Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,963,768	C→G	V365L (GTA→CTA)	hemY ←	Protoporphyrinogen oxidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,963,768	0	C	G	100.0%	102.6 / NA	31	V365L (GTA→CTA)	hemY	Protoporphyrinogen oxidase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base G (15/16);  total (15/16)

TTCGGCAAACGATTGACAATTGTAAATTCAGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTACATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACCATCATGGGTATTTTCAATGTC  >  USA300TCH1516_ALE/1963635‑1963903                                                                                                                                      |                                                                                                                                        ttCGGCAAACGATTGACAAGTGTAACTTCAGGACCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACTATTGATACTAATTCATTATCTGTATGATCATCAACCACTGTATCACCTGGTTCACCTAGATACGCa                                                                                                                                  <  1:181160/141‑1 (MQ=255)  tCGGCAAACGATTGACAATTGTAAATTCAGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTTTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCAc                                                                                                                                 <  1:463723/141‑1 (MQ=255)                 cAATTGTAAATTCAGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAaccttac                                                                                                                  >  1:44199/1‑141 (MQ=255)                     tGTAAATTCAGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTc                                                                                                              <  1:24087/141‑1 (MQ=255)                             cAGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGACACGCACGAATCAAAACCTTACCTTCCGGTgtag                                                                                                      <  1:445883/141‑1 (MQ=255)                              aGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTgtagt                                                                                                     >  1:476686/1‑141 (MQ=255)                                 aTCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCGAAACCTTACTTTCCGGTGTAGTaaa                                                                                                  <  1:251177/141‑1 (MQ=255)                                     ccTTTAAATGTCATCACTTCACTTAAATCTCTACGTACAATCGATACTAATTCATGATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGc                                                                                              <  1:201486/141‑1 (MQ=255)                                      cTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTATTTCATTATTTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGAACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGcc                                                                                             <  1:30098/141‑1 (MQ=255)                                      cTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGcc                                                                                             <  1:213431/141‑1 (MQ=255)                                      cTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGcc                                                                                             <  1:277165/141‑1 (MQ=255)                                             tGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCAtttttt                                                                                      >  1:269341/1‑141 (MQ=255)                                               tcatcaTTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCg                                                                                    <  1:421034/141‑1 (MQ=255)                                                catcatTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTGGa                                                                                   >  1:387015/1‑141 (MQ=255)                                                       tGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCaa                                                                            >  1:175813/1‑141 (MQ=255)                                                           ttAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTAc                                                                        <  1:7482/141‑1 (MQ=255)                                                                 ctctACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCgg                                                                  >  1:245987/1‑141 (MQ=255)                                                                  tctACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAACCCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGt                                                                 <  1:476142/141‑1 (MQ=255)                                                                      cGTACAATCGATACTTATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTGCCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGAGATCCAAGTACATGCGGTAATg                                                             >  1:370368/1‑141 (MQ=255)                                                                       gTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGt                                                            >  1:427256/1‑141 (MQ=255)                                                                         aCAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCt                                                          >  1:2470/1‑141 (MQ=255)                                                                            aTCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTa                                                       >  1:72109/1‑141 (MQ=255)                                                                                aTACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTCCATGCGGTAATTTCTGTATCAc                                                   >  1:486200/1‑141 (MQ=255)                                                                                 tattAATCCATTATCTGTATGATCATCAACCACAGCATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACt                                                  <  1:177466/138‑1 (MQ=255)                                                                                        tCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCGGTATCACTCGTtctc                                           >  1:164240/1‑141 (MQ=255)                                                                                                              ccACAGTATCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACcat                     >  1:61454/1‑141 (MQ=255)                                                                                                                acaGTATCCCCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACcatca                   <  1:108988/141‑1 (MQ=255)                                                                                                                acaGTATCACCTTGTTTACCTAGATACTCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACcatca                   <  1:484893/141‑1 (MQ=255)                                                                                                                      tCACCTGGTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACCATCATGGGTa             >  1:74694/1‑141 (MQ=255)                                                                                                                             gTTTACCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACCATCATGGGTATTTTCaa      <  1:495784/141‑1 (MQ=255)                                                                                                                                 aCCTAGATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACCATCATGGGTATTTTCAATGTc  >  1:271923/1‑141 (MQ=255)                                                                                                                                      |                                                                                                                                        TTCGGCAAACGATTGACAATTGTAAATTCAGGATCACCTTTAAATGTCATCATTTGACTTAAATCTCTACGTACAATCGATACTAATTCATTATCTGTATGATCATCAACCACAGTATCACCTGGTTTACCTACATACGCACGAATCAAAACCTTACCTTCCGGTGTAGTAAATGGCCATTTTTTCGATGTCCAAGTACATGCGGTAATGTCTGTATCACTCGTTCTCGCAATTACGAAGCCAGTACCATCATGGGTATTTTCAATGTC  >  USA300TCH1516_ALE/1963635‑1963903

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: ‑