Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,558,577	C→A	A110A (GCG→GCT)	unknown ←	Phosphoglycerate transport system transcriptional regulatory protein PgtA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,558,577	0	C	A	100.0%	82.6 / NA	30	A110A (GCG→GCT)	unknown	Phosphoglycerate transport system transcriptional regulatory protein PgtA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (23/7);  total (23/7)

AAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTCGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAGGGGAAACCGGTTTTTCAAAGAAATTTG  >  1/1558349‑1558815                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                               aaGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTg                                                                                                                                                                                                                           >  1:253250/1‑250 (MQ=255)      cTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAAtc                                                                                                                                                                                                                     <  1:705590/251‑1 (MQ=255)                               gAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAAc                                                                                                                                                                                                    <  1:149387/243‑1 (MQ=255)                                                                         ttgttCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTaa                                                                                                                                                  >  1:437030/1‑251 (MQ=255)                                                                                      ggAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACActgc                                                                                                                                      <  1:152808/250‑1 (MQ=255)                                                                                          gATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAAtc                                                                                                                                                                                                                     <  1:543309/167‑1 (MQ=255)                                                                                           aTAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCaa                                                                                                                                >  1:816438/1‑251 (MQ=255)                                                                                               tGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGtt                                                                                                                                                                 >  1:1020/1‑214 (MQ=255)                                                                                                                                             gCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTg                                                                                                                                                                   >  1:501848/1‑166 (MQ=255)                                                                                                                                             gCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCAc                                                                               >  1:804040/1‑250 (MQ=255)                                                                                                                                                cAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGAt                                                                                                                                                                                            >  1:644087/1‑138 (MQ=255)                                                                                                                                                cAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATaaaaa                                                                                                                          >  1:321912/1‑204 (MQ=255)                                                                                                                                                cAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCttt                                                                           >  1:265934/1‑251 (MQ=255)                                                                                                                                                  ataataTTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGgcgc                                                                                          <  1:549702/234‑1 (MQ=255)                                                                                                                                                     atattaatattaTCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTaa                                                                                                                                                                      >  1:736996/1‑155 (MQ=255)                                                                                                                                                     atattaatattaTCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCg                                                                      >  1:4846/1‑251 (MQ=255)                                                                                                                                                      tattaatattaTCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGt                                                                                                                       >  1:674002/1‑201 (MQ=255)                                                                                                                                                            tattatCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGttttttt                                                               >  1:486550/1‑251 (MQ=255)                                                                                                                                                              ttatCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTaa                                                             >  1:13341/1‑251 (MQ=255)                                                                                                                                                                atCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAg                                                           <  1:804716/251‑1 (MQ=255)                                                                                                                                                                        gtgtACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATg                                                                                                                                                                                                                                     >  1:653540/1‑73 (MQ=255)                                                                                                                                                                        gtgtACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCg                                                   >  1:684796/1‑251 (MQ=255)                                                                                                                                                                                tCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAAt                                           <  1:221647/251‑1 (MQ=255)                                                                                                                                                                                 cATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATa                                          >  1:811868/1‑251 (MQ=255)                                                                                                                                                                                                gTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAggg                           >  1:646543/1‑251 (MQ=255)                                                                                                                                                                                                               cGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAGGGGAAACCGGTTTTTCa            >  1:459518/1‑251 (MQ=255)                                                                                                                                                                                                               cGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAGGGGAAACCGGTTTTTCa            >  1:290842/1‑251 (MQ=255)                                                                                                                                                                                                                         aTGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAGGGGAAACCGGTTTTTCAAAGAAATTTg  >  1:709721/1‑251 (MQ=255)                                                                                                                                                                                                                         aTGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAGGGGAAACCGGTTTTTCAAAGAAATTTg  >  1:323353/1‑251 (MQ=255)                                                                                                                                                                                                                              gATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATcc                                                                                                                                               >  1:95139/1‑105 (MQ=255)                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                               AAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTCGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAATAAAAACGTCATTAATTTTTTCCATTTGCCATTGGCGCTTTTCAATCACCTTTTTCCGTTTTTTTAAAGCGTTATCGACTTGAATAAGTAATTTTTCAGGGGAAACCGGTTTTTCAAAGAAATTTG  >  1/1558349‑1558815

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑