         >  2:129020/1‑139 (MQ=255)  ccAGAACCAGAGAGAGCGATAGCACCAGAATTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACGATCAAGGCAACATATCCCGCCCCGTTAGACGtattat                                                                                                                   >  1:604350/1‑149 (MQ=255)    aGACCCAGAGAGGGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTCACAGTCGTTTTATAGGGAGTATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGtat                                                                                                                      <  2:301312/144‑1 (MQ=255)        ccAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGTCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCa                                                                                                             <  1:639336/149‑1 (MQ=255)        ccAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTattatt                                                                                                                  <  2:500521/144‑1 (MQ=255)                agCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAAt                                                                                                     >  1:606445/1‑149 (MQ=255)                  cGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAAttc                                                                                                   >  1:327733/1‑147 (MQ=255)                  cGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAAttc                                                                                                   >  1:327805/1‑147 (MQ=255)                  cGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAAttc                                                                                                   >  1:502864/1‑147 (MQ=255)                      aGCACCAGTTTTTTCATAAGGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAAtt                                                                                                    <  2:210063/144‑2 (MQ=255)                          ccAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTACTTTTCATTAAAAAATCTTa                                                                                                >  2:662652/1‑144 (MQ=255)                              ttttttCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCAt                                                                                       <  1:418093/149‑1 (MQ=255)                                    cATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAGGTATGCCTTTCAAt                                                                                 >  1:61960/1‑149 (MQ=255)                                                  cTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCCTAAAATTGACCATCAAGTCCACATATCCCGCCCCGTTCGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCCCGAtcgcg                                                                   >  1:470104/1‑145 (MQ=255)                                                   tGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGAt                                                                       >  2:356975/1‑144 (MQ=255)                                                       aGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCGTAAGTATGCATTTCAATGCACCACGAtgatg                                                                   >  2:131727/1‑140 (MQ=255)                                                         tCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGca                                                                 >  2:11974/1‑144 (MQ=255)                                                         gcTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGca                                                                 >  2:11989/2‑144 (MQ=255)                                                           tttttATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCATCATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAAcc                                                          <  1:888416/149‑1 (MQ=255)                                                                      aaTATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTCTGACTTTCAATGCACCACGATAGTGCAACAAACCTGGAGt                                                    >  2:269928/1‑144 (MQ=255)                                                                      aaTATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCAcc                                               >  1:419188/1‑149 (MQ=255)                                                                        tatTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGc                                                  >  2:321817/1‑144 (MQ=255)                                                                         atTTACAGTTTTGTTATACTTATCGTGCAATAAAAGTGACCATCAAGGCAACATATCCCGCCCCGTTATACGTATTATTTTTCATCAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCatg                                            <  1:913503/149‑1 (MQ=255)                                                                           ttACAGGTTTGTTACACTTATCGTTCCATAAAATTGACCATCAAAGCAACATATCCCGCCCCGTTAGACATATTATTTTTCATTAAAAATTCTTAAGTATTCATTTCAATGCACAACGATAGTGCAACAAACCTTGGGTGCACCatgat                                          >  1:450869/1‑149 (MQ=255)                                                                                 gTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCAt                                    <  1:855017/149‑1 (MQ=255)                                                                                 gTTTGTTACACTTATCGTGCCATAAAATTAACCATCAAGACAACATGTCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGAACCATGGTGATCAt                                    >  1:301319/1‑149 (MQ=255)                                                                                     gTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAACAAATCTCGCCCCGTCGGACGTCTTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCa                                >  1:223556/1‑149 (MQ=255)                                                                                      ttACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATCGTGCAACAAACATGGCGTGCACCATGATGATCAt                                    >  2:397674/1‑144 (MQ=255)                                                                                      ttACACTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAACCCTAGCGTGCCCCCTCATGATCac                                    >  2:738573/1‑143 (MQ=255)                                                                                       tACACTTATCGTGACATAAAAATGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATACTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATc                              >  1:657629/1‑149 (MQ=255)                                                                                         cccTTATCGTGCGATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTcc                                 <  2:89450/142‑1 (MQ=255)                                                                                         cacTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTcc                                 <  2:531487/144‑1 (MQ=255)                                                                                           ctcaTCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGt                          >  1:102384/4‑149 (MQ=255)                                                                                           cTTATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGt                          >  1:703068/1‑149 (MQ=255)                                                                                            ttATCGTGCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCCTGATGATCATTCCATc                              >  2:344635/1‑144 (MQ=255)                                                                                                   gCCATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTc                  <  1:69087/149‑1 (MQ=255)                                                                                                    ccATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACTTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAg                      <  2:788067/144‑1 (MQ=255)                                                                                                    ccATAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTcc                 <  1:624316/149‑1 (MQ=255)                                                                                                      aTAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCa               >  1:607822/1‑149 (MQ=255)                                                                                                       tAAAATTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAg              >  1:811124/1‑149 (MQ=255)                                                                                                        aaaaTTGACCATCAAGTCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTc                  <  2:390956/144‑1 (MQ=255)                                                                                                         aaaTTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATCCCATCAGGTACAGCTTcc                 >  2:563869/1‑144 (MQ=255)                                                                                                           aTTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGAc          <  1:769077/149‑1 (MQ=255)                                                                                                           aTTGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGAc          <  1:836231/149‑1 (MQ=255)                                                                                                            ttGACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACg         >  1:353083/1‑149 (MQ=255)                                                                                                            tggACCATCAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCTTTTTTTTTTCATAAGTATGCATGTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCCCCCTGCTGATCATTCCATCACGTACAGCCTCCCAg              >  2:149143/3‑144 (MQ=255)                                                                                                              taCCATCAAGTCAACATATCCCTCCCCGTTATACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACGTa       <  1:380945/148‑1 (MQ=255)                                                                                                                   tCAATGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACGTATCAGt  <  1:397156/149‑1 (MQ=255)                                                                                                                    cAAGGCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACTAACCTGTCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACGTAt      <  2:547839/144‑1 (MQ=255)                                                                                                                        gCAACATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATTCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACCAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACGTATCAGt  >  2:632628/1‑144 (MQ=255)                                                                                                                            |                                                                                                                                            GCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATCAAGGCAAAATATCCCGCCCCGTTAGACGTATTATTTTTCATTAAAAATGCTTAAGTATGCATTTCAATGCACCACGATAGTGCAACAAACCTGGCGTGCACCATGATGATCATTCCATCAGGTACAGCTTCCCAGCGACGTATCAGT  >  CP009273/2420230‑2420492

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑