Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	2,274,965	G→C	E106D (GAG→GAC)	mtlR →	Transcriptional regulator MtlR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,274,965	0	G	C	100.0%	162.3 / NA	42	E106D (GAG→GAC)	mtlR	Transcriptional regulator MtlR
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (25/17);  total (25/17)

ACGCGCAAACAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGAGCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACTTGGTAGGTAC  >  USA300TCH1516_ALE/2274818‑2275111                                                                                                                                                    |                                                                                                                                                   aCGCGCAAACAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCa                                                                                                                                                 >  2:173321/1‑151 (MQ=255)  cgcgCAAACAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAg                                                                                                                                                >  2:214908/1‑151 (MQ=255)   gcgcAAACAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGt                                                                                                                                               <  1:76540/151‑1 (MQ=255)   gcgcAAACAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGt                                                                                                                                               <  1:35429/151‑1 (MQ=255)   aagcAAAAAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGt                                                                                                                                               <  1:223422/149‑1 (MQ=255)          caaaAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACaa                                                                                                                                        >  1:217554/1‑151 (MQ=255)                      aCGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAgcg                                                                                                                            >  1:49740/1‑151 (MQ=255)                       cGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAgcgc                                                                                                                           <  1:272249/151‑1 (MQ=255)                              cTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAAt                                                                                                                    <  2:290807/151‑1 (MQ=255)                                       aTTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTc                                                                                                           <  1:228114/151‑1 (MQ=255)                                                tAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGAc                                                                                                  <  1:451569/151‑1 (MQ=255)                                                tAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGAc                                                                                                  >  1:386519/1‑151 (MQ=255)                                                 aaaCGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACt                                                                                                 >  1:212947/1‑151 (MQ=255)                                                 aaaCGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACt                                                                                                 >  1:439462/1‑151 (MQ=255)                                                  aaCGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACtt                                                                                                <  1:310284/151‑1 (MQ=255)                                                          gAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAg                                                                                        <  2:123989/151‑1 (MQ=255)                                                                                    ccATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGAttt                                                              <  1:153224/151‑1 (MQ=255)                                                                                           cTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAg                                                       <  2:217554/151‑1 (MQ=255)                                                                                              aTCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTAc                                                    <  1:235282/151‑1 (MQ=255)                                                                                                cTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATGTAAATAAGTACCa                                                  >  1:329337/1‑151 (MQ=255)                                                                                                   ttGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACt                                               <  1:214908/151‑1 (MQ=255)                                                                                                       agagCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCt                                           >  1:255760/1‑151 (MQ=255)                                                                                                                           tataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGa                       >  1:303516/1‑151 (MQ=255)                                                                                                                           tataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGa                       >  2:353365/1‑151 (MQ=255)                                                                                                                           tataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTCAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGa                       >  1:316236/1‑151 (MQ=255)                                                                                                                            ataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGaa                      >  1:118736/1‑151 (MQ=255)                                                                                                                            ataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGaa                      >  2:459473/1‑151 (MQ=255)                                                                                                                            ataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGaa                      >  1:178335/1‑151 (MQ=255)                                                                                                                            ataCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGaa                      >  1:111741/1‑151 (MQ=255)                                                                                                                             taCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAg                     >  2:173385/1‑151 (MQ=255)                                                                                                                              aCGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAgg                    >  2:222738/1‑151 (MQ=255)                                                                                                                               cGCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGc                   >  1:80758/1‑151 (MQ=255)                                                                                                                                gCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCACCTATCTTTATCTCGAAAGCGTGGCGAAGGCa                  <  2:71877/151‑1 (MQ=255)                                                                                                                                gCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCa                  <  2:434446/151‑1 (MQ=255)                                                                                                                                gCTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCa                  <  2:79140/151‑1 (MQ=255)                                                                                                                                 ntttGATACAAGCCAAGGACCCAGTTAAACAATACAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACGTTAGCAAAGATGTTAGATGATTTAGAGCTGGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCaa                 >  2:390030/2‑150 (MQ=255)                                                                                                                                 cTTTGATACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCAt                 <  2:457406/151‑1 (MQ=255)                                                                                                                                      aTACAAGCCAAGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACt            >  2:76501/1‑151 (MQ=255)                                                                                                                                                aGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACTTGGTAGGTAc  >  2:124005/1‑151 (MQ=255)                                                                                                                                                aGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACTTGGTAGGTAc  >  1:66120/1‑151 (MQ=255)                                                                                                                                                aGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACTTGGTAGGTAc  >  2:219679/1‑151 (MQ=255)                                                                                                                                                aGGACCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACTTGGTAGGTAc  >  1:424076/1‑151 (MQ=255)                                                                                                                                                    |                                                                                                                                                   ACGCGCAAACAAAAAAGGGCTACGCATTGCTGGCACAGATTCTGATTTAAACGATTTGAAGCAATCGATTGCACAACATCAAACCATTGACTTATCTGTTGAAGAGCAGAAAGTAATTATTATATACGCTTTGATACAAGCCAAGGAGCCAGTTAAACAATATAGTTTAGCGCAAGAAATTGGCGTTTCTGTCCAGACTTTAGCAAAGATGTTAGATGATTTAGAGCTTGATTTAAATAAGTACCAACTATCTTTATCTCGAAAGCGTGGCGAAGGCATTTACTTGGTAGGTAC  >  USA300TCH1516_ALE/2274818‑2275111

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑