Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,699,275	C→T	intergenic (‑95/‑80)	malI ← / → malX	DNA‑binding transcriptional repressor MalI/PTS enzyme IIBC component MalX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,699,275	0	C	T	100.0%	75.0 / NA	23	intergenic (‑95/‑80)	malI/malX	DNA‑binding transcriptional repressor MalI/PTS enzyme IIBC component MalX
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/12);  total (11/12)

CACAAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGCCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTCCTG  >  NC_000913/1699028‑1699516                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                  cacaAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTGTTGGCGGTAGCCATGCAGATGACCTACGCCCTGATTATG‑TGACATATAAAACGTTGTACCTTTTATTTATCTTATACCCGCGATTATCGTTGCGTAATGTGATTTATGtctc                                                                                                                                                                                                                                                <  1:362333/251‑1 (MQ=255)  acaAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGAGTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCa                                                                                                                                                                                                                                               <  1:219488/251‑1 (MQ=255)    aaaTCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACt                                                                                                                                                                                                                                             <  1:244218/251‑1 (MQ=255)                            gTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTGTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTAtct                                                                                                                                                                                                                     <  2:83113/251‑1 (MQ=255)                                         ccTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACGCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCGTATACCCGCTATTATCGTTGCGTAATTTGATTTATGTCTCACGAAAATTTGATAAAACGTTTTATCTTCTCGCGCAAtt                                                                                                                                                                                                         <  1:144184/250‑1 (MQ=255)                                                      agaTTCGCCCGTTGCCACTCAACACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCACTGCAGATGACCTACTCCCTGATTATGACAACA‑ATAACAAGATTTACCTTTTATTTATCTTATACCCGATATTATCGTTGCGTCATGTGATTTCTATTTCACTAAAATTTGATAAACCGTTTTATCTTCTCGCGCAATTTATTGAATcc                                                                                                                                                                                               >  2:128878/1‑247 (MQ=255)                                                        aTTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTTATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTg                                                                                                                                                                                         <  2:401262/251‑1 (MQ=255)                                                                                      aCGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCg                                                                                                                                                           >  2:17525/1‑251 (MQ=255)                                                                                             ttACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAAc                                                                                                                                                      >  2:138376/1‑249 (MQ=255)                                                                                              tcccGACACGCCCGCAGCCAGCGCGACATCATGAATGGTTATTTTTTTGGCTGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACa                                                                                                                                                     <  1:145033/247‑1 (MQ=255)                                                                                                             agccagcGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCt                                                                                                                                    <  1:258655/251‑1 (MQ=255)                                                                                                                        catcatGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGttct                                                                                                                         >  1:406205/1‑251 (MQ=255)                                                                                                                                                  gTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATg                                                                                               <  1:364060/251‑1 (MQ=255)                                                                                                                                                            aGATGACCTACTCCCTGCTTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGCAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTgg                                                                                     >  2:265356/1‑251 (MQ=255)                                                                                                                                                                                aTG‑TGCCAGATAAACCGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTCATGTGCTTTATGTCTAACTAAAATTTGACACAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGc                                                                 >  2:175276/1‑251 (MQ=255)                                                                                                                                                                                  g‑tgACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTACTGTGATCTATGTCTCACTAAAATCTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTc                                                                                                                                                                         >  1:376724/1‑145 (MQ=255)                                                                                                                                                                                  g‑tgACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGGGATTGATGTCTCACTAAAATTTGACAAAACGTTTTATCTTCTCGCGCAATTTACTGAAGCCAGATGGTTCTCTACGAAGAGTc                                                                                                                                                                         <  2:376724/145‑1 (MQ=255)                                                                                                                                                                                                cGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCAtt                                                  >  1:336156/1‑251 (MQ=255)                                                                                                                                                                                                      aCCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAg                                             <  1:138376/250‑1 (MQ=255)                                                                                                                                                                                                             atttatCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGTTGTTGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTa                                     <  1:206514/251‑1 (MQ=255)                                                                                                                                                                                                                        aCCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCatgat                          >  1:368900/1‑251 (MQ=255)                                                                                                                                                                                                                        aCCCGCTATTATCGTTGCGTAATGTGATTTATGTCTAACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCatgat                          >  1:212649/1‑251 (MQ=255)                                                                                                                                                                                                                                     gTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTg              >  1:60479/1‑250 (MQ=255)                                                                                                                                                                                                                                                 gATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTCCTg  <  2:406205/250‑1 (MQ=255)                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                  CACAAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATG‑TGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGCCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTCCTG  >  NC_000913/1699028‑1699516

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑