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%	59.6 / NA	17	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 (11/6);  total (11/6)

CACAAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGCCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTCCT  >  NC_000913/1699028‑1699515                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                 cacaAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGtctc                                                                                                                                                                                                                                               <  1:383524/251‑1 (MQ=255)                                                                         aaGCACCAGCTAAACGGTACTTACCGACGCGCCCGCAGCCAGCGCAACATCATGAATGGTTATTGTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCg                                                                                                                                                                       <  2:71132/251‑1 (MQ=255)                                                                           gCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTAGCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGtt                                                                                                                                                                     <  2:134372/251‑1 (MQ=255)                                                                              cctgCGAAACGGTACTTACCGACACGCCCGCAGCCAGCTACACATCATGAATGGTTATTTTTTTGGCGGGAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGAGTTATGTCTCACTAAAATTTGATAAATCGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGATTCGTTTTa                                                                                                                                                                  <  2:362723/248‑1 (MQ=255)                                                                                               aCCGACAAGCCCGCAGCCAGCGCAACATCATGACTGGTTCTTTTTTTGGCGGTCGCCATGCCGCTGACCTACTCCCTGCTTATGTGCCAGCTAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGCGGAGTCGTTTTATGACGGCGAAAACAGc                                                                                                                                                  >  2:56819/1‑250 (MQ=255)                                                                                                             aaccagcGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGTCCTACTCCCTGATTATGTTACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGTCGGCGAAAACAGCACCGAAAGTCACGcg                                                                                                                                   <  2:343992/249‑2 (MQ=255)                                                                                                                           catGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTcc                                                                                                                     >  1:292428/1‑251 (MQ=255)                                                                                                                                            ttGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAAcc                                                                                                    >  1:89771/1‑251 (MQ=255)                                                                                                                                                   tAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGt                                                                                             >  1:245593/1‑251 (MQ=255)                                                                                                                                                      ccATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTAc                                                                                          <  2:451561/251‑1 (MQ=255)                                                                                                                                                           cAGATGACCTACTCCCTGATTATGTGACAGCTAAAACGTTTTACCTTTTATTTATCTTCTACCCGCTATTATCGTTGCGTAATGTGCTTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGCCGCAAACAGCACCGAAAGCCACGCTGTGGGCGTTCTTCCAGCAGTTAGGCAAAAACTTCATGTTACACGTg                                                                                     >  2:305221/1‑251 (MQ=255)                                                                                                                                                                  ccTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGACattat                                                                              <  1:129691/251‑1 (MQ=255)                                                                                                                                                                                ctgtgACAGCTAAAACGATTTCCCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTCCGAGGAGTCGTTTTATGACGGCGAAACCAGCACAGAAAGTCACGCAGTGGGAGTTCTTCCAGCAGTTAAGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGATCTGCGGc                                                                >  2:184545/2‑251 (MQ=255)                                                                                                                                                                                          tAAAACGTTTTACCTTTTATTTCTCTTATACCCGCTATTATAGTTGCGTAATGTGCTTTATGTCTCACTCAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGACGAGTCGTTTTATGACGGCGACAACAGCCCCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCg                                                      >  1:256757/1‑251 (MQ=255)                                                                                                                                                                                                                atCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTagc                                  >  1:266361/1‑249 (MQ=255)                                                                                                                                                                                                                              attctCGTTGCGTAATGTGATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGGTCTTCCAGCAGTTAGGCAAACCCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATa                   >  2:239027/5‑250 (MQ=255)                                                                                                                                                                                                                                             tgtgATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGCTTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGCAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTcc   >  1:197844/1‑251 (MQ=255)                                                                                                                                                                                                                                              gtgATTTATGTCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTCCt  >  1:306074/1‑251 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                 CACAAATCCCAGCTCTTCAATGGCGGCGTTAACGCGTTCTCCTGTGGCGGTAGAGATTCGCCCTTTGCCACTAAGCACCAGCGAAACGGTACTTACCGACACGCCCGCAGCCAGCGCAACATCATGAATGGTTATTTTTTTGGCGGTAGCCATGCAGATGACCTACTCCCTGATTATGTGACAGATAAAACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTTGCGTAATGTGATTTATGCCTCACTAAAATTTGATAAAACGTTTTATCTTCTCGCGCAATTTACTGAATCCAGATTGTTCTCTACGAGGAGTCGTTTTATGACGGCGAAAACAGCACCGAAAGTCACGCTGTGGGAGTTCTTCCAGCAGTTAGGCAAAACCTTCATGTTACCCGTGGCATTATTGTCGTTCTGCGGCATTATGCTCGGCATTGGTAGTTCTCTTAGCAGCCATGATGTCATAACCCTGATCCCGGTCCT  >  NC_000913/1699028‑1699515

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑