Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	2,414,448	A→C	Y48D (TAT→GAT)	SAUSA300_RS12410 ←	AraC family transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	2,414,448	0	A	C	100.0%	134.4 / NA	47	Y48D (TAT→GAT)	SAUSA300_RS12410	AraC family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (3/44);  total (3/44)

TTGCACTTACTTCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATAATTTCTTTTTAGATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAACCAATATATAATTTTTAAGTTCGCTTCCTTCACAC  >  NC_007793/2414364‑2414540                                                                                     |                                                                                             ttGCACTTACTTCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATc                                                                               >  1:3710488/1‑100 (MQ=255)   gCACTTACTTCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTAcatcat                                                                             >  1:5529729/1‑100 (MQ=255)   gCACTTACTTCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTAcatcat                                                                             <  1:4282702/100‑1 (MQ=255)   gCACTTACTTCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTAcatcat                                                                             <  1:2590528/100‑1 (MQ=255)           ttCAACAACACAACATACACTATCATCATTTCCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATtgttgt                                                                     <  1:5371645/100‑1 (MQ=255)           ttCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATtgttgt                                                                     <  1:3882653/100‑1 (MQ=255)           ttCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATtgttgt                                                                     <  1:4379105/100‑1 (MQ=255)                                 tcatcaTTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGGAACTACACCTg                                               <  1:2338302/100‑1 (MQ=255)                                 tcatcaTTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTg                                               <  1:1623528/100‑1 (MQ=255)                                  catcatTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGt                                              <  1:1425161/100‑1 (MQ=255)                                   atcatTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCAGATTGTTGTAGATTGATTGAAACTGCACCTgca                                             <  1:3398995/100‑3 (MQ=255)                                     catTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTAcc                                           <  1:4855806/100‑1 (MQ=255)                                     catTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTAcc                                           <  1:5363538/100‑1 (MQ=255)                                       ttACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCtt                                         <  1:4386753/100‑1 (MQ=255)                                       ttACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCtt                                         <  1:2501608/100‑1 (MQ=255)                                       ttACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCtt                                         <  1:5333353/100‑1 (MQ=255)                                        tACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTg                                        <  1:4210488/100‑1 (MQ=255)                                         aCCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTgg                                       <  1:4967851/100‑2 (MQ=255)                                         aCCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGt                                       <  1:3438726/100‑1 (MQ=255)                                         aCCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGt                                       <  1:2481596/100‑1 (MQ=255)                                         aCCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGt                                       <  1:2828002/100‑1 (MQ=255)                                         aCCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACAGCATATTGGTGTAGATTGATTGAAACTACACCTGTACCTTGt                                       <  1:662547/100‑1 (MQ=255)                                             tCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGcc                                   <  1:1069136/100‑1 (MQ=255)                                             tCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGcc                                   <  1:5374188/100‑1 (MQ=255)                                             tCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGcc                                   <  1:4740553/100‑1 (MQ=255)                                             tCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGcc                                   <  1:2328759/100‑1 (MQ=255)                                             tCAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGcc                                   <  1:5736152/100‑1 (MQ=255)                                              taaTTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:3376842/99‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGcct                                  <  1:5538488/100‑2 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:4029809/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:3084664/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:3523300/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:1947719/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:511965/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:5351802/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:154346/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:139375/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCa                                  <  1:3390032/100‑1 (MQ=255)                                              cAATTTGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGGAGCCa                                  <  1:2714415/100‑1 (MQ=255)                                                 tttGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCaaga                               <  1:5777027/100‑3 (MQ=255)                                                 tttGATACAAATCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCActa                               <  1:4264881/100‑1 (MQ=255)                                                            tCATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCAATATATAATTTTTa                    <  1:937957/100‑1 (MQ=255)                                                             cATTCAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCAATATATAATTTTTaa                   <  1:1180675/100‑1 (MQ=255)                                                                 cAACATAATAATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCAATATATAATTCTCAAGATc               >  1:1653846/1‑100 (MQ=255)                                                                     ataataATGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCAATATATAATTTTTAAGTTCGctt           <  1:1718382/100‑1 (MQ=255)                                                                         taatGGTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAGCCAATATATAATTTTTAAGTTCGcttcctg       <  1:3473139/100‑2 (MQ=255)                                                                              gTGACATCATTTCTTTTTACATCATATTGTTGTAGATTGATTGAAACTACGCCTGTACCTTGTAGCCAATATATAATTTTTAAGTTCGCTTCCTTCacac  <  1:2690505/100‑1 (MQ=255)                                                                                     |                                                                                             TTGCACTTACTTCAACAACACAACATACACTATCATCATTACCATCAATTTGATACAAATCATTCAACATAATAATGGTGACATAATTTCTTTTTAGATCATATTGTTGTAGATTGATTGAAACTACACCTGTACCTTGTAACCAATATATAATTTTTAAGTTCGCTTCCTTCACAC  >  NC_007793/2414364‑2414540

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑