Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	1,338,438	T→A	F52I (TTT→ATT)	SAUSA300_RS06615 →	DNA‑binding response regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	1,338,438	0	T	A	100.0%	141.4 / NA	53	F52I (TTT→ATT)	SAUSA300_RS06615	DNA‑binding response regulator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (50/3);  total (50/3)

AAACTACATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTTTTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCATTTGAATATTAAAGTGATTATTGTA  >  NC_007793/1338348‑1338527                                                                                           |                                                                                          caaCTACATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGata                                                                                  >  1:2918535/2‑100 (MQ=255)  aaCTACATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGatat                                                                                 >  1:4780617/1‑100 (MQ=255)    ccaCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAg                                                                               >  1:140629/3‑100 (MQ=255)    cTACATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAg                                                                               >  1:44578/1‑100 (MQ=255)     gaCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGa                                                                              >  1:6095714/2‑100 (MQ=255)      ccATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:1244852/2‑100 (MQ=255)      agaTGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:6134368/3‑100 (MQ=255)      aCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:1006289/1‑100 (MQ=255)      aCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:3271384/1‑100 (MQ=255)      aCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:3189496/1‑100 (MQ=255)      aCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:3148587/1‑100 (MQ=255)      aCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:2620657/1‑100 (MQ=255)      aCATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAACGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaa                                                                             >  1:4693669/1‑100 (MQ=255)       cATGGTGCTTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGaaa                                                                            >  1:4515851/1‑100 (MQ=255)        aTGGTGCTTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAAt                                                                           >  1:3136491/1‑100 (MQ=255)         tGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATg                                                                          >  1:885582/1‑100 (MQ=255)          ggTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGc                                                                         >  1:1225565/1‑100 (MQ=255)           gTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGcc                                                                        <  1:142109/100‑1 (MQ=255)                        tttAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGa                                                           >  1:5737109/1‑100 (MQ=255)                         atggCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGAc                                                          >  1:1987362/4‑100 (MQ=255)                          tAGCAGATACTGATAATGATCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACt                                                         >  1:5013563/1‑100 (MQ=255)                            gCAGATACTGATAATGGTCTCGATGCAGTGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTg                                                       >  1:1154600/1‑100 (MQ=255)                               gATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAg                                                    >  1:3652330/1‑100 (MQ=255)                               gATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAg                                                    >  1:4065777/1‑100 (MQ=255)                                aTACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATAACTGGACTTGAAGt                                                   >  1:4989823/1‑100 (MQ=255)                                 tACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGCCTGGACTTGAAGtt                                                  >  1:4968457/1‑100 (MQ=255)                                  gcTGATAATGGTCTCGATGCAATGAAACTTACTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGttt                                                 >  1:3293827/2‑100 (MQ=255)                                    tGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTa                                               >  1:1607820/1‑100 (MQ=255)                                     gATAATGGTCTCGATGCAATGAAACTTATTGAAGTATATAATCCTAACGGTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGttttgt                                              >  1:4652013/1‑98 (MQ=255)                                     gATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAg                                              >  1:5324424/1‑100 (MQ=255)                                     gATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAg                                              >  1:3133339/1‑100 (MQ=255)                                     gATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGAACTTGAAGTTTTAg                                              >  1:4996457/1‑100 (MQ=255)                                     gATAATGGTCTCGATGCAATGAAACCTATTGAAGAATATAATCCTAACGTTGTTATTTTAGTTATAGAAATGCCAGGCATGACTGGACTTGAAGtttcgg                                              >  1:3950316/1‑97 (MQ=255)                                        aaTGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCgg                                           >  1:118170/1‑100 (MQ=255)                                        aaTGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCgg                                           >  1:840317/1‑100 (MQ=255)                                        aaTGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCgg                                           >  1:4574379/1‑100 (MQ=255)                                        aaTGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCgg                                           >  1:4328423/1‑100 (MQ=255)                                           ggTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGaag                                        >  1:690726/1‑99 (MQ=255)                                           ggTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGaaa                                        <  1:1995514/100‑1 (MQ=255)                                              ctcGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGaaagat                                     >  1:1509951/1‑97 (MQ=255)                                              ctcGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTa                                     >  1:6609737/1‑100 (MQ=255)                                                cGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGATTTGAAGTTTTAGCGGAAATTAGa                                   >  1:4400800/1‑100 (MQ=255)                                                cGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGa                                   >  1:3788465/1‑100 (MQ=255)                                                cGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGa                                   >  1:5020727/1‑100 (MQ=255)                                                cGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGa                                   >  1:5176688/1‑100 (MQ=255)                                                cGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGACATGACTGGACTTGAAGTTTTAGCGGaaagatcg                                   >  1:3991826/1‑95 (MQ=255)                                                cGATGCAATGAAACTTATTGAAGAATATAAACCTAACGTTGTTATTTTAGATATAGAACTGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGa                                   >  1:4332515/1‑100 (MQ=255)                                                    gCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGaagatcggaaga                               >  1:2527022/1‑90 (MQ=255)                                                         gAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCAt                          >  1:3757753/1‑100 (MQ=255)                                                         gAAACTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCAt                          >  1:282686/1‑100 (MQ=255)                                                            aCTTATTGAAGAATATAATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCATTTg                       <  1:26534/100‑1 (MQ=255)                                                                          ataATCCTAACGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCATTTGAATATTAAAGTGat         >  1:656166/1‑100 (MQ=255)                                                                                 caaCGTTGTTATTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCATTTGAATATTAAAGTGATTATTGTa  >  1:2539600/2‑100 (MQ=255)                                                                                           |                                                                                          AAACTACATGGTGATTTTGAAATTTTAGCAGATACTGATAATGGTCTCGATGCAATGAAACTTATTGAAGAATATAATCCTAACGTTGTTTTTTTAGATATAGAAATGCCAGGCATGACTGGACTTGAAGTTTTAGCGGAAATTAGAAAAAAGCATTTGAATATTAAAGTGATTATTGTA  >  NC_007793/1338348‑1338527

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑