Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,187,486	T→G	K144T (AAA→ACA)	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	1,187,486	0	T	G	100.0%	63.3 / NA	23	K144T (AAA→ACA)	unknown	Phosphoglycerate transport system transcriptional regulatory protein PgtA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (15/8);  total (15/8)

AAATATCTGCCACATCAGTGATATGTTTACGTAACGGCAGCATTTCAATTTGAGTATAAATAAAAAAATAATAAAACTCGGCACTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTTTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAA  >  1/1187247‑1187699                                                                                                                                                                                                                                                |                                                                                                                                                                                                                      aaaTATCTGCCACATCAGTGATATGTTTACGTAACGGCAGCATTTCAATTTGAGTATAAATAAAAAAATAATAAAACTCGGCACTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAAtt                                                                                                                                                                                                            <  1:15592/251‑1 (MQ=255)             caTCAGTGATATGTTTACGTAACGGCAGCATTTCAATTTGAGTATAAATAAAAAAATAATAAAACTCGGCACTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGc                                                                                                                                                                                                         >  1:369515/1‑242 (MQ=255)              aTCAGTGATATGTTTACGTAACGGCAGCATTTCAATTTGAGTATAAATAAAAAAATAATAAAACTCGGCACTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAAtaatat                                                                                                                                                                                               <  1:789096/251‑1 (MQ=255)                        tGTTTACGTAACGGCAGCATTTCAATTTGAGTATAAATAAAAAAATAATAAAACTCGGCACTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCaataa                                                                                                                                                                                                  >  1:763249/1‑238 (MQ=255)                                                                                    cTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAg                                                                                                                         >  1:814587/1‑251 (MQ=255)                                                                                      tATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGa                                                                                                                                          <  1:88137/232‑1 (MQ=255)                                                                                                    gAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAAtt                                                                                                                                                                                                            >  1:274912/1‑152 (MQ=255)                                                                                                                 aaGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTg                                                                                             >  1:253250/1‑250 (MQ=255)                                                                                                                   gTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCaataa                                                                                                                                                                                                  >  1:731207/1‑147 (MQ=255)                                                                                                                      cTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAAtt                                                                                                                                                                                                            <  1:415667/134‑1 (MQ=255)                                                                                                                      cTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAAtc                                                                                       <  1:705590/251‑1 (MQ=255)                                                                                                                                               gAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAAc                                                                      <  1:149387/243‑1 (MQ=255)                                                                                                                                                        ctcGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCgg                                                                                                                                                       >  1:277990/1‑153 (MQ=255)                                                                                                                                                                  tgTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGc                                                                                                                           >  1:740536/1‑171 (MQ=255)                                                                                                                                                                   gTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTgtgt                                                                                                                                                                            >  1:193183/1‑121 (MQ=255)                                                                                                                                                                                         ttgttCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTaa                    >  1:437030/1‑251 (MQ=255)                                                                                                                                                                                           gttCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAAtaatattaata                                                                                                                                                                                          >  1:587179/1‑83 (MQ=255)                                                                                                                                                                                                      ggAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACActgc        <  1:152808/250‑1 (MQ=255)                                                                                                                                                                                                         aGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAAtaatat                                                                                                                                                                                               >  1:781965/1‑64 (MQ=255)                                                                                                                                                                                                          gATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGt                                                                                                                   >  1:299606/1‑139 (MQ=255)                                                                                                                                                                                                          gATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAAtc                                                                                       <  1:543309/167‑1 (MQ=255)                                                                                                                                                                                                           aTAATGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCaa  >  1:816438/1‑251 (MQ=255)                                                                                                                                                                                                               tGCACATTCTTAATAATTAAAGTCCCTGATTTTGTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGtt                                   >  1:1020/1‑214 (MQ=255)                                                                                                                                                                                                                                                |                                                                                                                                                                                                                      AAATATCTGCCACATCAGTGATATGTTTACGTAACGGCAGCATTTCAATTTGAGTATAAATAAAAAAATAATAAAACTCGGCACTTATCTGCCGACAGCGAATTAATTCGTTAAGTTCTATATCACTAAGCAAAATTAAACGGAATTGACTCTCGTCATGATGTAAAATCTGAATTAAATATTGTTGTTCTTCAACAGGAAGATAATGCACATTCTTAATAATTAAAGTCCCTGATTTTTTTTCTTTAATTAGCTCAATAATATTAATATTATCATTTTGTGTACATTCATGAAAAACCATCGGTAGTGTTTTTCGATCGCTTAATTTATGCAGATAAGTAGCCGCTAAATGACGACCGGTGCCAATCTCTCCCCAAATAAAAACCGGTAGATTCGAATTGGCCAGCTTCTGTAATTGTTTTTTTAACTCGTTAATCCAAACACTGCTGCCAA  >  1/1187247‑1187699

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑