Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,343,438	C→T	intergenic (+114/+250)	USA300HOU_RS11955 → / ← aldC_1	65 kDa membrane protein/Alpha‑acetolactate decarboxylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,343,438	0	C	T	100.0%	108.0 / NA	36	intergenic (+114/+250)	USA300HOU_RS11955/aldC_1	65 kDa membrane protein/Alpha‑acetolactate decarboxylase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (20/16);  total (20/16)

AATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATACAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATTTATTTTATTACTTAGAC  >  USA300TCH1516_ALE/2343309‑2343568                                                                                                                                  |                                                                                                                                   aaTTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAg                                                                                                                               <  1:113896/135‑1 (MQ=255)      tAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAAt                                                                                                                          >  2:58189/1‑135 (MQ=255)            aatcataatTTGAAAATAGTTTTATAGGGGAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTtata                                                                                                                    <  2:159769/135‑1 (MQ=255)                       gAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTAc                                                                                                         >  2:400620/1‑135 (MQ=255)                                  tataGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTtata                                                                                              >  2:542090/1‑135 (MQ=255)                                     aGGGCAAGCGCTGAAAAATTGGCGATTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATc                                                                                           >  1:539731/1‑135 (MQ=255)                                           aGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACa                                                                                     <  2:352461/135‑1 (MQ=255)                                            gcgcTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATAGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACAt                                                                                    >  2:363874/1‑135 (MQ=255)                                                  aaaaaTTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGc                                                                              >  2:452111/1‑135 (MQ=255)                                                      aTTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATCTTAGTGAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAAt                                                                          >  1:452534/1‑135 (MQ=255)                                                      aTTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAAt                                                                          >  2:471450/1‑135 (MQ=255)                                                      aTTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAAt                                                                          >  2:283403/1‑135 (MQ=255)                                                           tgTTGGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCaa                                                                     <  1:280495/134‑1 (MQ=255)                                                            gTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATTTAAACATAACAGCAAATCTCaaa                                                                    <  1:371713/135‑1 (MQ=255)                                                                         gTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATCATCTAAAAATAACAGCAAATCTCAAATTTCTTGAACCta                                                       <  2:30925/135‑1 (MQ=255)                                                                         gTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCta                                                       <  2:153033/135‑1 (MQ=255)                                                                         gTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCta                                                       <  2:652399/135‑1 (MQ=255)                                                                          ttATTGAACTTGTAAATTCTTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATCTAATAGTAAAATTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTGAAACATCTGaaaacgaa                                                      >  2:427587/1‑130 (MQ=255)                                                                               gAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAAt                                                 >  2:555110/1‑135 (MQ=255)                                                                               gAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAAt                                                 >  1:362377/1‑135 (MQ=255)                                                                               gAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAAt                                                 >  1:597737/1‑135 (MQ=255)                                                                                 aCTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATcc                                               >  1:160553/1‑135 (MQ=255)                                                                                  cTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAAGccc                                              <  1:58189/135‑1 (MQ=255)                                                                                  cTTGTAAATTATTGTTGGTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATccc                                              <  2:613213/135‑1 (MQ=255)                                                                                   ttGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATcccc                                             >  2:404136/1‑135 (MQ=255)                                                                                        aaTTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTAAAATATCTGGAACCTAATAAATCCCCTCact                                        >  2:369859/1‑135 (MQ=255)                                                                                              tgttgtTTGCTTCTCGTAGTAACAGAGTGGCCTATATAATAGTAAATTTTATAGGAGGGTGTACCACCATTTATAATCTAAACATAACAGCAAATCGCAAATATCTGGACCCTAATAAATCCCCTCACCactact                                  >  2:91473/1‑135 (MQ=255)                                                                                                    ttGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAGTTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGt                            <  1:400620/135‑1 (MQ=255)                                                                                                      gCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATTACAGCAAATCTTAAATATCTGGAATCTAATAAATTCCCTCACTACTGCTAATAGTGa                          <  1:63697/135‑1 (MQ=255)                                                                                                           tcGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCTCTTCTGCTAATAGTGAAGGGa                     <  1:542090/135‑1 (MQ=255)                                                                                                               agtaACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGattta                 <  1:446425/135‑1 (MQ=255)                                                                                                                gtaACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCCCACTACTGCTAATAGTGAAGGGatttat                <  2:15238/135‑1 (MQ=255)                                                                                                                     aGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACAACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATATGGAAGGGAtttattttat           >  2:382668/1‑135 (MQ=255)                                                                                                                       aTTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTAATGCTACTAGAGAAGGGCgttattttatca         >  2:619331/1‑133 (MQ=255)                                                                                                                          ggCCTATATAATAGTAAATTTTATATGAGTGTGTACAAAAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTCCTAATAGTGAAGGGAATTATTTTATTACtt      >  1:211979/1‑135 (MQ=255)                                                                                                                           gCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTTGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATTTATTTTATTACCTa     <  1:363874/135‑1 (MQ=255)                                                                                                                              tatataATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAATTCCCCTCACTATTGCTAATAATGAAGGGATTTATTTTATTACCTAGAc  <  1:665595/135‑1 (MQ=255)                                                                                                                                  |                                                                                                                                   AATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATACAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATTTATTTTATTACTTAGAC  >  USA300TCH1516_ALE/2343309‑2343568

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: ‑