Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,200,293	C→T	Q5* (CAA→TAA)	hupA →	HU, DNA‑binding transcriptional regulator, alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,200,293	0	C	T	100.0%	152.9 / NA	47	Q5* (CAA→TAA)	hupA	HU, DNA‑binding transcriptional regulator, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (25/22);  total (25/22)

CATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTCAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGATGCTGTACAACTGGTTGGTTTCGGTAC  >  NC_000913/4200166‑4200426                                                                                                                                |                                                                                                                                      cATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACtgattgat                                                                                                                            >  2:752764/1‑139 (MQ=255)    ttGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTa                                                                                                                         >  2:532439/1‑139 (MQ=255)      ggggggCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTaa                                                                                                                                     <  2:858803/125‑1 (MQ=255)      ggggggCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTaa                                                                                                                                     >  1:858803/1‑125 (MQ=255)       gggggCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAAtt                                                                                                                      >  1:306894/1‑139 (MQ=255)       gggggCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAAtt                                                                                                                      >  2:460554/1‑139 (MQ=255)           gCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCag                                                                                                                  >  1:725041/1‑139 (MQ=255)                 aaaaGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAg                                                                                                            <  1:460554/139‑1 (MQ=255)                      tGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGaa                                                                                                       <  2:306894/139‑1 (MQ=255)                                  cGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAAcc                                                                                           <  1:532439/139‑1 (MQ=255)                                       aTGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACtgatt                                                                                                                               >  2:542265/1‑98 (MQ=255)                                       aTGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACtgatt                                                                                                                               <  1:542265/98‑1 (MQ=255)                                                  tGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCaga                                                                                                                 <  2:952402/101‑1 (MQ=255)                                                  tGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCaga                                                                                                                 >  1:952402/1‑101 (MQ=255)                                                  tGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAg                                                                                 >  1:507807/1‑133 (MQ=255)                                                  tGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAg                                                                                 <  2:507807/133‑1 (MQ=255)                                                   gCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGctct                                                                          <  1:752764/139‑1 (MQ=255)                                                    cTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTg                                                                         >  2:561474/1‑139 (MQ=255)                                                                  ccGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGc                                                           <  1:561474/139‑1 (MQ=255)                                                                              aTGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTg                                                             >  1:1382074/1‑125 (MQ=255)                                                                              aTGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTg                                                             <  2:1382074/125‑1 (MQ=255)                                                                                   tAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGc                                                           >  1:320788/1‑122 (MQ=255)                                                                                   tAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGc                                                           <  2:320788/122‑1 (MQ=255)                                                                                       aaGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACt                                                 >  1:388898/1‑128 (MQ=255)                                                                                       aaGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACt                                                 <  2:388898/128‑1 (MQ=255)                                                                                         gCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACtgat                                                                                                                                >  2:1111445/1‑47 (MQ=255)                                                                                         gCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACtgat                                                                                                                                <  1:1111445/47‑1 (MQ=255)                                                                                         gCGATAAACACATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAaag                                    >  2:788644/1‑139 (MQ=255)                                                                                                acacATTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGa                             <  2:725041/139‑1 (MQ=255)                                                                                                    aTTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAgg                                <  2:254060/132‑1 (MQ=255)                                                                                                    aTTGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAgg                                >  1:254060/1‑132 (MQ=255)                                                                                                      tGTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGATGCTGt                       >  1:440972/1‑139 (MQ=255)                                                                                                       gTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGa                             >  1:794227/1‑132 (MQ=255)                                                                                                       gTAAGGATAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGa                             <  2:794227/132‑1 (MQ=255)                                                                                                              tAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAAcc                                                                                           <  1:943827/63‑1 (MQ=255)                                                                                                              tAACTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAAcc                                                                                           >  2:943827/1‑63 (MQ=255)                                                                                                                aCTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAAcc                                                                                           <  1:1122304/61‑1 (MQ=255)                                                                                                                aCTTATGAACAAGACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAAcc                                                                                           >  2:1122304/1‑61 (MQ=255)                                                                                                                           aGACTTAACTGATTGATATAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGCCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGATGCTGTACAACTGGTTGGTTTCGGTAc  >  2:863300/1‑139 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAgct                                                                               <  2:273567/61‑1 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAgct                                                                               >  1:273567/1‑61 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTg                                                             >  1:402921/1‑79 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTg                                                             <  2:402921/79‑1 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACt                                                 >  1:1337621/1‑91 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACt                                                 <  2:1337621/91‑1 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGtct                                           <  1:156952/97‑1 (MQ=255)                                                                                                                            gACTTAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGtct                                           >  2:156952/1‑97 (MQ=255)                                                                                                                                |                                                                                                                                      CATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTGCTATTCTGGCATTTCCGTCGCACTCGATGCTTAGCAAGCGATAAACACATTGTAAGGATAACTTATGAACAAGACTCAACTGATTGATGTAATTGCAGAGAAAGCAGAACTGTCCAAAACCCAGGCTAAAGCTGCTCTGGAGTCCACTCTGGCTGCAATTACTGAGTCTCTGAAAGAAGGCGATGCTGTACAACTGGTTGGTTTCGGTAC  >  NC_000913/4200166‑4200426

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑