Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	2,679,525	G→T	A1074D (GCT→GAT)	yphG ←	DUF4380 domain‑containing TPR repeat protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	2,679,525	0	G	T	100.0%	131.3 / NA	46	A1074D (GCT→GAT)	yphG	DUF4380 domain‑containing TPR repeat protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (27/19);  total (27/19)

GGTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCA  >  NC_000913_3_pae_tpiA/2679382‑2679665                                                                                                                                                |                                                                                                                                             ggTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGa                                                                                                                                         <  1:761820/149‑1 (MQ=255)  gTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCACTCCGGAt                                                                                                                                        >  1:313171/1‑149 (MQ=255)   tttttATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGAtt                                                                                                                                       >  1:840652/1‑149 (MQ=255)         ttaACAACGGCTTATTCTAATTATTTTGTGATGAGCGTCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGCACTAATCGc                                                                                                                                 >  2:217545/1‑149 (MQ=255)          taACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGcc                                                                                                                                <  1:18975/149‑1 (MQ=255)              aacGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGTTTAATCACCGTCa                                                                                                                            >  1:181513/1‑149 (MQ=255)                 ggCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAACAATTAAAGGCATCACTGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCACtt                                                                                                                         >  2:616985/1‑149 (MQ=255)                 ggCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAAtt                                                                                                                         <  1:166578/149‑1 (MQ=255)                    ttATTCTAATTATTTTGTGATGAGCGGCAGCGAGTCTTAGCGAAATATTACAGTTAATAGGGTTTAGTGAACGAGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAg                                                                                                                      >  1:497433/1‑149 (MQ=255)                           aaTTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCAAATCCGGANGNANCNCCGTCAATTCAGCGCGAga                                                                                                               >  1:675623/1‑148 (MQ=255)                            attattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCa                                                                                                              <  1:260767/149‑1 (MQ=255)                             ttattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAg                                                                                                             >  1:927672/1‑149 (MQ=255)                                 tttGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAACGCCATCACGGTGTTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAgcccc                                                                                                         >  2:364712/1‑145 (MQ=255)                                        tgaGCGGCAGCGCGTGCAACCAAAGTATCAGAGTTAATAGGTTTTGGTGAACGCGGTGAAAAATAGAAGGCATCGCGGTGGTGAATAATGCCGCTTTGGGCCAATCCGGCTTAATAGCCGTCAATTCAGCGCGAGCAGACTCCTAttca                                                                                                  >  2:599681/1‑147 (MQ=255)                                              gCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCCCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGAAGACTCATATTGCGCAAcc                                                                                            >  1:118354/1‑149 (MQ=255)                                                     gtgcaccTCAAATACTAAAGTTAATAGGGTTTAAGGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCTGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa                                                                                     <  2:775096/143‑1 (MQ=255)                                                         cGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACCCATATTGCGCAACCTCCCCGAGTcc                                                                                 >  2:852483/1‑149 (MQ=255)                                                            tCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTAAGCGCGAGCAGAGTACTATTGCGCAAACTCTCCGAGTCCcgc                                                                              >  2:74878/1‑149 (MQ=255)                                                                       aGTTAATAGGGTGTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCATGCGGCCAATCCGGATAAATCGCCGGCAATTCATCGCGAGCAGACCCGTATTGCGCAACCCCAACGAGTCCCGCCGACGCCaccc                                                                   >  2:302315/1‑146 (MQ=255)                                                                        gTTAATAGGGTTTAGTGAACGCGGGTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCAt                                                                  >  1:148352/1‑149 (MQ=255)                                                                         ttAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATATTGCCGCTTTCGGCCAGTCCGGATTAATCGCCGTCAATGCAGCGCGAGCCGCCTCATATTGCGCAGCCTCCCCGAGTCCCGCGGCCGCCGGCATc                                                                 >  1:511272/1‑149 (MQ=255)                                                                         ttAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGGGAATCCTAATTAATCGCGGTCAATTCAGCGCGGGCAGACTCATATTGAGCAACCTCCCCGAGTCCCGCGGACGCCAGCATc                                                                 >  2:619473/1‑149 (MQ=255)                                                                              aGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGccac                                                            <  2:850880/149‑1 (MQ=255)                                                                                  tttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATc                                                        >  1:81362/1‑149 (MQ=255)                                                                                   ttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACTTTCACGAGTGCCGCGGATGCAAGAATCGCACCCATCa                                                       <  2:600606/149‑1 (MQ=255)                                                                                   ttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCa                                                       <  2:640542/149‑1 (MQ=255)                                                                                        gAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCAt                                                  <  1:546866/149‑1 (MQ=255)                                                                                             cgattAAAAATAAAAGCCATTACGGTGGTGAATAATGCCTCTTTCGGCCAATCCGGATTAATCGCCGTCAATTAAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTc                                             <  2:887215/146‑1 (MQ=255)                                                                                                           aGGCATCACGGGGGTGAATAATGCCGCTTTCGGCCAATCCAGATTAAGCGCCGTCAATTCAGCGCGAGCATACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgtt                               <  1:25130/149‑1 (MQ=255)                                                                                                              cATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGGCCCGCGGACGCCAGCGTCGCCACAATCAGGCATTTTTCTTTATgctgctactatc                            >  1:321351/1‑143 (MQ=255)                                                                                                                  aCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGGGCCACCTCCCCGAGTCCCGCGTACGCCAGCATCCCCACCATCAGGCCTTTTTCTTTATGCTGCTGTTTTaaact                        >  2:618812/1‑147 (MQ=255)                                                                                                                  aCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATc                        <  1:90357/149‑1 (MQ=255)                                                                                                                    ggtggtGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGc                      <  1:469372/149‑1 (MQ=255)                                                                                                                     gtggtgAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGcc                     <  2:840652/149‑1 (MQ=255)                                                                                                                          gAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACa                >  2:571952/1‑149 (MQ=255)                                                                                                                            ataatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGc              >  1:779471/1‑149 (MQ=255)                                                                                                                             taatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCTTTCGTCTTGGTTGTGCTGTTGTAAATCGCCATACAGCg             >  1:786117/1‑149 (MQ=255)                                                                                                                              aagtccGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGATTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGa            <  2:821590/145‑1 (MQ=255)                                                                                                                               atGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGac           >  1:309742/1‑149 (MQ=255)                                                                                                                               atGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATCCTGCTGTTGTAACTCGCCATACAGCGac           >  2:799463/1‑149 (MQ=255)                                                                                                                                 gCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaa         <  1:74878/149‑1 (MQ=255)                                                                                                                                  ccGCTTTCTGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaac        <  1:871251/149‑1 (MQ=255)                                                                                                                                   cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTgc                                                                                                  >  2:571542/1‑58 (MQ=255)                                                                                                                                   cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTgc                                                                                                  <  1:571542/58‑1 (MQ=255)                                                                                                                                   cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaaca       >  1:977009/1‑149 (MQ=255)                                                                                                                                        tggtccAATCGGGATTGATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCATCCTCCCCGAGTCCCGCGGACGCCAGCATAGCCACCATCAGGCAGTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCa  <  2:675623/145‑1 (MQ=255)                                                                                                                                                |                                                                                                                                             GGTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCA  >  NC_000913_3_pae_tpiA/2679382‑2679665

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑