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%	95.4 / NA	29	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 (11/18);  total (11/18)

ACAATCAAACAGATACAAATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATACAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATTTATTTTATTACT  >  USA300TCH1516_ALE/2343292‑2343563                                                                                                                                                   |                                                                                                                              aCAATCAAACAGATACAAAGTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATaa                                                                                                                             >  2:177518/1‑149 (MQ=255)       aaaCAGATACAAATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTaa                                                                                                                       <  2:272297/149‑1 (MQ=255)               aCAAATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTtata                                                                                                               >  1:187745/1‑149 (MQ=255)               aCAAATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTtata                                                                                                               >  1:187781/1‑149 (MQ=255)               aCAAATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTtata                                                                                                               >  2:191516/1‑149 (MQ=255)                cAAATTGTAGGTAAATAATAATTTGAAAATAGTTGTATAGGGCAAGCGCTGGAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTatat                                                                                                              <  1:22775/149‑1 (MQ=255)                    ttGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAgt                                                                                                          >  1:213486/1‑149 (MQ=255)                             aataataatTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACcac                                                                                                 <  1:55018/149‑1 (MQ=255)                                aataatTTGAAAAGAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTATTTAGTTATTGCAGTTGTAAATTATTTTTGTGTGCGTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAAt                                                                                              <  1:26390/149‑1 (MQ=255)                                       tGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAAt                                                                                       <  2:191498/149‑1 (MQ=255)                                           aaTAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTaa                                                                                   <  2:3453/149‑1 (MQ=255)                                                        ggCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTTTTGAACTTGTAAATTATTGTTGTTTGCTTCGCGTAGGATCATATTGGCCTATATATTAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCaaa                                                                      >  1:265082/1‑149 (MQ=255)                                                        ggCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCaaa                                                                      >  1:167612/1‑149 (MQ=255)                                                              cgcTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCaa                                                                >  2:59996/1‑149 (MQ=255)                                                                        ttGGCGCTGGTCCTTTTAGATATTGAACTTGTAGAGTATTGTTGTGTGCTTCTCGTAGTAACAGATACGCCTATATAATAGTAAAAATTATATGGGTGTGTACCACAATTTATAGTCTAAACATAACAGCAAAGCTCAAATATCTGGaa                                                      <  2:227381/149‑1 (MQ=255)                                                                          ggCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAAcc                                                    <  2:187745/149‑1 (MQ=255)                                                                          ggCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAAcc                                                    <  2:187781/149‑1 (MQ=255)                                                                          ggCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAAcc                                                    <  1:191516/149‑1 (MQ=255)                                                                                  tCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAAt                                            <  1:243796/149‑1 (MQ=255)                                                                                               tGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACCTAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTg                               <  2:222702/149‑1 (MQ=255)                                                                                               tGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTg                               <  1:214377/149‑1 (MQ=255)                                                                                               tGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTg                               <  2:40670/149‑1 (MQ=255)                                                                                                  aCTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTa                            <  2:147189/149‑1 (MQ=255)                                                                                                            tattGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAgg                  >  2:43414/1‑149 (MQ=255)                                                                                                              ttgttgTTTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGa                <  2:84496/149‑1 (MQ=255)                                                                                                                  tgttTGCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGattta            >  1:28645/1‑149 (MQ=255)                                                                                                                       gCTTCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGAtttatttta       >  1:102793/1‑149 (MQ=255)                                                                                                                         ttCTCGTAGTAACAGATTGGCCTATATAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATttattttatt     <  2:65016/149‑1 (MQ=255)                                                                                                                            tcatagtaACAGATTTGCCTATATAATAGTAACTTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCCAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATTTATTTTATTACt  <  2:38110/146‑1 (MQ=255)                                                                                                                                                   |                                                                                                                              ACAATCAAACAGATACAAATTGTAGTTAAATAATAATTTGAAAATAGTTTTATAGGGCAAGCGCTGAAAAATTGGCGTTTGTCTTTTTAGTTATTGAACTTGTAAATTATTGTTGTTTGCTTCTCGTAGTAACAGATTGGCCTATACAATAGTAAATTTTATATGAGTGTGTACCACAATTTATAATCTAAACATAACAGCAAATCTCAAATATCTGGAACCTAATAAATCCCCTCACTACTGCTAATAGTGAAGGGATTTATTTTATTACT  >  USA300TCH1516_ALE/2343292‑2343563

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑