Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,100,717	G→T	intergenic (‑192/‑93)	rhaT ← / → sodA	rhamnose/lyxose:H(+) symporter/superoxide dismutase (Mn)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,100,717	0	G	T	100.0%	144.7 / NA	44	intergenic (‑192/‑93)	rhaT/sodA	rhamnose/lyxose:H(+) symporter/superoxide dismutase (Mn)
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (24/20);  total (24/20)

TAAAAATCGTGCTGTCGATTAACCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTGATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGCCATCCCTGCCGTATGCTTACGATGCCCT  >  NC_000913/4100577‑4100853                                                                                                                                             |                                                                                                                                         tAAAAATCGTGCTGTCGATTAACCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTAt                                                                                                                                        <  1:290994/143‑1 (MQ=255) tAAAAAGCGTGCTGTCGATTAACCTTTCGCCTGTGGCCGCCGTTGTCGATTTACTGGCAATCACGGCATGAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTAt                                                                                                                                        <  1:309828/143‑1 (MQ=255)   acagtcctGCTGTCGAGCACCCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTCGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATCCCCTTACGAAAAGTACGGCATTTATaa                                                                                                                                      <  2:390055/136‑1 (MQ=255)             tGTCGATTAGCCTTTGGGGCGTCTCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAGAAGTACGGCATTTATAATCATTTTCaa                                                                                                                            <  2:603650/143‑1 (MQ=255)              gTCGATTAACCTTTCGCCTGTTGCCGCCGTTGTCGATGTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTGTCAat                                                                                                                           >  2:273243/1‑143 (MQ=255)               tCGATTAACCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATGTTCAatg                                                                                                                          >  1:603584/1‑142 (MQ=255)                   ttAACCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCGTTACGAAAAGTACGCAATTTATAATCATTTGCAATATCAt                                                                                                                      >  2:606572/1‑143 (MQ=255)                      aCCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATtta                                                                                                                   >  1:544722/1‑143 (MQ=255)                       ccTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATttaa                                                                                                                  <  2:506137/143‑1 (MQ=255)                           tCGCCTGCTGCTACTTTTGTTGATTTGCTCGCAATCACGGCATTAAGTGGATGATTTGCTTCACATCTCGGGTATTTTCCTGTAAAACCTTACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATttaattaa                                                                                                              <  2:234907/143‑1 (MQ=255)                                tGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACtata                                                                                                         <  1:504043/143‑1 (MQ=255)                                    gccgccGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGa                                                                                                     <  1:577161/143‑1 (MQ=255)                                     ccgccgTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTGATTAACTATAATGaa                                                                                                    >  1:352812/1‑143 (MQ=255)                                     ccgccgTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTCCGATATACGTTGCTTAACTACAATGag                                                                                                    >  1:510213/1‑142 (MQ=255)                                        ccgTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAAccc                                                                                                 >  1:601278/1‑142 (MQ=255)                                              tCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCt                                                                                           <  1:547364/143‑1 (MQ=255)                                                   ttACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTAcgc                                                                                      <  1:137010/143‑1 (MQ=255)                                                       tGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGACa                                                                                  >  1:402396/1‑143 (MQ=255)                                                       tGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACAGCTCGGGCATTTTCCTGCAAAAGCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCa                                                                                  <  1:154555/143‑1 (MQ=255)                                                                 ggCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCAGCATTAACAATct                                                                        >  1:422690/1‑142 (MQ=255)                                                                   cATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGgc                                                                      >  2:444897/1‑143 (MQ=255)                                                                        aGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATACTCATTTTCAATATCATTTAATTACCTATAACGAACCAACTGCTTCCGCGGCATTACCACTCGgccgcgc                                                                 >  1:289755/1‑141 (MQ=255)                                                                          tGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGACATTAACAATCGGCCGCCCGa                                                               >  1:448462/1‑143 (MQ=255)                                                                                 tttGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACt                                                        >  1:134054/1‑143 (MQ=255)                                                                                  ttGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTg                                                       <  1:548170/143‑1 (MQ=255)                                                                                    gCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGga                                                     <  1:501898/143‑1 (MQ=255)                                                                                      ttCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTCACAATCGTCCGCCCGACAGTACTGaaga                                                   >  1:548924/1‑143 (MQ=255)                                                                                      tgcactTCTCGGGTATTTTGCTGCAAAACCAGACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGgaga                                                   <  2:600004/141‑1 (MQ=255)                                                                                       tCACATCCTGTGCATTATCCTGCAATACCATACCCTTGCGATAAGTACGGCATTTATATTCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTAAGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGAt                                                  <  2:363384/143‑1 (MQ=255)                                                                                          caTCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGaa                                               <  2:4931/143‑1 (MQ=255)                                                                                           aTCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGGCAATACGGGAGATGTat                                              >  1:143742/1‑143 (MQ=255)                                                                                                        tCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATATAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGCGGAATAAGAGCACTAccc                                 >  2:585456/1‑143 (MQ=255)                                                                                                           tGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTCTACCCTGc                              >  2:511746/1‑143 (MQ=255)                                                                                                           tGCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGc                              >  1:124688/1‑143 (MQ=255)                                                                                                            gCAAAACCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGcc                             >  1:52808/1‑143 (MQ=255)                                                                                                              aaaaCCATACCCTTACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGCCAt                           <  1:444897/143‑1 (MQ=255)                                                                                                                    ctccccTTACGAAAGGTACCGCATTTCTAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACGGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGCCATCCCTGc                     <  2:194720/140‑1 (MQ=255)                                                                                                                     tACCCTTCCGAAAAGTACGGCATTTATAAGCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGGTGAATATGAGCTATACCCTGCCATCCCTGcc                    <  2:541394/143‑1 (MQ=255)                                                                                                                           tACGAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGAGGAATATGAGCTATACCCTGCCATCCCTGCCGTATGc              >  2:193865/1‑143 (MQ=255)                                                                                                                              gAAAAGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGCCATCCCTGCCGTATGCttc           >  2:394472/1‑142 (MQ=255)                                                                                                                               aaaaGTACGGCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGCCCTCCCTGCCGTATGCTTAc          >  2:147999/1‑143 (MQ=255)                                                                                                                                       ggCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATa                                                          >  1:660362/1‑87 (MQ=255)                                                                                                                                       ggCATTTATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATa                                                          <  2:660362/87‑1 (MQ=255)                                                                                                                                       ggCATTTATAATCATTTTCAATATCATTGAATTAGCTATAATGAACCAACTGCTTACGCGGCATGTTCATTGTTCCGCCCGACAATACTGGAGATCAAGATGAGCTAAACCCAGCCACCCATAGCGTATGCTTACGACGcccg  >  2:498967/1‑142 (MQ=255)                                                                                                                                             |                                                                                                                                         TAAAAATCGTGCTGTCGATTAACCTTTCGCCTGTTGCCGCCGTTGTCGATTTACTGGCAATCACGGCATTAAGTGGGTGATTTGCTTCACATCTCGGGCATTTTCCTGCAAAACCATACCCTTACGAAAAGTACGGCATTGATAATCATTTTCAATATCATTTAATTAACTATAATGAACCAACTGCTTACGCGGCATTAACAATCGGCCGCCCGACAATACTGGAGATGAATATGAGCTATACCCTGCCATCCCTGCCGTATGCTTACGATGCCCT  >  NC_000913/4100577‑4100853

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: ‑