Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,679,650	G→A	C45Y (TGT→TAT)	cbpD →	possible secretory antigen

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,679,650	0	G	A	100.0%	92.1 / NA	29	C45Y (TGT→TAT)	cbpD	possible secretory antigen
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (14/15);  total (14/15)

AAATGGAATATAAAAAGATACTAATTCGTTTATTAATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATT  >  CP000730/2679515‑2679779                                                                                                                                        |                                                                                                                                  aaaTGGAATATAAAAAGATACTAATTCGTTTATTAATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACAt                                                                                                                              <  1:311962/141‑1 (MQ=255)    tGGAATATAAAAAGATACTAATTCGTTTATTAATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCAGCAGTTAATTATTATAGTAAAAACCAATATACAtggt                                                                                                                           >  2:184854/1‑141 (MQ=255)       aaTATAAAAAGATACTAATTCGTTTATTAATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTggg                                                                                                                        <  2:282585/141‑1 (MQ=255)          ataAAAAGATACTAATTCGTTTATTAATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCAt                                                                                                                     >  2:89329/1‑141 (MQ=255)                               tattaATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCAC‑TATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCgg                                                                                               <  2:16224/141‑1 (MQ=255)                                 ttaATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATGAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGt                                                                                              >  2:181676/1‑141 (MQ=255)                                      tGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAAACCGTCGACCAAACGCTGCCCTGATATTGCGGGGTTTAGTAGTATATTTGAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAAcc                                                                                         >  1:80488/1‑141 (MQ=255)                                        cTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTg                                                                                       >  2:367634/1‑141 (MQ=255)                                            tGCAGTACTTTTCACAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATAATAGAAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTc                                                                                   <  2:345750/141‑1 (MQ=255)                                             gCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACAtggtgg                                                                                                                         >  2:237741/1‑102 (MQ=255)                                             gCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACAtggtgg                                                                                                                         <  1:237741/102‑1 (MQ=255)                                               aGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTaa                                                                                <  1:368021/141‑1 (MQ=255)                                                        ctcAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATgggg                                                                       >  2:148649/1‑141 (MQ=255)                                                          cagcagATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCa                                                                     >  1:64620/1‑141 (MQ=255)                                                             cagATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATg                                                                  <  1:232876/141‑1 (MQ=255)                                                                   tCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTaaaa                                                            >  1:157754/1‑141 (MQ=255)                                                                                cGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAATCCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACaa                                               <  1:271820/141‑1 (MQ=255)                                                                                  tCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATg                                             >  2:223096/1‑141 (MQ=255)                                                                                   cGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGc                                            <  2:233861/141‑1 (MQ=255)                                                                                      aCAAACGCATCAATCGCATGCCGAGTTTAATTATTAGAGTAAAAAACTATATAGATAGAAGGAAAATAAAAGTTGCGGACAAGGCGGTAAACATGTTTCTAGTAGATGGTACAATGCTAAAAATTGGTATTaggatgaaaa                                         <  2:212942/141‑10 (MQ=255)                                                                                            gCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATc                                   <  2:177281/141‑1 (MQ=255)                                                                                             cATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCa                                  <  2:157754/141‑1 (MQ=255)                                                                                                 aaTCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAat                              >  2:280407/1‑141 (MQ=255)                                                                                                 aaTCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAat                              >  2:42137/1‑141 (MQ=255)                                                                                                     gCATGCCGCAGTTAATTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGc                          >  2:92888/1‑141 (MQ=255)                                                                                                       aTGCCGCAGTCAAGTATTATAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAACATATGCGa                        >  2:83904/1‑141 (MQ=255)                                                                                                                     tattatAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCa          <  1:174258/141‑1 (MQ=255)                                                                                                                     tattatAGTAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCa          <  1:174257/141‑1 (MQ=255)                                                                                                                             tAAAAACCAATATACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAAtt  <  1:162355/141‑1 (MQ=255)                                                                                                                                        |                                                                                                                                  AAATGGAATATAAAAAGATACTAATTCGTTTATTAATTGCTTTTGCAGTACTTTTCTCAGCAGATTTCACTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATT  >  CP000730/2679515‑2679779

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: ‑